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Conserved domains on  [gi|672073624|ref|XP_008767644|]
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ras-related protein Rab-7L1 isoform X2 [Rattus norvegicus]

Protein Classification

P-loop NTPase family protein( domain architecture ID 1562424)

P-loop NTPase (nucleoside triphosphate hydrolase) family protein contains two conserved sequence signatures, the Walker A motif (the P-loop proper) and Walker B motif which bind, respectively, the beta and gamma phosphate moieties of the bound nucleotide (typically ATP or GTP), and a Mg(2+) cation

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
P-loop_NTPase super family cl38936
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ...
1-132 2.47e-66

P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families.


The actual alignment was detected with superfamily member cd04107:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 201  Bit Score: 199.46  E-value: 2.47e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLTLPSGEPVPCLLLANKSDLSP--WAVSRDQIDRFSKENGFTG 78
Cdd:cd04107   66 MTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLLANKCDLKKerLAKDPEQMDQFCKENGFIG 145
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 672073624  79 WTETSVKENKNINEAMRVLVEKMMNNSREDIMSSSTQ--GNYINLQTKPSPGWTCC 132
Cdd:cd04107  146 WFETSAKENINIEEAMRFLVKNILKNDKGLQSPEPDEdnVIDLKQETTTSKSKSCC 201
 
Name Accession Description Interval E-value
Rab32_Rab38 cd04107
Rab GTPase families 18 (Rab18) and 32 (Rab32); Rab38/Rab32 subfamily. Rab32 and Rab38 are ...
1-132 2.47e-66

Rab GTPase families 18 (Rab18) and 32 (Rab32); Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 206692 [Multi-domain]  Cd Length: 201  Bit Score: 199.46  E-value: 2.47e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLTLPSGEPVPCLLLANKSDLSP--WAVSRDQIDRFSKENGFTG 78
Cdd:cd04107   66 MTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLLANKCDLKKerLAKDPEQMDQFCKENGFIG 145
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 672073624  79 WTETSVKENKNINEAMRVLVEKMMNNSREDIMSSSTQ--GNYINLQTKPSPGWTCC 132
Cdd:cd04107  146 WFETSAKENINIEEAMRFLVKNILKNDKGLQSPEPDEdnVIDLKQETTTSKSKSCC 201
RAB smart00175
Rab subfamily of small GTPases; Rab GTPases are implicated in vesicle trafficking.
1-104 3.08e-27

Rab subfamily of small GTPases; Rab GTPases are implicated in vesicle trafficking.


Pssm-ID: 197555 [Multi-domain]  Cd Length: 164  Bit Score: 98.73  E-value: 3.08e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624     1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGFTGW 79
Cdd:smart00175  65 ITSSYYRGAVGALLVYDITNRESFENLENWLKELREY----ASPNVVIMLVGNKSDLeEQRQVSREEAEAFAEEHGLPFF 140
                           90       100
                   ....*....|....*....|....*
gi 672073624    80 tETSVKENKNINEAMRVLVEKMMNN 104
Cdd:smart00175 141 -ETSAKTNTNVEEAFEELAREILKR 164
Ras pfam00071
Ras family; Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop ...
1-103 2.73e-21

Ras family; Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices.


Pssm-ID: 425451 [Multi-domain]  Cd Length: 162  Bit Score: 83.33  E-value: 2.73e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624    1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDLSPW-AVSRDQIDRFSKENGFTgW 79
Cdd:pfam00071  64 LRPLYYRGADGFLLVYDITSRDSFENVKKWVEEILRH----ADENVPIVLVGNKCDLEDQrVVSTEEGEALAKELGLP-F 138
                          90       100
                  ....*....|....*....|....
gi 672073624   80 TETSVKENKNINEAMRVLVEKMMN 103
Cdd:pfam00071 139 METSAKTNENVEEAFEELAREILK 162
PLN03108 PLN03108
Rab family protein; Provisional
1-128 4.37e-13

Rab family protein; Provisional


Pssm-ID: 178655 [Multi-domain]  Cd Length: 210  Bit Score: 63.04  E-value: 4.37e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRW----KQDLDSKLTLpsgepvpcLLLANKSDLS-PWAVSRDQIDRFSKENG 75
Cdd:PLN03108  71 ITRSYYRGAAGALLVYDITRRETFNHLASWledaRQHANANMTI--------MLIGNKCDLAhRRAVSTEEGEQFAKEHG 142
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 672073624  76 FTgWTETSVKENKNINEAMRVLVEKMMNNSREDIMSSSTQGNYINLQTKPSPG 128
Cdd:PLN03108 143 LI-FMEASAKTAQNVEEAFIKTAAKIYKKIQDGVFDVSNESYGIKVGYGAIPG 194
Gem1 COG1100
GTPase SAR1 family domain [General function prediction only];
7-101 1.09e-07

GTPase SAR1 family domain [General function prediction only];


Pssm-ID: 440717 [Multi-domain]  Cd Length: 177  Bit Score: 48.05  E-value: 1.09e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   7 RDASACVIMFDVTNATTFSNSQRWkqdldSKLTLPSGEPVPCLLLANKSDL-SPWAV-SRDQIDRFSKENGFTGWTETSV 84
Cdd:COG1100   78 TGASLYLFVVDGTREETLQSLYEL-----LESLRRLGKKSPIILVLNKIDLyDEEEIeDEERLKEALSEDNIVEVVATSA 152
                         90
                 ....*....|....*..
gi 672073624  85 KENKNINEAMRVLVEKM 101
Cdd:COG1100  153 KTGEGVEELFAALAEIL 169
 
Name Accession Description Interval E-value
Rab32_Rab38 cd04107
Rab GTPase families 18 (Rab18) and 32 (Rab32); Rab38/Rab32 subfamily. Rab32 and Rab38 are ...
1-132 2.47e-66

Rab GTPase families 18 (Rab18) and 32 (Rab32); Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 206692 [Multi-domain]  Cd Length: 201  Bit Score: 199.46  E-value: 2.47e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLTLPSGEPVPCLLLANKSDLSP--WAVSRDQIDRFSKENGFTG 78
Cdd:cd04107   66 MTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLLANKCDLKKerLAKDPEQMDQFCKENGFIG 145
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 672073624  79 WTETSVKENKNINEAMRVLVEKMMNNSREDIMSSSTQ--GNYINLQTKPSPGWTCC 132
Cdd:cd04107  146 WFETSAKENINIEEAMRFLVKNILKNDKGLQSPEPDEdnVIDLKQETTTSKSKSCC 201
RAB smart00175
Rab subfamily of small GTPases; Rab GTPases are implicated in vesicle trafficking.
1-104 3.08e-27

Rab subfamily of small GTPases; Rab GTPases are implicated in vesicle trafficking.


Pssm-ID: 197555 [Multi-domain]  Cd Length: 164  Bit Score: 98.73  E-value: 3.08e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624     1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGFTGW 79
Cdd:smart00175  65 ITSSYYRGAVGALLVYDITNRESFENLENWLKELREY----ASPNVVIMLVGNKSDLeEQRQVSREEAEAFAEEHGLPFF 140
                           90       100
                   ....*....|....*....|....*
gi 672073624    80 tETSVKENKNINEAMRVLVEKMMNN 104
Cdd:smart00175 141 -ETSAKTNTNVEEAFEELAREILKR 164
Rab cd00154
Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Rab GTPases ...
1-99 7.94e-27

Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which mask C-terminal lipid binding and promote cytosolic localization. While most unicellular organisms possess 5-20 Rab members, several have been found to possess 60 or more Rabs; for many of these Rab isoforms, homologous proteins are not found in other organisms. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Since crystal structures often lack C-terminal residues, the lipid modification site is not available for annotation in many of the CDs in the hierarchy, but is included where possible.


Pssm-ID: 206640 [Multi-domain]  Cd Length: 159  Bit Score: 97.53  E-value: 7.94e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGFTgW 79
Cdd:cd00154   65 ITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEY----APPNIPIILVGNKSDLeDERQVSTEEAQQFAKENGLL-F 139
                         90       100
                 ....*....|....*....|
gi 672073624  80 TETSVKENKNINEAMRVLVE 99
Cdd:cd00154  140 FETSAKTGENVDEAFESLAR 159
Ras pfam00071
Ras family; Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop ...
1-103 2.73e-21

Ras family; Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices.


Pssm-ID: 425451 [Multi-domain]  Cd Length: 162  Bit Score: 83.33  E-value: 2.73e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624    1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDLSPW-AVSRDQIDRFSKENGFTgW 79
Cdd:pfam00071  64 LRPLYYRGADGFLLVYDITSRDSFENVKKWVEEILRH----ADENVPIVLVGNKCDLEDQrVVSTEEGEALAKELGLP-F 138
                          90       100
                  ....*....|....*....|....
gi 672073624   80 TETSVKENKNINEAMRVLVEKMMN 103
Cdd:pfam00071 139 METSAKTNENVEEAFEELAREILK 162
Rab5_related cd01860
Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion; The ...
4-92 1.92e-15

Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion; The Rab5-related subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206653 [Multi-domain]  Cd Length: 163  Bit Score: 68.35  E-value: 1.92e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   4 LYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENG--FtgwT 80
Cdd:cd01860   69 MYYRGAAAAIVVYDITSEESFEKAKSWVKELQEH----GPPNIVIALAGNKADLeSKRQVSTEEAQEYADENGllF---M 141
                         90
                 ....*....|..
gi 672073624  81 ETSVKENKNINE 92
Cdd:cd01860  142 ETSAKTGENVNE 153
Rab7 cd01862
Rab GTPase family 7 (Rab7); Rab7 subfamily. Rab7 is a small Rab GTPase that regulates ...
5-107 2.95e-15

Rab GTPase family 7 (Rab7); Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206655 [Multi-domain]  Cd Length: 172  Bit Score: 68.07  E-value: 2.95e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   5 YYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLTLPSGEPVPCLLLANKSDLSPW-AVSRDQIDRFSKENGFTGWTETS 83
Cdd:cd01862   69 FYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEEKrQVSTKKAQQWCKSKGNIPYFETS 148
                         90       100
                 ....*....|....*....|....
gi 672073624  84 VKENKNINEAMRVLVEKMMNNSRE 107
Cdd:cd01862  149 AKEAINVDQAFETIARLALEQEKE 172
Rab12 cd04120
Rab GTPase family 12 (Rab12); Rab12 was first identified in canine cells, where it was ...
1-132 2.16e-14

Rab GTPase family 12 (Rab12); Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 206699 [Multi-domain]  Cd Length: 202  Bit Score: 66.57  E-value: 2.16e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGFTGW 79
Cdd:cd04120   65 ITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKY----ASEDAELLLVGNKLDCeTDREITRQQGEKFAQQITGMRF 140
                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 672073624  80 TETSVKENKNINEAMRVLVEKMMNNSREDIMSSSTQGNYINLQTKPS---------PGWTCC 132
Cdd:cd04120  141 CEASAKDNFNVDEIFLKLVDDILKKMPLDILRNELSNSILSLQPEPEippelppprPHVRCC 202
Rab21 cd04123
Rab GTPase family 21 (Rab21); The localization and function of Rab21 are not clearly defined, ...
4-102 4.38e-14

Rab GTPase family 21 (Rab21); The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133323 [Multi-domain]  Cd Length: 162  Bit Score: 64.55  E-value: 4.38e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   4 LYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLtlpsGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGFTGWtET 82
Cdd:cd04123   68 IYYRDADGAILVYDITDADSFQKVKKWIKELKQMR----GNNISLVIVGNKIDLeRQRVVSKSEAEEYAKSVGAKHF-ET 142
                         90       100
                 ....*....|....*....|
gi 672073624  83 SVKENKNINEAMRVLVEKMM 102
Cdd:cd04123  143 SAKTGKGIEELFLSLAKRMI 162
Rab2 cd01866
Rab GTPase family 2 (Rab2); Rab2 is localized on cis-Golgi membranes and interacts with Golgi ...
1-93 9.07e-14

Rab GTPase family 2 (Rab2); Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206658 [Multi-domain]  Cd Length: 168  Bit Score: 63.98  E-value: 9.07e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGFTgW 79
Cdd:cd01866   69 ITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQH----SNSNMTIMLIGNKCDLeSRREVSYEEGEAFAREHGLI-F 143
                         90
                 ....*....|....
gi 672073624  80 TETSVKENKNINEA 93
Cdd:cd01866  144 METSAKTASNVEEA 157
Rab18 cd01863
Rab GTPase family 18 (Rab18); Rab18 subfamily. Mammalian Rab18 is implicated in endocytic ...
1-100 1.21e-13

Rab GTPase family 18 (Rab18); Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206656 [Multi-domain]  Cd Length: 161  Bit Score: 63.48  E-value: 1.21e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLTLPSgepVPCLLLANKSDLSPWAVSRDQIDRFSKENGFTgWT 80
Cdd:cd01863   65 LTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPD---AVKMLVGNKIDKENREVTREEGQKFARKHNML-FI 140
                         90       100
                 ....*....|....*....|
gi 672073624  81 ETSVKENKNINEAMRVLVEK 100
Cdd:cd01863  141 ETSAKTRIGVQQAFEELVEK 160
Rab6 cd01861
Rab GTPase family 6 (Rab6); Rab6 is involved in microtubule-dependent transport pathways ...
5-95 1.47e-13

Rab GTPase family 6 (Rab6); Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206654 [Multi-domain]  Cd Length: 161  Bit Score: 63.41  E-value: 1.47e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   5 YYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDLSP-WAVSRDQIDRFSKENGfTGWTETS 83
Cdd:cd01861   69 YIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDE----RGNDVIIVLVGNKTDLSDkRQVSTEEGEKKAKENN-AMFIETS 143
                         90
                 ....*....|..
gi 672073624  84 VKENKNINEAMR 95
Cdd:cd01861  144 AKAGHNVKQLFK 155
PLN03108 PLN03108
Rab family protein; Provisional
1-128 4.37e-13

Rab family protein; Provisional


Pssm-ID: 178655 [Multi-domain]  Cd Length: 210  Bit Score: 63.04  E-value: 4.37e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRW----KQDLDSKLTLpsgepvpcLLLANKSDLS-PWAVSRDQIDRFSKENG 75
Cdd:PLN03108  71 ITRSYYRGAAGALLVYDITRRETFNHLASWledaRQHANANMTI--------MLIGNKCDLAhRRAVSTEEGEQFAKEHG 142
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 672073624  76 FTgWTETSVKENKNINEAMRVLVEKMMNNSREDIMSSSTQGNYINLQTKPSPG 128
Cdd:PLN03108 143 LI-FMEASAKTAQNVEEAFIKTAAKIYKKIQDGVFDVSNESYGIKVGYGAIPG 194
RJL cd04119
Rab GTPase family J-like (RabJ-like); RJLs are found in many protists and as chimeras with ...
5-98 5.43e-13

Rab GTPase family J-like (RabJ-like); RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.


Pssm-ID: 133319 [Multi-domain]  Cd Length: 168  Bit Score: 61.99  E-value: 5.43e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   5 YYRDASACVIMFDVTNATTFSNSQRW-KQDLDSKLTLPSGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGFTGWtET 82
Cdd:cd04119   69 FYKDTQGVLLVYDVTDRQSFEALDSWlKEMKQEGGPHGNMENIVVVVCANKIDLtKHRAVSEDEGRLWAESKGFKYF-ET 147
                         90
                 ....*....|....*.
gi 672073624  83 SVKENKNINEAMRVLV 98
Cdd:cd04119  148 SACTGEGVNEMFQTLF 163
Rab1_Ypt1 cd01869
Rab GTPase family 1 includes the yeast homolog Ypt1; Rab1/Ypt1 subfamily. Rab1 is found in ...
1-93 5.90e-12

Rab GTPase family 1 includes the yeast homolog Ypt1; Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206661 [Multi-domain]  Cd Length: 166  Bit Score: 59.26  E-value: 5.90e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGfTGW 79
Cdd:cd01869   67 ITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRY----ASENVNKLLVGNKCDLtDKKVVDYTEAKEFADELG-IPF 141
                         90
                 ....*....|....
gi 672073624  80 TETSVKENKNINEA 93
Cdd:cd01869  142 LETSAKNATNVEEA 155
Ras cd00876
Rat sarcoma (Ras) family of small guanosine triphosphatases (GTPases); The Ras family of the ...
1-98 1.37e-11

Rat sarcoma (Ras) family of small guanosine triphosphatases (GTPases); The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206642 [Multi-domain]  Cd Length: 160  Bit Score: 58.31  E-value: 1.37e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLdskLTLPSGEPVPCLLLANKSDLSPW-AVSRDQIDRFSKENGfTGW 79
Cdd:cd00876   63 MRDQYIRNGDGFILVYSITSRESFEEIKNIREQI---LRVKDKEDVPIVLVGNKCDLENErQVSTEEGEALAEEWG-CPF 138
                         90
                 ....*....|....*....
gi 672073624  80 TETSVKENKNINEAMRVLV 98
Cdd:cd00876  139 LETSAKTNINIDELFNTLV 157
Rab8_Rab10_Rab13_like cd01867
Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13); Rab8/Sec4/Ypt2 are known or suspected to ...
2-93 1.94e-11

Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13); Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206659 [Multi-domain]  Cd Length: 167  Bit Score: 58.05  E-value: 1.94e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   2 TRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDLSP-WAVSRDQIDRFSKENGFtGWT 80
Cdd:cd01867   69 TTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEH----ASEDVERMLVGNKCDMEEkRVVSKEEGEALAREYGI-KFL 143
                         90
                 ....*....|...
gi 672073624  81 ETSVKENKNINEA 93
Cdd:cd01867  144 ETSAKANINVEEA 156
Rab19 cd01864
Rab GTPase family 19 (Rab19); Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. ...
1-97 2.13e-11

Rab GTPase family 19 (Rab19); Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet characterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133267 [Multi-domain]  Cd Length: 165  Bit Score: 57.83  E-value: 2.13e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLdSKLTLPSgepVPCLLLANKSDLSPW-AVSRDQIDRFSKENGFTGW 79
Cdd:cd01864   68 ITQSYYRSANGAIIAYDITRRSSFESVPHWIEEV-EKYGASN---VVLLLIGNKCDLEEQrEVLFEEACTLAEHYGILAV 143
                         90
                 ....*....|....*...
gi 672073624  80 TETSVKENKNINEAMRVL 97
Cdd:cd01864  144 LETSAKESSNVEEAFLLM 161
Rab11_like cd01868
Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25; Rab11a, Rab11b, and ...
2-100 2.58e-11

Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25; Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206660 [Multi-domain]  Cd Length: 165  Bit Score: 57.57  E-value: 2.58e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   2 TRLYYRDASACVIMFDVTNATTFSNSQRWKQDL----DSKLTLpsgepvpcLLLANKSDLSPW-AVSRDQIDRFSKENGF 76
Cdd:cd01868   69 TSAYYRGAVGALLVYDITKKSTFENVERWLKELrdhaDSNIVI--------MLVGNKSDLRHLrAVPTEEAKAFAEKNGL 140
                         90       100
                 ....*....|....*....|....
gi 672073624  77 tGWTETSVKENKNINEAMRVLVEK 100
Cdd:cd01868  141 -SFIETSALDGTNVEEAFKQLLTE 163
Rab26 cd04112
Rab GTPase family 26 (Rab26); Rab26 subfamily. First identified in rat pancreatic acinar cells, ...
1-132 3.82e-11

Rab GTPase family 26 (Rab26); Rab26 subfamily. First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 206695 [Multi-domain]  Cd Length: 191  Bit Score: 57.57  E-value: 3.82e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWkqdLDSKLTLPSGEPVpCLLLANKSDLSPW-AVSRDQIDRFSKENGFTgW 79
Cdd:cd04112   66 VTHAYYRDAHALLLLYDVTNKSSFDNIRAW---LTEILEYAQSDVV-IMLLGNKADMSGErVVKREDGERLAKEYGVP-F 140
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 672073624  80 TETSVKENKNINEAMRVLVEKMMNNSREDIMSSSTQ-GNYINLQTKPSpgwTCC 132
Cdd:cd04112  141 METSAKTGLNVELAFTAVAKELKHRSVEQPDEPKFKiQDYVEKQKKSS---GCC 191
Rab14 cd04122
Rab GTPase family 14 (Rab14); Rab14 GTPases are localized to biosynthetic compartments, ...
1-104 1.40e-09

Rab GTPase family 14 (Rab14); Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133322 [Multi-domain]  Cd Length: 166  Bit Score: 52.92  E-value: 1.40e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSkLTLPSgepVPCLLLANKSDL-SPWAVSRDQIDRFSKENGFTgW 79
Cdd:cd04122   67 VTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARN-LTNPN---TVIFLIGNKADLeAQRDVTYEEAKQFADENGLL-F 141
                         90       100
                 ....*....|....*....|....*
gi 672073624  80 TETSVKENKNINEAMRVLVEKMMNN 104
Cdd:cd04122  142 LECSAKTGENVEDAFLETAKKIYQN 166
Rab4 cd04113
Rab GTPase family 4 (Rab4); Rab4 subfamily. Rab4 has been implicated in numerous functions ...
1-93 1.79e-09

Rab GTPase family 4 (Rab4); Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206696 [Multi-domain]  Cd Length: 161  Bit Score: 52.44  E-value: 1.79e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSkLTLPSgepVPCLLLANKSDLSP-WAVSRDQIDRFSKENGFTgW 79
Cdd:cd04113   65 VTRSYYRGAAGALLVYDITSRESFNALTNWLTDART-LASPD---IVIILVGNKKDLEDdREVTFLEASRFAQENGLL-F 139
                         90
                 ....*....|....
gi 672073624  80 TETSVKENKNINEA 93
Cdd:cd04113  140 LETSALTGENVEEA 153
PLN03110 PLN03110
Rab GTPase; Provisional
1-132 3.30e-09

Rab GTPase; Provisional


Pssm-ID: 178657 [Multi-domain]  Cd Length: 216  Bit Score: 52.62  E-value: 3.30e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDL----DSKLTLpsgepvpcLLLANKSDLSPW-AVSRDQIDRFSKENG 75
Cdd:PLN03110  77 ITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELrdhaDSNIVI--------MMAGNKSDLNHLrSVAEEDGQALAEKEG 148
                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 672073624  76 FTgWTETSVKENKNINEAMRV-------LVEKMMNNSREDIMSS--STQGNYINLQTKPSPG-WTCC 132
Cdd:PLN03110 149 LS-FLETSALEATNVEKAFQTilleiyhIISKKALAAQEAAANSglPGQGTTINVADTSGNNkRGCC 214
Rab39 cd04111
Rab GTPase family 39 (Rab39); Found in eukaryotes, Rab39 is mainly found in epithelial cell ...
1-106 4.34e-09

Rab GTPase family 39 (Rab39); Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 133311 [Multi-domain]  Cd Length: 211  Bit Score: 52.45  E-value: 4.34e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLtLPSgEPVpCLLLANKSDL-SPWAVSRDQIDRFSKENGfTGW 79
Cdd:cd04111   68 ITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHI-QPH-RPV-FILVGHKCDLeSQRQVTREEAEKLAKDLG-MKY 143
                         90       100
                 ....*....|....*....|....*..
gi 672073624  80 TETSVKENKNINEAMRVLVEKMMNNSR 106
Cdd:cd04111  144 IETSARTGDNVEEAFELLTQEIYERIK 170
Rab35 cd04110
Rab GTPase family 35 (Rab35); Rab35 is one of several Rab proteins to be found to participate ...
1-132 5.22e-09

Rab GTPase family 35 (Rab35); Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 133310 [Multi-domain]  Cd Length: 199  Bit Score: 51.78  E-value: 5.22e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLtlpsgEPVPCLLLANKSDlSP--WAVSRDQIDRFSKENGFTg 78
Cdd:cd04110   71 ITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNC-----DDVCKVLVGNKND-DPerKVVETEDAYKFAGQMGIS- 143
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 672073624  79 WTETSVKENKNINEAMRVLVEKMMNNSREDIMSSSTQG-NYINLQTKPSPGWTCC 132
Cdd:cd04110  144 LFETSAKENINVEEMFNCITELVLRAKKDNLAKQQQQQqNDVVKLPKNSKRKKRC 198
Rab9 cd04116
Rab GTPase family 9 (Rab9); Rab9 is found in late endosomes, together with mannose 6-phosphate ...
5-93 1.10e-08

Rab GTPase family 9 (Rab9); Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206697 [Multi-domain]  Cd Length: 170  Bit Score: 50.64  E-value: 1.10e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   5 YYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLTLPSGEPVPCLLLANKSDLSPWAVSRDQIDRFSKENGFTGWTETSV 84
Cdd:cd04116   74 FYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIPERQVSTEEAQAWCRDNGDYPYFETSA 153

                 ....*....
gi 672073624  85 KENKNINEA 93
Cdd:cd04116  154 KDATNVAAA 162
PLN03118 PLN03118
Rab family protein; Provisional
1-132 1.17e-08

Rab family protein; Provisional


Pssm-ID: 215587 [Multi-domain]  Cd Length: 211  Bit Score: 51.21  E-value: 1.17e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSN-SQRWKQDLDSKLTlpsGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGFTg 78
Cdd:PLN03118  78 LTSSYYRNAQGIILVYDVTRRETFTNlSDVWGKEVELYST---NQDCVKMLVGNKVDReSERDVSREEGMALAKEHGCL- 153
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 672073624  79 WTETSVKENKNINEAMRVLVEKMMN-NSREDIMSSSTQGNYINL--QTKPSPGWTCC 132
Cdd:PLN03118 154 FLECSAKTRENVEQCFEELALKIMEvPSLLEEGSTAVKRNILKQkpEHQPPPNGGCC 210
RabL2 cd04124
Rab GTPase-like family 2 (Rab-like2); RabL2 (Rab-like2) subfamily. RabL2s are novel Rab ...
5-59 2.14e-08

Rab GTPase-like family 2 (Rab-like2); RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share > 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.


Pssm-ID: 133324 [Multi-domain]  Cd Length: 161  Bit Score: 49.86  E-value: 2.14e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 672073624   5 YYRDASACVIMFDVTNATTFSNSQRWKQDLDSkltlpSGEPVPCLLLANKSDLSP 59
Cdd:cd04124   69 YYHKAHACILVFDVTRKITYKNLSKWYEELRE-----YRPEIPCIVVANKIDLDP 118
Roc pfam08477
Ras of Complex, Roc, domain of DAPkinase; Roc, or Ras of Complex, proteins are mitochondrial ...
1-56 2.17e-08

Ras of Complex, Roc, domain of DAPkinase; Roc, or Ras of Complex, proteins are mitochondrial Rho proteins (Miro-1, and Miro-2) and atypical Rho GTPases. Full-length proteins have a unique domain organization, with tandem GTP-binding domains and two EF hand domains (pfam00036) that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis.


Pssm-ID: 462490 [Multi-domain]  Cd Length: 114  Bit Score: 48.66  E-value: 2.17e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 672073624    1 MTRLYYRDASACVIMFDvtnATTFSNSQRWKQDLDSkltlpSGEPVPCLLLANKSD 56
Cdd:pfam08477  67 LHPFYYRGAAAALLVYD---SRTFSNLKYWLRELKK-----YAGNSPVILVGNKID 114
Ran cd00877
Ras-related nuclear proteins (Ran)/TC4 family of small GTPases; Ran GTPase is involved in ...
5-104 2.68e-08

Ras-related nuclear proteins (Ran)/TC4 family of small GTPases; Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is bound to chromatin and confined to the nucleus. Ran itself is mobile and is actively imported into the nucleus by a mechanism involving NTF-2. Together with the compartmentalization of its regulators, this is thought to produce a relatively high concentration of RanGTP in the nucleus.


Pssm-ID: 206643 [Multi-domain]  Cd Length: 166  Bit Score: 49.61  E-value: 2.68e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   5 YYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLtlpsgEPVPCLLLANKSDLSPWAVSRDQIDRFSKENgfTGWTETSV 84
Cdd:cd00877   69 YYIQGQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-----ENIPIVLCGNKVDIKDRKVKPKQITFHRKKN--LQYYEISA 141
                         90       100
                 ....*....|....*....|
gi 672073624  85 KENKNINEAMRVLVEKMMNN 104
Cdd:cd00877  142 KSNYNFEKPFLWLARKLLGN 161
Rab3 cd01865
Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D; The Rab3 subfamily contains Rab3A, ...
1-99 4.36e-08

Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D; The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206657 [Multi-domain]  Cd Length: 165  Bit Score: 49.14  E-value: 4.36e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKqdldSKLTLPSGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGFTgW 79
Cdd:cd01865   66 ITTAYYRGAMGFILMYDITNEESFNAVQDWS----TQIKTYSWDNAQVILVGNKCDMeDERVVSAERGRQLADQLGFE-F 140
                         90       100
                 ....*....|....*....|
gi 672073624  80 TETSVKENKNINEAMRVLVE 99
Cdd:cd01865  141 FEASAKENINVKQVFERLVD 160
RAS smart00173
Ras subfamily of RAS small GTPases; Similar in fold and function to the bacterial EF-Tu GTPase. ...
1-98 5.93e-08

Ras subfamily of RAS small GTPases; Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades


Pssm-ID: 214541 [Multi-domain]  Cd Length: 164  Bit Score: 48.71  E-value: 5.93e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624     1 MTRLYYRDASACVIMFDVTNATTFSNSQRWK-QDLDSKLTlpsgEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGfTG 78
Cdd:smart00173  64 MRDQYMRTGEGFLLVYSITDRQSFEEIKKFReQILRVKDR----DDVPIVLVGNKCDLeSERVVSTEEGKELARQWG-CP 138
                           90       100
                   ....*....|....*....|
gi 672073624    79 WTETSVKENKNINEAMRVLV 98
Cdd:smart00173 139 FLETSAKERVNVDEAFYDLV 158
small_GTPase smart00010
Small GTPase of the Ras superfamily; ill-defined subfamily; SMART predicts Ras-like small ...
1-98 6.26e-08

Small GTPase of the Ras superfamily; ill-defined subfamily; SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.


Pssm-ID: 197466 [Multi-domain]  Cd Length: 166  Bit Score: 48.33  E-value: 6.26e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624     1 MTRLYYRDASACVIMFDVTNATTFSNSQRWK-QDLDSKLTlpsgEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGfTG 78
Cdd:smart00010  66 MRDQYMRTGEGFLLVYSITDRQSFEEIAKFReQILRVKDR----DDVPIVLVGNKCDLeNERVVSTEEGKELARQWG-CP 140
                           90       100
                   ....*....|....*....|
gi 672073624    79 WTETSVKENKNINEAMRVLV 98
Cdd:smart00010 141 FLETSAKERINVDEAFYDLV 160
Ras_like_GTPase cd00882
Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like ...
1-99 8.16e-08

Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions.


Pssm-ID: 206648 [Multi-domain]  Cd Length: 161  Bit Score: 48.22  E-value: 8.16e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFsnsQRWKQDLDSKLtlpSGEPVPCLLLANKSDLSPwAVSRDQIDRFSKENGFTGWT 80
Cdd:cd00882   68 LARLLLRGADLILLVVDSTDRESE---EDAKLLILRRL---RKEGIPIILVGNKIDLLE-EREVEELLRLEELAKILGVP 140
                         90       100
                 ....*....|....*....|.
gi 672073624  81 --ETSVKENKNINEAMRVLVE 99
Cdd:cd00882  141 vfEVSAKTGEGVDELFEKLIE 161
PTZ00132 PTZ00132
GTP-binding nuclear protein Ran; Provisional
5-104 9.03e-08

GTP-binding nuclear protein Ran; Provisional


Pssm-ID: 240284 [Multi-domain]  Cd Length: 215  Bit Score: 48.54  E-value: 9.03e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   5 YYRDASACVIMFDVTNATTFSNSQRWKQDLdskltLPSGEPVPCLLLANKSDLSPWAVSRDQIDRFSKENgfTGWTETSV 84
Cdd:PTZ00132  78 YYIKGQCAIIMFDVTSRITYKNVPNWHRDI-----VRVCENIPIVLVGNKVDVKDRQVKARQITFHRKKN--LQYYDISA 150
                         90       100
                 ....*....|....*....|
gi 672073624  85 KENKNINEAMRVLVEKMMNN 104
Cdd:PTZ00132 151 KSNYNFEKPFLWLARRLTND 170
RabL4 cd04101
Rab GTPase-like family 4 (Rab-like4); RabL4 (Rab-like4) subfamily. RabL4s are novel proteins ...
1-92 1.01e-07

Rab GTPase-like family 4 (Rab-like4); RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.


Pssm-ID: 206688 [Multi-domain]  Cd Length: 167  Bit Score: 47.91  E-value: 1.01e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWkqdLDSKLTLPSGEPVPCLLLANKSDLSPWA-VSRDQIDRFSKENGFTgW 79
Cdd:cd04101   69 MVENVWEQPAVVCVVYDVTNEVSFNNCSRW---INRVRTHSHGLHTPGVLVGNKCDLTDRReVDAAQAQALAQANTLK-F 144
                         90
                 ....*....|...
gi 672073624  80 TETSVKENKNINE 92
Cdd:cd04101  145 YETSAKEGVGYEA 157
Gem1 COG1100
GTPase SAR1 family domain [General function prediction only];
7-101 1.09e-07

GTPase SAR1 family domain [General function prediction only];


Pssm-ID: 440717 [Multi-domain]  Cd Length: 177  Bit Score: 48.05  E-value: 1.09e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   7 RDASACVIMFDVTNATTFSNSQRWkqdldSKLTLPSGEPVPCLLLANKSDL-SPWAV-SRDQIDRFSKENGFTGWTETSV 84
Cdd:COG1100   78 TGASLYLFVVDGTREETLQSLYEL-----LESLRRLGKKSPIILVLNKIDLyDEEEIeDEERLKEALSEDNIVEVVATSA 152
                         90
                 ....*....|....*..
gi 672073624  85 KENKNINEAMRVLVEKM 101
Cdd:COG1100  153 KTGEGVEELFAALAEIL 169
RAN smart00176
Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases; Ran is involved in the ...
5-104 1.42e-07

Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases; Ran is involved in the active transport of proteins through nuclear pores.


Pssm-ID: 128473 [Multi-domain]  Cd Length: 200  Bit Score: 48.08  E-value: 1.42e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624     5 YYRDASACVIMFDVTNATTFSNSQRWKQDLdskltLPSGEPVPCLLLANKSDLSPWAVSRDQIDRFSKENgfTGWTETSV 84
Cdd:smart00176  64 YYIQGQCAIIMFDVTARVTYKNVPNWHRDL-----VRVCENIPIVLCGNKVDVKDRKVKAKSITFHRKKN--LQYYDISA 136
                           90       100
                   ....*....|....*....|
gi 672073624    85 KENKNINEAMRVLVEKMMNN 104
Cdd:smart00176 137 KSNYNFEKPFLWLARKLIGD 156
Rap2 cd04176
Rap2 family GTPase consists of Rap2a, Rap2b, and Rap2c; The Rap2 subgroup is part of the Rap ...
1-101 1.57e-07

Rap2 family GTPase consists of Rap2a, Rap2b, and Rap2c; The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, including the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133376 [Multi-domain]  Cd Length: 163  Bit Score: 47.52  E-value: 1.57e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKqdlDSKLTLPSGEPVPCLLLANKSDLSpwavSRDQIDRFSKENGFTGW- 79
Cdd:cd04176   65 MRDLYIKNGQGFIVVYSLVNQQTFQDIKPMR---DQIVRVKGYEKVPIILVGNKVDLE----SEREVSSAEGRALAEEWg 137
                         90       100
                 ....*....|....*....|....*
gi 672073624  80 ---TETSVKENKNINEAMRVLVEKM 101
Cdd:cd04176  138 cpfMETSAKSKTMVNELFAEIVRQM 162
Rab27A cd04127
Rab GTPase family 27a (Rab27a); The Rab27a subfamily consists of Rab27a and its highly ...
1-102 1.76e-07

Rab GTPase family 27a (Rab27a); The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated insulin secretion, making it a potential target for diabetes therapy. When bound to JFC1 in prostate cells, Rab27a is believed to regulate the exocytosis of prostate- specific markers. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206700 [Multi-domain]  Cd Length: 180  Bit Score: 47.49  E-value: 1.76e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLTLPSGEPVPClllANKSDLSPW-AVSRDQIDRFSKENGFTgW 79
Cdd:cd04127   79 LTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCENPDIVLI---GNKADLPDQrEVSERQARELADKYGIP-Y 154
                         90       100
                 ....*....|....*....|...
gi 672073624  80 TETSVKENKNINEAMRVLVEKMM 102
Cdd:cd04127  155 FETSAATGQNVEKAVETLLDLIM 177
Rab15 cd04117
Rab GTPase family 15 (Rab15); Rab15 colocalizes with the transferrin receptor in early ...
1-104 2.31e-07

Rab GTPase family 15 (Rab15); Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206698 [Multi-domain]  Cd Length: 164  Bit Score: 46.89  E-value: 2.31e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGFTgW 79
Cdd:cd04117   65 ITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEY----APEGVQKILIGNKADEeQKRQVGDEQGNKLAKEYGMD-F 139
                         90       100
                 ....*....|....*....|....*
gi 672073624  80 TETSVKENKNINEAMRVLVEKMMNN 104
Cdd:cd04117  140 FETSACTNKNIKESFTRLTELVLQA 164
PTZ00099 PTZ00099
rab6; Provisional
5-122 3.48e-07

rab6; Provisional


Pssm-ID: 185444 [Multi-domain]  Cd Length: 176  Bit Score: 46.66  E-value: 3.48e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   5 YYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDLSpwavsrdQIDRFSKENGF-------T 77
Cdd:PTZ00099  49 YIRDSAAAIVVYDITNRQSFENTTKWIQDILNE----RGKDVIIALVGNKTDLG-------DLRKVTYEEGMqkaqeynT 117
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 672073624  78 GWTETSVKENKNINEAMRVLVEKMMNNSRedimSSSTQGNYINLQ 122
Cdd:PTZ00099 118 MFHETSAKAGHNIKVLFKKIAAKLPNLDN----SNSNDANVVDIQ 158
Rab23_like cd04106
Rab GTPase family 23 (Rab23)-like; Rab23-like subfamily. Rab23 is a member of the Rab family ...
1-100 3.86e-07

Rab GTPase family 23 (Rab23)-like; Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signaling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133306 [Multi-domain]  Cd Length: 162  Bit Score: 46.28  E-value: 3.86e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLtlpsGEpVPCLLLANKSDLSPWA-VSRDQIDRFSKENGFTgW 79
Cdd:cd04106   67 ITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAEC----GD-IPMVLVQTKIDLLDQAvITNEEAEALAKRLQLP-L 140
                         90       100
                 ....*....|....*....|.
gi 672073624  80 TETSVKENKNINEAMRVLVEK 100
Cdd:cd04106  141 FRTSVKDDFNVTELFEYLAEK 161
Rab24 cd04118
Rab GTPase family 24 (Rab24); Rab24 is distinct from other Rabs in several ways. It exists ...
1-132 4.36e-07

Rab GTPase family 24 (Rab24); Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 133318 [Multi-domain]  Cd Length: 193  Bit Score: 46.78  E-value: 4.36e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSkltlpSGEPVPCLLLANKSDLSPWAVSRDQID-----RFSKENG 75
Cdd:cd04118   66 MSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQN-----LEEHCKIYLCGTKSDLIEQDRSLRQVDfhdvqDFADEIK 140
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 672073624  76 FTGWtETSVKENKNINEAMRVLVEKMMNNSREDIMSSstqgNYINLQTKPSPG-WTCC 132
Cdd:cd04118  141 AQHF-ETSSKTGQNVDELFQKVAEDFVSRANNQMNTE----KGVDLGQKKNSYfYSCC 193
Rab33B_Rab33A cd04115
Rab GTPase family 33 includes Rab33A and Rab33B; Rab33B/Rab33A subfamily. Rab33B is ...
1-90 5.55e-07

Rab GTPase family 33 includes Rab33A and Rab33B; Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133315 [Multi-domain]  Cd Length: 170  Bit Score: 45.89  E-value: 5.55e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLtLPSgePVPCLLLANKSDLSPWA-VSRDQIDRFSKENGFTGW 79
Cdd:cd04115   68 MVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHS-LPN--EVPRILVGNKCDLREQIqVPTDLAQRFADAHSMPLF 144
                         90
                 ....*....|....
gi 672073624  80 tETSVK---ENKNI 90
Cdd:cd04115  145 -ETSAKdpsENDHV 157
Rhes_like cd04143
Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1); ...
1-97 1.04e-06

Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1); This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression levels in other tissues. Dexras1 localizes primarily to the cytoplasm, and is a critical regulator of the circadian master clock to photic and nonphotic input. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.


Pssm-ID: 133343 [Multi-domain]  Cd Length: 247  Bit Score: 45.90  E-value: 1.04e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDL---DSKLTLPSGEP--VPCLLLANKSDL-SPWAVSRDQIDRFSKEN 74
Cdd:cd04143   64 MRRLSILTGDVFILVFSLDNRESFEEVCRLREQIletKSCLKNKTKENvkIPMVICGNKADRdFPREVQRDEVEQLVGGD 143
                         90       100
                 ....*....|....*....|...
gi 672073624  75 GFTGWTETSVKENKNINEAMRVL 97
Cdd:cd04143  144 ENCAYFEVSAKKNSNLDEMFRAL 166
Rab28 cd04109
Rab GTPase family 28 (Rab28); Rab28 subfamily. First identified in maize, Rab28 has been shown ...
1-76 2.56e-06

Rab GTPase family 28 (Rab28); Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumably the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 206694 [Multi-domain]  Cd Length: 213  Bit Score: 44.79  E-value: 2.56e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDsKLTLPSGEPVPCLLLANKSDLSPW-AVSRDQIDRFSKENGF 76
Cdd:cd04109   66 MLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVK-KVNEESETKPKMVLVGNKTDLEHNrQVTAEKHARFAQENDM 141
PLN03071 PLN03071
GTP-binding nuclear protein Ran; Provisional
5-104 3.93e-06

GTP-binding nuclear protein Ran; Provisional


Pssm-ID: 178620 [Multi-domain]  Cd Length: 219  Bit Score: 44.36  E-value: 3.93e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   5 YYRDASACVIMFDVTNATTFSNSQRWKQDLdSKLTlpsgEPVPCLLLANKSDLSPWAVSRDQIDRFSKENgfTGWTETSV 84
Cdd:PLN03071  82 YYIHGQCAIIMFDVTARLTYKNVPTWHRDL-CRVC----ENIPIVLCGNKVDVKNRQVKAKQVTFHRKKN--LQYYEISA 154
                         90       100
                 ....*....|....*....|
gi 672073624  85 KENKNINEAMRVLVEKMMNN 104
Cdd:PLN03071 155 KSNYNFEKPFLYLARKLAGD 174
Rap_like cd04136
Rap-like family consists of Rap1, Rap2 and RSR1; The Rap subfamily consists of the Rap1, Rap2, ...
1-101 5.49e-06

Rap-like family consists of Rap1, Rap2 and RSR1; The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap2 is involved in multiple functions, including activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton and activation of the Wnt/beta-catenin signaling pathway in embryonic Xenopus. A number of effector proteins for Rap2 have been identified, including isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK), and the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. RSR1 is the fungal homolog of Rap1 and Rap2. In budding yeasts, it is involved in selecting a site for bud growth, which directs the establishment of cell polarization. The Rho family GTPase Cdc42 and its GEF, Cdc24, then establish an axis of polarized growth. It is believed that Cdc42 interacts directly with RSR1 in vivo. In filamentous fungi such as Ashbya gossypii, RSR1 is a key regulator of polar growth in the hypha. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 206708 [Multi-domain]  Cd Length: 164  Bit Score: 43.32  E-value: 5.49e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLdskLTLPSGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGFTGW 79
Cdd:cd04136   65 MRDLYIKNGQGFALVYSITAQQSFNDLQDLREQI---LRVKDTEDVPMILVGNKCDLeDERVVSKEEGQNLARQWGNCPF 141
                         90       100
                 ....*....|....*....|..
gi 672073624  80 TETSVKENKNINEAMRVLVEKM 101
Cdd:cd04136  142 LETSAKSKINVDEIFYDLVRQI 163
Sar1 cd00879
Sar1 is an essential component of COPII vesicle coats; Sar1 is an essential component of COPII ...
5-102 5.97e-06

Sar1 is an essential component of COPII vesicle coats; Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.


Pssm-ID: 206645 [Multi-domain]  Cd Length: 191  Bit Score: 43.42  E-value: 5.97e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   5 YYRDASACVIMFDVTNATTFSNSqrwKQDLDSKLTLPSGEPVPCLLLANKSDLsPWAVSRDQ-IDRFSKENGFTGwtets 83
Cdd:cd00879   83 YFPEVDGIVFLVDAADPERFQES---KEELDSLLNDEELANVPILILGNKIDK-PGAVSEEElREALGLYGTTTG----- 153
                         90
                 ....*....|....*....
gi 672073624  84 vKENKNINEAMRVLVEKMM 102
Cdd:cd00879  154 -KGGVSLKVSNIRPVEVFM 171
RheB cd04137
Ras Homolog Enriched in Brain (RheB) is a small GTPase; Rheb (Ras Homolog Enriched in Brain) ...
44-108 7.63e-06

Ras Homolog Enriched in Brain (RheB) is a small GTPase; Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that leads to cell growth and cell-cycle progression. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.


Pssm-ID: 206709 [Multi-domain]  Cd Length: 180  Bit Score: 43.00  E-value: 7.63e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 672073624  44 EPVPCLLLANKSDLSPW-AVSRDQIDRFSKENGfTGWTETSVKENKNINEAMRVL---VEKMMNNSRED 108
Cdd:cd04137  105 ESVPIVLVGNKSDLHMErQVSAEEGKKLAESWG-AAFLESSAKENENVEEAFELLieeIEKVENPLPPG 172
Ras2 cd04144
Rat sarcoma (Ras) family 2 of small guanosine triphosphatases (GTPases); The Ras2 subfamily, ...
7-107 1.34e-05

Rat sarcoma (Ras) family 2 of small guanosine triphosphatases (GTPases); The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.


Pssm-ID: 133344 [Multi-domain]  Cd Length: 190  Bit Score: 42.53  E-value: 1.34e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   7 RDASACVIMFDVTNATTFSNSQRWKQDLdSKLTLPSGEPVPCLLLANKSD-LSPWAVSRDQIDRFSKENGfTGWTETSVK 85
Cdd:cd04144   69 REGEGFILVYSITSRSTFERVERFREQI-QRVKDESAADVPIMIVGNKCDkVYEREVSTEEGAALARRLG-CEFIEASAK 146
                         90       100
                 ....*....|....*....|..
gi 672073624  86 ENKNINEAMRVLVeKMMNNSRE 107
Cdd:cd04144  147 TNVNVERAFYTLV-RALRQQRQ 167
Rho cd00157
Ras homology family (Rho) of small guanosine triphosphatases (GTPases); Members of the Rho ...
1-92 1.67e-05

Ras homology family (Rho) of small guanosine triphosphatases (GTPases); Members of the Rho (Ras homology) family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Since crystal structures often lack C-terminal residues, this feature is not available for annotation in many of the CDs in the hierarchy.


Pssm-ID: 206641 [Multi-domain]  Cd Length: 171  Bit Score: 42.15  E-value: 1.67e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSN-SQRWKQDLdsKLTLPSgepVPCLLLANKSDL--------------SPwaVSRD 65
Cdd:cd00157   64 LRPLSYPQTDVFLLCFSVDSPSSFENvKTKWYPEI--KHYCPN---VPIILVGTKIDLrddgntlkklekkqKP--ITPE 136
                         90       100
                 ....*....|....*....|....*..
gi 672073624  66 QIDRFSKENGFTGWTETSVKENKNINE 92
Cdd:cd00157  137 EGEKLAKEIGAVKYMECSALTQEGLKE 163
Arl10_like cd04159
Arf-like 9 (Arl9) and 10 (Arl10) GTPases; Arl10-like subfamily. Arl9/Arl10 was identified from ...
5-99 2.16e-05

Arf-like 9 (Arl9) and 10 (Arl10) GTPases; Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.


Pssm-ID: 206724 [Multi-domain]  Cd Length: 159  Bit Score: 41.53  E-value: 2.16e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   5 YYRDASACVIMFDVTNATTFSNSqrwKQDLDSKLTLPSGEPVPCLLLANKSDLSPwAVSRDQIDRFSKENGFTGWT---- 80
Cdd:cd04159   64 YCRGVNAIVYVVDAADREKLEVA---KNELHDLLEKPSLEGIPLLVLGNKNDLPG-ALSVDELIEQMNLKSITDREvscy 139
                         90
                 ....*....|....*....
gi 672073624  81 ETSVKENKNINEAMRVLVE 99
Cdd:cd04159  140 SISAKEKTNIDIVLDWLIK 158
Rab36_Rab34 cd04108
Rab GTPase families 34 (Rab34) and 36 (Rab36); Rab34/Rab36 subfamily. Rab34, found primarily ...
5-61 6.15e-05

Rab GTPase families 34 (Rab34) and 36 (Rab36); Rab34/Rab36 subfamily. Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 206693 [Multi-domain]  Cd Length: 170  Bit Score: 40.63  E-value: 6.15e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 672073624   5 YYRDASACVIMFDVTNATTFSNSQRWKQDldsklTLPSGEPVPCL--LLANKSDLSPWA 61
Cdd:cd04108   69 YYRGAQAIIIVFDLTDVASLEHTRQWLED-----ALKENDPSSVLlfLVGTKKDLSSPA 122
Rab30 cd04114
Rab GTPase family 30 (Rab30); Rab30 subfamily. Rab30 appears to be associated with the Golgi ...
1-92 1.02e-04

Rab GTPase family 30 (Rab30); Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.


Pssm-ID: 133314 [Multi-domain]  Cd Length: 169  Bit Score: 39.88  E-value: 1.02e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpSGEPVPCLLLANKSDLSP-WAVSRDQIDRFSKENGFTgW 79
Cdd:cd04114   72 ITQSYYRSANALILTYDITCEESFRCLPEWLREIEQY----ANNKVITILVGNKIDLAErREVSQQRAEEFSDAQDMY-Y 146
                         90
                 ....*....|...
gi 672073624  80 TETSVKENKNINE 92
Cdd:cd04114  147 LETSAKESDNVEK 159
Rab40 cd04121
Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c; The Rab40 subfamily contains ...
3-93 1.31e-04

Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c; The Rab40 subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.


Pssm-ID: 133321 [Multi-domain]  Cd Length: 189  Bit Score: 39.53  E-value: 1.31e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   3 RLYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKltlpsGEPVPCLLLANKSDLS-PWAVSRDQIDRFSKENGFTgWTE 81
Cdd:cd04121   73 RSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEH-----APGVPKILVGNRLHLAfKRQVATEQAQAYAERNGMT-FFE 146
                         90
                 ....*....|..
gi 672073624  82 TSVKENKNINEA 93
Cdd:cd04121  147 VSPLCNFNITES 158
Arfrp1 cd04160
Arf-related protein 1 (Arfrp1); Arfrp1 (Arf-related protein 1), formerly known as ARP, is a ...
5-69 3.07e-04

Arf-related protein 1 (Arfrp1); Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.


Pssm-ID: 206725 [Multi-domain]  Cd Length: 168  Bit Score: 38.48  E-value: 3.07e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 672073624   5 YYRDASACVIMFDVTNATTFSNSqrwKQDLDSKLTLPSGEPVPCLLLANKSDLsPWAVSRDQIDR 69
Cdd:cd04160   71 YYAESHGVIYVIDSTDRERFNES---KSAFEKVINNEALEGVPLLVLANKQDL-PDALSVAEIKE 131
PTZ00369 PTZ00369
Ras-like protein; Provisional
1-115 6.09e-04

Ras-like protein; Provisional


Pssm-ID: 240385 [Multi-domain]  Cd Length: 189  Bit Score: 37.92  E-value: 6.09e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLdskLTLPSGEPVPCLLLANKSDL-SPWAVSRDQIDRFSKENGfTGW 79
Cdd:PTZ00369  69 MRDQYMRTGQGFLCVYSITSRSSFEEIASFREQI---LRVKDKDRVPMILVGNKCDLdSERQVSTGEGQELAKSFG-IPF 144
                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 672073624  80 TETSVKENKNINEAMRVLVEKMMNNSREDIMSSSTQ 115
Cdd:PTZ00369 145 LETSAKQRVNVDEAFYELVREIRKYLKEDMPSQKQK 180
RERG_RasL11_like cd04146
Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like ...
9-57 2.04e-03

Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like families; RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tumor suppressor activity.


Pssm-ID: 206713 [Multi-domain]  Cd Length: 166  Bit Score: 36.10  E-value: 2.04e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 672073624   9 ASACVIMFDVTNATTFSNSQRWKQDLDSKLTLPSGEPVpcLLLANKSDL 57
Cdd:cd04146   73 ADGFVLVYSITDRSSFDVVSQLLQLIREIKKRDGEIPV--ILVGNKADL 119
SAR smart00178
Sar1p-like members of the Ras-family of small GTPases; Yeast SAR1 is an essential gene ...
5-67 2.34e-03

Sar1p-like members of the Ras-family of small GTPases; Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 197556 [Multi-domain]  Cd Length: 184  Bit Score: 36.07  E-value: 2.34e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 672073624     5 YYRDASACVIMFDVTNATTFSNSQRwkqDLDSKLTLPSGEPVPCLLLANKSDlSPWAVSRDQI 67
Cdd:smart00178  81 YFPEVNGIVYLVDAYDKERFAESKR---ELDALLSDEELATVPFLILGNKID-APYAASEDEL 139
Ras_dva cd04147
Ras - dorsal-ventral anterior localization (Ras-dva) family; Ras-dva subfamily. Ras-dva (Ras - ...
1-100 3.03e-03

Ras - dorsal-ventral anterior localization (Ras-dva) family; Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.


Pssm-ID: 206714 [Multi-domain]  Cd Length: 197  Bit Score: 35.97  E-value: 3.03e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073624   1 MTRLYYRDASACVIMFDVTNATTFSNSQRWKQDLdskLTLPSGEPVPCLLLANKSDLSPwAVSRDQIDRFSK-----ENG 75
Cdd:cd04147   63 MRKLSIQNGDAFALVYSVDDPESFEEVKRLREEI---LEVKEDKFVPIVVVGNKIDSLA-ERQVEAADALSTveldwNNG 138
                         90       100
                 ....*....|....*....|....*
gi 672073624  76 FTgwtETSVKENKNINEAMRVLVEK 100
Cdd:cd04147  139 FV---EASAKDNENVTEVFKELLQQ 160
PLN00023 PLN00023
GTP-binding protein; Provisional
4-64 3.36e-03

GTP-binding protein; Provisional


Pssm-ID: 177661  Cd Length: 334  Bit Score: 36.00  E-value: 3.36e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 672073624   4 LYYRDASACVIMFDVTNATTFSNSQRWKQDLDSKLTL--------PSGEPVPCLLLANKSDLSPWAVSR 64
Cdd:PLN00023 102 LFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFsaplgsggPGGLPVPYIVIGNKADIAPKEGTR 170
RbgA COG1161
Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];
47-104 5.96e-03

Ribosome biogenesis GTPase RbgA [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440775 [Multi-domain]  Cd Length: 279  Bit Score: 35.08  E-value: 5.96e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 672073624  47 PCLLLANKSDLSPWAVSRDQIDRFSKEnGFTGWtETSVKENKNINEAMRvLVEKMMNN 104
Cdd:COG1161   52 PRLLVLNKADLADPSVTKQWLKYFEKQ-GVDAL-AISAKKGKGIKELIE-AIRELAPE 106
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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