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Conserved domains on  [gi|26341772|dbj|BAC34548|]
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unnamed protein product, partial [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RUN_RUFY1 cd17694
RUN domain found in RUN and FYVE domain-containing protein 1 (RUFY1) and similar proteins; ...
 116-271 7.37e-106

RUN domain found in RUN and FYVE domain-containing protein 1 (RUFY1) and similar proteins; RUFY1, also called FYVE-finger protein EIP1, or La-binding protein 1, or Rab4-interacting protein (Rabip4), or Zinc finger FYVE domain-containing protein 12 (ZFY12), a human homolog of mouse Rabip4, an effector of Rab4 GTPase that regulates recycling of endocytosed cargo. RUFY1 is an endosomal protein that functions as a dual effector of Rab4 and Rab14 and is involved in efficient recycling of transferrin (Tfn). It is a downstream effector of Etk, a downstream tyrosine kinase of PI3-kinase that is involved in regulation of vesicle trafficking. RUFY1 contains an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between; this model represents the RUN domain.


:

Pssm-ID: 439056  Cd Length: 156  Bit Score: 312.61  E-value: 7.37e-106
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 116 ERANLMHMMKLSIKVLLQSALSLGRSLDADYAPLQQFFVVMEHCLKHGLKVKKSFIGQNKSFFGPLELVEKLCPEASDIA 195
Cdd:cd17694   1 ERANLMNMMKLSIKVLIQSALSLGRTLDSDYPPLQQFFVVLEHCLKHGLKVKKSFIGQNKSFFGPLELVEKLCPEASDIA 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 26341772 196 TSVRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGMVIVGLLVGLNVLDANLC 271
Cdd:cd17694  81 TSARNLPELKTAVGRGRAWLHLALMQKKLADYLKVLIDRKDLLSEFYEPGALMMEEEGAVIVGLLVGLNVIDANLC 156
Macoilin super family cl25928
Macoilin family; The Macoilin proteins has an N-terminal portion that is composed of 5 ...
 322-486 1.38e-04

Macoilin family; The Macoilin proteins has an N-terminal portion that is composed of 5 trasnmembrane helices, followed by a C-terminal coiled-coil region. Macoilin is a highly conserved protein present in eukaryotes. Macoilin appears to be found in the ER and be involved in the function of neurons.


The actual alignment was detected with superfamily member pfam09726:

Pssm-ID: 462859 [Multi-domain]  Cd Length: 670  Bit Score: 44.46  E-value: 1.38e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772   322 LSCTVGDLQTKIDGLEKTNSKLQEELSAATDRICSLQKEQQQLREQNEVIRERSEKSVEiTKQDTKVELETYKQTRQGLD 401
Cdd:pfam09726 400 LEQDIKKLKAELQASRQTEQELRSQISSLTSLERSLKSELGQLRQENDLLQTKLHNAVS-AKQKDKQTVQQLEKRLKAEQ 478

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772   402 EMYSDVWKQLKEEKKVRLELEKELELQIGM---------------KTEMEIAMKLLEKDTHEKQDTLVALrqqleEVKAI 466
Cdd:pfam09726 479 EARASAEKQLAEEKKRKKEEEATAARAVALaaasrgecteslkqrKRELESEIKKLTHDIKLKEEQIREL-----EIKVQ 553

                         170       180
                  ....*....|....*....|....*..
gi 26341772   467 NLQMFHKVQ-------SAESSLQQKNE 486
Cdd:pfam09726 554 ELRKYKESEkdtevlmSALSAMQDKNQ 580
 
Name Accession Description Interval E-value
RUN_RUFY1 cd17694
RUN domain found in RUN and FYVE domain-containing protein 1 (RUFY1) and similar proteins; ...
 116-271 7.37e-106

RUN domain found in RUN and FYVE domain-containing protein 1 (RUFY1) and similar proteins; RUFY1, also called FYVE-finger protein EIP1, or La-binding protein 1, or Rab4-interacting protein (Rabip4), or Zinc finger FYVE domain-containing protein 12 (ZFY12), a human homolog of mouse Rabip4, an effector of Rab4 GTPase that regulates recycling of endocytosed cargo. RUFY1 is an endosomal protein that functions as a dual effector of Rab4 and Rab14 and is involved in efficient recycling of transferrin (Tfn). It is a downstream effector of Etk, a downstream tyrosine kinase of PI3-kinase that is involved in regulation of vesicle trafficking. RUFY1 contains an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between; this model represents the RUN domain.


Pssm-ID: 439056  Cd Length: 156  Bit Score: 312.61  E-value: 7.37e-106
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 116 ERANLMHMMKLSIKVLLQSALSLGRSLDADYAPLQQFFVVMEHCLKHGLKVKKSFIGQNKSFFGPLELVEKLCPEASDIA 195
Cdd:cd17694   1 ERANLMNMMKLSIKVLIQSALSLGRTLDSDYPPLQQFFVVLEHCLKHGLKVKKSFIGQNKSFFGPLELVEKLCPEASDIA 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 26341772 196 TSVRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGMVIVGLLVGLNVLDANLC 271
Cdd:cd17694  81 TSARNLPELKTAVGRGRAWLHLALMQKKLADYLKVLIDRKDLLSEFYEPGALMMEEEGAVIVGLLVGLNVIDANLC 156
RUN pfam02759
RUN domain; This domain is present in several proteins that are linked to the functions of ...
 151-274 2.36e-42

RUN domain; This domain is present in several proteins that are linked to the functions of GTPases in the Rap and Rab families. They could hence play important roles in multiple Ras-like GTPase signalling pathways. The domain is comprises six conserved regions, which in some proteins have considerable insertions between them. The domain core is thought to take up a predominantly alpha fold, with basic amino acids in regions A and D possibly playing a functional role in interactions with Ras GTPases.


Pssm-ID: 460679  Cd Length: 134  Bit Score: 147.42  E-value: 2.36e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772   151 QFFVVMEHCLKHGLKV------KKSFIGQNKSFFGPLELVEKLCPEASDIATSVRNLPELKTA---VGRGRAWLYLALMQ 221
Cdd:pfam02759   1 QLCAALEALLSHGLKRssllilRAAGLLPERSFWALLERVGKLVPPAEELLSSVQELEQIHTPyspDGRGRAWIRLALNE 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 26341772   222 KKLADYLKVLIDNKQLLSEFYEPEALMMEEEGM-VIVGLLVGLNVLDANLCLKG 274
Cdd:pfam02759  81 KLLDQWLKLLLSNKELLSEYYEPWALLADPEFGeILLGLLVGLSALDFNLCLKL 134
RUN smart00593
domain involved in Ras-like GTPase signaling;
211-273 7.36e-16

domain involved in Ras-like GTPase signaling;


Pssm-ID: 214736 [Multi-domain]  Cd Length: 64  Bit Score: 71.88  E-value: 7.36e-16
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 26341772    211 GRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGM-VIVGLLVGLNVLDANLCLK 273
Cdd:smart00593   1 FRAWIRLALNEKLLSSWLNLLLSDEELLSKYYEPWAFLRDPEEGeQLLGLLVGLSALDFNLPVD 64
Macoilin pfam09726
Macoilin family; The Macoilin proteins has an N-terminal portion that is composed of 5 ...
 322-486 1.38e-04

Macoilin family; The Macoilin proteins has an N-terminal portion that is composed of 5 trasnmembrane helices, followed by a C-terminal coiled-coil region. Macoilin is a highly conserved protein present in eukaryotes. Macoilin appears to be found in the ER and be involved in the function of neurons.


Pssm-ID: 462859 [Multi-domain]  Cd Length: 670  Bit Score: 44.46  E-value: 1.38e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772   322 LSCTVGDLQTKIDGLEKTNSKLQEELSAATDRICSLQKEQQQLREQNEVIRERSEKSVEiTKQDTKVELETYKQTRQGLD 401
Cdd:pfam09726 400 LEQDIKKLKAELQASRQTEQELRSQISSLTSLERSLKSELGQLRQENDLLQTKLHNAVS-AKQKDKQTVQQLEKRLKAEQ 478

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772   402 EMYSDVWKQLKEEKKVRLELEKELELQIGM---------------KTEMEIAMKLLEKDTHEKQDTLVALrqqleEVKAI 466
Cdd:pfam09726 479 EARASAEKQLAEEKKRKKEEEATAARAVALaaasrgecteslkqrKRELESEIKKLTHDIKLKEEQIREL-----EIKVQ 553

                         170       180
                  ....*....|....*....|....*..
gi 26341772   467 NLQMFHKVQ-------SAESSLQQKNE 486
Cdd:pfam09726 554 ELRKYKESEkdtevlmSALSAMQDKNQ 580
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 315-490 2.46e-04

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 43.89  E-value: 2.46e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772    315 VEELNRHLSCTVGDLQTKIDGLEKTNSKLQEELSAATDRICSLQKEQQQLREQNEVIRERSeKSVEITKQDTKVELETYK 394
Cdd:TIGR02168  745 LEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREAL-DELRAELTLLNEEAANLR 823

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772    395 QTRQGLDEMYSDVWKQ---LKEEKKVRLELEKELELQIG------------------MKTEMEIAMKLLEKDTHEKQDTL 453
Cdd:TIGR02168  824 ERLESLERRIAATERRledLEEQIEELSEDIESLAAEIEeleelieeleseleallnERASLEEALALLRSELEELSEEL 903

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....
gi 26341772    454 -------VALRQQLEEVKAINLQMFHKVQSAESSLQQKNEAIAS 490
Cdd:TIGR02168  904 releskrSELRRELEELREKLAQLELRLEGLEVRIDNLQERLSE 947
EnvC COG4942
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 328-495 1.07e-03

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 41.29  E-value: 1.07e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 328 DLQTKIDGLEKTNSKLQEELSAATDRICSLQKEQQQLREQNEVIRE-------------RSEKSVEITKQDTKVE----L 390
Cdd:COG4942  59 ALERRIAALARRIRALEQELAALEAELAELEKEIAELRAELEAQKEelaellralyrlgRQPPLALLLSPEDFLDavrrL 138

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 391 ETYKQTRQGLDEMYSDVWKQLKEEKKVRLELEKELELQIGMKTEMEIAMKLLEKDTHEKQDTLVALRQQLEEVKAINLQM 470
Cdd:COG4942 139 QYLKYLAPARREQAEELRADLAELAALRAELEAERAELEALLAELEEERAALEALKAERQKLLARLEKELAELAAELAEL 218

                       170       180
                ....*....|....*....|....*
gi 26341772 471 FHKVQSAESSLQQKNEAIASFEGKT 495
Cdd:COG4942 219 QQEAEELEALIARLEAEAAAAAERT 243
 
Name Accession Description Interval E-value
RUN_RUFY1 cd17694
RUN domain found in RUN and FYVE domain-containing protein 1 (RUFY1) and similar proteins; ...
 116-271 7.37e-106

RUN domain found in RUN and FYVE domain-containing protein 1 (RUFY1) and similar proteins; RUFY1, also called FYVE-finger protein EIP1, or La-binding protein 1, or Rab4-interacting protein (Rabip4), or Zinc finger FYVE domain-containing protein 12 (ZFY12), a human homolog of mouse Rabip4, an effector of Rab4 GTPase that regulates recycling of endocytosed cargo. RUFY1 is an endosomal protein that functions as a dual effector of Rab4 and Rab14 and is involved in efficient recycling of transferrin (Tfn). It is a downstream effector of Etk, a downstream tyrosine kinase of PI3-kinase that is involved in regulation of vesicle trafficking. RUFY1 contains an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between; this model represents the RUN domain.


Pssm-ID: 439056  Cd Length: 156  Bit Score: 312.61  E-value: 7.37e-106
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 116 ERANLMHMMKLSIKVLLQSALSLGRSLDADYAPLQQFFVVMEHCLKHGLKVKKSFIGQNKSFFGPLELVEKLCPEASDIA 195
Cdd:cd17694   1 ERANLMNMMKLSIKVLIQSALSLGRTLDSDYPPLQQFFVVLEHCLKHGLKVKKSFIGQNKSFFGPLELVEKLCPEASDIA 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 26341772 196 TSVRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGMVIVGLLVGLNVLDANLC 271
Cdd:cd17694  81 TSARNLPELKTAVGRGRAWLHLALMQKKLADYLKVLIDRKDLLSEFYEPGALMMEEEGAVIVGLLVGLNVIDANLC 156
RUN_RUFY2 cd17695
RUN domain found in RUN and FYVE domain-containing protein 2 (RUFY2) and similar proteins; ...
 116-271 3.02e-90

RUN domain found in RUN and FYVE domain-containing protein 2 (RUFY2) and similar proteins; RUFY2, also called Rab4-interacting protein related, is a novel embryonic factor that contains an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between. It is present in the nucleus at early stages of embryonic development. It may have both endosomal functions in the cytoplasm and nuclear functions. This model represents the RUN domain of RUFY2.


Pssm-ID: 439057  Cd Length: 156  Bit Score: 272.62  E-value: 3.02e-90
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 116 ERANLMHMMKLSIKVLLQSALSLGRSLDADYAPLQQFFVVMEHCLKHGLKVKKSFIGQNKSFFGPLELVEKLCPEASDIA 195
Cdd:cd17695   1 ERANLLNMAKLSIKGLIESALSFGRTLDSDYPPLQQFFVVMEHCLKHGLKVRKSFLSYNKTIWGPLELVEKLCPEAEEIA 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 26341772 196 TSVRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGMVIVGLLVGLNVLDANLC 271
Cdd:cd17695  81 ASVRDLPGLKTPLGRARAWLRLALMQKKLADYLRCLIIRRDLLSEFYEYHALMMEEEGAVIVGLLVGLNVIDANLC 156
RUN_RUFY1_like cd17681
RUN domain found in RUN and FYVE domain-containing proteins, RUFY1, RUFY2, RUFY3 and similar ...
 116-270 4.05e-89

RUN domain found in RUN and FYVE domain-containing proteins, RUFY1, RUFY2, RUFY3 and similar proteins; This family includes RUN and FYVE domain-containing protein RUFY1, RUFY2, and RUFY3. RUFY1, also called FYVE-finger protein EIP1, or La-binding protein 1, or Rab4-interacting protein (Rabip4), or Zinc finger FYVE domain-containing protein 12 (ZFY12), a human homolog of mouse Rabip4, an effector of Rab4 GTPase that regulates recycling of endocytosed cargo. RUFY1 is an endosomal protein that functions as a dual effector of Rab4 and Rab14 and is involved in efficient recycling of transferrin (Tfn). It is a downstream effector of Etk, a downstream tyrosine kinase of PI3-kinase that is involved in regulation of vesicle trafficking. RUFY2, also called Rab4-interacting protein related, is a novel embryonic factor that is present in the nucleus at early stages of embryonic development. It may have both endosomal functions in the cytoplasm and nuclear functions. RUFY3, also called Rap2-interacting protein x (RIPx or RPIPx), or single axon-regulated protein (singar), is an N-terminal RUN domain and a C-terminal FYVE domain containing protein predominantly expressed in the brain. It suppresses formation of surplus axons for neuronal polarity. Unlike other RUFY proteins, RUFY3 can associate with the GTP-bound active form of Rab5. RUFY1, RUFY2, and RUFY3 contain an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between; this model represents the RUN domain.


Pssm-ID: 439043  Cd Length: 155  Bit Score: 269.44  E-value: 4.05e-89
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 116 ERANLMHMMKLSIKVLLQSALSLGRSLDADYAPLQQFFVVMEHCLKHGLKVKKSFIGQNKSFFGPLELVEKLCPEASDIA 195
Cdd:cd17681   1 ERRNLLNLAKLSIKELIESALSFGRTLDSDHVPLQQFFVILEHVLRHGLKVKKSFLGPNKSFWPVLEHVEKLVPEANEIT 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 26341772 196 TSVRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGMVIVGLLVGLNVLDANL 270
Cdd:cd17681  81 ASVRDLPGIKTPLGRARAWLRLALMQKKLADYFRALIENKDLLSEFYEPGALMMSEEAVVIAGLLVGLNVIDCNL 155
RUN_RUFY3 cd17696
RUN domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins; ...
 116-271 1.37e-80

RUN domain found in RUN and FYVE domain-containing protein 3 (RUFY3) and similar proteins; RUFY3, also called Rap2-interacting protein x (RIPx or RPIPx), or single axon-regulated protein (singar), is an N-terminal RUN domain and a C-terminal FYVE domain containing protein predominantly expressed in the brain. It suppresses formation of surplus axons for neuronal polarity. Unlike other RUFY proteins, RUFY3 can associate with the GTP-bound active form of Rab5. This model represents the RUN domain of RUFY3.


Pssm-ID: 439058  Cd Length: 156  Bit Score: 247.60  E-value: 1.37e-80
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 116 ERANLMHMMKLSIKVLLQSALSLGRSLDADYAPLQQFFVVMEHCLKHGLKVKKSFIGQNKSFFGPLELVEKLCPEASDIA 195
Cdd:cd17696   1 ERMNLMNMAKLSIKGLIESALNLGRTLDSDYAPLQQFFVVMEHCLKHGLKAKKTFLGQNKSFWGPLELVEKLVPEAAEIT 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 26341772 196 TSVRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGMVIVGLLVGLNVLDANLC 271
Cdd:cd17696  81 ASVKDLPGLKTPVGRGRAWLRLALMQKKLSEYMKALINRKDLLSEFYEPNALMMEEEGAIIAGLLVGLNVIDANFC 156
RUN pfam02759
RUN domain; This domain is present in several proteins that are linked to the functions of ...
 151-274 2.36e-42

RUN domain; This domain is present in several proteins that are linked to the functions of GTPases in the Rap and Rab families. They could hence play important roles in multiple Ras-like GTPase signalling pathways. The domain is comprises six conserved regions, which in some proteins have considerable insertions between them. The domain core is thought to take up a predominantly alpha fold, with basic amino acids in regions A and D possibly playing a functional role in interactions with Ras GTPases.


Pssm-ID: 460679  Cd Length: 134  Bit Score: 147.42  E-value: 2.36e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772   151 QFFVVMEHCLKHGLKV------KKSFIGQNKSFFGPLELVEKLCPEASDIATSVRNLPELKTA---VGRGRAWLYLALMQ 221
Cdd:pfam02759   1 QLCAALEALLSHGLKRssllilRAAGLLPERSFWALLERVGKLVPPAEELLSSVQELEQIHTPyspDGRGRAWIRLALNE 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 26341772   222 KKLADYLKVLIDNKQLLSEFYEPEALMMEEEGM-VIVGLLVGLNVLDANLCLKG 274
Cdd:pfam02759  81 KLLDQWLKLLLSNKELLSEYYEPWALLADPEFGeILLGLLVGLSALDFNLCLKL 134
RUN cd17671
RUN domain; RUN domain, named after RPIP8 (Rap2 interacting protein 8), UNC-14 and NESCA (new ...
 127-270 3.53e-29

RUN domain; RUN domain, named after RPIP8 (Rap2 interacting protein 8), UNC-14 and NESCA (new molecule containing SH3 at the carboxyl-terminus), is a less conserved protein motif that comprises six conserved regions, which in some proteins have considerable insertions between them. The domain core is thought to take up a predominantly alpha fold, with basic amino acids in regions A and D possibly playing a functional role in interactions with Ras GTPases. RUN domains are often found in proteins linked particularly to the functions of GTPases in the Rap and Rab families, suggesting the RUN domain may be involved in Rab-mediated membrane trafficking, possibly as a Rab-binding site. RUN domain-containing proteins could hence play important roles in multiple Ras-like GTPase signalling pathways.


Pssm-ID: 439038  Cd Length: 154  Bit Score: 112.52  E-value: 3.53e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 127 SIKVLLQSALSLGR-------SLDADYAPLQQFFVVMEHCLKHGLKVKKSFIGQnKSFFGPLELVEKLCPEASDIAT--S 197
Cdd:cd17671   2 AVKELLESFADNGEaddsaalTLTDDDPVVGRLCAALEAILSHGLKPKRFGGGK-VSFWDFLEALEKLLPAPSLKQAirD 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 26341772 198 VRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGMV-IVGLLVGLNVLDANL 270
Cdd:cd17671  81 INSLSNVKTDDGRGRAWIRLALNEKSLESYLAALLSDQSLLRKYYEPWALLRDPEEAElFLSLLVGLSSLDFNL 154
RUN_RUNDC3 cd17684
RUN domain found in RUN domain-containing protein 3 (RUNDC3) and similar proteins; RUNDC3 ...
 119-270 9.89e-27

RUN domain found in RUN domain-containing protein 3 (RUNDC3) and similar proteins; RUNDC3 contains two isoforms, RUNDC3A and RUNDC3B. RUNDC3A, also called Rap2-interacting protein 8 (RPIP8), may act as an effector of Rap2A GTPase in neuronal cells. RUNDC3B, also called Rap2-binding protein 9, or Rap2-interacting protein 9 (RPIP-9), contains a RUN domain in its N-terminal region that mediates interaction with Rap2, an important component of the Mitogen-Activated Protein Kinase (MAPK) cascade, which regulates cellular proliferation and differentiation. It also contains characteristic binding sites for MAPK intermediates. Both RUNDC3A and RUNDC3B contain a RUN domain.


Pssm-ID: 439046  Cd Length: 150  Bit Score: 105.56  E-value: 9.89e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 119 NLMHMMKLSIKVLLQSALSlgRSLDADYAPLQQFFVVMEHCLKHGLKVKKSFIG--QNKSFFGPLELVEKLCPEASdIAt 196
Cdd:cd17684   1 NLVTVCRLSVKSLIDKACL--ETIDDSSEELINFAAILEQILSHRLKPVKPWYGseEPRTFWDYIRVACKKVPQNC-IA- 76

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 26341772 197 SVRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGMVIVGLLVGLNVLDANL 270
Cdd:cd17684  77 SIEQMENIKSPKAKGRAWIRVALMEKRLSEYLSTALKQTRLTRNFYQDGAIMLSEDATVLCGMLIGLNAIDFSF 150
RUN_RUNDC3A cd17699
RUN domain found in RUN domain-containing protein 3A (RUNDC3A) and similar proteins; RUN ...
 119-271 3.61e-19

RUN domain found in RUN domain-containing protein 3A (RUNDC3A) and similar proteins; RUN domain-containing protein 3A (RUNDC3A), also called Rap2-interacting protein 8 (RPIP8), may act as an effector of Rap2A GTPase in neuronal cells. It contains a RUN domain.


Pssm-ID: 439061  Cd Length: 151  Bit Score: 84.31  E-value: 3.61e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 119 NLMHMMKLSIKVLLQSALSlgRSLDADYAPLQQFFVVMEHCLKHGLKVKKSFI---GQnKSFFGPLELVEKLCPeaSDIA 195
Cdd:cd17699   1 NLITVCRFSVKTLLEKYTA--EPIDDSSEEFVNFAAILEQILSHRFKGPVSWFssdGQ-RGFWDYIRLACSKVP--NNCI 75

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 26341772 196 TSVRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGMVIVGLLVGLNVLDANLC 271
Cdd:cd17699  76 SSIENMENISTSRAKGRAWIRVALMEKRLSEYIATALRDTRTTRRFYDDGAIMLREESTVLTGMLIGLSAIDFSFC 151
RUN_RUNDC3B cd17700
RUN domain found in RUN domain-containing protein 3B (RUNDC3B) and similar proteins; RUN ...
 119-271 3.65e-18

RUN domain found in RUN domain-containing protein 3B (RUNDC3B) and similar proteins; RUN domain-containing protein 3B (RUNDC3B), also called Rap2-binding protein 9, or Rap2-interacting protein 9 (RPIP-9), contains a RUN domain in its N-terminal region that mediates interaction with Rap2, an important component of the Mitogen-Activated Protein Kinase (MAPK) cascade, which regulates cellular proliferation and differentiation. It also contains characteristic binding sites for MAPK intermediates. RUNDC3B contains a RUN domain.


Pssm-ID: 439062  Cd Length: 151  Bit Score: 81.17  E-value: 3.65e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 119 NLMHMMKLSIKVLLQSalSLGRSLDADYAPLQQFFVVMEHCLKHGLKVKKSFIGQN--KSFFgplELVEKLCPEAS-DIA 195
Cdd:cd17700   1 NLITVCRFSVKTLIDR--SCFETIDDSSPEFVNFAAILEQILSHRLKGQVTWFGYEspRSFW---DYIRVACSKVPhNCI 75

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 26341772 196 TSVRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGMVIVGLLVGLNVLDANLC 271
Cdd:cd17700  76 CSIENMENVSSSRAKGRAWIRVALMEKRLSEYISTALRDFKTTRRFYEDGAIVLGEEANMLAGMLLGLNAIDFSFC 151
RUN smart00593
domain involved in Ras-like GTPase signaling;
211-273 7.36e-16

domain involved in Ras-like GTPase signaling;


Pssm-ID: 214736 [Multi-domain]  Cd Length: 64  Bit Score: 71.88  E-value: 7.36e-16
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 26341772    211 GRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGM-VIVGLLVGLNVLDANLCLK 273
Cdd:smart00593   1 FRAWIRLALNEKLLSSWLNLLLSDEELLSKYYEPWAFLRDPEEGeQLLGLLVGLSALDFNLPVD 64
RUN_RUFY4_like cd17682
RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4), FYVE and coiled-coil ...
 143-264 1.19e-13

RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4), FYVE and coiled-coil domain-containing protein 1 (FYCO1), and similar proteins; The family includes RUFY4 and FYCO1. RUFY4 acts as a positive regulator that enhances autophagy and lysosome tethering in response to Interleukin-4. It is expressed in a cell-specific manner or under specific immunological conditions associated with IL4 expression such as allergic asthma. FYCO1, also called zinc finger FYVE domain-containing protein 7 (ZFYVE7), is a multidomain autophagy adaptor protein that interacts with kinesin motor proteins and with the autophagosomal membrane components microtubule-associated protein 1 light chain 3 (LC3), Rab7, and phosphatidylinositol 3-phosphate (PI3P), to mediate microtubule plus-end-directed autophagosome transport. Both RUFY4 and FYCO1 contain an N-terminal RUN domain and a C-terminal FYVE domain with two coiled-coil domains in-between; this model represents the RUN domain.


Pssm-ID: 439044  Cd Length: 150  Bit Score: 68.41  E-value: 1.19e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 143 DADYAPLQQFFVVMEHCLKHGLKVKKSFIGQNKSFFGPLE-LVEKLCPEA---SDIATSVRNLPELKTAVGRGRAWLYLA 218
Cdd:cd17682  18 DPDNPYLRPFCETLEKILRKGLKEKVSLGGRRKDYWDWLEeLLKKLNKIPkslSDAVKFVKSCKKVKTNQGRGRLFIRYA 97

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*..
gi 26341772 219 LMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEE-GMVIVGLLVGLN 264
Cdd:cd17682  98 LNKKCLHDPVQQLVKNPKLLSDYYSPDSILGNEIlSEILLSLLYQLN 144
RUN_FYCO1 cd17698
RUN domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar ...
 145-264 1.89e-12

RUN domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins; FYCO1, also called zinc finger FYVE domain-containing protein 7 (ZFYVE7), is a multidomain autophagy adaptor protein that interacts with kinesin motor proteins and with the autophagosomal membrane components microtubule-associated protein 1 light chain 3 (LC3), Rab7, and Phosphatidylinositol 3-phosphate (PI3P), to mediate microtubule plus-end-directed autophagosome transport. This model represents the RUN domain of FYCO1.


Pssm-ID: 439060  Cd Length: 158  Bit Score: 65.10  E-value: 1.89e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 145 DYAPLQQFFVVMEHCLKHGLKVKKSFIGQNKS----FFGPLELVEKLcpeaSDIATSVRNLPELKTAVGRGRAWLYLALM 220
Cdd:cd17698  32 DSTTLHKFCAKLEYLLQFDQKEKTTLLGGRKDywdyFCECLAKVKGL----NDGIRFVKSLKEVRTSLGKGRAFIRYSLV 107

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*
gi 26341772 221 QKKLADYLKVLIDNKQLLSEFYEPE-ALMMEEEGMVIVGLLVGLN 264
Cdd:cd17698 108 HQRLADTLQQCVMNGKVTSDWYYPRsVFLNHKYSSDIINSLYDLN 152
RUN_RUFY4 cd17697
RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4) and similar proteins; ...
 156-264 8.47e-12

RUN domain found in RUN and FYVE domain-containing protein 4 (RUFY4) and similar proteins; RUFY4 acts as a positive regulator that enhances autophagy and lysosome tethering in response to Interleukin-4. It is expressed in a cell-specific manner or under specific immunological conditions associated with IL4 expression such as allergic asthma. RUFY4 belongs to the FUFY protein family which is characterized by the presence of an N-terminal RUN domain and a C-terminal FYVE domain; this model represents the RUN domain of RUFY4.


Pssm-ID: 439059  Cd Length: 150  Bit Score: 62.89  E-value: 8.47e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 156 MEHCLKHGLKVKKSFIGQNKSFFGPLELVEKLCPEASDIATSVRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNK 235
Cdd:cd17697  35 LEYLLQFDQKEKKSFFGSRKDYWDFLCLCLNRHRGGTEGIHFVNSTDKLKTPLGKGRAFIRYCLVQQQLAESLQLCLLNP 114

                        90       100       110
                ....*....|....*....|....*....|
gi 26341772 236 QLLSEFYEPEA-LMMEEEGMVIVGLLVGLN 264
Cdd:cd17697 115 ELTGEWYYARSpFLSPELRSDILDSLYELN 144
RUN_PLEKHM1 cd17679
RUN domain found in pleckstrin homology domain-containing family M member 1 (PLEKHM1) and ...
 117-270 1.65e-11

RUN domain found in pleckstrin homology domain-containing family M member 1 (PLEKHM1) and similar proteins; PLEKHM1, also called PH domain-containing family M member 1, or 162 kDa adapter protein (AP162), may act as a multivalent adapter protein that regulates Rab7-dependent and HOPS complex-dependent fusion events in the endolysosomal system and couples autophagic and the endocytic trafficking pathways. This model represents the RUN domain of PLEKHM1.


Pssm-ID: 439041 [Multi-domain]  Cd Length: 171  Bit Score: 62.61  E-value: 1.65e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 117 RANLMHMMKLSIKVLLQSALSLGRSLDADYAPLQQFFVVMEHCLKHGLKvkKSFIGQNKSFFGPLelVEKLcPEAS---- 192
Cdd:cd17679   1 KKSLTKELSSSVKELQLEYVSSDEVVTSSDDGANTLCCVLEAIFLHGLK--DKFISKVSSVFSGD--VDKL-PEPNfwpl 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 193 -------DIATSVRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGM-VIVGLLVGLN 264
Cdd:cd17679  76 llkfshrDVIDQIEHLSQITTDVGRCRAWIRLALNDGLLESYLEAILKDKSALKSYYNPSAFLRDPEQLdILKSLLQGLE 155


                ....*.
gi 26341772 265 VLDANL 270
Cdd:cd17679 156 SFQFEL 161
RUN_SNX29 cd17689
RUN domain found in sorting nexin-29 (SNX29) and similar proteins; SNX29, also called RUN ...
 160-252 7.93e-11

RUN domain found in sorting nexin-29 (SNX29) and similar proteins; SNX29, also called RUN domain-containing protein 2A (RUNDC2A), belongs to the sorting nexin family. Sorting nexins are a large group of proteins that are localized in the cytoplasm and have the potential for membrane association either through their lipid-binding PX domain, a phospholipid-binding motif, or through protein-protein interactions with membrane-associated protein complexes. Some sorting nexin family members have been shown to facilitate protein sorting. This model contains the RUN domain of SNX29.


Pssm-ID: 439051  Cd Length: 166  Bit Score: 60.71  E-value: 7.93e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 160 LKHGLKVKKSFIGQNKSFFGPLELVEKLCPEASDIA--TSVRN------------LPELKTAVGRGRAWLYLALMQKKLA 225
Cdd:cd17689  38 LQHGLKTSRSPNLVSSAVTQVSGLAGSLGSAETEPTfwPFVKEhltkhelerfelLKNIWTDIGRGRAWLRSALNEHSLE 117

                        90       100
                ....*....|....*....|....*..
gi 26341772 226 DYLKVLIDNKQLLSEFYEPEALMMEEE 252
Cdd:cd17689 118 RYLHILLSNENLLRQYYEDWAFLRDEE 144
RUN_SGSM1_like cd17687
RUN domain found in small G protein signaling modulators, SGSM1, SGSM2, and similar proteins; ...
 157-267 1.80e-10

RUN domain found in small G protein signaling modulators, SGSM1, SGSM2, and similar proteins; SGSM1, also called RUN and TBC1 domain-containing protein 2 (RUTBC2), interacts with numerous Rab family members, functioning as Rab effector for some, and as GTPase activator for others. It is a Rab9A effector and GTPase-activating protein for Rab36, and links Rab9A function to Rab36 function in the endosomal system. SGSM2, also called RUN and TBC1 domain-containing protein 1 (RUTBC1), is a GTPase-activating protein for Rab32/38, and regulates melanogenic enzyme trafficking in melanocytes. It also acts as a Rab9A effector that activates GTP hydrolysis by Rab32 and Rab33B proteins. This model contains the RUN domain of SGSM1 and SGSM2.


Pssm-ID: 439049  Cd Length: 161  Bit Score: 59.61  E-value: 1.80e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 157 EHCLKHGLKVKKSFIGQNKSFFGPLELVEKLCPEASDIATSVRNLPELKTAVGRGRA-------------------WLYL 217
Cdd:cd17687  31 DACLLHGLRKRALGLFRSSSTFSLLQKVAKSCPPAADILRKVQEIENLSENKRSSSSsgsnssnshgnsssnrkilWIRI 110

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 26341772 218 ALMQKKLADYLKVLIDNKqllSEFYEPEALMME-EEGMVIVGLLVGLNVLD 267
Cdd:cd17687 111 ALFEKVLDKIVDYLVENA---SKYYEKEALMADpVDGPLLASLLVGPCALD 158
RUN_PLEKHM2 cd17680
RUN domain found in pleckstrin homology domain-containing family M member 2 (PLEKHM2) and ...
 127-263 2.41e-09

RUN domain found in pleckstrin homology domain-containing family M member 2 (PLEKHM2) and similar proteins; PLEKHM2, also called PH domain-containing family M member 2, or Salmonella-induced filaments A (SifA) and Kinesin-Interacting Protein (SKIP), is the lysosome, melanosome and lytic granule cargo adaptor that controls lysosome positioning using a composite kinesin-1 heavy and light chain-binding domain. In addition to kinesin-1, it also interacts with several Rabs to affect endosomal trafficking. This model represents the RUN domain of PLEKHM2.


Pssm-ID: 439042  Cd Length: 145  Bit Score: 55.71  E-value: 2.41e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 127 SIKVLLQSALSLGRSLDADYAPLQQFFVVMEHCLKHGLKvkksfigQNKSFFGPLeLVEKLCPEASDiatSVRNLPELKT 206
Cdd:cd17680  12 SLQSYSSSQEEEDVLITNENRELQRLCEALDHALLHGLR-------RGNRGYWPF-VKEFTHKETIK---QIENLPNVTT 80

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 26341772 207 AVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALMMEEEGM-VIVGLLVGL 263
Cdd:cd17680  81 DLGRGRAWLYLALNEGSLESYLRSFLENRKLVKKFYHKHALLRDSQRLeLLLTLLSGL 138
RUN1_DENND5 cd17677
RUN1 domain found in DENN domain-containing protein 5 (DENND5) and similar proteins; DENND5 ...
 162-267 3.63e-09

RUN1 domain found in DENN domain-containing protein 5 (DENND5) and similar proteins; DENND5 has been characterized as Rab6-interacting protein which is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. It functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. DENND5 has two isoforms, DENND5A and DENND5B. This model represents the first RUN domain of DENND5.


Pssm-ID: 439039  Cd Length: 183  Bit Score: 56.25  E-value: 3.63e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 162 HGLKVKksfigQNKSFFGP-----LELVEKLCPEASDIATSVRN---LPELKTAVGRGRAWLYLALMQKKLADYLKVLID 233
Cdd:cd17677  65 HGLQTK-----QGKSALWShllayQENEERLKPLPESLLFDMKNvqnMKEIKTDVGYARAWIRLALEKKLLSKHLKTLLS 139

                        90       100       110
                ....*....|....*....|....*....|....*
gi 26341772 234 NKQLLSEFYEPEA-LMMEEEGMVIVGLLVGLNVLD 267
Cdd:cd17677 140 NQDLLRSLYKRYAfLRCEDEREQFLYHLLSLNAVD 174
RUN1_DENND5B cd17691
RUN1 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, ...
 198-267 3.30e-08

RUN1 domain found in DENN domain-containing protein 5B (DENND5B) and similar proteins; DENND5B, also called Rab6-interacting protein 1 (Rab6IP1)-like protein, functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. It is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. This model represents the first RUN domain of DENND5B.


Pssm-ID: 439053 [Multi-domain]  Cd Length: 206  Bit Score: 53.91  E-value: 3.30e-08
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 26341772 198 VRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEA-LMMEEEGMVIVGLLVGLNVLD 267
Cdd:cd17691 127 IQNMSEIKTDVGRARAWIRLSLEKKLLSQHLKQLLSNQALTKKLYKRYAfLRCEEEKEQFLYHLLSLNAVD 197
RUN_RUBCN cd17686
RUN domain found in Run domain Beclin-1-interacting and cysteine-rich domain-containing ...
 149-246 4.59e-08

RUN domain found in Run domain Beclin-1-interacting and cysteine-rich domain-containing protein (RUBCN) and similar proteins; RUBCN, also called rubicon, or beclin-1 associated RUN domain containing protein (Baron), is part of a Beclin-1-Vps34-containing autophagy complex. It negatively regulates endosome maturation and degradative endocytic trafficking and impairs autophagosome maturation process. It is also an important negative regulator of the innate immune response, enhances viral replication and may play a role in viral immune evasion. This model contains the RUN domain of RUBCN.


Pssm-ID: 439048  Cd Length: 151  Bit Score: 52.27  E-value: 4.59e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 149 LQQFFVVMEHCLKHGLKVKKSFIGQNkSFFGPLELVEKLCPEASDIATSVRNLPELKTAVG-RGRAWLYLALMQKKLADY 227
Cdd:cd17686  21 LQRLCRAVENILQHGLKEFQGLNKEI-DDWEFVQGLRWLQPTLAPSIEQQSRSSPSESEVSdKGRLWLRQSLQQHCLSSQ 99

                        90
                ....*....|....*....
gi 26341772 228 LKVLIDNKQLLSEFYEPEA 246
Cdd:cd17686 100 LQWLVSDKELLRKYYEDEA 118
RUN_SGSM1 cd17703
RUN domain found in small G protein signaling modulator 1 (SGSM1) and similar proteins; SGSM1, ...
 145-262 7.77e-06

RUN domain found in small G protein signaling modulator 1 (SGSM1) and similar proteins; SGSM1, also called RUN and TBC1 domain-containing protein 2 (RUTBC2), interacts with numerous Rab family members, functioning as Rab effector for some, and as GTPase activator for others. It is a Rab9A effector and GTPase-activating protein for Rab36, and links Rab9A function to Rab36 function in the endosomal system. This model contains the RUN domain of SGSM1.


Pssm-ID: 439065  Cd Length: 177  Bit Score: 46.54  E-value: 7.77e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 145 DYAPLQQFFVVMEHCLKHGL-----------KVKKSFIGQNKSFfgplELVEKLCPEASD--------------IATSVR 199
Cdd:cd17703  19 DSSHIISFCAAVEACVLHGLkrraagflrsnKIAALFMKVGKSF----PPAEELCRKVQEleqllenkrnqmqgLQENVR 94

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 26341772 200 NLPELKTAVGRG--RAWLYLALMQKKLADYLKVLIDNKqllSEFYEPEALMMEE-EGMVIVGLLVG 262
Cdd:cd17703  95 KMPKLPNLSPQAikHLWIRTALFEKVLDKIVHYLVENS---SKYYEKEALLMDPvDGPILASLLVG 157
Macoilin pfam09726
Macoilin family; The Macoilin proteins has an N-terminal portion that is composed of 5 ...
 322-486 1.38e-04

Macoilin family; The Macoilin proteins has an N-terminal portion that is composed of 5 trasnmembrane helices, followed by a C-terminal coiled-coil region. Macoilin is a highly conserved protein present in eukaryotes. Macoilin appears to be found in the ER and be involved in the function of neurons.


Pssm-ID: 462859 [Multi-domain]  Cd Length: 670  Bit Score: 44.46  E-value: 1.38e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772   322 LSCTVGDLQTKIDGLEKTNSKLQEELSAATDRICSLQKEQQQLREQNEVIRERSEKSVEiTKQDTKVELETYKQTRQGLD 401
Cdd:pfam09726 400 LEQDIKKLKAELQASRQTEQELRSQISSLTSLERSLKSELGQLRQENDLLQTKLHNAVS-AKQKDKQTVQQLEKRLKAEQ 478

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772   402 EMYSDVWKQLKEEKKVRLELEKELELQIGM---------------KTEMEIAMKLLEKDTHEKQDTLVALrqqleEVKAI 466
Cdd:pfam09726 479 EARASAEKQLAEEKKRKKEEEATAARAVALaaasrgecteslkqrKRELESEIKKLTHDIKLKEEQIREL-----EIKVQ 553

                         170       180
                  ....*....|....*....|....*..
gi 26341772   467 NLQMFHKVQ-------SAESSLQQKNE 486
Cdd:pfam09726 554 ELRKYKESEkdtevlmSALSAMQDKNQ 580
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 315-490 2.46e-04

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 43.89  E-value: 2.46e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772    315 VEELNRHLSCTVGDLQTKIDGLEKTNSKLQEELSAATDRICSLQKEQQQLREQNEVIRERSeKSVEITKQDTKVELETYK 394
Cdd:TIGR02168  745 LEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREAL-DELRAELTLLNEEAANLR 823

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772    395 QTRQGLDEMYSDVWKQ---LKEEKKVRLELEKELELQIG------------------MKTEMEIAMKLLEKDTHEKQDTL 453
Cdd:TIGR02168  824 ERLESLERRIAATERRledLEEQIEELSEDIESLAAEIEeleelieeleseleallnERASLEEALALLRSELEELSEEL 903

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....
gi 26341772    454 -------VALRQQLEEVKAINLQMFHKVQSAESSLQQKNEAIAS 490
Cdd:TIGR02168  904 releskrSELRRELEELREKLAQLELRLEGLEVRIDNLQERLSE 947
RUN1_DENND5A cd17690
RUN1 domain found in DENN domain-containing protein 5A (DENND5A) and similar proteins; DENND5A, ...
 198-248 2.66e-04

RUN1 domain found in DENN domain-containing protein 5A (DENND5A) and similar proteins; DENND5A, also called Rab6-interacting protein 1 (Rab6IP1), is present predominantly in developing neuronal tissue, and functions in membrane trafficking at a crossroads between the Golgi and the endosomal system. It is composed of an N-terminal DENN (Differentially Expressed in Normal and Neoplastic cells) domain followed by two RUN (RPIP8 [RaP2-interacting protein 8], UNC-14, and NESCA [new molecule containing SH3 at the carboxyl terminus]) domains flanking a PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain. This model represents the first RUN domain of DENND5A.


Pssm-ID: 439052 [Multi-domain]  Cd Length: 209  Bit Score: 42.30  E-value: 2.66e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 26341772 198 VRNLPELKTAVGRGRAWLYLALMQKKLADYLKVLIDNKQLLSEFYEPEALM 248
Cdd:cd17690 130 IQNIGEIKTDVGKARAWVRLSMEKKLLSRHLKQLLSDHELTKKLYKRYAFL 180
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 302-492 6.93e-04

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 42.35  E-value: 6.93e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772    302 HERITDVLDQKNYVEELNRHLSCTVGDLQTKIDGLEKTNSKLQEELSAATDRICSLQKEQQQLREQNEVIRERSEKSvei 381
Cdd:TIGR02168  697 EKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEA--- 773

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772    382 tkQDTKVELETYKQTRQGLDEMYSDVWKQLKEEKKVRLELEKELELQIGMKTEmeiAMKLLEKDTHEKQDTLVALRQQLE 461
Cdd:TIGR02168  774 --EEELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRE---RLESLERRIAATERRLEDLEEQIE 848

                          170       180       190
                   ....*....|....*....|....*....|.
gi 26341772    462 EVKAINLQMFHKVQSAESSLQQKNEAIASFE 492
Cdd:TIGR02168  849 ELSEDIESLAAEIEELEELIEELESELEALL 879
EnvC COG4942
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 328-495 1.07e-03

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 41.29  E-value: 1.07e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 328 DLQTKIDGLEKTNSKLQEELSAATDRICSLQKEQQQLREQNEVIRE-------------RSEKSVEITKQDTKVE----L 390
Cdd:COG4942  59 ALERRIAALARRIRALEQELAALEAELAELEKEIAELRAELEAQKEelaellralyrlgRQPPLALLLSPEDFLDavrrL 138

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 391 ETYKQTRQGLDEMYSDVWKQLKEEKKVRLELEKELELQIGMKTEMEIAMKLLEKDTHEKQDTLVALRQQLEEVKAINLQM 470
Cdd:COG4942 139 QYLKYLAPARREQAEELRADLAELAALRAELEAERAELEALLAELEEERAALEALKAERQKLLARLEKELAELAAELAEL 218

                       170       180
                ....*....|....*....|....*
gi 26341772 471 FHKVQSAESSLQQKNEAIASFEGKT 495
Cdd:COG4942 219 QQEAEELEALIARLEAEAAAAAERT 243
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 329-483 2.55e-03

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 40.81  E-value: 2.55e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772    329 LQTKIDGLEKTNSKLQEELSAATDRICSLQKEQQQLREQNEVIRERsEKSVEITKQDTKVELETYKQTRQGLDEMYSDVW 408
Cdd:TIGR02168  265 LEEKLEELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRER-LANLERQLEELEAQLEELESKLDELAEELAELE 343

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 26341772    409 KQLKEEKKVRLELEKELELQIGMKTEMEIAMKLLEKDTHEKQDTLVALRQQLEEVKAinlqmfhKVQSAESSLQQ 483
Cdd:TIGR02168  344 EKLEELKEELESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLNN-------EIERLEARLER 411
DUF5401 pfam17380
Family of unknown function (DUF5401); This is a family of unknown function found in ...
 344-470 6.12e-03

Family of unknown function (DUF5401); This is a family of unknown function found in Chromadorea.


Pssm-ID: 375164 [Multi-domain]  Cd Length: 722  Bit Score: 39.34  E-value: 6.12e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772   344 QEELSAATDRICSLQKEQQQLREQNEVIRErseksveitkqdtkvELETYKQTRQGLDEMYSDVWKQLKEEKKVRLELEK 423
Cdd:pfam17380 367 QEEIAMEISRMRELERLQMERQQKNERVRQ---------------ELEAARKVKILEEERQRKIQQQKVEMEQIRAEQEE 431

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 26341772   424 ELELQIG-MKTEMEIAMKLLEKDTHEKQDTLVALRQQLEEVKAINLQM 470
Cdd:pfam17380 432 ARQREVRrLEEERAREMERVRLEEQERQQQVERLRQQEEERKRKKLEL 479
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
332-463 6.17e-03

Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 39.51  E-value: 6.17e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772  332 KIDGLEKTNSKLQEELSAATDRICSLQKEQQQLREQNEVIRERSEKS-VEITKQDTKVELETYKQTRQGLDEMySDVWKQ 410
Cdd:COG4913  611 KLAALEAELAELEEELAEAEERLEALEAELDALQERREALQRLAEYSwDEIDVASAEREIAELEAELERLDAS-SDDLAA 689

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 26341772  411 LKEEKKVRLELEKELELQIGmktEMEIAMKLLEKDTHEKQDTLVALRQQLEEV 463
Cdd:COG4913  690 LEEQLEELEAELEELEEELD---ELKGEIGRLEKELEQAEEELDELQDRLEAA 739
RUN_SGSM2 cd17704
RUN domain found in small G protein signaling modulator 2 (SGSM2) and similar proteins; SGSM2, ...
 155-262 8.25e-03

RUN domain found in small G protein signaling modulator 2 (SGSM2) and similar proteins; SGSM2, also called RUN and TBC1 domain-containing protein 1 (RUTBC1), is a GTPase-activating protein for Rab32/38, and regulates melanogenic enzyme trafficking in melanocytes. It also acts as a Rab9A effector that activates GTP hydrolysis by Rab32 and Rab33B proteins. This model contains the RUN domain of SGSM2.


Pssm-ID: 439066  Cd Length: 180  Bit Score: 37.60  E-value: 8.25e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 26341772 155 VMEHCLKHGLKVKKSFIGQNKSFFGPLELVEKLCPEASDIATSVRNL--------------PELKTAVGRGRA------- 213
Cdd:cd17704  29 VVEACLLHLLKRRAAGFLRSDKVAALFTKVGKTYPTAGDICKKVQELqqqvegrkntqstqEELRRQSSTTSKtppltpq 108

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*
gi 26341772 214 -----WLYLALMQKKLADYLKVLIDNkqlLSEFYEPEALMMEEE-GMVIVGLLVG 262
Cdd:cd17704 109 aikhiWVRTALIEKVLDKIVQYIVDN---CSKYYEKEALMSDPVcGPILASLLVG 160
 
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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