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Conserved domains on  [gi|334185921|ref|NP_001190068|]
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tetratricopeptide repeat (TPR)-containing protein [Arabidopsis thaliana]

Protein Classification

tetratricopeptide repeat protein( domain architecture ID 11700348)

tetratricopeptide repeat (TPR) protein may adopt a right-handed helical structure with an amphipathic channel and may function as an interaction scaffold in the formation of multi-protein complexes

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CLU pfam13236
Clustered mitochondria; The CLU domain (CLUstered mitochondria) is a eukaryotic domain found ...
 411-681 1.71e-95

Clustered mitochondria; The CLU domain (CLUstered mitochondria) is a eukaryotic domain found in proteins from fungi, protozoa, plants to humans. It is required for correct functioning of the mitochondria and mitochondrial transport although the exact function of the domain is unknown. In Dictyostelium the full-length protein is required for a very late step in fission of the outer mitochondrial membrane suggesting that mitochondria are transported along microtubules, as in mammalian cells, rather than along actin filaments, as in budding yeast. Disruption of the protein-impaired cytokinesis and caused mitochondria to cluster at the cell centre. It is likely that CLU functions in a novel pathway that positions mitochondria within the cell based on their physiological state. Disruption of the CLU pathway may enhance oxidative damage, alter gene expression, cause mitochondria to cluster at microtubule plus ends, and lead eventually to mitochondrial failure.


:

Pssm-ID: 463814  Cd Length: 225  Bit Score: 306.40  E-value: 1.71e-95
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   411 DWNEELQSCREFPHTSPQERfvslienflrcrILRDRALYKVSSDFVDAALNGAIGVISRCIPPINPTDPECLHMYVHNN 490
Cdd:pfam13236    1 DWNEEFQSLRELPRETLQER------------LLRERLLSKLASDFVEAATKGAKAIIDGNVLPLNPKEPPGGHKYLYNN 68

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   491 IFFSFAVDadieqlskkrpsnqmtekvsssekvscTEGTCDNEEhnncneaplveNEQATYASANNDLKGTKLYQEADVP 570
Cdd:pfam13236   69 IFFSFAVD---------------------------VRGTYPSLG-----------GDEAARKAAGKDLKGVKALNRLDIP 110

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   571 GLYNLAMAIIDYRGHRVVAQSVLPGILQGDK----SDALLYGSVDNGKKICWNEDFHAKVLEAAKLLHIKEHSVIDASET 646
Cdd:pfam13236  111 GLHTLLTAIVDYRGYRLIAQSILPGILSRDEetieKDTIVYGSSDGGKTVHSDEEFHELLKKIAKALNLKPHKVGDADGK 190

                          250       260       270
                   ....*....|....*....|....*....|....*
gi 334185921   647 VFKLAAPVECKGIVGSDNRHYLLDLMRVTPRDANY 681
Cdd:pfam13236  191 PVELYGSADIKGIKGTDGRYYVLDLARLFPPDVNF 225
eIF3_p135 pfam12807
Translation initiation factor eIF3 subunit 135; Translation initiation factor eIF3 is a ...
 825-1009 4.20e-61

Translation initiation factor eIF3 subunit 135; Translation initiation factor eIF3 is a multi-subunit protein complex required for initiation of protein biosynthesis in eukaryotic cells. The complex promotes ribosome dissociation, the binding of the initiator methionyl-tRNA to the 40 S ribosomal subunit, and mRNA recruitment to the ribosome. The protein product from TIF31 genes in yeast is p135 which associates with the eIF3 but does not seem to be necessary for protein translation initiation.


:

Pssm-ID: 463717  Cd Length: 168  Bit Score: 206.27  E-value: 4.20e-61
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   825 EVSPMDGQTLTEALHAHGVNVRYIGRVANGVKH------LPHLWDLCLNEITVRSAKHILKDILRDIEDHDIGSAVSHFL 898
Cdd:pfam12807    1 SSFPMDGQSLTEALHKRGINMRYLGKIAKKLSKspnkarLEHLKRLCVQEMIARAAKHILRKYLRGVPPPLLSAAVSHFL 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   899 NCFFGNYQTAGGKASANSSTAKNQKKffgadqpitkkgqgrgkgkasskkSFSSYMMVDSNILWSDIQEFAKAKYEFELP 978
Cdd:pfam12807   81 NCLLGSSLNPKPTAEIDELLKGLYKK------------------------KNRAWAKLTPESLWEEIEQEVKSRFRYELP 136

                          170       180       190
                   ....*....|....*....|....*....|..
gi 334185921   979 ELSRTTA-KKVSVLRNLCQKVGVSIAARKYDF 1009
Cdd:pfam12807  137 EDWVDSGlQKISLLREICLKTGIQLLAREYNF 168
TPR_12 pfam13424
Tetratricopeptide repeat;
1161-1235 4.90e-14

Tetratricopeptide repeat;


:

Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 68.57  E-value: 4.90e-14
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 334185921  1161 DVAATFINVAMMYQDMGKMDTALRYLQEALKKNERLLGPEHIQTAVCYHALAIAFNCMGAFKLSHQHEKKTYDIL 1235
Cdd:pfam13424    1 DVATALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALALA 75
CLU_N super family cl20917
Mitochondrial function, CLU-N-term; CLU_N is the N-terminal domain of the Clueless protein, ...
 128-203 6.73e-13

Mitochondrial function, CLU-N-term; CLU_N is the N-terminal domain of the Clueless protein, also known as TIF31-like in other organizms. The function of this domain is not known. It family is found in association with pfam13236.


The actual alignment was detected with superfamily member pfam15044:

Pssm-ID: 464466  Cd Length: 79  Bit Score: 65.36  E-value: 6.73e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 334185921   128 DSVMDIRQFLLDAPETCYFTCYELLLRNKDGEthHLEDYNEISEVA-DITIGGCSLEMVAALYDDRSIRAHVHRARD 203
Cdd:pfam15044    3 ETVQDLRQVLSELPATKYLTNYHLEYQNGNGE--RLNEFVTLSEIIeELDVDELKLQLKEKPYTEREALEHVLRFRE 77
FxSxx_TPR super family cl48889
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 1062-1242 4.75e-11

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


The actual alignment was detected with superfamily member NF040586:

Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 67.64  E-value: 4.75e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1062 EAFSILQQVTGPMHREVANCCRYLAMVLYHAGDMAGAI-MQQHKELIINERCLGLDHPDT---AHSYGnMALfyHGLNQT 1137
Cdd:NF040586  545 EVLRRRRRVLGPDHPRTLLSANNLARDLRELGRYAEALdLLEEALERYREVLGGPDHPDTlraAKSLA-VAL--RRAGRL 621

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1138 ELALQNMGRALLLLGLSSGPDHPDVAATFINVAMMYQDMGKMDTALRYLQEALKKNERLLGPEHIQTAVCYHALAIAFNC 1217
Cdd:NF040586  622 EEALELAEDTYERYRRRFGPDHPDTLAAALSLANDLRALGDADEARELAREVLDRYRRVLGEDHPFTLACRNNLAVLLRA 701

                         170       180
                  ....*....|....*....|....*
gi 334185921 1218 MGAFKLSHQHEKKTYDILVKQLGDD 1242
Cdd:NF040586  702 LGDPEEARELAEAALEGLRERLGPD 726
GSKIP_dom super family cl05054
GSKIP domain; This domain is found in GSK3-beta interaction protein (GSKIP), which binds to ...
 256-358 5.79e-05

GSKIP domain; This domain is found in GSK3-beta interaction protein (GSKIP), which binds to GSK3beta. It is also found as a short domain towards the N terminus in clustered mitochondria protein, also known as clueless in Drosophila, which is involved in proper cytoplasmic distribution of mitochondria.


The actual alignment was detected with superfamily member pfam05303:

Pssm-ID: 398795  Cd Length: 103  Bit Score: 43.34  E-value: 5.79e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   256 LKKLINSTSEEIR-SVENIVFSSFNPPPShrrlvgDLIYLDVVTLEGNKYCITGTTKTFYVNSSSGNILDPRPSKSG--F 332
Cdd:pfam05303    1 FRLEAEAAVNDVAfGVKDISVSEKLPSTN------GVAYINVTTLEGNRYCIELSAAGFRIVGYRYDCVDGESEDHTkyY 74

                           90       100
                   ....*....|....*....|....*..
gi 334185921   333 EaaTLIGLLQKLSSKFKKAF-REVMEK 358
Cdd:pfam05303   75 E--TLYALLDYISPLYRESFgEALLEK 99
 
Name Accession Description Interval E-value
CLU pfam13236
Clustered mitochondria; The CLU domain (CLUstered mitochondria) is a eukaryotic domain found ...
 411-681 1.71e-95

Clustered mitochondria; The CLU domain (CLUstered mitochondria) is a eukaryotic domain found in proteins from fungi, protozoa, plants to humans. It is required for correct functioning of the mitochondria and mitochondrial transport although the exact function of the domain is unknown. In Dictyostelium the full-length protein is required for a very late step in fission of the outer mitochondrial membrane suggesting that mitochondria are transported along microtubules, as in mammalian cells, rather than along actin filaments, as in budding yeast. Disruption of the protein-impaired cytokinesis and caused mitochondria to cluster at the cell centre. It is likely that CLU functions in a novel pathway that positions mitochondria within the cell based on their physiological state. Disruption of the CLU pathway may enhance oxidative damage, alter gene expression, cause mitochondria to cluster at microtubule plus ends, and lead eventually to mitochondrial failure.


Pssm-ID: 463814  Cd Length: 225  Bit Score: 306.40  E-value: 1.71e-95
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   411 DWNEELQSCREFPHTSPQERfvslienflrcrILRDRALYKVSSDFVDAALNGAIGVISRCIPPINPTDPECLHMYVHNN 490
Cdd:pfam13236    1 DWNEEFQSLRELPRETLQER------------LLRERLLSKLASDFVEAATKGAKAIIDGNVLPLNPKEPPGGHKYLYNN 68

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   491 IFFSFAVDadieqlskkrpsnqmtekvsssekvscTEGTCDNEEhnncneaplveNEQATYASANNDLKGTKLYQEADVP 570
Cdd:pfam13236   69 IFFSFAVD---------------------------VRGTYPSLG-----------GDEAARKAAGKDLKGVKALNRLDIP 110

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   571 GLYNLAMAIIDYRGHRVVAQSVLPGILQGDK----SDALLYGSVDNGKKICWNEDFHAKVLEAAKLLHIKEHSVIDASET 646
Cdd:pfam13236  111 GLHTLLTAIVDYRGYRLIAQSILPGILSRDEetieKDTIVYGSSDGGKTVHSDEEFHELLKKIAKALNLKPHKVGDADGK 190

                          250       260       270
                   ....*....|....*....|....*....|....*
gi 334185921   647 VFKLAAPVECKGIVGSDNRHYLLDLMRVTPRDANY 681
Cdd:pfam13236  191 PVELYGSADIKGIKGTDGRYYVLDLARLFPPDVNF 225
eIF3_p135 pfam12807
Translation initiation factor eIF3 subunit 135; Translation initiation factor eIF3 is a ...
 825-1009 4.20e-61

Translation initiation factor eIF3 subunit 135; Translation initiation factor eIF3 is a multi-subunit protein complex required for initiation of protein biosynthesis in eukaryotic cells. The complex promotes ribosome dissociation, the binding of the initiator methionyl-tRNA to the 40 S ribosomal subunit, and mRNA recruitment to the ribosome. The protein product from TIF31 genes in yeast is p135 which associates with the eIF3 but does not seem to be necessary for protein translation initiation.


Pssm-ID: 463717  Cd Length: 168  Bit Score: 206.27  E-value: 4.20e-61
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   825 EVSPMDGQTLTEALHAHGVNVRYIGRVANGVKH------LPHLWDLCLNEITVRSAKHILKDILRDIEDHDIGSAVSHFL 898
Cdd:pfam12807    1 SSFPMDGQSLTEALHKRGINMRYLGKIAKKLSKspnkarLEHLKRLCVQEMIARAAKHILRKYLRGVPPPLLSAAVSHFL 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   899 NCFFGNYQTAGGKASANSSTAKNQKKffgadqpitkkgqgrgkgkasskkSFSSYMMVDSNILWSDIQEFAKAKYEFELP 978
Cdd:pfam12807   81 NCLLGSSLNPKPTAEIDELLKGLYKK------------------------KNRAWAKLTPESLWEEIEQEVKSRFRYELP 136

                          170       180       190
                   ....*....|....*....|....*....|..
gi 334185921   979 ELSRTTA-KKVSVLRNLCQKVGVSIAARKYDF 1009
Cdd:pfam12807  137 EDWVDSGlQKISLLREICLKTGIQLLAREYNF 168
CLU-central cd15466
An uncharacterized central domain of CLU mitochondrial proteins; Mutations in the ...
 828-1009 4.23e-49

An uncharacterized central domain of CLU mitochondrial proteins; Mutations in the mitochondrial CLU proteins have been shown to result in clustered mitochondria. CLU proteins include Saccharomyces cerevisiae clustered mitochondria protein (Clu1p, alias translation initiation factor 31/TIF31p), Dictyostelium discoideum clustered mitochondria protein homolog (CluA), Caenorhabditis elegans clustered mitochondria protein homolog (CLUH/ Protein KIAA0664), Drosophila clueless (alias clustered mitochondria protein homolog), Arabidopsis clustered mitochondria protein (CLU, alias friendly mitochondria protein/FMT), and human clustered mitochondria protein homolog (CLUH). Dictyostelium CluA is involved in mitochondrial dynamics and is necessary for both, mitochondrial fission and fusion. Drosophila clueless is essential for cytoplasmic localization and function of cellular mitochondria. The Drosophila clu gene interacts genetically with parkin (park, the Drosophila ortholog of a human gene responsible for many familial cases of Parkinson's disease). Arabidopsis CLU/FMT is required for correct mitochondrial distribution and morphology. The specific role CLU proteins play in mitochondrial processes in not yet known. In an early study, S. cerevisiae Clu1/TIF31p was reported as sometimes being associated with the elF3 translation initiation factor. The authors noted, however, that its tentative assignment as a subunit of elf3 was uncertain, and to date there has been no direct evidence for a role of this protein in translation.


Pssm-ID: 271318  Cd Length: 159  Bit Score: 171.77  E-value: 4.23e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921  828 PMDGQTLTEALHAHGVNVRYIGRVANGV---KHLPHLWDLCLNEITVRSAKHILKDILRDIEDHDIGSAVSHFLNCFFGN 904
Cdd:cd15466     1 PIDGASLTELLHRRGINMRYLGKVAELIsklPKLPHLKRLLLTEMVARAAKHILRAYLRSVPLAELSAAVAHFLNCLLGS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921  905 YQTAggkasanSSTAKNQKKFFGADQPitkkgqgrgkgkasskksfsSYMMVDSNILWSDIQEFAKAKYEFELPELSRTT 984
Cdd:cd15466    81 SSNP-------APSAEIDEELKPAADT--------------------SWASLTPSFLWKEIKKEVKKRFRYDLPEESLDE 133

                         170       180
                  ....*....|....*....|....*.
gi 334185921  985 A-KKVSVLRNLCQKVGVSIAARKYDF 1009
Cdd:cd15466   134 GlRKLSLLRELCLKVGIQLLARDYDF 159
TPR_12 pfam13424
Tetratricopeptide repeat;
1161-1235 4.90e-14

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 68.57  E-value: 4.90e-14
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 334185921  1161 DVAATFINVAMMYQDMGKMDTALRYLQEALKKNERLLGPEHIQTAVCYHALAIAFNCMGAFKLSHQHEKKTYDIL 1235
Cdd:pfam13424    1 DVATALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALALA 75
CLU_N pfam15044
Mitochondrial function, CLU-N-term; CLU_N is the N-terminal domain of the Clueless protein, ...
 128-203 6.73e-13

Mitochondrial function, CLU-N-term; CLU_N is the N-terminal domain of the Clueless protein, also known as TIF31-like in other organizms. The function of this domain is not known. It family is found in association with pfam13236.


Pssm-ID: 464466  Cd Length: 79  Bit Score: 65.36  E-value: 6.73e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 334185921   128 DSVMDIRQFLLDAPETCYFTCYELLLRNKDGEthHLEDYNEISEVA-DITIGGCSLEMVAALYDDRSIRAHVHRARD 203
Cdd:pfam15044    3 ETVQDLRQVLSELPATKYLTNYHLEYQNGNGE--RLNEFVTLSEIIeELDVDELKLQLKEKPYTEREALEHVLRFRE 77
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 1062-1242 4.75e-11

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 67.64  E-value: 4.75e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1062 EAFSILQQVTGPMHREVANCCRYLAMVLYHAGDMAGAI-MQQHKELIINERCLGLDHPDT---AHSYGnMALfyHGLNQT 1137
Cdd:NF040586  545 EVLRRRRRVLGPDHPRTLLSANNLARDLRELGRYAEALdLLEEALERYREVLGGPDHPDTlraAKSLA-VAL--RRAGRL 621

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1138 ELALQNMGRALLLLGLSSGPDHPDVAATFINVAMMYQDMGKMDTALRYLQEALKKNERLLGPEHIQTAVCYHALAIAFNC 1217
Cdd:NF040586  622 EEALELAEDTYERYRRRFGPDHPDTLAAALSLANDLRALGDADEARELAREVLDRYRRVLGEDHPFTLACRNNLAVLLRA 701

                         170       180
                  ....*....|....*....|....*
gi 334185921 1218 MGAFKLSHQHEKKTYDILVKQLGDD 1242
Cdd:NF040586  702 LGDPEEARELAEAALEGLRERLGPD 726
TPR_12 pfam13424
Tetratricopeptide repeat;
1119-1191 9.37e-10

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 56.24  E-value: 9.37e-10
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 334185921  1119 DTAHSYGNMALFYHGLNQTELALQNMGRALLLLGLSSGPDHPDVAATFINVAMMYQDMGKMDTALRYLQEALK 1191
Cdd:pfam13424    1 DVATALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALA 73
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
1077-1234 3.35e-09

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 59.25  E-value: 3.35e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1077 EVANCCRYLAMVLYHAGDMAGAImqqhkELIinERCLGLDhPDTAHSYGNMALFYHGLNQTELALQNMGRALLLlglssg 1156
Cdd:COG0457     6 DDAEAYNNLGLAYRRLGRYEEAI-----EDY--EKALELD-PDDAEALYNLGLAYLRLGRYEEALADYEQALEL------ 71

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 334185921 1157 pdHPDVAATFINVAMMYQDMGKMDTALRYLQEALKKNerllgPEHiqtAVCYHALAIAFNCMGAFKLSHQHEKKTYDI 1234
Cdd:COG0457    72 --DPDDAEALNNLGLALQALGRYEEALEDYDKALELD-----PDD---AEALYNLGLALLELGRYDEAIEAYERALEL 139
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 1051-1252 1.21e-08

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 59.93  E-value: 1.21e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1051 GMLSESYTFFSEAFSILQQVTGPMHREVANCCRYLAMVLYHAGDMAGAIMQQHKELIINERCLGLDHPDTAHSYGNMALF 1130
Cdd:NF040586  619 GRLEEALELAEDTYERYRRRFGPDHPDTLAAALSLANDLRALGDADEARELAREVLDRYRRVLGEDHPFTLACRNNLAVL 698

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1131 YHGLNQTELALQNMGRALLLLGLSSGPDHPDVAATFINVAMMYQDMGKMDTALRylQEALKKNERLL------GPEHIQT 1204
Cdd:NF040586  699 LRALGDPEEARELAEAALEGLRERLGPDHPYTLAAAVNLANDLAALGDLDAALG--EEALERLRRLLgedlraGPDHPDT 776

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 334185921 1205 AVCYHALAIAFNCMGAFKLSHQHEKKTYDILVKQLGDDDSRTRDSLNW 1252
Cdd:NF040586  777 LACAANLALDLRATGRTEEAEELRADTLARLRRVLGPDHPDTVAAREG 824
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
1118-1219 5.45e-05

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 46.54  E-value: 5.45e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1118 PDTAHSYGNMALFYHGLNQTELALQNMGRALLLlglssgpdHPDVAATFINVAMMYQDMGKMDTALRYLQEALKKNerll 1197
Cdd:COG0457     5 PDDAEAYNNLGLAYRRLGRYEEAIEDYEKALEL--------DPDDAEALYNLGLAYLRLGRYEEALADYEQALELD---- 72

                          90       100
                  ....*....|....*....|..
gi 334185921 1198 gPEHIQTavcYHALAIAFNCMG 1219
Cdd:COG0457    73 -PDDAEA---LNNLGLALQALG 90
GSKIP_dom pfam05303
GSKIP domain; This domain is found in GSK3-beta interaction protein (GSKIP), which binds to ...
 256-358 5.79e-05

GSKIP domain; This domain is found in GSK3-beta interaction protein (GSKIP), which binds to GSK3beta. It is also found as a short domain towards the N terminus in clustered mitochondria protein, also known as clueless in Drosophila, which is involved in proper cytoplasmic distribution of mitochondria.


Pssm-ID: 398795  Cd Length: 103  Bit Score: 43.34  E-value: 5.79e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   256 LKKLINSTSEEIR-SVENIVFSSFNPPPShrrlvgDLIYLDVVTLEGNKYCITGTTKTFYVNSSSGNILDPRPSKSG--F 332
Cdd:pfam05303    1 FRLEAEAAVNDVAfGVKDISVSEKLPSTN------GVAYINVTTLEGNRYCIELSAAGFRIVGYRYDCVDGESEDHTkyY 74

                           90       100
                   ....*....|....*....|....*..
gi 334185921   333 EaaTLIGLLQKLSSKFKKAF-REVMEK 358
Cdd:pfam05303   75 E--TLYALLDYISPLYRESFgEALLEK 99
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 1072-1246 1.86e-04

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 46.07  E-value: 1.86e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1072 GPMHREVANCCRYLAMVL-----YH-AGDMAGAIMQQHKELIInercLGLDHPDT---AHSYGN--MAL--FYHGLNQTE 1138
Cdd:NF040586  427 GPDDRQTLRLRFHLANALrslgrYEeARELDEDTLERQRRVLG----LGEDHPHTlmtAGGLGAdlRALgrFREALELDE 502

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1139 LALQNMGRALLllglssgPDHPDVAATFINVAMMYQDMGKMDTALRYLQEALKKNERLLGPEHIQTAVCYHALAIAFNCM 1218
Cdd:NF040586  503 ETLERHRRVFG-------EDHPRTLRAANNLAVSLRLLGDYREALELDREVLRRRRRVLGPDHPRTLLSANNLARDLREL 575

                         170       180
                  ....*....|....*....|....*...
gi 334185921 1219 GAFKLSHQHEKKTYDILVKQLGDDDSRT 1246
Cdd:NF040586  576 GRYAEALDLLEEALERYREVLGGPDHPD 603
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 1157-1253 1.25e-03

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 43.37  E-value: 1.25e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1157 PDHPDVAATFINVAMMYQDMGKMDTALRYLQEALKKNERLLGPEHIQTAVCYHALAIAFNCMGAFKLSHQHEKKTYDILV 1236
Cdd:NF040586  472 EDHPHTLMTAGGLGADLRALGRFREALELDEETLERHRRVFGEDHPRTLRAANNLAVSLRLLGDYREALELDREVLRRRR 551

                          90
                  ....*....|....*..
gi 334185921 1237 KQLGDDDSRTRDSLNWM 1253
Cdd:NF040586  552 RVLGPDHPRTLLSANNL 568
 
Name Accession Description Interval E-value
CLU pfam13236
Clustered mitochondria; The CLU domain (CLUstered mitochondria) is a eukaryotic domain found ...
 411-681 1.71e-95

Clustered mitochondria; The CLU domain (CLUstered mitochondria) is a eukaryotic domain found in proteins from fungi, protozoa, plants to humans. It is required for correct functioning of the mitochondria and mitochondrial transport although the exact function of the domain is unknown. In Dictyostelium the full-length protein is required for a very late step in fission of the outer mitochondrial membrane suggesting that mitochondria are transported along microtubules, as in mammalian cells, rather than along actin filaments, as in budding yeast. Disruption of the protein-impaired cytokinesis and caused mitochondria to cluster at the cell centre. It is likely that CLU functions in a novel pathway that positions mitochondria within the cell based on their physiological state. Disruption of the CLU pathway may enhance oxidative damage, alter gene expression, cause mitochondria to cluster at microtubule plus ends, and lead eventually to mitochondrial failure.


Pssm-ID: 463814  Cd Length: 225  Bit Score: 306.40  E-value: 1.71e-95
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   411 DWNEELQSCREFPHTSPQERfvslienflrcrILRDRALYKVSSDFVDAALNGAIGVISRCIPPINPTDPECLHMYVHNN 490
Cdd:pfam13236    1 DWNEEFQSLRELPRETLQER------------LLRERLLSKLASDFVEAATKGAKAIIDGNVLPLNPKEPPGGHKYLYNN 68

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   491 IFFSFAVDadieqlskkrpsnqmtekvsssekvscTEGTCDNEEhnncneaplveNEQATYASANNDLKGTKLYQEADVP 570
Cdd:pfam13236   69 IFFSFAVD---------------------------VRGTYPSLG-----------GDEAARKAAGKDLKGVKALNRLDIP 110

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   571 GLYNLAMAIIDYRGHRVVAQSVLPGILQGDK----SDALLYGSVDNGKKICWNEDFHAKVLEAAKLLHIKEHSVIDASET 646
Cdd:pfam13236  111 GLHTLLTAIVDYRGYRLIAQSILPGILSRDEetieKDTIVYGSSDGGKTVHSDEEFHELLKKIAKALNLKPHKVGDADGK 190

                          250       260       270
                   ....*....|....*....|....*....|....*
gi 334185921   647 VFKLAAPVECKGIVGSDNRHYLLDLMRVTPRDANY 681
Cdd:pfam13236  191 PVELYGSADIKGIKGTDGRYYVLDLARLFPPDVNF 225
eIF3_p135 pfam12807
Translation initiation factor eIF3 subunit 135; Translation initiation factor eIF3 is a ...
 825-1009 4.20e-61

Translation initiation factor eIF3 subunit 135; Translation initiation factor eIF3 is a multi-subunit protein complex required for initiation of protein biosynthesis in eukaryotic cells. The complex promotes ribosome dissociation, the binding of the initiator methionyl-tRNA to the 40 S ribosomal subunit, and mRNA recruitment to the ribosome. The protein product from TIF31 genes in yeast is p135 which associates with the eIF3 but does not seem to be necessary for protein translation initiation.


Pssm-ID: 463717  Cd Length: 168  Bit Score: 206.27  E-value: 4.20e-61
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   825 EVSPMDGQTLTEALHAHGVNVRYIGRVANGVKH------LPHLWDLCLNEITVRSAKHILKDILRDIEDHDIGSAVSHFL 898
Cdd:pfam12807    1 SSFPMDGQSLTEALHKRGINMRYLGKIAKKLSKspnkarLEHLKRLCVQEMIARAAKHILRKYLRGVPPPLLSAAVSHFL 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   899 NCFFGNYQTAGGKASANSSTAKNQKKffgadqpitkkgqgrgkgkasskkSFSSYMMVDSNILWSDIQEFAKAKYEFELP 978
Cdd:pfam12807   81 NCLLGSSLNPKPTAEIDELLKGLYKK------------------------KNRAWAKLTPESLWEEIEQEVKSRFRYELP 136

                          170       180       190
                   ....*....|....*....|....*....|..
gi 334185921   979 ELSRTTA-KKVSVLRNLCQKVGVSIAARKYDF 1009
Cdd:pfam12807  137 EDWVDSGlQKISLLREICLKTGIQLLAREYNF 168
CLU-central cd15466
An uncharacterized central domain of CLU mitochondrial proteins; Mutations in the ...
 828-1009 4.23e-49

An uncharacterized central domain of CLU mitochondrial proteins; Mutations in the mitochondrial CLU proteins have been shown to result in clustered mitochondria. CLU proteins include Saccharomyces cerevisiae clustered mitochondria protein (Clu1p, alias translation initiation factor 31/TIF31p), Dictyostelium discoideum clustered mitochondria protein homolog (CluA), Caenorhabditis elegans clustered mitochondria protein homolog (CLUH/ Protein KIAA0664), Drosophila clueless (alias clustered mitochondria protein homolog), Arabidopsis clustered mitochondria protein (CLU, alias friendly mitochondria protein/FMT), and human clustered mitochondria protein homolog (CLUH). Dictyostelium CluA is involved in mitochondrial dynamics and is necessary for both, mitochondrial fission and fusion. Drosophila clueless is essential for cytoplasmic localization and function of cellular mitochondria. The Drosophila clu gene interacts genetically with parkin (park, the Drosophila ortholog of a human gene responsible for many familial cases of Parkinson's disease). Arabidopsis CLU/FMT is required for correct mitochondrial distribution and morphology. The specific role CLU proteins play in mitochondrial processes in not yet known. In an early study, S. cerevisiae Clu1/TIF31p was reported as sometimes being associated with the elF3 translation initiation factor. The authors noted, however, that its tentative assignment as a subunit of elf3 was uncertain, and to date there has been no direct evidence for a role of this protein in translation.


Pssm-ID: 271318  Cd Length: 159  Bit Score: 171.77  E-value: 4.23e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921  828 PMDGQTLTEALHAHGVNVRYIGRVANGV---KHLPHLWDLCLNEITVRSAKHILKDILRDIEDHDIGSAVSHFLNCFFGN 904
Cdd:cd15466     1 PIDGASLTELLHRRGINMRYLGKVAELIsklPKLPHLKRLLLTEMVARAAKHILRAYLRSVPLAELSAAVAHFLNCLLGS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921  905 YQTAggkasanSSTAKNQKKFFGADQPitkkgqgrgkgkasskksfsSYMMVDSNILWSDIQEFAKAKYEFELPELSRTT 984
Cdd:cd15466    81 SSNP-------APSAEIDEELKPAADT--------------------SWASLTPSFLWKEIKKEVKKRFRYDLPEESLDE 133

                         170       180
                  ....*....|....*....|....*.
gi 334185921  985 A-KKVSVLRNLCQKVGVSIAARKYDF 1009
Cdd:cd15466   134 GlRKLSLLRELCLKVGIQLLARDYDF 159
TPR_12 pfam13424
Tetratricopeptide repeat;
1161-1235 4.90e-14

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 68.57  E-value: 4.90e-14
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 334185921  1161 DVAATFINVAMMYQDMGKMDTALRYLQEALKKNERLLGPEHIQTAVCYHALAIAFNCMGAFKLSHQHEKKTYDIL 1235
Cdd:pfam13424    1 DVATALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALALA 75
CLU_N pfam15044
Mitochondrial function, CLU-N-term; CLU_N is the N-terminal domain of the Clueless protein, ...
 128-203 6.73e-13

Mitochondrial function, CLU-N-term; CLU_N is the N-terminal domain of the Clueless protein, also known as TIF31-like in other organizms. The function of this domain is not known. It family is found in association with pfam13236.


Pssm-ID: 464466  Cd Length: 79  Bit Score: 65.36  E-value: 6.73e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 334185921   128 DSVMDIRQFLLDAPETCYFTCYELLLRNKDGEthHLEDYNEISEVA-DITIGGCSLEMVAALYDDRSIRAHVHRARD 203
Cdd:pfam15044    3 ETVQDLRQVLSELPATKYLTNYHLEYQNGNGE--RLNEFVTLSEIIeELDVDELKLQLKEKPYTEREALEHVLRFRE 77
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 1062-1242 4.75e-11

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 67.64  E-value: 4.75e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1062 EAFSILQQVTGPMHREVANCCRYLAMVLYHAGDMAGAI-MQQHKELIINERCLGLDHPDT---AHSYGnMALfyHGLNQT 1137
Cdd:NF040586  545 EVLRRRRRVLGPDHPRTLLSANNLARDLRELGRYAEALdLLEEALERYREVLGGPDHPDTlraAKSLA-VAL--RRAGRL 621

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1138 ELALQNMGRALLLLGLSSGPDHPDVAATFINVAMMYQDMGKMDTALRYLQEALKKNERLLGPEHIQTAVCYHALAIAFNC 1217
Cdd:NF040586  622 EEALELAEDTYERYRRRFGPDHPDTLAAALSLANDLRALGDADEARELAREVLDRYRRVLGEDHPFTLACRNNLAVLLRA 701

                         170       180
                  ....*....|....*....|....*
gi 334185921 1218 MGAFKLSHQHEKKTYDILVKQLGDD 1242
Cdd:NF040586  702 LGDPEEARELAEAALEGLRERLGPD 726
TPR_12 pfam13424
Tetratricopeptide repeat;
1119-1191 9.37e-10

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 56.24  E-value: 9.37e-10
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 334185921  1119 DTAHSYGNMALFYHGLNQTELALQNMGRALLLLGLSSGPDHPDVAATFINVAMMYQDMGKMDTALRYLQEALK 1191
Cdd:pfam13424    1 DVATALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALA 73
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
1077-1234 3.35e-09

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 59.25  E-value: 3.35e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1077 EVANCCRYLAMVLYHAGDMAGAImqqhkELIinERCLGLDhPDTAHSYGNMALFYHGLNQTELALQNMGRALLLlglssg 1156
Cdd:COG0457     6 DDAEAYNNLGLAYRRLGRYEEAI-----EDY--EKALELD-PDDAEALYNLGLAYLRLGRYEEALADYEQALEL------ 71

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 334185921 1157 pdHPDVAATFINVAMMYQDMGKMDTALRYLQEALKKNerllgPEHiqtAVCYHALAIAFNCMGAFKLSHQHEKKTYDI 1234
Cdd:COG0457    72 --DPDDAEALNNLGLALQALGRYEEALEDYDKALELD-----PDD---AEALYNLGLALLELGRYDEAIEAYERALEL 139
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 1051-1252 1.21e-08

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 59.93  E-value: 1.21e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1051 GMLSESYTFFSEAFSILQQVTGPMHREVANCCRYLAMVLYHAGDMAGAIMQQHKELIINERCLGLDHPDTAHSYGNMALF 1130
Cdd:NF040586  619 GRLEEALELAEDTYERYRRRFGPDHPDTLAAALSLANDLRALGDADEARELAREVLDRYRRVLGEDHPFTLACRNNLAVL 698

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1131 YHGLNQTELALQNMGRALLLLGLSSGPDHPDVAATFINVAMMYQDMGKMDTALRylQEALKKNERLL------GPEHIQT 1204
Cdd:NF040586  699 LRALGDPEEARELAEAALEGLRERLGPDHPYTLAAAVNLANDLAALGDLDAALG--EEALERLRRLLgedlraGPDHPDT 776

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 334185921 1205 AVCYHALAIAFNCMGAFKLSHQHEKKTYDILVKQLGDDDSRTRDSLNW 1252
Cdd:NF040586  777 LACAANLALDLRATGRTEEAEELRADTLARLRRVLGPDHPDTVAAREG 824
TPR_10 pfam13374
Tetratricopeptide repeat;
1162-1201 1.26e-07

Tetratricopeptide repeat;


Pssm-ID: 463861 [Multi-domain]  Cd Length: 42  Bit Score: 49.04  E-value: 1.26e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 334185921  1162 VAATFINVAMMYQDMGKMDTALRYLQEALKKNERLLGPEH 1201
Cdd:pfam13374    1 TASSLNNLANALRAQGRYDEAEELLEEALAIRERVLGPDH 40
TPR_12 pfam13424
Tetratricopeptide repeat;
1085-1147 2.67e-07

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 49.31  E-value: 2.67e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 334185921  1085 LAMVLYHAGDMAGAIMQQHKELIINERCLGLDHPDTAHSYGNMALFYHGLNQTELALQNMGRA 1147
Cdd:pfam13424    9 LAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERA 71
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 1040-1211 1.27e-06

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 51.65  E-value: 1.27e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1040 LVEMGKVQLAEGMLSESYTFFSEAFSilqqvTGPMHREVAnccRYLAMVLYHAGDMAGAImQQHKELIinerclgLDHPD 1119
Cdd:COG2956    79 LLELAQDYLKAGLLDRAEELLEKLLE-----LDPDDAEAL---RLLAEIYEQEGDWEKAI-EVLERLL-------KLGPE 142

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1120 TAHSYGNMALFYHGLNQTELALQNMGRALLLlglssgpdHPDVAATFINVAMMYQDMGKMDTALRYLQEALKKNerllgP 1199
Cdd:COG2956   143 NAHAYCELAELYLEQGDYDEAIEALEKALKL--------DPDCARALLLLAELYLEQGDYEEAIAALERALEQD-----P 209

                         170
                  ....*....|....*.
gi 334185921 1200 EHIQTAV----CYHAL 1211
Cdd:COG2956   210 DYLPALPrlaeLYEKL 225
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 1084-1216 2.20e-06

Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 52.30  E-value: 2.20e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1084 YLAMVLYHAGDMAGAIMQQHKELIINerclgldhPDTAHSYGNMALFYHGLNQTELALQNMGRALLLlglssgpdHPDVA 1163
Cdd:COG3914   117 NLGNLLLALGRLEEALAALRRALALN--------PDFAEAYLNLGEALRRLGRLEEAIAALRRALEL--------DPDNA 180

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 334185921 1164 ATFINVAMMYQDMGKMDTALRYLQEALKKNerllgPEHIQtaVCYHALAIAFN 1216
Cdd:COG3914   181 EALNNLGNALQDLGRLEEAIAAYRRALELD-----PDNAD--AHSNLLFALRQ 226
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 1037-1193 3.34e-06

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 48.26  E-value: 3.34e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1037 AKDLVEMGKVQLAEGMLSESYTFFSEAFSILqqvtgPMHREVANccrYLAMVLYHAGDMAGAIMQQHKELIINerclgld 1116
Cdd:COG4783     4 AEALYALAQALLLAGDYDEAEALLEKALELD-----PDNPEAFA---LLGEILLQLGDLDEAIVLLHEALELD------- 68

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 334185921 1117 hPDTAHSYGNMALFYHGLNQTELALQNMGRALLLLglssgPDHPDVaatFINVAMMYQDMGKMDTALRYLQEALKKN 1193
Cdd:COG4783    69 -PDEPEARLNLGLALLKAGDYDEALALLEKALKLD-----PEHPEA---YLRLARAYRALGRPDEAIAALEKALELD 136
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
1088-1197 3.48e-06

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 46.70  E-value: 3.48e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1088 VLYHAGDMAGAImqqhKELiinERCLGLDhPDTAHSYGNMALFYHGLNQTELALQnMGRALLLlglssgpdHPDVAATFI 1167
Cdd:COG3063     1 LYLKLGDLEEAE----EYY---EKALELD-PDNADALNNLGLLLLEQGRYDEAIA-LEKALKL--------DPNNAEALL 63

                          90       100       110
                  ....*....|....*....|....*....|
gi 334185921 1168 NVAMMYQDMGKMDTALRYLQEALKKNERLL 1197
Cdd:COG3063    64 NLAELLLELGDYDEALAYLERALELDPSAL 93
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 1083-1193 1.78e-05

Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 444034 [Multi-domain]  Cd Length: 155  Bit Score: 46.49  E-value: 1.78e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1083 RYLAMVLYHAGDMAGAIMQqhkeliiNERCLGLDhPDTAHSYGNMALFYHGLNQTELALQNMGRALLLLglssgPDHPDV 1162
Cdd:COG5010    58 SPSDNLYNKLGDFEESLAL-------LEQALQLD-PNNPELYYNLALLYSRSGDKDEAKEYYEKALALS-----PDNPNA 124

                          90       100       110
                  ....*....|....*....|....*....|.
gi 334185921 1163 AAtfiNVAMMYQDMGKMDTALRYLQEALKKN 1193
Cdd:COG5010   125 YS---NLAALLLSLGQDDEAKAALQRALGTS 152
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
1118-1219 5.45e-05

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 46.54  E-value: 5.45e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1118 PDTAHSYGNMALFYHGLNQTELALQNMGRALLLlglssgpdHPDVAATFINVAMMYQDMGKMDTALRYLQEALKKNerll 1197
Cdd:COG0457     5 PDDAEAYNNLGLAYRRLGRYEEAIEDYEKALEL--------DPDDAEALYNLGLAYLRLGRYEEALADYEQALELD---- 72

                          90       100
                  ....*....|....*....|..
gi 334185921 1198 gPEHIQTavcYHALAIAFNCMG 1219
Cdd:COG0457    73 -PDDAEA---LNNLGLALQALG 90
GSKIP_dom pfam05303
GSKIP domain; This domain is found in GSK3-beta interaction protein (GSKIP), which binds to ...
 256-358 5.79e-05

GSKIP domain; This domain is found in GSK3-beta interaction protein (GSKIP), which binds to GSK3beta. It is also found as a short domain towards the N terminus in clustered mitochondria protein, also known as clueless in Drosophila, which is involved in proper cytoplasmic distribution of mitochondria.


Pssm-ID: 398795  Cd Length: 103  Bit Score: 43.34  E-value: 5.79e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921   256 LKKLINSTSEEIR-SVENIVFSSFNPPPShrrlvgDLIYLDVVTLEGNKYCITGTTKTFYVNSSSGNILDPRPSKSG--F 332
Cdd:pfam05303    1 FRLEAEAAVNDVAfGVKDISVSEKLPSTN------GVAYINVTTLEGNRYCIELSAAGFRIVGYRYDCVDGESEDHTkyY 74

                           90       100
                   ....*....|....*....|....*..
gi 334185921   333 EaaTLIGLLQKLSSKFKKAF-REVMEK 358
Cdd:pfam05303   75 E--TLYALLDYISPLYRESFgEALLEK 99
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 1085-1230 1.36e-04

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 43.26  E-value: 1.36e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1085 LAMVLYHAGDMAGAImQQHKELIINErclgldhPDTAHSYGNMALFYHGLNQTELALQNMGRALLLlglssgpdHPDVAA 1164
Cdd:COG4783    10 LAQALLLAGDYDEAE-ALLEKALELD-------PDNPEAFALLGEILLQLGDLDEAIVLLHEALEL--------DPDEPE 73

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 334185921 1165 TFINVAMMYQDMGKMDTALRYLQEALKKNerllgPEHIQTavcYHALAIAFNCMGAFKLSHQHEKK 1230
Cdd:COG4783    74 ARLNLGLALLKAGDYDEALALLEKALKLD-----PEHPEA---YLRLARAYRALGRPDEAIAALEK 131
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 1072-1246 1.86e-04

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 46.07  E-value: 1.86e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1072 GPMHREVANCCRYLAMVL-----YH-AGDMAGAIMQQHKELIInercLGLDHPDT---AHSYGN--MAL--FYHGLNQTE 1138
Cdd:NF040586  427 GPDDRQTLRLRFHLANALrslgrYEeARELDEDTLERQRRVLG----LGEDHPHTlmtAGGLGAdlRALgrFREALELDE 502

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1139 LALQNMGRALLllglssgPDHPDVAATFINVAMMYQDMGKMDTALRYLQEALKKNERLLGPEHIQTAVCYHALAIAFNCM 1218
Cdd:NF040586  503 ETLERHRRVFG-------EDHPRTLRAANNLAVSLRLLGDYREALELDREVLRRRRRVLGPDHPRTLLSANNLARDLREL 575

                         170       180
                  ....*....|....*....|....*...
gi 334185921 1219 GAFKLSHQHEKKTYDILVKQLGDDDSRT 1246
Cdd:NF040586  576 GRYAEALDLLEEALERYREVLGGPDHPD 603
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 1117-1219 7.32e-04

Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 44.21  E-value: 7.32e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1117 HPDTAHSYGNMALFYHGLNQTELALQNMGRALLLlglssgpdHPDVAATFINVAMMYQDMGKMDTALRYLQEALKKNerl 1196
Cdd:COG3914   108 NPDNAEALFNLGNLLLALGRLEEALAALRRALAL--------NPDFAEAYLNLGEALRRLGRLEEAIAALRRALELD--- 176

                          90       100
                  ....*....|....*....|...
gi 334185921 1197 lgPEHIQTavcYHALAIAFNCMG 1219
Cdd:COG3914   177 --PDNAEA---LNNLGNALQDLG 194
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 1157-1253 1.25e-03

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 43.37  E-value: 1.25e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1157 PDHPDVAATFINVAMMYQDMGKMDTALRYLQEALKKNERLLGPEHIQTAVCYHALAIAFNCMGAFKLSHQHEKKTYDILV 1236
Cdd:NF040586  472 EDHPHTLMTAGGLGADLRALGRFREALELDEETLERHRRVFGEDHPRTLRAANNLAVSLRLLGDYREALELDREVLRRRR 551

                          90
                  ....*....|....*..
gi 334185921 1237 KQLGDDDSRTRDSLNWM 1253
Cdd:NF040586  552 RVLGPDHPRTLLSANNL 568
TPR_10 pfam13374
Tetratricopeptide repeat;
1078-1119 3.02e-03

Tetratricopeptide repeat;


Pssm-ID: 463861 [Multi-domain]  Cd Length: 42  Bit Score: 36.71  E-value: 3.02e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 334185921  1078 VANCCRYLAMVLYHAGDMAGAIMQQHKELIINERCLGLDHPD 1119
Cdd:pfam13374    1 TASSLNNLANALRAQGRYDEAEELLEEALAIRERVLGPDHPD 42
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 1089-1192 3.05e-03

Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane constriction [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441335 [Multi-domain]  Cd Length: 113  Bit Score: 38.82  E-value: 3.05e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1089 LYHAGDMAGAImQQHKELIInerclglDHPD---TAHSYGNMALFYHGLNQTELALQNMGRALLLLglssgPDHPDVAAT 1165
Cdd:COG1729     3 LLKAGDYDEAI-AAFKAFLK-------RYPNsplAPDALYWLGEAYYALGDYDEAAEAFEKLLKRY-----PDSPKAPDA 69

                          90       100
                  ....*....|....*....|....*..
gi 334185921 1166 FINVAMMYQDMGKMDTALRYLQEALKK 1192
Cdd:COG1729    70 LLKLGLSYLELGDYDKARATLEELIKK 96
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 1085-1193 5.08e-03

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 38.83  E-value: 5.08e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334185921 1085 LAMVLYHAGDMAGAIMQQhkeliinERCLGLDhPDTAHSYGNMALFYHGLNQTELALQNMGRALLLLglssgPDHPDVaa 1164
Cdd:COG4235    23 LGRAYLRLGRYDEALAAY-------EKALRLD-PDNADALLDLAEALLAAGDTEEAEELLERALALD-----PDNPEA-- 87

                          90       100
                  ....*....|....*....|....*....
gi 334185921 1165 tFINVAMMYQDMGKMDTALRYLQEALKKN 1193
Cdd:COG4235    88 -LYLLGLAAFQQGDYAEAIAAWQKLLALL 115
 
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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