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Conserved domains on  [gi|1039009025|gb|ANM59104|]
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Tetratricopeptide repeat (TPR)-like superfamily protein [Arabidopsis thaliana]

Protein Classification

tetratricopeptide repeat protein( domain architecture ID 11700314)

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-central cd15466
An uncharacterized central domain of CLU mitochondrial proteins; Mutations in the ...
 700-844 2.25e-35

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: 132.86  E-value: 2.25e-35
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  700 PVDGRTLTDFMHTRGLRMRSLGYVVKL---SDKLSHVQSLCVHEMIVRALKHILQAVISAVATDTDKIAIkvAAALNMML 776
Cdd:cd15466      1 PIDGASLTELLHRRGINMRYLGKVAELiskLPKLPHLKRLLLTEMVARAAKHILRAYLRSVPLAELSAAV--AHFLNCLL 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  777 GIPENVAATPHNPWNVHPL----------IFRW--LEKFLKKRYDYDLNAFSYKD-LRKFAILRGLCHKVGIELIPRDFD 843
Cdd:cd15466     79 GSSSNPAPSAEIDEELKPAadtswasltpSFLWkeIKKEVKKRFRYDLPEESLDEgLRKLSLLRELCLKVGIQLLARDYD 158


                   .
gi 1039009025  844 M 844
Cdd:cd15466    159 F 159
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
883-1103 2.62e-15

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


:

Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 77.74  E-value: 2.62e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  883 LDKGKLEDAVTYGTKALAKlvavcgpyHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDL 962
Cdd:COG0457     19 RRLGRYEEAIEDYEKALEL--------DPDDAEALYNLGLAYLRLGRYEEALADYEQALELD--------PDDAEALNNL 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  963 AVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLHKALKcnqrlLGPDHiqtAAS 1042
Cdd:COG0457     83 GLALQALGRYEEALEDYDKALEL--------DPDDAEALYNLGLALLELGRYDEAIEAYERALE-----LDPDD---ADA 146

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1039009025 1043 YHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRTQDAAAWLEYFESKAFEQQEAAR 1103
Cdd:COG0457    147 LYNLGIALEKLGRYEEALELLEKLEAAALAALLAAALGEAALALAAAEVLLALLLALEQAL 207
CLU_N super family cl20917
Mitochondrial function, CLU-N-term; CLU_N is the N-terminal domain of the Clueless protein, ...
 45-115 2.03e-06

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: 47.26  E-value: 2.03e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1039009025   45 TDRIIDVRRLLSVNFDTCHVTNYSL-SHEIRGSRLKDTVDVSALKPC------VLTLTEEDYNEGTAVAHVRRLLDIV 115
Cdd:pfam15044    2 SETVQDLRQVLSELPATKYLTNYHLeYQNGNGERLNEFVTLSEIIEEldvdelKLQLKEKPYTEREALEHVLRFREFI 79
CLU super family cl16180
Clustered mitochondria; The CLU domain (CLUstered mitochondria) is a eukaryotic domain found ...
 326-385 1.54e-03

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.


The actual alignment was detected with superfamily member pfam13236:

Pssm-ID: 463814  Cd Length: 225  Bit Score: 42.15  E-value: 1.54e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  326 WSNEFAFIASMPCKTAEERQVRDRKVFLLHNLFVDVATfraiKAVQKVMAEPVLAEEDSE 385
Cdd:pfam13236    2 WNEEFQSLRELPRETLQERLLRERLLSKLASDFVEAAT----KGAKAIIDGNVLPLNPKE 57
 
Name Accession Description Interval E-value
CLU-central cd15466
An uncharacterized central domain of CLU mitochondrial proteins; Mutations in the ...
 700-844 2.25e-35

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: 132.86  E-value: 2.25e-35
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  700 PVDGRTLTDFMHTRGLRMRSLGYVVKL---SDKLSHVQSLCVHEMIVRALKHILQAVISAVATDTDKIAIkvAAALNMML 776
Cdd:cd15466      1 PIDGASLTELLHRRGINMRYLGKVAELiskLPKLPHLKRLLLTEMVARAAKHILRAYLRSVPLAELSAAV--AHFLNCLL 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  777 GIPENVAATPHNPWNVHPL----------IFRW--LEKFLKKRYDYDLNAFSYKD-LRKFAILRGLCHKVGIELIPRDFD 843
Cdd:cd15466     79 GSSSNPAPSAEIDEELKPAadtswasltpSFLWkeIKKEVKKRFRYDLPEESLDEgLRKLSLLRELCLKVGIQLLARDYD 158


                   .
gi 1039009025  844 M 844
Cdd:cd15466    159 F 159
eIF3_p135 pfam12807
Translation initiation factor eIF3 subunit 135; Translation initiation factor eIF3 is a ...
 697-843 3.97e-28

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: 112.28  E-value: 3.97e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  697 ELSPVDGRTLTDFMHTRGLRMRSLGYVVKLSDK------LSHVQSLCVHEMIVRALKHILQAVISAVatDTDKIAIKVAA 770
Cdd:pfam12807    1 SSFPMDGQSLTEALHKRGINMRYLGKIAKKLSKspnkarLEHLKRLCVQEMIARAAKHILRKYLRGV--PPPLLSAAVSH 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  771 ALNMMLG----------IPENVAA------------TPHNPWNvhpLIfrwlEKFLKKRYDYDLNAFSYK-DLRKFAILR 827
Cdd:pfam12807   79 FLNCLLGsslnpkptaeIDELLKGlykkknrawaklTPESLWE---EI----EQEVKSRFRYELPEDWVDsGLQKISLLR 151

                          170
                   ....*....|....*.
gi 1039009025  828 GLCHKVGIELIPRDFD 843
Cdd:pfam12807  152 EICLKTGIQLLAREYN 167
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
883-1103 2.62e-15

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 77.74  E-value: 2.62e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  883 LDKGKLEDAVTYGTKALAKlvavcgpyHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDL 962
Cdd:COG0457     19 RRLGRYEEAIEDYEKALEL--------DPDDAEALYNLGLAYLRLGRYEEALADYEQALELD--------PDDAEALNNL 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  963 AVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLHKALKcnqrlLGPDHiqtAAS 1042
Cdd:COG0457     83 GLALQALGRYEEALEDYDKALEL--------DPDDAEALYNLGLALLELGRYDEAIEAYERALE-----LDPDD---ADA 146

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1039009025 1043 YHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRTQDAAAWLEYFESKAFEQQEAAR 1103
Cdd:COG0457    147 LYNLGIALEKLGRYEEALELLEKLEAAALAALLAAALGEAALALAAAEVLLALLLALEQAL 207
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 886-1087 6.97e-15

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: 80.35  E-value: 6.97e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  886 GKLEDAVTYGTKALAKLVAVCGPYHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYGDLAVF 965
Cdd:NF040586   619 GRLEEALELAEDTYERYRRRFGPDHPDTLAAALSLANDLRALGDADEARELAREVLDRYRRVLGEDHPFTLACRNNLAVL 698

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  966 YYRLQHTELALKYVKRALYLLHLTCGPSHPNTAATYINVAMMEEGLGNVHVAL---------RYLHKALKcnqrlLGPDH 1036
Cdd:NF040586   699 LRALGDPEEARELAEAALEGLRERLGPDHPYTLAAAVNLANDLAALGDLDAALgeealerlrRLLGEDLR-----AGPDH 773

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|...
gi 1039009025 1037 IQTAASyhAIAIALSLMEAYH--LSVQHEQTTLRILRAKLGPDDLRTQDAAAW 1087
Cdd:NF040586   774 PDTLAC--AANLALDLRATGRteEAEELRADTLARLRRVLGPDHPDTVAAREG 824
TPR_12 pfam13424
Tetratricopeptide repeat;
997-1072 2.02e-13

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 67.03  E-value: 2.02e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039009025  997 TAATYINVAMMEEGLGNVHVALRYLHKALKCNQRLLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRA 1072
Cdd:pfam13424    2 VATALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALALAEK 77
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 886-1085 1.18e-09

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: 63.40  E-value: 1.18e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  886 GKLEDAVTYGTKALAKLVAVCG-----PYHRMTAGAYsllAVVLYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYG 960
Cdd:NF040586   448 GRYEEARELDEDTLERQRRVLGlgedhPHTLMTAGGL---GADLRALGRFREALELDEETLERHRRVFGEDHPRTLRAAN 524

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  961 DLAVFYYRLQHTELALKYVKRALYLLHLTCGPSHPNTAATYINVAMMEEGLGNVHVALRYLHKAL-KCNQRLLGPDHIQT 1039
Cdd:NF040586   525 NLAVSLRLLGDYREALELDREVLRRRRRVLGPDHPRTLLSANNLARDLRELGRYAEALDLLEEALeRYREVLGGPDHPDT 604

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|
gi 1039009025 1040 AASYHAIAIAL----SLMEAYHLSvqheQTTLRILRAKLGPDDLRTQDAA 1085
Cdd:NF040586   605 LRAAKSLAVALrragRLEEALELA----EDTYERYRRRFGPDHPDTLAAA 650
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 865-1087 7.54e-09

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: 60.70  E-value: 7.54e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  865 AACSSADGRQLLessktaLD-------KGKLEDAVTYGTKALAKLVAVCGPYHRMTAGAYSLLAVVLYHTGDFNQATIYQ 937
Cdd:NF040586   384 LESDDPEVRRLL------LDqvrylylRGDYESARDLAERALERWRERLGPDDRQTLRLRFHLANALRSLGRYEEARELD 457

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  938 QKALDINERELGLD--HPDTMK---SYG-DL-AVFYYRlqhtElALKYVKRALYLLHLTCGPSHPNTAATYINVAMMEEG 1010
Cdd:NF040586   458 EDTLERQRRVLGLGedHPHTLMtagGLGaDLrALGRFR----E-ALELDEETLERHRRVFGEDHPRTLRAANNLAVSLRL 532

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1039009025 1011 LGNVHVALRYLHKALKCNQRLLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRTQDAAAW 1087
Cdd:NF040586   533 LGDYREALELDREVLRRRRRVLGPDHPRTLLSANNLARDLRELGRYAEALDLLEEALERYREVLGGPDHPDTLRAAK 609
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 924-1088 2.06e-07

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: 56.08  E-value: 2.06e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  924 LYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLL--HLTCGPSHPNTAATY 1001
Cdd:NF040586   402 LYLRGDYESARDLAERALERWRERLGPDDRQTLRLRFHLANALRSLGRYEEARELDEDTLERQrrVLGLGEDHPHTLMTA 481

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025 1002 INVAMMEEGLGNVHVALRYLHKALKCNQRLLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRT 1081
Cdd:NF040586   482 GGLGADLRALGRFREALELDEETLERHRRVFGEDHPRTLRAANNLAVSLRLLGDYREALELDREVLRRRRRVLGPDHPRT 561


                   ....*..
gi 1039009025 1082 QDAAAWL 1088
Cdd:NF040586   562 LLSANNL 568
CLU_N pfam15044
Mitochondrial function, CLU-N-term; CLU_N is the N-terminal domain of the Clueless protein, ...
 45-115 2.03e-06

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: 47.26  E-value: 2.03e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1039009025   45 TDRIIDVRRLLSVNFDTCHVTNYSL-SHEIRGSRLKDTVDVSALKPC------VLTLTEEDYNEGTAVAHVRRLLDIV 115
Cdd:pfam15044    2 SETVQDLRQVLSELPATKYLTNYHLeYQNGNGERLNEFVTLSEIIEEldvdelKLQLKEKPYTEREALEHVLRFREFI 79
CLU pfam13236
Clustered mitochondria; The CLU domain (CLUstered mitochondria) is a eukaryotic domain found ...
 326-385 1.54e-03

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: 42.15  E-value: 1.54e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  326 WSNEFAFIASMPCKTAEERQVRDRKVFLLHNLFVDVATfraiKAVQKVMAEPVLAEEDSE 385
Cdd:pfam13236    2 WNEEFQSLRELPRETLQERLLRERLLSKLASDFVEAAT----KGAKAIIDGNVLPLNPKE 57
 
Name Accession Description Interval E-value
CLU-central cd15466
An uncharacterized central domain of CLU mitochondrial proteins; Mutations in the ...
 700-844 2.25e-35

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: 132.86  E-value: 2.25e-35
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  700 PVDGRTLTDFMHTRGLRMRSLGYVVKL---SDKLSHVQSLCVHEMIVRALKHILQAVISAVATDTDKIAIkvAAALNMML 776
Cdd:cd15466      1 PIDGASLTELLHRRGINMRYLGKVAELiskLPKLPHLKRLLLTEMVARAAKHILRAYLRSVPLAELSAAV--AHFLNCLL 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  777 GIPENVAATPHNPWNVHPL----------IFRW--LEKFLKKRYDYDLNAFSYKD-LRKFAILRGLCHKVGIELIPRDFD 843
Cdd:cd15466     79 GSSSNPAPSAEIDEELKPAadtswasltpSFLWkeIKKEVKKRFRYDLPEESLDEgLRKLSLLRELCLKVGIQLLARDYD 158


                   .
gi 1039009025  844 M 844
Cdd:cd15466    159 F 159
eIF3_p135 pfam12807
Translation initiation factor eIF3 subunit 135; Translation initiation factor eIF3 is a ...
 697-843 3.97e-28

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: 112.28  E-value: 3.97e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  697 ELSPVDGRTLTDFMHTRGLRMRSLGYVVKLSDK------LSHVQSLCVHEMIVRALKHILQAVISAVatDTDKIAIKVAA 770
Cdd:pfam12807    1 SSFPMDGQSLTEALHKRGINMRYLGKIAKKLSKspnkarLEHLKRLCVQEMIARAAKHILRKYLRGV--PPPLLSAAVSH 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  771 ALNMMLG----------IPENVAA------------TPHNPWNvhpLIfrwlEKFLKKRYDYDLNAFSYK-DLRKFAILR 827
Cdd:pfam12807   79 FLNCLLGsslnpkptaeIDELLKGlykkknrawaklTPESLWE---EI----EQEVKSRFRYELPEDWVDsGLQKISLLR 151

                          170
                   ....*....|....*.
gi 1039009025  828 GLCHKVGIELIPRDFD 843
Cdd:pfam12807  152 EICLKTGIQLLAREYN 167
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
883-1103 2.62e-15

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 77.74  E-value: 2.62e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  883 LDKGKLEDAVTYGTKALAKlvavcgpyHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDL 962
Cdd:COG0457     19 RRLGRYEEAIEDYEKALEL--------DPDDAEALYNLGLAYLRLGRYEEALADYEQALELD--------PDDAEALNNL 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  963 AVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLHKALKcnqrlLGPDHiqtAAS 1042
Cdd:COG0457     83 GLALQALGRYEEALEDYDKALEL--------DPDDAEALYNLGLALLELGRYDEAIEAYERALE-----LDPDD---ADA 146

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1039009025 1043 YHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRTQDAAAWLEYFESKAFEQQEAAR 1103
Cdd:COG0457    147 LYNLGIALEKLGRYEEALELLEKLEAAALAALLAAALGEAALALAAAEVLLALLLALEQAL 207
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 886-1087 6.97e-15

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: 80.35  E-value: 6.97e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  886 GKLEDAVTYGTKALAKLVAVCGPYHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYGDLAVF 965
Cdd:NF040586   619 GRLEEALELAEDTYERYRRRFGPDHPDTLAAALSLANDLRALGDADEARELAREVLDRYRRVLGEDHPFTLACRNNLAVL 698

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  966 YYRLQHTELALKYVKRALYLLHLTCGPSHPNTAATYINVAMMEEGLGNVHVAL---------RYLHKALKcnqrlLGPDH 1036
Cdd:NF040586   699 LRALGDPEEARELAEAALEGLRERLGPDHPYTLAAAVNLANDLAALGDLDAALgeealerlrRLLGEDLR-----AGPDH 773

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|...
gi 1039009025 1037 IQTAASyhAIAIALSLMEAYH--LSVQHEQTTLRILRAKLGPDDLRTQDAAAW 1087
Cdd:NF040586   774 PDTLAC--AANLALDLRATGRteEAEELRADTLARLRRVLGPDHPDTVAAREG 824
TPR_12 pfam13424
Tetratricopeptide repeat;
997-1072 2.02e-13

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 67.03  E-value: 2.02e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039009025  997 TAATYINVAMMEEGLGNVHVALRYLHKALKCNQRLLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRA 1072
Cdd:pfam13424    2 VATALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALALAEK 77
TPR_12 pfam13424
Tetratricopeptide repeat;
913-983 2.73e-13

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 66.64  E-value: 2.73e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1039009025  913 TAGAYSLLAVVLYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYGDLAVFYYRLQHTELALKYVKRAL 983
Cdd:pfam13424    2 VATALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERAL 72
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
914-1119 3.46e-12

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 68.49  E-value: 3.46e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  914 AGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLlhltcgps 993
Cdd:COG0457      8 AEAYNNLGLAYRRLGRYEEAIEDYEKALELD--------PDDAEALYNLGLAYLRLGRYEEALADYEQALEL-------- 71

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  994 HPNTAATYINVAMMEEGLGNVHVALRYLHKALKCNqrllgPDHiqtAASYHAIAIALSLMEAYHLSVQHEQTTLrilraK 1073
Cdd:COG0457     72 DPDDAEALNNLGLALQALGRYEEALEDYDKALELD-----PDD---AEALYNLGLALLELGRYDEAIEAYERAL-----E 138

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1039009025 1074 LGPDDLRTQDAAAWL-----EYFESKAFEQQEAARNGTPKPDASIASKGHL 1119
Cdd:COG0457    139 LDPDDADALYNLGIAleklgRYEEALELLEKLEAAALAALLAAALGEAALA 189
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 869-1026 6.46e-10

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: 59.05  E-value: 6.46e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  869 SADGRQLLESSKTALDKGKLEDAVTYGTKALAKLvavcgPYHrmtAGAYSLLAVVLYHTGDFNQATIYQQKALDINerel 948
Cdd:COG4783      1 AACAEALYALAQALLLAGDYDEAEALLEKALELD-----PDN---PEAFALLGEILLQLGDLDEAIVLLHEALELD---- 68

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1039009025  949 gldhPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLHKALK 1026
Cdd:COG4783     69 ----PDEPEARLNLGLALLKAGDYDEALALLEKALKL--------DPEHPEAYLRLARAYRALGRPDEAIAALEKALE 134
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 886-1085 1.18e-09

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: 63.40  E-value: 1.18e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  886 GKLEDAVTYGTKALAKLVAVCG-----PYHRMTAGAYsllAVVLYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYG 960
Cdd:NF040586   448 GRYEEARELDEDTLERQRRVLGlgedhPHTLMTAGGL---GADLRALGRFREALELDEETLERHRRVFGEDHPRTLRAAN 524

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  961 DLAVFYYRLQHTELALKYVKRALYLLHLTCGPSHPNTAATYINVAMMEEGLGNVHVALRYLHKAL-KCNQRLLGPDHIQT 1039
Cdd:NF040586   525 NLAVSLRLLGDYREALELDREVLRRRRRVLGPDHPRTLLSANNLARDLRELGRYAEALDLLEEALeRYREVLGGPDHPDT 604

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|
gi 1039009025 1040 AASYHAIAIAL----SLMEAYHLSvqheQTTLRILRAKLGPDDLRTQDAA 1085
Cdd:NF040586   605 LRAAKSLAVALrragRLEEALELA----EDTYERYRRRFGPDHPDTLAAA 650
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 864-1110 1.22e-09

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


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 63.09  E-value: 1.22e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  864 QAACSSADGRQLLESSKTALDKGKLEDAVTYGTKALAKlvavcGPYHrmtAGAYSLLAVVLYHTGDFNQATIYQQKALDI 943
Cdd:COG3914     70 AAAALLLLAALLELAALLLQALGRYEEALALYRRALAL-----NPDN---AEALFNLGNLLLALGRLEEALAALRRALAL 141

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  944 NerelgldhPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLHK 1023
Cdd:COG3914    142 N--------PDFAEAYLNLGEALRRLGRLEEAIAALRRALEL--------DPDNAEALNNLGNALQDLGRLEEAIAAYRR 205

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025 1024 ALKcnqrlLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRAK-------LGPDDLRTQDAAA--WLEYFESK 1094
Cdd:COG3914    206 ALE-----LDPDNADAHSNLLFALRQACDWEVYDRFEELLAALARGPSELspfallyLPDDDPAELLALAraWAQLVAAA 280

                          250
                   ....*....|....*.
gi 1039009025 1095 AFEQQEAARNgTPKPD 1110
Cdd:COG3914    281 AAPELPPPPN-PRDPD 295
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 883-1089 3.32e-09

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: 59.74  E-value: 3.32e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  883 LDKGKLEDAVTYGTKALAKlvavcGPYHrmtAGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDL 962
Cdd:COG2956     87 LKAGLLDRAEELLEKLLEL-----DPDD---AEALRLLAEIYEQEGDWEKAIEVLERLLKLG--------PENAHAYCEL 150

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  963 AVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLHKALKcnqrlLGPDHIQTAAS 1042
Cdd:COG2956    151 AELYLEQGDYDEAIEALEKALKL--------DPDCARALLLLAELYLEQGDYEEAIAALERALE-----QDPDYLPALPR 217

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1039009025 1043 YHAIAIALS--------LMEAYHlsvQHEQTTLRILRAKLGPDDLRTQDAAAWLE 1089
Cdd:COG2956    218 LAELYEKLGdpeealelLRKALE---LDPSDDLLLALADLLERKEGLEAALALLE 269
TPR_12 pfam13424
Tetratricopeptide repeat;
954-1030 5.83e-09

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 54.32  E-value: 5.83e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1039009025  954 DTMKSYGDLAVFYYRLQHTELALKYVKRALYLLHLTCGPSHPNTAATYINVAMMEEGLGNVHVALRYLHKALKCNQR 1030
Cdd:pfam13424    1 DVATALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALALAEK 77
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 865-1087 7.54e-09

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: 60.70  E-value: 7.54e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  865 AACSSADGRQLLessktaLD-------KGKLEDAVTYGTKALAKLVAVCGPYHRMTAGAYSLLAVVLYHTGDFNQATIYQ 937
Cdd:NF040586   384 LESDDPEVRRLL------LDqvrylylRGDYESARDLAERALERWRERLGPDDRQTLRLRFHLANALRSLGRYEEARELD 457

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  938 QKALDINERELGLD--HPDTMK---SYG-DL-AVFYYRlqhtElALKYVKRALYLLHLTCGPSHPNTAATYINVAMMEEG 1010
Cdd:NF040586   458 EDTLERQRRVLGLGedHPHTLMtagGLGaDLrALGRFR----E-ALELDEETLERHRRVFGEDHPRTLRAANNLAVSLRL 532

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1039009025 1011 LGNVHVALRYLHKALKCNQRLLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRTQDAAAW 1087
Cdd:NF040586   533 LGDYREALELDREVLRRRRRVLGPDHPRTLLSANNLARDLRELGRYAEALDLLEEALERYREVLGGPDHPDTLRAAK 609
TPR_10 pfam13374
Tetratricopeptide repeat;
913-954 1.52e-08

Tetratricopeptide repeat;


Pssm-ID: 463861 [Multi-domain]  Cd Length: 42  Bit Score: 52.12  E-value: 1.52e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 1039009025  913 TAGAYSLLAVVLYHTGDFNQATIYQQKALDINERELGLDHPD 954
Cdd:pfam13374    1 TASSLNNLANALRAQGRYDEAEELLEEALAIRERVLGPDHPD 42
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 914-1049 3.07e-08

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: 53.86  E-value: 3.07e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  914 AGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLlhltcgps 993
Cdd:COG4235     17 AEGWLLLGRAYLRLGRYDEALAAYEKALRLD--------PDNADALLDLAEALLAAGDTEEAEELLERALAL-------- 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1039009025  994 HPNTAATYINVAMMEEGLGNVHVALRYLHKALKcnqrlLGPDHIQTAASYHAIAIA 1049
Cdd:COG4235     81 DPDNPEALYLLGLAAFQQGDYAEAIAAWQKLLA-----LLPADAPARLLEASIAEA 131
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 914-1028 5.50e-08

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: 54.20  E-value: 5.50e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  914 AGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLlhltcgps 993
Cdd:COG5010     54 FAIESPSDNLYNKLGDFEESLALLEQALQLD--------PNNPELYYNLALLYSRSGDKDEAKEYYEKALAL-------- 117

                           90       100       110
                   ....*....|....*....|....*....|....*
gi 1039009025  994 HPNTAATYINVAMMEEGLGNVHVALRYLHKALKCN 1028
Cdd:COG5010    118 SPDNPNAYSNLAALLLSLGQDDEAKAALQRALGTS 152
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 924-1088 2.06e-07

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: 56.08  E-value: 2.06e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  924 LYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLL--HLTCGPSHPNTAATY 1001
Cdd:NF040586   402 LYLRGDYESARDLAERALERWRERLGPDDRQTLRLRFHLANALRSLGRYEEARELDEDTLERQrrVLGLGEDHPHTLMTA 481

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025 1002 INVAMMEEGLGNVHVALRYLHKALKCNQRLLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRT 1081
Cdd:NF040586   482 GGLGADLRALGRFREALELDEETLERHRRVFGEDHPRTLRAANNLAVSLRLLGDYREALELDREVLRRRRRVLGPDHPRT 561


                   ....*..
gi 1039009025 1082 QDAAAWL 1088
Cdd:NF040586   562 LLSANNL 568
TPR_10 pfam13374
Tetratricopeptide repeat;
997-1036 7.16e-07

Tetratricopeptide repeat;


Pssm-ID: 463861 [Multi-domain]  Cd Length: 42  Bit Score: 47.11  E-value: 7.16e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 1039009025  997 TAATYINVAMMEEGLGNVHVALRYLHKALKCNQRLLGPDH 1036
Cdd:pfam13374    1 TASSLNNLANALRAQGRYDEAEELLEEALAIRERVLGPDH 40
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 875-1026 7.43e-07

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: 52.81  E-value: 7.43e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  875 LLESSKTALDKGKLEDAVTYGTKALAklvavcgpYHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPD 954
Cdd:COG2956    147 YCELAELYLEQGDYDEAIEALEKALK--------LDPDCARALLLLAELYLEQGDYEEAIAALERALEQD--------PD 210

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1039009025  955 TMKSYGDLAVFYYRLQHTELALKYVKRALyllhltcgPSHPNTAAtYINVAMMEEGLGNVHVALRYLHKALK 1026
Cdd:COG2956    211 YLPALPRLAELYEKLGDPEEALELLRKAL--------ELDPSDDL-LLALADLLERKEGLEAALALLERQLR 273
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
923-1032 8.65e-07

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


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 48.63  E-value: 8.65e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  923 VLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDLAVFYYRLQHTELALKYvKRALYLlhltcgpsHPNTAATYI 1002
Cdd:COG3063      1 LYLKLGDLEEAEEYYEKALELD--------PDNADALNNLGLLLLEQGRYDEAIAL-EKALKL--------DPNNAEALL 63

                           90       100       110
                   ....*....|....*....|....*....|
gi 1039009025 1003 NVAMMEEGLGNVHVALRYLHKALKCNQRLL 1032
Cdd:COG3063     64 NLAELLLELGDYDEALAYLERALELDPSAL 93
TPR_12 pfam13424
Tetratricopeptide repeat;
886-946 9.91e-07

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 48.15  E-value: 9.91e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1039009025  886 GKLEDAVTYGTKALAKLVAVCGPYHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINER 946
Cdd:pfam13424   17 GRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALALAEK 77
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
882-983 1.08e-06

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


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 48.63  E-value: 1.08e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  882 ALDKGKLEDAVTYGTKALAKlvavcGPYHrmtAGAYSLLAVVLYHTGDFNQATIYQqKALDINerelgldhPDTMKSYGD 961
Cdd:COG3063      2 YLKLGDLEEAEEYYEKALEL-----DPDN---ADALNNLGLLLLEQGRYDEAIALE-KALKLD--------PNNAEALLN 64

                           90       100
                   ....*....|....*....|..
gi 1039009025  962 LAVFYYRLQHTELALKYVKRAL 983
Cdd:COG3063     65 LAELLLELGDYDEALAYLERAL 86
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 863-986 1.70e-06

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: 48.85  E-value: 1.70e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  863 KQAACSSADGRQLLESSKTALDKGKLEDAVTYGTKALAklvavcgpYHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALD 942
Cdd:COG4235      8 QALAANPNDAEGWLLLGRAYLRLGRYDEALAAYEKALR--------LDPDNADALLDLAEALLAAGDTEEAEELLERALA 79

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....
gi 1039009025  943 INerelgldhPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLL 986
Cdd:COG4235     80 LD--------PDNPEALYLLGLAAFQQGDYAEAIAAWQKLLALL 115
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 881-983 1.91e-06

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: 49.57  E-value: 1.91e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  881 TALDKGKLEDAVTYGTKALAKlvavcGPYHrmtAGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYG 960
Cdd:COG5010     63 LYNKLGDFEESLALLEQALQL-----DPNN---PELYYNLALLYSRSGDKDEAKEYYEKALALS--------PDNPNAYS 126

                           90       100
                   ....*....|....*....|...
gi 1039009025  961 DLAVFYYRLQHTELALKYVKRAL 983
Cdd:COG5010    127 NLAALLLSLGQDDEAKAALQRAL 149
CLU_N pfam15044
Mitochondrial function, CLU-N-term; CLU_N is the N-terminal domain of the Clueless protein, ...
 45-115 2.03e-06

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: 47.26  E-value: 2.03e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1039009025   45 TDRIIDVRRLLSVNFDTCHVTNYSL-SHEIRGSRLKDTVDVSALKPC------VLTLTEEDYNEGTAVAHVRRLLDIV 115
Cdd:pfam15044    2 SETVQDLRQVLSELPATKYLTNYHLeYQNGNGERLNEFVTLSEIIEEldvdelKLQLKEKPYTEREALEHVLRFREFI 79
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
953-1098 5.76e-06

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 49.62  E-value: 5.76e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  953 PDTMKSYGDLAVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLHKALKcnqrlL 1032
Cdd:COG0457      5 PDDAEAYNNLGLAYRRLGRYEEAIEDYEKALEL--------DPDDAEALYNLGLAYLRLGRYEEALADYEQALE-----L 71

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039009025 1033 GPDHiqtAASYHAIAIALSLMEAYHLSVQHEQTTLRIlraklGPDDLRTQDAAAWLeYFESKAFEQ 1098
Cdd:COG0457     72 DPDD---AEALNNLGLALQALGRYEEALEDYDKALEL-----DPDDAEALYNLGLA-LLELGRYDE 128
COG3899 COG3899
Predicted ATPase [General function prediction only];
873-1103 1.84e-05

Predicted ATPase [General function prediction only];


Pssm-ID: 443106 [Multi-domain]  Cd Length: 1244  Bit Score: 49.86  E-value: 1.84e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  873 RQLLESSKTALDKGKLEDAVTYGTKALAKLVAVCGPYHRmtAGAYSLLAVVLYHTGDFNQATIYQQKAL--DINERELGL 950
Cdd:COG3899    706 RLLLRAARRALARGAYAEALRYLERALELLPPDPEEEYR--LALLLELAEALYLAGRFEEAEALLERALaaRALAALAAL 783

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  951 DHPDTMKSYGDLAVF-YYRLQHTELALKYVKRALYLLHLTCGPSHpnTAATYINVAMMEEGLGNVHVALRYLHKALKcnq 1029
Cdd:COG3899    784 RHGNPPASARAYANLgLLLLGDYEEAYEFGELALALAERLGDRRL--EARALFNLGFILHWLGPLREALELLREALE--- 858

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1039009025 1030 rlLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRTQDAAAWLEYFESKAFEQQEAAR 1103
Cdd:COG3899    859 --AGLETGDAALALLALAAAAAAAAAAAALAAAAAAAARLLAAAAAALAAAAAAAALAAAELARLAAAAAAAAA 930
CLU pfam13236
Clustered mitochondria; The CLU domain (CLUstered mitochondria) is a eukaryotic domain found ...
 326-385 1.54e-03

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: 42.15  E-value: 1.54e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  326 WSNEFAFIASMPCKTAEERQVRDRKVFLLHNLFVDVATfraiKAVQKVMAEPVLAEEDSE 385
Cdd:pfam13236    2 WNEEFQSLRELPRETLQERLLRERLLSKLASDFVEAAT----KGAKAIIDGNVLPLNPKE 57
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 880-983 2.96e-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: 39.20  E-value: 2.96e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039009025  880 KTALDKGKLEDAVTYGTKALAKLvavcgPYHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINErelglDHPDTMKSY 959
Cdd:COG1729      1 KALLKAGDYDEAIAAFKAFLKRY-----PNSPLAPDALYWLGEAYYALGDYDEAAEAFEKLLKRYP-----DSPKAPDAL 70

                           90       100
                   ....*....|....*....|....
gi 1039009025  960 GDLAVFYYRLQHTELALKYVKRAL 983
Cdd:COG1729     71 LKLGLSYLELGDYDKARATLEELI 94
 
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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