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Conserved domains on  [gi|42561588|ref|NP_171639|]
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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 2.26e-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: 2.26e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  700 PVDGRTLTDFMHTRGLRMRSLGYVVKL---SDKLSHVQSLCVHEMIVRALKHILQAVISAVATDTDKIAIkvAAALNMML 776
Cdd:cd15466    1 PIDGASLTELLHRRGINMRYLGKVAELiskLPKLPHLKRLLLTEMVARAAKHILRAYLRSVPLAELSAAV--AHFLNCLL 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  777 GIPENVAATPHNPWNVHPL----------IFRW--LEKFLKKRYDYDLNAFSYKD-LRKFAILRGLCHKVGIELIPRDFD 843
Cdd:cd15466   79 GSSSNPAPSAEIDEELKPAadtswasltpSFLWkeIKKEVKKRFRYDLPEESLDEgLRKLSLLRELCLKVGIQLLARDYD 158


                 .
gi 42561588  844 M 844
Cdd:cd15466  159 F 159
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
891-1111 2.38e-15

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


:

Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 77.74  E-value: 2.38e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  891 LDKGKLEDAVTYGTKALAKlvavcgpyHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDL 970
Cdd:COG0457   19 RRLGRYEEAIEDYEKALEL--------DPDDAEALYNLGLAYLRLGRYEEALADYEQALELD--------PDDAEALNNL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  971 AVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLHKALKcnqrlLGPDHiqtAAS 1050
Cdd:COG0457   83 GLALQALGRYEEALEDYDKALEL--------DPDDAEALYNLGLALLELGRYDEAIEAYERALE-----LDPDD---ADA 146

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 42561588 1051 YHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRTQDAAAWLEYFESKAFEQQEAAR 1111
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 2.04e-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: 2.04e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 42561588     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 42561588    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 2.26e-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: 2.26e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  700 PVDGRTLTDFMHTRGLRMRSLGYVVKL---SDKLSHVQSLCVHEMIVRALKHILQAVISAVATDTDKIAIkvAAALNMML 776
Cdd:cd15466    1 PIDGASLTELLHRRGINMRYLGKVAELiskLPKLPHLKRLLLTEMVARAAKHILRAYLRSVPLAELSAAV--AHFLNCLL 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  777 GIPENVAATPHNPWNVHPL----------IFRW--LEKFLKKRYDYDLNAFSYKD-LRKFAILRGLCHKVGIELIPRDFD 843
Cdd:cd15466   79 GSSSNPAPSAEIDEELKPAadtswasltpSFLWkeIKKEVKKRFRYDLPEESLDEgLRKLSLLRELCLKVGIQLLARDYD 158


                 .
gi 42561588  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 3.99e-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: 3.99e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588    697 ELSPVDGRTLTDFMHTRGLRMRSLGYVVKLSDK------LSHVQSLCVHEMIVRALKHILQAVISAVatDTDKIAIKVAA 770
Cdd:pfam12807    1 SSFPMDGQSLTEALHKRGINMRYLGKIAKKLSKspnkarLEHLKRLCVQEMIARAAKHILRKYLRGV--PPPLLSAAVSH 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588    771 ALNMMLG----------IPENVAA------------TPHNPWNvhpLIfrwlEKFLKKRYDYDLNAFSYK-DLRKFAILR 827
Cdd:pfam12807   79 FLNCLLGsslnpkptaeIDELLKGlykkknrawaklTPESLWE---EI----EQEVKSRFRYELPEDWVDsGLQKISLLR 151

                          170
                   ....*....|....*.
gi 42561588    828 GLCHKVGIELIPRDFD 843
Cdd:pfam12807  152 EICLKTGIQLLAREYN 167
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
891-1111 2.38e-15

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 77.74  E-value: 2.38e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  891 LDKGKLEDAVTYGTKALAKlvavcgpyHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDL 970
Cdd:COG0457   19 RRLGRYEEAIEDYEKALEL--------DPDDAEALYNLGLAYLRLGRYEEALADYEQALELD--------PDDAEALNNL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  971 AVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLHKALKcnqrlLGPDHiqtAAS 1050
Cdd:COG0457   83 GLALQALGRYEEALEDYDKALEL--------DPDDAEALYNLGLALLELGRYDEAIEAYERALE-----LDPDD---ADA 146

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 42561588 1051 YHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRTQDAAAWLEYFESKAFEQQEAAR 1111
Cdd:COG0457  147 LYNLGIALEKLGRYEEALELLEKLEAAALAALLAAALGEAALALAAAEVLLALLLALEQAL 207
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 894-1095 6.78e-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: 80.73  E-value: 6.78e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   894 GKLEDAVTYGTKALAKLVAVCGPYHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYGDLAVF 973
Cdd:NF040586  619 GRLEEALELAEDTYERYRRRFGPDHPDTLAAALSLANDLRALGDADEARELAREVLDRYRRVLGEDHPFTLACRNNLAVL 698

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   974 YYRLQHTELALKYVKRALYLLHLTCGPSHPNTAATYINVAMMEEGLGNVHVAL---------RYLHKALKcnqrlLGPDH 1044
Cdd:NF040586  699 LRALGDPEEARELAEAALEGLRERLGPDHPYTLAAAVNLANDLAALGDLDAALgeealerlrRLLGEDLR-----AGPDH 773

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 42561588  1045 IQTAASyhAIAIALSLMEAYH--LSVQHEQTTLRILRAKLGPDDLRTQDAAAW 1095
Cdd:NF040586  774 PDTLAC--AANLALDLRATGRteEAEELRADTLARLRRVLGPDHPDTVAAREG 824
TPR_12 pfam13424
Tetratricopeptide repeat;
1005-1080 2.03e-13

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 67.03  E-value: 2.03e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 42561588   1005 TAATYINVAMMEEGLGNVHVALRYLHKALKCNQRLLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRA 1080
Cdd:pfam13424    2 VATALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALALAEK 77
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 894-1093 1.16e-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: 1.16e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   894 GKLEDAVTYGTKALAKLVAVCG-----PYHRMTAGAYsllAVVLYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYG 968
Cdd:NF040586  448 GRYEEARELDEDTLERQRRVLGlgedhPHTLMTAGGL---GADLRALGRFREALELDEETLERHRRVFGEDHPRTLRAAN 524

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   969 DLAVFYYRLQHTELALKYVKRALYLLHLTCGPSHPNTAATYINVAMMEEGLGNVHVALRYLHKAL-KCNQRLLGPDHIQT 1047
Cdd:NF040586  525 NLAVSLRLLGDYREALELDREVLRRRRRVLGPDHPRTLLSANNLARDLRELGRYAEALDLLEEALeRYREVLGGPDHPDT 604

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 42561588  1048 AASYHAIAIAL----SLMEAYHLSvqheQTTLRILRAKLGPDDLRTQDAA 1093
Cdd:NF040586  605 LRAAKSLAVALrragRLEEALELA----EDTYERYRRRFGPDHPDTLAAA 650
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 873-1095 7.02e-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: 61.09  E-value: 7.02e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   873 AACSSADGRQLLessktaLD-------KGKLEDAVTYGTKALAKLVAVCGPYHRMTAGAYSLLAVVLYHTGDFnqatiyq 945
Cdd:NF040586  384 LESDDPEVRRLL------LDqvrylylRGDYESARDLAERALERWRERLGPDDRQTLRLRFHLANALRSLGRY------- 450

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   946 QKALDINE---------RELGLDHPDTMK---SYG-DL-AVFYYRlqhtElALKYVKRALYLLHLTCGPSHPNTAATYIN 1011
Cdd:NF040586  451 EEARELDEdtlerqrrvLGLGEDHPHTLMtagGLGaDLrALGRFR----E-ALELDEETLERHRRVFGEDHPRTLRAANN 525

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  1012 VAMMEEGLGNVHVALRYLHKALKCNQRLLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRTQD 1091
Cdd:NF040586  526 LAVSLRLLGDYREALELDREVLRRRRRVLGPDHPRTLLSANNLARDLRELGRYAEALDLLEEALERYREVLGGPDHPDTL 605


                  ....
gi 42561588  1092 AAAW 1095
Cdd:NF040586  606 RAAK 609
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 932-1096 2.00e-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: 2.00e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   932 LYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLL--HLTCGPSHPNTAATY 1009
Cdd:NF040586  402 LYLRGDYESARDLAERALERWRERLGPDDRQTLRLRFHLANALRSLGRYEEARELDEDTLERQrrVLGLGEDHPHTLMTA 481

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  1010 INVAMMEEGLGNVHVALRYLHKALKCNQRLLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRT 1089
Cdd:NF040586  482 GGLGADLRALGRFREALELDEETLERHRRVFGEDHPRTLRAANNLAVSLRLLGDYREALELDREVLRRRRRVLGPDHPRT 561


                  ....*..
gi 42561588  1090 QDAAAWL 1096
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 2.04e-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: 2.04e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 42561588     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 42561588    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 2.26e-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: 2.26e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  700 PVDGRTLTDFMHTRGLRMRSLGYVVKL---SDKLSHVQSLCVHEMIVRALKHILQAVISAVATDTDKIAIkvAAALNMML 776
Cdd:cd15466    1 PIDGASLTELLHRRGINMRYLGKVAELiskLPKLPHLKRLLLTEMVARAAKHILRAYLRSVPLAELSAAV--AHFLNCLL 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  777 GIPENVAATPHNPWNVHPL----------IFRW--LEKFLKKRYDYDLNAFSYKD-LRKFAILRGLCHKVGIELIPRDFD 843
Cdd:cd15466   79 GSSSNPAPSAEIDEELKPAadtswasltpSFLWkeIKKEVKKRFRYDLPEESLDEgLRKLSLLRELCLKVGIQLLARDYD 158


                 .
gi 42561588  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 3.99e-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: 3.99e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588    697 ELSPVDGRTLTDFMHTRGLRMRSLGYVVKLSDK------LSHVQSLCVHEMIVRALKHILQAVISAVatDTDKIAIKVAA 770
Cdd:pfam12807    1 SSFPMDGQSLTEALHKRGINMRYLGKIAKKLSKspnkarLEHLKRLCVQEMIARAAKHILRKYLRGV--PPPLLSAAVSH 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588    771 ALNMMLG----------IPENVAA------------TPHNPWNvhpLIfrwlEKFLKKRYDYDLNAFSYK-DLRKFAILR 827
Cdd:pfam12807   79 FLNCLLGsslnpkptaeIDELLKGlykkknrawaklTPESLWE---EI----EQEVKSRFRYELPEDWVDsGLQKISLLR 151

                          170
                   ....*....|....*.
gi 42561588    828 GLCHKVGIELIPRDFD 843
Cdd:pfam12807  152 EICLKTGIQLLAREYN 167
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
891-1111 2.38e-15

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 77.74  E-value: 2.38e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  891 LDKGKLEDAVTYGTKALAKlvavcgpyHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDL 970
Cdd:COG0457   19 RRLGRYEEAIEDYEKALEL--------DPDDAEALYNLGLAYLRLGRYEEALADYEQALELD--------PDDAEALNNL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  971 AVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLHKALKcnqrlLGPDHiqtAAS 1050
Cdd:COG0457   83 GLALQALGRYEEALEDYDKALEL--------DPDDAEALYNLGLALLELGRYDEAIEAYERALE-----LDPDD---ADA 146

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 42561588 1051 YHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRTQDAAAWLEYFESKAFEQQEAAR 1111
Cdd:COG0457  147 LYNLGIALEKLGRYEEALELLEKLEAAALAALLAAALGEAALALAAAEVLLALLLALEQAL 207
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 894-1095 6.78e-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: 80.73  E-value: 6.78e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   894 GKLEDAVTYGTKALAKLVAVCGPYHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYGDLAVF 973
Cdd:NF040586  619 GRLEEALELAEDTYERYRRRFGPDHPDTLAAALSLANDLRALGDADEARELAREVLDRYRRVLGEDHPFTLACRNNLAVL 698

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   974 YYRLQHTELALKYVKRALYLLHLTCGPSHPNTAATYINVAMMEEGLGNVHVAL---------RYLHKALKcnqrlLGPDH 1044
Cdd:NF040586  699 LRALGDPEEARELAEAALEGLRERLGPDHPYTLAAAVNLANDLAALGDLDAALgeealerlrRLLGEDLR-----AGPDH 773

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 42561588  1045 IQTAASyhAIAIALSLMEAYH--LSVQHEQTTLRILRAKLGPDDLRTQDAAAW 1095
Cdd:NF040586  774 PDTLAC--AANLALDLRATGRteEAEELRADTLARLRRVLGPDHPDTVAAREG 824
TPR_12 pfam13424
Tetratricopeptide repeat;
1005-1080 2.03e-13

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 67.03  E-value: 2.03e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 42561588   1005 TAATYINVAMMEEGLGNVHVALRYLHKALKCNQRLLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRA 1080
Cdd:pfam13424    2 VATALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALALAEK 77
TPR_12 pfam13424
Tetratricopeptide repeat;
921-991 2.74e-13

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 66.64  E-value: 2.74e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 42561588    921 TAGAYSLLAVVLYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYGDLAVFYYRLQHTELALKYVKRAL 991
Cdd:pfam13424    2 VATALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERAL 72
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
922-1127 3.20e-12

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 68.49  E-value: 3.20e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  922 AGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLlhltcgps 1001
Cdd:COG0457    8 AEAYNNLGLAYRRLGRYEEAIEDYEKALELD--------PDDAEALYNLGLAYLRLGRYEEALADYEQALEL-------- 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588 1002 HPNTAATYINVAMMEEGLGNVHVALRYLHKALKCNqrllgPDHiqtAASYHAIAIALSLMEAYHLSVQHEQTTLrilraK 1081
Cdd:COG0457   72 DPDDAEALNNLGLALQALGRYEEALEDYDKALELD-----PDD---AEALYNLGLALLELGRYDEAIEAYERAL-----E 138

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 42561588 1082 LGPDDLRTQDAAAWL-----EYFESKAFEQQEAARNGTPKPDASIASKGHL 1127
Cdd:COG0457  139 LDPDDADALYNLGIAleklgRYEEALELLEKLEAAALAALLAAALGEAALA 189
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 877-1034 6.01e-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: 6.01e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  877 SADGRQLLESSKTALDKGKLEDAVTYGTKALAKLvavcgPYHrmtAGAYSLLAVVLYHTGDFNQATIYQQKALDINerel 956
Cdd:COG4783    1 AACAEALYALAQALLLAGDYDEAEALLEKALELD-----PDN---PEAFALLGEILLQLGDLDEAIVLLHEALELD---- 68

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 42561588  957 gldhPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLHKALK 1034
Cdd:COG4783   69 ----PDEPEARLNLGLALLKAGDYDEALALLEKALKL--------DPEHPEAYLRLARAYRALGRPDEAIAALEKALE 134
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 871-1118 6.92e-10

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


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 63.86  E-value: 6.92e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  871 QQAACSSADGRQLLESSKTALDKGKLEDAVTYGTKALAKlvavcGPYHrmtAGAYSLLAVVLYHTGDFNQATIYQQKALD 950
Cdd:COG3914   69 AAAAALLLLAALLELAALLLQALGRYEEALALYRRALAL-----NPDN---AEALFNLGNLLLALGRLEEALAALRRALA 140

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  951 INerelgldhPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLH 1030
Cdd:COG3914  141 LN--------PDFAEAYLNLGEALRRLGRLEEAIAALRRALEL--------DPDNAEALNNLGNALQDLGRLEEAIAAYR 204

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588 1031 KALKcnqrlLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRAK-------LGPDDLRTQDAAA--WLEYFES 1101
Cdd:COG3914  205 RALE-----LDPDNADAHSNLLFALRQACDWEVYDRFEELLAALARGPSELspfallyLPDDDPAELLALAraWAQLVAA 279

                        250
                 ....*....|....*..
gi 42561588 1102 KAFEQQEAARNgTPKPD 1118
Cdd:COG3914  280 AAAPELPPPPN-PRDPD 295
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 894-1093 1.16e-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: 1.16e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   894 GKLEDAVTYGTKALAKLVAVCG-----PYHRMTAGAYsllAVVLYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYG 968
Cdd:NF040586  448 GRYEEARELDEDTLERQRRVLGlgedhPHTLMTAGGL---GADLRALGRFREALELDEETLERHRRVFGEDHPRTLRAAN 524

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   969 DLAVFYYRLQHTELALKYVKRALYLLHLTCGPSHPNTAATYINVAMMEEGLGNVHVALRYLHKAL-KCNQRLLGPDHIQT 1047
Cdd:NF040586  525 NLAVSLRLLGDYREALELDREVLRRRRRVLGPDHPRTLLSANNLARDLRELGRYAEALDLLEEALeRYREVLGGPDHPDT 604

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 42561588  1048 AASYHAIAIAL----SLMEAYHLSvqheQTTLRILRAKLGPDDLRTQDAA 1093
Cdd:NF040586  605 LRAAKSLAVALrragRLEEALELA----EDTYERYRRRFGPDHPDTLAAA 650
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 891-1097 3.22e-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: 60.13  E-value: 3.22e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  891 LDKGKLEDAVTYGTKALAKlvavcGPYHrmtAGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDL 970
Cdd:COG2956   87 LKAGLLDRAEELLEKLLEL-----DPDD---AEALRLLAEIYEQEGDWEKAIEVLERLLKLG--------PENAHAYCEL 150

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  971 AVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLHKALKcnqrlLGPDHIQTAAS 1050
Cdd:COG2956  151 AELYLEQGDYDEAIEALEKALKL--------DPDCARALLLLAELYLEQGDYEEAIAALERALE-----QDPDYLPALPR 217

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 42561588 1051 YHAIAIALS--------LMEAYHlsvQHEQTTLRILRAKLGPDDLRTQDAAAWLE 1097
Cdd:COG2956  218 LAELYEKLGdpeealelLRKALE---LDPSDDLLLALADLLERKEGLEAALALLE 269
TPR_12 pfam13424
Tetratricopeptide repeat;
962-1038 5.86e-09

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 54.32  E-value: 5.86e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 42561588    962 DTMKSYGDLAVFYYRLQHTELALKYVKRALYLLHLTCGPSHPNTAATYINVAMMEEGLGNVHVALRYLHKALKCNQR 1038
Cdd:pfam13424    1 DVATALNNLAAVLRRLGRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALALAEK 77
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 873-1095 7.02e-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: 61.09  E-value: 7.02e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   873 AACSSADGRQLLessktaLD-------KGKLEDAVTYGTKALAKLVAVCGPYHRMTAGAYSLLAVVLYHTGDFnqatiyq 945
Cdd:NF040586  384 LESDDPEVRRLL------LDqvrylylRGDYESARDLAERALERWRERLGPDDRQTLRLRFHLANALRSLGRY------- 450

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   946 QKALDINE---------RELGLDHPDTMK---SYG-DL-AVFYYRlqhtElALKYVKRALYLLHLTCGPSHPNTAATYIN 1011
Cdd:NF040586  451 EEARELDEdtlerqrrvLGLGEDHPHTLMtagGLGaDLrALGRFR----E-ALELDEETLERHRRVFGEDHPRTLRAANN 525

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  1012 VAMMEEGLGNVHVALRYLHKALKCNQRLLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRTQD 1091
Cdd:NF040586  526 LAVSLRLLGDYREALELDREVLRRRRRVLGPDHPRTLLSANNLARDLRELGRYAEALDLLEEALERYREVLGGPDHPDTL 605


                  ....
gi 42561588  1092 AAAW 1095
Cdd:NF040586  606 RAAK 609
TPR_10 pfam13374
Tetratricopeptide repeat;
921-962 1.47e-08

Tetratricopeptide repeat;


Pssm-ID: 463861 [Multi-domain]  Cd Length: 42  Bit Score: 52.12  E-value: 1.47e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 42561588    921 TAGAYSLLAVVLYHTGDFNQATIYQQKALDINERELGLDHPD 962
Cdd:pfam13374    1 TASSLNNLANALRAQGRYDEAEELLEEALAIRERVLGPDHPD 42
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 922-1057 2.91e-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: 54.24  E-value: 2.91e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  922 AGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLlhltcgps 1001
Cdd:COG4235   17 AEGWLLLGRAYLRLGRYDEALAAYEKALRLD--------PDNADALLDLAEALLAAGDTEEAEELLERALAL-------- 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 42561588 1002 HPNTAATYINVAMMEEGLGNVHVALRYLHKALKcnqrlLGPDHIQTAASYHAIAIA 1057
Cdd:COG4235   81 DPDNPEALYLLGLAAFQQGDYAEAIAAWQKLLA-----LLPADAPARLLEASIAEA 131
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 922-1036 5.02e-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: 5.02e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  922 AGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLlhltcgps 1001
Cdd:COG5010   54 FAIESPSDNLYNKLGDFEESLALLEQALQLD--------PNNPELYYNLALLYSRSGDKDEAKEYYEKALAL-------- 117

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 42561588 1002 HPNTAATYINVAMMEEGLGNVHVALRYLHKALKCN 1036
Cdd:COG5010  118 SPDNPNAYSNLAALLLSLGQDDEAKAALQRALGTS 152
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 932-1096 2.00e-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: 2.00e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588   932 LYHTGDFNQATIYQQKALDINERELGLDHPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLL--HLTCGPSHPNTAATY 1009
Cdd:NF040586  402 LYLRGDYESARDLAERALERWRERLGPDDRQTLRLRFHLANALRSLGRYEEARELDEDTLERQrrVLGLGEDHPHTLMTA 481

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  1010 INVAMMEEGLGNVHVALRYLHKALKCNQRLLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRT 1089
Cdd:NF040586  482 GGLGADLRALGRFREALELDEETLERHRRVFGEDHPRTLRAANNLAVSLRLLGDYREALELDREVLRRRRRVLGPDHPRT 561


                  ....*..
gi 42561588  1090 QDAAAWL 1096
Cdd:NF040586  562 LLSANNL 568
TPR_10 pfam13374
Tetratricopeptide repeat;
1005-1044 6.99e-07

Tetratricopeptide repeat;


Pssm-ID: 463861 [Multi-domain]  Cd Length: 42  Bit Score: 47.50  E-value: 6.99e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 42561588   1005 TAATYINVAMMEEGLGNVHVALRYLHKALKCNQRLLGPDH 1044
Cdd:pfam13374    1 TASSLNNLANALRAQGRYDEAEELLEEALAIRERVLGPDH 40
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 883-1034 7.27e-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: 7.27e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  883 LLESSKTALDKGKLEDAVTYGTKALAklvavcgpYHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPD 962
Cdd:COG2956  147 YCELAELYLEQGDYDEAIEALEKALK--------LDPDCARALLLLAELYLEQGDYEEAIAALERALEQD--------PD 210

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 42561588  963 TMKSYGDLAVFYYRLQHTELALKYVKRALyllhltcgPSHPNTAAtYINVAMMEEGLGNVHVALRYLHKALK 1034
Cdd:COG2956  211 YLPALPRLAELYEKLGDPEEALELLRKAL--------ELDPSDDL-LLALADLLERKEGLEAALALLERQLR 273
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
931-1040 8.44e-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: 8.44e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  931 VLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYGDLAVFYYRLQHTELALKYvKRALYLlhltcgpsHPNTAATYI 1010
Cdd:COG3063    1 LYLKLGDLEEAEEYYEKALELD--------PDNADALNNLGLLLLEQGRYDEAIAL-EKALKL--------DPNNAEALL 63

                         90       100       110
                 ....*....|....*....|....*....|
gi 42561588 1011 NVAMMEEGLGNVHVALRYLHKALKCNQRLL 1040
Cdd:COG3063   64 NLAELLLELGDYDEALAYLERALELDPSAL 93
TPR_12 pfam13424
Tetratricopeptide repeat;
894-954 9.95e-07

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 48.15  E-value: 9.95e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 42561588    894 GKLEDAVTYGTKALAKLVAVCGPYHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINER 954
Cdd:pfam13424   17 GRYDEALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLERALALAEK 77
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
890-991 1.03e-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: 1.03e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  890 ALDKGKLEDAVTYGTKALAKlvavcGPYHrmtAGAYSLLAVVLYHTGDFNQATIYQqKALDINerelgldhPDTMKSYGD 969
Cdd:COG3063    2 YLKLGDLEEAEEYYEKALEL-----DPDN---ADALNNLGLLLLEQGRYDEAIALE-KALKLD--------PNNAEALLN 64

                         90       100
                 ....*....|....*....|..
gi 42561588  970 LAVFYYRLQHTELALKYVKRAL 991
Cdd:COG3063   65 LAELLLELGDYDEALAYLERAL 86
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 871-994 1.16e-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: 49.62  E-value: 1.16e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  871 QQAACSSADGRQLLESSKTALDKGKLEDAVTYGTKALAklvavcgpYHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALD 950
Cdd:COG4235    8 QALAANPNDAEGWLLLGRAYLRLGRYDEALAAYEKALR--------LDPDNADALLDLAEALLAAGDTEEAEELLERALA 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 42561588  951 INerelgldhPDTMKSYGDLAVFYYRLQHTELALKYVKRALYLL 994
Cdd:COG4235   80 LD--------PDNPEALYLLGLAAFQQGDYAEAIAAWQKLLALL 115
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 889-991 1.68e-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: 1.68e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  889 TALDKGKLEDAVTYGTKALAKlvavcGPYHrmtAGAYSLLAVVLYHTGDFNQATIYQQKALDINerelgldhPDTMKSYG 968
Cdd:COG5010   63 LYNKLGDFEESLALLEQALQL-----DPNN---PELYYNLALLYSRSGDKDEAKEYYEKALALS--------PDNPNAYS 126

                         90       100
                 ....*....|....*....|...
gi 42561588  969 DLAVFYYRLQHTELALKYVKRAL 991
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 2.04e-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: 2.04e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 42561588     45 TDRIIDVRRLLSVNFDTCHVTNYSL-SHEIRGSRLKDTVDVSALKPC------VLTLTEEDYNEGTAVAHVRRLLDIV 115
Cdd:pfam15044    2 SETVQDLRQVLSELPATKYLTNYHLeYQNGNGERLNEFVTLSEIIEEldvdelKLQLKEKPYTEREALEHVLRFREFI 79
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
961-1106 5.64e-06

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 49.62  E-value: 5.64e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  961 PDTMKSYGDLAVFYYRLQHTELALKYVKRALYLlhltcgpsHPNTAATYINVAMMEEGLGNVHVALRYLHKALKcnqrlL 1040
Cdd:COG0457    5 PDDAEAYNNLGLAYRRLGRYEEAIEDYEKALEL--------DPDDAEALYNLGLAYLRLGRYEEALADYEQALE-----L 71

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 42561588 1041 GPDHiqtAASYHAIAIALSLMEAYHLSVQHEQTTLRIlraklGPDDLRTQDAAAWLeYFESKAFEQ 1106
Cdd:COG0457   72 DPDD---AEALNNLGLALQALGRYEEALEDYDKALEL-----DPDDAEALYNLGLA-LLELGRYDE 128
COG3899 COG3899
Predicted ATPase [General function prediction only];
881-1111 1.85e-05

Predicted ATPase [General function prediction only];


Pssm-ID: 443106 [Multi-domain]  Cd Length: 1244  Bit Score: 49.86  E-value: 1.85e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  881 RQLLESSKTALDKGKLEDAVTYGTKALAKLVAVCGPYHRmtAGAYSLLAVVLYHTGDFNQATIYQQKAL--DINERELGL 958
Cdd:COG3899  706 RLLLRAARRALARGAYAEALRYLERALELLPPDPEEEYR--LALLLELAEALYLAGRFEEAEALLERALaaRALAALAAL 783

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  959 DHPDTMKSYGDLAVF-YYRLQHTELALKYVKRALYLLHLTCGPSHpnTAATYINVAMMEEGLGNVHVALRYLHKALKcnq 1037
Cdd:COG3899  784 RHGNPPASARAYANLgLLLLGDYEEAYEFGELALALAERLGDRRL--EARALFNLGFILHWLGPLREALELLREALE--- 858

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 42561588 1038 rlLGPDHIQTAASYHAIAIALSLMEAYHLSVQHEQTTLRILRAKLGPDDLRTQDAAAWLEYFESKAFEQQEAAR 1111
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 42561588    326 WSNEFAFIASMPCKTAEERQVRDRKVFLLHNLFVDVATfraiKAVQKVMAEPVLAEEDSE 385
Cdd:pfam13236    2 WNEEFQSLRELPRETLQERLLRERLLSKLASDFVEAAT----KGAKAIIDGNVLPLNPKE 57
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 888-991 3.03e-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: 3.03e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42561588  888 KTALDKGKLEDAVTYGTKALAKLvavcgPYHRMTAGAYSLLAVVLYHTGDFNQATIYQQKALDINErelglDHPDTMKSY 967
Cdd:COG1729    1 KALLKAGDYDEAIAAFKAFLKRY-----PNSPLAPDALYWLGEAYYALGDYDEAAEAFEKLLKRYP-----DSPKAPDAL 70

                         90       100
                 ....*....|....*....|....
gi 42561588  968 GDLAVFYYRLQHTELALKYVKRAL 991
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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