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Conserved domains on  [gi|296785060|ref|NP_001171891|]
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retrotransposon-derived protein PEG10 isoform 6 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Retrotrans_gag pfam03732
Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a ...
 153-246 4.92e-16

Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.


:

Pssm-ID: 367628  Cd Length: 97  Bit Score: 72.75  E-value: 4.92e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 296785060  153 CFVTSMMTGRAARWASAKLERSHYLMHNYPAFMMEMKHVFEDPQRREVAKRKIRRLRQGMGSVIDYSNAFQMIAQDLD-- 230
Cdd:pfam03732   1 KLAVHSLRGAALTWWKSLVARSIDAFDSWDELKDAFLKRFFPSIRKDLLRNELRSLRQGTESVREYVERFKRLARQLPhh 80

                          90
                  ....*....|....*..
gi 296785060  231 -WNEPALIDQYHEGLSD 246
Cdd:pfam03732  81 gRDEEALISAFLRGLRP 97
Retrotrans_gag super family cl46289
Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a ...
 111-192 1.08e-14

Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.


The actual alignment was detected with superfamily member pfam16297:

Pssm-ID: 480629  Cd Length: 112  Bit Score: 69.56  E-value: 1.08e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 296785060  111 ECPEDLPEKFDGNPDMLAPFMAQCQIFMEKSTRDFSVDRVRVCFVTSMMTGRAARWASAKLERSHYLMHNYPAFMMEMKH 190
Cdd:pfam16297  22 SNPIPFPERFSGESGRLPEFIVQTMSYMLVDEKTFCNDAMKVAFLITRLSGRALEWVMPYIQSDSPILNNYRAFLNEMKQ 101


                  ..
gi 296785060  191 VF 192
Cdd:pfam16297 102 YF 103
FtsL2 super family cl44142
Cell division protein FtsL [Cell cycle control, cell division, chromosome partitioning];
41-72 3.28e-03

Cell division protein FtsL [Cell cycle control, cell division, chromosome partitioning];


The actual alignment was detected with superfamily member COG4839:

Pssm-ID: 443867  Cd Length: 123  Bit Score: 37.24  E-value: 3.28e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 296785060  41 DELSEEINNLREKVMKQSEENNNLQSQVQKLT 72
Cdd:COG4839   65 YELNREIQSLESKISEQQKENEDLEQEVSELS 96
 
Name Accession Description Interval E-value
Retrotrans_gag pfam03732
Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a ...
 153-246 4.92e-16

Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.


Pssm-ID: 367628  Cd Length: 97  Bit Score: 72.75  E-value: 4.92e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 296785060  153 CFVTSMMTGRAARWASAKLERSHYLMHNYPAFMMEMKHVFEDPQRREVAKRKIRRLRQGMGSVIDYSNAFQMIAQDLD-- 230
Cdd:pfam03732   1 KLAVHSLRGAALTWWKSLVARSIDAFDSWDELKDAFLKRFFPSIRKDLLRNELRSLRQGTESVREYVERFKRLARQLPhh 80

                          90
                  ....*....|....*..
gi 296785060  231 -WNEPALIDQYHEGLSD 246
Cdd:pfam03732  81 gRDEEALISAFLRGLRP 97
DUF4939 pfam16297
Domain of unknown function (DUF4939); This family consists of uncharacterized proteins around ...
 111-192 1.08e-14

Domain of unknown function (DUF4939); This family consists of uncharacterized proteins around 110 residues in length and is mainly found in various mammalia species. LDOC1, a member of this family and a novel MZF-1-interacting protein, inhibits NF-kappaB activation and relates with cancer and some other diseases. But the specific function of this family is still unknown.


Pssm-ID: 465086  Cd Length: 112  Bit Score: 69.56  E-value: 1.08e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 296785060  111 ECPEDLPEKFDGNPDMLAPFMAQCQIFMEKSTRDFSVDRVRVCFVTSMMTGRAARWASAKLERSHYLMHNYPAFMMEMKH 190
Cdd:pfam16297  22 SNPIPFPERFSGESGRLPEFIVQTMSYMLVDEKTFCNDAMKVAFLITRLSGRALEWVMPYIQSDSPILNNYRAFLNEMKQ 101


                  ..
gi 296785060  191 VF 192
Cdd:pfam16297 102 YF 103
FtsL2 COG4839
Cell division protein FtsL [Cell cycle control, cell division, chromosome partitioning];
41-72 3.28e-03

Cell division protein FtsL [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443867  Cd Length: 123  Bit Score: 37.24  E-value: 3.28e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 296785060  41 DELSEEINNLREKVMKQSEENNNLQSQVQKLT 72
Cdd:COG4839   65 YELNREIQSLESKISEQQKENEDLEQEVSELS 96
bZIP_ATF2 cd14687
Basic leucine zipper (bZIP) domain of Activating Transcription Factor-2 (ATF-2) and similar ...
 45-82 3.44e-03

Basic leucine zipper (bZIP) domain of Activating Transcription Factor-2 (ATF-2) and similar proteins: a DNA-binding and dimerization domain; ATF-2 is a sequence-specific DNA-binding protein that belongs to the Basic leucine zipper (bZIP) family of transcription factors. In response to stress, it activates a variety of genes including cyclin A, cyclin D, and c-Jun. ATF-2 also plays a role in the DNA damage response that is independent of its transcriptional activity. bZIP factors act in networks of homo and heterodimers in the regulation of a diverse set of cellular processes. The bZIP structural motif contains a basic region and a leucine zipper, composed of alpha helices with leucine residues 7 amino acids apart, which stabilize dimerization with a parallel leucine zipper domain. Dimerization of leucine zippers creates a pair of the adjacent basic regions that bind DNA and undergo conformational change. Dimerization occurs in a specific and predictable manner resulting in hundreds of dimers having unique effects on transcription.


Pssm-ID: 269835 [Multi-domain]  Cd Length: 61  Bit Score: 35.58  E-value: 3.44e-03
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 296785060  45 EEINNLREKVMKQSEENNNLQSQVQKLTEENTTLREQV 82
Cdd:cd14687   22 QWVQQLEEKVRKLESENKALKAEVDKLREEVLDLKNLL 59
 
Name Accession Description Interval E-value
Retrotrans_gag pfam03732
Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a ...
 153-246 4.92e-16

Retrotransposon gag protein; Gag or Capsid-like proteins from LTR retrotransposons. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.


Pssm-ID: 367628  Cd Length: 97  Bit Score: 72.75  E-value: 4.92e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 296785060  153 CFVTSMMTGRAARWASAKLERSHYLMHNYPAFMMEMKHVFEDPQRREVAKRKIRRLRQGMGSVIDYSNAFQMIAQDLD-- 230
Cdd:pfam03732   1 KLAVHSLRGAALTWWKSLVARSIDAFDSWDELKDAFLKRFFPSIRKDLLRNELRSLRQGTESVREYVERFKRLARQLPhh 80

                          90
                  ....*....|....*..
gi 296785060  231 -WNEPALIDQYHEGLSD 246
Cdd:pfam03732  81 gRDEEALISAFLRGLRP 97
DUF4939 pfam16297
Domain of unknown function (DUF4939); This family consists of uncharacterized proteins around ...
 111-192 1.08e-14

Domain of unknown function (DUF4939); This family consists of uncharacterized proteins around 110 residues in length and is mainly found in various mammalia species. LDOC1, a member of this family and a novel MZF-1-interacting protein, inhibits NF-kappaB activation and relates with cancer and some other diseases. But the specific function of this family is still unknown.


Pssm-ID: 465086  Cd Length: 112  Bit Score: 69.56  E-value: 1.08e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 296785060  111 ECPEDLPEKFDGNPDMLAPFMAQCQIFMEKSTRDFSVDRVRVCFVTSMMTGRAARWASAKLERSHYLMHNYPAFMMEMKH 190
Cdd:pfam16297  22 SNPIPFPERFSGESGRLPEFIVQTMSYMLVDEKTFCNDAMKVAFLITRLSGRALEWVMPYIQSDSPILNNYRAFLNEMKQ 101


                  ..
gi 296785060  191 VF 192
Cdd:pfam16297 102 YF 103
Ty3_capsid pfam19259
Ty3 transposon capsid-like protein; This entry corresponds to the capsid protein found in the ...
 120-257 5.29e-07

Ty3 transposon capsid-like protein; This entry corresponds to the capsid protein found in the Ty3 transposons of yeast as well as other transposable elements.


Pssm-ID: 437091 [Multi-domain]  Cd Length: 197  Bit Score: 49.39  E-value: 5.29e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 296785060  120 FDGNPDM--LAPFMAQCQIFMekSTRDFSVDRVRVCFVTSMMTGRAARWASAKLERSHYLMHNYPAFMMEMKHVFEDPQR 197
Cdd:pfam19259  17 FRGRKDVlkLKSFISEIMLQM--SMIFWPNDAERIVFCARHLTGPAAQWFHDFVQEQGILDATFDTFIKAFKQHFYGKPD 94

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 296785060  198 REVAKRKIRRLRQGMGSVIDYSNAFQMIAQDLD---WNEPALIDQYHEGLSDHIQEELSHLEV 257
Cdd:pfam19259  95 INKLFNDIVNLSEAKLGIERYNSHFNRLWDLLPpdfLSEKAAIMFYIRGLKPETYIIVRLAKP 157
FtsL2 COG4839
Cell division protein FtsL [Cell cycle control, cell division, chromosome partitioning];
41-72 3.28e-03

Cell division protein FtsL [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443867  Cd Length: 123  Bit Score: 37.24  E-value: 3.28e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 296785060  41 DELSEEINNLREKVMKQSEENNNLQSQVQKLT 72
Cdd:COG4839   65 YELNREIQSLESKISEQQKENEDLEQEVSELS 96
bZIP_ATF2 cd14687
Basic leucine zipper (bZIP) domain of Activating Transcription Factor-2 (ATF-2) and similar ...
 45-82 3.44e-03

Basic leucine zipper (bZIP) domain of Activating Transcription Factor-2 (ATF-2) and similar proteins: a DNA-binding and dimerization domain; ATF-2 is a sequence-specific DNA-binding protein that belongs to the Basic leucine zipper (bZIP) family of transcription factors. In response to stress, it activates a variety of genes including cyclin A, cyclin D, and c-Jun. ATF-2 also plays a role in the DNA damage response that is independent of its transcriptional activity. bZIP factors act in networks of homo and heterodimers in the regulation of a diverse set of cellular processes. The bZIP structural motif contains a basic region and a leucine zipper, composed of alpha helices with leucine residues 7 amino acids apart, which stabilize dimerization with a parallel leucine zipper domain. Dimerization of leucine zippers creates a pair of the adjacent basic regions that bind DNA and undergo conformational change. Dimerization occurs in a specific and predictable manner resulting in hundreds of dimers having unique effects on transcription.


Pssm-ID: 269835 [Multi-domain]  Cd Length: 61  Bit Score: 35.58  E-value: 3.44e-03
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 296785060  45 EEINNLREKVMKQSEENNNLQSQVQKLTEENTTLREQV 82
Cdd:cd14687   22 QWVQQLEEKVRKLESENKALKAEVDKLREEVLDLKNLL 59
 
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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