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Conserved domains on  [gi|1425679784|gb|RBU93750|]
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DNA-binding protein [Escherichia coli]

Protein Classification

PPC domain-containing DNA-binding protein( domain architecture ID 10787865)

plants and prokaryotes conserved (PPC) domain-containing DNA-binding protein similar to plant AT-hook motif nuclear-localized (AHL) proteins, which act as transcription factors that specifically bind AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs)

CATH:  3.30.1330.80
PubMed:  12625841

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AF0104 COG1661
Predicted DNA-binding protein with PD1-like DNA-binding motif, PPC/DUF296 domain [General ...
 6-137 1.14e-33

Predicted DNA-binding protein with PD1-like DNA-binding motif, PPC/DUF296 domain [General function prediction only];


:

Pssm-ID: 441267  Cd Length: 139  Bit Score: 114.94  E-value: 1.14e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1425679784   6 YPYSSSARFYALRLLPGQEVLSQLRAFAQQQQLHAAWIAGcTGSLTDVALRYAGQENTA----LLSGKFEVIALNGTL-E 80
Cdd:COG1661     2 YREGSIGRVFVLRLDPGEDLLESLEAFAEEEGIKAAIVSG-IGALRDATLGFYDQEEKEyeeiEFDGPLEVVSLSGNIsL 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1425679784  81 QSGE---HLHLCVSDPHGTMLGGHMMPGcTVRTTLELVIGCLEELAFSRQSCALSGYDEL 137
Cdd:COG1661    81 DDGKpfvHLHAVLGREDGQTLGGHLLEG-TVGFTLEVVITELDGIELERKFDPETGLNLL 139
 
Name Accession Description Interval E-value
AF0104 COG1661
Predicted DNA-binding protein with PD1-like DNA-binding motif, PPC/DUF296 domain [General ...
 6-137 1.14e-33

Predicted DNA-binding protein with PD1-like DNA-binding motif, PPC/DUF296 domain [General function prediction only];


Pssm-ID: 441267  Cd Length: 139  Bit Score: 114.94  E-value: 1.14e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1425679784   6 YPYSSSARFYALRLLPGQEVLSQLRAFAQQQQLHAAWIAGcTGSLTDVALRYAGQENTA----LLSGKFEVIALNGTL-E 80
Cdd:COG1661     2 YREGSIGRVFVLRLDPGEDLLESLEAFAEEEGIKAAIVSG-IGALRDATLGFYDQEEKEyeeiEFDGPLEVVSLSGNIsL 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1425679784  81 QSGE---HLHLCVSDPHGTMLGGHMMPGcTVRTTLELVIGCLEELAFSRQSCALSGYDEL 137
Cdd:COG1661    81 DDGKpfvHLHAVLGREDGQTLGGHLLEG-TVGFTLEVVITELDGIELERKFDPETGLNLL 139
PCC pfam03479
Plants and Prokaryotes Conserved (PCC) domain; This is a Plants and Prokaryotes Conserved (PPC) ...
 15-121 1.23e-32

Plants and Prokaryotes Conserved (PCC) domain; This is a Plants and Prokaryotes Conserved (PPC) domain found in proteins that contain AT-hook motifs pfam02178 which strongly suggests a DNA-binding function for the proteins as a whole. Proteins with PPC domains are found in Bacteria, Archaea and the plant kingdom.The PPC domain has a single alpha-helix packed against an antiparallel beta-sheet, which is formed by five beta-strands. There are three highly conserved histidine residues, eg at 117, 119 and 133 in Swiss:Q46QL5 which appear to form a zinc-binding site, and the domain has been observed to form homotrimers. The domain co-occurs with a thioredoxin-like domain in uncharacterized cyanobacterial proteins.


Pssm-ID: 460940  Cd Length: 115  Bit Score: 111.46  E-value: 1.23e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1425679784  15 YALRLLPGQEVLSQLRAFAQQQQLHAAWIAGCTGSLTDVALRYAGQE----NTALLSGKFEVIALNGTLEQSGE---HLH 87
Cdd:pfam03479   2 HVLRLEPGEDILESLEAFAREEGIRAACVLSAIGAVSNATLRQPDPEekeyGTVTLEGPFEILSLSGTISPTGEpflHLH 81

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1425679784  88 LCVSDPHGTMLGGHMMPGCTVRTTLELVIGCLEE 121
Cdd:pfam03479  82 ISLADPDGQVVGGHLREGLVAATTVEVVIGEFEG 115
DUF296 cd11378
Domain of unknown function found in archaea, bacteria, and plants; This domain is found in ...
 13-117 5.35e-28

Domain of unknown function found in archaea, bacteria, and plants; This domain is found in proteins that contain AT-hook motifs, which suggests a role in DNA-binding for the proteins as a whole. Three conserved histidine residues appear to form a zinc-binding site, and the domain has been observed to form homotrimers. It co-occurs with a thioredoxin-like domain in uncharacterized cyanobacterial proteins.


Pssm-ID: 211390  Cd Length: 113  Bit Score: 99.58  E-value: 5.35e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1425679784  13 RFYALRLLPGQEVLSQLRAFAQQQQLHAAWIAGcTGSLTDVALRYAGQE----NTALLSGKFEVIALNGTL----EQSGE 84
Cdd:cd11378     1 RPFVLRLEPGEDLVESLEAFAREEGIKAAVLSG-IGAVSNATLRYPDPEpkeyETVTFEGRLEILSLSGNIspddGKPSG 79

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1425679784  85 HLHLCVSDPHGTMLGGHMMpGCTVRTTLELVIG 117
Cdd:cd11378    80 HLHVSLADSDGRVIGGHLL-GALVAGTVEVVIG 111
 
Name Accession Description Interval E-value
AF0104 COG1661
Predicted DNA-binding protein with PD1-like DNA-binding motif, PPC/DUF296 domain [General ...
 6-137 1.14e-33

Predicted DNA-binding protein with PD1-like DNA-binding motif, PPC/DUF296 domain [General function prediction only];


Pssm-ID: 441267  Cd Length: 139  Bit Score: 114.94  E-value: 1.14e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1425679784   6 YPYSSSARFYALRLLPGQEVLSQLRAFAQQQQLHAAWIAGcTGSLTDVALRYAGQENTA----LLSGKFEVIALNGTL-E 80
Cdd:COG1661     2 YREGSIGRVFVLRLDPGEDLLESLEAFAEEEGIKAAIVSG-IGALRDATLGFYDQEEKEyeeiEFDGPLEVVSLSGNIsL 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1425679784  81 QSGE---HLHLCVSDPHGTMLGGHMMPGcTVRTTLELVIGCLEELAFSRQSCALSGYDEL 137
Cdd:COG1661    81 DDGKpfvHLHAVLGREDGQTLGGHLLEG-TVGFTLEVVITELDGIELERKFDPETGLNLL 139
PCC pfam03479
Plants and Prokaryotes Conserved (PCC) domain; This is a Plants and Prokaryotes Conserved (PPC) ...
 15-121 1.23e-32

Plants and Prokaryotes Conserved (PCC) domain; This is a Plants and Prokaryotes Conserved (PPC) domain found in proteins that contain AT-hook motifs pfam02178 which strongly suggests a DNA-binding function for the proteins as a whole. Proteins with PPC domains are found in Bacteria, Archaea and the plant kingdom.The PPC domain has a single alpha-helix packed against an antiparallel beta-sheet, which is formed by five beta-strands. There are three highly conserved histidine residues, eg at 117, 119 and 133 in Swiss:Q46QL5 which appear to form a zinc-binding site, and the domain has been observed to form homotrimers. The domain co-occurs with a thioredoxin-like domain in uncharacterized cyanobacterial proteins.


Pssm-ID: 460940  Cd Length: 115  Bit Score: 111.46  E-value: 1.23e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1425679784  15 YALRLLPGQEVLSQLRAFAQQQQLHAAWIAGCTGSLTDVALRYAGQE----NTALLSGKFEVIALNGTLEQSGE---HLH 87
Cdd:pfam03479   2 HVLRLEPGEDILESLEAFAREEGIRAACVLSAIGAVSNATLRQPDPEekeyGTVTLEGPFEILSLSGTISPTGEpflHLH 81

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1425679784  88 LCVSDPHGTMLGGHMMPGCTVRTTLELVIGCLEE 121
Cdd:pfam03479  82 ISLADPDGQVVGGHLREGLVAATTVEVVIGEFEG 115
DUF296 cd11378
Domain of unknown function found in archaea, bacteria, and plants; This domain is found in ...
 13-117 5.35e-28

Domain of unknown function found in archaea, bacteria, and plants; This domain is found in proteins that contain AT-hook motifs, which suggests a role in DNA-binding for the proteins as a whole. Three conserved histidine residues appear to form a zinc-binding site, and the domain has been observed to form homotrimers. It co-occurs with a thioredoxin-like domain in uncharacterized cyanobacterial proteins.


Pssm-ID: 211390  Cd Length: 113  Bit Score: 99.58  E-value: 5.35e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1425679784  13 RFYALRLLPGQEVLSQLRAFAQQQQLHAAWIAGcTGSLTDVALRYAGQE----NTALLSGKFEVIALNGTL----EQSGE 84
Cdd:cd11378     1 RPFVLRLEPGEDLVESLEAFAREEGIKAAVLSG-IGAVSNATLRYPDPEpkeyETVTFEGRLEILSLSGNIspddGKPSG 79

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1425679784  85 HLHLCVSDPHGTMLGGHMMpGCTVRTTLELVIG 117
Cdd:cd11378    80 HLHVSLADSDGRVIGGHLL-GALVAGTVEVVIG 111
 
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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