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Conserved domains on  [gi|1131040779|ref|WP_075800333|]
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PPC domain-containing DNA-binding protein [Roseomonas gilardii]

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 ...
 27-175 7.13e-21

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: 83.36  E-value: 7.13e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1131040779  27 QSLHGRAARHIRLALQPGLSLFEALVRPLAEAGITSASTTILGGyFERLQYCVAPPDPSGQALIAYSAPIEagpayMVFG 106
Cdd:COG1661     1 KYREGSIGRVFVLRLDPGEDLLESLEAFAEEEGIKAAIVSGIGA-LRDATLGFYDQEEKEYEEIEFDGPLE-----VVSL 74

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1131040779 107 NATLGrSLQDRPLVHCHAAIRTASGAVKGGHVVTEacIVGRVpIPVLVTSLDEFELRQAHDPETNIPLL 175
Cdd:COG1661    75 SGNIS-LDDGKPFVHLHAVLGREDGQTLGGHLLEG--TVGFT-LEVVITELDGIELERKFDPETGLNLL 139
 
Name Accession Description Interval E-value
AF0104 COG1661
Predicted DNA-binding protein with PD1-like DNA-binding motif, PPC/DUF296 domain [General ...
 27-175 7.13e-21

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: 83.36  E-value: 7.13e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1131040779  27 QSLHGRAARHIRLALQPGLSLFEALVRPLAEAGITSASTTILGGyFERLQYCVAPPDPSGQALIAYSAPIEagpayMVFG 106
Cdd:COG1661     1 KYREGSIGRVFVLRLDPGEDLLESLEAFAEEEGIKAAIVSGIGA-LRDATLGFYDQEEKEYEEIEFDGPLE-----VVSL 74

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1131040779 107 NATLGrSLQDRPLVHCHAAIRTASGAVKGGHVVTEacIVGRVpIPVLVTSLDEFELRQAHDPETNIPLL 175
Cdd:COG1661    75 SGNIS-LDDGKPFVHLHAVLGREDGQTLGGHLLEG--TVGFT-LEVVITELDGIELERKFDPETGLNLL 139
PCC pfam03479
Plants and Prokaryotes Conserved (PCC) domain; This is a Plants and Prokaryotes Conserved (PPC) ...
 41-159 4.01e-03

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: 35.57  E-value: 4.01e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1131040779  41 LQPGLSLFEALVRPLAEAGITSASTTILGGYFERLQYCVAPPDPSGQALIAYSAPIEagpayMVFGNATLgrSLQDRPLV 120
Cdd:pfam03479   6 LEPGEDILESLEAFAREEGIRAACVLSAIGAVSNATLRQPDPEEKEYGTVTLEGPFE-----ILSLSGTI--SPTGEPFL 78

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1131040779 121 HCHAAIRTASGAVKGGHVVtEACIVGrVPIPVLVTSLDE 159
Cdd:pfam03479  79 HLHISLADPDGQVVGGHLR-EGLVAA-TTVEVVIGEFEG 115
 
Name Accession Description Interval E-value
AF0104 COG1661
Predicted DNA-binding protein with PD1-like DNA-binding motif, PPC/DUF296 domain [General ...
 27-175 7.13e-21

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: 83.36  E-value: 7.13e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1131040779  27 QSLHGRAARHIRLALQPGLSLFEALVRPLAEAGITSASTTILGGyFERLQYCVAPPDPSGQALIAYSAPIEagpayMVFG 106
Cdd:COG1661     1 KYREGSIGRVFVLRLDPGEDLLESLEAFAEEEGIKAAIVSGIGA-LRDATLGFYDQEEKEYEEIEFDGPLE-----VVSL 74

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1131040779 107 NATLGrSLQDRPLVHCHAAIRTASGAVKGGHVVTEacIVGRVpIPVLVTSLDEFELRQAHDPETNIPLL 175
Cdd:COG1661    75 SGNIS-LDDGKPFVHLHAVLGREDGQTLGGHLLEG--TVGFT-LEVVITELDGIELERKFDPETGLNLL 139
PCC pfam03479
Plants and Prokaryotes Conserved (PCC) domain; This is a Plants and Prokaryotes Conserved (PPC) ...
 41-159 4.01e-03

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: 35.57  E-value: 4.01e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1131040779  41 LQPGLSLFEALVRPLAEAGITSASTTILGGYFERLQYCVAPPDPSGQALIAYSAPIEagpayMVFGNATLgrSLQDRPLV 120
Cdd:pfam03479   6 LEPGEDILESLEAFAREEGIRAACVLSAIGAVSNATLRQPDPEEKEYGTVTLEGPFE-----ILSLSGTI--SPTGEPFL 78

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1131040779 121 HCHAAIRTASGAVKGGHVVtEACIVGrVPIPVLVTSLDE 159
Cdd:pfam03479  79 HLHISLADPDGQVVGGHLR-EGLVAA-TTVEVVIGEFEG 115
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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