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Conserved domains on  [gi|1888212874|ref|WP_182333610|]
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MrcB family domain-containing protein [Chromobacterium violaceum]

Protein Classification

DUF3883 domain-containing protein( domain architecture ID 10321253)

DUF3883 domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
MrcB_N super family cl13529
MrcB-like, N-terminal domain; This model describes the N-terminal domain of a group of mostly ...
 14-201 2.07e-17

MrcB-like, N-terminal domain; This model describes the N-terminal domain of a group of mostly uncharacterized proteins, including 5-methylcytosine-specific restriction enzyme B (also known as MrcB) from E. coli. MrcB recognizes N4- and C5-methylcytosine (and 5-hydroxy-methylcytosines) produced by a broad range of DNA methylases and appears to act against 5-methylcytosine preceded by a purine residue. The N-terminal domain of MrcB has been shown to be a DNA-binding domain, and the crystal structure has been solved.


The actual alignment was detected with superfamily member pfam12102:

Pssm-ID: 432333  Cd Length: 183  Bit Score: 79.25  E-value: 2.07e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1888212874  14 RLQTQYSSENSEPMQK--RGVLVRTTLRDILYSrmeqfEPLFSGKGYecMVEGSDGIGRKTISAWTRLYDPKMSPSATRG 91
Cdd:pfam12102   1 KILNEYPQARNEPFAGhpLGKLVRQDIPEELEA-----LLFIDGDKY--KVKGSVGQGNWAEVPWIAIFDKEITTSTQKG 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1888212874  92 WYIVIHFSSKGDVFYLTIGCGSTIIKNSALVHVDPDVLKEKIKWAKSCCAKNSRESKsfSNKIELHG-NNLSDQFERATA 170
Cdd:pfam12102  74 YYIVYLFSADMEGVYLSLNQGTTEISKEYGKKKAIQQLRKIAEEIRERLPISGGFFK--DDDIDLGAkSSLGKGYEAGHI 151

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1888212874 171 FAKRYEIQS-FNESEFWQDLQilcgMLVTIYE 201
Cdd:pfam12102 152 AYKYYDLENlPDEDELRRDLK----EMLEIYE 179
NOV_C pfam13020
Protein NO VEIN, C-terminal; This domain of unknown function is found at the C-terminal of ...
 249-328 7.34e-10

Protein NO VEIN, C-terminal; This domain of unknown function is found at the C-terminal of Protein NO VEIN from Arabidopsis, a protein essential for cell fate determination during embryogenesis. It mediates this process through an auxin-dependent pathway. This domain is also found in some restriction endonucleases.


:

Pssm-ID: 463774  Cd Length: 91  Bit Score: 55.34  E-value: 7.34e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1888212874 249 VELHAMETVRTALPGHGFT-DIHDTSAKKSYDF-SARKDGNDWFIEVKGTTsARADSFLLTANELTLHKQHQGRTVLAIV 326
Cdd:pfam13020   1 GERLAIEYVMAREKELGVGwVNEDVEDGLGYDIlSFDPDGEERFIEVKGTA-KGKTTFFLTRNEWEFALEYGDKYWLYRV 79


                  ..
gi 1888212874 327 YD 328
Cdd:pfam13020  80 YN 81
 
Name Accession Description Interval E-value
MrcB_N pfam12102
MrcB-like, N-terminal domain; This model describes the N-terminal domain of a group of mostly ...
 14-201 2.07e-17

MrcB-like, N-terminal domain; This model describes the N-terminal domain of a group of mostly uncharacterized proteins, including 5-methylcytosine-specific restriction enzyme B (also known as MrcB) from E. coli. MrcB recognizes N4- and C5-methylcytosine (and 5-hydroxy-methylcytosines) produced by a broad range of DNA methylases and appears to act against 5-methylcytosine preceded by a purine residue. The N-terminal domain of MrcB has been shown to be a DNA-binding domain, and the crystal structure has been solved.


Pssm-ID: 432333  Cd Length: 183  Bit Score: 79.25  E-value: 2.07e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1888212874  14 RLQTQYSSENSEPMQK--RGVLVRTTLRDILYSrmeqfEPLFSGKGYecMVEGSDGIGRKTISAWTRLYDPKMSPSATRG 91
Cdd:pfam12102   1 KILNEYPQARNEPFAGhpLGKLVRQDIPEELEA-----LLFIDGDKY--KVKGSVGQGNWAEVPWIAIFDKEITTSTQKG 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1888212874  92 WYIVIHFSSKGDVFYLTIGCGSTIIKNSALVHVDPDVLKEKIKWAKSCCAKNSRESKsfSNKIELHG-NNLSDQFERATA 170
Cdd:pfam12102  74 YYIVYLFSADMEGVYLSLNQGTTEISKEYGKKKAIQQLRKIAEEIRERLPISGGFFK--DDDIDLGAkSSLGKGYEAGHI 151

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1888212874 171 FAKRYEIQS-FNESEFWQDLQilcgMLVTIYE 201
Cdd:pfam12102 152 AYKYYDLENlPDEDELRRDLK----EMLEIYE 179
NOV_C pfam13020
Protein NO VEIN, C-terminal; This domain of unknown function is found at the C-terminal of ...
 249-328 7.34e-10

Protein NO VEIN, C-terminal; This domain of unknown function is found at the C-terminal of Protein NO VEIN from Arabidopsis, a protein essential for cell fate determination during embryogenesis. It mediates this process through an auxin-dependent pathway. This domain is also found in some restriction endonucleases.


Pssm-ID: 463774  Cd Length: 91  Bit Score: 55.34  E-value: 7.34e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1888212874 249 VELHAMETVRTALPGHGFT-DIHDTSAKKSYDF-SARKDGNDWFIEVKGTTsARADSFLLTANELTLHKQHQGRTVLAIV 326
Cdd:pfam13020   1 GERLAIEYVMAREKELGVGwVNEDVEDGLGYDIlSFDPDGEERFIEVKGTA-KGKTTFFLTRNEWEFALEYGDKYWLYRV 79


                  ..
gi 1888212874 327 YD 328
Cdd:pfam13020  80 YN 81
 
Name Accession Description Interval E-value
MrcB_N pfam12102
MrcB-like, N-terminal domain; This model describes the N-terminal domain of a group of mostly ...
 14-201 2.07e-17

MrcB-like, N-terminal domain; This model describes the N-terminal domain of a group of mostly uncharacterized proteins, including 5-methylcytosine-specific restriction enzyme B (also known as MrcB) from E. coli. MrcB recognizes N4- and C5-methylcytosine (and 5-hydroxy-methylcytosines) produced by a broad range of DNA methylases and appears to act against 5-methylcytosine preceded by a purine residue. The N-terminal domain of MrcB has been shown to be a DNA-binding domain, and the crystal structure has been solved.


Pssm-ID: 432333  Cd Length: 183  Bit Score: 79.25  E-value: 2.07e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1888212874  14 RLQTQYSSENSEPMQK--RGVLVRTTLRDILYSrmeqfEPLFSGKGYecMVEGSDGIGRKTISAWTRLYDPKMSPSATRG 91
Cdd:pfam12102   1 KILNEYPQARNEPFAGhpLGKLVRQDIPEELEA-----LLFIDGDKY--KVKGSVGQGNWAEVPWIAIFDKEITTSTQKG 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1888212874  92 WYIVIHFSSKGDVFYLTIGCGSTIIKNSALVHVDPDVLKEKIKWAKSCCAKNSRESKsfSNKIELHG-NNLSDQFERATA 170
Cdd:pfam12102  74 YYIVYLFSADMEGVYLSLNQGTTEISKEYGKKKAIQQLRKIAEEIRERLPISGGFFK--DDDIDLGAkSSLGKGYEAGHI 151

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1888212874 171 FAKRYEIQS-FNESEFWQDLQilcgMLVTIYE 201
Cdd:pfam12102 152 AYKYYDLENlPDEDELRRDLK----EMLEIYE 179
NOV_C pfam13020
Protein NO VEIN, C-terminal; This domain of unknown function is found at the C-terminal of ...
 249-328 7.34e-10

Protein NO VEIN, C-terminal; This domain of unknown function is found at the C-terminal of Protein NO VEIN from Arabidopsis, a protein essential for cell fate determination during embryogenesis. It mediates this process through an auxin-dependent pathway. This domain is also found in some restriction endonucleases.


Pssm-ID: 463774  Cd Length: 91  Bit Score: 55.34  E-value: 7.34e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1888212874 249 VELHAMETVRTALPGHGFT-DIHDTSAKKSYDF-SARKDGNDWFIEVKGTTsARADSFLLTANELTLHKQHQGRTVLAIV 326
Cdd:pfam13020   1 GERLAIEYVMAREKELGVGwVNEDVEDGLGYDIlSFDPDGEERFIEVKGTA-KGKTTFFLTRNEWEFALEYGDKYWLYRV 79


                  ..
gi 1888212874 327 YD 328
Cdd:pfam13020  80 YN 81
 
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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