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Conserved domains on  [gi|1247330543|gb|PCH93351.1|]
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hypothetical protein COB86_00220 [Dehalococcoidia bacterium]

Protein Classification

Zn-ribbon domain-containing OB-fold protein( domain architecture ID 11446204)

Zn-ribbon domain-containing OB-fold protein may bind nucleic acids; similar to Pseudomonas protegens 2,4-diacetylphloroglucinol biosynthesis protein PhlB

CATH:  2.40.50.140
Gene Ontology:  GO:0003676
PubMed:  12504685|12769718|12598368|8458342

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG1545 COG1545
Uncharacterized OB-fold protein, contains Zn-ribbon domain [General function prediction only];
15-133 2.38e-31

Uncharacterized OB-fold protein, contains Zn-ribbon domain [General function prediction only];


:

Pssm-ID: 441154 [Multi-domain]  Cd Length: 116  Bit Score: 108.05  E-value: 2.38e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1247330543  15 FFDAANDERLVIQNCTACDRLQHPPAPACSQCGSGDgLEWKEMSGRGKIYNYGVVYDTPVRlLQVTQPFNVAVIMLDDdp 94
Cdd:COG1545     1 FWRALAEGRLLGQRCPACGTVYFPPRPVCPHCGSED-LEWVELSGRGTVYSYTVVHRPPPP-FEDEVPYVVALVELDE-- 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1247330543  95 GIQMYSHLPGTPPDDVPVGASVEVIFE-ATANDQKIPEWR 133
Cdd:COG1545    77 GVRVLGRLVGVDPEDVRIGMRVRVVFRpIDEDGRTLPVFR 116
 
Name Accession Description Interval E-value
COG1545 COG1545
Uncharacterized OB-fold protein, contains Zn-ribbon domain [General function prediction only];
15-133 2.38e-31

Uncharacterized OB-fold protein, contains Zn-ribbon domain [General function prediction only];


Pssm-ID: 441154 [Multi-domain]  Cd Length: 116  Bit Score: 108.05  E-value: 2.38e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1247330543  15 FFDAANDERLVIQNCTACDRLQHPPAPACSQCGSGDgLEWKEMSGRGKIYNYGVVYDTPVRlLQVTQPFNVAVIMLDDdp 94
Cdd:COG1545     1 FWRALAEGRLLGQRCPACGTVYFPPRPVCPHCGSED-LEWVELSGRGTVYSYTVVHRPPPP-FEDEVPYVVALVELDE-- 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1247330543  95 GIQMYSHLPGTPPDDVPVGASVEVIFE-ATANDQKIPEWR 133
Cdd:COG1545    77 GVRVLGRLVGVDPEDVRIGMRVRVVFRpIDEDGRTLPVFR 116
OB_aCoA_assoc pfam01796
DUF35 OB-fold domain, acyl-CoA-associated; The structure of a DUF35 representative reveals two ...
 54-121 2.89e-11

DUF35 OB-fold domain, acyl-CoA-associated; The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain and a C-terminal OB fold domain represented in this entry. OB-folds are frequently found to bind nucleic acids suggesting this domain might bind to DNA or RNA (Topsan http://www.topsan.org/). Genomic context shows it to be adjacent to acyl-CoA transferase (http:/www.microbesonline.org/).


Pssm-ID: 460333  Cd Length: 65  Bit Score: 54.92  E-value: 2.89e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1247330543  54 WKEMSGRGKIYNYGVVYDTPVRlLQVTQPFNVAVIMLDDdpGIQMYSHLPGTPPDDVPVGASVEVIFE 121
Cdd:pfam01796   1 WVELSGRGTVYSYTVVHRPPPG-FADDVPYVVGLVELDE--GPRVMARLVGVDPDEVRIGMRVRAVFR 65
 
Name Accession Description Interval E-value
COG1545 COG1545
Uncharacterized OB-fold protein, contains Zn-ribbon domain [General function prediction only];
15-133 2.38e-31

Uncharacterized OB-fold protein, contains Zn-ribbon domain [General function prediction only];


Pssm-ID: 441154 [Multi-domain]  Cd Length: 116  Bit Score: 108.05  E-value: 2.38e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1247330543  15 FFDAANDERLVIQNCTACDRLQHPPAPACSQCGSGDgLEWKEMSGRGKIYNYGVVYDTPVRlLQVTQPFNVAVIMLDDdp 94
Cdd:COG1545     1 FWRALAEGRLLGQRCPACGTVYFPPRPVCPHCGSED-LEWVELSGRGTVYSYTVVHRPPPP-FEDEVPYVVALVELDE-- 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1247330543  95 GIQMYSHLPGTPPDDVPVGASVEVIFE-ATANDQKIPEWR 133
Cdd:COG1545    77 GVRVLGRLVGVDPEDVRIGMRVRVVFRpIDEDGRTLPVFR 116
OB_aCoA_assoc pfam01796
DUF35 OB-fold domain, acyl-CoA-associated; The structure of a DUF35 representative reveals two ...
 54-121 2.89e-11

DUF35 OB-fold domain, acyl-CoA-associated; The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain and a C-terminal OB fold domain represented in this entry. OB-folds are frequently found to bind nucleic acids suggesting this domain might bind to DNA or RNA (Topsan http://www.topsan.org/). Genomic context shows it to be adjacent to acyl-CoA transferase (http:/www.microbesonline.org/).


Pssm-ID: 460333  Cd Length: 65  Bit Score: 54.92  E-value: 2.89e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1247330543  54 WKEMSGRGKIYNYGVVYDTPVRlLQVTQPFNVAVIMLDDdpGIQMYSHLPGTPPDDVPVGASVEVIFE 121
Cdd:pfam01796   1 WVELSGRGTVYSYTVVHRPPPG-FADDVPYVVGLVELDE--GPRVMARLVGVDPDEVRIGMRVRAVFR 65
DUF35_N pfam12172
Rubredoxin-like zinc ribbon domain (DUF35_N); This domain has no known function and is found ...
 16-50 6.78e-10

Rubredoxin-like zinc ribbon domain (DUF35_N); This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in Swiss:O53566. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment.


Pssm-ID: 463482  Cd Length: 37  Bit Score: 50.79  E-value: 6.78e-10
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1247330543  16 FDAANDERLVIQNCTACDRLQHPPAPACSQCGSGD 50
Cdd:pfam12172   1 WEALAEGRLVGQRCPDCGTVRFPPRAVCPHCGSRD 35
 
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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