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Conserved domains on  [gi|1979446020|pdb|6TH6|Az]
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Chain Az, Predicted zinc-ribbon RNA-binding protein involved in translation

Protein Classification

PRK14890 family protein( domain architecture ID 10014930)

PRK14890 family protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK14890 PRK14890
putative Zn-ribbon RNA-binding protein; Provisional
 4-62 1.59e-26

putative Zn-ribbon RNA-binding protein; Provisional


:

Pssm-ID: 184884 [Multi-domain]  Cd Length: 59  Bit Score: 90.80  E-value: 1.59e-26
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
6TH6_Az       4 VEMKFEVPVCTSCGKEITPREHATHFVCPNCGEAIIWRCESCRVLSVPYKCPKCGWEGP 62
Cdd:PRK14890  1 ISEMMEPPKCTSCGIEIAPREKAVKFLCPNCGEVIIYRCEKCRKQSNPYTCPKCGFEGP 59
 
Name Accession Description Interval E-value
PRK14890 PRK14890
putative Zn-ribbon RNA-binding protein; Provisional
 4-62 1.59e-26

putative Zn-ribbon RNA-binding protein; Provisional


Pssm-ID: 184884 [Multi-domain]  Cd Length: 59  Bit Score: 90.80  E-value: 1.59e-26
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
6TH6_Az       4 VEMKFEVPVCTSCGKEITPREHATHFVCPNCGEAIIWRCESCRVLSVPYKCPKCGWEGP 62
Cdd:PRK14890  1 ISEMMEPPKCTSCGIEIAPREKAVKFLCPNCGEVIIYRCEKCRKQSNPYTCPKCGFEGP 59
HVO_2753_ZBP pfam07754
Small zinc finger protein HVO_2753-like, Zn-binding pocket; This domain is found in many ...
 13-58 1.76e-20

Small zinc finger protein HVO_2753-like, Zn-binding pocket; This domain is found in many archaeal proteins, including HVO_2753 (also known as Small CPxCG-related zinc finger protein) from Haloferax volcanii. NMR 3D structure analysis revealed the content of four C(P)XCG motifs, suggesting the presence of two zinc-binding pockets (ZBPs). However, only C(P)XCG motifs 2 and 4 (comprising Cys-32 to Cys-35 and Cys-50 to Cys-53) form a ZBP and binds one zinc atom, while C(P)XCG motifs 1 and 3 (comprising Cys-12 to Cys-15 and Cys-39 to Cys-42) form a four-Cys cluster that do not bind zinc. The four C(P)XCG motifs are critical for protein stability, folding and functionality. This domain can also be present in small zinc finger proteins from bacteria and eukaryotes.


Pssm-ID: 429637  Cd Length: 46  Bit Score: 75.16  E-value: 1.76e-20
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
6TH6_Az       13 CTSCGKEITPREHATHFVCPNCGEAIIWRCESCRVLSVPYKCPKCG 58
Cdd:pfam07754  1 CTSCGAEIAPRERAVVFPCPNCGEAVIIRCEKCRKLSNPYVCPKCG 46
COG2888 COG2888
Predicted RNA-binding protein involved in translation, contains Zn-ribbon domain, DUF1610 ...
 11-62 6.73e-14

Predicted RNA-binding protein involved in translation, contains Zn-ribbon domain, DUF1610 family [General function prediction only];


Pssm-ID: 442134 [Multi-domain]  Cd Length: 52  Bit Score: 58.98  E-value: 6.73e-14
                       10        20        30        40        50
               ....*....|....*....|....*....|....*....|....*....|...
6TH6_Az     11 PVCTSCGKEITPrEHATHFVCPNCGEAIIWRCESCRVLSV-PYKCPKCGWEGP 62
Cdd:COG2888  1 PVCPSCGREIAP-EGGVAFYCPNCGEALIIRCPKCRKQSNaLYFCPKCGFEGP 52
 
Name Accession Description Interval E-value
PRK14890 PRK14890
putative Zn-ribbon RNA-binding protein; Provisional
 4-62 1.59e-26

putative Zn-ribbon RNA-binding protein; Provisional


Pssm-ID: 184884 [Multi-domain]  Cd Length: 59  Bit Score: 90.80  E-value: 1.59e-26
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
6TH6_Az       4 VEMKFEVPVCTSCGKEITPREHATHFVCPNCGEAIIWRCESCRVLSVPYKCPKCGWEGP 62
Cdd:PRK14890  1 ISEMMEPPKCTSCGIEIAPREKAVKFLCPNCGEVIIYRCEKCRKQSNPYTCPKCGFEGP 59
HVO_2753_ZBP pfam07754
Small zinc finger protein HVO_2753-like, Zn-binding pocket; This domain is found in many ...
 13-58 1.76e-20

Small zinc finger protein HVO_2753-like, Zn-binding pocket; This domain is found in many archaeal proteins, including HVO_2753 (also known as Small CPxCG-related zinc finger protein) from Haloferax volcanii. NMR 3D structure analysis revealed the content of four C(P)XCG motifs, suggesting the presence of two zinc-binding pockets (ZBPs). However, only C(P)XCG motifs 2 and 4 (comprising Cys-32 to Cys-35 and Cys-50 to Cys-53) form a ZBP and binds one zinc atom, while C(P)XCG motifs 1 and 3 (comprising Cys-12 to Cys-15 and Cys-39 to Cys-42) form a four-Cys cluster that do not bind zinc. The four C(P)XCG motifs are critical for protein stability, folding and functionality. This domain can also be present in small zinc finger proteins from bacteria and eukaryotes.


Pssm-ID: 429637  Cd Length: 46  Bit Score: 75.16  E-value: 1.76e-20
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
6TH6_Az       13 CTSCGKEITPREHATHFVCPNCGEAIIWRCESCRVLSVPYKCPKCG 58
Cdd:pfam07754  1 CTSCGAEIAPRERAVVFPCPNCGEAVIIRCEKCRKLSNPYVCPKCG 46
COG2888 COG2888
Predicted RNA-binding protein involved in translation, contains Zn-ribbon domain, DUF1610 ...
 11-62 6.73e-14

Predicted RNA-binding protein involved in translation, contains Zn-ribbon domain, DUF1610 family [General function prediction only];


Pssm-ID: 442134 [Multi-domain]  Cd Length: 52  Bit Score: 58.98  E-value: 6.73e-14
                       10        20        30        40        50
               ....*....|....*....|....*....|....*....|....*....|...
6TH6_Az     11 PVCTSCGKEITPrEHATHFVCPNCGEAIIWRCESCRVLSV-PYKCPKCGWEGP 62
Cdd:COG2888  1 PVCPSCGREIAP-EGGVAFYCPNCGEALIIRCPKCRKQSNaLYFCPKCGFEGP 52
PRK04023 PRK04023
DNA polymerase II large subunit; Validated
 13-60 7.16e-08

DNA polymerase II large subunit; Validated


Pssm-ID: 235202 [Multi-domain]  Cd Length: 1121  Bit Score: 46.44  E-value: 7.16e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
6TH6_Az        13 CTSCGKEiTPRehathFVCPNCGEAI--IWRCESCRVLSVPYKCPKCGWE 60
Cdd:PRK04023  629 CPSCGKE-TFY-----RRCPFCGTHTepVYRCPRCGIEVEEDECEKCGRE 672
PRK14714 PRK14714
DNA-directed DNA polymerase II large subunit;
12-60 2.74e-06

DNA-directed DNA polymerase II large subunit;


Pssm-ID: 237798 [Multi-domain]  Cd Length: 1337  Bit Score: 41.98  E-value: 2.74e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
6TH6_Az        12 VCTSCGkEITPREhathfVCPNCGE--AIIWRCESCRVLSVP-----YKCPKCGWE 60
Cdd:PRK14714  669 RCPSCG-TETYEN-----RCPDCGThtEPVYVCPDCGAEVPPdesgrVECPRCDVE 718
Mcm2 COG1241
DNA replicative helicase MCM subunit Mcm2, Cdc46/Mcm family [Replication, recombination and ...
 19-62 5.90e-05

DNA replicative helicase MCM subunit Mcm2, Cdc46/Mcm family [Replication, recombination and repair];


Pssm-ID: 440854 [Multi-domain]  Cd Length: 682  Bit Score: 38.24  E-value: 5.90e-05
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....
6TH6_Az      19 EITPREHATHFVCPNCGeAIIWRCESCRVLSVPYKCPKCGWEGP 62
Cdd:COG1241 119 EVKPKITEAAFECPRCG-TETYVPQTGEKLQEPHECPGCGRQGP 161
PRK14714 PRK14714
DNA-directed DNA polymerase II large subunit;
28-62 9.82e-05

DNA-directed DNA polymerase II large subunit;


Pssm-ID: 237798 [Multi-domain]  Cd Length: 1337  Bit Score: 37.75  E-value: 9.82e-05
                          10        20        30
                  ....*....|....*....|....*....|....*..
6TH6_Az        28 HFVCPNCGEAIIW-RCESCRVLSVP-YKCPKCGWEGP 62
Cdd:PRK14714  667 RRRCPSCGTETYEnRCPDCGTHTEPvYVCPDCGAEVP 703
PRK04023 PRK04023
DNA polymerase II large subunit; Validated
 31-61 3.16e-04

DNA polymerase II large subunit; Validated


Pssm-ID: 235202 [Multi-domain]  Cd Length: 1121  Bit Score: 36.42  E-value: 3.16e-04
                          10        20        30
                  ....*....|....*....|....*....|...
6TH6_Az        31 CPNCG-EAIIWRCESCRVLSVP-YKCPKCGWEG 61
Cdd:PRK04023  629 CPSCGkETFYRRCPFCGTHTEPvYRCPRCGIEV 661
PolC_DP2 pfam03833
DNA polymerase II large subunit DP2;
31-61 8.73e-04

DNA polymerase II large subunit DP2;


Pssm-ID: 427537  Cd Length: 866  Bit Score: 35.20  E-value: 8.73e-04
                          10        20        30
                  ....*....|....*....|....*....|...
6TH6_Az        31 CPNCG-EAIIWRCESCRVLSVP-YKCPKCGWEG 61
Cdd:pfam03833 623 CPNCGkETFENRCPDCGAHTEPvYVCPKCGIEV 655
PriA COG1198
Primosomal protein N' (replication factor Y) - superfamily II helicase [Replication, ...
 13-58 6.80e-03

Primosomal protein N' (replication factor Y) - superfamily II helicase [Replication, recombination and repair];


Pssm-ID: 440811 [Multi-domain]  Cd Length: 728  Bit Score: 32.40  E-value: 6.80e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
6TH6_Az      13 CTSCGkeitprehaTHFVCPNCGeaiIW----------RCESC-RVLSVPYKCPKCG 58
Cdd:COG1198 435 CRDCG---------WVAKCPNCD---VSltyhrsrrrlRCHYCgYEEPVPKQCPECG 479
AccD COG0777
Acetyl-CoA carboxylase beta subunit [Lipid transport and metabolism]; Acetyl-CoA carboxylase ...
 13-35 8.94e-03

Acetyl-CoA carboxylase beta subunit [Lipid transport and metabolism]; Acetyl-CoA carboxylase beta subunit is part of the Pathway/BioSystem: Fatty acid biosynthesis


Pssm-ID: 440540 [Multi-domain]  Cd Length: 280  Bit Score: 31.96  E-value: 8.94e-03
                        10        20
                ....*....|....*....|....
6TH6_Az      13 CTSCGKEITPREH-ATHFVCPNCG 35
Cdd:COG0777  28 CPSCGEILYRKELeENLYVCPKCG 51
 
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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