Homologous Superfamily: 2.40.50.140

Molscript image for 1o7iB00
Representative domain: 1o7iB00
PDB coordinates for domain 1o7iB00

Nucleic acid-binding proteins

Classification Lineage (2.40.50.140)

CATH CodeLevel DescriptionLinks
2 Mainly Beta
2.40 Beta Barrel
2.40.50 OB fold (Dihydrolipoamide Acetyltransferase, E2P)
2.40.50.140 Nucleic acid-binding proteins Gene3D

Summary of Non-Redundant Representatives
- - - - 98 131 146 217 832

S35 Family Entries in Homologous Superfamily 2.40.50.140 (98)

CATH Level CATH code Representative Domain Representative Keywords Representative Thumbnail Number of Domains
2.40.50.140.1 1o7iB00 Replication factor A1DNA replicationNucleotide excision repairSingle-stranded DNA binding protein (SSB)Sulfolobus solfataricus Molscript image for 1o7iB00 2
2.40.50.140.2 1x54A01 Asparaginyl-tRNA synthetaseAminoacyl-tRNA biosynthesisAsparagine--tRNA ligase.Pyrococcus horikoshiiAsparaginyl-tRNA synthetase [EC:6.1.1.22] Molscript image for 1x54A01 7
2.40.50.140.3 1se8A02 Single-stranded DNA-binding proteinDeinococcus radiodurans Molscript image for 1se8A02 1
2.40.50.140.4 2nzhB00 Bacillus subtilisProtein csaA Molscript image for 2nzhB00 10
2.40.50.140.5 1se8A01 Single-stranded DNA-binding proteinDeinococcus radiodurans Molscript image for 1se8A01 1
2.40.50.140.6 1l0wA01 Aminoacyl-tRNA biosynthesisAspartyl-tRNA synthetase [EC:6.1.1.12]Aspartate--tRNA ligase.Thermus thermophilusAspartyl-tRNA synthetase Molscript image for 1l0wA01 12
2.40.50.140.7 1mkhA00 Aminoacyl-tRNA biosynthesisPyrococcus abyssiSelenoamino acid metabolismMethionyl-tRNA synthetaseMethionyl-tRNA synthetase [EC:6.1.1.10] Molscript image for 1mkhA00 3
2.40.50.140.8 1go3E01 Pyrimidine metabolismMethanocaldococcus jannaschiiPurine metabolismDNA-directed RNA polymerase subunit E' [EC:2.7.7.6]RNA polymerase Molscript image for 1go3E01 9
2.40.50.140.9 3kdfA00 Nucleotide excision repairDNA replicationCytoplasmHomologous recombinationReplication protein A 14 kDa subunit Molscript image for 3kdfA00 14
2.40.50.140.10 2oq0C01 Gamma-interferon-inducible protein 16NucleolusMonocyte differentiationDouble-stranded DNA bindingProtein binding Molscript image for 2oq0C01 6
2.40.50.140.11 1gvpA00 Enterobacteria phage f1DNA-Binding protein G5P Molscript image for 1gvpA00 28
2.40.50.140.12 1jb7A02 Telomere-binding protein subunit alphaSterkiella nova Molscript image for 1jb7A02 18
2.40.50.140.13 2cwpA00 112aa long hypothetical methionyl-tRNA synthetasePyrococcus horikoshii Molscript image for 2cwpA00 5
2.40.50.140.14 3kdfB00 DNA-dependent DNA replicationReplication protein A 32 kDa subunitDNA replicationNucleotide excision repairReplication factor A2 Molscript image for 3kdfB00 14
2.40.50.140.15 1wocC00 Homologous recombinationPrimosomal replication protein NPrimosomal replication protein nEscherichia coli K-12 Molscript image for 1wocC00 8
2.40.50.140.16 1v1qA00 Homologous recombinationPrimosomal replication protein NPrimosomal replication protein nEscherichia coli K-12 Molscript image for 1v1qA00 4
2.40.50.140.17 2rhsD02 Aminoacyl-tRNA biosynthesisStaphylococcus haemolyticus JCSC1435Phenylalanyl-tRNA synthetase beta chain [EC:6.1.1.20]Phenylalanyl-tRNA synthetase beta chainPhenylalanine--tRNA ligase. Molscript image for 2rhsD02 7
2.40.50.140.18 1x3eA00 Homologous recombinationDNA replicationMycobacterium smegmatis str. MC2 155Single-stranded DNA-binding proteinSingle-strand DNA-binding protein Molscript image for 1x3eA00 24
2.40.50.140.19 2vw9B00 DNA replicationHelicobacter pyloriHomologous recombinationSingle-strand DNA-binding proteinSingle-stranded DNA-binding protein Molscript image for 2vw9B00 3
2.40.50.140.20 1smxA00 Ribonuclease E [EC:3.1.26.12]Identical protein bindingRNA degradationRibonuclease E.Ribonuclease E Molscript image for 1smxA00 5
2.40.50.140.21 1c9oA00 Bacillus caldolyticusCold shock protein cspBCold shock protein (beta-ribbon, CspA family) Molscript image for 1c9oA00 25
2.40.50.140.22 3ullA00 Single-stranded DNA-binding protein, mitochondrialHomologous recombinationDNA replicationSingle-strand DNA-binding proteinHomo sapiens Molscript image for 3ullA00 6
2.40.50.140.23 1x6oA02 Translation initiation factor eIF-5AEukaryotic initiation factor 5a, putativeLeishmania braziliensis Molscript image for 1x6oA02 2
2.40.50.140.24 2hqlA01 Uncharacterized protein MG376 homologMycoplasma pneumoniae Molscript image for 2hqlA01 6
2.40.50.140.25 2asbA01 Transcription elongation protein nusAN utilization substance protein AMycobacterium tuberculosis Molscript image for 2asbA01 5
2.40.50.140.26 1fguB01 DNA-dependent DNA replicationReplication factor A1DNA replicationNucleotide excision repairPML body Molscript image for 1fguB01 4
2.40.50.140.27 1luzA00 Protein K3Vaccinia virus WR Molscript image for 1luzA00 2
2.40.50.140.28 3bzcA05 Pseudomonas aeruginosaPutative uncharacterized protein Molscript image for 3bzcA05 3
2.40.50.140.29 2oq0B02 Gamma-interferon-inducible protein 16NucleolusMonocyte differentiationDouble-stranded DNA bindingProtein binding Molscript image for 2oq0B02 6
2.40.50.140.30 1t9hA01 Ribosome biogenesis GTPase [EC:3.6.1.-]Putative ribosome biogenesis GTPase RsgABacillus subtilisIn phosphorous-containing anhydrides. Molscript image for 1t9hA01 1
2.40.50.140.31 3i4oA00 Translation initiation factor IF-1Translation initiation factor IF-1Mycobacterium tuberculosis Molscript image for 3i4oA00 4
2.40.50.140.32 3d0fA01 MrcA; penicillin-binding 1 (Peptidoglycan synthetase) transmembrane proteinPenicillin-binding protein 1A [EC:2.4.1.- 3.4.-.-]Peptidoglycan biosynthesisNitrosomonas europaeaPentosyltransferases. Molscript image for 3d0fA01 2
2.40.50.140.33 1a62A02 Transcriptional attenuationIn phosphorous-containing anhydrides.RNA degradationProtein bindingTranscription termination factor Rho Molscript image for 1a62A02 9
2.40.50.140.34 1n9wA01 Aminoacyl-tRNA biosynthesisNondiscriminating aspartyl-tRNA synthetase [EC:6.1.1.23]Aspartyl-tRNA synthetase 2Thermus thermophilus Molscript image for 1n9wA01 2
2.40.50.140.35 1a0iA02 DNA ligase (ATP).Enterobacteria phage T7DNA ligase Molscript image for 1a0iA02 1
2.40.50.140.36 1fviA02 Paramecium bursaria Chlorella virus 1A544R protein Molscript image for 1fviA02 2
2.40.50.140.37 3lgjB00 DNA replicationHomologous recombinationBartonella henselaeSingle-stranded DNA-binding proteinSingle-strand DNA-binding protein Molscript image for 3lgjB00 18
2.40.50.140.38 2i5hA01 Archaeoglobus fulgidusPutative nucleotide binding proteinPutative uncharacterized protein Molscript image for 2i5hA01 1
2.40.50.140.39 1b7yB02 Aminoacyl-tRNA biosynthesisPhenylalanyl-tRNA synthetase beta chain [EC:6.1.1.20]Phenylalanyl-tRNA synthetase beta chainPhenylalanine--tRNA ligase.Thermus thermophilus Molscript image for 1b7yB02 10
2.40.50.140.40 1khiA02 Woronin body major proteinNeurospora crassa Molscript image for 1khiA02 1
2.40.50.140.41 1y14D02 Pyrimidine metabolismNuclear-transcribed mRNA catabolic process, exonucleolyticCytoplasmic mRNA processing bodyPurine metabolismPositive regulation of nuclear-transcribed mRNA poly(A) tail shortening Molscript image for 1y14D02 32
2.40.50.140.42 1xjvA01 Protection of telomeres protein 1Negative regulation of telomerase activitySingle-stranded telomeric DNA bindingDNA duplex unwindingTelomere formation via telomerase Molscript image for 1xjvA01 3
2.40.50.140.43 1kl9A01 Translation initiation factor activityEukaryotic translation initiation factor 2 subunit 1PolysomeTranslation initiation factor eIF-2 alpha subunitHomo sapiens Molscript image for 1kl9A01 5
2.40.50.140.44 3irbA02 Sulfolobus solfataricusPutative uncharacterized protein Molscript image for 3irbA02 4
2.40.50.140.45 1jmcA02 Replication factor A1DNA-dependent DNA replicationNucleotide excision repairDNA replicationPML body Molscript image for 1jmcA02 3
2.40.50.140.46 1uebA02 Thermus thermophilus HB8Elongation factor EF-PElongation factor P Molscript image for 1uebA02 4
2.40.50.140.47 3cp0A00 Membrane protein implicated in regulation of membrane protease activityCorynebacterium glutamicum Molscript image for 3cp0A00 1
2.40.50.140.48 1fjgQ00 Thermus thermophilus HB830S ribosomal protein S17RibosomeSmall subunit ribosomal protein S17 Molscript image for 1fjgQ00 19
2.40.50.140.49 1vq8A01 Ribosome50S ribosomal protein L2PHaloarcula marismortuiLarge subunit ribosomal protein L2 Molscript image for 1vq8A01 60
2.40.50.140.50 2j01D01 Thermus thermophilus HB8Ribosome50S ribosomal protein L2Large subunit ribosomal protein L2 Molscript image for 2j01D01 14
2.40.50.140.51 2vqeL00 Thermus thermophilus HB830S ribosomal protein S12 Molscript image for 2vqeL00 101
2.40.50.140.52 1bkbA02 Pyrobaculum aerophilumTranslation initiation factor 5A Molscript image for 1bkbA02 6
2.40.50.140.53 3cqzH00 Pyrimidine metabolismPurine metabolismDNA-directed RNA polymerases I, II, and III subunit RPABC3RNA polymeraseProtein binding Molscript image for 3cqzH00 55
2.40.50.140.54 1cukA01 Holliday junction ATP-dependent DNA helicase ruvAHomologous recombinationIn phosphorous-containing anhydrides.Holliday junction DNA helicase RuvAEscherichia coli K-12 Molscript image for 1cukA01 7
2.40.50.140.55 1uebA03 Thermus thermophilus HB8Elongation factor EF-PElongation factor P Molscript image for 1uebA03 6
2.40.50.140.56 1ltlA02 Methanothermobacter thermautotrophicus str. Delta HDNA replication initiator (Cdc21/Cdc54)Replicative DNA helicase Mcm [EC:3.6.1.-] Molscript image for 1ltlA02 6
2.40.50.140.57 1miuA02 Inner cell mass cell proliferationHemopoiesisPositive regulation of mitotic cell cycleResponse to X-rayChromosome organization Molscript image for 1miuA02 4
2.40.50.140.58 1eovA01 Identical protein bindingAspartate-tRNA ligase activityNucleusAspartyl-tRNA synthetase, cytoplasmicAspartyl-tRNA aminoacylation Molscript image for 1eovA01 5
2.40.50.140.59 1ckmA02 Paramecium bursaria Chlorella virus 1MRNA-capping enzymeMRNA guanylyltransferase. Molscript image for 1ckmA02 5
2.40.50.140.60 1e1oA01 MembraneLysyl-tRNA synthetase, class II [EC:6.1.1.6]Lysine--tRNA ligase.Lysyl-tRNA aminoacylationEscherichia coli K-12 Molscript image for 1e1oA01 15
2.40.50.140.61 3hksA02 NucleusEukaryotic translation initiation factor 5A-2Host programmed cell death induced by symbiontTranslational initiationDefense response to bacterium Molscript image for 3hksA02 6
2.40.50.140.62 2r7dA03 Exoribonuclease II [EC:3.1.13.1]Ribonuclease II family proteinDeinococcus radiodurans Molscript image for 2r7dA03 4
2.40.50.140.63 1qvcD00 Escherichia coli O157:H7Homologous recombinationDNA replicationSingle-stranded DNA-binding proteinSingle-strand DNA-binding protein Molscript image for 1qvcD00 4
2.40.50.140.64 1gm5A03 Thermotoga maritimaHomologous recombinationATP-dependent DNA helicase RecG [EC:3.6.1.-]ATP-dependent DNA helicase Molscript image for 1gm5A03 1
2.40.50.140.65 1fl0A00 Leukocyte migrationAminoacyl-tRNA synthetase multienzyme complexProtein homodimerization activityNegative regulation of endothelial cell proliferationExtracellular space Molscript image for 1fl0A00 8
2.40.50.140.66 1oxxK02 ABC transporter, ATP binding protein (Glucose)Glucose/arabinose transport system ATP-binding proteinSulfolobus solfataricusABC transporters Molscript image for 1oxxK02 11
2.40.50.140.67 1hh2P02 Thermotoga maritimaN utilization substance protein A Molscript image for 1hh2P02 2
2.40.50.140.68 1miuA03 Inner cell mass cell proliferationHemopoiesisResponse to X-rayPositive regulation of mitotic cell cycleDNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator Molscript image for 1miuA03 3
2.40.50.140.69 3bjuB01 Lysine-tRNA ligase activityLysyl-tRNA synthetaseSoluble fractionHomo sapiensLysine--tRNA ligase. Molscript image for 3bjuB01 4
2.40.50.140.70 2qgqA02 Thermotoga maritimaRibosomal protein S12 methylthiotransferase rimOTransferases. Molscript image for 2qgqA02 8
2.40.50.140.71 2ztdA01 Holliday junction ATP-dependent DNA helicase ruvAHomologous recombinationIn phosphorous-containing anhydrides.Holliday junction DNA helicase RuvAMycobacterium tuberculosis Molscript image for 2ztdA01 18
2.40.50.140.72 1p16B02 MRNA guanylyltransferase.MRNA-capping enzyme subunit alphaCandida albicans Molscript image for 1p16B02 2
2.40.50.140.73 1pv4A01 Transcriptional attenuationRNA degradationIn phosphorous-containing anhydrides.Transcription termination factor RhoProtein binding Molscript image for 1pv4A01 28
2.40.50.140.74 1l1oF01 Replication factor A1DNA-dependent DNA replicationNucleotide excision repairDNA replicationPML body Molscript image for 1l1oF01 2
2.40.50.140.75 1k3rA02 Hypothetical proteinMethanothermobacter thermautotrophicus str. Delta HConserved protein Molscript image for 1k3rA02 2
2.40.50.140.76 1bbuA01 MembraneLysyl-tRNA synthetase, class II [EC:6.1.1.6]Lysine--tRNA ligase.Protein bindingCytosol Molscript image for 1bbuA01 4
2.40.50.140.77 2ahoB01 Translation initiation factor eIF-2 alpha subunitSulfolobus solfataricusTranslation initiation factor 2 subunit alpha Molscript image for 2ahoB01 2
2.40.50.140.78 1g29102 Maltose transport protein MalKThermococcus litoralis Molscript image for 1g29102 3
2.40.50.140.79 1jb7A03 Telomere-binding protein subunit alphaSterkiella nova Molscript image for 1jb7A03 15
2.40.50.140.80 1rl2A01 Geobacillus stearothermophilus50S ribosomal protein L2 Molscript image for 1rl2A01 2
2.40.50.140.81 1dgsA04 DNA ligaseDNA ligase (NAD(+)).Thermus filiformis Molscript image for 1dgsA04 6
2.40.50.140.82 1qzgA00 Protection of telomeres protein 1Protection of telomeres protein 1Single-stranded telomeric DNA bindingProtein bindingSchizosaccharomyces pombe Molscript image for 1qzgA00 8
2.40.50.140.83 1jb7A01 Telomere-binding protein subunit alphaSterkiella nova Molscript image for 1jb7A01 18
2.40.50.140.84 1je5A00 Enterobacteria phage T7Helix-destabilizing protein Molscript image for 1je5A00 2
2.40.50.140.85 1x9nA04 DNA ligase (ATP).Nucleotide excision repairDNA replicationBase excision repairDNA binding Molscript image for 1x9nA04 1
2.40.50.140.86 2zteA01 Holliday junction ATP-dependent DNA helicase ruvAHomologous recombinationIn phosphorous-containing anhydrides.Holliday junction DNA helicase RuvAMycobacterium tuberculosis Molscript image for 2zteA01 1
2.40.50.140.87 3d31A02 Methanosarcina acetivoransPutative sulfate transport system ATP-binding proteinSulfate/molybdate ABC transporter, ATP-binding proteinABC transporters Molscript image for 3d31A02 2
2.40.50.140.88 1jjgA00 M156RMyxoma virus Molscript image for 1jjgA00 1
2.40.50.140.89 1jt8A00 Methanocaldococcus jannaschiiTranslation initiation factor eIF-1ATranslation initiation factor 1A Molscript image for 1jt8A00 1
2.40.50.140.90 1lm0A00 Cytochrome c-type biogenesis protein ccmECytochrome c-type biogenesis protein CcmEShewanella oneidensis Molscript image for 1lm0A00 4
2.40.50.140.91 1ewiA00 Replication factor A1DNA-dependent DNA replicationNucleotide excision repairDNA replicationReplication protein A 70 kDa DNA-binding subunit Molscript image for 1ewiA00 1
2.40.50.140.92 2khiA00 Membrane30S ribosomal protein S1Small subunit ribosomal protein S1RibosomeEscherichia coli K-12 Molscript image for 2khiA00 3
2.40.50.140.93 2jqoA01 Bacillus subtilisUncharacterized protein yobA Molscript image for 2jqoA01 1
2.40.50.140.94 1ripA00 30S ribosomal protein S17Geobacillus stearothermophilus Molscript image for 1ripA00 1
2.40.50.140.95 1pfsA00 DNA-Binding protein G5PPseudomonas phage Pf3 Molscript image for 1pfsA00 2
2.40.50.140.96 1ny4A00 Pyrococcus horikoshiiRibosomeSmall subunit ribosomal protein S28e30S ribosomal protein S28e Molscript image for 1ny4A00 2
2.40.50.140.97 1d7qA00 Translation initiation factor eIF-1AEukaryotic translation initiation factor 1A, X-chromosomalHomo sapiensTranslational initiation Molscript image for 1d7qA00 1
2.40.50.140.98 1kxlA00 Cell division control protein 13Negative regulation of telomerase activitySingle-stranded telomeric DNA bindingProtein bindingCell division control protein 13 Molscript image for 1kxlA00 2

Close Structural Clusters 2.40.50.140 (< 5Å)

Summary of "distant" structural clusters found within this level of CATH.
Cluster ID Example Domain Domains in Cluster Structural Alignment (Core) Structural Alignment (Expanded)
00002.00040.00050.00140/SSG5/1 1a0iA02 2
00002.00040.00050.00140/SSG5/2 1l0wA01 5
00002.00040.00050.00140/SSG5/3 1fguB01 2
00002.00040.00050.00140/SSG5/4 2hqlA01 4
00002.00040.00050.00140/SSG5/5 2nzhB00 4
00002.00040.00050.00140/SSG5/6 3hksA02 4
00002.00040.00050.00140/SSG5/7 3d31A02 5
00002.00040.00050.00140/SSG5/8 1y14D02 7
00002.00040.00050.00140/SSG5/9 1pfsA00 2
00002.00040.00050.00140/SSG5/10 1jb7A01 3
00002.00040.00050.00140/SSG5/11 1pv4A01 2
00002.00040.00050.00140/SSG5/12 1miuA03 5
00002.00040.00050.00140/SSG5/13 1lm0A00 3
00002.00040.00050.00140/SSG5/14 2rhsD02 2
00002.00040.00050.00140/SSG5/15 2vw9B00 5
00002.00040.00050.00140/SSG5/16 1rl2A01 2
00002.00040.00050.00140/SSG5/17 1smxA00 2
00002.00040.00050.00140/SSG5/18 1wocC00 2
00002.00040.00050.00140/SSG5/19 2i5hA01 2
00002.00040.00050.00140/SSG5/20 3d0fA01 2
00002.00040.00050.00140/SSG5/21 3bjuB01 3
00002.00040.00050.00140/SSG5/22 1k3rA02 8
00002.00040.00050.00140/SSG5/23 1p16B02 2
00002.00040.00050.00140/SSG5/24 1cukA01 5


Distant Structural Clusters 2.40.50.140 (< 9Å)

Summary of "distant" structural clusters found within this level of CATH.
Cluster ID Example Domain Domains in Cluster Structural Alignment (Core) Structural Alignment (Expanded)
00002.00040.00050.00140/SSGA9/1 1jt8A00 2
00002.00040.00050.00140/SSGA9/2 2nzhB00 4
00002.00040.00050.00140/SSGA9/3 3cqzH00 2
00002.00040.00050.00140/SSGA9/4 3d0fA01 9
00002.00040.00050.00140/SSGA9/5 1dgsA04 3
00002.00040.00050.00140/SSGA9/6 1ltlA02 9
00002.00040.00050.00140/SSGA9/7 1jjgA00 2


Structural Comparisons for Non-redundant S35 Representatives of 2.40.50.140 ( entries)