Protein Domain : IPR012340

Type:  Domain Name:  Nucleic acid-binding, OB-fold
Description:  A five-stranded beta-barrel was first noted as a common structure among four proteins binding single-stranded nucleic acids (staphylococcal nuclease and aspartyl-tRNA synthetase) or oligosaccharides (B subunits of enterotoxin and verotoxin-1), and has been termed the oligonucleotide/oligosaccharide binding motif, or OB fold, a five-stranded beta-sheet coiled to form a closed beta-barrel capped by an alpha helix located between the third and fourth strands []. Two ribosomal proteins, S17 and S1, are members of this class, and have different variations of the OB fold theme. Comparisons with other OB fold nucleic acid binding proteins suggest somewhat different mechanisms of nucleic acid recognition in each case [].There are many nucleic acid-binding proteins that contain domains with this OB-fold structure, including anticodon-binding tRNA synthetases, ssDNA-binding proteins (CDC13, telomere-end binding proteins), phage ssDNA-binding proteins (gp32, gp2.5, gpV), cold shock proteins, DNA ligases, RNA-capping enzymes, DNA replication initiators and RNA polymerase subunit RBP8 []. Short Name:  NA-bd_OB-fold
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12 Child Features

DB identifier Type Name
IPR002547 Domain tRNA-binding domain
IPR022967 Domain RNA-binding domain, S1
IPR004365 Domain OB-fold nucleic acid binding domain, AA-tRNA synthetase-type
IPR022666 Domain Ribosomal Proteins L2, RNA binding domain
IPR012309 Domain DNA ligase, ATP-dependent, C-terminal
IPR011564 Domain Telomeric single stranded DNA binding POT1/Cdc13
IPR001059 Domain Translation elongation factor P/YeiP, central
IPR020189 Domain Translation elongation factor, IF5A C-terminal
IPR004150 Domain NAD-dependent DNA ligase, OB-fold
IPR029319 Domain DNA ligase, OB-like domain
IPR013849 Domain DNA helicase, Holliday junction RuvA type, domain I, bacterial
IPR015188 Domain BRCA2, oligonucleotide/oligosaccharide-binding 3

10 Contains

DB identifier Type Name
IPR013955 Domain Replication factor A, C-terminal
IPR007199 Domain Replication factor-A protein 1, N-terminal
IPR011129 Domain Cold shock protein
IPR015365 Domain Elongation factor P, C-terminal
IPR003871 Domain Domain of unknown function DUF223
IPR018239 Active_site NAD-dependent DNA ligase, active site
IPR019844 Conserved_site Cold-shock conserved site
IPR013852 Conserved_site Translation elongation factor P/YeiP, conserved site
IPR019979 Conserved_site Ribosomal protein S17, conserved site
IPR018104 Conserved_site Translation initiation factor 1A (eIF-1A), conserved site

2 Cross Referencess

Identifier
G3DSA:2.40.50.140
SSF50249

41 Found Ins

DB identifier Type Name
IPR004523 Family Aspartyl-tRNA synthetase, archaeal-type
IPR008047 Family Mini-chromosome maintenance complex protein 4
IPR005680 Family Ribosomal protein S23, eukaryotic/archaeal
IPR014646 Family Replication factor A protein 2
IPR008045 Family DNA replication licensing factor Mcm2
IPR008048 Family DNA replication licensing factor Mcm
IPR008050 Family DNA replication licensing factor Mcm7
IPR001208 Domain MCM domain
IPR002312 Family Aspartyl/Asparaginyl-tRNA synthetase, class IIb
IPR004524 Family Aspartate-tRNA ligase, bacterial/mitochondrial-type
IPR001253 Family Translation initiation factor 1A (eIF-1A)
IPR008049 Family DNA replication licensing factor Mcm6
IPR000110 Family Ribosomal protein S1
IPR012162 Family Polyribonucleotide nucleotidyltransferase
IPR005679 Family Ribosomal protein S12, bacteria
IPR006032 Family Ribosomal protein S12/S23
IPR011344 Family Single-stranded DNA-binding protein
IPR000424 Family Primosome PriB/single-strand DNA-binding
IPR004591 Family Replication factor A protein 1
IPR002313 Family Lysine-tRNA ligase, class II
IPR000289 Family Ribosomal protein S28e
IPR008046 Family DNA replication licensing factor Mcm3
IPR002171 Family Ribosomal protein L2
IPR004522 Family Asparagine-tRNA ligase
IPR005880 Family Ribosomal protein L2, bacterial/organellar-type
IPR013846 Domain mRNA capping enzyme, C-terminal
IPR005570 Family RNA polymerase, Rpb8
IPR020599 Family Translation elongation factor P/YeiP
IPR011768 Family Translation elongation factor P
IPR001884 Family Translation elongation factor IF5A

0 GO Annotation

0 Ontology Annotations

0 Parent Features

88009 Proteins

DB identifier UniProt Accession Secondary Identifier Organism Name Length
430315 D8T906 PAC:15419246 Selaginella moellendorffii 306  
170971 D8RF89 PAC:15409909 Selaginella moellendorffii 260  
410947 D8RGD6 PAC:15409520 Selaginella moellendorffii 113  
92747 D8RG21 PAC:15420689 Selaginella moellendorffii 127  
92995 D8RG18 PAC:15422242 Selaginella moellendorffii 563  
441216 D8RHE0 PAC:15406242 Selaginella moellendorffii 815  
186937 D8TAT6 PAC:15412262 Selaginella moellendorffii 159  
431207 D8TBV5 PAC:15421282 Selaginella moellendorffii 417  
431543 D8TD04 PAC:15401409 Selaginella moellendorffii 148  
412040 D8RJV0 PAC:15408401 Selaginella moellendorffii 132  
431704 D8TDI0 PAC:15402804 Selaginella moellendorffii 375  
431648 D8TDC2 PAC:15402215 Selaginella moellendorffii 160  
412223 D8RKH1 PAC:15409962 Selaginella moellendorffii 382  
412227 D8RKH5 PAC:15409973 Selaginella moellendorffii 429  
412245 D8RKJ0 PAC:15410025 Selaginella moellendorffii 393  
412242 D8RKI8 PAC:15410021 Selaginella moellendorffii 606  
412236 D8RKI2 PAC:15410000 Selaginella moellendorffii 479  
412232 D8RKI0 PAC:15409996 Selaginella moellendorffii 425  
412239 D8RKI5 PAC:15410003 Selaginella moellendorffii 883  
431822 D8TDX5 PAC:15403594 Selaginella moellendorffii 433  
431837 D8TDY7 PAC:15403635 Selaginella moellendorffii 429  
431930 D8TEF0 PAC:15404375 Selaginella moellendorffii 372  
137825 D8TEA9 PAC:15422913 Selaginella moellendorffii 287  
148115 PAC:15405373 Selaginella moellendorffii 1640  
412542 D8RLT6 PAC:15412322 Selaginella moellendorffii 368  
412540 D8RLT4 PAC:15412320 Selaginella moellendorffii 300  
412517 D8RLQ8 PAC:15412243 Selaginella moellendorffii 496  
96268 D8RLV4 PAC:15406263 Selaginella moellendorffii 297  
96467 D8RM65 PAC:15407725 Selaginella moellendorffii 494  
96808 D8RLT9 PAC:15410812 Selaginella moellendorffii 610  

3 Publications

First Author Title Year Journal Volume Pages PubMed ID
            15178340
            9862955
            12769718