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 andaspartyl-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

12 Child Features

DB identifier Type Name
IPR022967 Domain RNA-binding domain, S1
IPR004365 Domain OB-fold nucleic acid binding domain, AA-tRNA synthetase-type
IPR002547 Domain tRNA-binding domain
IPR022666 Domain Ribosomal Proteins L2, RNA binding domain
IPR012309 Domain DNA ligase, ATP-dependent, C-terminal
IPR020189 Domain Translation elongation factor, IF5A C-terminal
IPR001059 Domain Translation elongation factor P/YeiP, central
IPR011564 Domain Telomeric single stranded DNA binding POT1/Cdc13
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
IPR011129 Domain Cold shock protein
IPR007199 Domain Replication factor-A protein 1, N-terminal
IPR015365 Domain Elongation factor P, C-terminal
IPR003871 Domain Domain of unknown function DUF223
IPR019844 Conserved_site Cold-shock conserved site
IPR013852 Conserved_site Translation elongation factor P/YeiP, conserved site
IPR018239 Active_site NAD-dependent DNA ligase, active 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
IPR001208 Domain MCM domain
IPR008049 Family DNA replication licensing factor Mcm6
IPR002313 Family Lysine-tRNA ligase, class II
IPR002312 Family Aspartyl/Asparaginyl-tRNA synthetase, class IIb
IPR004523 Family Aspartyl-tRNA synthetase, archaeal-type
IPR008048 Family DNA replication licensing factor Mcm
IPR004524 Family Aspartate-tRNA ligase, bacterial/mitochondrial-type
IPR006032 Family Ribosomal protein S12/S23
IPR005680 Family Ribosomal protein S23, eukaryotic/archaeal
IPR002171 Family Ribosomal protein L2
IPR005880 Family Ribosomal protein L2, bacterial/organellar-type
IPR000110 Family Ribosomal protein S1
IPR008047 Family Mini-chromosome maintenance complex protein 4
IPR012162 Family Polyribonucleotide nucleotidyltransferase
IPR005679 Family Ribosomal protein S12, bacteria
IPR008045 Family DNA replication licensing factor Mcm2
IPR004522 Family Asparagine-tRNA ligase
IPR013846 Domain mRNA capping enzyme, C-terminal
IPR005570 Family RNA polymerase, Rpb8
IPR001884 Family Translation elongation factor IF5A
IPR001253 Family Translation initiation factor 1A (eIF-1A)
IPR011344 Family Single-stranded DNA-binding protein
IPR000424 Family Primosome PriB/single-strand DNA-binding
IPR004591 Family Replication factor A protein 1
IPR008050 Family DNA replication licensing factor Mcm7
IPR000289 Family Ribosomal protein S28e
IPR008046 Family DNA replication licensing factor Mcm3
IPR014646 Family Replication factor A protein 2
IPR020599 Family Translation elongation factor P/YeiP
IPR011768 Family Translation elongation factor P

0 GO Annotation

0 Parent Features

28270 Proteins

DB identifier UniProt Accession Secondary Identifier Organism Name Length
156135 D8SKF4 PAC:15406786 Selaginella moellendorffii 939  
175887 D8S0J7 PAC:15401443 Selaginella moellendorffii 197  
186937 D8TAT6 PAC:15412262 Selaginella moellendorffii 159  
1994 D8R028 PAC:15411070 Selaginella moellendorffii 440  
268639 D8SHL8 PAC:15415730 Selaginella moellendorffii 160  
271333 D8S5Z5 PAC:15422352 Selaginella moellendorffii 134  
38729 D8QWI2 PAC:15417351 Selaginella moellendorffii 93  
403248 D8QTJ9 PAC:15405669 Selaginella moellendorffii 191  
405769 D8QZN1 PAC:15415525 Selaginella moellendorffii 264  
409627 D8RDH9 PAC:15403838 Selaginella moellendorffii 229  
412540 D8RLT4 PAC:15412320 Selaginella moellendorffii 300  
412542 D8RLT6 PAC:15412322 Selaginella moellendorffii 368  
415218 D8RVE3 PAC:15418730 Selaginella moellendorffii 229  
415410 D8RW17 PAC:15420221 Selaginella moellendorffii 366  
419097 D8S7U3 PAC:15406696 Selaginella moellendorffii 389  
419702 D8S9S5 PAC:15411902 Selaginella moellendorffii 888  
420052 D8SAE0 PAC:15409851 Selaginella moellendorffii 492  
423524 D8SLZ6 PAC:15422267 Selaginella moellendorffii 259  
431837 D8TDY7 PAC:15403635 Selaginella moellendorffii 429  
432174 D8TF76 PAC:15401329 Selaginella moellendorffii 982  
432229 D8TFD2 PAC:15402020 Selaginella moellendorffii 176  
432333 D8TFP1 PAC:15402734 Selaginella moellendorffii 203  
438068 D8QT69 PAC:15418129 Selaginella moellendorffii 1014  
445437 D8SIN8 PAC:15419549 Selaginella moellendorffii 1046  
66328 PAC:15407589 Selaginella moellendorffii 285  
79851 D8QXQ7 PAC:15405174 Selaginella moellendorffii 485  
82474 D8R1B5 PAC:15411315 Selaginella moellendorffii 319  
84215 D8R3T7 PAC:15415533 Selaginella moellendorffii 521  
88878 D8R9T1 PAC:15409562 Selaginella moellendorffii 727  
98932 D8RQL4 PAC:15417434 Selaginella moellendorffii 175  

3 Publications

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