The domain within your query sequence starts at position 234 and ends at position 307; the E-value for the S1 domain shown below is 3.52e-18.
AIGDIYNGKVTSIMQFGCFVQLEGLRKRWEGLVHISELRREGRVANVADVVSKGQRVKVK VLSFTGTKTSLSMK
S1Ribosomal protein S1-like RNA-binding domain |
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SMART accession number: | SM00316 |
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Description: | - |
Interpro abstract (IPR022967): | The S1 domain was originally identified in ribosomal protein S1 but is found in a large number of RNA-associated proteins. The structure of the S1 RNA-binding domain from the Escherichia coli polynucleotide phosphorylase has been determined using NMR methods and consists of a five-stranded antiparallel beta barrel. Conserved residues on one face of the barrel and adjacent loops form the putative RNA-binding site [ (PUBMED:9008164) ]. The structure of the S1 domain is very similar to that of cold shock proteins. This suggests that they may both be derived from an ancient nucleic acid-binding protein [ (PUBMED:9008164) ]. |
Family alignment: |
There are 254322 S1 domains in 154091 proteins in SMART's nrdb database.
Click on the following links for more information.
- Evolution (species in which this domain is found)
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Taxonomic distribution of proteins containing S1 domain.
This tree includes only several representative species. The complete taxonomic breakdown of all proteins with S1 domain is also avaliable.
Click on the protein counts, or double click on taxonomic names to display all proteins containing S1 domain in the selected taxonomic class.
- Metabolism (metabolic pathways involving proteins which contain this domain)
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Click the image to view the interactive version of the map in iPath% proteins involved KEGG pathway ID Description 33.77 map00230 Purine metabolism 33.60 map00240 Pyrimidine metabolism 27.13 map03010 Ribosome 3.97 map03020 RNA polymerase 0.57 map00100 Biosynthesis of steroids 0.40 map00550 Peptidoglycan biosynthesis 0.08 map00970 Aminoacyl-tRNA biosynthesis 0.08 map02060 Phosphotransferase system (PTS) 0.08 map00562 Inositol phosphate metabolism 0.08 map00670 One carbon pool by folate 0.08 map00632 Benzoate degradation via CoA ligation 0.08 map00730 Thiamine metabolism 0.08 map00271 Methionine metabolism This information is based on mapping of SMART genomic protein database to KEGG orthologous groups. Percentage points are related to the number of proteins with S1 domain which could be assigned to a KEGG orthologous group, and not all proteins containing S1 domain. Please note that proteins can be included in multiple pathways, ie. the numbers above will not always add up to 100%.
- Structure (3D structures containing this domain)
3D Structures of S1 domains in PDB
PDB code Main view Title 1ah9 THE STRUCTURE OF THE TRANSLATIONAL INITIATION FACTOR IF1 FROM ESCHERICHIA COLI, NMR, 19 STRUCTURES 1e3h SeMet derivative of Streptomyces antibioticus PNPase/GPSI enzyme 1e3p tungstate derivative of Streptomyces antibioticus PNPase/GPSI enzyme 1go3 Structure of an archeal homologue of the eukaryotic RNA polimerase II RPB4/RPB7 complex 1hh2 Crystal structure of NusA from Thermotoga maritima 1hr0 CRYSTAL STRUCTURE OF INITIATION FACTOR IF1 BOUND TO THE 30S RIBOSOMAL SUBUNIT 1k0r Crystal Structure of Mycobacterium tuberculosis NusA 1kl9 Crystal structure of the N-terminal segment of Human eukaryotic initiation factor 2alpha 1l2f Crystal structure of NusA from Thermotoga maritima: a structure-based role of the N-terminal domain 1luz Crystal Structure of the K3L Protein From Vaccinia Virus (Wisconsin Strain) 1nt9 Complete 12-subunit RNA polymerase II 1pqv RNA polymerase II-TFIIS complex 1q46 crystal structure of the eIF2 alpha subunit from saccharomyces cerevisia 1q8k Solution structure of alpha subunit of human eIF2 1slj Solution structure of the S1 domain of RNase E from E. coli 1smx Crystal structure of the S1 domain of RNase E from E. coli (native) 1sn8 Crystal structure of the S1 domain of RNase E from E. coli (Pb derivative) 1sro S1 RNA BINDING DOMAIN, NMR, 20 STRUCTURES 1wcm Complete 12-Subunit RNA Polymerase II at 3.8 A 1wi5 Solution structure of the S1 RNA binding domain from human hypothetical protein BAA11502 1y14 Crystal structure of yeast subcomplex of Rpb4 and Rpb7 1y1v Refined RNA Polymerase II-TFIIS complex 1y1w Complete RNA Polymerase II elongation complex 1y1y RNA Polymerase II-TFIIS-DNA/RNA complex 1y77 Complete RNA Polymerase II elongation complex with substrate analogue GMPCPP 1yz6 Crystal structure of intact alpha subunit of aIF2 from Pyrococcus abyssi 1zo1 IF2, IF1, and tRNA fitted to cryo-EM data OF E. COLI 70S initiation complex 2a19 PKR kinase domain- eIF2alpha- AMP-PNP complex. 2a1a PKR kinase domain-eIF2alpha Complex 2aho Structure of the archaeal initiation factor eIF2 alpha-gamma heterodimer from Sulfolobus solfataricus complexed with GDPNP 2asb Structure of a Mycobacterium tuberculosis NusA-RNA complex 2atw Structure of a Mycobacterium tuberculosis NusA-RNA complex 2b63 Complete RNA Polymerase II-RNA inhibitor complex 2b8k 12-subunit RNA Polymerase II 2ba0 Archaeal exosome core 2ba1 Archaeal exosome core 2bh8 Combinatorial Protein 1b11 2bx2 Catalytic domain of E. coli RNase E 2c0b Catalytic domain of E. coli RNase E in complex with 13-mer RNA 2c35 Subunits Rpb4 and Rpb7 of human RNA polymerase II 2c4r Catalytic domain of E. coli RNase E 2cqo Solution structure of the S1 RNA binding domain of human hypothetical protein FLJ11067 2eqs Solution structure of the S1 RNA binding domain of human ATP-dependent RNA helicase DHX8 2id0 Escherichia coli RNase II 2ix0 RNase II 2ix1 RNase II D209N mutant 2ja5 CPD lesion containing RNA Polymerase II elongation complex A 2ja6 CPD lesion containing RNA Polymerase II elongation complex B 2ja7 CPD lesion containing RNA Polymerase II elongation complex C 2ja8 CPD lesion containing RNA Polymerase II elongation complex D 2ja9 Structure of the N-terminal deletion of yeast exosome component Rrp40 2je6 Structure of a 9-subunit archaeal exosome 2jea Structure of a 9-subunit archaeal exosome bound to RNA 2jeb Structure of a 9-subunit archaeal exosome bound to Mn ions 2k4k Solution structure of GSP13 from Bacillus subtilis 2k52 Structure of uncharacterized protein MJ1198 from Methanocaldococcus jannaschii. Northeast Structural Genomics Target MjR117B 2khi NMR structure of the domain 4 of the E. coli ribosomal protein S1 2khj NMR structure of the domain 6 of the E. coli ribosomal protein S1 2mfi Domain 1 of E. coli ribosomal protein S1 2mfl Domain 2 of E. coli ribosomal protein S1 2n3s 2N3S 2n78 2N78 2n8n 2N8N 2nn6 Structure of the human RNA exosome composed of Rrp41, Rrp45, Rrp46, Rrp43, Mtr3, Rrp42, Csl4, Rrp4, and Rrp40 2oce Crystal structure of Tex family protein PA5201 from Pseudomonas aeruginosa 2pmz Archaeal RNA polymerase from Sulfolobus solfataricus 2r7z Cisplatin lesion containing RNA polymerase II elongation complex 2r92 Elongation complex of RNA polymerase II with artificial RdRP scaffold 2r93 Elongation complex of RNA polymerase II with a hepatitis delta virus-derived RNA stem loop 2vmk Crystal Structure of E. coli RNase E Apoprotein - Catalytic Domain 2vnu Crystal structure of Sc Rrp44 2vrt Crystal Structure of E. coli RNase E possessing M1 RNA fragments - Catalytic Domain 2vum Alpha-amanitin inhibited complete RNA polymerase II elongation complex 2waq The complete structure of the archaeal 13-subunit DNA-directed RNA Polymerase 2wb1 The complete structure of the archaeal 13-subunit DNA-directed RNA Polymerase 2wp8 yeast rrp44 nuclease 2y0s Crystal structure of Sulfolobus shibatae RNA polymerase in P21 space group 2z0s Crystal structure of putative exosome complex RNA-binding protein 3aev Crystal structure of a/eIF2alpha-aDim2p-rRNA complex from Pyrococcus horikoshii OT3 3ayh Crystal structure of the C17/25 subcomplex from S. pombe RNA Polymerase III 3bzc Crystal Structure of the Tex protein from Pseudomonas aeruginosa, crystal form I 3bzk Crystal Structure of the Tex protein from Pseudomonas aeruginosa, crystal form 2 3cdi Crystal structure of E. coli PNPase 3cw2 Crystal structure of the intact archaeal translation initiation factor 2 from Sulfolobus solfataricus . 3fki 12-Subunit RNA Polymerase II Refined with Zn-SAD data 3go5 Crystal structure of a multidomain protein with nucleic acid binding domains (sp_0946) from streptococcus pneumoniae tigr4 at 1.40 A resolution 3h0g RNA Polymerase II from Schizosaccharomyces pombe 3h3v Yeast RNAP II containing poly(A)-signal sequence in the active site 3hkz The X-ray crystal structure of RNA polymerase from Archaea 3hou Complete RNA polymerase II elongation complex I with a T-U mismatch 3hov Complete RNA polymerase II elongation complex II 3how Complete RNA polymerase II elongation complex III with a T-U mismatch and a frayed RNA 3'-uridine 3hox Complete RNA polymerase II elongation complex V 3hoy Complete RNA polymerase II elongation complex VI 3hoz Complete RNA polymerase II elongation complex IV with a T-U mismatch and a frayed RNA 3'-guanine 3i4m 8-oxoguanine containing RNA polymerase II elongation complex D 3i4n 8-oxoguanine containing RNA polymerase II elongation complex E 3i4o Crystal Structure of Translation Initiation Factor 1 from Mycobacterium tuberculosis 3j0k Orientation of RNA polymerase II within the human VP16-Mediator-pol II-TFIIF assembly 3j1n Cryo-EM map of a yeast minimal preinitiation complex interacting with the Mediator Head module 3j81 3J81 3j9m 3J9M 3jap 3JAP 3jaq 3JAQ 3jd5 3JD5 3k1f Crystal structure of RNA Polymerase II in complex with TFIIB 3l7z Crystal structure of the S. solfataricus archaeal exosome 3m7n archaeoglobus fulgidus exosome with RNA bound to the active site 3m85 Archaeoglobus fulgidus exosome y70a with RNA bound to the active site 3po2 Arrested RNA Polymerase II elongation complex 3po3 Arrested RNA Polymerase II reactivation intermediate 3qt1 RNA polymerase II variant containing A Chimeric RPB9-C11 subunit 3v11 Structure of the ternary initiation complex AIF2:GDPNP:methionylated initiator TRNA 4a3b RNA Polymerase II initial transcribing complex with a 4nt DNA-RNA hybrid 4a3c RNA Polymerase II initial transcribing complex with a 5nt DNA-RNA hybrid 4a3d RNA Polymerase II initial transcribing complex with a 6nt DNA-RNA hybrid 4a3e RNA Polymerase II initial transcribing complex with a 5nt DNA-RNA hybrid and soaked with AMPCPP 4a3f RNA Polymerase II initial transcribing complex with a 6nt DNA-RNA hybrid and soaked with AMPCPP 4a3g RNA Polymerase II initial transcribing complex with a 2nt DNA-RNA hybrid 4a3i RNA Polymerase II binary complex with DNA 4a3j RNA Polymerase II initial transcribing complex with a 2nt DNA-RNA hybrid and soaked with GMPCPP 4a3k RNA Polymerase II initial transcribing complex with a 7nt DNA-RNA hybrid 4a3l RNA Polymerase II initial transcribing complex with a 7nt DNA-RNA hybrid and soaked with AMPCPP 4a3m RNA Polymerase II initial transcribing complex with a 4nt DNA-RNA hybrid and soaked with AMPCPP 4a93 RNA Polymerase II elongation complex containing a CPD Lesion 4aid Crystal structure of C. crescentus PNPase bound to RNase E recognition peptide 4aim Crystal structure of C. crescentus PNPase bound to RNase E recognition peptide 4am3 Crystal structure of C. crescentus PNPase bound to RNA 4ayb RNAP at 3.2Ang 4ba1 Archaeal exosome (Rrp4-Rrp41(D182A)-Rrp42) bound to inorganic phosphate 4ba2 Archaeal exosome (Rrp4-Rrp41(D182A)-Rrp42) bound to inorganic phosphate 4bbr Structure of RNA polymerase II-TFIIB complex 4bbs Structure of an initially transcribing RNA polymerase II-TFIIB complex 4bxx Structures of RNA polymerase II complexes with Bye1, a chromatin- binding PHF3 DIDO homologue 4bxz RNA Polymerase II-Bye1 complex 4by1 elongating RNA Polymerase II-Bye1 TLD complex soaked with AMPCPP 4by7 elongating RNA Polymerase II-Bye1 TLD complex 4ifd Crystal structure of an 11-subunit eukaryotic exosome complex bound to RNA 4mtn Crystal structure of transcription termination factor NusA from Planctomyces limnophilus DSM 3776 4nbq 4NBQ 4nng 4NNG 4nnh 4NNH 4nni 4NNI 4nnk 4NNK 4oo1 4OO1 4oxp 4OXP 4q7j 4Q7J 4qiw 4QIW 4qjf 4QJF 4ql5 4QL5 4r71 4R71 4toi 4TOI 4v1n 4V1N 4v1o 4V1O 4v8s 4V8S 5aj3 5AJ3 5aj4 5AJ4 5c0w 5C0W 5c0x 5C0X 5c3e 5C3E 5c44 5C44 5c4a 5C4A 5c4x 5C4X 5c9s 5C9S 5flm 5FLM 5fmf 5FMF 5fyw 5FYW 5fz5 5FZ5 5g06 5G06 5ie8 5IE8 5ip7 5IP7 5ip9 5IP9 5iy6 5IY6 5iy7 5IY7 5iy8 5IY8 5iy9 5IY9 5iya 5IYA 5iyb 5IYB 5iyc 5IYC 5iyd 5IYD 5jb3 5JB3 5jea 5JEA 5k0y 5K0Y 5k36 5K36 5lmn 5LMN 5lmo 5LMO 5lmp 5LMP 5lmq 5LMQ 5lmr 5LMR 5lms 5LMS 5lmt 5LMT 5lmv 5LMV 5sva 5SVA - Links (links to other resources describing this domain)
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PFAM S1 INTERPRO IPR022967