Protein Info for Rru_A3202 in Rhodospirillum rubrum S1H

Annotation: DNA topoisomerase (NCBI)

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 915 PF01751: Toprim" amino acids 3 to 115 (113 residues), 66.4 bits, see alignment E=4.4e-22 TIGR01051: DNA topoisomerase I" amino acids 4 to 642 (639 residues), 777.2 bits, see alignment E=8.9e-238 PF01131: Topoisom_bac" amino acids 130 to 563 (434 residues), 405.5 bits, see alignment E=5.6e-125 PF01396: Zn_ribbon_Top1" amino acids 609 to 643 (35 residues), 49 bits, see alignment (E = 8.3e-17) PF13368: Toprim_C_rpt" amino acids 667 to 729 (63 residues), 42.8 bits, see alignment 7.9e-15 amino acids 734 to 788 (55 residues), 72.1 bits, see alignment 5.7e-24 amino acids 798 to 852 (55 residues), 76.3 bits, see alignment 2.7e-25

Best Hits

Swiss-Prot: 53% identical to TOP1_RICFE: DNA topoisomerase 1 (topA) from Rickettsia felis (strain ATCC VR-1525 / URRWXCal2)

KEGG orthology group: K03168, DNA topoisomerase I [EC: 5.99.1.2] (inferred from 100% identity to rru:Rru_A3202)

Predicted SEED Role

"DNA topoisomerase I (EC 5.99.1.2)" in subsystem Conserved gene cluster associated with Met-tRNA formyltransferase or DNA topoisomerases, Type I, ATP-independent or pVir Plasmid of Campylobacter (EC 5.99.1.2)

Isozymes

No predicted isozymes

Use Curated BLAST to search for 5.99.1.2

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See Q2RPE8 at UniProt or InterPro

Protein Sequence (915 amino acids)

>Rru_A3202 DNA topoisomerase (NCBI) (Rhodospirillum rubrum S1H)
MHVVVVESPAKAKTINKYLGKDYVVLASYGHIRDLPPKDGSVRPDEGFAMDWEIDAKSEK
HVKDITQALKSADGLLLATDPDREGEAISWHVRDVLEKRKALVGKQVQRITFNAITRSAV
EEALRNPRDLDTPLVEAYLARRALDYLVGFTLSPVLWRKLPGSRSAGRVQSVALRLICER
EQEVERFVSREYWTVDAILASPQGQIFRARLSQLDGQKLDKFGLPDETTALAALERIKAA
TLRVESVERKQARRNPAAPFTTSTIQQEASRKLYFSARQTMQVAQKLYEGVDLGGETVGL
ITYMRTDGVSIAPEAVFATRDLIGAEFGAAYLPEQPRVYKTKAKNAQEAHEAIRPTDVAR
TPQSVAPYLTAEQRKLYELVWKRTVASQMASAILDQVAVDIADPEAKVVLHATGSVIQFD
GFLKVYREDFDDRPESSPDGAGEDENRLLPPLREGDGVKREDVKADQHFTQPPPRYTEAS
LVKRMEELGIGRPSTYASILSVLQDREYVRLDARRFIPEDRGRLVTAFLENFFSRYVQYS
FTADLENQLDEISDGKLGWKTVLERFWMDFKAAIEGTATLRVSEVLDALDKELGPHLFPQ
AEDGHDPRVCPVCSAGRLGLRIGKFGAFVGCSNYPDCKFTRPLVTKEGEGGDGAALAEDG
TKPLGKDPVSGEDVTLRKGPYGLYVQKGEAAPVEKGKKAVKPPRVSIPKDMDAATIDLDI
ALKLLSLPRPVGDHPETGTMISAGIGRFGPYIKHGDIYKSLPKDDDVLTIGLNRAVSLLA
EAGKGGRARQPARSLGDHPADTKPVTIHDGRFGPYVQHGGVRATIPRTADPATYTLAEAV
ELIAAKAAKDGDGKKAPAKKAATKAPVKKAAAEKKAPAKTATKKAAPKKAADSAEDAPAK
APRKSKAKPASADPD