Protein Info for GFF4357 in Sphingobium sp. HT1-2

Annotation: Thymidine phosphorylase (EC 2.4.2.4)

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 50 100 150 200 250 300 350 400 450 495 TIGR02645: putative thymidine phosphorylase" amino acids 2 to 493 (492 residues), 604.8 bits, see alignment E=5e-186 PF02885: Glycos_trans_3N" amino acids 96 to 152 (57 residues), 42.9 bits, see alignment 5.1e-15 PF00591: Glycos_transf_3" amino acids 164 to 392 (229 residues), 48.4 bits, see alignment E=1.5e-16 PF07831: PYNP_C" amino acids 427 to 477 (51 residues), 37 bits, see alignment 3.2e-13

Best Hits

Swiss-Prot: 57% identical to TYPH_RHOPS: Putative thymidine phosphorylase (RPD_1443) from Rhodopseudomonas palustris (strain BisB5)

KEGG orthology group: K00758, thymidine phosphorylase [EC: 2.4.2.4] (inferred from 84% identity to sjp:SJA_C1-25920)

MetaCyc: 44% identical to AMP phosphorylase (Thermococcus kodakarensis)
RXN-14699 [EC: 2.4.2.57]; 2.4.2.57 [EC: 2.4.2.57]; 2.4.2.57 [EC: 2.4.2.57]

Predicted SEED Role

"Thymidine phosphorylase (EC 2.4.2.4)" in subsystem Deoxyribose and Deoxynucleoside Catabolism (EC 2.4.2.4)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.4.2.4

Use Curated BLAST to search for 2.4.2.4 or 2.4.2.57

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

Find the best match in UniProt

Protein Sequence (495 amino acids)

>GFF4357 Thymidine phosphorylase (EC 2.4.2.4) (Sphingobium sp. HT1-2)
MLKIRRLAIDTHPENTAFLPRQGNGYSAEQFQALRKIRITGESAEILATLALVDEPALVE
AGEIGLGEQAFRRLGLPEGAAVSIEQAPVPASLESVRRKIDGDTLDESEIAAIIRDVAGH
RYSPMEIGAFLVACAGFMSTEETLAMTRAMAAVGNRLDWHAPLVVDKHCIGGIPGNRTSM
IVVPIVAAHGLIIPKTSSRAITSPSGTADTMEVLANVDLREDELRAIVSREKAVLAWGGR
VNLSPADDVLISVERPLRIDTFEQMVASILSKKLAAGSTHLVLDIPVGPTAKVRSQSEAV
RLRKLFEHVADKLGLVIDIVLTDGSQPIGRGIGPVLEARDVMAVLRNDADAPEDLRDHAL
MLAGRVLDFDPALKGGRGFARALELLASGAALEAMERLIAAQGRQPAEFKPGAHIQEICA
PRDGRVIAIDCHRIARIARLAGAPMDKGAGIDLICKVGAEVRKGQALYRIHAQSATGLGF
AHDLAREDAGYEIVR