Protein Info for PP_4922 in Pseudomonas putida KT2440

Annotation: Phosphomethylpyrimidine synthase

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 50 100 150 200 250 300 350 400 450 500 550 600 626 transmembrane" amino acids 472 to 490 (19 residues), see Phobius details PF13667: ThiC-associated" amino acids 23 to 100 (78 residues), 117.5 bits, see alignment E=1.9e-38 TIGR00190: phosphomethylpyrimidine synthase" amino acids 139 to 591 (453 residues), 721.6 bits, see alignment E=1.3e-221 PF01964: ThiC_Rad_SAM" amino acids 141 to 589 (449 residues), 618.1 bits, see alignment E=7.5e-190

Best Hits

Swiss-Prot: 100% identical to THIC_PSEPK: Phosphomethylpyrimidine synthase (thiC) from Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

KEGG orthology group: K03147, thiamine biosynthesis protein ThiC (inferred from 100% identity to ppf:Pput_4798)

MetaCyc: 73% identical to phosphomethylpyrimidine synthase (Escherichia coli K-12 substr. MG1655)
PYRIMSYN1-RXN [EC: 4.1.99.17]

Predicted SEED Role

No annotation

MetaCyc Pathways

Isozymes

No predicted isozymes

Use Curated BLAST to search for 4.1.99.17

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

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

Search 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 Q88DA5 at UniProt or InterPro

Protein Sequence (626 amino acids)

>PP_4922 Phosphomethylpyrimidine synthase (Pseudomonas putida KT2440)
MTKQEKAINLSESAQVDQQSVQPFPRSRKVYVEGSRPDIRVPMREISLDDTPTDFGGESN
APVLVYDTSGPYTDPDVIIDVRKGLPDVRSAWIEARGDTERLEGLSSDFGQQRLNDAELA
KLRFAHVRNPRRAKAGANVSQMHYARQGIITAEMEYVAIRENMKLQEARAAGLLNEQHAG
HSFGANIPKEITPEFVRQEIARGRAIIPANINHPEVEPMIIGRNFLVKINGNIGNSALGS
SIEEEVAKLTWGIRWGSDTVMDLSTGKHIHETREWIIRNSPVPIGTVPIYQALEKVNGVA
EDLTWELFRDTLIEQAEQGVDYFTIHAGVLLRYVPLTAKRVTGIVSRGGSIMAKWCLAHH
KENFLYTHFDEICEIMKAYDVSFSLGDGLRPGSIADANDAAQFGELETLGELTKIAWKHD
VQCMIEGPGHVPMQLIKENMDKQLECCDEAPFYTLGPLTTDIAPGYDHITSGIGAAMIGW
FGCAMLCYVTPKEHLGLPNKDDVKTGIITYKIAAHAADLAKGHPGAQIRDNALSKARFEF
RWEDQFNLGLDPDTARAFHDETLPKESAKVAHFCSMCGPKFCSMKITQEVREYAAKIEAV
DVTVEQGMREQAERFRQEGSQLYHKV