Protein Info for PP_4740 in Pseudomonas putida KT2440

Annotation: Type I restriction enzyme EcoAI R protein

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 787 PF13588: HSDR_N_2" amino acids 32 to 115 (84 residues), 32.6 bits, see alignment E=2.6e-11 PF04313: HSDR_N" amino acids 51 to 116 (66 residues), 30.6 bits, see alignment E=1.1e-10 PF04851: ResIII" amino acids 166 to 322 (157 residues), 152.2 bits, see alignment E=4.4e-48 PF18766: SWI2_SNF2" amino acids 169 to 353 (185 residues), 75.3 bits, see alignment E=2.1e-24 PF00270: DEAD" amino acids 171 to 324 (154 residues), 44.8 bits, see alignment E=4.2e-15 PF00271: Helicase_C" amino acids 409 to 523 (115 residues), 25.5 bits, see alignment E=4.7e-09 PF08463: EcoEI_R_C" amino acids 627 to 785 (159 residues), 131.8 bits, see alignment E=9.2e-42

Best Hits

KEGG orthology group: K01153, type I restriction enzyme, R subunit [EC: 3.1.21.3] (inferred from 100% identity to ppu:PP_4740)

Predicted SEED Role

"Type I restriction-modification system, restriction subunit R (EC 3.1.21.3)" in subsystem Restriction-Modification System (EC 3.1.21.3)

Isozymes

Compare fitness of predicted isozymes for: 3.1.21.3

Use Curated BLAST to search for 3.1.21.3

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 Q88DS9 at UniProt or InterPro

Protein Sequence (787 amino acids)

>PP_4740 Type I restriction enzyme EcoAI R protein (Pseudomonas putida KT2440)
MDKKSLSERDICSKYIAPAIQHAGWDMHKQVREEVSFTKGRIMVRGKLHSRGEARRADFI
LYHQANLPIAVIEAKDNKHSVGSGMQQALGYAEALDVPFVFSSNGDGFLFHDRSGTDSKV
ETELSLDQFPSPAELWHRYCQWKGLDNAVQHKIEAPYYDDGSGRMPRYYQMNAINRTVEA
VARGQDRVLLVMATGTGKTYTAFQIIWRLWKSKQKKRILFLADRNILVDQTKNNDFKPFG
QAMTKIARRQIDTSYEIYLSLYQAVTGAEEEMNVYKQFSRDFFDLIVIDECHRGSAAEDS
AWREILGYFSNATHVGLTATPKETKEVSSITYFGEPVYSYTLKQGIEDGFLAPYKVVRID
FDKDLQGWRPPKGMLDKNGELIEDRIYNLKDMDRTLVIETRTQLVAQKVTEFLKASDPFQ
KTIVFCDDINHAERMRQALVNLNPERVAENRKYVMRITGDDQEGKAELDNFINPEERYPV
IATTSKLMTTGVDAQTCKLIVLDQHIKSMTEFKQIIGRGTRINEDFGKYWFTIMDFKKAT
ELFADPAFDGDPVVVYAPEGNELPVPPDDLLEGDGISAGSDGESDDLDFTGEEDGKKLIK
YVIDSIPIYVIAERVQYYGPDGRLITESLHDYTRTCVQKQFASLDDFLRHWSDAEQKKVI
IDEMAAQGVMWEALAEEVEKKQGKPLDPFDLICHVAFDQPPLSRKERAEQVKKRNYFAKY
SGAARQVLEALLDKYADTGIEHIEDIKILQLDPFNQLGAPIELVKAFGGKAGYNKAIHEL
EDALYAS