Protein Info for SO4267 in Shewanella oneidensis MR-1

Name: hsdR-2
Annotation: type I restriction-modification system, R subunit (NCBI ptt file)

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

1 100 200 300 400 500 600 700 800 900 1000 1100 1188 PF13643: DUF4145" amino acids 33 to 120 (88 residues), 24.8 bits, see alignment 6.5e-09 PF04313: HSDR_N" amino acids 313 to 360 (48 residues), 25.9 bits, see alignment (E = 3e-09) PF04851: ResIII" amino acids 458 to 637 (180 residues), 123.2 bits, see alignment E=3.7e-39 PF00270: DEAD" amino acids 461 to 637 (177 residues), 39.3 bits, see alignment E=2e-13 PF18766: SWI2_SNF2" amino acids 464 to 684 (221 residues), 57.1 bits, see alignment E=7.7e-19 PF00271: Helicase_C" amino acids 731 to 842 (112 residues), 40 bits, see alignment E=1.5e-13 PF08463: EcoEI_R_C" amino acids 1026 to 1185 (160 residues), 134.5 bits, see alignment E=1.4e-42

Best Hits

KEGG orthology group: K01153, type I restriction enzyme, R subunit [EC: 3.1.21.3] (inferred from 100% identity to son:SO_4267)

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 Q8E9K4 at UniProt or InterPro

Protein Sequence (1188 amino acids)

>SO4267 type I restriction-modification system, R subunit (NCBI ptt file) (Shewanella oneidensis MR-1)
MALDTQGQSTEKDSANFSFLKPYDPIFIDLACSAERAFTSDPNTTLIKLRQLGEAMAQDI
AARCGIEFDDKTTQADLLFKINRELTLEPVVRQLFHALRIEGNKATHQFRTQHKEALEGL
KLARSLAIWFHHTFGDQKTAFKAGPFVPPEDPSKQLQELQTQIELLRSELNDNHQQLADN
QQLTTLLAREKEEYAVLAEQMDAEARALSKLAAQHEQALVAQKHQFELRIKALQAELVQL
AQVDNQAATKNKKQLSQQASKAGNHIELNEELTRVLIDQQLIEAGWIADSQRLDFRKGTR
PEKGKNLAIAEWITWHKGKKGRADYVLFCGLIPVAVVEAKKENTHVAGKISQAERYSKGY
KLIAPQQGAWEIEGRTVAWADDADGHYHIPFVYSCNGREFNKQLAELSGTWFRDTRKPSN
TKRALQQFHSPDGLLDKLKRSREAAEQTLQQEGFDYLGLRDYQQKAIAAVESALAQDNTQ
CLLAMATGTGKTRTIIGLMYRFLKAERFRRILFLVDRTALGEQACDSFDEAKLEQNKVLS
SIYNIAELGDMKSEAETRIQVATVQAMVKRIFMSDNPPPLDEFDCIIVDEAHRGYALDQQ
MTEGELATRDASQYLSSYRRVLDYFDAVRIGLTATPAKHTSEIFGKPVYTYSYREAVAGD
WLIDHEPPIRYETLLNKHGIKFEKGETVTSINTQTGEIETADLEDELKFDVESFNKRVIT
ESFNEVICQELIKELDPFGDEKTMIFCATDVHADMVKRLLDKAFLDMYGDDYNQAAVAKI
TGQSDKVSQLIRQYKNERYPNIAITVDLLSTGIDVPKICHLVFLRRVKSRILYEQMMGRA
TRRCDDIGKTAFKIYDPVDIYSALEAVNTMKPIVKDPNITLEQLVDELTDDTFLERALNT
PGEQVGAGADSHTNSHAHDVLNQLGQKVMRVMRKATKKAENKPELKAKLEQLEELWGVAP
AKLHQHLHQIGPREAAQFFKQHQSLINQLAEVRYLVGSDSMPLIYEGRDEFIERQQNYGI
HEKPADYLESFSHFIKQNINQSAALSVVVNRPKDLTRAQLKEVKLLLDEAGYSEAHLQSA
WRKNTNQDIAASIIGYIRQAALDEALIPFAQRVNNAMQRIYSEHDWNPNQRKWLDRLAKQ
LVHEAVIDKAFVNNRFASDGGAKRFNSVLNDQLDTILDELNAYLWQVG