Protein Info for GFF1002 in Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

Annotation: Type I restriction-modification system, restriction subunit R (EC 3.1.21.3)

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 1169 PF04313: HSDR_N" amino acids 202 to 387 (186 residues), 25.5 bits, see alignment E=3.2e-09 PF04851: ResIII" amino acids 442 to 621 (180 residues), 129.6 bits, see alignment E=3.2e-41 PF18766: SWI2_SNF2" amino acids 448 to 647 (200 residues), 55.8 bits, see alignment E=1.6e-18 PF00270: DEAD" amino acids 453 to 625 (173 residues), 39.8 bits, see alignment E=1.2e-13 PF00271: Helicase_C" amino acids 714 to 829 (116 residues), 36.8 bits, see alignment E=1.3e-12 PF08463: EcoEI_R_C" amino acids 1004 to 1165 (162 residues), 111.7 bits, see alignment E=1.2e-35

Best Hits

Swiss-Prot: 91% identical to T1RK_ECOLI: Type I restriction enzyme EcoKI R protein (hsdR) from Escherichia coli (strain K12)

KEGG orthology group: K01153, type I restriction enzyme, R subunit [EC: 3.1.21.3] (inferred from 100% identity to seh:SeHA_C4932)

MetaCyc: 91% identical to type I restriction enzyme EcoKI endonuclease subunit (Escherichia coli K-12 substr. MG1655)
Type I site-specific deoxyribonuclease. [EC: 3.1.21.3]

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

Find the best match in UniProt

Protein Sequence (1169 amino acids)

>GFF1002 Type I restriction-modification system, restriction subunit R (EC 3.1.21.3) (Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868)
MNKSNFDFLKGVNDFIYAIACAAENNYPDDPNTTLIKMRMFGEATAKHLGQLLDIPACEN
QHDLLRELGKIAFIDDSILSVFHKLRRIGNLAVHEFHNDLDDAQMCLRLGFRLSVWYYRL
VTKDYDFPVPMFVLPEHGENLYHQEVLTLKQQLERQAQEKVQSQAELEAQQQRLVALNGY
IAILEGKQQETEAQTKARLAALEAQLAAKDAELAKQTEQERKAYHKEITDQAVKRTLELN
EEESRFLIDAQLRKAGWQADSKTLRFAKGARPEPGVNKAIAEWPTGTDETGKTGFADYVL
FIGLKPIAVVEAKRKNTDVSSKLNESYRYSKYFDNGFLRDTLLEHYAPDEVHDAVPEYEI
SWQDTSGKQRFKIPFCYSTNGREYRAAMKTKSGIWYRDVRHTTNMSKALPEWHRPEELLD
MLGSDPQKQNQWFAENPGMSELGLRYYQEDAVRAVEQAIVNGQQHILLAMATGTGKTRTA
IALMFRLIQSQRFKRVLFLVDRRSLGEQALGAFEDTRINGDTFNSIFDIKGLTDKFPEDS
TKIHVATVQSLVKRTLQSDEPMPVGRYDCIVVDEAHRGYILDKEQTEGELQFRSQLDYVS
AYRRILDHFDAVKIALTATPALHTVDIFGEPVYRYTYRTAVIDGYLIDQDPPIQIVTRNA
QDGVYLSEGEQVERLNPQGELINDTLADDQDFEVADFNRGLVIPAFNRAVCGELTKYLDP
TGQQKTLVFCVTNAHADMVVDELRSAFKKKYPQLEHDAIIKITGDADKDAKKVQSMIVRF
NKERLPNIVVTVDLLTTGVDIPSICNIVFLRKVKSRILYEQMKGRATRLCPSVGKTSFKI
FDCVDIYSSLESVDTMRPVVVRPQVELQTLVNEITDSETYKTIEADGRSFAEHSHEQLVA
KLQRIIGLAIYNRDRSEAVDKQVRRLDELCLDAAGVNFGGLASRLREKGPHWSAEIFNKL
PGFIARLERLTTDINALREAPIFLDIDDEVVSVKSLYGDYDTPQDFLEAFDALVQHAPNA
QPALQAVINRPRDLTRKGLVELQEWFDRQHFEESSLRSAWKATRNEDIAARLIGHIRRAA
VGDALKPFDERVDHALARIKAENDWSDEQINWLDRLAQALKEKVVLDDDVFKTGNFHRRG
GKPMLQRTFDDNLDSVLDKFSDYIWDELA