Protein Info for PP_0104 in Pseudomonas putida KT2440

Annotation: Cytochrome c oxidase subunit 1

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 50 100 150 200 250 300 350 400 450 500 529 transmembrane" amino acids 37 to 57 (21 residues), see Phobius details amino acids 79 to 103 (25 residues), see Phobius details amino acids 118 to 138 (21 residues), see Phobius details amino acids 159 to 188 (30 residues), see Phobius details amino acids 200 to 227 (28 residues), see Phobius details amino acids 260 to 278 (19 residues), see Phobius details amino acids 286 to 314 (29 residues), see Phobius details amino acids 319 to 340 (22 residues), see Phobius details amino acids 354 to 377 (24 residues), see Phobius details amino acids 389 to 413 (25 residues), see Phobius details amino acids 428 to 450 (23 residues), see Phobius details amino acids 468 to 489 (22 residues), see Phobius details TIGR02891: cytochrome c oxidase, subunit I" amino acids 25 to 528 (504 residues), 702.7 bits, see alignment E=1.3e-215 PF00115: COX1" amino acids 33 to 476 (444 residues), 544.4 bits, see alignment E=1.1e-167

Best Hits

Swiss-Prot: 56% identical to COX1_BRADU: Cytochrome c oxidase subunit 1 (ctaD) from Bradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)

KEGG orthology group: K02274, cytochrome c oxidase subunit I [EC: 1.9.3.1] (inferred from 100% identity to ppu:PP_0104)

MetaCyc: 100% identical to cytochrome c oxidase subunit 1 (Pseudomonas putida KT2440)

Predicted SEED Role

"Cytochrome c oxidase polypeptide I (EC 1.9.3.1)" in subsystem Terminal cytochrome C oxidases (EC 1.9.3.1)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.9.3.1

Use Curated BLAST to search for 1.9.3.1

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 Q88RM5 at UniProt or InterPro

Protein Sequence (529 amino acids)

>PP_0104 Cytochrome c oxidase subunit 1 (Pseudomonas putida KT2440)
MSAVIDDHAHGHDHAHGPAKGLMRWVLTTNHKDIGTMYLWFSFIMFLLGGSFAMVIRAEL
FQPGLQIVEPAFFNQMTTMHGLIMVFGAVMPAFVGLANWMIPLMIGAPDMALPRMNNFSF
WLLPAAFLLLVSTLFSPGGGPNFGWTFYAPLSTTYAPASVTFFIFAIHLMGISSIMGAIN
VIATILNLRAPGMTLMKMPLFVWTWLITAFLLIAVMPVLAGVVTMMLMDIHFGTSFFSAA
GGGDPVLFQHVFWFFGHPEVYIMILPAFGAVSSIIPAFSRKPLFGYTSMVYATGAIAFLS
FIVWAHHMFVVGIPVVGELFFMYATMLIAVPTGVKVFNWVSTMWEGSLTFETPMLFAIAF
VILFTIGGFSGLMLAIAPADFQYHDTYFVVAHFHYVLVPGAIFGIFASAYYWLPKWTGHM
YDETLGKLHFWLSFVGMNMAFFPMHFVGLAGMPRRIPDYNLQFADFNMVSSIGAFMFGAT
QIFFLFIVIKCIRGGAPAPAKPWDGAEGLEWSIPSPAPYHTFQTPPEVK