Protein Info for GFF3395 in Sphingobium sp. HT1-2

Annotation: Quinate/shikimate dehydrogenase [Pyrroloquinoline-quinone] (EC 1.1.5.8)

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 812 transmembrane" amino acids 19 to 40 (22 residues), see Phobius details amino acids 46 to 63 (18 residues), see Phobius details amino acids 68 to 86 (19 residues), see Phobius details amino acids 92 to 115 (24 residues), see Phobius details amino acids 127 to 148 (22 residues), see Phobius details TIGR03074: membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family" amino acids 21 to 805 (785 residues), 886.4 bits, see alignment E=7.1e-271 PF01011: PQQ" amino acids 176 to 782 (607 residues), 696.7 bits, see alignment E=3.1e-213 PF13360: PQQ_2" amino acids 240 to 535 (296 residues), 29.6 bits, see alignment E=5.5e-11 amino acids 682 to 773 (92 residues), 26 bits, see alignment E=7.2e-10

Best Hits

KEGG orthology group: K05358, quinate dehydrogenase (quinone) [EC: 1.1.5.8] (inferred from 68% identity to abc:ACICU_00688)

Predicted SEED Role

"Quinate/shikimate dehydrogenase [Pyrroloquinoline-quinone] (EC 1.1.99.25)" in subsystem Chorismate Synthesis or Quinate degradation (EC 1.1.99.25)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.1.5.8, 1.1.99.25

Use Curated BLAST to search for 1.1.5.8 or 1.1.99.25

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 (812 amino acids)

>GFF3395 Quinate/shikimate dehydrogenase [Pyrroloquinoline-quinone] (EC 1.1.5.8) (Sphingobium sp. HT1-2)
MNDYSSLPHRLNGRSIFRVLFSALTLAVGLVLAAGGLRLITLGGSSYYALAGVAYVILAF
LYLKRHHAALHLTIAIFGATVIWALFDTPEFGFWALLPRLVVPALMFGLGLWASATLEAV
PAKLRSASFWGGAATAGALILTLISAFFPHGAIYEPGNLSAQTPLALDKIDAPGNWAMFG
RNANGTRFAPFNDINLENVSDLQVAWTYRTGRRTTGAGIGVDENTPLQIGNILYSCTPEN
MVTALDADTGKALWKFDPHAHSAEHVTCRGVGYYDVDADTRLTPSQKAALPDGICRQRLL
ISTVDARLIAIDAATGKPCADFGKGGTVDLAPGMGPVEQGKRYHPTSVPVLMGHVAVVGG
WVRDIVHGEPSGAVRAYDALTGKLAWVWDVGSPDNAVAAQQNPQFSLETPNVWTVPTYDR
DLNLVYLPTGAGPPDYWGGDRNQAKEKFGAAIVAVDASTGRTRWVYQTVHHDVWDYDVPS
QPVLYDVTNDKGLKVPALIQTTKTGNIFVLDRRTGKPVTRVVERAVTNNPAAEGDRLSPT
QPFSVGMPIIGNDRLSERKMWGVSTFDQLYCRIMFKDSVYTGAFTPPGEKPYIEYPSLLG
GMNWGGVSIDETRDLMFVNDMRVPLRMMLVNEKNAGKYKISMDEVPGFMGTLRPQVAGPY
RGVRIDVLQSPLAVPCNTPPFGTMTAIDLKTKKIVWQVPLGTVRDTGPMGIKTHLPIPLG
MPTLGGPTSTASGLVFFAGTQDNYLRALDSLTGKEVWKARLPAGAPAAPLIYRSPRTGRQ
YVVISVGGMSHAADVGDYIIAYALPQKGLAAR