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1.B.25.1.8
Anion-selective OpdK (OccK1 or OpdK) benzoate/vanillate-selective porin (Tamber et al., 2006Eren et al., 2012; Liu et al. 2012). The structure of the OpdK porin, specific for vanillate and related small aromatic acids, has been solved by x-ray crystallography (3SYS_A). It is a labile trimer with monomers of an 18 β-stranded barrel and with an inner diameter of 8Å (Biswas et al., 2008). Other substrates transported (but less well) include 4-nitrobenzoate, caproate, octanoate, carbenicillin, cefoxitin, tetracycline antibiotics, and carbapenem antibioitics (imipenem and meropenem) (Eren et al., 2012).  Molecular dynamic simulations and mutant analyses have been reported (Wang et al. 2012).

Accession Number:Q9HUR5
Protein Name:OpdK aka PA4898
Length:417
Molecular Weight:45778.00
Species:Pseudomonas aeruginosa [287]
Number of TMSs:1
Location1 / Topology2 / Orientation3: Cell membrane1 / Multi-pass membrane protein2
Substrate anions, Benzoate, Vanillate, 4-nitrobenzoate, Caproate, Octanoate, Carbenicillin, tetracycline, Carbapenem

Cross database links:

HEGENOM: HBG637898
RefSeq: NP_253585.1   
Entrez Gene ID: 879748   
Pfam: PF03573   
Drugbank: Drugbank Link   
BioCyc: PAER208964:PA4898-MONOMER   
KEGG: pae:PA4898   

Gene Ontology

GO:0016021 C:integral to membrane
GO:0015288 F:porin activity
GO:0006810 P:transport

References (1)

[1] “Complete genome sequence of Pseudomonas aeruginosa PAO1, an opportunistic pathogen.”  Stover C.K.et.al.   10984043
Structure:
2QTK   2Y2X   3SYS     

External Searches:

  • Search: DB with
  • BLAST ExPASy (Swiss Institute of Bioinformatics (SIB) BLAST)
  • CDD Search (Conserved Domain Database)
  • Search COGs (Clusters of Orthologous Groups of proteins)
  • 2° Structure (Network Protein Sequence Analysis)

Analyze:

Predict TMSs (Predict number of transmembrane segments)
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FASTA formatted sequence
1:	MKIRRKTAVP RNAGAVLPML ACLAAQAAEG GFLEDAKTDL VLRNYYFNRD FRDHDAGKSL 
61:	VDEWAQGFIL KFSSGYTPGT VGVGLDAIGL FGVKLNSGRG TSNSELLPLH DDGRAADNYG 
121:	RVGVAAKLRV SASELKIGEM LPDIPLLRYD DGRLLPQTFR GFAVVSRELP GLALQAGRFD 
181:	AVSLRNSADM QDLSAWSAPT QKSDGFNYAG AEYRFNRERT QLGLWHGQLE DVYRQSYANL 
241:	LHKQRVGDWT LGANLGLFVD RDDGAARAGE IDSHTVYGLF SAGIGLHTFY LGLQKVGGDS 
301:	GWQSVYGSSG RSMGNDMFNG NFTNADERSW QVRYDYDFVG LGWPGLIGMV RYGHGSNATT 
361:	KAGSGGKEWE RDVELGYTVQ SGPLARLNVR LNHASNRRSF NSDFDQTRLV VSYPLSW