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(-) Description

Title :  CRYSTAL STRUCTURE OF OUTER MEMBRANE ENZYME PAGP
 
Authors :  V. E. Ahn, E. I. Lo, C. K. Engel, L. Chen, P. M. Hwang, L. E. Kay, R. E. Bishop G. G. Prive
Date :  01 Jun 04  (Deposition) - 10 Aug 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Palmitoyltransferase, Beta-Barrel, Outer Membrane Enzyme, Pagp, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. E. Ahn, E. I. Lo, C. K. Engel, L. Chen, P. M. Hwang, L. E. Kay, R. E. Bishop, G. G. Prive
A Hydrocarbon Ruler Measures Palmitate In The Enzymatic Acylation Of Endotoxin.
Embo J. V. 23 2931 2004
PubMed-ID: 15272304  |  Reference-DOI: 10.1038/SJ.EMBOJ.7600320

(-) Compounds

Molecule 1 - CRCA PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET-21(A)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PET
    Gene: CRCA, B0622
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 12)

Asymmetric/Biological Unit (3, 12)
No.NameCountTypeFull Name
1ACT5Ligand/IonACETATE ION
2LDA5Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE
3MPD2Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:114BINDING SITE FOR RESIDUE ACT A 400
02AC2SOFTWAREASN A:12 , TYR A:87 , TRP A:89BINDING SITE FOR RESIDUE ACT A 401
03AC3SOFTWARELEU A:25 , ALA A:113 , TYR A:119BINDING SITE FOR RESIDUE ACT A 402
04AC4SOFTWAREGLU A:21BINDING SITE FOR RESIDUE ACT A 403
05AC5SOFTWAREPRO A:135 , GLN A:160BINDING SITE FOR RESIDUE ACT A 404
06AC6SOFTWARETYR A:70 , MET A:72 , PHE A:74 , LYS A:75 , GLU A:82 , TRP A:156BINDING SITE FOR RESIDUE LDA A 200
07AC7SOFTWARETYR A:23 , PHE A:55BINDING SITE FOR RESIDUE LDA A 201
08AC8SOFTWARESER A:91 , TRP A:93BINDING SITE FOR RESIDUE LDA A 202
09AC9SOFTWAREPHE A:36BINDING SITE FOR RESIDUE LDA A 203
10BC1SOFTWAREILE A:30BINDING SITE FOR RESIDUE LDA A 204
11BC2SOFTWAREASP A:98 , THR A:146 , HOH A:509BINDING SITE FOR RESIDUE MPD A 300
12BC3SOFTWAREASN A:118BINDING SITE FOR RESIDUE MPD A 301

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1THQ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1THQ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1THQ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1THQ)

(-) Exons   (0, 0)

(no "Exon" information available for 1THQ)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:147
 aligned with PAGP_ECOLI | P37001 from UniProtKB/Swiss-Prot  Length:186

    Alignment length:157
                                                                                                                                                                                    186  
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181    |  
           PAGP_ECOLI    32 TTFRENIAQTWQQPEHYDLYIPAITWHARFAYDKEKTDRYNERPWGGGFGLSRWDEKGNWHGLYAMAFKDSWNKWEPIAGYGWESTWRPLADENFHLGLGFTAGVTARDNWNYIPLPVLLPLASVGYGPVTFQMTYIPGTYNNGNVYFAWMRFQF--   -
               SCOP domains d1thqa_ A: Outer membrane enzym          e PagP                                                                                                               SCOP domains
               CATH domains 1thqA00 A:7-163  [code=2.40.160          .20, no name defined]                                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh..eeeeeeeeeeee.hhh----------.....eeeeeeee.....eeeeeeeeee.....eeeeeeeeeeeee.......eeeeeeeeeeee.hhhhh...eeeeeeeeeeee..eeeeeeee........eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1thq A   7 TTFRENIAQTWQQPEHYDLYIPAITWHARFA----------ERPWGGGFGLSRWDEKGNWHGLYAMAFKDSWNKWEPIAGYGWESTWRPLADENFHLGLGFTAGVTARDNWNYIPLPVLLPLASVGYGPVTFQMTYIPGTYNNGNVYFAWMRFQFLE 163
                                    16        26        36|        - |      56        66        76        86        96       106       116       126       136       146       156       
                                                         37         48
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Membrane and cell surface proteins and peptides (2046)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1THQ)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (PAGP_ECOLI | P37001)
molecular function
    GO:0016416    O-palmitoyltransferase activity    Catalysis of the transfer of a palmitoyl group to an oxygen atom on the acceptor molecule.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016746    transferase activity, transferring acyl groups    Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
biological process
    GO:0009245    lipid A biosynthetic process    The chemical reactions and pathways resulting in the formation of lipid A, the glycolipid group of bacterial lipopolysaccharides, consisting of four to six fatty acyl chains linked to two glucosamine residues. Further modifications of the backbone are common.
cellular component
    GO:0009279    cell outer membrane    A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        PAGP_ECOLI | P37001: 1mm4 1mm5 3gp6

(-) Related Entries Specified in the PDB File

1mm4 SOLUTION NMR STRUCTURE OF PAGP
1mm5 SOLUTION NMR STRUCTURE OF PAGP