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(-) Description

Title :  STRUCTURE OF THE C-TERMINAL DOMAIN OF BAMC
 
Authors :  K. Zeth, R. Albrecht
Date :  27 Apr 11  (Deposition) - 25 May 11  (Release) - 05 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.25
Chains :  Asym./Biol. Unit :  A
Keywords :  Lipid Binding Protein, Lipoprotein, Bam Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Albrecht, K. Zeth
Structural Basis Of Outer Membrane Protein Biogenesis In Bacteria.
J. Biol. Chem. V. 286 27792 2011
PubMed-ID: 21586578  |  Reference-DOI: 10.1074/JBC.M111.238931

(-) Compounds

Molecule 1 - DAPX PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET24D
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 25-143
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K-12
    Synonym: BAMC

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1PO42Ligand/IonPHOSPHATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:213 , TRP A:228 , SER A:245 , THR A:246 , ARG A:247BINDING SITE FOR RESIDUE PO4 A1323
2AC2SOFTWAREPRO A:223 , PHE A:224 , ASN A:225 , VAL A:226 , ALA A:275 , TYR A:279 , GLN A:306 , HOH A:2060BINDING SITE FOR RESIDUE PO4 A1324

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2YH5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2YH5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2YH5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2YH5)

(-) Exons   (0, 0)

(no "Exon" information available for 2YH5)

(-) 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:121
 aligned with BAMC_ECOLI | P0A903 from UniProtKB/Swiss-Prot  Length:344

    Alignment length:121
                                                                                                                                                344  
                                   235       245       255       265       275       285       295       305       315       325       335        |- 
           BAMC_ECOLI   226 TTMDVQSAADDTGLPMLVVRGPFNVVWQRLPAALEKVGMKVTDSTRSQGNMAVTYKPLSDSDWQELGASDPGLASGDYKLQVGDLDNRSSLQFIDPKGHTLTQSQNDALVAVFQAAFSK--   -
               SCOP domains ------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains Lipoprotein_18-2yh5A01 A:202-319                                                                                      --- Pfam domains
         Sec.struct. author ....eeeee.....eeeeee.hhhhhhhhhhhhhhhh.eeeeeeehhh.eeeeee...hhhhhhhhh........eeeeeeeeee..eeeeeee.......hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 2yh5 A 202 TTMDVQSAADDTGLPMLVVRGPFNVVWQRLPAALEKVGMKVTDSTRSQGNMAVTYKPLSDSDWQELGASDPGLASGDYKLQVGDLDNRSSLQFIDPKGHTLTQSQNDALVAVFQAAFSKLE 322
                                   211       221       231       241       251       261       271       281       291       301       311       321 


Chain A from PDB  Type:PROTEIN  Length:121
 aligned with Q47548_ECOLX | Q47548 from UniProtKB/TrEMBL  Length:143

    Alignment length:121
                                                                                                                                                143  
                                    34        44        54        64        74        84        94       104       114       124       134        |- 
         Q47548_ECOLX    25 TTMDVQSAADDTGLPMLVVRGPFNVVWQRLPAALEKVGMKVTDSTRSQGNMAVTYKPLSDSDWQELGASDPGLASGDYKLQVGDLDNRSSLQFIDPKGHTLTQSQNDALVAVFQAAFSK--   -
               SCOP domains ------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains Lipoprotein_18-2yh5A01 A:202-319                                                                                      --- Pfam domains
         Sec.struct. author ....eeeee.....eeeeee.hhhhhhhhhhhhhhhh.eeeeeeehhh.eeeeee...hhhhhhhhh........eeeeeeeeee..eeeeeee.......hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 2yh5 A 202 TTMDVQSAADDTGLPMLVVRGPFNVVWQRLPAALEKVGMKVTDSTRSQGNMAVTYKPLSDSDWQELGASDPGLASGDYKLQVGDLDNRSSLQFIDPKGHTLTQSQNDALVAVFQAAFSKLE 322
                                   211       221       231       241       251       261       271       281       291       301       311       321
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (0, 0)

(no "SCOP Domain" information available for 2YH5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2YH5)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Lipoprotein_18] (1)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (BAMC_ECOLI | P0A903)
molecular function
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0043165    Gram-negative-bacterium-type cell outer membrane assembly    The assembly of an outer membrane of the type formed in Gram-negative bacteria. This membrane is enriched in polysaccharide and protein, and the outer leaflet of the membrane contains specific lipopolysaccharide structures.
    GO:0051205    protein insertion into membrane    The process that results in the incorporation of a protein into a biological membrane. Incorporation in this context means having some part or covalently attached group that is inserted into the the hydrophobic region of one or both bilayers.
cellular component
    GO:1990063    Bam protein complex    Protein complex which is involved in assembly and insertion of beta-barrel proteins into the outer membrane. In E. coli it is composed of BamABCDE, of the outer membrane protein BamA, and four lipoproteins BamB, BamC, BamD and BamE. BamA interacts directly with BamB and the BamCDE subcomplex.
    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:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Chain A   (Q47548_ECOLX | Q47548)

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 Related Entries

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

UniProtKB/Swiss-Prot
        BAMC_ECOLI | P0A903: 2lae 2laf 2yh6 3sns 3tgo 5ayw 5d0o 5d0q 5ekq 5ljo

(-) Related Entries Specified in the PDB File

2yh3 THE STRUCTURE OF BAMB FROM E. COLI
2yh6 STRUCTURE OF THE N-TERMINAL DOMAIN OF BAMC FROM E. COLI