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(-)Asym./Biol. Unit
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(-) Description

Title :  CRYSTAL STRUCTURE OF A NOVEL ALANINE-ZIPPER TRIMER AT 1.3 A RESOLUTION, I6A,L9A,V13A,L16A,V20A,L23A,V27A,M30A,V34A, L48A,M51A MUTATIONS
 
Authors :  J. Liu, M. Lu
Date :  08 Jun 01  (Deposition) - 17 Jun 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.30
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Lipoprotein, Protein Folding, Coiled Coil, Helix Capping, Alanine-Zipper, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Liu, M. Lu
An Alanine-Zipper Structure Determined By Long Range Intermolecular Interactions
J. Biol. Chem. V. 277 48708 2002
PubMed-ID: 12368282  |  Reference-DOI: 10.1074/JBC.M208773200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MAJOR OUTER MEMBRANE LIPOPROTEIN
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: MUREIN-LIPOPROTEIN

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1JCD)

(-) Sites  (0, 0)

(no "Site" information available for 1JCD)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1JCD)

(-) 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:50
 aligned with LPP_ECOLI | P69776 from UniProtKB/Swiss-Prot  Length:78

    Alignment length:50
                                    33        43        53        63        73
             LPP_ECOLI   24 NAKIDQLSSDVQTLNAKVDQLSNDVNAMRSDVQAAKDDAARANQRLDNMA 73
               SCOP domains d1jcda_ A: Outer membrane lipoprotein              SCOP domains
               CATH domains 1jcdA00 A:3-52  [code=1.20.5.190, no name defined] CATH domains
               Pfam domains -------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------- Transcript
                  1jcd A  3 NAKADQASSDAQTANAKADQASNDANAARSDAQAAKDDAARANQRADNAA 52
                                    12        22        32        42        52


Chain B from PDB  Type:PROTEIN  Length:52
 aligned with LPP_ECOLI | P69776 from UniProtKB/Swiss-Prot  Length:78

    Alignment length:52
                                    31        41        51        61        71  
             LPP_ECOLI   22 SSNAKIDQLSSDVQTLNAKVDQLSNDVNAMRSDVQAAKDDAARANQRLDNMA 73
               SCOP domains d1jcdb_ B: Outer membrane lipoprotein                SCOP domains
               CATH domains 1jcdB00 B:1-52  [code=1.20.5.190, no name defined]   CATH domains
               Pfam domains ---------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------- Transcript
                  1jcd B  1 SSNAKADQASSDAQTANAKADQASNDANAARSDAQAAKDDAARANQRADNAA 52
                                    10        20        30        40        50  


Chain C from PDB  Type:PROTEIN  Length:50
 aligned with LPP_ECOLI | P69776 from UniProtKB/Swiss-Prot  Length:78

    Alignment length:50
                                    33        43        53        63        73
             LPP_ECOLI   24 NAKIDQLSSDVQTLNAKVDQLSNDVNAMRSDVQAAKDDAARANQRLDNMA 73
               SCOP domains d1jcdc_ C: Outer membrane lipoprotein              SCOP domains
               CATH domains 1jcdC00 C:3-52  [code=1.20.5.190, no name defined] CATH domains
           Pfam domains (1) --------------LPP-1jcdC01------------------------- Pfam domains (1)
           Pfam domains (2) --------------LPP-1jcdC02------------------------- Pfam domains (2)
           Pfam domains (3) --------------LPP-1jcdC03------------------------- Pfam domains (3)
           Pfam domains (4) --------------LPP-1jcdC04------------------------- Pfam domains (4)
           Pfam domains (5) --------------LPP-1jcdC05------------------------- Pfam domains (5)
           Pfam domains (6) --------------LPP-1jcdC06------------------------- Pfam domains (6)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------- Transcript
                  1jcd C  3 NAKADQASSDAQTANAKADQASNDANAARSDAQAAKDDAARANQRADNAA 52
                                    12        22        32        42        52
   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  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Coiled coil proteins (689)

(-) CATH Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 6)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: LPP] (5)
(-)
Family: LPP (5)
(-)
Escherichia coli (strain K12) (5)
1aLPP-1jcdC01C:17-27
1bLPP-1jcdC02C:17-27
1cLPP-1jcdC03C:17-27
1dLPP-1jcdC04C:17-27
1eLPP-1jcdC05C:17-27
1fLPP-1jcdC06C:17-27

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (LPP_ECOLI | P69776)
molecular function
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0008289    lipid binding    Interacting selectively and non-covalently with a lipid.
    GO:0042834    peptidoglycan binding    Interacting selectively and non-covalently, in a non-covalent manner, with peptidoglycan, any of a class of glycoconjugates found in bacterial cell walls.
    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:0030258    lipid modification    The covalent alteration of one or more fatty acids in a lipid, resulting in a change in the properties of the lipid.
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:0045203    integral component of cell outer membrane    The component of the cell outer membrane consisting of the gene products 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.
    GO:0019867    outer membrane    The external membrane of Gram-negative bacteria or certain organelles such as mitochondria and chloroplasts; freely permeable to most ions and metabolites.

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  LPP_ECOLI | P69776
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 Related Entries

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

UniProtKB/Swiss-Prot
        LPP_ECOLI | P69776: 1eq7 1jcc 1kfm 1kfn 1mlp 1t8z 2gus 2guv

(-) Related Entries Specified in the PDB File

1eq7 1EQ7 IS THE WILD TYPE PROTEIN STRUCTURE
1jcb 1JCB HAS THE FOLLOWING MUTATIONS: M30A,V34A
1jcc 1JCC HAS THE FOLLOWING MUTATIONS: V13A,L16A,V20A,L23A,V27A, M30A,V34A