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(-) Description

Title :  CRYSTAL STRUCTURE OF A NOVEL ALANINE-ZIPPER TRIMER AT 1.7 A RESOLUTION, V13A,L16A,V20A,L23A,V27A,M30A,V34A MUTATIONS
 
Authors :  J. Liu, J. Dai, M. Lu
Date :  08 Jun 01  (Deposition) - 17 Jun 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
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, J. Dai, M. Lu
Zinc-Mediated Helix Capping In A Triple-Helical Protein
Biochemistry V. 42 5657 2003
PubMed-ID: 12741822  |  Reference-DOI: 10.1021/BI026828A
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MAJOR OUTER MEMBRANE LIPOPROTEIN
    ChainsA, B, C
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    Expression System Vector TypePLASMID
    MutationYES
    Organism ScientificESCHERICHIA COLI
    Organism Taxid562
    SynonymMUREIN-LIPOPROTEIN

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1ZN3Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:1 , ASP A:7 , HOH A:334 , ASP C:26BINDING SITE FOR RESIDUE ZN A 81
2AC2SOFTWARESER B:1 , ASP B:7 , ASP B:26 , HOH B:210BINDING SITE FOR RESIDUE ZN B 82
3AC3SOFTWAREASP A:26 , SER C:1 , ASP C:7 , HOH C:194BINDING SITE FOR RESIDUE ZN C 83

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1JCC)

(-) 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:51
 aligned with LPP_ECOLI | P69776 from UniProtKB/Swiss-Prot  Length:78

    Alignment length:51
                                    31        41        51        61        71 
             LPP_ECOLI   22 SSNAKIDQLSSDVQTLNAKVDQLSNDVNAMRSDVQAAKDDAARANQRLDNM 72
               SCOP domains d1jcca_ A: Outer membrane lipoprotein               SCOP domains
               CATH domains 1jccA00 A:1-51  [code=1.20.5.190, no name defined]  CATH domains
               Pfam domains --------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------- Transcript
                  1jcc A  1 SSNAKIDQLSSDAQTANAKADQASNDANAARSDAQAAKDDAARANQRLDNM 51
                                    10        20        30        40        50 

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 d1jccb_ B: Outer membrane lipoprotein                SCOP domains
               CATH domains 1jccB00 B:1-52  [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
                  1jcc B  1 SSNAKIDQLSSDAQTANAKADQASNDANAARSDAQAAKDDAARANQRLDNMA 52
                                    10        20        30        40        50  

Chain C from PDB  Type:PROTEIN  Length:53
 aligned with LPP_ECOLI | P69776 from UniProtKB/Swiss-Prot  Length:78

    Alignment length:53
                                    31        41        51        61        71   
             LPP_ECOLI   22 SSNAKIDQLSSDVQTLNAKVDQLSNDVNAMRSDVQAAKDDAARANQRLDNMAT 74
               SCOP domains d1jccc_ C: Outer membrane lipoprotein                 SCOP domains
               CATH domains 1jccC00 C:1-53  [code=1.20.5.190, no name defined]    CATH domains
           Pfam domains (1) ----------------LPP-1jccC01-------------------------- Pfam domains (1)
           Pfam domains (2) ----------------LPP-1jccC02-------------------------- Pfam domains (2)
           Pfam domains (3) ----------------LPP-1jccC03-------------------------- Pfam domains (3)
           Pfam domains (4) ----------------LPP-1jccC04-------------------------- Pfam domains (4)
           Pfam domains (5) ----------------LPP-1jccC05-------------------------- Pfam domains (5)
           Pfam domains (6) ----------------LPP-1jccC06-------------------------- Pfam domains (6)
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------- Transcript
                  1jcc C  1 SSNAKIDQLSSDAQTANAKADQASNDANAARSDAQAAKDDAARANQRLDNMAT 53
                                    10        20        30        40        50   

   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

(-) CATH Domains  (1, 3)

Asymmetric/Biological Unit

(-) Pfam Domains  (1, 6)

Asymmetric/Biological Unit
(-)
Family: LPP (5)
1aLPP-1jccC01C:17-27
1bLPP-1jccC02C:17-27
1cLPP-1jccC03C:17-27
1dLPP-1jccC04C:17-27
1eLPP-1jccC05C:17-27
1fLPP-1jccC06C: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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 Related Entries

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

UniProtKB/Swiss-Prot
        LPP_ECOLI | P697761eq7 1jcd 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
1jcd 1JCD HAS THE FOLLOWING MUTATIONS: I6A,L9A,V13A,L16A,V20A, L23A,V27A,M30A,V34A,L48A,M51A