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(-) Description

Title :  THE CRYSTAL STRUCTURE OF LIPOPROTEIN TP32 FROM TREPONEMA PALLIDUM
 
Authors :  R. K. Deka, L. Neil, K. E. Hagman, M. Machius, D. R. Tomchick, C. A. Brautigam, M. V. Norgard
Date :  18 Oct 04  (Deposition) - 23 Nov 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym./Biol. Unit :  A
Keywords :  Lipoprotein, Periplasmic Binding Protein, Methionine, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. K. Deka, L. Neil, K. E. Hagman, M. Machius, D. R. Tomchick, C. A. Brautigam, M. V. Norgard
Structural Evidence That The 32-Kilodalton Lipoprotein (Tp32) Of Treponema Pallidum Is An L-Methionine-Binding Protein
J. Biol. Chem. V. 279 55644 2004
PubMed-ID: 15489229  |  Reference-DOI: 10.1074/JBC.M409263200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MEMBRANE LIPOPROTEIN TPN32
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PPROEX HTB-TP32
    Expression System Strain: XL-1 BLUE
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TPN32
    Organism Scientific: TREPONEMA PALLIDUM
    Organism Taxid: 160
    Synonym: 29 KDA PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1MET1Mod. Amino AcidMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:18 , TYR A:44 , PHE A:61 , GLN A:62 , HIS A:63 , HIS A:66 , GLU A:87 , ASN A:116 , ARG A:119 , ASN A:175 , ASN A:177 , ASN A:202 , HOH A:1004 , HOH A:1014 , HOH A:1038BINDING SITE FOR RESIDUE MET A 301

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1XS5)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Glu A:16 -Pro A:17

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1XS5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1XS5)

(-) Exons   (0, 0)

(no "Exon" information available for 1XS5)

(-) 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:241
 aligned with TPN32_TREPA | O07950 from UniProtKB/Swiss-Prot  Length:268

    Alignment length:241
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267 
          TPN32_TREPA    28 KDETVGVGVLSEPHARLLEIAKEEVKKQHIELRIVEFTNYVALNEAVMRGDILMNFFQHVPHMQQFNQEHNGDLVSVGNVHVEPLALYSRTYRHVSDFPAGAVIAIPNDSSNEARALRLLEAAGFIRMRAGSGLFATVEDVQQNVRNVVLQEVESALLPRVFDQVDGAVINGNYAIMAGLSARRDGLAVEPDASAYANVLVVKRGNEADARVQAVLRALCGGRVRTYLKERYKGGEVAPAL 268
               SCOP domains d1xs5a_ A: Putative lipoprotein (NlpA family)                                                                                                                                                                                                     SCOP domains
               CATH domains 1xs5A01 A:5-88,A:195-244 Periplasmic binding protein-like II                        1xs5A02 A:89-194 Periplasmic binding protein-like II                                                      1xs5A01 A:5-88,A:195-244                          - CATH domains
               Pfam domains ----Lipoprotein_9-1xs5A01 A:9-301                                                                                                                                                                                                                 Pfam domains
         Sec.struct. author ..eeeeeee...hhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhhh....eeeeeehhhhhhhhhhhh..eeeeeeeee...eee.....hhhhh....eeeee.hhhhhhhhhhhhhhh...ee........hhh.eee.....eeeeehhhhhhhhhhhh.eeeehhhhhhhh.........ee..hhhhh.eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhh.....ee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xs5 A   5 KDETVGVGVLSEPHARLLEIAKEEVKKQHIELRIVEFTNYVALNEAVMRGDILMNFFQHVPHMQQFNQEHNGDLVSVGNVHVEPLALYSRTYRHVSDFPAGAVIAIPNDSSNEARALRLLEAAGFIRMRAGSGLFATVEDVQQNVRNVVLQEVESALLPRVFDQVDGAVINGNYAIMAGLSARRDGLAVEPDASAYANVLVVKRGNEADARVQAVLRALCGGRVRTYLKERYKGGEVAPAM 301
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244|
                                                                                                                                                                                                                                                                         244|
                                                                                                                                                                                                                                                                          301
   Legend:   → Mismatch (orange background)
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  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: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: PBP (391)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (TPN32_TREPA | O07950)
cellular component
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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