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(-) Description

Title :  THE CRYSTAL STRUCTURE OF A PHEROMONE BINDING PROTEIN FROM THE COCKROACH LEUCOPHAEA MADERAE IN COMPLEX WITH A COMPONENT OF THE PHEROMONAL BLEND: 3-HYDROXY-BUTAN-2-ONE.
 
Authors :  A. Lartigue, A. Gruez, S. Spinelli, S. Riviere, R. Brossut, M. Tegoni, C. Cambillau
Date :  15 Apr 03  (Deposition) - 05 Aug 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Pheromone Binding Protein, 3-Hydroxy-Butan-2-One, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Lartigue, A. Gruez, S. Spinelli, S. Riviere, R. Brossut, M. Tegoni, C. Cambillau
The Crystal Structure Of A Cockroach Pheromone-Binding Protein Suggests A New Ligand Binding And Release Mechanism
J. Biol. Chem. V. 278 30213 2003
PubMed-ID: 12766173  |  Reference-DOI: 10.1074/JBC.M304688200

(-) Compounds

Molecule 1 - PHEROMONE BINDING PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET22B+
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Common: MADEIRA COCKROACH
    Organism Scientific: LEUCOPHAEA MADERAE
    Organism Taxid: 6988

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1HBR2Ligand/IonR,3-HYDROXYBUTAN-2-ONE
2HBS2Ligand/IonS,3-HYDROXYBUTAN-2-ONE
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1HBR1Ligand/IonR,3-HYDROXYBUTAN-2-ONE
2HBS1Ligand/IonS,3-HYDROXYBUTAN-2-ONE
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1HBR1Ligand/IonR,3-HYDROXYBUTAN-2-ONE
2HBS1Ligand/IonS,3-HYDROXYBUTAN-2-ONE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:5 , LEU A:49 , TYR A:75 , LYS A:85 , PHE A:110BINDING SITE FOR RESIDUE HBS A 1001
2AC2SOFTWARETYR A:5 , TYR A:75 , LYS A:85BINDING SITE FOR RESIDUE HBR A 1002
3AC3SOFTWARETYR B:5 , TYR B:75BINDING SITE FOR RESIDUE HBS B 1003
4AC4SOFTWARETYR B:5 , PHE B:110 , THR B:111 , HOH B:1107BINDING SITE FOR RESIDUE HBR B 1004

(-) SS Bonds  (6, 6)

Asymmetric Unit
No.Residues
1A:16 -A:47
2A:43 -A:104
3A:92 -A:113
4B:16 -B:47
5B:43 -B:104
6B:92 -B:113

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1P28)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1P28)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1P28)

(-) Exons   (0, 0)

(no "Exon" information available for 1P28)

(-) Sequences/Alignments

Asymmetric 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:119
 aligned with Q8MTC1_RHYMA | Q8MTC1 from UniProtKB/TrEMBL  Length:137

    Alignment length:119
                                    27        37        47        57        67        77        87        97       107       117       127         
         Q8MTC1_RHYMA    18 ADSTQSYKDAMGPLVRECMGSVSATEDDFKTVLNRNPLESRTAQCLLACALDKVGLISPEGAIYTGDDLMPVMNRLYGFNDFKTVMKAKAVNDCANQVNGAYPDRCDLIKNFTDCVRNS 136
               SCOP domains d1p28a_ A: Pheromone binding protein PBPLma                                                                             SCOP domains
               CATH domains 1p28A00 A:-1-117  [code=1.10.238.20, no name defined]                                                                   CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh.....hhhhhhhhhhhhhhhh.........hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                 1p28 A  -1 NSSTQSYKDAMGPLVRECMGSVSATEDDFKTVLNRNPLESRTAQCLLACALDKVGLISPEGAIYTGDDLMPVMNRLYGFNDFKTVMKAKAVNDCANQVNGAYPDRCDLIKNFTDCVRNS 117
                                     8        18        28        38        48        58        68        78        88        98       108         


Chain B from PDB  Type:PROTEIN  Length:117
 aligned with Q8MTC1_RHYMA | Q8MTC1 from UniProtKB/TrEMBL  Length:137

    Alignment length:117
                                    30        40        50        60        70        80        90       100       110       120       130       
         Q8MTC1_RHYMA    21 TQSYKDAMGPLVRECMGSVSATEDDFKTVLNRNPLESRTAQCLLACALDKVGLISPEGAIYTGDDLMPVMNRLYGFNDFKTVMKAKAVNDCANQVNGAYPDRCDLIKNFTDCVRNSY 137
               SCOP domains d1p28b_ B: Pheromone binding protein PBPLma                                                                           SCOP domains
               CATH domains 1p28B00 B:2-118  [code=1.10.238.20, no name defined]                                                                  CATH domains
           Pfam domains (1) PBP_GOBP-1p28B01 B:2-118                                                                                              Pfam domains (1)
           Pfam domains (2) PBP_GOBP-1p28B02 B:2-118                                                                                              Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhh....hhhhhhhhhh.....hhhhhhhhhhhhhhhh.........hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1p28 B   2 TQSYKDAMGPLVRECMGSVSATEDDFKTVLNRNPLESRTAQCLLACALDKVGLISPEGAIYTGDDLMPVMNRLYGFNDFKTVMKAKAVNDCANQVNGAYPDRCDLIKNFTDCVRNSY 118
                                    11        21        31        41        51        61        71        81        91       101       111
   Legend:   → Mismatch (orange background)
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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, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: no clan defined [family: PBP_GOBP] (36)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q8MTC1_RHYMA | Q8MTC1)
molecular function
    GO:0005549    odorant binding    Interacting selectively and non-covalently with an odorant, any substance capable of stimulating the sense of smell.

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 Related Entries

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

UniProtKB/TrEMBL
        Q8MTC1_RHYMA | Q8MTC1: 1org 1ow4

(-) Related Entries Specified in the PDB File

1org THE CRYSTAL STRUCTURE OF A PHEROMONE BINDING PROTEIN FROM THE COCKROACH LEUCOPHAEA MADERAE REVEALS A NEW MECHANISM OF PHEROMONE BINDING
1ow4 CRYSTAL STRUCTURE OF A PHEROMONE BINDING PROTEIN FROM THE COCKROACH LEUCOPHAEA MADERAE IN COMPLEX WITH THE FLUORESCENT REPORTER ANS (1-ANILINONAPHTALENE-8-SULFONIC ACID)