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(-) Description

Title :  STRUCTURE OF EMPTY PHEROMONE BINDING PROTEIN ASP1 FROM THE HONEYBEE APIS MELLIFERA L
 
Authors :  M. E. Pesenti, S. Spinelli, L. Briand, J. -C. Pernollet, C. Cambillau, M
Date :  08 Jun 06  (Deposition) - 11 Dec 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A
Keywords :  Pheromone, Honey Bee, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. E. Pesenti, S. Spinelli, L. Briand, J. -C. Pernollet, C. Cambillau, M. Tegoni
Conformational Changes Of The Pheromone Binding Protein Asp From The Honeybee Apis Mellifera L Upon Ligand Binding
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PHEROMONE-BINDING PROTEIN ASP1
    Chains: A
    Engineered: YES
    Expression System: PICHIA PASTORIS
    Expression System Taxid: 4922
    Fragment: RESIDUES 26-144
    Organism Common: HONEY BEE
    Organism Scientific: APIS MELLIFERA
    Organism Taxid: 7460

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2GOL2Ligand/IonGLYCEROL
3SO42Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:27 , ALA A:29 , GLN A:30 , VAL A:40 , GLU A:42BINDING SITE FOR RESIDUE SO4 A 120
2AC2SOFTWAREASN A:64 , VAL A:65 , LEU A:90 , PRO A:91 , THR A:92BINDING SITE FOR RESIDUE SO4 A 121
3AC3SOFTWAREASN A:41 , THR A:46BINDING SITE FOR RESIDUE CL A 122
4AC4SOFTWAREGOL A:124 , HOH A:132BINDING SITE FOR RESIDUE GOL A 123
5AC5SOFTWAREGOL A:123 , HOH A:139BINDING SITE FOR RESIDUE GOL A 124

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:20 -A:51
2A:47 -A:98
3A:89 -A:107

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu A:90 -Pro A:91

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2H8V)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2H8V)

(-) Exons   (0, 0)

(no "Exon" information available for 2H8V)

(-) 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:117
 aligned with Q8WRW5_APIME | Q8WRW5 from UniProtKB/TrEMBL  Length:144

    Alignment length:117
                                    37        47        57        67        77        87        97       107       117       127       137       
         Q8WRW5_APIME    28 DWVPPEVFDLVAEDKARCMSEHGTTQAQIDDVDKGNLVNEPSITCYMYCLLEAFSLVDDEANVDEDIMLGLLPDQLQERAQSVMGKCLPTSGSDNCNKIYNLAKCVQESAPDVWFVI 144
               SCOP domains d2h8va_ A: Pheromone-binding protein asp1                                                                             SCOP domains
               CATH domains 2h8vA00 A:3-119  [code=1.10.238.20, no name defined]                                                                  CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhh.hhhhhhhhh......hhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 2h8v A   3 DWVPPEVFDLVAEDKARCMSEHGTTQAQIDDVDKGNLVNEPSITCYMYCLLEAFSLVDDEANVDEDIMLGLLPDQLQERAQSVMGKCLPTSGSDNCNKIYNLAKCVQESAPDVWFVI 119
                                    12        22        32        42        52        62        72        82        92       102       112       


Chain A from PDB  Type:PROTEIN  Length:117
 aligned with Q9U9J6_APIME | Q9U9J6 from UniProtKB/TrEMBL  Length:144

    Alignment length:117
                                    37        47        57        67        77        87        97       107       117       127       137       
         Q9U9J6_APIME    28 DWVPPEVFDLVAEDKARCMSEHGTTQAQIDDVDKGNLVNEPSITCYMYCLLEAFSLVDDEANVDEDIMLGLLPDQLQERAQSVMGKCLPTSGSDNCNKIYNLAKCVQESAPDVWFVI 144
               SCOP domains d2h8va_ A: Pheromone-binding protein asp1                                                                             SCOP domains
               CATH domains 2h8vA00 A:3-119  [code=1.10.238.20, no name defined]                                                                  CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhh.hhhhhhhhh......hhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 2h8v A   3 DWVPPEVFDLVAEDKARCMSEHGTTQAQIDDVDKGNLVNEPSITCYMYCLLEAFSLVDDEANVDEDIMLGLLPDQLQERAQSVMGKCLPTSGSDNCNKIYNLAKCVQESAPDVWFVI 119
                                    12        22        32        42        52        62        72        82        92       102       112
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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, 1)

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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2H8V)

(-) Gene Ontology  (1, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q9U9J6_APIME | Q9U9J6)
molecular function
    GO:0005549    odorant binding    Interacting selectively and non-covalently with an odorant, any substance capable of stimulating the sense of smell.

Chain A   (Q8WRW5_APIME | Q8WRW5)
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/Swiss-Prot
        Q9U9J6_APIME | Q9U9J6: 3bfa 3bjh 3cab 3cdn
UniProtKB/TrEMBL
        Q8WRW5_APIME | Q8WRW5: 3bfa 3bjh 3cab 3cdn
        Q9U9J6_APIME | Q9U9J6: 3bfb 3bfh 3cyz 3cz0 3cz1 3cz2 3d73 3d74 3d75 3d76 3d77 3d78 3fe6 3fe8 3fe9

(-) Related Entries Specified in the PDB File

1r5r ASP1 IN COMPLEX WITH N-BUTY-BENZENE-SULFONAMIDE