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(-) Description

Title :  PORCINE ODORANT BINDING PROTEIN COMPLEXED WITH DIPHENYLMETHANONE
 
Authors :  F. Vincent, S. Spinelli, C. Cambillau, M. Tegoni
Date :  06 Mar 00  (Deposition) - 06 Dec 00  (Release) - 13 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.83
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Odorant Binding Protein, Lipocalins, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Vincent, S. Spinelli, R. Ramoni, S. Grolli, P. Pelosi, C. Cambillau, M. Tegoni
Complexes Of Porcine Odorant Binding Protein With Odorant Molecules Belonging To Different Chemical Classes
J. Mol. Biol. V. 300 127 2000
PubMed-ID: 10864504  |  Reference-DOI: 10.1006/JMBI.2000.3820

(-) Compounds

Molecule 1 - ODORANT-BINDING PROTEIN
    Chains: A, B
    Organ: NOSE
    Organism Common: PIG
    Organism Scientific: SUS SCROFA
    Organism Taxid: 9823
    Synonym: OBP
    Tissue: OLFACTORY EPITHELIUM

 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  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1BZQ2Ligand/IonDIPHENYLMETHANONE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1BZQ1Ligand/IonDIPHENYLMETHANONE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1BZQ1Ligand/IonDIPHENYLMETHANONE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:35 , VAL A:80 , ILE A:100 , MET A:114 , LEU A:118 , HOH A:2162BINDING SITE FOR RESIDUE BZQ A 600
2AC2SOFTWAREILE B:21 , VAL B:80 , ASN B:102 , HOH B:2120BINDING SITE FOR RESIDUE BZQ B 600

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:63 -A:155
2B:63 -B:155

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1DZP)

(-) 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:149
 aligned with OBP_PIG | P81245 from UniProtKB/Swiss-Prot  Length:157

    Alignment length:149
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148         
              OBP_PIG     9 PFELSGKWITSYIGSSDLEKIGENAPFQVFMRSIEFDDKESKVYLNFFSKENGICEEFSLIGTKQEGNTYDVNYAGNNKFVVSYASETALIISNINVDEEGDKTIMTGLLGKGTDIEDQDLEKFKEVTRENGIPEENIVNIIERDDCPA 157
               SCOP domains d1dzpa_ A: Odorant-binding protein                                                                                                                    SCOP domains
               CATH domains 1dzpA00 A:9-157  [code=2.40.128.20, no name defined]                                                                                                  CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeeee.hhhhh.......eeeeeeeee....eeeeeeeeee..eeeeeeeeeeee...eeeee...eeeeeeeee...eeeeeeeee.....eeeeeeeee.....hhhhhhhhhhhhhhh..hhh.....hhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dzp A   9 PFELSGKWITSYIGSSDLEKIGENAPFQVFMRSIEFDDKESKVYLNFFSKENGICEEFSLIGTKQEGNTYDVNYAGNNKFVVSYASETALIISNINVDEEGDKTIMTGLLGKGTDIEDQDLEKFKEVTRENGIPEENIVNIIERDDCPA 157
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148         


Chain B from PDB  Type:PROTEIN  Length:147
 aligned with OBP_PIG | P81245 from UniProtKB/Swiss-Prot  Length:157

    Alignment length:147
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       
              OBP_PIG    11 ELSGKWITSYIGSSDLEKIGENAPFQVFMRSIEFDDKESKVYLNFFSKENGICEEFSLIGTKQEGNTYDVNYAGNNKFVVSYASETALIISNINVDEEGDKTIMTGLLGKGTDIEDQDLEKFKEVTRENGIPEENIVNIIERDDCPA 157
               SCOP domains d1dzpb_ B: Odorant-binding protein                                                                                                                  SCOP domains
               CATH domains 1dzpB00 B:11-157  [code=2.40.128.20, no name defined]                                                                                               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeee.hhhhhh.......eeeeeeee....eeeeeeeeee..eeeeeeeeeeee...eeeee...eeeeeeeee....eeeeeeee.....eeeeeeeee.....hhhhhhhhhhhhhhh..hhh.....hhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dzp B  11 ELSGKWITSYIGSSDLEKIGENAPFQVFMRSIEFDDKESKVYLNFFSKENGICEEFSLIGTKQEGNTYDVNYAGNNKFVVSYASETALIISNINVDEEGDKTIMTGLLGKGTDIEDQDLEKFKEVTRENGIPEENIVNIIERDDCPA 157
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150
   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, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1DZP)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (OBP_PIG | P81245)
molecular function
    GO:0005549    odorant binding    Interacting selectively and non-covalently with an odorant, any substance capable of stimulating the sense of smell.
    GO:0005215    transporter activity    Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells.
biological process
    GO:0050896    response to stimulus    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism.
    GO:0007608    sensory perception of smell    The series of events required for an organism to receive an olfactory stimulus, convert it to a molecular signal, and recognize and characterize the signal. Olfaction involves the detection of chemical composition of an organism's ambient medium by chemoreceptors. This is a neurological process.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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  1dzp
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 Related Entries

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

UniProtKB/Swiss-Prot
        OBP_PIG | P81245: 1a3y 1dzj 1dzk 1dzm 1e00 1e02 1e06 1hqp

(-) Related Entries Specified in the PDB File

1a3y ODORANT BINDING PROTEIN FROM NASAL MUCOSA OF PIG
1dzj PORCINE ODORANT BINDING PROTEIN COMPLEXED WITH 2-AMINO-4-BUTYL-5-PROPYLSELENAZOLE
1dzk PORCINE ODORANT BINDING PROTEIN COMPLEXED WITH (2-ISOBUTYL-3-METOXYPYRAZINE)
1dzm PORCINE ODORANT BINDING PROTEIN COMPLEXED WITH BENZOIC ACID PHENYLMETHYLESTER
1e00 PORCINE ODORANT BINDING PROTEIN COMPLEXED WITH 2,6-DIMETHYL-7-OCTEN-2-OL
1e02 PORCINE ODORANT BINDING PROTEIN COMPLEXED WITH UNDECANAL
1e06 PORCINE ODORANT BINDING PROTEIN COMPLEXED WITH 5-METHYL-2-(1-METHYLETHYL)PHENOL