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(-) Description

Title :  X-RAY CRYSTAL STRUCTURE OF R22K MUTANT OF THE MAMMALIAN BRAIN PLATELET-ACTIVATING FACTOR ACETYLHYDROLASES (PAF-AH)
 
Authors :  T. W. P. Mcmullen, J. Li, P. J. Sheffield, J. Aoki, T. W. Martin, H. Arai, K. Inoue, Z. S. Derewenda
Date :  07 Apr 00  (Deposition) - 31 May 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.30
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Alpha/Beta Hydrolase Fold (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  T. W. Mcmullen, J. Li, P. J. Sheffield, J. Aoki, T. W. Martin, H. Arai, K. Inoue, Z. S. Derewenda
The Functional Implications Of The Dimerization Of The Catalytic Subunits Of The Mammalian Brain Platelet-Activating Factor Acetylhydrolase (Ib).
Protein Eng. V. 13 865 2000
PubMed-ID: 11239086  |  Reference-DOI: 10.1093/PROTEIN/13.12.865
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PLATELET-ACTIVATING FACTOR ACETYLHYDROLASE IB GAMMA SUBUNIT
    ChainsA
    EC Number3.1.1.47
    MutationYES
    OrganBRAIN
    Organism CommonCATTLE
    Organism ScientificBOS TAURUS
    Organism Taxid9913
    SynonymPAF-AH

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (2x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1ES9)

(-) Sites  (0, 0)

(no "Site" information available for 1ES9)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1ES9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1ES9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1ES9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1ES9)

(-) Exons   (5, 5)

Asymmetric Unit (5, 5)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENSBTAT000000263661ENSBTAE00000214404chr18:50729679-5072975779PA1B3_BOVIN-00--
1.2ENSBTAT000000263662ENSBTAE00000214414chr18:50730146-5073024398PA1B3_BOVIN1-26261A:5-2622
1.3ENSBTAT000000263663ENSBTAE00000214416chr18:50730450-5073053990PA1B3_BOVIN27-56301A:27-5630
1.4ENSBTAT000000263664ENSBTAE00000214419chr18:50731215-50731331117PA1B3_BOVIN57-95391A:57-9539
1.5ENSBTAT000000263665ENSBTAE00000214421chr18:50731410-50731532123PA1B3_BOVIN96-136411A:96-13641
1.6ENSBTAT000000263666ENSBTAE00000214422chr18:50732204-50732539336PA1B3_BOVIN137-232961A:137-21680

(-) 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:212
 aligned with PA1B3_BOVIN | Q29460 from UniProtKB/Swiss-Prot  Length:232

    Alignment length:212
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214  
          PA1B3_BOVIN     5 ENPASKPTPVQDVQGDGRWMSLHHRFVADSKDKEPEVVFIGDSLVQLMHQCEIWRELFSPLHALNFGIGGDSTQHVLWRLENGELEHIRPKIVVVWVGTNNHGHTAEQVTGGIKAIVQLVNERQPQARVVVLGLLPRGQHPNPLREKNRRVNELVRAALAGHPRAHFLDADPGFVHSDGTISHHDMYDYLHLSRLGYTPVCRALHSLLLRLL 216
               SCOP domains d1es9a_ A: Platelet-activating factor acetylhydrolase                                                                                                                                                                SCOP domains
               CATH domains 1es9A00 A:5-216  [code=3.40.50.1110, no name defined]                                                                                                                                                                CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh..........hhhhhhhhhhhhhhhhh...eeeeehhhhhhhhhhhhhhhhhhhh.eeeee....hhhhhhhhhhh.........eeeee........hhhhhhhhhhhhhhhhhhhh...eeeee.........hhhhhhhhhhhhhhhhhhhh...eeee........................hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.2  PDB: A:5-26 Exon 1.3  PDB: A:27-56        Exon 1.4  PDB: A:57-95 UniProt: 57-95  Exon 1.5  PDB: A:96-136 UniProt: 96-136  Exon 1.6  PDB: A:137-216 UniProt: 137-232 [INCOMPLETE]                           Transcript 1
                 1es9 A   5 ENPASKPTPVQDVQGDGKWMSLHHRFVADSKDKEPEVVFIGDSLVQLMHQCEIWRELFSPLHALNFGIGGDSTQHVLWRLENGELEHIRPKIVVVWVGTNNHGHTAEQVTGGIKAIVQLVNERQPQARVVVLGLLPRGQHPNPLREKNRRVNELVRAALAGHPRAHFLDADPGFVHSDGTISHHDMYDYLHLSRLGYTPVCRALHSLLLRLL 216
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214  

   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, 1)

Asymmetric Unit

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1ES9)

(-) Gene Ontology  (11, 11)

Asymmetric Unit(hide GO term definitions)
Chain A   (PA1B3_BOVIN | Q29460)
molecular function
    GO:0003847    1-alkyl-2-acetylglycerophosphocholine esterase activity    Catalysis of the reaction: 2-acetyl-1-alkyl-sn-glycero-3-phosphocholine + H2O = 1-alkyl-sn-glycero-3-phosphocholine + acetate.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0047179    platelet-activating factor acetyltransferase activity    Catalysis of the reaction: 1-radyl-2-acyl-sn-glycero-3-phospholipid + 1-alkyl-2-acetyl-sn-glycero-3-phosphocholine = 1-alkyl-2-lyso-sn-glycero-3-phosphocholine + 1-radyl-2-acetyl-sn-glycero-3-phospholipid.
biological process
    GO:0007420    brain development    The process whose specific outcome is the progression of the brain over time, from its formation to the mature structure. Brain development begins with patterning events in the neural tube and ends with the mature structure that is the center of thought and emotion. The brain is responsible for the coordination and control of bodily activities and the interpretation of information from the senses (sight, hearing, smell, etc.).
    GO:0016042    lipid catabolic process    The chemical reactions and pathways resulting in the breakdown of lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
    GO:0006629    lipid metabolic process    The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
    GO:0007283    spermatogenesis    The process of formation of spermatozoa, including spermatocytogenesis and spermiogenesis.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PA1B3_BOVIN | Q294601bwp 1bwq 1bwr 1fxw 1wab 3dt6 3dt8 3dt9

(-) Related Entries Specified in the PDB File

1wab 1WAB IS THE WILD TYPE PROTEIN