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(-) Description

Title :  CRYSTAL STRUCTURE OF SACCHAROMYCES CEREVISIAE OMP SYNTHASE IN COMPLEX WITH PRP(NH)P
 
Authors :  M. B. Bang, U. Molich, M. R. Hansen, C. Grubmeyer, P. Harris
Date :  10 Oct 14  (Deposition) - 23 Dec 15  (Release) - 23 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. B. Bang, U. Molich, M. R. Hansen, C. Grubmeyer, P. Harris
Crystal Structure Of Saccharomyces Cerevisiae Omp Synthase In Complex With Prp(Nh)P
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - OROTATE PHOSPHORIBOSYLTRANSFERASE 1
    Chains: A
    EC Number: 2.4.2.10
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: URA5, PYR5, YML106W, YM8339.13
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: OPRTASE 1

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
13R31Ligand/Ion[[[(2R,3R,4S,5R)-3,4-BIS(OXIDANYL)-5-(PHOSPHONOOXYMETHYL)OXOLAN-2-YL]OXY-OXIDANYL-PHOSPHORYL]AMINO]PHOSPHONIC ACID
2MG1Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
13R32Ligand/Ion[[[(2R,3R,4S,5R)-3,4-BIS(OXIDANYL)-5-(PHOSPHONOOXYMETHYL)OXOLAN-2-YL]OXY-OXIDANYL-PHOSPHORYL]AMINO]PHOSPHONIC ACID
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARE3R3 A:302 , HOH A:445 , HOH A:446binding site for residue MG A 301
2AC2SOFTWARETYR A:75 , LYS A:76 , ARG A:105 , LYS A:109 , ASP A:131 , ASP A:132 , VAL A:133 , MET A:134 , THR A:135 , ALA A:136 , GLY A:137 , THR A:138 , ALA A:139 , MG A:301 , HOH A:445 , HOH A:446 , HOH A:455binding site for residue 3R3 A 302

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4WN3)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ala A:74 -Tyr A:75

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4WN3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4WN3)

(-) Exons   (0, 0)

(no "Exon" information available for 4WN3)

(-) 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:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh..eeeeeee.....eeeeee.hhhh.hhhhhhhhhhhhhhhhhhh.....eeee...hhhhhhhhhhhhhhhhhhhhhh..eeeee.........ee.......eeeee......hhhhhhhhhhhhhh..eeeeeeeeee.............hhhhhhhhhhh..eeeeeehhhhhhhhh...hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wn3 A   2 IMLEDYQKNFLELAIECQALRFGSFKLKSGRESPYFFNLGLFNTGKLLSNLATAYAIAIIQSDLKFDVIFGPAYKGIPLAAIVCVKLAEIGGSKFQNIQYAFNRKEAKDGGIIVGSALENKRILIIDDVMTAGTAINEAFEIISNAKGQVVGSIIALDRQEVVSTDDKEGLSATQTVSKKYGIPVLSIVSLIHIITYLEGRITAEEKSKIEQYLQTYGAS 224
                                    11        21        31        41        51        61        71        81        91       101       114       124       134       144       154       164       174       184       194       204       214       224
                                                                                                                                      110|                                                                                                              
                                                                                                                                       114
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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  (0, 0)

(no "SCOP Domain" information available for 4WN3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4WN3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4WN3)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)

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    Ala A:74 - Tyr A:75   [ RasMol ]  
 
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  2.4.2.10
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 Related Entries

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

UniProtKB/Swiss-Prot
        PYRE_YEAST | P13298: 2pry 2prz 2ps1 4wml

(-) Related Entries Specified in the PDB File

2pry 2PRY CONTAINS THE SAME PROTEIN IN APO FORM.
2prz 2PRZ CONTAINS THE SAME PROTEIN IN COMPLEX WITH OMP.
2ps1 2PS1 CONTAINS THE SAME PROTEIN IN COMPLEX WITH MG2+ AND PRPP.
4wml 4WML CONTAINS THE SAME PROTEIN COMPLEXED WITH PRP(CH2)P.