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(-) Description

Title :  CRYSTAL STRUCTURE OF DEHYDROSQUALENE SYNTHASE (CRTM) FROM S. AUREUS COMPLEXED WITH DIPHOSPHATE AND QUINUCLIDINE BPH-651
 
Authors :  F. -Y. Lin, Y. -L. Liu, E. Oldfield
Date :  21 Mar 12  (Deposition) - 25 Apr 12  (Release) - 30 May 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.12
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Quinuclidine Inhibitor, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Y. Lin, Y. L. Liu, K. Li, R. Cao, W. Zhu, J. Axelson, R. Pang, E. Oldfiel
Head-To-Head Prenyl Tranferases: Anti-Infective Drug Targets.
J. Med. Chem. V. 55 4367 2012
PubMed-ID: 22486710  |  Reference-DOI: 10.1021/JM300208P

(-) Compounds

Molecule 1 - DEHYDROSQUALENE SYNTHASE
    Chains: A, B
    EC Number: 2.5.1.96
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Gene: CRTM
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 1280
    Synonym: 4,4'-DIAPOPHYTOENE SYNTHASE, DAP SYNTHASE, DIAPOPHYTOENE SYNTHASE

 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  (4, 11)

Asymmetric Unit (4, 11)
No.NameCountTypeFull Name
16512Ligand/Ion(3R)-3-BIPHENYL-4-YL-1-AZABICYCLO[2.2.2]OCTAN-3-OL
2MG6Ligand/IonMAGNESIUM ION
3POP2Ligand/IonPYROPHOSPHATE 2-
4TLA1Ligand/IonL(+)-TARTARIC ACID
Biological Unit 1 (3, 3)
No.NameCountTypeFull Name
16511Ligand/Ion(3R)-3-BIPHENYL-4-YL-1-AZABICYCLO[2.2.2]OCTAN-3-OL
2MG-1Ligand/IonMAGNESIUM ION
3POP1Ligand/IonPYROPHOSPHATE 2-
4TLA1Ligand/IonL(+)-TARTARIC ACID
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
16511Ligand/Ion(3R)-3-BIPHENYL-4-YL-1-AZABICYCLO[2.2.2]OCTAN-3-OL
2MG-1Ligand/IonMAGNESIUM ION
3POP1Ligand/IonPYROPHOSPHATE 2-
4TLA-1Ligand/IonL(+)-TARTARIC ACID

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:45 , ASP A:48 , ASP A:52 , MG A:303 , POP A:304 , HOH A:422 , HOH A:427BINDING SITE FOR RESIDUE MG A 301
02AC2SOFTWAREASN A:168 , ASP A:172 , POP A:304 , HOH A:403 , HOH A:404BINDING SITE FOR RESIDUE MG A 302
03AC3SOFTWAREASP A:48 , ASP A:52 , MG A:301 , POP A:304 , HOH A:401 , HOH A:402 , HOH A:487BINDING SITE FOR RESIDUE MG A 303
04AC4SOFTWAREARG A:45 , ASP A:48 , ASP A:52 , GLN A:165 , ASN A:168 , ASP A:172 , MG A:301 , MG A:302 , MG A:303 , 651 A:306 , HOH A:402 , HOH A:403 , HOH A:404 , HOH A:405 , HOH A:422 , HOH A:427 , HOH A:487 , HOH A:503BINDING SITE FOR RESIDUE POP A 304
05AC5SOFTWAREHIS A:18 , SER A:19 , LYS A:20 , SER A:21 , ARG A:171 , TYR A:248 , ARG A:265 , HOH A:503BINDING SITE FOR RESIDUE TLA A 305
06AC6SOFTWAREPHE A:22 , ARG A:45 , ASP A:48 , VAL A:133 , ALA A:134 , GLY A:138 , GLY A:161 , LEU A:164 , GLN A:165 , POP A:304 , HOH A:501BINDING SITE FOR RESIDUE 651 A 306
07AC7SOFTWAREASN B:168 , ASP B:172 , POP B:304 , HOH B:406 , HOH B:444BINDING SITE FOR RESIDUE MG B 301
08AC8SOFTWAREASP B:48 , ASP B:52 , MG B:303 , POP B:304 , HOH B:401 , HOH B:402 , HOH B:424BINDING SITE FOR RESIDUE MG B 302
09AC9SOFTWAREARG B:45 , ASP B:48 , ASP B:52 , MG B:302 , POP B:304 , HOH B:429 , HOH B:482BINDING SITE FOR RESIDUE MG B 303
10BC1SOFTWAREARG B:45 , ASP B:48 , ASP B:52 , GLN B:165 , ASN B:168 , ASP B:172 , ARG B:265 , MG B:301 , MG B:302 , MG B:303 , 651 B:305 , HOH B:401 , HOH B:415 , HOH B:424 , HOH B:427 , HOH B:429 , HOH B:444 , HOH B:482BINDING SITE FOR RESIDUE POP B 304
11BC2SOFTWAREPHE B:22 , ARG B:45 , ASP B:48 , VAL B:133 , ALA B:134 , VAL B:137 , GLY B:138 , LEU B:164 , GLN B:165 , POP B:304BINDING SITE FOR RESIDUE 651 B 305

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4EA0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4EA0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4EA0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4EA0)

(-) Exons   (0, 0)

(no "Exon" information available for 4EA0)

(-) 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:284
                                                                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhh..hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ea0 A   1 MTMMDMNFKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQIKEDIQSIEKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMFETDAELFGYCYGVAGTVGEVLTPILSDHETHQTYDVARRLGESLQLINILRDVGEDFENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKVFSIEAQPIIELAARIYIEILDEVRQANYTLHERVFVEKRKKAKLFHEINSKY 284
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280    


Chain B from PDB  Type:PROTEIN  Length:284
                                                                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh.hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ea0 B   1 MTMMDMNFKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQIKEDIQSIEKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMFETDAELFGYCYGVAGTVGEVLTPILSDHETHQTYDVARRLGESLQLINILRDVGEDFENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKVFSIEAQPIIELAARIYIEILDEVRQANYTLHERVFVEKRKKAKLFHEINSKY 284
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280
   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  (0, 0)

(no "SCOP Domain" information available for 4EA0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4EA0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4EA0)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)

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  2.5.1.96
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 Related Entries

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

UniProtKB/Swiss-Prot
        CRTM_STAAU | A9JQL9: 2zco 2zcq 2zcr 2zcs 2zy1 3acw 3acx 3acy 3adz 3ae0 3lgz 3npr 3tfn 3tfp 3tfv 3vjd 3vje 3w7f 4e9u 4e9z 4ea1 4ea2 4f6v 4f6x

(-) Related Entries Specified in the PDB File

4e9u 4e9z 4ea1 4ea2