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(-) Description

Title :  CRYSTAL STRUCTURE OF THE C(30) CAROTENOID DEHYDROSQUALENE SYNTHASE FROM STAPHYLOCOCCUS AUREUS COMPLEXED WITH BISPHOSPHONATE BPH-652
 
Authors :  C. I. Liu, W. Y. Jeng, A. H. Wang, E. Oldfield
Date :  11 Nov 07  (Deposition) - 11 Mar 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.38
Chains :  Asym./Biol. Unit :  A
Keywords :  Crtm, Carotenoid Biosynthesis, Staphyloxanthin Biosynthesis, Transferase, Head-To-Head Condensation, Bisphosphonate (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. I. Liu, G. Y. Liu, Y. Song, F. Yin, M. E. Hensler, W. Y. Jeng, V. Nizet, A. H. Wang, E. Oldfield
A Cholesterol Biosynthesis Inhibitor Blocks Staphylococcus Aureus Virulence.
Science V. 319 1391 2008
PubMed-ID: 18276850  |  Reference-DOI: 10.1126/SCIENCE.1153018
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DEHYDROSQUALENE SYNTHASE
    Chains: A
    EC Number: 2.5.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-32 XA/LIC
    Expression System Strain: BL-21 (DE3) PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: CRTM
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 1280
    Strain: ATCC 27659
    Synonym: DIAPOPHYTOENE SYNTHASE, 4,4'-DIAPOPHYTOENE SYNTHASE, DAP SYNTHASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1B651Ligand/Ion(1R)-4-(3-PHENOXYPHENYL)-1-PHOSPHONOBUTANE-1-SULFONICACID
2MG2Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:22 , TYR A:41 , ARG A:45 , ASP A:48 , ASP A:52 , TYR A:129 , GLN A:165 , ASN A:168 , ASP A:172 , HOH A:301 , HOH A:303BINDING SITE FOR RESIDUE B65 A 451
2AC2SOFTWAREASP A:48 , ASP A:52BINDING SITE FOR RESIDUE MG A 452
3AC3SOFTWAREASN A:168 , ASP A:172BINDING SITE FOR RESIDUE MG A 453

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2ZCQ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2ZCQ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SQUALEN_PHYTOEN_SYN_1PS01044 Squalene and phytoene synthases signature 1.CRTM_STAAU129-144  1A:129-144

(-) Exons   (0, 0)

(no "Exon" information available for 2ZCQ)

(-) 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:284
 aligned with CRTM_STAAU | A9JQL9 from UniProtKB/Swiss-Prot  Length:287

    Alignment length: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    
           CRTM_STAAU     1 MTMMDMNFKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQIKEDIQSIEKYPYEYHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMFETDAELFGYCYGVAGTVGEVLTPILSDHETHQTYDVARRLGESLQLINILRDVGEDFENERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKVFSIEAQPIIELAARIYIEILDEVRQANYTLHERVFVEKRKKAKLFHEINSKY 284
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------SQS_PSY-2zcqA01 A:15-272                                                                                                                                                                                                                                          ------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhh....hhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhh..hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------SQUALEN_PHYTOEN_-------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2zcq 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
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (0, 0)

(no "SCOP Domain" information available for 2ZCQ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2ZCQ)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: SQS_PSY] (7)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (CRTM_STAAU | A9JQL9)
molecular function
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016765    transferase activity, transferring alkyl or aryl (other than methyl) groups    Catalysis of the transfer of an alkyl or aryl (but not methyl) group from one compound (donor) to another (acceptor).
biological process
    GO:0009058    biosynthetic process    The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
    GO:0016117    carotenoid biosynthetic process    The chemical reactions and pathways resulting in the formation of carotenoids, tetraterpenoid compounds in which two units of 4 isoprenoid residues joined head-to-tail are themselves joined tail-to-tail.

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  2.5.1.-
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 Related Entries

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

UniProtKB/Swiss-Prot
        CRTM_STAAU | A9JQL9: 2zco 2zcr 2zcs 2zy1 3acw 3acx 3acy 3adz 3ae0 3lgz 3npr 3tfn 3tfp 3tfv 3vjd 3vje 3w7f 4e9u 4e9z 4ea0 4ea1 4ea2 4f6v 4f6x

(-) Related Entries Specified in the PDB File

2zco THE APO ENZYME.
2zcp THE SAME PROTEIN COMPLEXED WITH FARNESYL THIOPYROPHOSPHATE.
2zcr THE SAME PROTEIN COMPLEXED WITH BISPHOSPHONATE BPH-698.
2zcs THE SAME PROTEIN COMPLEXED WITH BISPHOSPHONATE BPH-700.