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(-) Description

Title :  CRYSTAL STRUCTURE OF CAPF WITH INHIBITOR 3-ISOPROPENYL-TROPOLONE
 
Authors :  K. Nakano, T. Chigira, T. Miyafusa, S. Nagatoishi, J. M. M. Caaveiro, K.
Date :  15 Mar 15  (Deposition) - 21 Oct 15  (Release) - 04 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.44
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Capf Cupin Capsular Polysaccharide Staphylococcus Aureus, Oxidoreductase-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Nakano, T. Chigira, T. Miyafusa, S. Nagatoishi, J. M. Caaveiro, K. Tsumoto
Discovery And Characterization Of Natural Tropolones As Inhibitors Of The Antibacterial Target Capf From Staphylococcus Aureus.
Sci Rep V. 5 15337 2015
PubMed-ID: 26471247  |  Reference-DOI: 10.1038/SREP15337

(-) Compounds

Molecule 1 - CAPSULAR POLYSACCHARIDE SYNTHESIS ENZYME CAP5F
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET26
    Expression System Strain: ROSETTA 2 (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: CAPF, SAV0154
    Mutation: YES
    Organism Scientific: STAPHYLOCOCCUS AUREUS (STRAIN MU50 / ATCC 700699)
    Organism Taxid: 158878
    Strain: MU50 / ATCC 700699

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
13IT2Ligand/Ion2-HYDROXY-3-(PROP-1-EN-2-YL)CYCLOHEPTA-2,4,6-TRIEN-1-ONE
2ZN2Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:288 , GLU A:295 , HIS A:337 , 3IT A:402binding site for residue ZN A 401
2AC2SOFTWAREPHE A:262 , HIS A:288 , GLU A:295 , PHE A:297 , HIS A:337 , MET A:351 , ZN A:401binding site for residue 3IT A 402
3AC3SOFTWAREHIS B:288 , GLU B:295 , HIS B:337 , 3IT B:402binding site for residue ZN B 401
4AC4SOFTWAREPHE B:262 , HIS B:288 , GLU B:295 , PHE B:297 , HIS B:337 , MET B:351 , ZN B:401binding site for residue 3IT B 402

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4YRD)

(-) 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:341
                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee...hhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhh.eeee....hhhhhhhhhhhh......eeeee....hhhhhhhhhhh..eeee...eee.........hhhhhhhhhhhh...........eeeeeehhhhhhhhhhhhh...............eeeehhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh.eee...eee..eeeeeeee.....eeeeeee....eeeeee.....eeeeeee.eeeeeeee.....eeeeeee....eeeee...eeeeeee.....eeeeeee...........ee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yrd A   1 MNIVITGAKGFVGKNLKADLTSTTDHHIFEVHRQTKEEELESALLKADFIVHLAGVGSYLDHVLDILTRNTKKPAILLSSSIEQLLREYAEEYGNTVYIYRWPNLFGKWCKPNYNSVIATFCYKIARNEEIQVNDRNVELTLNYVDDIVAEIKRAIEGTPTIENGVPTVPNVFKVTLGEIVDLLYKFKQSRLDRTLPKLDNLFEKDLYSTYLSYLPSTDFSYPLLMNVDDRGSFTEFIKTPDRGQVSVNISKPGITKGNHWHHTKNEKFLVVSGKGVIRFRHVNDDEIIEYYVSGDKLEVVDIPVGYTHNIENLGDTDMVTIMWVNEMFDPNQPDTYFLEV 369
                                    10        20        30        40        50      ||73        83        93 ||    118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368 
                                                                                   57|                      95|                                                                                                                                                                                                                                                                  
                                                                                    71                      111                                                                                                                                                                                                                                                                  


Chain B from PDB  Type:PROTEIN  Length:346
                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee...hhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhh.eeee....hhhhhhhhhhhh......eeeee.......hhhhhhhhhhhhh..eeee...eee.........hhhhhhhhhhhh...........eeeeeehhhhhhhhhhhhh...............eeeehhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh.eee...eee..eeeeeeee.....eeeeeee....eeeeee.....eeeeeee.eeeeeeee.....eeeeeee....eeeee...eeeeeee.....eeeeeee...........ee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yrd B   1 MNIVITGAKGFVGKNLKADLTSTTDHHIFEVHRQTKEEELESALLKADFIVHLAGVGSYLDHVLDILTRNTKKPAILLSSSISKLQGEQLLREYAEEYGNTVYIYRWPNLFGKWCKPNYNSVIATFCYKIARNEEIQVNDRNVELTLNYVDDIVAEIKRAIEGTPTIENGVPTVPNVFKVTLGEIVDLLYKFKQSRLDRTLPKLDNLFEKDLYSTYLSYLPSTDFSYPLLMNVDDRGSFTEFIKTPDRGQVSVNISKPGITKGNHWHHTKNEKFLVVSGKGVIRFRHVNDDEIIEYYVSGDKLEVVDIPVGYTHNIENLGDTDMVTIMWVNEMFDPNQPDTYFLEV 369
                                    10        20        30        40        50      ||73        83        93 ||    113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363      
                                                                                   57|                      95|                                                                                                                                                                                                                                                                       
                                                                                    71                      106
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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 4YRD)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4YRD)

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  4yrd
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  A0A0H3JP37_S | A0A0H3JP37
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        A0A0H3JP37_S | A0A0H3JP37: 2zkl 3st7 3vhr

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