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(-) Description

Title :  CRYSTAL STRUCTURE OF THE PUTATIVE OXIDOREDUCTASE FROM SALMONELLA TYPHIMURIUM LT2
 
Authors :  Y. Kim, H. Li, F. Collart, A. Joachimiak, Midwest Center For Structu Genomics (Mcsg)
Date :  21 May 05  (Deposition) - 05 Jul 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Oxidoreductase, Penicillin, Mononuclear Ferrous Enzymes, Antibiotic Biosynthesis, Structural Genomics, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Kim, H. Li, F. Collart, A. Joachimiak
Crystal Structure Of The Putative Oxidoreductase From Salmonella Typhimurium Lt2
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE CYTOPLASMIC PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: YBIU
    Organism Scientific: SALMONELLA TYPHIMURIUM
    Organism Taxid: 99287
    Strain: LT2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (4, 4)
No.NameCountTypeFull Name
1CIT1Ligand/IonCITRIC ACID
2FE1Ligand/IonFE (III) ION
3ICT1Ligand/IonISOCITRIC ACID
4SIN1Ligand/IonSUCCINIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:203 , ASP A:205 , HIS A:345 , ICT A:501 , SIN A:502BINDING SITE FOR RESIDUE FE A 504
2AC2SOFTWAREPHE A:126 , PHE A:127 , ASP A:186 , ARG A:187 , LEU A:200 , HIS A:203 , ASP A:205 , THR A:252 , PHE A:391 , SIN A:502 , FE A:504 , HOH A:566BINDING SITE FOR RESIDUE ICT A 501
3AC3SOFTWAREARG A:189 , LEU A:200 , HIS A:203 , GLN A:261 , TRP A:263 , LEU A:276 , TRP A:339 , HIS A:345 , VAL A:347 , TYR A:361 , ICT A:501 , FE A:504BINDING SITE FOR RESIDUE SIN A 502
4AC4SOFTWAREASP A:296 , MET A:322 , LEU A:325 , HOH A:540BINDING SITE FOR RESIDUE CIT A 503

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:121 -Pro A:122

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2CSG)

(-) Exons   (0, 0)

(no "Exon" information available for 2CSG)

(-) 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:417
 aligned with Q8ZQM7_SALTY | Q8ZQM7 from UniProtKB/TrEMBL  Length:421

    Alignment length:417
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       
         Q8ZQM7_SALTY     3 TPFTHETLPADPKAAIRQMKQALRAQIGDVQAVFDRLSATIAARVAEINDLKAQGQPVWPIIPFSELAMGNISDATRAEVKRRGCAVIKGHFPREQALAWDQSMLDYLDKNHFDEVYKGPGDNFFGTLSASRPEIYPVYWSQAQMQARQSEEMALAQSFLNRLWQVEHDGKRWFNPDISIIYPDRIRRRPPGTTSKGLGAHTDSGALERWLLPAYQQVFASVFNGNVEQYDPWNAAHRTDVEEYTVDNTTKCSVFRTFQGWTALSDMLPGQGLLHVVPIPEAMAYILLRPLLDDVPEDELCGVAPGRVLPISEQWHPLLMAALTSIPPLEAGDSVWWHCDVIHSVAPVENQQGWGNVMYIPAAPMCEKNLAYARKVKAALETGASPGDFPREDYETTWEGRFTLRDLNIHGKRALGI 419
               SCOP domains d2csga1 A:3-419 Hypothetical protein YbiU                                                                                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains 2csgA00 A:3-419 B-lactam Antibiotic, Isopenicillin N Synthase; Chain                                                                                                                                                                                                                                                                                                                                                              CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhh...hhhhhhhhhhhheeee....hhhhhhhhhhhhhhhhhhhhhhhhh.......................hhhhhhhhhhhhhhhhhhhhhh............eeeee......ee..........eeeee....hhhhhhhhhhhhhhhhhh.hhhhh......hhhhh................eeeeee..........eee..hhhhhhhhhhhhhh................ee.....hhhhhh..ee........eeeee....eee...........eee....eehhhhhhhhhhhhhhhhhh.........hhhhh.....hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2csg A   3 TPFTHETLPADPKAAIRQMKQALRAQIGDVQAVFDRLSATIAARVAEINDLKAQGQPVWPIIPFSELAMGNISDATRAEVKRRGCAVIKGHFPREQALAWDQSMLDYLDKNHFDEVYKGPGDNFFGTLSASRPEIYPVYWSQAQMQARQSEEMALAQSFLNRLWQVEHDGKRWFNPDISIIYPDRIRRRPPGTTSKGLGAHTDSGALERWLLPAYQQVFASVFNGNVEQYDPWNAAHRTDVEEYTVDNTTKCSVFRTFQGWTALSDMLPGQGLLHVVPIPEAMAYILLRPLLDDVPEDELCGVAPGRVLPISEQWHPLLMAALTSIPPLEAGDSVWWHCDVIHSVAPVENQQGWGNVMYIPAAPMCEKNLAYARKVKAALETGASPGDFPREDYETTWEGRFTLRDLNIHGKRALGI 419
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412
   Legend:   → Mismatch (orange background)
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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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2CSG)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q8ZQM7_SALTY | Q8ZQM7)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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  Cis Peptide Bonds
    Gly A:121 - Pro A:122   [ RasMol ]  
 

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