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(-) Description

Title :  CRYSTAL STRUCTURE OF XYLOSE ISOMERASE DOMAIN CONTAINING PROTEIN (STM4435) FROM SALMONELLA TYPHIMURIUM LT2 WITH UNKNOWN LIGAND
 
Authors :  K. M. Boyko, M. A. Gorbacheva, D. A. Korzhenevskiy, P. V. Dorovatovsky, T. V. Rakitina, A. V. Lipkin, I. A. Shumilin, W. Minor, V. O. Popov
Date :  09 Oct 12  (Deposition) - 24 Oct 12  (Release) - 24 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Xylose Isomerase Domain, Unknown Ligand, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. M. Boyko, M. A. Gorbacheva, D. A. Korzhenevskiy, P. V. Dorovatovsky T. V. Rakitina, A. V. Lipkin, I. A. Shumilin, W. Minor, V. O. Popov
Crystal Structure Of Xylose Isomerase Domain Containing Protein (Stm4435) From Salmonella Typhimurium Lt2 With Unknown Ligand
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - XYLOSE ISOMERASE DOMAIN CONTAINING PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-24
    Expression System Strain: ROSETTA DE3
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: STM4435
    Organism Scientific: SALMONELLA ENTERICA SUBSP. ENTERICA SEROVAR TYPHIMURIUM
    Organism Taxid: 99287
    Strain: LT2

 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  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2ZN2Ligand/IonZINC ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2ZN-1Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:139 , ASP A:170 , HIS A:197 , GLU A:245 , HOH A:403BINDING SITE FOR RESIDUE ZN A 301
2AC2SOFTWAREARG A:149 , SER A:150 , TRP A:153 , HOH A:433BINDING SITE FOR RESIDUE ACT A 302
3AC3SOFTWAREGLU B:139 , ASP B:170 , HIS B:197 , GLU B:245BINDING SITE FOR RESIDUE ZN B 301
4AC4SOFTWARETRP B:153BINDING SITE FOR RESIDUE ACT B 302

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Asn A:71 -Ala A:72
2Tyr A:74 -Pro A:75
3Asn B:71 -Ala B:72
4Tyr B:74 -Pro B:75

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4HGX)

(-) 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:268
                                                                                                                                                                                                                                                                                                            
               SCOP domains d4hgxa_ A: Putative cytoplasmic protein STM4435                                                                                                                                                                                                                              SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeee.hhh...hhhhhhhhhhhh...eeeee............hhhhhhhhhhhh..eeeeeeee......hhhhhhhhhhhhhhhhhhh..eeee.........hhhhhhhhhhhhhhhhhh...eeee...........hhhhhhhhhhhhh...eeeeehhhhhh............hhh.eeeeee.......hhhhhhhhhh.........hhhhhhhhhhhhh....eee...hhhhhh.hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hgx A   2 MNIEKTRFCINRKIAPGLSIEAFFRLVKRLEFNKVELRNDMPSGSVTDDLNYNQVRNLAEKYGLEIVTINAVYPFNQLTEEVVKKTEGLLRDAQGVGARALVLCPLNDGTIVPPEVTVEAIKRLSDLFARYDIQGLVEPLGFRVSSLRSAVWAQQLIREAGSPFKVLLDTFHHHLYEEAEKEFASRIDISAIGLVHLSGVEDTRPTEALADEQRIMLSEKDVMQNYQQVQRLENMGYRGIYAFEPFSSQLASWSEAEIEEQINRSVSL 269
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261        


Chain B from PDB  Type:PROTEIN  Length:271
                                                                                                                                                                                                                                                                                                               
               SCOP domains d4hgxb_ B: Putative cytoplasmic protein STM4435                                                                                                                                                                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhh.eeee.hhh...hhhhhhhhhhhh...eeeee............hhhhhhhhhhhh..eeeeeeee......hhhhhhhhhhhhhhhhhhh..eeee.........hhhhhhhhhhhhhhhhhhh..eeee...........hhhhhhhhhhhh....eeeeehhhhhhh.....hhhhhhhhh.eeeeee.......hhhhhhhhhh.........hhhhhhhhhhhh.....eee...hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hgx B   2 MNIEKTRFCINRKIAPGLSIEAFFRLVKRLEFNKVELRNDMPSGSVTDDLNYNQVRNLAEKYGLEIVTINAVYPFNQLTEEVVKKTEGLLRDAQGVGARALVLCPLNDGTIVPPEVTVEAIKRLSDLFARYDIQGLVEPLGFRVSSLRSAVWAQQLIREAGSPFKVLLDTFHHHLYEEAEKEFASRIDISAIGLVHLSGVEDTRPTEALADEQRIMLSEKDVMQNYQQVQRLENMGYRGIYAFEPFSSQLASWSEAEIEEQINRSVSLLLQ 272
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271
   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, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asn A:71 - Ala A:72   [ RasMol ]  
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 Related Entries

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

UniProtKB/TrEMBL
        Q8ZK48_SALTY | Q8ZK48: 2q02

(-) Related Entries Specified in the PDB File

2q02 ANOTHER SPACE GROUP. UNKNOWN LIGAND IN THE ACTIVE CENTER