Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)

(-) Description

Title :  STRUCTURE OF E. COLI ZINT AT 1.79 ANGSTROM
 
Authors :  P. E. Santo, H. G. Colaco, P. Matias, J. B. Vicente, T. M. Bandeiras
Date :  21 Sep 15  (Deposition) - 27 Jan 16  (Release) - 30 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.79
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Metal Binding Protein, Zinc Transport, Natural His-Tag, Metal Resistance (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. G. Colaco, P. E. Santo, P. Matias, T. M. Bandeiras, J. B. Vicente
Roles Of Escherichia Coli Zint In Cobalt, Mercury And Cadmium Resistance And Structural Insights Into The Metal Binding Mechanism
Metallomics V. 8 327 2016
PubMed-ID: 26758285  |  Reference-DOI: 10.1039/C5MT00291E

(-) Compounds

Molecule 1 - METAL-BINDING PROTEIN ZINT
    ChainsA
    FragmentUNP RESIDUES 24-216
    Organism ScientificESCHERICHIA COLI
    Organism Taxid469008
    StrainBL21(DE3)
    SynonymCADMIUM-INDUCED PROTEIN ZINT, ZINT
    VariantROSETTA

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (2x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 9)

Asymmetric Unit (2, 9)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2ZN8Ligand/IonZINC ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1ACY2Ligand/IonACETIC ACID
2ZN-1Ligand/IonZINC ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:188BINDING SITE FOR RESIDUE ZN A1193
2AC2SOFTWAREHIS A:1 , HIS A:6 , GLU A:189 , HIS A:193BINDING SITE FOR RESIDUE ZN A1194
3AC3SOFTWAREHIS A:144 , HIS A:153 , HIS A:155 , HOH A:2137BINDING SITE FOR RESIDUE ZN A1195
4AC4SOFTWAREASP A:89 , HIS A:95 , ZN A:1200 , HOH A:2180BINDING SITE FOR RESIDUE ZN A1196
5AC5SOFTWAREASP A:24 , HIS A:75 , ACY A:1201 , HOH A:2085BINDING SITE FOR RESIDUE ZN A1197
6AC6SOFTWAREGLU A:88 , GLU A:93 , HOH A:2095 , HOH A:2097 , HOH A:2179BINDING SITE FOR RESIDUE ZN A1198
7AC7SOFTWAREGLU A:188BINDING SITE FOR RESIDUE ZN A1199
8AC8SOFTWAREASP A:89 , ZN A:1196 , HOH A:2180BINDING SITE FOR RESIDUE ZN A1200
9AC9SOFTWAREASP A:24 , TYR A:43 , GLN A:47 , HIS A:75 , ZN A:1197 , HOH A:2085BINDING SITE FOR RESIDUE ACY A1201

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:103 -A:128

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5AQ6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5AQ6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5AQ6)

(-) Exons   (0, 0)

(no "Exon" information available for 5AQ6)

(-) 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:190
                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhh...hhhhh...hhhhhheeeeehhhhhhh..hhhhhhhhhhh....hhhhhhhhhhhhhh....eeeee..eeeeee..eeeeee.eeeeeeeee.....eeeeeeee..........eeeee...........eeeeee..hhhhhhhh.....eeee...hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5aq6 A   1 HSHGKPLTEVEQKAANGVFDDANVQNRKLSDWDGVWQSVYPLLQSGKLDPVFQKKADADKTKTFAEIKDYYHKGYATDIEMIGIEDGIVEFHRNNETTSCKYDYDGYKILTYKSGKKGVRYLFECKDPESKAPKYIQFSDHIIAPRKSSHFHIFMGNDSQQSLLNEMENWPTYYPYQLSSEEVVEEMMSH 193
                            ||      13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193
                            ||                                                                                                                                                                                            
                            1|                                                                                                                                                                                            
                             5                                                                                                                                                                                            

   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 5AQ6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5AQ6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5AQ6)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    ACY  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    ZN  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 5aq6)
 
Biological Unit
  Complete Structure
    Biological Unit 1  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  5aq6
    Family and Domain InformationProDom | SYSTERS
    General Structural InformationGlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in MembranesOPM
    Protein SurfaceSURFACE
    Secondary StructureDSSP (structure derived) | HSSP (homology derived)
    Structural GenomicsGeneCensus
    Structural NeighboursCE | VAST
    Structure ClassificationCATH | Dali | SCOP
    Validation and Original DataBMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  ZINT_ECOLI | P76344
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme InformationBRENDA | EC-PDB | Enzyme | IntEnz
    PathwayKEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease InformationOMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related InformationGenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain InformationXDom
    Interatomic Contacts of Structural UnitsCSU
    Ligand-protein ContactsLPC
    Protein CavitiescastP
    Sequence and Secondary StructurePDBCartoon
    Structure AlignmentSTRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence BrowserSTING
 
Access by UniProt ID/Accession number
  ZINT_ECOLI | P76344
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        ZINT_ECOLI | P763441oee 1oej 1oek 1s7d 1txl 5xm5

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5AQ6)