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

(-) Description

Title :  CRYSTAL STRUCTURE ANALYSIS OF THE 'AS-ISOLATED' P19 PROTEIN FROM CAMPYLOBACTER JEJUNI AT 1.65 A AT PH 9.0
 
Authors :  T. I. Doukov, A. C. K. Chan, M. Scofield, A. B. Ramin, S. A. L. Tom-Yew, M. E
Date :  01 Mar 10  (Deposition) - 21 Jul 10  (Release) - 25 Aug 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Copper Binding, Iron Transport, Iron Uptake, P19 Delition, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. C. Chan, T. I. Doukov, M. Scofield, S. A. Tom-Yew, A. B. Ramin, J. K. Mackichan, E. C. Gaynor, M. E. Murphy
Structure And Function Of P19, A High-Affinity Iron Transporter Of The Human Pathogen Campylobacter Jejuni.
J. Mol. Biol. V. 401 590 2010
PubMed-ID: 20600116  |  Reference-DOI: 10.1016/J.JMB.2010.06.038

(-) Compounds

Molecule 1 - P19 PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET19
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 22-179
    Gene: CJJ81176_1650, GENE CJ81176_1659
    Organism Scientific: CAMPYLOBACTER JEJUNI
    Organism Taxid: 354242
    Strain: 81-176

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1CU2Ligand/IonCOPPER (II) ION
2SO44Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:42 , MET A:88 , HIS A:95 , HIS B:132BINDING SITE FOR RESIDUE CU A 200
2AC2SOFTWAREGLY A:7 , ASP A:8 , LYS A:10 , TYR A:150 , LYS A:151BINDING SITE FOR RESIDUE SO4 A 300
3AC3SOFTWAREGLU A:11 , LEU A:50 , LYS A:51 , HOH A:1088 , HOH A:1095 , HOH A:1101BINDING SITE FOR RESIDUE SO4 A 301
4AC4SOFTWAREHIS A:132 , HIS B:42 , MET B:88 , HIS B:95BINDING SITE FOR RESIDUE CU B 200
5AC5SOFTWAREGLY B:7 , ASP B:8 , LYS B:10 , ASP B:149 , TYR B:150 , LYS B:151 , HOH B:1128 , HOH B:1130BINDING SITE FOR RESIDUE SO4 B 300
6AC6SOFTWAREVAL B:133 , ASP B:134 , GLY B:138 , HOH B:1126BINDING SITE FOR RESIDUE SO4 B 301

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3LZP)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Glu A:28 -Pro A:29
2Glu B:28 -Pro B:29

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3LZP)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3LZP)

(-) Exons   (0, 0)

(no "Exon" information available for 3LZP)

(-) 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:159
 aligned with A0A0H3PA01_C | A0A0H3PA01 from UniProtKB/TrEMBL  Length:179

    Alignment length:159
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170         
         A0A0H3PA01_C    21 AGEVPIGDPKELNGMEIAAVYLQPIEMEPRGIDLAASLADIHLEADIHALKNNPNGFPEGFWMPYLTIAYELKNTDTGAIKRGTLMPMVADDGPHYGANIAMEKDKKGGFGVGNYELTFYISNPEKQGFGRHVDEETGVGKWFEPFKVDYKFKYTGTPK 179
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee..eeeeeeee....ee......hhhhh.eeeeeeeee.................eeeeeeee.....eeeeeeeeeee..eeeeeeee............eeeeeeeeeehhhhhh.eee.............eeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lzp A   1 GGEVPIGDPKELNGMEIAAVYLQPIEMEPRGIDLAASLADIHLEADIHALKNNPNGFPEGFWMPYLTIAYELKNTDTGAIKRGTLMPMVADDGPHYGANIAMEKDKKGGFGVGNYELTFYISNPEKQGFGRHVDEETGVGKWFEPFKVDYKFKYTGTPK 159
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150         


Chain B from PDB  Type:PROTEIN  Length:158
 aligned with A0A0H3PA01_C | A0A0H3PA01 from UniProtKB/TrEMBL  Length:179

    Alignment length:158
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171        
         A0A0H3PA01_C    22 GEVPIGDPKELNGMEIAAVYLQPIEMEPRGIDLAASLADIHLEADIHALKNNPNGFPEGFWMPYLTIAYELKNTDTGAIKRGTLMPMVADDGPHYGANIAMEKDKKGGFGVGNYELTFYISNPEKQGFGRHVDEETGVGKWFEPFKVDYKFKYTGTPK 179
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeee..eeeeeeee....ee......hhhhh.eeeeeeeee.................eeeeeeee.....eeeeeeeeeee..eeeeeeee............eeeeeeeeeehhhhhh.eee.............eeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lzp B   2 GEVPIGDPKELNGMEIAAVYLQPIEMEPRGIDLAASLADIHLEADIHALKNNPNGFPEGFWMPYLTIAYELKNTDTGAIKRGTLMPMVADDGPHYGANIAMEKDKKGGFGVGNYELTFYISNPEKQGFGRHVDEETGVGKWFEPFKVDYKFKYTGTPK 159
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151
   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 3LZP)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3LZP)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3LZP)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3LZP)

 Visualization

(-) Interactive Views

Asymmetric/Biological 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
    CU  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SO4  [ 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 ]
 
  Cis Peptide Bonds
    Glu A:28 - Pro A:29   [ RasMol ]  
    Glu B:28 - Pro B:29   [ RasMol ]  
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format | Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  3lzp
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  A0A0H3PA01_C | A0A0H3PA01
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  A0A0H3PA01_C | A0A0H3PA01
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/TrEMBL
        A0A0H3PA01_C | A0A0H3PA01: 3lzl 3lzn 3lzo 3lzq 3lzr 4nwn 5i0v 5i0w

(-) Related Entries Specified in the PDB File

2o6c STRUCTURE OF SELENOMETHIONYL RTP34 FROM TREPONEMA PALLIDUM
2o6d STRUCTURE OF NATIVE RTP34 FROM TREPONEMA PALLIDUM
2o6e STRUCTURE OF NATIVE RTP34 FROM TREPONEMA PALLIDUM FROM ZINC -SOAKED CRYSTALS
2o6f STRUCTURE OF METAL- FREE RTP34 FROM TREPONEMA PALLIDUM
3lzl CRYSTAL STRUCTURE ANALYSIS OF THE AS-ISOLATED P19 PROTEIN FROM CAMPYLOBACTER JEJUNI AT 1.45 A AT PH 9.0
3lzn CRYSTAL STRUCTURE ANALYSIS OF THE APO P19 PROTEIN FROM CAMPYLOBACTER JEJUNI AT 1.59 A AT PH 9
3lzo CRYSTAL STRUCTURE ANALYSIS OF THE COPPER-RECONSTITUTED P19 PROTEIN FROM CAMPYLOBACTER JEJUNI AT 1.65 A AT PH 10.0
3lzq CRYSTAL STRUCTURE ANALYSIS OF MANGANESE TREATED P19 PROTEIN FROM CAMPYLOBACTER JEJUNI AT 1.41 A AT PH 9
3lzr CRYSTAL STRUCTURE ANALYSIS OF MANGANESE TREATED P19 PROTEIN FROM CAMPYLOBACTER JEJUNI AT 2.73 A AT PH 9 AND MANGANESE PEAK WAVELENGTH (1.893 A)