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

(-) Description

Title :  1.75A RESOLUTION STRUCTURE OF SERPIN-2 FROM ANOPHELES GAMBIAE
 
Authors :  S. Lovell, K. P. Battaile, C. An, K. Michel
Date :  14 Dec 10  (Deposition) - 16 Feb 11  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym./Biol. Unit :  A
Keywords :  Serpin, Protease Inhibitor, Melanization, Hydrolase Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. An, S. Lovell, M. R. Kanost, K. P. Battaile, K. Michel
Crystal Structure Of Native Anopheles Gambiae Serpin-2, A Negative Regulator Of Melanization In Mosquitoes.
Proteins V. 79 1999 2011
PubMed-ID: 21465556  |  Reference-DOI: 10.1002/PROT.23002

(-) Compounds

Molecule 1 - SERPIN 2
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL-21 DE3 PRARE
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: SRPN2
    Organism Common: AFRICAN MALARIA MOSQUITO
    Organism Scientific: ANOPHELES GAMBIAE
    Organism Taxid: 7165

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 3PZF)

(-) Sites  (0, 0)

(no "Site" information available for 3PZF)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3PZF)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3PZF)

(-) 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:369
 aligned with Q005N3_ANOGA | Q005N3 from UniProtKB/TrEMBL  Length:409

    Alignment length:383
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406   
         Q005N3_ANOGA    27 GPFQGQRQNEFDLMFVKEIFKNHNSNVVLSPFSVKILLTLIYEASDTSFGNAVSNTKRELSSVIQNDNIDHTRSYYKQLLESAQQDNKDYDLNIATNFFVDDFIEVINKYQQIANTHYHAMLEKVSYSNPTQTAATINNWVSEHTNGRLREIVTPDSLEGAVITLVNVIYFKGLWTYPFPEVANNVKPFYGTRGKPTNAQYMEQNGQFYYDNSADLGAQILRLPYRGNKLAMYFILPNPDNTVNQVLDRINSASLHQALWYMEENEVNVTLPKFKFDFSEQLNEPLQQVGIREIFSQNASLPLLARGRGARDEVRVSRIFQKAGITINELGSEAYAATEIQLVNKFGGDGVQIFNANRPFIFFIEDETLGTMLFAGKIENPVF 409
               SCOP domains d3pzfa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -----Serpin-3pzfA01 A:32-407                                                                                                                                                                                                                                                                                                                                                                 -- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhh....eeehhhhhhhhhhhhhhhhhhhh.-..hhhhhhhhhhh...hhhhhhhhhhhhhhhhhh.....eeeeeeeeeee.....hhhhhhhhhhhhheeeeee...hhhhhhhhhhhhhhhhh........hhhhhh...eeeeeeeeeeee...........eeee.......eeeeeeeeeeeeeeeee....eeeeeee.....eeeeeeee....hhhhhhhhhhhhhhhhhhhh.eeeeeeeeee.eeeeeeeehhhhhhhh..hhhhh...........-----.....eeeeeeeeee...ee........--------...eeee....eeeeeee.....eeeeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pzf A  27 GPFQGQRQNEFDLMFVKEIFKNHNSNVVLSPFSVKILLTLIYEASDTSFG-AVSNTKRELSSVIQNDNIDHTRSYYKQLLESAQQDNKDYDLNIATNFFVDDFIEVINKYQQIANTHYHAMLEKVSYSNPTQTAATINNWVSEHTNGRLREIVTPDSLEGAVITLVNVIYFKGLWTYPFPEVANNVKPFYGTRGKPTNAQYMEQNGQFYYDNSADLGAQILRLPYRGNKLAMYFILPNPDNTVNQVLDRINSASLHQALWYMEENEVNVTLPKFKFDFSEQLNEPLQQVGIREIFSQNASLPLLARG-----EVRVSRIFQKAGITINELGSEAYAATEI--------DGVQIFNANRPFIFFIEDETLGTMLFAGKIENPVF 409
                                    36        46        56        66        76 |      86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326      |  -  |    346       356       366       376       386       396       406   
                                                                            76 |                                                                                                                                                                                                                                                            333   339                        366      375                                  
                                                                              78
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Serpin] (63)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q005N3_ANOGA | Q005N3)
cellular component
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.

 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
(no "Ligands, Modified Residues, Ions" information available for 3pzf)
 
  Sites
(no "Sites" information available for 3pzf)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3pzf)
 

(-) 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 ](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
  3pzf
    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
  Q005N3_ANOGA | Q005N3
    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
  Q005N3_ANOGA | Q005N3
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/TrEMBL
        Q005N3_ANOGA | Q005N3: 4ro9 4roa 4rob 4rsq

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3PZF)