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

(-) Description

Title :  THE USE OF PHASE COMBINATION IN THE REFINEMENT OF PHOSPHOGLYCERATE KINASE AT 2.5 ANGSTROMS RESOLUTION
 
Authors :  R. D. Banks, C. C. F. Blake, P. R. Evans, R. M. Maser
Date :  28 Aug 76  (Deposition) - 01 Sep 76  (Release) - 25 Aug 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Phosphotransferase (Carboxyl Acceptor) (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  D. W. Rice
The Use Of Phase Combination In The Refinement Of Phosphoglycerate Kinase At 2. 5 Angstroms Resolution
Acta Crystallogr. , Sect. A V. 37 491 1981
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PHOSPHOGLYCERATE KINASE
    ChainsA
    EC Number2.7.2.3
    EngineeredYES
    Organism CommonHORSE
    Organism ScientificEQUUS CABALLUS
    Organism Taxid9796
    TissueMUSCLE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 408)

Asymmetric/Biological Unit (1, 408)
No.NameCountTypeFull Name
1UNK408Mod. Amino Acid

(-) Sites  (0, 0)

(no "Site" information available for 2PGK)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2PGK)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2PGK)

(-) 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:408
                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d2pgka_ A: Phosphoglycerate kinase                                                                                                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...............eeeeee.............hhhhhhhhhhhhhhhhh...eeeeeee..............hhhhhhhhhhhhh...eeee....hhhhhhhhhhh..eeeeeee......................hhhhhhhhhhhhhh..eeeeeee..................eeeeeehhhhhhhhhhhhhhh..eeeeeeeee...hhhhhhhhhhhhheeeeeeehhhhhhhhhhh.........hhhhhhhhhhhhhhhheeeeee..................................hhhhhhhhhhhhhheeeeeee.........hhhhhhhhhhhhhhhhhhheeeeeee...........eeeeehhhhhhhhhhh..hhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2pgk A   0 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx 407
                            |||||||||9||||||||19||||||||29||||||||39||||||||49||||||||59||||||||69||||||||79||||||||89||||||||99|||||||109|||||||119|||||||129|||||||139|||||||149|||||||159|||||||169|||||||179|||||||189|||||||199|||||||209|||||||219|||||||229|||||||239|||||||249|||||||259|||||||269|||||||279|||||||289|||||||299|||||||309|||||||319|||||||329|||||||339|||||||349|||||||359|||||||369|||||||379|||||||389|||||||399||||||||
                            ||||||||8-UNK|||17-UNK|||26-UNK|||35-UNK|||44-UNK|||53-UNK|||62-UNK|||71-UNK|||80-UNK|||89-UNK|||98-UNK||107-UNK||116-UNK||125-UNK||134-UNK||143-UNK||152-UNK||161-UNK||170-UNK||179-UNK||188-UNK||197-UNK||206-UNK||215-UNK||224-UNK||233-UNK||242-UNK||251-UNK||260-UNK||269-UNK||278-UNK||287-UNK||296-UNK||305-UNK||314-UNK||323-UNK||332-UNK||341-UNK||350-UNK||359-UNK||368-UNK||377-UNK||386-UNK||395-UNK||404-UNK
                            0-UNK||| 9-UNK|||18-UNK|||27-UNK|||36-UNK|||45-UNK|||54-UNK|||63-UNK|||72-UNK|||81-UNK|||90-UNK|||99-UNK||108-UNK||117-UNK||126-UNK||135-UNK||144-UNK||153-UNK||162-UNK||171-UNK||180-UNK||189-UNK||198-UNK||207-UNK||216-UNK||225-UNK||234-UNK||243-UNK||252-UNK||261-UNK||270-UNK||279-UNK||288-UNK||297-UNK||306-UNK||315-UNK||324-UNK||333-UNK||342-UNK||351-UNK||360-UNK||369-UNK||378-UNK||387-UNK||396-UNK||405-UNK
                             1-UNK|| 10-UNK|| 19-UNK|| 28-UNK|| 37-UNK|| 46-UNK|| 55-UNK|| 64-UNK|| 73-UNK|| 82-UNK|| 91-UNK||100-UNK||109-UNK||118-UNK||127-UNK||136-UNK||145-UNK||154-UNK||163-UNK||172-UNK||181-UNK||190-UNK||199-UNK||208-UNK||217-UNK||226-UNK||235-UNK||244-UNK||253-UNK||262-UNK||271-UNK||280-UNK||289-UNK||298-UNK||307-UNK||316-UNK||325-UNK||334-UNK||343-UNK||352-UNK||361-UNK||370-UNK||379-UNK||388-UNK||397-UNK||406-UNK
                              2-UNK|  11-UNK|  20-UNK|  29-UNK|  38-UNK|  47-UNK|  56-UNK|  65-UNK|  74-UNK|  83-UNK|  92-UNK| 101-UNK| 110-UNK| 119-UNK| 128-UNK| 137-UNK| 146-UNK| 155-UNK| 164-UNK| 173-UNK| 182-UNK| 191-UNK| 200-UNK| 209-UNK| 218-UNK| 227-UNK| 236-UNK| 245-UNK| 254-UNK| 263-UNK| 272-UNK| 281-UNK| 290-UNK| 299-UNK| 308-UNK| 317-UNK| 326-UNK| 335-UNK| 344-UNK| 353-UNK| 362-UNK| 371-UNK| 380-UNK| 389-UNK| 398-UNK| 407-UNK
                               3-UNK   12-UNK   21-UNK   30-UNK   39-UNK   48-UNK   57-UNK   66-UNK   75-UNK   84-UNK   93-UNK  102-UNK  111-UNK  120-UNK  129-UNK  138-UNK  147-UNK  156-UNK  165-UNK  174-UNK  183-UNK  192-UNK  201-UNK  210-UNK  219-UNK  228-UNK  237-UNK  246-UNK  255-UNK  264-UNK  273-UNK  282-UNK  291-UNK  300-UNK  309-UNK  318-UNK  327-UNK  336-UNK  345-UNK  354-UNK  363-UNK  372-UNK  381-UNK  390-UNK  399-UNK    
                                4-UNK   13-UNK   22-UNK   31-UNK   40-UNK   49-UNK   58-UNK   67-UNK   76-UNK   85-UNK   94-UNK  103-UNK  112-UNK  121-UNK  130-UNK  139-UNK  148-UNK  157-UNK  166-UNK  175-UNK  184-UNK  193-UNK  202-UNK  211-UNK  220-UNK  229-UNK  238-UNK  247-UNK  256-UNK  265-UNK  274-UNK  283-UNK  292-UNK  301-UNK  310-UNK  319-UNK  328-UNK  337-UNK  346-UNK  355-UNK  364-UNK  373-UNK  382-UNK  391-UNK  400-UNK   
                                 5-UNK   14-UNK   23-UNK   32-UNK   41-UNK   50-UNK   59-UNK   68-UNK   77-UNK   86-UNK   95-UNK  104-UNK  113-UNK  122-UNK  131-UNK  140-UNK  149-UNK  158-UNK  167-UNK  176-UNK  185-UNK  194-UNK  203-UNK  212-UNK  221-UNK  230-UNK  239-UNK  248-UNK  257-UNK  266-UNK  275-UNK  284-UNK  293-UNK  302-UNK  311-UNK  320-UNK  329-UNK  338-UNK  347-UNK  356-UNK  365-UNK  374-UNK  383-UNK  392-UNK  401-UNK  
                                  6-UNK   15-UNK   24-UNK   33-UNK   42-UNK   51-UNK   60-UNK   69-UNK   78-UNK   87-UNK   96-UNK  105-UNK  114-UNK  123-UNK  132-UNK  141-UNK  150-UNK  159-UNK  168-UNK  177-UNK  186-UNK  195-UNK  204-UNK  213-UNK  222-UNK  231-UNK  240-UNK  249-UNK  258-UNK  267-UNK  276-UNK  285-UNK  294-UNK  303-UNK  312-UNK  321-UNK  330-UNK  339-UNK  348-UNK  357-UNK  366-UNK  375-UNK  384-UNK  393-UNK  402-UNK 
                                   7-UNK   16-UNK   25-UNK   34-UNK   43-UNK   52-UNK   61-UNK   70-UNK   79-UNK   88-UNK   97-UNK  106-UNK  115-UNK  124-UNK  133-UNK  142-UNK  151-UNK  160-UNK  169-UNK  178-UNK  187-UNK  196-UNK  205-UNK  214-UNK  223-UNK  232-UNK  241-UNK  250-UNK  259-UNK  268-UNK  277-UNK  286-UNK  295-UNK  304-UNK  313-UNK  322-UNK  331-UNK  340-UNK  349-UNK  358-UNK  367-UNK  376-UNK  385-UNK  394-UNK  403-UNK

   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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2PGK)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)

 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
    UNK  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
(no "Sites" information available for 2pgk)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2pgk)
 

(-) 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
  2pgk
    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
  PGK1_HORSE | P00559
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  2.7.2.3
    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
  PGK1_HORSE | P00559
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 2PGK)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 2PGK)