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 :  HUMAN MUSCLE FRUCTOSE-1,6-BISPHOSPHATASE E69Q MUTANT IN ACTIVE R-STATE IN COMPLEX WITH FRUCTOSE-6-PHOSPHATE
 
Authors :  J. Barciszewski, J. Wisniewski, R. Kolodziejczyk, A. Dzugaj, M. Jasko D. Rakus
Date :  23 May 16  (Deposition) - 07 Jun 17  (Release) - 07 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.98
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Hydrolase, Carbohydrate Metabolism, Glyconeogenesis, Muscle Izozyme, Fbpase, R-State, Leucine Lock, F6P, E69Q Mutant (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Barciszewski, K. Szpotkowski, J. Wisniewski, R. Kolodziejczyk, M. Jaskolski, D. Rakus, A. Dzugaj
Structural Studies Of Human Muscle Fbpase
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FRUCTOSE-1,6-BISPHOSPHATASE ISOZYME 2
    Chains: A
    EC Number: 3.1.3.11
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PKK223-3
    Expression System Strain: C100
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: FBP2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: E69Q ENGINEERED MUTATION V85L IS A NATURAL VARIANT OF FBP2 GAPS IN THE SEQUENCE INDICATE RESIDUES THAT WERE NOT MODELED BECAUSE OF POOR ELECTRON DENSITY
    Synonym: FBPASE 2,D-FRUCTOSE-1,6-BISPHOSPHATE 1-PHOSPHOHYDROLASE 2, MUSCLE FBPASE
    Tissue: SKELETAL MUSCLE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (4x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1F6P1Ligand/IonFRUCTOSE-6-PHOSPHATE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1F6P4Ligand/IonFRUCTOSE-6-PHOSPHATE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:121 , ASN A:212 , TYR A:215 , ARG A:243 , TYR A:244 , GLY A:246 , SER A:247 , MET A:248 , TYR A:264 , LYS A:274 , GLU A:280 , HOH A:502 , HOH A:507 , HOH A:553binding site for residue F6P A 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5K55)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5K55)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5K55)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5K55)

(-) Exons   (0, 0)

(no "Exon" information available for 5K55)

(-) 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:290
                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...eeeeee......ee.hhh.eeeeeeeeeeee......eeeeeeeee..hhhhhh.hhhhh.eeeeeee...eeeeee.....eeeeee....eeeeee..........eee.hhhhhhhhhhhhhhhhhhhhh........ee....hhhhhhhhhhhhh.eeee...............hhhhhhhhhhhh..eee....hhhhh..........eeeehhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5k55 A   9 DMLTLTRYVMGELTQLLNSMLTAIKAISSAVRKAVKKLDVLSNSLVINMLQSSYSTCVLVSEENKDAIITAKEKRGKYVVCFDPLDGDCLASIGTIFAIYRKTSEKDALQCGRNIVAAGYALYGSATLVALSTGQGVDLFMLDPALGEFVLVEKDVKIKKKGKIYSLNEGYAKYFDAATTEYVQKKKFPEDGSAPYGARYVGSMVADVHRTLVYGGIFLYPANQKSPKGKLRLLYECNPVAYIIEQAGGLATTGTQPVLDVKPEAIHQRVPLILGSPEDVQEYLTCVQKN 334
                                    18|       37        47   ||   75        85        95       105       115      |129       139  ||   154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334
                                    18|                     51|                                                 122|            142|                                                                                                                                                                                          
                                     28                      70                                                  127             148
   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 5K55)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5K55)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5K55)

(-) Gene Ontology  (17, 17)

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
    F6P  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 5k55)
 
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
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - 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
  5k55
    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
  F16P2_HUMAN | O00757
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  3.1.3.11
    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
  F16P2_HUMAN | O00757
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        F16P2_HUMAN | O00757: 3ifa 3ifc 4he0 4he1 4he2 5et5 5et6 5et7 5et8 5k54 5k56

(-) Related Entries Specified in the PDB File

3ifa HUMAN MUSCLE FRUCTOSE-1,6-BISPHOSPHATASE E69Q MUTANT IN COMPLEX WITH AMP
3ifc HUMAN MUSCLE FRUCTOSE-1,6-BISPHOSPHATASE E69Q MUTANT IN COMPLEX WITH AMP AND ALPHA FRUCTOSE-6-PHOSPHATE
4he0 CRYSTAL STRUCTURE OF HUMAN MUSCLE FRUCTOSE-1,6-BISPHOSPHATASE
4he1 CRYSTAL STRUCTURE OF HUMAN MUSCLE FRUCTOSE-1,6-BISPHOSPHATASE Q32R MUTANT COMPLEX WITH FRUCTOSE-6-PHOSPHATE AND PHOSPHATE
4he2 CRYSTAL STRUCTURE OF HUMAN MUSCLE FRUCTOSE-1,6-BISPHOSPHATASE Q32R MUTANT COMPLEX WITH AMP
5et5 HUMAN MUSCLE FRUCTOSE-1,6-BISPHOSPHATASE IN ACTIVE R-STATE
5et6 HUMAN MUSCLE FRUCTOSE-1,6-BISPHOSPHATASE IN INACTIVE T-STATE IN COMPLEX WITH AMP
5et7 HUMAN MUSCLE FRUCTOSE-1,6-BISPHOSPHATASE IN INACTIVE T-STATE
5et8 HUMAN MUSCLE FRUCTOSE-1,6-BISPHOSPHATASE IN ACTIVE R-STATE IN COMPLEX WITH FRUCTOSE-6-PHOSPHATE