1RE4 Blood Clotting date Nov 06, 2003
title Crystal Structure Of Fragment D Of Bbetad398a Fibrinogen
authors M.S.Kostelansky, L.Betts, O.V.Gorkun, S.T.Lord
compound source
Molecule: Fibrinogen Alphaalpha-E Chain
Chain: A, D
Fragment: Fragment D Of Fibrinogen Alpha Chain
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Fga
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_cell_line: Cho
Expression_system_organ: Ovary
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmlp

Molecule: Fibrinogen Beta Chain
Chain: B, E
Fragment: Fragment D Of Bbetad398a Fibrinogen Beta Chain
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Fgb
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_cell_line: Cho
Expression_system_organ: Ovary
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmlp

Molecule: Fibrinogen Gamma Chain
Chain: C, F
Fragment: Fragment D Of Fibrinogen Gamma Chain
Synonym: Pro2061
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Fgg
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_cell_line: Cho
Expression_system_organ: Ovary
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmlp
symmetry Space Group: P 21 21 21
R_factor 0.220 R_Free 0.271
crystal
cell
length a length b length c angle alpha angle beta angle gamma
88.538 94.487 227.088 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand CA, NAG enzyme
related structures by homologous chain: 1FZF, 1M1J, 1RF1
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceBbetaGlu397 and BbetaAsp398 but not BbetaAsp432 are required for "B:b" interactions., Kostelansky MS, Bolliger-Stucki B, Betts L, Gorkun OV, Lord ST, Biochemistry 2004 Mar 9;43(9):2465-74. PMID:14992584
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (225 Kb) [Save to disk]
  • Biological Unit Coordinates (1re4.pdb1.gz) 113 Kb
  • Biological Unit Coordinates (1re4.pdb2.gz) 110 Kb
  • LPC: Ligand-Protein Contacts for 1RE4
  • CSU: Contacts of Structural Units for 1RE4
  • Likely Quarternary Molecular Structure file(s) for 1RE4
  • Structure Factors (578 Kb)
  • Retrieve 1RE4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1RE4 from S2C, [Save to disk]
  • Re-refined 1re4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1RE4 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1RE4
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1RE4, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1re4a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1re4b2, region B:165-199 [Jmol] [rasmolscript] [script source]
        - Domain d1re4b1, region B:200-458 [Jmol] [rasmolscript] [script source]
        - Domain d1re4c2, region C:106-141 [Jmol] [rasmolscript] [script source]
        - Domain d1re4c1, region C:142-393 [Jmol] [rasmolscript] [script source]
        - Domain d1re4d_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1re4e2, region E:166-199 [Jmol] [rasmolscript] [script source]
        - Domain d1re4e1, region E:200-458 [Jmol] [rasmolscript] [script source]
        - Domain d1re4f2, region F:106-141 [Jmol] [rasmolscript] [script source]
        - Domain d1re4f1, region F:142-393 [Jmol] [rasmolscript] [script source]
  • Fold representative 1re4 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1re4_D] [1re4_A] [1re4_B] [1re4] [1re4_C] [1re4_F] [1re4_E]
  • SWISS-PROT database: [P02671] [P02675] [P02679]
  • Domain organization of [FIBA_HUMAN] [FIBB_HUMAN] [FIBG_HUMAN] by SWISSPFAM
  • Domain found in 1RE4: [FBG ] by SMART
  • Other resources with information on 1RE4
  • Community annotation for 1RE4 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science