3IB1 Metal Binding Protein date Jul 15, 2009
title Structural Basis Of The Prevention Of Nsaid-Induced Damage O Gastrointestinal Tract By C-Terminal Half (C-Lobe) Of Bovin Colostrum Protein Lactoferrin: Binding And Structural Studi Lobe Complex With Indomethacin
authors R.Mir, N.Singh, M.Sinha, S.Sharma, P.Kaur, A.Srinivasan, T.P.Singh
compound source
Molecule: Lactotransferrin
Chain: A
Fragment: Unp Residues 361-705
Synonym: Lactoferrin, Lactoferricin-B, Lfcin-B
Ec: 3.4.21.-
 Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913
symmetry Space Group: P 1 21 1
R_factor 0.209 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
63.839 50.654 66.119 90.00 107.56 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand BMA, CO3, FE, IMN, MAN, NAG, SO4, ZN enzyme Hydrolase E.C.3.4.21 BRENDA
note 3IB1 supersedes 2ALT, 3HWZ
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe structural basis for the prevention of nonsteroidal antiinflammatory drug-induced gastrointestinal tract damage by the C-lobe of bovine colostrum lactoferrin., Mir R, Singh N, Vikram G, Kumar RP, Sinha M, Bhushan A, Kaur P, Srinivasan A, Sharma S, Singh TP, Biophys J. 2009 Dec 16;97(12):3178-86. PMID:20006955
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk]
  • Biological Unit Coordinates (3ib1.pdb1.gz) 61 Kb
  • LPC: Ligand-Protein Contacts for 3IB1
  • CSU: Contacts of Structural Units for 3IB1
  • Structure Factors (140 Kb)
  • Retrieve 3IB1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3IB1 from S2C, [Save to disk]
  • Re-refined 3ib1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3IB1 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 3IB1
  • 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
  • 3D motif for 3IB1, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1e3ib1, region B:4-167,B:342-376 [Jmol] [rasmolscript] [script source]
        - Domain d1h3ib1, region B:52-193 [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ib1_A] [3ib1]
  • SWISS-PROT database: [P24627]
  • Domain organization of [TRFL_BOVIN] by SWISSPFAM
  • Domain found in 3IB1: [TR_FER ] by SMART
    • Other resources with information on 3IB1
  • Community annotation for 3IB1 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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