1DP7 Transcription Dna date Dec 23, 1999
title Cocrystal Structure Of Rfx-Dbd In Complex With Its Cognate X Binding Site
authors K.S.Gajiwala, H.Chen, F.Cornille, B.P.Roques, W.Reith, B.Mach, S.K
compound source
Molecule: Dna (5'-D(Cpgp(Bru)Ptpapcpcpap(Bru) Pgpgptpapapcpg)-3');
Chain: D
Fragment: X-Box
Engineered: Yes
Synthetic: Yes

Molecule: Mhc Class II Transcription Factor Hrfx1
Chain: P
Fragment: Dna Binding Domain
Synonym: Regulatory Factor X
Engineered: Yes
Mutation: Yes

Synthetic: Yes
Other_details: Sequence Taken From Human Mhc Class II Trans Factor
symmetry Space Group: C 1 2 1
R_factor 0.192 R_Free 0.228
crystal
cell
length a length b length c angle alpha angle beta angle gamma
72.843 42.752 52.277 90.00 109.21 90.00
method X-Ray Diffractionresolution 1.50 Å
ligand BRU, EDO, PEG enzyme
Gene
Ontology
ChainFunctionProcessComponent
P


Primary referenceStructure of the winged-helix protein hRFX1 reveals a new mode of DNA binding., Gajiwala KS, Chen H, Cornille F, Roques BP, Reith W, Mach B, Burley SK, Nature 2000 Feb 24;403(6772):916-21. PMID:10706293
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (27 Kb) [Save to disk]
  • Biological Unit Coordinates (1dp7.pdb1.gz) 44 Kb
  • LPC: Ligand-Protein Contacts for 1DP7
  • CSU: Contacts of Structural Units for 1DP7
  • Likely Quarternary Molecular Structure file(s) for 1DP7
  • Structure Factors (336 Kb)
  • Retrieve 1DP7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DP7 from S2C, [Save to disk]
  • Re-refined 1dp7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1DP7 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 1DP7
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 1DP7 1DP7D 1DP7P from the CEP Server.
  • 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 1DP7, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1dp7p_, region P [Jmol] [rasmolscript] [script source]
  • Fold representative 1dp7 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1dp7] [1dp7_D] [1dp7_P]
  • SWISS-PROT database: [P22670]
  • Domain organization of [RFX1_HUMAN] by SWISSPFAM
  • Other resources with information on 1DP7
  • Community annotation for 1DP7 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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