1H9D	Transcription Factor	date	Mar 07, 2001
title	Aml1cbf-Betadna Complex
authors	J.Bravo, A.J.Warren
compound		source
Molecule: Core-Binding Factor Alpha Subunit1 Chain: A, C Fragment: Runt Domain Residues 50-183 Synonym: Cbfa2pepbp2abrunx1, Aml-1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Aml1 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_variant: C41 Expression_system_vector_type: Plasmid Expression_system_plasmid: Prset
Molecule: Core-Binding Factor Cbf-Beta Chain: B, D Fragment: Heterodimerisation Domain Residues 2-135 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Cbfb Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_variant: C41 Expression_system_vector_type: Plasmid Expression_system_plasmid: Prset
Molecule: Dna (5'-(Gptptpgpcpgpgptptpg)-3') Chain: E, G Engineered: Yes		Synthetic: Yes
Molecule: Dna (5'-(Cpapapcpcpgpcpapapc)-3') Chain: F, H Engineered: Yes		Synthetic: Yes
symmetry	Space Group: P 43 21 2	R_factor 0.237 R_Free 0.271
crystal cell	length a length b length c angle alpha angle beta angle gamma 115.033 115.033 133.925 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.60 Å
note	1H9D is a representative structure
related structures	by homologous chain: 1E50, 1LJM
Gene Ontology	Chain Function Process Component A, C D, B
Primary reference	The leukemia-associated AML1 (Runx1)--CBF beta complex functions as a DNA-induced molecular clamp., Bravo J, Li Z, Speck NA, Warren AJ, Nat Struct Biol 2001 Apr;8(4):371-8. PMID:11276260

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (103 Kb) [Save to disk] Biological Unit Coordinates (1h9d.pdb1.gz) 49 Kb Biological Unit Coordinates (1h9d.pdb2.gz) 50 Kb CSU: Contacts of Structural Units for 1H9D Likely Quarternary Molecular Structure file(s) for 1H9D Structure Factors (197 Kb) Retrieve 1H9D in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1H9D from S2C, [Save to disk] Re-refined 1h9d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1H9D 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 1H9D

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 1H9D, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1h9da_, region A [Jmol] [rasmolscript] [script source]     - Domain d1h9db_, region B [Jmol] [rasmolscript] [script source]     - Domain d1h9dc_, region C [Jmol] [rasmolscript] [script source]     - Domain d1h9dd_, region D [Jmol] [rasmolscript] [script source] 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: [1h9d_H] [1h9d_A] [1h9d_F] [1h9d_D] [1h9d] [1h9d_B] [1h9d_E] [1h9d_G] [1h9d_C] SWISS-PROT database: [Q13951] [Q01196] Domain organization of [PEBB_HUMAN] [RUNX1_HUMAN] by SWISSPFAM

Other resources with information on 1H9D

Community annotation for 1H9D at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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