4A0B	Dna Binding Protein Dna	date	Sep 08, 2011
title	Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (Pyri D-1 Position) At 3.8 A Resolution (Cpd 4)
authors	A.Scrima, E.S.Fischer, S.Iwai, H.Gut, N.H.Thoma
compound		source
Molecule: Dna Damage-Binding Protein 1 Chain: A, C Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Trichoplusia Ni Expression_system_common: Cabbage Looper Expression_system_taxid: 7111 Expression_system_cell_line: High Five Expression_system_vector_type: Baculovirus Expression_system_plasmid: Pfastbac Derived
Molecule: Dna Damage-Binding Protein 2 Chain: B, D Fragment: Residues 60-423 Synonym: Damage-Specific Dna-Binding Protein 2 Engineered: Yes		Organism_scientific: Danio Rerio Organism_common: Zebrafish Organism_taxid: 7955 Expression_system: Trichoplusia Ni Expression_system_common: Cabbage Looper Expression_system_taxid: 7111 Expression_system_cell_line: High Five Expression_system_vector_type: Baculovirus Expression_system_plasmid: Pfastbac Derived
Molecule: 5'-D(Dgpgptpgpapapap(Ttd)Papgpcpapgp Chain: G, I Engineered: Yes Other_details: Damaged Strand. Contains Cyclobutane Pyrimid (Cpd);		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: 5'-D(Cpcptpgpcptpcpcptptptpcpapcpc Chain: H, J Engineered: Yes Other_details: Undamaged Strand		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
symmetry	Space Group: P 2 21 21	R_factor 0.243 R_Free 0.319
crystal cell	length a length b length c angle alpha angle beta angle gamma 113.100 145.900 224.440 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.80 Å
ligand	TTD	enzyme
Gene Ontology	Chain Function Process Component A, C D, B
Primary reference	The Molecular Basis of CRL4(DDB2/CSA) Ubiquitin Ligase Architecture, Targeting, and Activation., Fischer ES, Scrima A, Bohm K, Matsumoto S, Lingaraju GM, Faty M, Yasuda T, Cavadini S, Wakasugi M, Hanaoka F, Iwai S, Gut H, Sugasawa K, Thoma NH, Cell. 2011 Nov 23;147(5):1024-39. PMID:22118460

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1022 Kb) [Save to disk] Biological Unit Coordinates (4a0b.pdb1.gz) 510 Kb Biological Unit Coordinates (4a0b.pdb2.gz) 512 Kb LPC: Ligand-Protein Contacts for 4A0B CSU: Contacts of Structural Units for 4A0B Structure Factors (529 Kb) Retrieve 4A0B in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 4A0B from S2C, [Save to disk] Re-refined 4a0b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4A0B in 3D

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Visual 3D analysis of 4A0B

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 4A0B, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4a0b_H] [4a0b] [4a0b_A] [4a0b_I] [4a0b_C] [4a0b_J] [4a0b_B] [4a0b_D] [4a0b_G] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 4A0B: [WD40 ] by SMART

Other resources with information on 4A0B

Community annotation for 4A0B at PDBWiki (http://pdbwiki.org)

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