4A0L	Ligase Dna-Binding Protein Dna	date	Sep 09, 2011
title	Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic Si Containing Dna-Duplex
authors	E.S.Fischer, A.Scrima, H.Gut, N.H.Thoma
compound		source
Molecule: Dna Damage-Binding Protein 1 Chain: A, C Synonym: Ddb P127 Subunit, Dna Damage-Binding Protein A, Dd Damage-Specific Dna-Binding Protein 1, Hbv X-Associated Pro Xap-1, Uv-Damaged Dna-Binding Factor, Uv-Damaged Dna-Bindin 1, Uv-Ddb 1, Xpe-Binding Factor, Xpe-Bf, Xeroderma Pigmento E-Complementing Protein, Xpce; Engineered: 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 Other_details: Variant With Gln At Position 180 And Arg At 214 Similar To Pdb Entry 3ei2;		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: Cullin-4b Chain: E, H Fragment: Residues 193-913 Synonym: Cullin Homolog 4b, Cul-4b Engineered: 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: E3 Ubiquitin-Protein Ligase Rbx1 Chain: F, I Fragment: Residues 12-108 Synonym: Ring Finger Protein 75, Ring-Box Protein 1, Rbx1 Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 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: 12 Bp Thf Containing Dna Duplex Chain: R, T Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: 12 Bp Dna Duplex Chain: S, U Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
symmetry	Space Group: P 1 21 1	R_factor 0.318 R_Free 0.320
crystal cell	length a length b length c angle alpha angle beta angle gamma 130.800 155.840 255.390 90.00 94.17 90.00
method	X-Ray Diffraction	resolution	7.40 Å
ligand	3DR	enzyme
Gene Ontology	Chain Function Process Component A, C D, B F, I H, E
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] (1544 Kb) [Save to disk] Biological Unit Coordinates (4a0l.pdb1.gz) 773 Kb Biological Unit Coordinates (4a0l.pdb2.gz) 773 Kb LPC: Ligand-Protein Contacts for 4A0L CSU: Contacts of Structural Units for 4A0L Structure Factors (111 Kb) Retrieve 4A0L in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 4A0L from S2C, [Save to disk] Re-refined 4a0l structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4A0L in 3D

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Visual 3D analysis of 4A0L

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 4A0L, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4a0l_F] [4a0l_A] [4a0l_E] [4a0l_U] [4a0l_T] [4a0l_S] [4a0l] [4a0l_H] [4a0l_C] [4a0l_B] [4a0l_I] [4a0l_D] [4a0l_R] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 4A0L: [CULLIN] [Cullin_Nedd8] [RING] [WD40 ] by SMART

Other resources with information on 4A0L

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