5W2C	Replication	date	Jun 06, 2017
title	Structure Of Human Dna Polymerase Kappa In Complex With Luci Derived Dna Adduct And Incoming Dampnpp
authors	V.K.Jha, H.Ling
compound		source
Molecule: Dna Polymerase Kappa Chain: A, B Fragment: Unp Residues 1-526 Synonym: Dinb Protein,Dinp Ec: 2.7.7.7 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Polk, Dinb1 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Dna (5'-D(Pcpgpgpaptpcpgpapc)-3') Chain: C, P Engineered: Yes		Synthetic: Yes Organism_scientific: Unidentified Organism_taxid: 32644
Molecule: Dna (5'-D(Cptpaptp(Ldg)Ptpcpgpaptpcpc Chain: D, T Engineered: Yes		Synthetic: Yes Organism_scientific: Unidentified Organism_taxid: 32644
symmetry	Space Group: P 21 21 21	R_factor 0.211 R_Free 0.253
crystal cell	length a length b length c angle alpha angle beta angle gamma 63.709 128.923 167.705 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	DZ4, EDO, GOL, LDG, MG, PEG	enzyme	Transferase E.C.2.7.7.7 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Mechanism of Error-Free DNA Replication Past Lucidin-Derived DNA Damage by Human DNA Polymerase kappa., Yockey O, Jha V, Ghodke PP, Xu T, Xu W, Ling H, Pradeepkumar PI, Zhao L, Chem Res Toxicol. 2017 Oct 3. doi: 10.1021/acs.chemrestox.7b00227. PMID:28972744

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (171 Kb) [Save to disk] Biological Unit Coordinates (5w2c.pdb1.gz) 84 Kb Biological Unit Coordinates (5w2c.pdb2.gz) 82 Kb LPC: Ligand-Protein Contacts for 5W2C CSU: Contacts of Structural Units for 5W2C Structure Factors (2028 Kb) Retrieve 5W2C in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5W2C from S2C, [Save to disk]

View 5W2C 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 5W2C

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

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5w2c_C] [5w2c_T] [5w2c_P] [5w2c_D] [5w2c_A] [5w2c_B] SWISS-PROT database: Domain organization of by SWISSPFAM

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