5KG6	Replication, Transferase Dna	date	Jun 12, 2016
title	Human Dna Polymerase Eta-Dna Ternary Complex: Reaction First Mn2+ For 1800s Then With 10 Mm Ca2+ For 60s
authors	Y.Gao, W.Yang
compound		source
Molecule: Dna Polymerase Eta Chain: A Synonym: Rad30 Homolog A,Xeroderma Pigmentosum Variant Type Ec: 2.7.7.7 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Polh, Rad30, Rad30a, Xpv Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28
Molecule: Dna (5'-D(Cpaptptpaptpgpapcpgpcpt)-3' Chain: T Engineered: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_taxid: 9606
Molecule: Dna (5'-D(Apgpcpgptpcpaptpa)-3') Chain: P Engineered: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_taxid: 9606
symmetry	Space Group: P 61	R_factor 0.192 R_Free 0.229
crystal cell	length a length b length c angle alpha angle beta angle gamma 98.110 98.110 81.960 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	1.55 Å
ligand	DPO, DTP, GOL, MN	enzyme	Transferase E.C.2.7.7.7 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Capture of a third Mg(2)(+) is essential for catalyzing DNA synthesis., Gao Y, Yang W, Science. 2016 Jun 10;352(6291):1334-7. doi: 10.1126/science.aad9633. PMID:27284197

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (95 Kb) [Save to disk] Biological Unit Coordinates (5kg6.pdb1.gz) 90 Kb LPC: Ligand-Protein Contacts for 5KG6 CSU: Contacts of Structural Units for 5KG6 Structure Factors (1043 Kb) Retrieve 5KG6 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5KG6 from S2C, [Save to disk] Re-refined 5kg6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5KG6 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 5KG6

Cartoon representation from PDB Cartoon 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 Crystal Contacts, from CryCo at Weizmann Institute Fold representative 5kg6 from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5kg6_P] [5kg6] [5kg6_A] [5kg6_T] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 5KG6

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