4Q44	Transferase Dna	date	Apr 13, 2014
title	Polymerase-Damaged Dna Complex
authors	D.T.Nair, J.Kottur, A.Sharma
compound		source
Molecule: Dna Polymerase Iv Chain: A, F Fragment: Unp Residues 2-341 Synonym: Pol Iv Ec: 2.7.7.7 Engineered: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 83333 Strain: K12 Gene: B0231 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: C41de3 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex6p1
Molecule: Dna (5'-D(Tpcptpap(Rdg) Pgpgptpcpcptpapgpgpapcpcpc)-3'); Chain: B, C, G, H Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630 Other_details: Chemically Synthesized Dna Oligonucleotide
symmetry	Space Group: P 1 21 1	R_factor 0.225 R_Free 0.270
crystal cell	length a length b length c angle alpha angle beta angle gamma 86.655 56.934 110.396 90.00 94.66 90.00
method	X-Ray Diffraction	resolution	2.71 Å
ligand	1FZ, MG, RDG	enzyme	Transferase E.C.2.7.7.7 BRENDA
Gene Ontology	Chain Function Process Component F, A
Primary reference	Unique structural features in DNA polymerase IV enable efficient bypass of the N2 adduct induced by the nitrofurazone antibiotic., Kottur J, Sharma A, Gore KR, Narayanan N, Samanta B, Pradeepkumar PI, Nair DT, Structure. 2015 Jan 6;23(1):56-67. doi: 10.1016/j.str.2014.10.019. Epub 2014 Dec , 11. PMID:25497730

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (148 Kb) [Save to disk] Biological Unit Coordinates (4q44.pdb1.gz) 72 Kb Biological Unit Coordinates (4q44.pdb2.gz) 72 Kb LPC: Ligand-Protein Contacts for 4Q44 CSU: Contacts of Structural Units for 4Q44 Structure Factors (318 Kb) Retrieve 4Q44 in mmCIF format [Save to disk] Re-refined 4q44 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4Q44 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 4Q44

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 3D motif for 4Q44, from MSDmotif at EBI Fold representative 4q44 from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4q44] [4q44_B] [4q44_A] [4q44_C] [4q44_G] [4q44_F] [4q44_H] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 4Q44

Community annotation for 4Q44 at PDBWiki (http://pdbwiki.org)

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