3M9M	Transferase Dna	date	Mar 22, 2010
title	Crystal Structure Of Dpo4 In Complex With Dna Containing The Cisplatin Lesion
authors	J.H.Y.Wong, H.Ling
compound		source
Molecule: Dna Polymerase Iv Chain: B Synonym: Pol Iv Ec: 2.7.7.7 Engineered: Yes		Organism_scientific: Sulfolobus Solfataricus Organism_taxid: 2287 Strain: P2 Gene: Dbh, Dpo4, Sso2448 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet22b
Molecule: Dna (5'-D(Gpgpgpgpgpapapgpgpapapapg) Chain: P Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: Dna (5'- D(Tpcptpgpgpcptptptpcpcptptpcpcpcpcpc)-3' Chain: T Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
symmetry	Space Group: P 21 21 2	R_factor 0.285 R_Free 0.309
crystal cell	length a length b length c angle alpha angle beta angle gamma 98.576 101.193 52.418 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.90 Å
ligand	CA, CPT, CTP, GOL	enzyme	Transferase E.C.2.7.7.7 BRENDA
Gene Ontology	Chain Function Process Component B
Primary reference	Structural insight into dynamic bypass of the major cisplatin-DNA adduct by Y-family polymerase Dpo4., Wong JH, Brown JA, Suo Z, Blum P, Nohmi T, Ling H, EMBO J. 2010 May 28. PMID:20512114

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (74 Kb) [Save to disk] Biological Unit Coordinates (3m9m.pdb1.gz) 68 Kb LPC: Ligand-Protein Contacts for 3M9M CSU: Contacts of Structural Units for 3M9M Structure Factors (170 Kb) Retrieve 3M9M in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3M9M from S2C, [Save to disk] Re-refined 3m9m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3M9M 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 3M9M

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 3M9M, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3m9m_P] [3m9m] [3m9m_B] [3m9m_T] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 3M9M

Community annotation for 3M9M at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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