3GV5	Transferase Dna	date	Mar 30, 2009
title	Human Dna Polymerase Iota In Complex With T Template Dna And Ddadp
authors	K.N.Kirouac, H.Ling
compound		source
Molecule: Dna Polymerase Iota Chain: B, D Synonym: Rad30 Homolog B, Eta2 Ec: 2.7.7.7 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Poli, Rad30b Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgst-Parrallel1
Molecule: 5'-D(Gptpgpgpaptpgpapg)-3' Chain: P, E Engineered: Yes		Synthetic: Yes
Molecule: 5'-D(Pcpaptptpcptpcpaptpcpcpapc)-3' Chain: T, F Engineered: Yes		Synthetic: Yes
symmetry	Space Group: C 1 2 1	R_factor 0.205 R_Free 0.253
crystal cell	length a length b length c angle alpha angle beta angle gamma 140.160 71.750 127.420 90.00 112.53 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	ADI, CA, GOL, MSE	enzyme	Transferase E.C.2.7.7.7 BRENDA
Primary reference	Structural basis of error-prone replication and stalling at a thymine base by human DNA polymerase iota., Kirouac KN, Ling H, EMBO J. 2009 May 14. PMID:19440206

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (169 Kb) [Save to disk] Biological Unit Coordinates (3gv5.pdb1.gz) 80 Kb Biological Unit Coordinates (3gv5.pdb2.gz) 81 Kb LPC: Ligand-Protein Contacts for 3GV5 CSU: Contacts of Structural Units for 3GV5 Likely Quarternary Molecular Structure file(s) for 3GV5 Structure Factors (602 Kb) Retrieve 3GV5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3GV5 from S2C, [Save to disk] Re-refined 3gv5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3GV5 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 3GV5

Cartoon representation from PDB Cartoon Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 3GV5, from MSDmotif at EBI Fold representative 3gv5 from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3gv5_B] [3gv5_D] [3gv5_E] [3gv5_F] [3gv5_P] [3gv5_T] SWISS-PROT database: [Q9UNA4] Domain organization of [POLI_HUMAN] by SWISSPFAM Alignments of the sequence of 3GV5 with the sequences similar proteins can be viewed for 3GV5's classification [POLI_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [POLI_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 3GV5

Community annotation for 3GV5 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

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