3KTQ Transferase Dna date Jul 28, 1998
title Crystal Structure Of An Active Ternary Complex Of The Large Fragment Of Dna Polymerase I From Thermus Aquaticus
authors Y.Li, G.Waksman
compound source
Molecule: Dna (5'-D(Gpapcpcpapcpgpgpcpgpcpdoc)- 3');
Chain: B
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'- D(Apgpgpgpcpgpcpcpgptpgpgptpc)-3');
Chain: C
Engineered: Yes
Other_details: Complexed With 2',3'-Dideoxycytidine 5'- Triphosphate;

Synthetic: Yes

Molecule: Protein (Large Fragment Of Dna Polymerase I)
Chain: A
Ec: 2.7.7.7
Engineered: Yes

Organism_scientific: Thermus Aquaticus
Organism_taxid: 271
Strain: X7029
Gene: Taq
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: X7029
Expression_system_plasmid: Pwb254
symmetry Space Group: P 31 2 1
R_factor 0.218 R_Free 0.275
crystal
cell
length a length b length c angle alpha angle beta angle gamma
108.028 108.028 90.167 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.30 Å
ligand DCT, DOC, MG enzyme Transferase E.C.2.7.7.7 BRENDA
related structures by homologous chain: 1BGX, 2KTQ
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structures of open and closed forms of binary and ternary complexes of the large fragment of Thermus aquaticus DNA polymerase I: structural basis for nucleotide incorporation., Li Y, Korolev S, Waksman G, EMBO J 1998 Dec 15;17(24):7514-25. PMID:9857206
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (104 Kb) [Save to disk]
  • Biological Unit Coordinates (3ktq.pdb1.gz) 98 Kb
  • LPC: Ligand-Protein Contacts for 3KTQ
  • CSU: Contacts of Structural Units for 3KTQ
  • Likely Quarternary Molecular Structure file(s) for 3KTQ
  • Retrieve 3KTQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3KTQ from S2C, [Save to disk]
  • View 3KTQ 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 3KTQ
  • 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 3KTQ, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d3ktqa1, region A:293-422 [Jmol] [rasmolscript] [script source]
        - Domain d3ktqa2, region A:423-831 [Jmol] [rasmolscript] [script source]
  • Fold representative 3ktq from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ktq_A] [3ktq_C] [3ktq_B] [3ktq]
  • SWISS-PROT database: [P19821]
  • Domain organization of [DPO1_THEAQ] by SWISSPFAM
  • Domain found in 3KTQ: [POLAc ] by SMART
  • Other resources with information on 3KTQ
  • Community annotation for 3KTQ at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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