1QSS Transferase Dna date Jun 23, 1999
title Ddgtp-Trapped Closed Ternary Complex Of The Large Fragment Of Dna Polymerase I From Thermus Aquaticus
authors Y.Li, V.Mitaxov, G.Waksman
compound source
Molecule: 5'-D(Gpapcpcpapcpgpgpcpgpcp(Ddg))-3'
Chain: B
Engineered: Yes
Synthetic: Yes

Molecule: 5'-D(Apcpcpgpcpgpcpcpgptpgpgptpc)- 3';
Chain: C
Engineered: Yes

Synthetic: Yes

Molecule: Dna Polymerase I
Chain: A
Fragment: Klenow Fragment
Ec: 2.7.7.7
Engineered: Yes
Mutation: Yes

Organism_scientific: Thermus Aquaticus
Organism_taxid: 271
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector: Plasmid
Expression_system_plasmid: Pwb254
symmetry Space Group: P 31 2 1
R_factor 0.228 R_Free 0.285
crystal
cell
length a length b length c angle alpha angle beta angle gamma
108.557 108.557 90.527 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.30 Å
ligand DDG, DG3, MG enzyme Transferase E.C.2.7.7.7 BRENDA
related structures by homologous chain: 1QSY, 1QTM
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure-based design of Taq DNA polymerases with improved properties of dideoxynucleotide incorporation., Li Y, Mitaxov V, Waksman G, Proc Natl Acad Sci U S A 1999 Aug 17;96(17):9491-6. PMID:10449720
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (104 Kb) [Save to disk]
  • Biological Unit Coordinates (1qss.pdb1.gz) 98 Kb
  • LPC: Ligand-Protein Contacts for 1QSS
  • CSU: Contacts of Structural Units for 1QSS
  • Likely Quarternary Molecular Structure file(s) for 1QSS
  • Retrieve 1QSS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1QSS from S2C, [Save to disk]
  • View 1QSS 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 1QSS
  • 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 1QSS, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1qssa1, region A:293-422 [Jmol] [rasmolscript] [script source]
        - Domain d1qssa2, region A:423-831 [Jmol] [rasmolscript] [script source]
  • Fold representative 1qss 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: [1qss_C] [1qss_A] [1qss] [1qss_B]
  • SWISS-PROT database: [P19821]
  • Domain organization of [DPO1_THEAQ] by SWISSPFAM
  • Domain found in 1QSS: [POLAc ] by SMART
  • Other resources with information on 1QSS
  • Community annotation for 1QSS at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1QSS from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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