OCA Atlas for 1BGX

1BGX

Complex (Polymerase Inhibitor)

date

Jun 02, 1998

title

Taq Polymerase In Complex With Tp7, An Inhibitory Fab

authors

R.Murali, D.J.Sharkey, J.L.Daiss, H.M.Krishna Murthy

compound

source

Molecule: Taq Dna Polymerase
Chain: T
Ec: 2.7.7.7
Engineered: Yes

Organism_scientific: Thermus Aquaticus
Organism_taxid: 271
Gene: Taq
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Tp7 Mab
Chain: L
Fragment: Fab
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Mus Musculus
Expression_system_common: House Mouse
Expression_system_taxid: 10090
Expression_system_cell: Hybridoma

Molecule: Tp7 Mab
Chain: H
Fragment: Fab
Engineered: Yes

symmetry

Space Group: P 1

R_factor

0.189

R_Free

0.253

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
76.600	89.100	89.300	100.70	115.30	95.30

method

X-Ray Diffraction

resolution

2.30 Å

ligand

enzyme

Transferase E.C.2.7.7.7 BRENDA

related structures

by homologous chain: 1F4X, 1GIG, 1KB9, 1MRE, 1TET, 3KTQ

Gene
Ontology

Chain	Function	Process	Component
T	DNA-directed DNA polymerase ...

Primary reference

Crystal structure of Taq DNA polymerase in complex with an inhibitory Fab: the Fab is directed against an intermediate in the helix-coil dynamics of the enzyme., Murali R, Sharkey DJ, Daiss JL, Murthy HM, Proc Natl Acad Sci U S A 1998 Oct 13;95(21):12562-7. PMID:9770525

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (207 Kb) [Save to disk]

Biological Unit Coordinates (1bgx.pdb1.gz) 201 Kb

CSU: Contacts of Structural Units for 1BGX

Likely Quarternary Molecular Structure file(s) for 1BGX

Retrieve 1BGX in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 1BGX from S2C, [Save to disk]

View 1BGX 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 1BGX

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

3D motif for 1BGX, from MSDmotif at EBI

Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1bgxh2, region H:116-209 [Jmol] [rasmolscript] [script source]
- Domain d1bgxh1, region H:5-115 [Jmol] [rasmolscript] [script source]
- Domain d1bgxl1, region L:1-107 [Jmol] [rasmolscript] [script source]
- Domain d1bgxl2, region L:108-211 [Jmol] [rasmolscript] [script source]
- Domain d1bgxt2, region T:1-173 [Jmol] [rasmolscript] [script source]
- Domain d1bgxt1, region T:174-289 [Jmol] [rasmolscript] [script source]
- Domain d1bgxt3, region T:290-422 [Jmol] [rasmolscript] [script source]
- Domain d1bgxt4, region T:423-832 [Jmol] [rasmolscript] [script source]

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: [1bgx_H] [1bgx] [1bgx_T] [1bgx_L]

SWISS-PROT database: [P19821]

Domain organization of [DPO1_THEAQ] by SWISSPFAM

Domains found in 1BGX: [53EXOc] [HhH1] [HhH2] [IG_like] [IGv] [POLAc ] by SMART

Other resources with information on 1BGX

Community annotation for 1BGX 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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