1WST | pdb_00001wst

Crystal structure of multiple substrate aminotransferase (MsAT) from Thermococcus profundus

PDB DOI: https://doi.org/10.2210/pdb1WST/pdb

Classification: TRANSFERASE
Organism(s): Thermococcus profundus
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2004-11-10 Released: 2005-10-25
Deposition Author(s): Lee, W.C., Manabe, F., Nemoto, N., Tamakoshi, M., Tanokura, M., Yamagishi, A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free:
0.215 (Depositor), 0.191 (DCC)
R-Value Work:
0.189 (Depositor), 0.191 (DCC)

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Ligand Structure Quality Assessment

This is version 1.3 of the entry. See complete history.

Literature

Crystal structure of multiple substrate aminotransferase (MsAT) from Thermococcus profundus

Lee, W.C., Manabe, F., Nemoto, N., Tamakoshi, M., Tanokura, M., Yamagishi, A.

To be published.

Macromolecule Content

Total Structure Weight: 47.9 kDa
Atom Count: 3,584
Modeled Residue Count: 403
Deposited Residue Count: 417
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
multiple substrate aminotransferase	A	417	Thermococcus profundus	Mutation(s): 1 EC: 2.6.1
UniProt
Find proteins for Q9V2W5 (Thermococcus profundus) Explore Q9V2W5 Go to UniProtKB: Q9V2W5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9V2W5
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PLP Query on PLP Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	PYRIDOXAL-5'-PHOSPHATE C₈ H₁₀ N O₆ P NGVDGCNFYWLIFO-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free: 0.215 (Depositor), 0.191 (DCC)
R-Value Work: 0.189 (Depositor), 0.191 (DCC)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73.93	α = 90
b = 117.78	β = 90
c = 115.87	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing
CNS	refinement
CCP4	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2005-10-25

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2005-10-25
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Derived calculations, Version format compliance
Version 1.3: 2021-11-10
Changes: Database references, Derived calculations

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.