3U6U | pdb_00003u6u

Crystal structure of the putative acetylglutamate kinase from thermus thermophilus

PDB DOI: https://doi.org/10.2210/pdb3U6U/pdb
Entry: 3U6U supersedes: 2EGX

Classification: TRANSFERASE
Organism(s): Thermus thermophilus HB8
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2011-10-13 Released: 2011-11-16
Deposition Author(s): Karthe, P., Kumarevel, T.S., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.92 Å
R-Value Free:
0.237 (Depositor), 0.244 (DCC)
R-Value Work:
0.222 (Depositor), 0.228 (DCC)
R-Value Observed:
0.225 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 3U6U

This is version 1.1 of the entry. See complete history.

Literature

The structure of first dimeric archaeal N-acetyl glutamate kinase reveals an intermediate conformation of the enzyme in the catalytic cycle

Ramya, S., Preethi, R., Kuramitsu, S., Yokoyama, S., Kumarevel, T.S., Karthe, P.

To be published.

Macromolecule Content

Total Structure Weight: 58.57 kDa
Atom Count: 4,126
Modeled Residue Count: 514
Deposited Residue Count: 538
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative acetylglutamate kinase	A, B [auth C]	269	Thermus thermophilus HB8	Mutation(s): 0 Gene Names: TTHA1903 EC: 2.7.2.17
UniProt
Find proteins for Q5SH27 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SH27 Go to UniProtKB: Q5SH27
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5SH27
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain E [auth C] SDF format, chain F [auth C] SDF format, chain D [auth A] MOL2 format, chain C [auth A] MOL2 format, chain E [auth C] MOL2 format, chain F [auth C] MOL2 format, chain D [auth A] mmCIF format, chain C [auth A] mmCIF format, chain E [auth C] mmCIF format, chain F [auth C] mmCIF format, chain D [auth A]	C [auth A], D [auth A], E [auth C], F [auth C]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth C] Focus chain F [auth C] Interactions & Density Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth C] Focus chain F [auth C]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.92 Å
R-Value Free: 0.237 (Depositor), 0.244 (DCC)
R-Value Work: 0.222 (Depositor), 0.228 (DCC)
R-Value Observed: 0.225 (Depositor)

Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 155.601	α = 90
b = 155.601	β = 90
c = 79.535	γ = 120

Software Package:

Software Name	Purpose
BSS	data collection
SOLVE	phasing
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2011-11-16

Deposition Author(s):

Kumarevel, T.S.

RIKEN Structural Genomics/Proteomics Initiative (RSGI)

This entry supersedes: 2EGX

Revision History (Full details and data files)

Version 1.0: 2011-11-16
Type: Initial release
Version 1.1: 2024-03-20
Changes: Data collection, Database references, Derived calculations