2EIS

X-ray structure of acyl-CoA hydrolase-like protein, TT1379, from Thermus thermophilus HB8

PDB DOI: https://doi.org/10.2210/pdb2EIS/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Thermus thermophilus HB8
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2007-03-13 Released: 2008-03-18
Deposition Author(s): Kamitori, S., Yoshida, H., Satoh, S., Iino, H., Ebihara, A., Chen, L., Fu, Z.-Q., Chrzas, J., Wang, B.-C., Yokoyama, S., Kuramitsu, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free:
0.239 (Depositor), 0.233 (DCC)
R-Value Work:
0.219 (Depositor), 0.215 (DCC)
R-Value Observed:
0.219 (Depositor)

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.2 of the entry. See complete history.

Literature

X-ray structure of acyl-CoA hydrolase-like protein, TT1379, from Thermus thermophilus HB8

Kamitori, S., Yoshida, H., Satoh, S., Iino, H., Ebihara, A., Chen, L., Fu, Z.-Q., Chrzas, J., Wang, B.-C., Yokoyama, S., Kuramitsu, S.

To be published.

Macromolecule Content

Total Structure Weight: 31.1 kDa
Atom Count: 2,232
Modelled Residue Count: 242
Deposited Residue Count: 266
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein TTHB207	A, B	133	Thermus thermophilus HB8	Mutation(s): 0 Gene Names: TTHB207
UniProt
Find proteins for Q53VX2 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q53VX2 Go to UniProtKB: Q53VX2
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q53VX2
Sequence Annotations Expand
Reference Sequence LOADING

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
COA Query on COA Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth B] mmCIF format, chain C [auth A] mmCIF format, chain D [auth B]	C [auth A], D [auth B]	COENZYME A C₂₁ H₃₆ N₇ O₁₆ P₃ S RGJOEKWQDUBAIZ-IBOSZNHHSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A, B	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free: 0.239 (Depositor), 0.233 (DCC)
R-Value Work: 0.219 (Depositor), 0.215 (DCC)
R-Value Observed: 0.219 (Depositor)

Space Group: P 2₁ 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 105.675	α = 90
b = 105.675	β = 90
c = 105.675	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
MAR345dtb	data collection
HKL-2000	data reduction
HKL-2000	data scaling
AMoRE	phasing

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2008-03-18

Deposition Author(s):

RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History (Full details and data files)

Version 1.0: 2008-03-18
Type: Initial release
Version 1.1: 2011-07-13
Changes: Source and taxonomy, Version format compliance
Version 1.2: 2024-10-23
Changes: Data collection, Database references, Derived calculations, Structure summary