6IJK | pdb_00006ijk

Enoyl-CoA hydratase/isomerase family protein from Cupriavidus necator H16

PDB DOI: https://doi.org/10.2210/pdb6IJK/pdb

Classification: LYASE
Organism(s): Cupriavidus necator H16
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2018-10-10 Released: 2019-08-21
Deposition Author(s): Seo, H., Kim, K.-J.
Funding Organization(s): National Research Foundation (Korea)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.231 (Depositor), 0.237 (DCC)
R-Value Work:
0.203 (Depositor), 0.208 (DCC)
R-Value Observed:
0.204 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of a novel type isomerase of enoyl-CoA hydratase/isomerase family protein from Cupriavidus necator H16

Seo, H., Kim, K.-J.

(2019) Biotechnol Bioprocess Eng 24: 155-162

DOI: https://doi.org/10.1007/s12257-018-0393-3

Macromolecule Content

Total Structure Weight: 64.72 kDa
Atom Count: 4,127
Modeled Residue Count: 538
Deposited Residue Count: 598
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Enoyl-CoA hydratase	A, B	299	Cupriavidus necator H16	Mutation(s): 0 Gene Names: H16_B0756 EC: 4.2.1.17
UniProt
Find proteins for Q0K371 (Cupriavidus necator (strain ATCC 17699 / DSM 428 / KCTC 22496 / NCIMB 10442 / H16 / Stanier 337)) Explore Q0K371 Go to UniProtKB: Q0K371
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q0K371
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.231 (Depositor), 0.237 (DCC)
R-Value Work: 0.203 (Depositor), 0.208 (DCC)
R-Value Observed: 0.204 (Depositor)

Space Group: P 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 132.941	α = 90
b = 132.941	β = 90
c = 44.164	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2019-08-21

Deposition Author(s):

Funding Organization	Location	Grant Number
National Research Foundation (Korea)	Korea, Republic Of	NRF-2016M3D3A1A01913269
National Research Foundation (Korea)	Korea, Republic Of	NRF-2017M1A2A2087631
National Research Foundation (Korea)	Korea, Republic Of	NRF-2018H1A2A1061751

Revision History (Full details and data files)

Version 1.0: 2019-08-21
Type: Initial release
Version 1.1: 2019-09-04
Changes: Data collection, Database references
Version 1.2: 2023-11-22
Changes: Data collection, Database references, Refinement description

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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.