2IF2

Crystal Structure of the Putative Dephospho-CoA Kinase from Aquifex aeolicus, Northeast Structural Genomics Target QR72.

PDB DOI: https://doi.org/10.2210/pdb2IF2/pdb

Classification: TRANSFERASE
Organism(s): Aquifex aeolicus VF5
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2006-09-19 Released: 2006-10-03
Deposition Author(s): Forouhar, F., Hussain, M., Seetharaman, J., Hussain, A., Wu, M., Fang, Y., Cunningham, K., Ma, L.C., Xiao, R., Liu, J., Baran, M., Rost, B., Acton, T.B., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free:
0.284 (Depositor), 0.280 (DCC)
R-Value Work:
0.235 (Depositor), 0.240 (DCC)
R-Value Observed:
0.235 (Depositor)

wwPDB Validation 3D Report Full Report

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

Macromolecule Content

Total Structure Weight: 73.04 kDa
Atom Count: 4,567
Modelled Residue Count: 551
Deposited Residue Count: 612
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dephospho-CoA kinase	A, B, C	204	Aquifex aeolicus VF5	Mutation(s): 4 Gene Names: coaE EC: 2.7.1.24
UniProt
Find proteins for O67792 (Aquifex aeolicus (strain VF5)) Explore O67792 Go to UniProtKB: O67792
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O67792
Sequence Annotations Expand
Reference Sequence LOADING

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain E [auth B] SDF format, chain G [auth C] MOL2 format, chain D [auth A] MOL2 format, chain E [auth B] MOL2 format, chain G [auth C] mmCIF format, chain D [auth A] mmCIF format, chain E [auth B] mmCIF format, chain G [auth C]	D [auth A], E [auth B], G [auth C]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain D [auth A] Focus chain E [auth B] Focus chain G [auth C] Interactions & Density Focus chain D [auth A] Focus chain E [auth B] Focus chain G [auth C]
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain F [auth B] MOL2 format, chain F [auth B] mmCIF format, chain F [auth B]	F [auth B]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain F [auth B] Interactions & Density Focus chain F [auth B]

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free: 0.284 (Depositor), 0.280 (DCC)
R-Value Work: 0.235 (Depositor), 0.240 (DCC)
R-Value Observed: 0.235 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.632	α = 90
b = 97.013	β = 90
c = 121.625	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2006-10-03

Deposition Author(s):

Northeast Structural Genomics Consortium (NESG)

Revision History (Full details and data files)

Version 1.0: 2006-10-03
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Source and taxonomy, Version format compliance