2HJ0

Crystal Structure of the Putative Alfa Subunit of Citrate Lyase in Complex with Citrate from Streptococcus mutans, Northeast Structural Genomics Target SmR12 .

PDB DOI: https://doi.org/10.2210/pdb2HJ0/pdb

Classification: LYASE
Organism(s): Streptococcus mutans UA159
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2006-06-29 Released: 2006-08-29
Deposition Author(s): Forouhar, F., Hussain, M., Jayaraman, S., Shastry, R., Janjua, H., Cunningham, K., Ma, L.C., Xiao, R., Liu, J., Baran, M., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.70 Å
R-Value Free: 0.266
R-Value Work: 0.224
R-Value Observed: 0.224

wwPDB Validation 3D Report Full Report

This is version 1.4 of the entry. See complete history.

Literature

Crystal Structure of the Putative Alfa Subunit of Citrate Lyase in Complex with Citrate from Streptococcus mutans, Northeast Structural Genomics Target SmR12 (CASP Target).

Forouhar, F., Hussain, M., Jayaraman, S., Shastry, R., Janjua, H., Cunningham, K., Ma, L.C., Xiao, R., Liu, J., Baran, M., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Hunt, J.F.

To be published.

Macromolecule Content

Total Structure Weight: 114.78 kDa
Atom Count: 7,933
Modelled Residue Count: 1,020
Deposited Residue Count: 1,038
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative citrate lyase, alfa subunit	A, B	519	Streptococcus mutans UA159	Mutation(s): 13 Gene Names: cilA EC: 4.1.3.6 (PDB Primary Data), 2.8.3.10 (UniProt)
UniProt
Find proteins for Q8DUC1 (Streptococcus mutans serotype c (strain ATCC 700610 / UA159)) Explore Q8DUC1 Go to UniProtKB: Q8DUC1
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8DUC1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CIT Query on CIT 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]	CITRIC ACID C₆ H₈ O₇ KRKNYBCHXYNGOX-UHFFFAOYSA-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: 2.70 Å
R-Value Free: 0.266
R-Value Work: 0.224
R-Value Observed: 0.224
Space Group: P 3₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 130.871	α = 90
b = 130.871	β = 90
c = 57.802	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
SnB	phasing
SOLVE	phasing
RESOLVE	phasing
XTALVIEW	refinement

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2006-08-29

Deposition Author(s):

Northeast Structural Genomics Consortium (NESG)

Revision History (Full details and data files)

Version 1.0: 2006-08-29
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
Version 1.3: 2017-10-18
Changes: Refinement description, Structure summary
Version 1.4: 2024-10-30
Changes: Data collection, Database references, Derived calculations, Structure summary