3LBA | pdb_00003lba

The Crystal Structure of smu.1229 from Streptococcus mutans UA159 bound to hypoxanthine

PDB DOI: https://doi.org/10.2210/pdb3LBA/pdb

Classification: TRANSFERASE
Organism(s): Streptococcus mutans UA159
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2010-01-08 Released: 2011-01-12
Deposition Author(s): Su, X.-D., Hou, Q.M., Wang, H.F., Liu, X.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.24 Å
R-Value Free:
0.246 (Depositor), 0.251 (DCC)
R-Value Work:
0.197 (Depositor), 0.203 (DCC)
R-Value Observed:
0.199 (Depositor)

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

Literature

The Crystal Structure of smu.1229 from Streptococcus mutans UA159 bound to hypoxanthine

Su, X.-D., Hou, Q.M., Wang, H.F., Liu, X.

To be published.

Macromolecule Content

Total Structure Weight: 32.66 kDa
Atom Count: 2,021
Modeled Residue Count: 260
Deposited Residue Count: 303
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative purine nucleoside phosphorylase	A	303	Streptococcus mutans UA159	Mutation(s): 0 Gene Names: smu.1229 EC: 2.4.2.1
UniProt
Find proteins for Q8DTU4 (Streptococcus mutans serotype c (strain ATCC 700610 / UA159)) Explore Q8DTU4 Go to UniProtKB: Q8DTU4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8DTU4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HPA Query on HPA Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	HYPOXANTHINE C₅ H₄ N₄ O FDGQSTZJBFJUBT-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.24 Å
R-Value Free: 0.246 (Depositor), 0.251 (DCC)
R-Value Work: 0.197 (Depositor), 0.203 (DCC)
R-Value Observed: 0.199 (Depositor)

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.5	α = 90
b = 83.5	β = 90
c = 127.76	γ = 120

Software Package:

Software Name	Purpose
ADSC	data collection
MOLREP	phasing
CNS	refinement
MOSFLM	data reduction
SCALA	data scaling
REFMAC	refinement

Structure Validation

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Entry History

Deposition Data

Released Date: 2011-01-12

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2011-01-12
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2024-03-20
Changes: Data collection, Database references, Derived calculations

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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.