Macromolecule Content

Total Structure Weight: 32.04 kDa
Atom Count: 2236
Residue Count: 260
Unique protein chains: 1

6JF1

Crystal structure of the substrate binding protein of a methionine transporter from Streptococcus pneumoniae

DOI: 10.2210/pdb6JF1/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Streptococcus pneumoniae TIGR4
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2019-02-07 Released: 2019-07-10
Deposition Author(s): Jha, B., Vyas, R., Bhushan, J., Sehgal, D., Biswal, B.K.
Funding Organization(s): Department of Biotechnology (India)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free: 0.231
R-Value Work: 0.183
R-Value Observed: 0.186

wwPDB Validation 3D Report Full Report

Literature

Crystal structure of a methionine transporter protein

Jha, B., Vyas, R., Bhushan, J., Sehgal, D., Biswal, B.K.

To be published.

Macromolecules

Find similar proteins by:

(by identity cutoff) | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lipoprotein	A	276	Streptococcus pneumoniae TIGR4	Mutation(s): 0 Gene Names: SP_0149
Find proteins for A0A0H2UN92 (Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)) Explore A0A0H2UN92 Go to UniProtKB: A0A0H2UN92
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MET Query on MET Download Ideal Coordinates CCD File SDF format, chain B [A] MOL2 format, chain B [A]	A	METHIONINE C₅ H₁₁ N O₂ S FFEARJCKVFRZRR-BYPYZUCNSA-N		Ligand Interaction
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain W [A] SDF format, chain X [A] MOL2 format, chain W [A] MOL2 format, chain X [A]	A	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Ligand Interaction
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain C [A] SDF format, chain D [A] SDF format, chain E [A] SDF format, chain F [A] SDF format, chain G [A] SDF format, chain H [A] SDF format, chain I [A] SDF format, chain J [A] SDF format, chain K [A] SDF format, chain L [A] SDF format, chain M [A] MOL2 format, chain C [A] MOL2 format, chain D [A] MOL2 format, chain E [A] MOL2 format, chain F [A] MOL2 format, chain G [A] MOL2 format, chain H [A] MOL2 format, chain I [A] MOL2 format, chain J [A] MOL2 format, chain K [A] MOL2 format, chain L [A] MOL2 format, chain M [A]	A	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Ligand Interaction
ACT Query on ACT Download Ideal Coordinates CCD File SDF format, chain O [A] SDF format, chain P [A] SDF format, chain Q [A] SDF format, chain R [A] SDF format, chain S [A] SDF format, chain T [A] SDF format, chain U [A] SDF format, chain V [A] MOL2 format, chain O [A] MOL2 format, chain P [A] MOL2 format, chain Q [A] MOL2 format, chain R [A] MOL2 format, chain S [A] MOL2 format, chain T [A] MOL2 format, chain U [A] MOL2 format, chain V [A]	A	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Ligand Interaction
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain N [A] MOL2 format, chain N [A]	A	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free: 0.231
R-Value Work: 0.183
R-Value Observed: 0.186
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.692	α = 90
b = 75.851	β = 90
c = 75.634	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Deposited Date: 2019-02-07
Released Date: 2019-07-10

Deposition Author(s):

Funding Organization	Location	Grant Number
Department of Biotechnology (India)	India	--

Revision History

Version 1.0: 2019-07-10
Type: Initial release

RCSB PDB is funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.