1G0R

THE STRUCTURAL BASIS OF THE CATALYTIC MECHANISM AND REGULATION OF GLUCOSE-1-PHOSPHATE THYMIDYLYLTRANSFERASE (RMLA). THYMIDINE/GLUCOSE-1-PHOSPHATE COMPLEX.

PDB DOI: https://doi.org/10.2210/pdb1G0R/pdb

Classification: TRANSFERASE
Organism(s): Pseudomonas aeruginosa
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2000-10-07 Released: 2000-12-27
Deposition Author(s): Blankenfeldt, W., Asuncion, M., Lam, J.S., Naismith, J.H.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.87 Å
R-Value Free: 0.221
R-Value Work: 0.147
R-Value Observed: 0.151

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Macromolecule Content

Total Structure Weight: 267.82 kDa
Atom Count: 21,361
Modelled Residue Count: 2,337
Deposited Residue Count: 2,344
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GLUCOSE-1-PHOSPHATE THYMIDYLYLTRANSFERASE	A, B, C, D, E A, B, C, D, E, F, G, H	293	Pseudomonas aeruginosa	Mutation(s): 0 EC: 2.7.7.24
UniProt
Find proteins for Q9HU22 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q9HU22 Go to UniProtKB: Q9HU22
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9HU22
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
G1P Query on G1P Download Ideal Coordinates CCD File SDF format, chain GA [auth E] SDF format, chain I [auth A] SDF format, chain N [auth B] SDF format, chain RA [auth G] SDF format, chain T [auth C] SDF format, chain Z [auth D] SDF format, chain WA [auth H] MOL2 format, chain GA [auth E] MOL2 format, chain I [auth A] MOL2 format, chain N [auth B] MOL2 format, chain RA [auth G] MOL2 format, chain T [auth C] MOL2 format, chain Z [auth D] MOL2 format, chain WA [auth H]	GA [auth E] I [auth A] N [auth B] RA [auth G] T [auth C] GA [auth E], I [auth A], N [auth B], RA [auth G], T [auth C], WA [auth H], Z [auth D]	1-O-phosphono-alpha-D-glucopyranose C₆ H₁₃ O₉ P HXXFSFRBOHSIMQ-VFUOTHLCSA-N		Interactions Focus chain GA [auth E] Focus chain I [auth A] Focus chain N [auth B] Focus chain RA [auth G] Focus chain T [auth C] Focus chain WA [auth H] Focus chain Z [auth D] Interactions & Density Focus chain GA [auth E] Focus chain I [auth A] Focus chain N [auth B] Focus chain RA [auth G] Focus chain T [auth C] Focus chain WA [auth H] Focus chain Z [auth D]
THM Query on THM Download Ideal Coordinates CCD File SDF format, chain AB [auth H] SDF format, chain BB [auth H] SDF format, chain EA [auth D] SDF format, chain FA [auth D] SDF format, chain JA [auth E] SDF format, chain M [auth A] SDF format, chain PA [auth F] SDF format, chain QA [auth F] SDF format, chain R [auth B] SDF format, chain S [auth B] SDF format, chain UA [auth G] SDF format, chain VA [auth G] SDF format, chain X [auth C] SDF format, chain Y [auth C] SDF format, chain KA [auth E] SDF format, chain L [auth A] MOL2 format, chain AB [auth H] MOL2 format, chain BB [auth H] MOL2 format, chain EA [auth D] MOL2 format, chain FA [auth D] MOL2 format, chain JA [auth E] MOL2 format, chain M [auth A] MOL2 format, chain PA [auth F] MOL2 format, chain QA [auth F] MOL2 format, chain R [auth B] MOL2 format, chain S [auth B] MOL2 format, chain UA [auth G] MOL2 format, chain VA [auth G] MOL2 format, chain X [auth C] MOL2 format, chain Y [auth C] MOL2 format, chain KA [auth E] MOL2 format, chain L [auth A]	AB [auth H] BB [auth H] EA [auth D] FA [auth D] JA [auth E] AB [auth H], BB [auth H], EA [auth D], FA [auth D], JA [auth E], KA [auth E], L [auth A], M [auth A], PA [auth F], QA [auth F], R [auth B], S [auth B], UA [auth G], VA [auth G], X [auth C], Y [auth C]	THYMIDINE C₁₀ H₁₄ N₂ O₅ IQFYYKKMVGJFEH-XLPZGREQSA-N		Interactions Focus chain AB [auth H] Focus chain BB [auth H] Focus chain EA [auth D] Focus chain FA [auth D] Focus chain JA [auth E] Focus chain KA [auth E] Focus chain L [auth A] Focus chain M [auth A] Focus chain PA [auth F] Focus chain QA [auth F] Focus chain R [auth B] Focus chain S [auth B] Focus chain UA [auth G] Focus chain VA [auth G] Focus chain X [auth C] Focus chain Y [auth C] Interactions & Density Focus chain AB [auth H] Focus chain BB [auth H] Focus chain EA [auth D] Focus chain FA [auth D] Focus chain JA [auth E] Focus chain KA [auth E] Focus chain L [auth A] Focus chain M [auth A] Focus chain PA [auth F] Focus chain QA [auth F] Focus chain R [auth B] Focus chain S [auth B] Focus chain UA [auth G] Focus chain VA [auth G] Focus chain X [auth C] Focus chain Y [auth C]
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain AA [auth D] SDF format, chain BA [auth D] SDF format, chain CA [auth D] SDF format, chain DA [auth D] SDF format, chain HA [auth E] SDF format, chain IA [auth E] SDF format, chain J [auth A] SDF format, chain K [auth A] SDF format, chain LA [auth F] SDF format, chain MA [auth F] SDF format, chain O [auth B] SDF format, chain P [auth B] SDF format, chain Q [auth B] SDF format, chain SA [auth G] SDF format, chain U [auth C] SDF format, chain V [auth C] SDF format, chain W [auth C] SDF format, chain YA [auth H] SDF format, chain ZA [auth H] SDF format, chain NA [auth F] SDF format, chain OA [auth F] SDF format, chain TA [auth G] SDF format, chain XA [auth H] MOL2 format, chain AA [auth D] MOL2 format, chain BA [auth D] MOL2 format, chain CA [auth D] MOL2 format, chain DA [auth D] MOL2 format, chain HA [auth E] MOL2 format, chain IA [auth E] MOL2 format, chain J [auth A] MOL2 format, chain K [auth A] MOL2 format, chain LA [auth F] MOL2 format, chain MA [auth F] MOL2 format, chain O [auth B] MOL2 format, chain P [auth B] MOL2 format, chain Q [auth B] MOL2 format, chain SA [auth G] MOL2 format, chain U [auth C] MOL2 format, chain V [auth C] MOL2 format, chain W [auth C] MOL2 format, chain YA [auth H] MOL2 format, chain ZA [auth H] MOL2 format, chain NA [auth F] MOL2 format, chain OA [auth F] MOL2 format, chain TA [auth G] MOL2 format, chain XA [auth H]	AA [auth D] BA [auth D] CA [auth D] DA [auth D] HA [auth E] AA [auth D], BA [auth D], CA [auth D], DA [auth D], HA [auth E], IA [auth E], J [auth A], K [auth A], LA [auth F], MA [auth F], NA [auth F], O [auth B], OA [auth F], P [auth B], Q [auth B], SA [auth G], TA [auth G], U [auth C], V [auth C], W [auth C], XA [auth H], YA [auth H], ZA [auth H]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain AA [auth D] Focus chain BA [auth D] Focus chain CA [auth D] Focus chain DA [auth D] Focus chain HA [auth E] Focus chain IA [auth E] Focus chain J [auth A] Focus chain K [auth A] Focus chain LA [auth F] Focus chain MA [auth F] Focus chain NA [auth F] Focus chain O [auth B] Focus chain OA [auth F] Focus chain P [auth B] Focus chain Q [auth B] Focus chain SA [auth G] Focus chain TA [auth G] Focus chain U [auth C] Focus chain V [auth C] Focus chain W [auth C] Focus chain XA [auth H] Focus chain YA [auth H] Focus chain ZA [auth H] Interactions & Density Focus chain AA [auth D] Focus chain BA [auth D] Focus chain CA [auth D] Focus chain DA [auth D] Focus chain HA [auth E] Focus chain IA [auth E] Focus chain J [auth A] Focus chain K [auth A] Focus chain LA [auth F] Focus chain MA [auth F] Focus chain NA [auth F] Focus chain O [auth B] Focus chain OA [auth F] Focus chain P [auth B] Focus chain Q [auth B] Focus chain SA [auth G] Focus chain TA [auth G] Focus chain U [auth C] Focus chain V [auth C] Focus chain W [auth C] Focus chain XA [auth H] Focus chain YA [auth H] Focus chain ZA [auth H]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.87 Å
R-Value Free: 0.221
R-Value Work: 0.147
R-Value Observed: 0.151
Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.274	α = 89.98
b = 73.084	β = 81.42
c = 133.652	γ = 81.56

Software Package:

Software Name	Purpose
SOLVE	phasing
REFMAC	refinement
MOSFLM	data reduction
CCP4	data scaling

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2000-12-27

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2000-12-27
Type: Initial release
Version 1.1: 2008-04-27
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Derived calculations, Version format compliance
Version 1.3: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary
Version 1.4: 2024-02-07
Changes: Data collection, Database references, Structure summary