7FG9 | pdb_00007fg9

Alpha-1,2-glucosyltransferase_UDP_tll1591

PDB DOI: https://doi.org/10.2210/pdb7FG9/pdb

Classification: TRANSFERASE
Organism(s): Thermosynechococcus vestitus BP-1
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2021-07-26 Released: 2022-06-01
Deposition Author(s): Su, J.Y.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.66 Å
R-Value Free:
0.227 (Depositor), 0.215 (DCC)
R-Value Work:
0.178 (Depositor)
R-Value Observed:
0.182 (Depositor)

Starting Model: experimental
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Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

Structural basis for glucosylsucrose synthesis by a member of the alpha-1,2-glucosyltransferase family

Han, Q., Yao, Y., Liu, Y., Zhang, W., Yu, J., Na, H., Liu, T., Mayo, K., Su, J.

(2022) Acta Biochim Biophys Sin (Shanghai) 54: 537-547

DOI: https://doi.org/10.3724/abbs.2022034

Macromolecule Content

Total Structure Weight: 81.62 kDa
Atom Count: 5,508
Modeled Residue Count: 682
Deposited Residue Count: 722
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycosyl transferase	A, B	361	Thermosynechococcus vestitus BP-1	Mutation(s): 0 Gene Names: tll1591
UniProt
Find proteins for Q8DIJ4 (Thermosynechococcus vestitus (strain NIES-2133 / IAM M-273 / BP-1)) Explore Q8DIJ4 Go to UniProtKB: Q8DIJ4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8DIJ4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
UDP (Subject of Investigation/LOI) Query on UDP 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]	URIDINE-5'-DIPHOSPHATE C₉ H₁₄ N₂ O₁₂ P₂ XCCTYIAWTASOJW-XVFCMESISA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.66 Å
R-Value Free: 0.227 (Depositor), 0.215 (DCC)
R-Value Work: 0.178 (Depositor)
R-Value Observed: 0.182 (Depositor)

Space Group: P 6₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 177.643	α = 90
b = 177.643	β = 90
c = 57.034	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

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Entry History

Deposition Data

Released Date: 2022-06-01

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2022-06-01
Type: Initial release
Version 1.1: 2023-11-29
Changes: Data collection, Refinement description

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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.