8J0E | pdb_00008j0e

GK monomer complexes with catalytic intermediate

PDB DOI: https://doi.org/10.2210/pdb8J0E/pdb
EM Map EMD-35900: EMDB EMDataResource

Classification: PLANT PROTEIN
Organism(s): Arabidopsis thaliana
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2023-04-10 Released: 2024-04-17
Deposition Author(s): Zhang, T., Guo, C.J., Liu, J.L.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.40 Å
Aggregation State: FILAMENT
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 8J0E

This is version 1.0 of the entry. See complete history.

Literature

GK monomer complexes with catalytic intermediate

Zhang, T., Guo, C.J., Liu, J.L.

To be published.

Macromolecule Content

Total Structure Weight: 316.57 kDa
Atom Count: 2,507
Modeled Residue Count: 316
Deposited Residue Count: 2,904
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Delta-1-pyrroline-5-carboxylate synthase B	A [auth F], B [auth A], C [auth B], D [auth E]	726	Arabidopsis thaliana	Mutation(s): 0 Gene Names: P5CSB, P5CS2, At3g55610, F1I16_20 EC: 2.7.2.11 (PDB Primary Data), 1.2.1.41 (PDB Primary Data)
UniProt
Find proteins for P54888 (Arabidopsis thaliana) Explore P54888 Go to UniProtKB: P54888
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P54888
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TKC (Subject of Investigation/LOI) Query on TKC Download:Ideal Coordinates CCD File SDF format, chain E [auth B] MOL2 format, chain E [auth B] mmCIF format, chain E [auth B]	E [auth B]	(2~{R})-5-[[[[(2~{R},3~{S},4~{S},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-2-azanyl-5-oxidanylidene-pentanoic acid C₁₅ H₂₃ N₆ O₁₆ P₃ QSUGRYKGICURGW-CMYFRRJGSA-N		Interactions Focus chain E [auth B] Interactions & Density Focus chain E [auth B]
MG (Subject of Investigation/LOI) Query on MG Download:Ideal Coordinates CCD File SDF format, chain F [auth B] MOL2 format, chain F [auth B] mmCIF format, chain F [auth B]	F [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain F [auth B] Interactions & Density Focus chain F [auth B]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.40 Å
Aggregation State: FILAMENT
Reconstruction Method: SINGLE PARTICLE

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2024-04-17

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History (Full details and data files)

Version 1.0: 2024-04-17
Type: Initial release

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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.