7YIL | pdb_00007yil

The structure of GINS from Methanocaldococcus jannaschii

PDB DOI: https://doi.org/10.2210/pdb7YIL/pdb

Classification: DNA BINDING PROTEIN
Organism(s): Methanocaldococcus jannaschii DSM 2661
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2022-07-16 Released: 2023-07-19
Deposition Author(s): Wang, W.W., Liu, X.P.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.17 Å
R-Value Free:
0.245 (Depositor), 0.248 (DCC)
R-Value Work:
0.217 (Depositor), 0.220 (DCC)
R-Value Observed:
0.218 (Depositor)

Starting Models: experimental
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This is version 1.1 of the entry. See complete history.

Literature

The structure of GINS from Methanocaldococcus jannaschii

Wang, W.W., Yi, G.S., Zhou, H., Zhao, Y.X., Wang, Q.S., He, J.H., Yu, F., Xiao, X., Liu, X.P.

To be published.

Macromolecule Content

Total Structure Weight: 23.63 kDa
Atom Count: 1,650
Modeled Residue Count: 186
Deposited Residue Count: 190
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GINS	A, B	95	Methanocaldococcus jannaschii DSM 2661	Mutation(s): 0 Gene Names: MJ0248
UniProt
Find proteins for Q57698 (Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)) Explore Q57698 Go to UniProtKB: Q57698
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q57698
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.17 Å
R-Value Free: 0.245 (Depositor), 0.248 (DCC)
R-Value Work: 0.217 (Depositor), 0.220 (DCC)
R-Value Observed: 0.218 (Depositor)

Space Group: P 6₄ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.41	α = 90
b = 67.41	β = 90
c = 236.56	γ = 120

Software Package:

Software Name	Purpose
Aimless	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
xia2	data reduction
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2023-07-19

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32170097
National Natural Science Foundation of China (NSFC)	China	U1832161
National Natural Science Foundation of China (NSFC)	China	41921006

Revision History (Full details and data files)

Version 1.0: 2023-07-19
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.