8K4D | pdb_00008k4d

Structure of the SA2/Scc1/CENP_U complex

PDB DOI: https://doi.org/10.2210/pdb8K4D/pdb

Classification: CELL CYCLE
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-07-18 Released: 2024-07-24
Deposition Author(s): Liu, M.J., He, X.J.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.52 Å
R-Value Free:
0.269 (Depositor), 0.269 (DCC)
R-Value Work:
0.220 (Depositor), 0.221 (DCC)
R-Value Observed:
0.223 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

The CENP-O complex links inner kinetochore to centromere cohesion

Liu, M.J., He, X.J.

To be published.

Macromolecule Content

Total Structure Weight: 130.74 kDa
Atom Count: 8,141
Modeled Residue Count: 1,002
Deposited Residue Count: 1,130
Unique protein chains: 3

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cohesin subunit SA-2	A	980	Homo sapiens	Mutation(s): 0 Gene Names: SA2
UniProt & NIH Common Fund Data Resources
Find proteins for Q8N3U4 (Homo sapiens) Explore Q8N3U4 Go to UniProtKB: Q8N3U4
PHAROS: Q8N3U4 GTEx: ENSG00000101972
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8N3U4
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
64-kDa C-terminal product	B	141	Homo sapiens	Mutation(s): 0 Gene Names: SCC1
UniProt & NIH Common Fund Data Resources
Find proteins for O60216 (Homo sapiens) Explore O60216 Go to UniProtKB: O60216
PHAROS: O60216 GTEx: ENSG00000164754
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O60216
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
CENP-U	C	9	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q71F23 (Homo sapiens) Explore Q71F23 Go to UniProtKB: Q71F23
PHAROS: Q71F23 GTEx: ENSG00000151725
Entity Groups
UniProt Group	Q71F23
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.52 Å
R-Value Free: 0.269 (Depositor), 0.269 (DCC)
R-Value Work: 0.220 (Depositor), 0.221 (DCC)
R-Value Observed: 0.223 (Depositor)

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.321	α = 90
b = 132.615	β = 90
c = 148.001	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-07-24

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2024-07-24
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.