7SFZ | pdb_00007sfz

Crystal structure of Mis18a-yippee domain

PDB DOI: https://doi.org/10.2210/pdb7SFZ/pdb

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

Deposited: 2021-10-04 Released: 2022-10-26
Deposition Author(s): Park, S.H., Cho, U.
Funding Organization(s): National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free:
0.250 (Depositor), 0.253 (DCC)
R-Value Work:
0.203 (Depositor), 0.206 (DCC)
R-Value Observed:
0.206 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Structural Basis for Mis18 Complex Assembly: Implications for Centromere Maintenance

Park, S.H., Shimanaka, K., Cho, U.

To be published.

Macromolecule Content

Total Structure Weight: 103.66 kDa
Atom Count: 5,788
Modeled Residue Count: 748
Deposited Residue Count: 912
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein Mis18-alpha	A [auth B] B [auth A] C D E A [auth B], B [auth A], C, D, E, F, G, H	114	Homo sapiens	Mutation(s): 0 Gene Names: MIS18A, C21orf45, C21orf46, FASP1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NYP9 (Homo sapiens) Explore Q9NYP9 Go to UniProtKB: Q9NYP9
PHAROS: Q9NYP9 GTEx: ENSG00000159055
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9NYP9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 (Subject of Investigation/LOI) Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain K [auth A] SDF format, chain L [auth A] SDF format, chain O [auth D] SDF format, chain P [auth D] SDF format, chain R [auth E] SDF format, chain U [auth G] SDF format, chain W [auth H] SDF format, chain X [auth H] MOL2 format, chain K [auth A] MOL2 format, chain L [auth A] MOL2 format, chain O [auth D] MOL2 format, chain P [auth D] MOL2 format, chain R [auth E] MOL2 format, chain U [auth G] MOL2 format, chain W [auth H] MOL2 format, chain X [auth H] mmCIF format, chain K [auth A] mmCIF format, chain L [auth A] mmCIF format, chain O [auth D] mmCIF format, chain P [auth D] mmCIF format, chain R [auth E] mmCIF format, chain U [auth G] mmCIF format, chain W [auth H] mmCIF format, chain X [auth H]	K [auth A] L [auth A] O [auth D] P [auth D] R [auth E] K [auth A], L [auth A], O [auth D], P [auth D], R [auth E], U [auth G], W [auth H], X [auth H]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain K [auth A] Focus chain L [auth A] Focus chain O [auth D] Focus chain P [auth D] Focus chain R [auth E] Focus chain U [auth G] Focus chain W [auth H] Focus chain X [auth H] Interactions & Density Focus chain K [auth A] Focus chain L [auth A] Focus chain O [auth D] Focus chain P [auth D] Focus chain R [auth E] Focus chain U [auth G] Focus chain W [auth H] Focus chain X [auth H]
ZN (Subject of Investigation/LOI) Query on ZN Download:Ideal Coordinates CCD File SDF format, chain V [auth H] SDF format, chain T [auth G] SDF format, chain S [auth F] SDF format, chain Q [auth E] SDF format, chain N [auth D] SDF format, chain M [auth C] SDF format, chain J [auth A] SDF format, chain I [auth B] MOL2 format, chain V [auth H] MOL2 format, chain T [auth G] MOL2 format, chain S [auth F] MOL2 format, chain Q [auth E] MOL2 format, chain N [auth D] MOL2 format, chain M [auth C] MOL2 format, chain J [auth A] MOL2 format, chain I [auth B] mmCIF format, chain V [auth H] mmCIF format, chain T [auth G] mmCIF format, chain S [auth F] mmCIF format, chain Q [auth E] mmCIF format, chain N [auth D] mmCIF format, chain M [auth C] mmCIF format, chain J [auth A] mmCIF format, chain I [auth B]	I [auth B] J [auth A] M [auth C] N [auth D] Q [auth E] I [auth B], J [auth A], M [auth C], N [auth D], Q [auth E], S [auth F], T [auth G], V [auth H]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain I [auth B] Focus chain J [auth A] Focus chain M [auth C] Focus chain N [auth D] Focus chain Q [auth E] Focus chain S [auth F] Focus chain T [auth G] Focus chain V [auth H] Interactions & Density Focus chain I [auth B] Focus chain J [auth A] Focus chain M [auth C] Focus chain N [auth D] Focus chain Q [auth E] Focus chain S [auth F] Focus chain T [auth G] Focus chain V [auth H]