9BI5 | pdb_00009bi5

Deposited: 2024-04-22 Released: 2025-08-06
Deposition Author(s): Yu, Y., Patel, D.J.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

wwPDB Validation 3D Report Full Report

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

Literature

Yu, Y., Patel, D.J.

To be published.

Macromolecule Content

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA repair protein RAD50	A [auth D], C	1,312	Saccharomyces cerevisiae	Mutation(s): 1 Gene Names: RAD50, YNL250W, N0872 EC: 3.6
UniProt
Find proteins for P12753 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P12753 Go to UniProtKB: P12753
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P12753
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Double-strand break repair protein MRE11	B [auth A], D [auth B]	706	Saccharomyces cerevisiae	Mutation(s): 0 Gene Names: MRE11, YMR224C, YM9959.06C EC: 3.1
UniProt
Find proteins for P32829 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P32829 Go to UniProtKB: P32829
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P32829
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ATP (Subject of Investigation/LOI) Query on ATP Download Ideal Coordinates CCD File SDF format, chain E [auth D] SDF format, chain F [auth D] MOL2 format, chain E [auth D] MOL2 format, chain F [auth D] mmCIF format, chain E [auth D] mmCIF format, chain F [auth D]	E [auth D], F [auth D]	ADENOSINE-5'-TRIPHOSPHATE C₁₀ H₁₆ N₅ O₁₃ P₃ ZKHQWZAMYRWXGA-KQYNXXCUSA-N		Interactions Focus chain E [auth D] Focus chain F [auth D] Interactions & Density Focus chain E [auth D] Focus chain F [auth D]
MN (Subject of Investigation/LOI) Query on MN Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain H [auth A] SDF format, chain I [auth B] SDF format, chain J [auth B] MOL2 format, chain G [auth A] MOL2 format, chain H [auth A] MOL2 format, chain I [auth B] MOL2 format, chain J [auth B] mmCIF format, chain G [auth A] mmCIF format, chain H [auth A] mmCIF format, chain I [auth B] mmCIF format, chain J [auth B]	G [auth A], H [auth A], I [auth B], J [auth B]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth B] Focus chain J [auth B] Interactions & Density Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth B] Focus chain J [auth B]