9PBI | pdb_00009pbi

Extra Med5/16 of PIC-Med-SWI/SNF

PDB DOI: https://doi.org/10.2210/pdb9PBI/pdb
EM Map EMD-71479: EMDB EMDataResource

Classification: TRANSCRIPTION
Organism(s): Saccharomyces cerevisiae
Mutation(s): No

Deposited: 2025-06-26 Released: 2026-10-07
Deposition Author(s): Yang, C., Nagai, S., Chen, D.-H.
Funding Organization(s): Other private

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 4.30 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9PBI

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

Literature

Structure of Extra Med5/16 of PIC-Med-SWI/SNF

Yang, C., Nagai, S., Chen, D.-H.

To be published.

Macromolecule Content

Total Structure Weight: 240.34 kDa
Atom Count: 13,620
Modeled Residue Count: 1,681
Deposited Residue Count: 2,106
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mediator of RNA polymerase II transcription subunit 5	A [auth 3]	1,132	Saccharomyces cerevisiae	Mutation(s): 0
UniProt
Find proteins for P53114 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P53114 Go to UniProtKB: P53114
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P53114
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Mediator of RNA polymerase II transcription subunit 16	B [auth 6]	974	Saccharomyces cerevisiae	Mutation(s): 0
UniProt
Find proteins for P32259 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P32259 Go to UniProtKB: P32259
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P32259
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 4.30 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487
RECONSTRUCTION	RELION	5

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-10-07

Deposition Author(s):

Funding Organization	Location	Grant Number
Other private	United States	--

Revision History (Full details and data files)

Version 1.0: 2026-10-07
Type: Initial release