6ODH | pdb_00006odh

BH3 domain swapped dimer of a BAK fragment

PDB DOI: https://doi.org/10.2210/pdb6ODH/pdb

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

Deposited: 2019-03-26 Released: 2020-10-07
Deposition Author(s): Liu, L.-K.
Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free:
0.271 (Depositor), 0.280 (DCC)
R-Value Work:
0.214 (Depositor), 0.220 (DCC)
R-Value Observed:
0.217 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

A BAK fragment that binds mitochondrial lipids and releases cytochrome c

Dai, H., Liu, L.-K., Kaufmann, S.

To be published.

Macromolecule Content

Total Structure Weight: 59.94 kDa
Atom Count: 3,794
Modeled Residue Count: 452
Deposited Residue Count: 504
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bcl-2 homologous antagonist/killer	A, B, C, D, E A, B, C, D, E, F	84	Homo sapiens	Mutation(s): 0 Gene Names: BAK1, BAK, BCL2L7, CDN1
UniProt & NIH Common Fund Data Resources
Find proteins for Q16611 (Homo sapiens) Explore Q16611 Go to UniProtKB: Q16611
PHAROS: Q16611 GTEx: ENSG00000030110
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q16611
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EPE Query on EPE Download Ideal Coordinates CCD File SDF format, chain N [auth E] SDF format, chain M [auth E] SDF format, chain K [auth C] SDF format, chain I [auth A] SDF format, chain H [auth A] MOL2 format, chain N [auth E] MOL2 format, chain M [auth E] MOL2 format, chain K [auth C] MOL2 format, chain I [auth A] MOL2 format, chain H [auth A] mmCIF format, chain N [auth E] mmCIF format, chain M [auth E] mmCIF format, chain K [auth C] mmCIF format, chain I [auth A] mmCIF format, chain H [auth A]	H [auth A], I [auth A], K [auth C], M [auth E], N [auth E]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C₈ H₁₈ N₂ O₄ S JKMHFZQWWAIEOD-UHFFFAOYSA-N		Interactions Focus chain H [auth A] Focus chain I [auth A] Focus chain K [auth C] Focus chain M [auth E] Focus chain N [auth E] Interactions & Density Focus chain H [auth A] Focus chain I [auth A] Focus chain K [auth C] Focus chain M [auth E] Focus chain N [auth E]
PEG Query on PEG Download Ideal Coordinates CCD File SDF format, chain O [auth F] SDF format, chain L [auth D] MOL2 format, chain O [auth F] MOL2 format, chain L [auth D] mmCIF format, chain O [auth F] mmCIF format, chain L [auth D]	L [auth D], O [auth F]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain L [auth D] Focus chain O [auth F] Interactions & Density Focus chain L [auth D] Focus chain O [auth F]
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain J [auth B] SDF format, chain G [auth A] MOL2 format, chain J [auth B] MOL2 format, chain G [auth A] mmCIF format, chain J [auth B] mmCIF format, chain G [auth A]	G [auth A], J [auth B]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain G [auth A] Focus chain J [auth B] Interactions & Density Focus chain G [auth A] Focus chain J [auth B]