3TUH | pdb_00003tuh

Crystal Structure of the N-terminal domain of an HSP90 in the presence of an the inhibitor ganetespib

PDB DOI: https://doi.org/10.2210/pdb3TUH/pdb

Classification: CHAPERONE/Inhibitor
Organism(s): Homo sapiens
Mutation(s): No

Deposited: 2011-09-16 Released: 2012-09-19
Deposition Author(s): Ying, W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.212 (Depositor), 0.213 (DCC)
R-Value Work:
0.172 (Depositor), 0.174 (DCC)

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Ligand Structure Quality Assessment

This is version 1.3 of the entry. See complete history.

Literature

Crystal Structure of the N-terminal domain of an HSP90 in the presence of an the inhibitor ganetespib

Ying, W.

To be published.

Macromolecule Content

Total Structure Weight: 47.51 kDa
Atom Count: 3,999
Modeled Residue Count: 417
Deposited Residue Count: 418
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Heat shock protein HSP 90-alpha	A, B	209	Homo sapiens	Mutation(s): 0 Gene Names: HSP90AA1, HSP90A, HSPC1, HSPCA EC: 3.6.4.10
UniProt & NIH Common Fund Data Resources
Find proteins for P07900 (Homo sapiens) Explore P07900 Go to UniProtKB: P07900
PHAROS: P07900 GTEx: ENSG00000080824
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P07900
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TUH Query on TUH Download:Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B]	5-[2,4-dihydroxy-5-(propan-2-yl)phenyl]-4-(1-methyl-1H-indol-5-yl)-2,4-dihydro-3H-1,2,4-triazol-3-one C₂₀ H₂₀ N₄ O₃ RVAQIUULWULRNW-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.212 (Depositor), 0.213 (DCC)
R-Value Work: 0.172 (Depositor), 0.174 (DCC)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.362	α = 90
b = 88.878	β = 99.41
c = 56.498	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement

Structure Validation

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Entry History

Deposition Data

Released Date: 2012-09-19

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2012-09-19
Type: Initial release
Version 1.1: 2018-03-07
Changes: Data collection
Version 1.2: 2021-11-17
Changes: Database references, Derived calculations, Structure summary
Version 1.3: 2024-02-28
Changes: Data collection

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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.