2KTD | pdb_00002ktd

Solution structure of mouse lipocalin-type prostaglandin D synthase / substrate analog (U-46619) complex

PDB DOI: https://doi.org/10.2210/pdb2KTD/pdb

Classification: ISOMERASE
Organism(s): Mus musculus
Expression System: Escherichia coli
Mutation(s): Yes
Membrane Protein: Yes OPM

Deposited: 2010-01-27 Released: 2011-02-02
Deposition Author(s): Shimamoto, S., Maruo, H., Yoshida, T., Kato, N., Ohkubo, T.

Experimental Data Snapshot

Method: SOLUTION NMR
Conformers Calculated: 1500
Conformers Submitted: 15
Selection Criteria: structures with the lowest energy

wwPDB Validation 3D Report Full Report

Validation slider image for 2KTD

This is version 1.2 of the entry. See complete history.

Literature

Solution Structure of Lipocalin-type Prostaglandin D synthase / Substrate analog complex reveals Open-Closed Conformational Change required for Substrate Recognition

Shimamoto, S., Maruo, H., Yoshida, T., Inui, T., Miyamoto, Y., Kobayashi, Y., Tsurumura, T., Aritake, K., Urade, Y., Ohkubo, T.

To be published.

Macromolecule Content

Total Structure Weight: 18.94 kDa
Atom Count: 1,335
Modeled Residue Count: 167
Deposited Residue Count: 167
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Prostaglandin-H2 D-isomerase	A	167	Mus musculus	Mutation(s): 2 Gene Names: Ptgds EC: 5.3.99.2 Membrane Entity: Yes
UniProt
Find proteins for O09114 (Mus musculus) Explore O09114 Go to UniProtKB: O09114
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O09114
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PUC Query on PUC Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	(5Z)-7-{(1R,4S,5S,6R)-6-[(1E,3S)-3-hydroxyoct-1-en-1-yl]-2-oxabicyclo[2.2.1]hept-5-yl}hept-5-enoic acid C₂₁ H₃₄ O₄ LQANGKSBLPMBTJ-BRSNVKEHSA-N		Interactions Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: SOLUTION NMR
Conformers Calculated: 1500
Conformers Submitted: 15
Selection Criteria: structures with the lowest energy

Structure Validation

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Entry History

Deposition Data

Released Date: 2011-02-02

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2011-02-02
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2024-05-01
Changes: Data collection, Database references, Derived calculations

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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.