8H8P | pdb_00008h8p

Crystal structure of thiomorpholine-carboxylate dehydrogenase from Candida parapsilosis.

PDB DOI: https://doi.org/10.2210/pdb8H8P/pdb

Classification: OXIDOREDUCTASE
Organism(s): Candida parapsilosis
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2022-10-24 Released: 2023-10-25
Deposition Author(s): Uma Mahesh, M.V.N., Abhishek, S., Faidh, M.A., Rajakumara, E., Chadha, A.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free:
0.245 (Depositor), 0.240 (DCC)
R-Value Work:
0.219 (Depositor), 0.220 (DCC)
R-Value Observed:
0.220 (Depositor)

Starting Model: in silico
View more details

wwPDB Validation 3D Report Full Report

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

Literature

Structure and mechanism of a Ornithine cyclodeaminase/Mu-crystallin homolog purified from Candida parapsilosis ATCC 7330.

Uma Mahesh, M.V.N., Abhishek, S., Faidh, M.A., Rajakumara, E., Chadha, A.

To be published.

Macromolecule Content

Total Structure Weight: 167.51 kDa
Atom Count: 10,409
Modeled Residue Count: 1,407
Deposited Residue Count: 1,484
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Thiomorpholine-carboxylate dehydrogenase	A [auth B], B [auth A], C, D	371	Candida parapsilosis	Mutation(s): 1 Gene Names: CPAR2_804260
UniProt
Find proteins for G8BA04 (Candida parapsilosis (strain CDC 317 / ATCC MYA-4646)) Explore G8BA04 Go to UniProtKB: G8BA04
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	G8BA04
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain AA [auth C] SDF format, chain BA [auth C] SDF format, chain E [auth B] SDF format, chain EA [auth C] SDF format, chain F [auth B] SDF format, chain FA [auth D] SDF format, chain G [auth B] SDF format, chain GA [auth D] SDF format, chain H [auth B] SDF format, chain HA [auth D] SDF format, chain I [auth B] SDF format, chain IA [auth D] SDF format, chain J [auth B] SDF format, chain JA [auth D] SDF format, chain K [auth B] SDF format, chain N [auth A] SDF format, chain O [auth A] SDF format, chain P [auth A] SDF format, chain W [auth C] SDF format, chain X [auth C] SDF format, chain Y [auth C] SDF format, chain Z [auth C] MOL2 format, chain AA [auth C] MOL2 format, chain BA [auth C] MOL2 format, chain E [auth B] MOL2 format, chain EA [auth C] MOL2 format, chain F [auth B] MOL2 format, chain FA [auth D] MOL2 format, chain G [auth B] MOL2 format, chain GA [auth D] MOL2 format, chain H [auth B] MOL2 format, chain HA [auth D] MOL2 format, chain I [auth B] MOL2 format, chain IA [auth D] MOL2 format, chain J [auth B] MOL2 format, chain JA [auth D] MOL2 format, chain K [auth B] MOL2 format, chain N [auth A] MOL2 format, chain O [auth A] MOL2 format, chain P [auth A] MOL2 format, chain W [auth C] MOL2 format, chain X [auth C] MOL2 format, chain Y [auth C] MOL2 format, chain Z [auth C] mmCIF format, chain AA [auth C] mmCIF format, chain BA [auth C] mmCIF format, chain E [auth B] mmCIF format, chain EA [auth C] mmCIF format, chain F [auth B] mmCIF format, chain FA [auth D] mmCIF format, chain G [auth B] mmCIF format, chain GA [auth D] mmCIF format, chain H [auth B] mmCIF format, chain HA [auth D] mmCIF format, chain I [auth B] mmCIF format, chain IA [auth D] mmCIF format, chain J [auth B] mmCIF format, chain JA [auth D] mmCIF format, chain K [auth B] mmCIF format, chain N [auth A] mmCIF format, chain O [auth A] mmCIF format, chain P [auth A] mmCIF format, chain W [auth C] mmCIF format, chain X [auth C] mmCIF format, chain Y [auth C] mmCIF format, chain Z [auth C]	AA [auth C] BA [auth C] E [auth B] EA [auth C] F [auth B] AA [auth C], BA [auth C], E [auth B], EA [auth C], F [auth B], FA [auth D], G [auth B], GA [auth D], H [auth B], HA [auth D], I [auth B], IA [auth D], J [auth B], JA [auth D], K [auth B], N [auth A], O [auth A], P [auth A], W [auth C], X [auth C], Y [auth C], Z [auth C]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain AA [auth C] Focus chain BA [auth C] Focus chain E [auth B] Focus chain EA [auth C] Focus chain F [auth B] Focus chain FA [auth D] Focus chain G [auth B] Focus chain GA [auth D] Focus chain H [auth B] Focus chain HA [auth D] Focus chain I [auth B] Focus chain IA [auth D] Focus chain J [auth B] Focus chain JA [auth D] Focus chain K [auth B] Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth A] Focus chain W [auth C] Focus chain X [auth C] Focus chain Y [auth C] Focus chain Z [auth C] Interactions & Density Focus chain AA [auth C] Focus chain BA [auth C] Focus chain E [auth B] Focus chain EA [auth C] Focus chain F [auth B] Focus chain FA [auth D] Focus chain G [auth B] Focus chain GA [auth D] Focus chain H [auth B] Focus chain HA [auth D] Focus chain I [auth B] Focus chain IA [auth D] Focus chain J [auth B] Focus chain JA [auth D] Focus chain K [auth B] Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth A] Focus chain W [auth C] Focus chain X [auth C] Focus chain Y [auth C] Focus chain Z [auth C]
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain DA [auth C] SDF format, chain M [auth B] SDF format, chain T [auth A] SDF format, chain U [auth A] MOL2 format, chain DA [auth C] MOL2 format, chain M [auth B] MOL2 format, chain T [auth A] MOL2 format, chain U [auth A] mmCIF format, chain DA [auth C] mmCIF format, chain M [auth B] mmCIF format, chain T [auth A] mmCIF format, chain U [auth A]	DA [auth C], M [auth B], T [auth A], U [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain DA [auth C] Focus chain M [auth B] Focus chain T [auth A] Focus chain U [auth A] Interactions & Density Focus chain DA [auth C] Focus chain M [auth B] Focus chain T [auth A] Focus chain U [auth A]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain CA [auth C] SDF format, chain V [auth A] MOL2 format, chain CA [auth C] MOL2 format, chain V [auth A] mmCIF format, chain CA [auth C] mmCIF format, chain V [auth A]	CA [auth C], V [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain CA [auth C] Focus chain V [auth A] Interactions & Density Focus chain CA [auth C] Focus chain V [auth A]
NA Query on NA Download Ideal Coordinates CCD File SDF format, chain L [auth B] SDF format, chain Q [auth A] SDF format, chain R [auth A] SDF format, chain S [auth A] MOL2 format, chain L [auth B] MOL2 format, chain Q [auth A] MOL2 format, chain R [auth A] MOL2 format, chain S [auth A] mmCIF format, chain L [auth B] mmCIF format, chain Q [auth A] mmCIF format, chain R [auth A] mmCIF format, chain S [auth A]	L [auth B], Q [auth A], R [auth A], S [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain L [auth B] Focus chain Q [auth A] Focus chain R [auth A] Focus chain S [auth A] Interactions & Density Focus chain L [auth B] Focus chain Q [auth A] Focus chain R [auth A] Focus chain S [auth A]