7E4U

Crystal structure of Peroxiredoxin-1

PDB DOI: https://doi.org/10.2210/pdb7E4U/pdb

Classification: OXIDOREDUCTASE
Organism(s): Sparus aurata
Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
Mutation(s): No

Deposited: 2021-02-15 Released: 2022-02-16
Deposition Author(s): Ahmed, S., Mok, Y.K., Jobichen, C.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free:
0.252 (Depositor), 0.250 (DCC)
R-Value Work:
0.206 (Depositor), 0.210 (DCC)
R-Value Observed:
0.206 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of Peroxiredoxin-1

Ahmed, S., Mok, Y.K., Jobichen, C.

To be published.

Macromolecule Content

Total Structure Weight: 221.34 kDa
Atom Count: 13,730
Modelled Residue Count: 1,722
Deposited Residue Count: 1,980
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peroxiredoxin 1	A, B, C, D, E A, B, C, D, E, F, G, H, I, J	198	Sparus aurata	Mutation(s): 0 Gene Names: PRDX1 EC: 1.11.1.24
UniProt
Find proteins for A0A671UQR2 (Sparus aurata) Explore A0A671UQR2 Go to UniProtKB: A0A671UQR2
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A671UQR2
Sequence Annotations Expand
Reference Sequence LOADING

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain P [auth C] SDF format, chain Q [auth C] SDF format, chain S [auth E] SDF format, chain U [auth F] SDF format, chain V [auth F] SDF format, chain W [auth F] SDF format, chain Z [auth G] MOL2 format, chain P [auth C] MOL2 format, chain Q [auth C] MOL2 format, chain S [auth E] MOL2 format, chain U [auth F] MOL2 format, chain V [auth F] MOL2 format, chain W [auth F] MOL2 format, chain Z [auth G] mmCIF format, chain P [auth C] mmCIF format, chain Q [auth C] mmCIF format, chain S [auth E] mmCIF format, chain U [auth F] mmCIF format, chain V [auth F] mmCIF format, chain W [auth F] mmCIF format, chain Z [auth G]	P [auth C] Q [auth C] S [auth E] U [auth F] V [auth F] P [auth C], Q [auth C], S [auth E], U [auth F], V [auth F], W [auth F], Z [auth G]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain P [auth C] Focus chain Q [auth C] Focus chain S [auth E] Focus chain U [auth F] Focus chain V [auth F] Focus chain W [auth F] Focus chain Z [auth G] Interactions & Density Focus chain P [auth C] Focus chain Q [auth C] Focus chain S [auth E] Focus chain U [auth F] Focus chain V [auth F] Focus chain W [auth F] Focus chain Z [auth G]
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain AA [auth I] SDF format, chain BA [auth I] SDF format, chain K [auth A] SDF format, chain L [auth A] SDF format, chain M [auth A] SDF format, chain N [auth A] SDF format, chain O [auth B] SDF format, chain R [auth D] SDF format, chain T [auth E] SDF format, chain X [auth F] SDF format, chain Y [auth F] MOL2 format, chain AA [auth I] MOL2 format, chain BA [auth I] MOL2 format, chain K [auth A] MOL2 format, chain L [auth A] MOL2 format, chain M [auth A] MOL2 format, chain N [auth A] MOL2 format, chain O [auth B] MOL2 format, chain R [auth D] MOL2 format, chain T [auth E] MOL2 format, chain X [auth F] MOL2 format, chain Y [auth F] mmCIF format, chain AA [auth I] mmCIF format, chain BA [auth I] mmCIF format, chain K [auth A] mmCIF format, chain L [auth A] mmCIF format, chain M [auth A] mmCIF format, chain N [auth A] mmCIF format, chain O [auth B] mmCIF format, chain R [auth D] mmCIF format, chain T [auth E] mmCIF format, chain X [auth F] mmCIF format, chain Y [auth F]	AA [auth I] BA [auth I] K [auth A] L [auth A] M [auth A] AA [auth I], BA [auth I], K [auth A], L [auth A], M [auth A], N [auth A], O [auth B], R [auth D], T [auth E], X [auth F], Y [auth F]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain AA [auth I] Focus chain BA [auth I] Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth B] Focus chain R [auth D] Focus chain T [auth E] Focus chain X [auth F] Focus chain Y [auth F] Interactions & Density Focus chain AA [auth I] Focus chain BA [auth I] Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth B] Focus chain R [auth D] Focus chain T [auth E] Focus chain X [auth F] Focus chain Y [auth F]