4GUN | pdb_00004gun

Crystal Structure of the K184R, L185P mutant manganese superoxide dismutase from Candida albicans cytosol

PDB DOI: https://doi.org/10.2210/pdb4GUN/pdb

Classification: OXIDOREDUCTASE
Organism(s): Candida albicans
Expression System: Saccharomyces cerevisiae
Mutation(s): Yes

Deposited: 2012-08-29 Released: 2013-09-18
Deposition Author(s): Sheng, Y., Cascio, D., Valentine, J.S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.94 Å
R-Value Free:
0.266 (Depositor), 0.247 (DCC)
R-Value Work:
0.238 (Depositor), 0.245 (DCC)
R-Value Observed:
0.239 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Crystal Structure of the K184R, L185P mutant manganese superoxide dismutase from Candida albicans cytosol

Sheng, Y., Cascio, D., Valentine, J.S.

To be published.

Macromolecule Content

Total Structure Weight: 367.75 kDa
Atom Count: 26,678
Modeled Residue Count: 3,279
Deposited Residue Count: 3,296
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Superoxide dismutase	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	206	Candida albicans	Mutation(s): 2 Gene Names: CaJ7.0018, SOD3 EC: 1.15.1.1
UniProt
Find proteins for Q96UT6 (Candida albicans) Explore Q96UT6 Go to UniProtKB: Q96UT6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q96UT6
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain BA [auth E] SDF format, chain DB [auth O] SDF format, chain HA [auth G] SDF format, chain KA [auth H] SDF format, chain NA [auth I] SDF format, chain QA [auth J] SDF format, chain R [auth A] SDF format, chain T [auth B] SDF format, chain Y [auth D] SDF format, chain Z [auth D] SDF format, chain ZA [auth M] SDF format, chain YA [auth M] SDF format, chain WA [auth L] SDF format, chain W [auth C] SDF format, chain VA [auth L] SDF format, chain V [auth C] SDF format, chain TA [auth K] SDF format, chain RA [auth J] SDF format, chain OA [auth I] SDF format, chain LA [auth H] SDF format, chain IA [auth G] SDF format, chain FA [auth F] SDF format, chain EB [auth O] SDF format, chain EA [auth F] SDF format, chain CA [auth E] SDF format, chain BB [auth N] MOL2 format, chain BA [auth E] MOL2 format, chain DB [auth O] MOL2 format, chain HA [auth G] MOL2 format, chain KA [auth H] MOL2 format, chain NA [auth I] MOL2 format, chain QA [auth J] MOL2 format, chain R [auth A] MOL2 format, chain T [auth B] MOL2 format, chain Y [auth D] MOL2 format, chain Z [auth D] MOL2 format, chain ZA [auth M] MOL2 format, chain YA [auth M] MOL2 format, chain WA [auth L] MOL2 format, chain W [auth C] MOL2 format, chain VA [auth L] MOL2 format, chain V [auth C] MOL2 format, chain TA [auth K] MOL2 format, chain RA [auth J] MOL2 format, chain OA [auth I] MOL2 format, chain LA [auth H] MOL2 format, chain IA [auth G] MOL2 format, chain FA [auth F] MOL2 format, chain EB [auth O] MOL2 format, chain EA [auth F] MOL2 format, chain CA [auth E] MOL2 format, chain BB [auth N] mmCIF format, chain BA [auth E] mmCIF format, chain DB [auth O] mmCIF format, chain HA [auth G] mmCIF format, chain KA [auth H] mmCIF format, chain NA [auth I] mmCIF format, chain QA [auth J] mmCIF format, chain R [auth A] mmCIF format, chain T [auth B] mmCIF format, chain Y [auth D] mmCIF format, chain Z [auth D] mmCIF format, chain ZA [auth M] mmCIF format, chain YA [auth M] mmCIF format, chain WA [auth L] mmCIF format, chain W [auth C] mmCIF format, chain VA [auth L] mmCIF format, chain V [auth C] mmCIF format, chain TA [auth K] mmCIF format, chain RA [auth J] mmCIF format, chain OA [auth I] mmCIF format, chain LA [auth H] mmCIF format, chain IA [auth G] mmCIF format, chain FA [auth F] mmCIF format, chain EB [auth O] mmCIF format, chain EA [auth F] mmCIF format, chain CA [auth E] mmCIF format, chain BB [auth N]	BA [auth E] BB [auth N] CA [auth E] DB [auth O] EA [auth F] BA [auth E], BB [auth N], CA [auth E], DB [auth O], EA [auth F], EB [auth O], FA [auth F], HA [auth G], IA [auth G], KA [auth H], LA [auth H], NA [auth I], OA [auth I], QA [auth J], R [auth A], RA [auth J], T [auth B], TA [auth K], V [auth C], VA [auth L], W [auth C], WA [auth L], Y [auth D], YA [auth M], Z [auth D], ZA [auth M]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain BA [auth E] Focus chain BB [auth N] Focus chain CA [auth E] Focus chain DB [auth O] Focus chain EA [auth F] Focus chain EB [auth O] Focus chain FA [auth F] Focus chain HA [auth G] Focus chain IA [auth G] Focus chain KA [auth H] Focus chain LA [auth H] Focus chain NA [auth I] Focus chain OA [auth I] Focus chain QA [auth J] Focus chain R [auth A] Focus chain RA [auth J] Focus chain T [auth B] Focus chain TA [auth K] Focus chain V [auth C] Focus chain VA [auth L] Focus chain W [auth C] Focus chain WA [auth L] Focus chain Y [auth D] Focus chain YA [auth M] Focus chain Z [auth D] Focus chain ZA [auth M] Interactions & Density Focus chain BA [auth E] Focus chain BB [auth N] Focus chain CA [auth E] Focus chain DB [auth O] Focus chain EA [auth F] Focus chain EB [auth O] Focus chain FA [auth F] Focus chain HA [auth G] Focus chain IA [auth G] Focus chain KA [auth H] Focus chain LA [auth H] Focus chain NA [auth I] Focus chain OA [auth I] Focus chain QA [auth J] Focus chain R [auth A] Focus chain RA [auth J] Focus chain T [auth B] Focus chain TA [auth K] Focus chain V [auth C] Focus chain VA [auth L] Focus chain W [auth C] Focus chain WA [auth L] Focus chain Y [auth D] Focus chain YA [auth M] Focus chain Z [auth D] Focus chain ZA [auth M]
MN Query on MN Download:Ideal Coordinates CCD File SDF format, chain DA [auth F] SDF format, chain MA [auth I] SDF format, chain PA [auth J] SDF format, chain SA [auth K] SDF format, chain XA [auth M] SDF format, chain X [auth D] SDF format, chain UA [auth L] SDF format, chain U [auth C] SDF format, chain S [auth B] SDF format, chain Q [auth A] SDF format, chain JA [auth H] SDF format, chain GA [auth G] SDF format, chain FB [auth P] SDF format, chain CB [auth O] SDF format, chain AB [auth N] SDF format, chain AA [auth E] MOL2 format, chain DA [auth F] MOL2 format, chain MA [auth I] MOL2 format, chain PA [auth J] MOL2 format, chain SA [auth K] MOL2 format, chain XA [auth M] MOL2 format, chain X [auth D] MOL2 format, chain UA [auth L] MOL2 format, chain U [auth C] MOL2 format, chain S [auth B] MOL2 format, chain Q [auth A] MOL2 format, chain JA [auth H] MOL2 format, chain GA [auth G] MOL2 format, chain FB [auth P] MOL2 format, chain CB [auth O] MOL2 format, chain AB [auth N] MOL2 format, chain AA [auth E] mmCIF format, chain DA [auth F] mmCIF format, chain MA [auth I] mmCIF format, chain PA [auth J] mmCIF format, chain SA [auth K] mmCIF format, chain XA [auth M] mmCIF format, chain X [auth D] mmCIF format, chain UA [auth L] mmCIF format, chain U [auth C] mmCIF format, chain S [auth B] mmCIF format, chain Q [auth A] mmCIF format, chain JA [auth H] mmCIF format, chain GA [auth G] mmCIF format, chain FB [auth P] mmCIF format, chain CB [auth O] mmCIF format, chain AB [auth N] mmCIF format, chain AA [auth E]	AA [auth E] AB [auth N] CB [auth O] DA [auth F] FB [auth P] AA [auth E], AB [auth N], CB [auth O], DA [auth F], FB [auth P], GA [auth G], JA [auth H], MA [auth I], PA [auth J], Q [auth A], S [auth B], SA [auth K], U [auth C], UA [auth L], X [auth D], XA [auth M]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N		Interactions Focus chain AA [auth E] Focus chain AB [auth N] Focus chain CB [auth O] Focus chain DA [auth F] Focus chain FB [auth P] Focus chain GA [auth G] Focus chain JA [auth H] Focus chain MA [auth I] Focus chain PA [auth J] Focus chain Q [auth A] Focus chain S [auth B] Focus chain SA [auth K] Focus chain U [auth C] Focus chain UA [auth L] Focus chain X [auth D] Focus chain XA [auth M] Interactions & Density Focus chain AA [auth E] Focus chain AB [auth N] Focus chain CB [auth O] Focus chain DA [auth F] Focus chain FB [auth P] Focus chain GA [auth G] Focus chain JA [auth H] Focus chain MA [auth I] Focus chain PA [auth J] Focus chain Q [auth A] Focus chain S [auth B] Focus chain SA [auth K] Focus chain U [auth C] Focus chain UA [auth L] Focus chain X [auth D] Focus chain XA [auth M]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.94 Å
R-Value Free: 0.266 (Depositor), 0.247 (DCC)
R-Value Work: 0.238 (Depositor), 0.245 (DCC)
R-Value Observed: 0.239 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 129.33	α = 90
b = 73.8	β = 109.3
c = 134.29	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHASER	phasing
BUSTER-TNT	refinement
PDB_EXTRACT	data extraction
CrystalClear	data collection
XDS	data reduction
BUSTER	refinement

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2013-09-18

Deposition Author(s):

Sheng, Y.

Cascio, D.

Valentine, J.S.

Revision History (Full details and data files)

Version 1.0: 2013-09-18
Type: Initial release
Version 1.1: 2023-09-13
Changes: Data collection, Database references, Derived calculations, Refinement description