8CH9 | pdb_00008ch9

Crystal structure of arsenite oxidase from Alcaligenes faecalis (Af Aio) bound to arsenic oxyanion

PDB DOI: https://doi.org/10.2210/pdb8CH9/pdb

Classification: OXIDOREDUCTASE
Organism(s): Alcaligenes faecalis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-02-07 Released: 2024-02-21
Deposition Author(s): Engrola, F., Correia, M.A.S., Romao, M.J., Santos-Silva, T.
Funding Organization(s): Fundacao para a Ciencia e a Tecnologia

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.43 Å
R-Value Free:
0.195 (Depositor), 0.198 (DCC)
R-Value Work:
0.167 (Depositor), 0.172 (DCC)
R-Value Observed:
0.168 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Crystal structure of arsenite oxidase from Alcaligenes faecalis (Af Aio) bound to arsenic oxyanion

Engrola, F., Correia, M.A.S., Romao, M.J., Santos-Silva, T.

To be published.

Macromolecule Content

Total Structure Weight: 437.47 kDa
Atom Count: 35,090
Modeled Residue Count: 3,822
Deposited Residue Count: 3,828
Unique protein chains: 3

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Arsenite oxidase subunit AioA	A, C, E	823	Alcaligenes faecalis	Mutation(s): 0 Gene Names: aioA, aoxB, asoA EC: 1.20.9.1
UniProt
Find proteins for Q7SIF4 (Alcaligenes faecalis) Explore Q7SIF4 Go to UniProtKB: Q7SIF4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q7SIF4
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Arsenite oxidase subunit AioB	B, D, F, H	134	Alcaligenes faecalis	Mutation(s): 0 Gene Names: aioB, aoxA, asoB EC: 1.20.9.1
UniProt
Find proteins for Q7SIF3 (Alcaligenes faecalis) Explore Q7SIF3 Go to UniProtKB: Q7SIF3
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q7SIF3
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Arsenite oxidase subunit AioA	G	823	Alcaligenes faecalis	Mutation(s): 0 Gene Names: aioA, aoxB, asoA EC: 1.20.9.1
UniProt
Find proteins for Q7SIF4 (Alcaligenes faecalis) Explore Q7SIF4 Go to UniProtKB: Q7SIF4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q7SIF4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 9 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MGD Query on MGD Download:Ideal Coordinates CCD File SDF format, chain I [auth A] SDF format, chain J [auth A] SDF format, chain LA [auth E] SDF format, chain MA [auth E] SDF format, chain W [auth C] SDF format, chain X [auth C] SDF format, chain YA [auth G] SDF format, chain ZA [auth G] MOL2 format, chain I [auth A] MOL2 format, chain J [auth A] MOL2 format, chain LA [auth E] MOL2 format, chain MA [auth E] MOL2 format, chain W [auth C] MOL2 format, chain X [auth C] MOL2 format, chain YA [auth G] MOL2 format, chain ZA [auth G] mmCIF format, chain I [auth A] mmCIF format, chain J [auth A] mmCIF format, chain LA [auth E] mmCIF format, chain MA [auth E] mmCIF format, chain W [auth C] mmCIF format, chain X [auth C] mmCIF format, chain YA [auth G] mmCIF format, chain ZA [auth G]	I [auth A] J [auth A] LA [auth E] MA [auth E] W [auth C] I [auth A], J [auth A], LA [auth E], MA [auth E], W [auth C], X [auth C], YA [auth G], ZA [auth G]	2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINE DINUCLEOTIDE C₂₀ H₂₆ N₁₀ O₁₃ P₂ S₂ VQAGYJCYOLHZDH-ILXWUORBSA-N		Interactions Focus chain I [auth A] Focus chain J [auth A] Focus chain LA [auth E] Focus chain MA [auth E] Focus chain W [auth C] Focus chain X [auth C] Focus chain YA [auth G] Focus chain ZA [auth G] Interactions & Density Focus chain I [auth A] Focus chain J [auth A] Focus chain LA [auth E] Focus chain MA [auth E] Focus chain W [auth C] Focus chain X [auth C] Focus chain YA [auth G] Focus chain ZA [auth G]
F3S Query on F3S Download:Ideal Coordinates CCD File SDF format, chain AB [auth G] SDF format, chain K [auth A] SDF format, chain NA [auth E] SDF format, chain Y [auth C] MOL2 format, chain AB [auth G] MOL2 format, chain K [auth A] MOL2 format, chain NA [auth E] MOL2 format, chain Y [auth C] mmCIF format, chain AB [auth G] mmCIF format, chain K [auth A] mmCIF format, chain NA [auth E] mmCIF format, chain Y [auth C]	AB [auth G], K [auth A], NA [auth E], Y [auth C]	FE3-S4 CLUSTER Fe₃ S₄ FCXHZBQOKRZXKS-UHFFFAOYSA-N		Interactions Focus chain AB [auth G] Focus chain K [auth A] Focus chain NA [auth E] Focus chain Y [auth C] Interactions & Density Focus chain AB [auth G] Focus chain K [auth A] Focus chain NA [auth E] Focus chain Y [auth C]
FC6 Query on FC6 Download:Ideal Coordinates CCD File SDF format, chain AA [auth C] SDF format, chain BB [auth G] SDF format, chain L [auth A] SDF format, chain PA [auth E] MOL2 format, chain AA [auth C] MOL2 format, chain BB [auth G] MOL2 format, chain L [auth A] MOL2 format, chain PA [auth E] mmCIF format, chain AA [auth C] mmCIF format, chain BB [auth G] mmCIF format, chain L [auth A] mmCIF format, chain PA [auth E]	AA [auth C], BB [auth G], L [auth A], PA [auth E]	HEXACYANOFERRATE(3-) C₆ Fe N₆ HCMVSLMENOCDCK-UHFFFAOYSA-N		Interactions Focus chain AA [auth C] Focus chain BB [auth G] Focus chain L [auth A] Focus chain PA [auth E] Interactions & Density Focus chain AA [auth C] Focus chain BB [auth G] Focus chain L [auth A] Focus chain PA [auth E]
FES Query on FES Download:Ideal Coordinates CCD File SDF format, chain IB [auth H] SDF format, chain JA [auth D] SDF format, chain U [auth B] SDF format, chain WA [auth F] MOL2 format, chain IB [auth H] MOL2 format, chain JA [auth D] MOL2 format, chain U [auth B] MOL2 format, chain WA [auth F] mmCIF format, chain IB [auth H] mmCIF format, chain JA [auth D] mmCIF format, chain U [auth B] mmCIF format, chain WA [auth F]	IB [auth H], JA [auth D], U [auth B], WA [auth F]	FE2/S2 (INORGANIC) CLUSTER Fe₂ S₂ NIXDOXVAJZFRNF-UHFFFAOYSA-N		Interactions Focus chain IB [auth H] Focus chain JA [auth D] Focus chain U [auth B] Focus chain WA [auth F] Interactions & Density Focus chain IB [auth H] Focus chain JA [auth D] Focus chain U [auth B] Focus chain WA [auth F]
ART (Subject of Investigation/LOI) Query on ART Download:Ideal Coordinates CCD File SDF format, chain DB [auth G] SDF format, chain N [auth A] SDF format, chain OA [auth E] SDF format, chain Z [auth C] MOL2 format, chain DB [auth G] MOL2 format, chain N [auth A] MOL2 format, chain OA [auth E] MOL2 format, chain Z [auth C] mmCIF format, chain DB [auth G] mmCIF format, chain N [auth A] mmCIF format, chain OA [auth E] mmCIF format, chain Z [auth C]	DB [auth G], N [auth A], OA [auth E], Z [auth C]	ARSENATE As O₄ DJHGAFSJWGLOIV-UHFFFAOYSA-K		Interactions Focus chain DB [auth G] Focus chain N [auth A] Focus chain OA [auth E] Focus chain Z [auth C] Interactions & Density Focus chain DB [auth G] Focus chain N [auth A] Focus chain OA [auth E] Focus chain Z [auth C]
PEG Query on PEG Download:Ideal Coordinates CCD File SDF format, chain GA [auth C] SDF format, chain JB [auth H] MOL2 format, chain GA [auth C] MOL2 format, chain JB [auth H] mmCIF format, chain GA [auth C] mmCIF format, chain JB [auth H]	GA [auth C], JB [auth H]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain GA [auth C] Focus chain JB [auth H] Interactions & Density Focus chain GA [auth C] Focus chain JB [auth H]
4MO (Subject of Investigation/LOI) Query on 4MO Download:Ideal Coordinates CCD File SDF format, chain CB [auth G] SDF format, chain EA [auth C] SDF format, chain M [auth A] SDF format, chain QA [auth E] MOL2 format, chain CB [auth G] MOL2 format, chain EA [auth C] MOL2 format, chain M [auth A] MOL2 format, chain QA [auth E] mmCIF format, chain CB [auth G] mmCIF format, chain EA [auth C] mmCIF format, chain M [auth A] mmCIF format, chain QA [auth E]	CB [auth G], EA [auth C], M [auth A], QA [auth E]	MOLYBDENUM(IV) ION Mo ZIKKVZAYJJZBGE-UHFFFAOYSA-N		Interactions Focus chain CB [auth G] Focus chain EA [auth C] Focus chain M [auth A] Focus chain QA [auth E] Interactions & Density Focus chain CB [auth G] Focus chain EA [auth C] Focus chain M [auth A] Focus chain QA [auth E]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain BA [auth C] SDF format, chain CA [auth C] SDF format, chain DA [auth C] SDF format, chain EB [auth G] SDF format, chain FB [auth G] SDF format, chain GB [auth G] SDF format, chain HB [auth G] SDF format, chain O [auth A] SDF format, chain P [auth A] SDF format, chain RA [auth E] SDF format, chain SA [auth E] SDF format, chain T [auth A] SDF format, chain TA [auth E] SDF format, chain UA [auth E] SDF format, chain V [auth B] MOL2 format, chain BA [auth C] MOL2 format, chain CA [auth C] MOL2 format, chain DA [auth C] MOL2 format, chain EB [auth G] MOL2 format, chain FB [auth G] MOL2 format, chain GB [auth G] MOL2 format, chain HB [auth G] MOL2 format, chain O [auth A] MOL2 format, chain P [auth A] MOL2 format, chain RA [auth E] MOL2 format, chain SA [auth E] MOL2 format, chain T [auth A] MOL2 format, chain TA [auth E] MOL2 format, chain UA [auth E] MOL2 format, chain V [auth B] mmCIF format, chain BA [auth C] mmCIF format, chain CA [auth C] mmCIF format, chain DA [auth C] mmCIF format, chain EB [auth G] mmCIF format, chain FB [auth G] mmCIF format, chain GB [auth G] mmCIF format, chain HB [auth G] mmCIF format, chain O [auth A] mmCIF format, chain P [auth A] mmCIF format, chain RA [auth E] mmCIF format, chain SA [auth E] mmCIF format, chain T [auth A] mmCIF format, chain TA [auth E] mmCIF format, chain UA [auth E] mmCIF format, chain V [auth B]	BA [auth C] CA [auth C] DA [auth C] EB [auth G] FB [auth G] BA [auth C], CA [auth C], DA [auth C], EB [auth G], FB [auth G], GB [auth G], HB [auth G], O [auth A], P [auth A], RA [auth E], SA [auth E], T [auth A], TA [auth E], UA [auth E], V [auth B]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain BA [auth C] Focus chain CA [auth C] Focus chain DA [auth C] Focus chain EB [auth G] Focus chain FB [auth G] Focus chain GB [auth G] Focus chain HB [auth G] Focus chain O [auth A] Focus chain P [auth A] Focus chain RA [auth E] Focus chain SA [auth E] Focus chain T [auth A] Focus chain TA [auth E] Focus chain UA [auth E] Focus chain V [auth B] Interactions & Density Focus chain BA [auth C] Focus chain CA [auth C] Focus chain DA [auth C] Focus chain EB [auth G] Focus chain FB [auth G] Focus chain GB [auth G] Focus chain HB [auth G] Focus chain O [auth A] Focus chain P [auth A] Focus chain RA [auth E] Focus chain SA [auth E] Focus chain T [auth A] Focus chain TA [auth E] Focus chain UA [auth E] Focus chain V [auth B]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain FA [auth C] SDF format, chain HA [auth C] SDF format, chain IA [auth C] SDF format, chain KA [auth D] SDF format, chain Q [auth A] SDF format, chain R [auth A] SDF format, chain S [auth A] SDF format, chain VA [auth E] SDF format, chain XA [auth G] MOL2 format, chain FA [auth C] MOL2 format, chain HA [auth C] MOL2 format, chain IA [auth C] MOL2 format, chain KA [auth D] MOL2 format, chain Q [auth A] MOL2 format, chain R [auth A] MOL2 format, chain S [auth A] MOL2 format, chain VA [auth E] MOL2 format, chain XA [auth G] mmCIF format, chain FA [auth C] mmCIF format, chain HA [auth C] mmCIF format, chain IA [auth C] mmCIF format, chain KA [auth D] mmCIF format, chain Q [auth A] mmCIF format, chain R [auth A] mmCIF format, chain S [auth A] mmCIF format, chain VA [auth E] mmCIF format, chain XA [auth G]	FA [auth C] HA [auth C] IA [auth C] KA [auth D] Q [auth A] FA [auth C], HA [auth C], IA [auth C], KA [auth D], Q [auth A], R [auth A], S [auth A], VA [auth E], XA [auth G]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain FA [auth C] Focus chain HA [auth C] Focus chain IA [auth C] Focus chain KA [auth D] Focus chain Q [auth A] Focus chain R [auth A] Focus chain S [auth A] Focus chain VA [auth E] Focus chain XA [auth G] Interactions & Density Focus chain FA [auth C] Focus chain HA [auth C] Focus chain IA [auth C] Focus chain KA [auth D] Focus chain Q [auth A] Focus chain R [auth A] Focus chain S [auth A] Focus chain VA [auth E] Focus chain XA [auth G]