6Q62

Xanthomonas albilineans Dihydropteroate synthase in complex with (indole-2-carboxylic acid) and (6-chloroguanine)

PDB DOI: https://doi.org/10.2210/pdb6Q62/pdb

Classification: TRANSFERASE
Organism(s): Xanthomonas albilineans
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2018-12-10 Released: 2020-01-15
Deposition Author(s): Oliveira, A.A., Hyvonen, M., Guido, R.V.C.
Funding Organization(s): Sao Paulo Research Foundation

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.239
R-Value Work: 0.211
R-Value Observed: 0.213

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

Xanthomonas albilineans Dihydropteroate synthase in complex with (indole-2-carboxylic acid) and (6-chloroguanine)

Oliveira, A.A., Hyvonen, M., Guido, R.V.C.

To be published.

Macromolecule Content

Total Structure Weight: 129.92 kDa
Atom Count: 8,745
Modelled Residue Count: 1,064
Deposited Residue Count: 1,200
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dihydropteroate synthase	A, B [auth C], C [auth B], D	300	Xanthomonas albilineans	Mutation(s): 0 Gene Names: folP, XALc_1165 EC: 2.5.1.15
UniProt
Find proteins for D2UDM3 (Xanthomonas albilineans (strain GPE PC73 / CFBP 7063)) Explore D2UDM3 Go to UniProtKB: D2UDM3
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	D2UDM3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
6GU Query on 6GU Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain J [auth C] SDF format, chain O [auth B] SDF format, chain T [auth D] MOL2 format, chain E [auth A] MOL2 format, chain J [auth C] MOL2 format, chain O [auth B] MOL2 format, chain T [auth D] mmCIF format, chain E [auth A] mmCIF format, chain J [auth C] mmCIF format, chain O [auth B] mmCIF format, chain T [auth D]	E [auth A], J [auth C], O [auth B], T [auth D]	6-chloroguanine C₅ H₄ Cl N₅ RYYIULNRIVUMTQ-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain J [auth C] Focus chain O [auth B] Focus chain T [auth D] Interactions & Density Focus chain E [auth A] Focus chain J [auth C] Focus chain O [auth B] Focus chain T [auth D]
ICB Query on ICB Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain L [auth C] MOL2 format, chain G [auth A] MOL2 format, chain L [auth C] mmCIF format, chain G [auth A] mmCIF format, chain L [auth C]	G [auth A], L [auth C]	1H-indole-2-carboxylic acid C₉ H₇ N O₂ HCUARRIEZVDMPT-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain L [auth C] Interactions & Density Focus chain G [auth A] Focus chain L [auth C]
PEG Query on PEG Download Ideal Coordinates CCD File SDF format, chain U [auth D] SDF format, chain V [auth D] MOL2 format, chain U [auth D] MOL2 format, chain V [auth D] mmCIF format, chain U [auth D] mmCIF format, chain V [auth D]	U [auth D], V [auth D]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain U [auth D] Focus chain V [auth D] Interactions & Density Focus chain U [auth D] Focus chain V [auth D]
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain I [auth A] SDF format, chain M [auth C] SDF format, chain N [auth C] SDF format, chain Q [auth B] SDF format, chain R [auth B] SDF format, chain S [auth B] SDF format, chain Y [auth D] SDF format, chain Z [auth D] MOL2 format, chain H [auth A] MOL2 format, chain I [auth A] MOL2 format, chain M [auth C] MOL2 format, chain N [auth C] MOL2 format, chain Q [auth B] MOL2 format, chain R [auth B] MOL2 format, chain S [auth B] MOL2 format, chain Y [auth D] MOL2 format, chain Z [auth D] mmCIF format, chain H [auth A] mmCIF format, chain I [auth A] mmCIF format, chain M [auth C] mmCIF format, chain N [auth C] mmCIF format, chain Q [auth B] mmCIF format, chain R [auth B] mmCIF format, chain S [auth B] mmCIF format, chain Y [auth D] mmCIF format, chain Z [auth D]	H [auth A] I [auth A] M [auth C] N [auth C] Q [auth B] H [auth A], I [auth A], M [auth C], N [auth C], Q [auth B], R [auth B], S [auth B], Y [auth D], Z [auth D]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain H [auth A] Focus chain I [auth A] Focus chain M [auth C] Focus chain N [auth C] Focus chain Q [auth B] Focus chain R [auth B] Focus chain S [auth B] Focus chain Y [auth D] Focus chain Z [auth D] Interactions & Density Focus chain H [auth A] Focus chain I [auth A] Focus chain M [auth C] Focus chain N [auth C] Focus chain Q [auth B] Focus chain R [auth B] Focus chain S [auth B] Focus chain Y [auth D] Focus chain Z [auth D]
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain K [auth C] SDF format, chain P [auth B] SDF format, chain W [auth D] SDF format, chain X [auth D] MOL2 format, chain F [auth A] MOL2 format, chain K [auth C] MOL2 format, chain P [auth B] MOL2 format, chain W [auth D] MOL2 format, chain X [auth D] mmCIF format, chain F [auth A] mmCIF format, chain K [auth C] mmCIF format, chain P [auth B] mmCIF format, chain W [auth D] mmCIF format, chain X [auth D]	F [auth A], K [auth C], P [auth B], W [auth D], X [auth D]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain K [auth C] Focus chain P [auth B] Focus chain W [auth D] Focus chain X [auth D] Interactions & Density Focus chain F [auth A] Focus chain K [auth C] Focus chain P [auth B] Focus chain W [auth D] Focus chain X [auth D]