6Q3O

PROTEIN-AROMATIC FOLDAMER COMPLEX CRYSTAL STRUCTURE

PDB DOI: https://doi.org/10.2210/pdb6Q3O/pdb

Classification: LYASE
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2018-12-04 Released: 2019-12-25
Deposition Author(s): Zeberko, C., Langlois d'Estaintot, B., Fischer, L., Granier, T., Kauffmann, B., Huc, I.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.23 Å
R-Value Free: 0.253
R-Value Work: 0.212
R-Value Observed: 0.214

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 2.1 of the entry. See complete history.

Literature

PROTEIN-AROMATIC FOLDAMER COMPLEX CRYSTAL STRUCTURE

Zeberko, C.

To be published.

Macromolecule Content

Total Structure Weight: 124.38 kDa
Atom Count: 9,280
Modelled Residue Count: 1,028
Deposited Residue Count: 1,036
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carbonic anhydrase 2	A, B, C, D	259	Homo sapiens	Mutation(s): 0 Gene Names: CA2 EC: 4.2.1.1
UniProt & NIH Common Fund Data Resources
Find proteins for P00918 (Homo sapiens) Explore P00918 Go to UniProtKB: P00918
PHAROS: P00918 GTEx: ENSG00000104267
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P00918
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 6 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
QZS Query on QZS Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain GA [auth C] SDF format, chain QA [auth D] SDF format, chain U [auth B] MOL2 format, chain G [auth A] MOL2 format, chain GA [auth C] MOL2 format, chain QA [auth D] MOL2 format, chain U [auth B]	G [auth A], GA [auth C], QA [auth D], U [auth B]	~{N}-[[3-[3-[4-[2-(8-azanyl-2-methanoyl-quinolin-4-yl)oxyethyl]-1,2,3-triazol-1-yl]propoxy]phenyl]methyl]-4-sulfamoyl-benzamide C₃₁ H₃₁ N₇ O₆ S FPQWFGHHGQBTEL-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain GA [auth C] Focus chain QA [auth D] Focus chain U [auth B] Interactions & Density Focus chain G [auth A] Focus chain GA [auth C] Focus chain QA [auth D] Focus chain U [auth B]
QNL Query on QNL Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain FA [auth C] SDF format, chain PA [auth D] SDF format, chain T [auth B] MOL2 format, chain F [auth A] MOL2 format, chain FA [auth C] MOL2 format, chain PA [auth D] MOL2 format, chain T [auth B]	F [auth A], FA [auth C], PA [auth D], T [auth B]	~{N}-[2-methanoyl-4-(2-methylpropoxy)quinolin-8-yl]ethanamide C₁₆ H₁₈ N₂ O₃ BLUSXJLREUZROL-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain FA [auth C] Focus chain PA [auth D] Focus chain T [auth B] Interactions & Density Focus chain F [auth A] Focus chain FA [auth C] Focus chain PA [auth D] Focus chain T [auth B]
QVE Query on QVE Download Ideal Coordinates CCD File SDF format, chain I [auth A] SDF format, chain IA [auth C] SDF format, chain SA [auth D] SDF format, chain W [auth B] MOL2 format, chain I [auth A] MOL2 format, chain IA [auth C] MOL2 format, chain SA [auth D] MOL2 format, chain W [auth B]	I [auth A], IA [auth C], SA [auth D], W [auth B]	8-azanyl-4-(2-hydroxy-2-oxoethyloxy)quinoline-2-carboxylic acid C₁₂ H₁₀ N₂ O₅ ISBWTKCQKHNORE-UHFFFAOYSA-N		Interactions Focus chain I [auth A] Focus chain IA [auth C] Focus chain SA [auth D] Focus chain W [auth B] Interactions & Density Focus chain I [auth A] Focus chain IA [auth C] Focus chain SA [auth D] Focus chain W [auth B]
QUK Query on QUK Download Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain HA [auth C] SDF format, chain RA [auth D] SDF format, chain V [auth B] MOL2 format, chain H [auth A] MOL2 format, chain HA [auth C] MOL2 format, chain RA [auth D] MOL2 format, chain V [auth B]	H [auth A], HA [auth C], RA [auth D], V [auth B]	8-azanyl-4-(3-azanylpropoxy)quinoline-2-carboxylic acid C₁₃ H₁₅ N₃ O₃ QGMHWPPZJKLYHR-UHFFFAOYSA-N		Interactions Focus chain H [auth A] Focus chain HA [auth C] Focus chain RA [auth D] Focus chain V [auth B] Interactions & Density Focus chain H [auth A] Focus chain HA [auth C] Focus chain RA [auth D] Focus chain V [auth B]
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain LA [auth C] MOL2 format, chain LA [auth C]	LA [auth C]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain LA [auth C] Interactions & Density Focus chain LA [auth C]
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain AA [auth B] SDF format, chain BA [auth B] SDF format, chain CA [auth B] SDF format, chain DA [auth B] SDF format, chain E [auth A] SDF format, chain EA [auth C] SDF format, chain J [auth A] SDF format, chain JA [auth C] SDF format, chain K [auth A] SDF format, chain KA [auth C] SDF format, chain L [auth A] SDF format, chain M [auth A] SDF format, chain MA [auth C] SDF format, chain N [auth A] SDF format, chain NA [auth C] SDF format, chain O [auth A] SDF format, chain OA [auth D] SDF format, chain P [auth A] SDF format, chain Q [auth A] SDF format, chain R [auth A] SDF format, chain S [auth B] SDF format, chain TA [auth D] SDF format, chain UA [auth D] SDF format, chain VA [auth D] SDF format, chain WA [auth D] SDF format, chain X [auth B] SDF format, chain XA [auth D] SDF format, chain Y [auth B] SDF format, chain Z [auth B] MOL2 format, chain AA [auth B] MOL2 format, chain BA [auth B] MOL2 format, chain CA [auth B] MOL2 format, chain DA [auth B] MOL2 format, chain E [auth A] MOL2 format, chain EA [auth C] MOL2 format, chain J [auth A] MOL2 format, chain JA [auth C] MOL2 format, chain K [auth A] MOL2 format, chain KA [auth C] MOL2 format, chain L [auth A] MOL2 format, chain M [auth A] MOL2 format, chain MA [auth C] MOL2 format, chain N [auth A] MOL2 format, chain NA [auth C] MOL2 format, chain O [auth A] MOL2 format, chain OA [auth D] MOL2 format, chain P [auth A] MOL2 format, chain Q [auth A] MOL2 format, chain R [auth A] MOL2 format, chain S [auth B] MOL2 format, chain TA [auth D] MOL2 format, chain UA [auth D] MOL2 format, chain VA [auth D] MOL2 format, chain WA [auth D] MOL2 format, chain X [auth B] MOL2 format, chain XA [auth D] MOL2 format, chain Y [auth B] MOL2 format, chain Z [auth B]	AA [auth B] BA [auth B] CA [auth B] DA [auth B] E [auth A] AA [auth B], BA [auth B], CA [auth B], DA [auth B], E [auth A], EA [auth C], J [auth A], JA [auth C], K [auth A], KA [auth C], L [auth A], M [auth A], MA [auth C], N [auth A], NA [auth C], O [auth A], OA [auth D], P [auth A], Q [auth A], R [auth A], S [auth B], TA [auth D], UA [auth D], VA [auth D], WA [auth D], X [auth B], XA [auth D], Y [auth B], Z [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain AA [auth B] Focus chain BA [auth B] Focus chain CA [auth B] Focus chain DA [auth B] Focus chain E [auth A] Focus chain EA [auth C] Focus chain J [auth A] Focus chain JA [auth C] Focus chain K [auth A] Focus chain KA [auth C] Focus chain L [auth A] Focus chain M [auth A] Focus chain MA [auth C] Focus chain N [auth A] Focus chain NA [auth C] Focus chain O [auth A] Focus chain OA [auth D] Focus chain P [auth A] Focus chain Q [auth A] Focus chain R [auth A] Focus chain S [auth B] Focus chain TA [auth D] Focus chain UA [auth D] Focus chain VA [auth D] Focus chain WA [auth D] Focus chain X [auth B] Focus chain XA [auth D] Focus chain Y [auth B] Focus chain Z [auth B] Interactions & Density Focus chain AA [auth B] Focus chain BA [auth B] Focus chain CA [auth B] Focus chain DA [auth B] Focus chain E [auth A] Focus chain EA [auth C] Focus chain J [auth A] Focus chain JA [auth C] Focus chain K [auth A] Focus chain KA [auth C] Focus chain L [auth A] Focus chain M [auth A] Focus chain MA [auth C] Focus chain N [auth A] Focus chain NA [auth C] Focus chain O [auth A] Focus chain OA [auth D] Focus chain P [auth A] Focus chain Q [auth A] Focus chain R [auth A] Focus chain S [auth B] Focus chain TA [auth D] Focus chain UA [auth D] Focus chain VA [auth D] Focus chain WA [auth D] Focus chain X [auth B] Focus chain XA [auth D] Focus chain Y [auth B] Focus chain Z [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.23 Å
R-Value Free: 0.253
R-Value Work: 0.212
R-Value Observed: 0.214
Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.106	α = 66.1
b = 76.478	β = 86.83
c = 81.417	γ = 73.6

Software Package:

Software Name	Purpose
REFMAC	refinement
CrysalisPro	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2019-12-25

Deposition Author(s):

Zeberko, C.

Langlois d'Estaintot, B.

Revision History (Full details and data files)

Version 1.0: 2019-12-25
Type: Initial release
Version 2.0: 2023-11-15
Changes: Atomic model, Data collection, Database references, Derived calculations, Refinement description
Version 2.1: 2024-01-24
Changes: Refinement description