3OZM

Crystal structure of enolase superfamily member from Bordetella bronchiseptica complexed with Mg, m-Xylarate and L-Lyxarate

PDB DOI: https://doi.org/10.2210/pdb3OZM/pdb

Classification: TRANSFERASE
Organism(s): Bordetella bronchiseptica
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2010-09-25 Released: 2011-09-28
Deposition Author(s): Fedorov, A.A., Fedorov, E.V., Wichelecki, D., Gerlt, J.A., Almo, S.C.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.60 Å
R-Value Free: 0.222
R-Value Work: 0.191
R-Value Observed: 0.193

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Crystal structure of enolase superfamily member from Bordetella bronchiseptica complexed with Mg, m-Xylarate and L-Lyxarate

Fedorov, A.A., Fedorov, E.V., Wichelecki, D., Gerlt, J.A., Almo, S.C.

To be published.

Macromolecule Content

Total Structure Weight: 342.12 kDa
Atom Count: 26,586
Modelled Residue Count: 3,077
Deposited Residue Count: 3,112
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative mandelate racemase	A, B, C, D, E A, B, C, D, E, F, G, H	389	Bordetella bronchiseptica	Mutation(s): 0 Gene Names: BB4687
UniProt
Find proteins for A0A0H3LT39 (Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50)) Explore A0A0H3LT39 Go to UniProtKB: A0A0H3LT39
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A0H3LT39
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
LY9 Query on LY9 Download Ideal Coordinates CCD File SDF format, chain GA [auth H] SDF format, chain V [auth D] MOL2 format, chain GA [auth H] MOL2 format, chain V [auth D]	GA [auth H], V [auth D]	L-arabinaric acid C₅ H₈ O₇ NPTTZSYLTYJCPR-PWNYCUMCSA-N		Interactions Focus chain GA [auth H] Focus chain V [auth D] Interactions & Density Focus chain GA [auth H] Focus chain V [auth D]
DXL Query on DXL Download Ideal Coordinates CCD File SDF format, chain BA [auth F] SDF format, chain DA [auth G] SDF format, chain J [auth A] SDF format, chain M [auth B] SDF format, chain Q [auth C] SDF format, chain Y [auth E] MOL2 format, chain BA [auth F] MOL2 format, chain DA [auth G] MOL2 format, chain J [auth A] MOL2 format, chain M [auth B] MOL2 format, chain Q [auth C] MOL2 format, chain Y [auth E]	BA [auth F] DA [auth G] J [auth A] M [auth B] Q [auth C] BA [auth F], DA [auth G], J [auth A], M [auth B], Q [auth C], Y [auth E]	D-xylaric acid C₅ H₈ O₇ NPTTZSYLTYJCPR-FFEAPLRNSA-N		Interactions Focus chain BA [auth F] Focus chain DA [auth G] Focus chain J [auth A] Focus chain M [auth B] Focus chain Q [auth C] Focus chain Y [auth E] Interactions & Density Focus chain BA [auth F] Focus chain DA [auth G] Focus chain J [auth A] Focus chain M [auth B] Focus chain Q [auth C] Focus chain Y [auth E]
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain EA [auth G] SDF format, chain HA [auth H] SDF format, chain K [auth A] SDF format, chain N [auth B] SDF format, chain O [auth B] SDF format, chain R [auth C] SDF format, chain S [auth C] SDF format, chain T [auth C] SDF format, chain W [auth D] SDF format, chain Z [auth E] MOL2 format, chain EA [auth G] MOL2 format, chain HA [auth H] MOL2 format, chain K [auth A] MOL2 format, chain N [auth B] MOL2 format, chain O [auth B] MOL2 format, chain R [auth C] MOL2 format, chain S [auth C] MOL2 format, chain T [auth C] MOL2 format, chain W [auth D] MOL2 format, chain Z [auth E]	EA [auth G] HA [auth H] K [auth A] N [auth B] O [auth B] EA [auth G], HA [auth H], K [auth A], N [auth B], O [auth B], R [auth C], S [auth C], T [auth C], W [auth D], Z [auth E]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain EA [auth G] Focus chain HA [auth H] Focus chain K [auth A] Focus chain N [auth B] Focus chain O [auth B] Focus chain R [auth C] Focus chain S [auth C] Focus chain T [auth C] Focus chain W [auth D] Focus chain Z [auth E] Interactions & Density Focus chain EA [auth G] Focus chain HA [auth H] Focus chain K [auth A] Focus chain N [auth B] Focus chain O [auth B] Focus chain R [auth C] Focus chain S [auth C] Focus chain T [auth C] Focus chain W [auth D] Focus chain Z [auth E]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain AA [auth F] SDF format, chain CA [auth G] SDF format, chain FA [auth H] SDF format, chain I [auth A] SDF format, chain L [auth B] SDF format, chain P [auth C] SDF format, chain U [auth D] SDF format, chain X [auth E] MOL2 format, chain AA [auth F] MOL2 format, chain CA [auth G] MOL2 format, chain FA [auth H] MOL2 format, chain I [auth A] MOL2 format, chain L [auth B] MOL2 format, chain P [auth C] MOL2 format, chain U [auth D] MOL2 format, chain X [auth E]	AA [auth F] CA [auth G] FA [auth H] I [auth A] L [auth B] AA [auth F], CA [auth G], FA [auth H], I [auth A], L [auth B], P [auth C], U [auth D], X [auth E]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain AA [auth F] Focus chain CA [auth G] Focus chain FA [auth H] Focus chain I [auth A] Focus chain L [auth B] Focus chain P [auth C] Focus chain U [auth D] Focus chain X [auth E] Interactions & Density Focus chain AA [auth F] Focus chain CA [auth G] Focus chain FA [auth H] Focus chain I [auth A] Focus chain L [auth B] Focus chain P [auth C] Focus chain U [auth D] Focus chain X [auth E]