8BRR | pdb_00008brr

Crystal structure of a variant of penicillin G acylase from Bacillaceae i. s. sp. FJAT-27231 with reduced surface entropy and additionally engineered crystal contact

PDB DOI: https://doi.org/10.2210/pdb8BRR/pdb

Classification: HYDROLASE
Organism(s): Bacillus sp. FJAT-27231
Expression System: Priestia megaterium
Mutation(s): Yes

Deposited: 2022-11-23 Released: 2023-05-03
Deposition Author(s): Wichmann, J., Mayer, J., Mattes, H., Lukat, P., Blankenfeldt, W., Biedendieck, R.
Funding Organization(s): German Research Foundation (DFG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free:
0.232 (Depositor), 0.232 (DCC)
R-Value Work:
0.191 (Depositor), 0.193 (DCC)
R-Value Observed:
0.193 (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

Multistep Engineering of a Penicillin G Acylase for Systematic Improvement of Crystallization Efficiency

Wichmann, J., Mayer, J., Hintmann, M., Lukat, P., Blankenfeldt, W., Biedendieck, R.

(2023) Cryst Growth Des

DOI: https://doi.org/10.1021/acs.cgd.2c01408

Macromolecule Content

Total Structure Weight: 172.93 kDa
Atom Count: 12,792
Modeled Residue Count: 1,438
Deposited Residue Count: 1,500
Unique protein chains: 2

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Penicillin G acylase	A, C	212	Bacillus sp. FJAT-27231	Mutation(s): 3 Gene Names: AC623_04440
UniProt
Find proteins for A0ACD6B9X2 (Bacillus sp. FJAT-27231) Explore A0ACD6B9X2 Go to UniProtKB: A0ACD6B9X2
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0ACD6B9X2
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Penicillin G acylase	B, D	538	Bacillus sp. FJAT-27231	Mutation(s): 7 Gene Names: AC623_04440
UniProt
Find proteins for A0ACD6B9X2 (Bacillus sp. FJAT-27231) Explore A0ACD6B9X2 Go to UniProtKB: A0ACD6B9X2
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0ACD6B9X2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EPE Query on EPE Download:Ideal Coordinates CCD File SDF format, chain E [auth B] SDF format, chain I [auth D] MOL2 format, chain E [auth B] MOL2 format, chain I [auth D] mmCIF format, chain E [auth B] mmCIF format, chain I [auth D]	E [auth B], I [auth D]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C₈ H₁₈ N₂ O₄ S JKMHFZQWWAIEOD-UHFFFAOYSA-N		Interactions Focus chain E [auth B] Focus chain I [auth D] Interactions & Density Focus chain E [auth B] Focus chain I [auth D]
BU3 Query on BU3 Download:Ideal Coordinates CCD File SDF format, chain F [auth B] SDF format, chain J [auth D] MOL2 format, chain F [auth B] MOL2 format, chain J [auth D] mmCIF format, chain F [auth B] mmCIF format, chain J [auth D]	F [auth B], J [auth D]	(R,R)-2,3-BUTANEDIOL C₄ H₁₀ O₂ OWBTYPJTUOEWEK-QWWZWVQMSA-N		Interactions Focus chain F [auth B] Focus chain J [auth D] Interactions & Density Focus chain F [auth B] Focus chain J [auth D]
CA Query on CA Download:Ideal Coordinates CCD File SDF format, chain G [auth B] SDF format, chain H [auth B] SDF format, chain K [auth D] SDF format, chain L [auth D] MOL2 format, chain G [auth B] MOL2 format, chain H [auth B] MOL2 format, chain K [auth D] MOL2 format, chain L [auth D] mmCIF format, chain G [auth B] mmCIF format, chain H [auth B] mmCIF format, chain K [auth D] mmCIF format, chain L [auth D]	G [auth B], H [auth B], K [auth D], L [auth D]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain G [auth B] Focus chain H [auth B] Focus chain K [auth D] Focus chain L [auth D] Interactions & Density Focus chain G [auth B] Focus chain H [auth B] Focus chain K [auth D] Focus chain L [auth D]