6LAC | pdb_00006lac

The structural basis of the beta-carbonic anhydrase CafD (C39A mutant) of the filamentous fungus Aspergillus fumigatus

PDB DOI: https://doi.org/10.2210/pdb6LAC/pdb

Classification: LYASE
Organism(s): Aspergillus fumigatus Af293
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2019-11-12 Released: 2019-11-27
Deposition Author(s): Jiin, M.S., Kim, S., Kim, N.J., Hong, S., Kim, S., Sung, J.
Funding Organization(s): National Research Foundation (Korea)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.30 Å
R-Value Free:
0.210 (Depositor), 0.211 (DCC)
R-Value Work:
0.191 (Depositor), 0.197 (DCC)
R-Value Observed:
0.192 (Depositor)

Starting Model: experimental
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This is version 1.1 of the entry. See complete history.

Literature

The structural analysis of non-catalytic zinc binding site in the minor beta-carbonic anhydrase CafD

Jin, M.S., Kim, S., Kim, N.J., Hong, S., Kim, S., Sung, J.

To be published.

Macromolecule Content

Total Structure Weight: 40.53 kDa
Atom Count: 2,831
Modeled Residue Count: 342
Deposited Residue Count: 362
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carbonic anhydrase	A, B	181	Aspergillus fumigatus Af293	Mutation(s): 1 Gene Names: AFUA_8G06554 EC: 4.2.1.1
UniProt
Find proteins for A4DA31 (Aspergillus fumigatus (strain ATCC MYA-4609 / CBS 101355 / FGSC A1100 / Af293)) Explore A4DA31 Go to UniProtKB: A4DA31
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A4DA31
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZN (Subject of Investigation/LOI) Query on ZN Download:Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.30 Å
R-Value Free: 0.210 (Depositor), 0.211 (DCC)
R-Value Work: 0.191 (Depositor), 0.197 (DCC)
R-Value Observed: 0.192 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.085	α = 90
b = 57.505	β = 111.23
c = 72.733	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2019-11-27

Deposition Author(s):

Funding Organization	Location	Grant Number
National Research Foundation (Korea)	Korea, Republic Of	NRF-2017R1A2B4003278
National Research Foundation (Korea)	Korea, Republic Of	NRF-2017M3A9F6029753

Revision History (Full details and data files)

Version 1.0: 2019-11-27
Type: Initial release
Version 1.1: 2023-11-22
Changes: Data collection, Database references, Refinement description

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.