6WIU | pdb_00006wiu

Crystal structure of a beta-glucosidase from Exiguobacterium marinum

PDB DOI: https://doi.org/10.2210/pdb6WIU/pdb

Classification: HYDROLASE
Organism(s): Exiguobacterium sp. AT1b
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2020-04-10 Released: 2020-08-26
Deposition Author(s): Zanphorlin, L.M., Morais, M.A.B., Murakami, M.T.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.51 Å
R-Value Free:
0.292 (Depositor), 0.292 (DCC)
R-Value Work:
0.263 (Depositor), 0.265 (DCC)
R-Value Observed:
0.265 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.1 of the entry. See complete history.

Literature

A rationally identified marine GH1 beta-glucosidase has distinguishing functional features for simultaneous saccharification and fermentation

de Sousa, A.S., de Melo, R.R., Miyamoto, R.Y., Morais, M.A.B., Andrade, L.P., Milan, N., de Avila, M.C., de Souza, C.M., Adao, R.C., Scarpassa, J.A., Vieira, P.S., dos Santos, L.V., Ramos, C.H.I., Murakami, M.T., Zanphorlin, L.M.

(2020) Biofuel Bioprod Biorefin

DOI: https://doi.org/10.1002/bbb.2136

Macromolecule Content

Total Structure Weight: 872.97 kDa
Atom Count: 57,949
Modeled Residue Count: 7,059
Deposited Residue Count: 7,536
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-glucosidase	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	471	Exiguobacterium sp. AT1b	Mutation(s): 0 Gene Names: EAT1b_2183 EC: 3.2.1.21
UniProt
Find proteins for C4L1S4 (Exiguobacterium sp. (strain ATCC BAA-1283 / AT1b)) Explore C4L1S4 Go to UniProtKB: C4L1S4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	C4L1S4
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.51 Å
R-Value Free: 0.292 (Depositor), 0.292 (DCC)
R-Value Work: 0.263 (Depositor), 0.265 (DCC)
R-Value Observed: 0.265 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 106.161	α = 90
b = 171.897	β = 95.71
c = 213.522	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
MOLREP	phasing
XDS	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2020-08-26

Deposition Author(s):

Zanphorlin, L.M.

Revision History (Full details and data files)

Version 1.0: 2020-08-26
Type: Initial release
Version 1.1: 2023-10-18
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.