5ZQI | pdb_00005zqi

Alginate lyase AlgAT5 from Polysaccharide Lyase family 7

PDB DOI: https://doi.org/10.2210/pdb5ZQI/pdb

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

Deposited: 2018-04-19 Released: 2019-04-24
Deposition Author(s): Su, H., Dong, S., Feng, Y.G., Ji, S.Q., Lu, M., Li, F.L.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free:
0.188 (Depositor), 0.188 (DCC)
R-Value Work:
0.167 (Depositor), 0.167 (DCC)
R-Value Observed:
0.168 (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

Alginate lyase AlgAT5 from Polysaccharide Lyase family 7

Su, H., Dong, S., Feng, Y.G., Ji, S.Q., Lu, M., Li, F.L.

To be published.

Macromolecule Content

Total Structure Weight: 31.04 kDa
Atom Count: 2,279
Modeled Residue Count: 216
Deposited Residue Count: 277
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alginate lyase AlgAT5	A	277	Defluviitalea	Mutation(s): 0 EC: 4.2.2
UniProt
Find proteins for A0A4V8GZK9 (Defluviitalea) Explore A0A4V8GZK9 Go to UniProtKB: A0A4V8GZK9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A4V8GZK9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.188 (Depositor), 0.188 (DCC)
R-Value Work: 0.167 (Depositor), 0.167 (DCC)
R-Value Observed: 0.168 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.02	α = 90
b = 76.38	β = 90
c = 83.91	γ = 90

Software Package:

Software Name	Purpose
Aimless	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
MOSFLM	data reduction
PHENIX	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2019-04-24

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2019-04-24
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.