5ZQI

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), 0.190 (DCC)
R-Value Work:
0.167 (Depositor), 0.170 (DCC)
R-Value Observed:
0.168 (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

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
Modelled Residue Count: 216
Deposited Residue Count: 277
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

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% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A4V8GZK9
Sequence Annotations Expand
Reference Sequence LOADING

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), 0.190 (DCC)
R-Value Work: 0.167 (Depositor), 0.170 (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

View Full Validation Report

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

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.