9BAV | pdb_00009bav

Structure of S1_15B, a lambda-carrageenan specific sulfatase, in complex with a carrageenoligosaccharide

PDB DOI: https://doi.org/10.2210/pdb9BAV/pdb

Classification: SUGAR BINDING PROTEIN
Organism(s): Pseudoalteromonas distincta
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-04-04 Released: 2025-08-27
Deposition Author(s): Hettle, J.A., Vickers, C., Boraston, A.B.
Funding Organization(s): Natural Sciences and Engineering Research Council (NSERC, Canada)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.49 Å
R-Value Free:
0.266 (Depositor), 0.265 (DCC)
R-Value Work:
0.200 (Depositor), 0.201 (DCC)
R-Value Observed:
0.204 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

Literature

Structure of S1_15B, a lambda-carrageenan specific sulfatase, in complex with a carrageenoligosaccharide

Hettle, J.A., Vickers, C., Boraston, A.B.

To be published.

Macromolecule Content

Total Structure Weight: 117.39 kDa
Atom Count: 7,730
Modeled Residue Count: 967
Deposited Residue Count: 1,036
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
S1_15B sulfatase	A, B	518	Pseudoalteromonas distincta	Mutation(s): 0 EC: 3.1.6.8
UniProt
Find proteins for A0A2K4XG55 (Pseudoalteromonas carrageenovora IAM 12662) Explore A0A2K4XG55 Go to UniProtKB: A0A2K4XG55
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A2K4XG55
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

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Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
6-O-sulfo-alpha-D-galactopyranose-(1-3)-2-O-sulfo-beta-D-galactopyranose-(1-4)-2,6-di-O-sulfo-alpha-D-galactopyranose	C	3	N/A	N/A	Interactions Focus chain C Interactions & Density Focus chain C

Small Molecules

Ligands 6 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1APC (Subject of Investigation/LOI) Query on A1APC Download:Ideal Coordinates CCD File SDF format, chain I [auth B] MOL2 format, chain I [auth B] mmCIF format, chain I [auth B]	I [auth B]	6-O-sulfo-alpha-D-galactopyranose C₆ H₁₂ O₉ S OKUVUONOJCDUJY-PHYPRBDBSA-N		Interactions Focus chain I [auth B] Interactions & Density Focus chain I [auth B]
G6S (Subject of Investigation/LOI) Query on G6S Download:Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	6-O-sulfo-beta-D-galactopyranose C₆ H₁₂ O₉ S OKUVUONOJCDUJY-FPRJBGLDSA-N		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain F [auth A] MOL2 format, chain F [auth A] mmCIF format, chain F [auth A]	F [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain F [auth A] Interactions & Density Focus chain F [auth A]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain K [auth B] SDF format, chain L [auth B] MOL2 format, chain K [auth B] MOL2 format, chain L [auth B] mmCIF format, chain K [auth B] mmCIF format, chain L [auth B]	K [auth B], L [auth B]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain K [auth B] Focus chain L [auth B] Interactions & Density Focus chain K [auth B] Focus chain L [auth B]
CA Query on CA Download:Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain J [auth B] MOL2 format, chain E [auth A] MOL2 format, chain J [auth B] mmCIF format, chain E [auth A] mmCIF format, chain J [auth B]	E [auth A], J [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain J [auth B] Interactions & Density Focus chain E [auth A] Focus chain J [auth B]
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain H [auth A] SDF format, chain M [auth B] MOL2 format, chain G [auth A] MOL2 format, chain H [auth A] MOL2 format, chain M [auth B] mmCIF format, chain G [auth A] mmCIF format, chain H [auth A] mmCIF format, chain M [auth B]	G [auth A], H [auth A], M [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain G [auth A] Focus chain H [auth A] Focus chain M [auth B] Interactions & Density Focus chain G [auth A] Focus chain H [auth A] Focus chain M [auth B]