2TEP

PEANUT LECTIN COMPLEXED WITH T-ANTIGENIC DISACCHARIDE

PDB DOI: https://doi.org/10.2210/pdb2TEP/pdb
Entry: 2TEP supersedes: 1TEP

Classification: LECTIN
Organism(s): Arachis hypogaea
Mutation(s): No

Deposited: 1999-04-05 Released: 1999-04-08
Deposition Author(s): Ravishankar, R., Ravindran, M., Suguna, K., Surolia, A., Vijayan, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free:
0.251 (Depositor)
R-Value Work:
0.175 (Depositor), 0.190 (DCC)

wwPDB Validation 3D Report Full Report

This is version 2.1 of the entry. See complete history.

Literature

The Specificity of Peanut Agglutinin for Thomsen-Friedenreich Antigen is Mediated by Water-Bridges

Ravishankar, R., Ravindran, M., Suguna, K., Surolia, A., Vijayan, M.

(1997) Curr Sci 72: 855-861

Macromolecule Content

Total Structure Weight: 102.75 kDa
Atom Count: 7,601
Modelled Residue Count: 928
Deposited Residue Count: 944
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (PEANUT LECTIN)	A, B, C, D	236	Arachis hypogaea	Mutation(s): 0
UniProt
Find proteins for P02872 (Arachis hypogaea) Explore P02872 Go to UniProtKB: P02872
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P02872
Sequence Annotations Expand
Reference Sequence LOADING

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-galactopyranose	E, F, G, H	2		N/A	Interactions Focus chain E Focus chain F Focus chain G Focus chain H Interactions & Density Focus chain E Focus chain F Focus chain G Focus chain H
Glycosylation Resources
GlyTouCan: G01534TU GlyCosmos: G01534TU GlyGen: G01534TU

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MN Query on MN Download Ideal Coordinates CCD File SDF format, chain P [auth D] SDF format, chain J [auth A] SDF format, chain L [auth B] SDF format, chain N [auth C] MOL2 format, chain P [auth D] MOL2 format, chain J [auth A] MOL2 format, chain L [auth B] MOL2 format, chain N [auth C] mmCIF format, chain P [auth D] mmCIF format, chain J [auth A] mmCIF format, chain L [auth B] mmCIF format, chain N [auth C]	J [auth A], L [auth B], N [auth C], P [auth D]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N		Interactions Focus chain J [auth A] Focus chain L [auth B] Focus chain N [auth C] Focus chain P [auth D] Interactions & Density Focus chain J [auth A] Focus chain L [auth B] Focus chain N [auth C] Focus chain P [auth D]
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain K [auth B] SDF format, chain M [auth C] SDF format, chain I [auth A] SDF format, chain O [auth D] MOL2 format, chain K [auth B] MOL2 format, chain M [auth C] MOL2 format, chain I [auth A] MOL2 format, chain O [auth D] mmCIF format, chain K [auth B] mmCIF format, chain M [auth C] mmCIF format, chain I [auth A] mmCIF format, chain O [auth D]	I [auth A], K [auth B], M [auth C], O [auth D]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain I [auth A] Focus chain K [auth B] Focus chain M [auth C] Focus chain O [auth D] Interactions & Density Focus chain I [auth A] Focus chain K [auth B] Focus chain M [auth C] Focus chain O [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free: 0.251 (Depositor)
R-Value Work: 0.175 (Depositor), 0.190 (DCC)

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 129.892	α = 90
b = 126.676	β = 90
c = 76.516	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	refinement

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 1999-04-08

Deposition Author(s):

This entry supersedes: 1TEP

Revision History (Full details and data files)

Version 1.0: 1999-04-08
Type: Initial release
Version 1.1: 2008-04-26
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2019-11-20
Changes: Database references, Derived calculations
Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary
Version 2.1: 2023-12-27
Changes: Data collection, Database references, Derived calculations, Structure summary