4/12/2019 RCSB PDB - 1IPJ: CRYSTAL STRUCTURES OF RECOMBINANT AND NATIVE SOYBEAN BETA-CONGLYCININ BETA HOMOTR…

Take the User Survey

 Navigation Tabs

 Biological Assembly 1



 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers
Protein Workshop | Ligand Explorer

Global Symmetry: Cyclic - C3 (3D View)

Global Stoichiometry: Homo 3-mer - A3

https://www.rcsb.org/structure/1IPJ 1/5
4/12/2019 RCSB PDB - 1IPJ: CRYSTAL STRUCTURES OF RECOMBINANT AND NATIVE SOYBEAN BETA-CONGLYCININ BETA HOMOTR…

Biological assembly 1 assigned by authors and generated by PISA (software)

 Display Files  Download Files

1IPJ
CRYSTAL STRUCTURES OF RECOMBINANT AND NATIVE SOYBEAN BETA-
CONGLYCININ BETA HOMOTRIMERS COMPLEXES WITH N-ACETYL-D-
GLUCOSAMINE
DOI: 10.2210/pdb1IPJ/pdb

Classification: SUGAR BINDING PROTEIN

Organism(s): Glycine max

Deposited: 2001-05-16 Released: 2002-05-16

Deposition Author(s): Maruyama, N., Adachi, M., Takahashi, K., Yagasaki, K., Kohno, M., Takenaka, Y.,
Okuda, E., Nakagawa, S., Mikami, B., Utsumi, S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION

Resolution: 2.7 Å
R-Value Free: 0.284
R-Value Work: 0.202

wwPDB Validation  3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Crystal structures of recombinant and native soybean beta-conglycinin beta

homotrimers.
Maruyama, N., Adachi, M., Takahashi, K., Yagasaki, K., Kohno, M., Takenaka, Y., Okuda,
E., Nakagawa, S., Mikami, B., Utsumi, S.
(2001) Eur.J.Biochem. 268: 3595-3604

PubMed: 11422391
Primary Citation of Related Structures:
1IPK
https://www.rcsb.org/structure/1IPJ 2/5
4/12/2019 RCSB PDB - 1IPJ: CRYSTAL STRUCTURES OF RECOMBINANT AND NATIVE SOYBEAN BETA-CONGLYCININ BETA HOMOTR…

PubMed Abstract:

Macromolecules

Find similar proteins by: Sequence | Structure

Entity ID: 1

Molecule Chains Sequence Organism Details

Length

BETA-CONGLYCININ, BETA A, B, C 416 Glycine Mutation(s): 0

CHAIN max Gene Names:
CG-4

Find proteins for P25974 (Glycine max)

Go to UniProtKB: P25974

Small Molecules

Ligands 1 Unique

ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions

NAG A, B, C N-ACETYL-D-GLUCOSAMINE  Ligand Interaction

C8 H15 N O6
OVRNDRQMDRJTHS-
FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data
Method: X-RAY DIFFRACTION
Resolution: 2.7 Å
R-Value Free: 0.284
R-Value Work: 0.202
https://www.rcsb.org/structure/1IPJ 3/5
4/12/2019 RCSB PDB - 1IPJ: CRYSTAL STRUCTURES OF RECOMBINANT AND NATIVE SOYBEAN BETA-CONGLYCININ BETA HOMOTR…

Space Group: P 1 21 1

Unit Cell:
Length (Å) Angle (°)

a = 82.780 α = 90.00

b = 69.470 β = 97.22

c = 125.330 γ = 90.00

Software Package:
Software Name Purpose

X-PLOR phasing

FRAMBO data collection

X-PLOR model building

X-PLOR refinement

SAINT data scaling

SAINT data reduction

Structure Validation
View Full Validation Report or Ramachandran Plots

Entry History

Deposition Data
Deposited Date: 2001-05-16
Released Date: 2002-05-16
Deposition Author(s): Maruyama, N., Adachi, M., Takahashi, K., Yagasaki, K., Kohno, M., Takenaka,
Y., Okuda, E., Nakagawa, S., Mikami, B., Utsumi, S.

Revision History

https://www.rcsb.org/structure/1IPJ 4/5
4/12/2019 RCSB PDB - 1IPJ: CRYSTAL STRUCTURES OF RECOMBINANT AND NATIVE SOYBEAN BETA-CONGLYCININ BETA HOMOTR…

Version 1.0: 2002-05-16

Type: Initial release
Version 1.1: 2008-04-27
Type: Version format compliance
Version 1.2: 2011-07-13
Type: Non-polymer description, Version format compliance
Version 1.3: 2017-10-04
Type: Refinement description

The RCSB PDB is funded by a grant (DBI-1338415) from the National Science Foundation, the National Institutes
of Health, and the US Department of Energy.

https://www.rcsb.org/structure/1IPJ 5/5