2P1B | pdb_00002p1b

Crystal structure of human nucleophosmin-core

PDB DOI: https://doi.org/10.2210/pdb2P1B/pdb

Classification: CHAPERONE
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2007-03-03 Released: 2007-03-27
Deposition Author(s): Lee, H.H., Kim, H.S., Kang, J.Y., Lee, B.I., Ha, J.Y., Yoon, H.J., Lim, S.O., Jung, G., Suh, S.W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.75 Å
R-Value Free:
0.232 (Depositor), 0.232 (DCC)
R-Value Work:
0.213 (Depositor), 0.211 (DCC)
R-Value Observed:
0.213 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 2P1B

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

Literature

Crystal structure of human nucleophosmin-core reveals plasticity of the pentamer-pentamer interface

Lee, H.H., Kim, H.S., Kang, J.Y., Lee, B.I., Ha, J.Y., Yoon, H.J., Lim, S.O., Jung, G., Suh, S.W.

(2007) Proteins 69: 672-678

PubMed: 17879352 Search on PubMed
DOI: https://doi.org/10.1002/prot.21504
Primary Citation Related Structures:
2P1B

Organizational Affiliation

Department of Chemistry, College of Natural Sciences, Seoul National University, Seoul 151-747, Korea.

Macromolecule Content

Total Structure Weight: 135.44 kDa
Atom Count: 7,686
Modeled Residue Count: 1,000
Deposited Residue Count: 1,220
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleophosmin	A, B, C, D, E A, B, C, D, E, F, G, H, I, J	122	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P06748 (Homo sapiens) Explore P06748 Go to UniProtKB: P06748
PHAROS: P06748 GTEx: ENSG00000181163
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P06748
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.75 Å
R-Value Free: 0.232 (Depositor), 0.232 (DCC)
R-Value Work: 0.213 (Depositor), 0.211 (DCC)
R-Value Observed: 0.213 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 99.262	α = 90
b = 107.841	β = 90
c = 108.694	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2007-03-27

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2007-03-27
Type: Initial release
Version 1.1: 2007-10-19
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Derived calculations, Version format compliance
Version 1.3: 2023-10-25
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.