2IJZ | pdb_00002ijz

Crystal structure of aminopeptidase

PDB DOI: https://doi.org/10.2210/pdb2IJZ/pdb

Classification: HYDROLASE
Organism(s): Pseudomonas aeruginosa
Expression System: Escherichia coli BL21
Mutation(s): Yes

Deposited: 2006-10-02 Released: 2006-11-14
Deposition Author(s): Min, T., Burley, S.K., Shapiro, L., New York SGX Research Center for Structural Genomics (NYSGXRC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free:
0.291 (Depositor), 0.330 (DCC)
R-Value Work:
0.255 (Depositor), 0.320 (DCC)
R-Value Observed:
0.255 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

This is version 1.5 of the entry. See complete history.

Literature

Crystal structrue of putative aminopeptidase 2 from Pseudomonas Aeruginosa

Min, T., Burley, S.K., Shapiro, L.

To be published.

Macromolecule Content

Total Structure Weight: 559.5 kDa
Atom Count: 37,617
Modelled Residue Count: 4,548
Deposited Residue Count: 5,136
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable M18-family aminopeptidase 2	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	428	Pseudomonas aeruginosa	Mutation(s): 1 Gene Names: apeB EC: 3.4.11
UniProt
Find proteins for Q9HYZ3 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q9HYZ3 Go to UniProtKB: Q9HYZ3
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9HYZ3
Sequence Annotations Expand
Reference Sequence LOADING

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free: 0.291 (Depositor), 0.330 (DCC)
R-Value Work: 0.255 (Depositor), 0.320 (DCC)
R-Value Observed: 0.255 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 134.678	α = 60.12
b = 134.553	β = 60.1
c = 134.601	γ = 60.16

Software Package:

Software Name	Purpose
CNS	refinement
CBASS	data collection
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2006-11-14

Deposition Author(s):

New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History (Full details and data files)

Version 1.0: 2006-11-14
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2021-02-03
Changes: Database references, Structure summary
Version 1.4: 2021-10-20
Changes: Database references
Version 1.5: 2023-08-30
Changes: Data collection, 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.