3CP7 | pdb_00003cp7

Crystal structure of a thermostable serine protease AL20 from extremophilic microoganism

PDB DOI: https://doi.org/10.2210/pdb3CP7/pdb

Classification: HYDROLASE
Organism(s): Nesterenkonia aethiopica
Mutation(s): No

Deposited: 2008-03-31 Released: 2009-02-10
Deposition Author(s): Yang, N., Nan, J., Su, X.-D.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.39 Å
R-Value Free:
0.199 (Depositor), 0.198 (DCC)
R-Value Work:
0.178 (Depositor), 0.178 (DCC)
R-Value Observed:
0.179 (Depositor)

Starting Model: experimental
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This is version 1.4 of the entry. See complete history.

Literature

Crystal structure of an alkaline serine protease from Nesterenkonia sp. defines a novel family of secreted bacterial proteases

Yang, N., Nan, J., Brostromer, E., Hatti-Kaul, R., Su, X.-D.

(2008) Proteins 73: 1072-1075

PubMed: 18814301 Search on PubMed
DOI: https://doi.org/10.1002/prot.22233
Primary Citation Related Structures:
3CP7

Organizational Affiliation

Shenzhen Graduate School of Peking University, Shenzhen 518055, China.

Macromolecule Content

Total Structure Weight: 45.99 kDa
Atom Count: 3,871
Modeled Residue Count: 432
Deposited Residue Count: 436
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
alkaline serine protease AL20	A, B	218	N/A	Mutation(s): 0 EC: 3.4.21.1
UniProt
Find proteins for D0VWT7 (Nesterenkonia aethiopica) Explore D0VWT7 Go to UniProtKB: D0VWT7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	D0VWT7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FMT Query on FMT Download:Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B]	FORMIC ACID C H₂ O₂ BDAGIHXWWSANSR-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.39 Å
R-Value Free: 0.199 (Depositor), 0.198 (DCC)
R-Value Work: 0.178 (Depositor), 0.178 (DCC)
R-Value Observed: 0.179 (Depositor)

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 92.26	α = 90
b = 92.26	β = 90
c = 137.88	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
MAR345dtb	data collection
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2009-02-10

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2009-02-10
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2018-05-23
Changes: Data collection
Version 1.3: 2023-11-01
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.4: 2024-11-06
Changes: Structure summary

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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.