8CIK | pdb_00008cik

Altai wapiti (Cervus elaphus sibiricus) chymosin at 2.2 A resolution

PDB DOI: https://doi.org/10.2210/pdb8CIK/pdb

Classification: HYDROLASE
Organism(s): Cervus canadensis sibiricus
Expression System: Kluyveromyces lactis
Mutation(s): No

Deposited: 2023-02-09 Released: 2023-03-08
Deposition Author(s): Diusenova, S.E., Shevtsov, M.B., Borshchevskiy, V.I., Belenkaya, S.V., Kolybalov, D.S., Arkhipov, S.G., Volosnikova, E.A., Elchaninov, V.V., Shcherbakov, D.N.
Funding Organization(s): Ministry of Science and Higher Education of the Russian Federation

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.22 Å
R-Value Free:
0.243 (Depositor), 0.243 (DCC)
R-Value Work:
0.198 (Depositor), 0.199 (DCC)
R-Value Observed:
0.201 (Depositor)

Starting Model: in silico
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This is version 1.1 of the entry. See complete history.

Literature

Altai wapiti (Cervus elaphus sibiricus) chymosin at 2.2 A resolution

Belenkaya, S.V., Diusenova, S.E., Shevtsov, M.B., Borshchevskiy, V.I., Arkhipov, S.G., Kolybalov, D.S., Volosnikova, E.A., Elchaninov, V.V., Shcherbakov, D.N.

To be published.

Macromolecule Content

Total Structure Weight: 35.78 kDa
Atom Count: 2,605
Modeled Residue Count: 323
Deposited Residue Count: 323
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Chymosin	A	323	Cervus canadensis sibiricus	Mutation(s): 0 Gene Names: CYM EC: 3.4.23.4
UniProt
Find proteins for A0A7D3Q7Y7 (Cervus canadensis sibiricus) Explore A0A7D3Q7Y7 Go to UniProtKB: A0A7D3Q7Y7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A7D3Q7Y7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.22 Å
R-Value Free: 0.243 (Depositor), 0.243 (DCC)
R-Value Work: 0.198 (Depositor), 0.199 (DCC)
R-Value Observed: 0.201 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 142.39	α = 90
b = 41.63	β = 98.31
c = 54.55	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2023-03-08

Deposition Author(s):

Diusenova, S.E.

Borshchevskiy, V.I.

Belenkaya, S.V.

Kolybalov, D.S.

Volosnikova, E.A.

Elchaninov, V.V.

Shcherbakov, D.N.

Funding Organization	Location	Grant Number
Ministry of Science and Higher Education of the Russian Federation	Russian Federation	075-15-2021-1355

Revision History (Full details and data files)

Version 1.0: 2023-03-08
Type: Initial release
Version 1.1: 2024-11-13
Changes: Data collection, 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.