5GO6 | pdb_00005go6

Structure of sortase E T196V mutant from Streptomyces avermitilis

PDB DOI: https://doi.org/10.2210/pdb5GO6/pdb

Classification: HYDROLASE
Organism(s): Streptomyces avermitilis MA-4680 = NBRC 14893
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2016-07-26 Released: 2017-07-26
Deposition Author(s): Das, S., Pawale, V.S., Dadireddy, V., Roy, R.P., Ramakumar, S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.206 (Depositor), 0.218 (DCC)
R-Value Work:
0.173 (Depositor), 0.184 (DCC)
R-Value Observed:
0.174 (Depositor)

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

Literature

Structure of sortase E T196V mutant from Streptomyces avermitilis

Das, S., Pawale, V.S., Dadireddy, V., Roy, R.P., Ramakumar, S.

To be published.

Macromolecule Content

Total Structure Weight: 22.52 kDa
Atom Count: 1,309
Modeled Residue Count: 150
Deposited Residue Count: 201
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative secreted protein	A	201	Streptomyces avermitilis MA-4680 = NBRC 14893	Mutation(s): 1 Gene Names: SAVERM_4333
UniProt
Find proteins for Q82FC3 (Streptomyces avermitilis (strain ATCC 31267 / DSM 46492 / JCM 5070 / NBRC 14893 / NCIMB 12804 / NRRL 8165 / MA-4680)) Explore Q82FC3 Go to UniProtKB: Q82FC3
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q82FC3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain B [auth A] mmCIF format, chain C [auth A] mmCIF format, chain B [auth A]	B [auth A], C [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain B [auth A] Focus chain C [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.206 (Depositor), 0.218 (DCC)
R-Value Work: 0.173 (Depositor), 0.184 (DCC)
R-Value Observed: 0.174 (Depositor)

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.983	α = 90
b = 84.983	β = 90
c = 48.005	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2017-07-26

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2017-07-26
Type: Initial release
Version 1.1: 2023-11-08
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.