6T9Y

CARBOXYPEPTIDASE T WITH N-SULFAMOYL-L-LYSIN

PDB DOI: https://doi.org/10.2210/pdb6T9Y/pdb

Classification: HYDROLASE
Organism(s): Thermoactinomyces vulgaris
Expression System: Thermoactinomyces vulgaris
Mutation(s): No

Deposited: 2019-10-29 Released: 2019-12-11
Deposition Author(s): Timofeev, V.I., Akparov, V.K., Kuranova, I.P.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.92 Å
R-Value Free: 0.161
R-Value Work: 0.147
R-Value Observed: 0.147

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

CARBOXYPEPTIDASE T WITH N-SULFAMOYL-L-LYSIN

Timofeev, V.I., Akparov, V.K., Kuranova, I.P.

To be published.

Macromolecule Content

Total Structure Weight: 37.09 kDa
Atom Count: 2,884
Modelled Residue Count: 323
Deposited Residue Count: 323
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carboxypeptidase T	A	323	Thermoactinomyces vulgaris	Mutation(s): 0 Gene Names: cpt EC: 3.4.17.18
UniProt
Find proteins for P29068 (Thermoactinomyces vulgaris) Explore P29068 Go to UniProtKB: P29068
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P29068
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
7B0 Query on 7B0 Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A]	B [auth A]	(2~{S})-6-azanyl-2-(sulfamoylamino)hexanoic acid C₆ H₁₅ N₃ O₄ S IASBEZUWLDLXMF-YFKPBYRVSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A]	C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain E [auth A] SDF format, chain F [auth A] SDF format, chain G [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] MOL2 format, chain G [auth A]	D [auth A], E [auth A], F [auth A], G [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A] Interactions & Density Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.92 Å
R-Value Free: 0.161
R-Value Work: 0.147
R-Value Observed: 0.147
Space Group: P 6₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 158.05	α = 90
b = 158.05	β = 90
c = 104.391	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction

Structure Validation

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Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2019-12-11

Deposition Author(s):

Timofeev, V.I.

Akparov, V.K.

Kuranova, I.P.

Revision History (Full details and data files)

Version 1.0: 2019-12-11
Type: Initial release
Version 1.1: 2024-01-24
Changes: Data collection, Database references, Derived calculations, Refinement description

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Help and Resources

6T9Y

CARBOXYPEPTIDASE T WITH N-SULFAMOYL-L-LYSIN

CARBOXYPEPTIDASE T WITH N-SULFAMOYL-L-LYSIN

Entity ID: 1

UniProt

Entity Groups

Sequence Annotations

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Experimental Data

Structure Validation

Ligand Structure Quality Assessment

Deposition Data

Revision History (Full details and data files)