6SC1 | pdb_00006sc1

THERMOLYSIN IN COMPLEX WITH FRAGMENT J96

PDB DOI: https://doi.org/10.2210/pdb6SC1/pdb

Classification: HYDROLASE
Organism(s): Bacillus thermoproteolyticus
Mutation(s): No

Deposited: 2019-07-23 Released: 2020-08-26
Deposition Author(s): Magari, F., Heine, A., Klebe, G.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.56 Å
R-Value Free:
0.175 (Depositor), 0.177 (DCC)
R-Value Work:
0.151 (Depositor), 0.153 (DCC)
R-Value Observed:
0.152 (Depositor)

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Re-refinement Note

A newer entry is available that reflects an alternative modeling of the original data: 6SC3

Literature

THERMOLYSIN IN COMPLEX WITH FRAGMENT J96

Magari, F., Heine, A., Klebe, G.

To be published.

Macromolecule Content

Total Structure Weight: 35.4 kDa
Atom Count: 2,726
Modeled Residue Count: 316
Deposited Residue Count: 316
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Thermolysin	A [auth E]	316	Bacillus thermoproteolyticus	Mutation(s): 0 EC: 3.4.24.27
UniProt
Find proteins for P00800 (Bacillus thermoproteolyticus) Explore P00800 Go to UniProtKB: P00800
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P00800
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 6 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
L5W (Subject of Investigation/LOI) Query on L5W Download:Ideal Coordinates CCD File SDF format, chain G [auth E] MOL2 format, chain G [auth E] mmCIF format, chain G [auth E]	G [auth E]	~{N}-oxidanylbicyclo[2.2.1]heptane-1-carboxamide C₈ H₁₃ N O₂ AHBXSKNCOQIRKT-FKQCQYRASA-N		Interactions Focus chain G [auth E] Interactions & Density Focus chain G [auth E]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain I [auth E] SDF format, chain J [auth E] SDF format, chain K [auth E] SDF format, chain L [auth E] MOL2 format, chain I [auth E] MOL2 format, chain J [auth E] MOL2 format, chain K [auth E] MOL2 format, chain L [auth E] mmCIF format, chain I [auth E] mmCIF format, chain J [auth E] mmCIF format, chain K [auth E] mmCIF format, chain L [auth E]	I [auth E], J [auth E], K [auth E], L [auth E]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain I [auth E] Focus chain J [auth E] Focus chain K [auth E] Focus chain L [auth E] Interactions & Density Focus chain I [auth E] Focus chain J [auth E] Focus chain K [auth E] Focus chain L [auth E]
DMS Query on DMS Download:Ideal Coordinates CCD File SDF format, chain M [auth E] SDF format, chain N [auth E] SDF format, chain O [auth E] MOL2 format, chain M [auth E] MOL2 format, chain N [auth E] MOL2 format, chain O [auth E] mmCIF format, chain M [auth E] mmCIF format, chain N [auth E] mmCIF format, chain O [auth E]	M [auth E], N [auth E], O [auth E]	DIMETHYL SULFOXIDE C₂ H₆ O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N		Interactions Focus chain M [auth E] Focus chain N [auth E] Focus chain O [auth E] Interactions & Density Focus chain M [auth E] Focus chain N [auth E] Focus chain O [auth E]
ZN Query on ZN Download:Ideal Coordinates CCD File SDF format, chain B [auth E] MOL2 format, chain B [auth E] mmCIF format, chain B [auth E]	B [auth E]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain B [auth E] Interactions & Density Focus chain B [auth E]
IPA Query on IPA Download:Ideal Coordinates CCD File SDF format, chain H [auth E] MOL2 format, chain H [auth E] mmCIF format, chain H [auth E]	H [auth E]	ISOPROPYL ALCOHOL C₃ H₈ O KFZMGEQAYNKOFK-UHFFFAOYSA-N		Interactions Focus chain H [auth E] Interactions & Density Focus chain H [auth E]
CA Query on CA Download:Ideal Coordinates CCD File SDF format, chain D [auth E] SDF format, chain E SDF format, chain F [auth E] SDF format, chain C [auth E] MOL2 format, chain D [auth E] MOL2 format, chain E MOL2 format, chain F [auth E] MOL2 format, chain C [auth E] mmCIF format, chain D [auth E] mmCIF format, chain E mmCIF format, chain F [auth E] mmCIF format, chain C [auth E]	C [auth E], D [auth E], E, F [auth E]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain C [auth E] Focus chain D [auth E] Focus chain E Focus chain F [auth E] Interactions & Density Focus chain C [auth E] Focus chain D [auth E] Focus chain E Focus chain F [auth E]