MolNFT v1 · #170499 · protein

Thrombin in complex with D-phe-pro-M-trifluoromethylbenzylamide derivative (PHE2)

6Y9H: “Thrombin in complex with D-phe-pro-M-trifluoromethylbenzylamide derivative (PHE2)”. X-ray diffraction, 4 ligands (OGZ, NAG, NA). MolNFT v1 #170499 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6Y9H
Type: protein
Length: 291 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt: P00734, P09945
Ligands: OGZ, NAG, NA, PO4

Structure

x-ray diffraction · 4 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
L	—	protein	28	—	P00734
H	—	protein	250	—	P00734
I	—	protein	11	—	P09945
C	—	protein	2	—	—

Ligands and binding sites

OGZ · [3-(trifluoromethyl)phenyl]methanamine · ligand · chains H, C
NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains H
NA · Sodium ion · metal · 2 copies · chains H
PO4 · Phosphate ion · ion · 2 copies · chains H
DMS · Dimethyl sulfoxide · additive · chains H

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Compared structures

6Y9H · Thrombin in complex with D-Phe-Pro-m-Trifluoromethylbenzylamide derivative (phe2) · the same entry in another collection · chain L against L, TM-score 1.00
P09945 · AlphaFold monomer V2.0 prediction for hirudin variant-2 (P09945) · a predicted model of the same protein · chain I against A, TM-score 0.50

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P00734
Every structure of UniProt P09945
Elsewhere: RCSB PDB 6Y9H · PDBe 6Y9H · UniProt P00734 · UniProt P09945

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.