Brand  (β version)

color scheme of protein:

hetatm:

x
information
centroid:
interaction residue:

chain: Hide other chain(s)

Ligands
Code Name Link
CA Calcium ion
MG Magnesium ion
0G6 D-phenylalanyl-N-[(2s,3s)-6-{[amino(iminio)methyl]amino}-1-chloro-2-hydroxyhexan-3-yl]-L-prolinamide
EDO 1,2-ethanediol
GOL Glycerol
MRD (4r)-2-methylpentane-2,4-diol
NAG N-acetyl-D-glucosamine
Modified Residues
Code Name Link
ADS Adenosine-5'-(dithio)phosphate
CFZ 2'-deoxy-2'-fluorocytidine 5'-(dihydrogen phosphate)
UFT 2'-deoxy-2'-fluorouridine 5'-(dihydrogen phosphate)
UMS 2'-methylselenyl-2'-deoxyuridine-5'-phosphate
Code : 5DO4
Header : Hydrolase/RNA
Title : Thrombin-RNA aptamer complex
Release Data : 2016-09-14
Compound :
mol_id molecule chains synonym
1 Thrombin light chain L Coagulation factor II
ec: 3.4.21.5
mol_id molecule chains synonym
2 Thrombin heavy chain H Coagulation factor II
ec: 3.4.21.5
mol_id molecule chains
3 RNA (25-MER) A
Source :
mol_id organism_scientific organism_common
1 Homo sapiens  (taxid:9606) Human
mol_id organism_scientific organism_common
2 Homo sapiens  (taxid:9606) Human
mol_id organism_scientific
3 Unidentified  (taxid:32644)
synthetic: yes
Authors : Pallan, P.S., Egli, M.
Keywords : Thrombin-RNA aptamer, phosphorodithioate RNA, PS2-RNA, PS2 linkage, Hydrolase-RNA complex
Exp. method : X-RAY DIFFRACTION ( 1.8590 Å )
Citation :

Evoking picomolar binding in RNA by a single phosphorodithioate linkage.

Abeydeera, N.D.,Egli, M.,Cox, N.  et al.
(2016)  Nucleic Acids Res.  44 : 8052 - 8064

PubMed: 27566147
DOI: 10.1093/nar/gkw725

Chain : H
UniProt : P00734 (THRB_HUMAN)
Reaction : Selective cleavage of Arg-|-Gly bonds in fibrinogen to form fibrin and release fibrinopeptides A and B.