1HAP

COMPLEX OF HUMAN ALPHA-THROMBIN WITH A 15MER OLIGONUCLEOTIDE GGTTGGTGTGGTTGG (BASED ON X-RAY MODEL OF DNA)

Summary for 1HAP

• Entry DOI: 10.2210/pdb1hap/pdb
• Related: 1HAO
• Related PRD ID: PRD_000020
• Descriptor: 5'-D(*GP*GP*TP*TP*GP*GP*TP*GP*TP*GP*GP*TP*TP*GP*G)-3', Thrombin light chain, Thrombin heavy chain, ... (5 entities in total)
• Functional Keywords: coagulation, quadruple helix, hydrolase-hydrolase inhibitor-dna complex, hydrolase/hydrolase inhibitor/dna
• Biological source: Homo sapiens (human); More
• Cellular location: Secreted, extracellular space: P00734 P00734
• Total number of polymer chains: 3
• Total formula weight: 39073.79

Authors

Padmanabhan, K.,Tulinsky, A. (deposition date: 1995-10-03, release date: 1996-04-03, Last modification date: 2024-10-30)

Primary citation

Padmanabhan, K.,Tulinsky, A.
An ambiguous structure of a DNA 15-mer thrombin complex.
Acta Crystallogr.,Sect.D, 52:272-282, 1996

PubMed Abstract: The structure of a complex between thrombin and a GGTTGGTGTGGTTGG DNA 15-mer has been analyzed crystallographically. The solution NMR structure of the 15-mer has two stacked G-quartets similar to that found in the previous X-ray structure determination of the 15-mer-thrombin complex [Padmanabhan, Padmanabhan, Ferrara, Sadler & Tulinsky (1993). J. Biol. Chem. 268, 17651-17654]; the strand polarity, however, is reversed from that of the crystallographic structure. The structure of the complex here has been redetermined with better diffraction data confirming the previous crystallographic structure but also indicating that the NMR solution structure fits equally well. Both 15-mer complex structures refined to an R value of about 0.16 presenting a disconcerting ambiguity. Since the two 15-mer structures associate with thrombin in different ways (through the TGT loop in the X-ray and TT loop in the NMR model), other independent lines of physical or chemical evidence are required to resolve the ambiguity.

PubMed: 15299700
DOI: 10.1107/S0907444995013977

Experimental method

X-RAY DIFFRACTION (2.8 Å)