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SMTL ID : 2uuk.1

Thrombin-hirugen-gw420128 ternary complex at 1.39A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.39 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x NA: SODIUM ION(Non-functional Binders)

NA.1:

2 residues within 4Å:

Chain B: R.233, K.236

5 PLIP interactions:

5 interactions with chain B

Hydrogen bonds: B:R.233, B:K.236
Water bridges: B:D.234, B:G.235, B:G.238

1 x CA: CALCIUM ION(Non-covalent)

CA.2:

2 residues within 4Å:

Chain B: K.174, T.177

4 PLIP interactions:

2 interactions with chain B, 2 Ligand-Water interactions

Metal complexes: B:K.174, B:T.177, H₂O.10, H₂O.10

1 x 897: N-[3-(TERT-BUTYLAMINO)-3-OXOPROPYL]-N-ISOPROPYL-3-METHYL-5-{[(2S)-2-(PYRIDIN-4-YLAMINO)PROPYL]OXY}BENZAMIDE(Non-covalent)

897.3:

16 residues within 4Å:

Chain B: H.43, Y.47, W.50, E.94, L.96, D.199, A.200, C.201, E.202, S.205, V.225, S.226, W.227, G.228, G.230, G.238

13 PLIP interactions:

13 interactions with chain B

Hydrophobic interactions: B:H.43, B:Y.47, B:W.50, B:W.50, B:L.96, B:L.96, B:V.225, B:W.227, B:W.227
Hydrogen bonds: B:A.200, B:S.226, B:G.228
pi-Stacking: B:H.43

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Ahmed, H.U. et al., The Determination of Protonation States in Proteins. Acta Crystallogr.,Sect.D (2007)

Release Date

2007-09-04

Peptides

HUMAN ALPHA THROMBIN: A
THROMBIN: B
HIRUDIN I: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
H

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

HUMAN ALPHA THROMBIN

THROMBIN

HIRUDIN I

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