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SMTL ID : 1o5g.1

Dissecting and Designing Inhibitor Selectivity Determinants at the S1 site Using an Artificial Ala190 Protease (Ala190 uPA)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

NA.1:

6 residues within 4Å:

Chain B: D.232, R.233, D.234, G.235, K.236, Y.237

4 PLIP interactions:

4 interactions with chain B

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

1 x CA: CALCIUM ION(Non-covalent)

CA.2:

1 residues within 4Å:

Chain B: F.215

4 PLIP interactions:

1 interactions with chain B, 3 Ligand-Water interactions

Metal complexes: B:F.215, H₂O.2, H₂O.4, H₂O.4

1 x CR9: 2-{5-[AMINO(IMINIO)METHYL]-6-FLUORO-1H-BENZIMIDAZOL-2-YL}-6-[(2-METHYLCYCLOHEXYL)OXY]BENZENOLATE(Non-covalent)

CR9.3:

24 residues within 4Å:

Chain B: L.27, C.28, H.43, C.44, L.45, Y.47, W.50, K.52, F.54, D.199, A.200, C.201, E.202, G.203, S.205, V.225, S.226, W.227, G.228, G.230, C.231, D.232, G.238, F.239

15 PLIP interactions:

15 interactions with chain B

Hydrophobic interactions: B:Y.47, B:W.50, B:K.52, B:E.202, B:V.225
Hydrogen bonds: B:D.199, B:D.199, B:A.200, B:S.205, B:S.205, B:S.205
Water bridges: B:G.203, B:G.203, B:S.205, B:Y.240

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Katz, B.A. et al., Dissecting and designing inhibitor selectivity determinants at the S1 site using an artificial Ala190 protease (Ala190 uPA). J.Mol.Biol. (2004)

Release Date

2004-09-21

Peptides

Prothrombin: A
Prothrombin: B
Hirudin IIIB': C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
I

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

Prothrombin

Prothrombin

Hirudin IIIB'

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