Skip to main content

Table 1 Example of annotated structures including the PDB id, the amino acids, their positions in the pockets, the PDB numbering, PDB peptide chain and MEROPS id

From: An automated protocol for modelling peptide substrates to proteases

PDB

Peptide amino acids

Pocket positions

PDB residue numbers

Chain id

MEROPS Id

1gdn

GAK

S3-S2-S1

1-2-3

B

S01.103

1hpg

AAPE

S4-S3-S2-S1

301-302-303-304

B

S01.267

1qix

VEPI

S4-S3-S2-S1

4-5-6-7

A

S01.153

1smf

CTKSI

S3-S2-S1-S1ʹ-S2ʹ

9-10-11--12-13

I

S01.151

2qa9

DAIY

S4-S3-S2-S1

1-2-3-4

I

S01.262

2wpm

EGR

S3-S2-S1

1-2-3

L

S01.214

2zgh

KVPL

S4-S3-S2-S1

4-5-6-7

B

S01.139

4boh

KPR

S3-S2-S1

52-53–54

M

S01.217