PPI Datasets
Collection
Datasets related to protein-protein interaction, binding sites, or binding affinity.
•
21 items
•
Updated
•
4
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pdb_id
stringlengths 4
4
| chain_id_1
stringlengths 1
4
| chain_id_2
stringlengths 1
2
| protein_1
stringlengths 3
39
| protein_2
stringlengths 3
42
| kd
float64 0
0
| pkd
float64 3.19
14.3
| method
stringclasses 7
values | ph
float64 5
8.7
| temperature
float64 18
37
| reference
stringlengths 30
51
| type
stringclasses 4
values |
|---|---|---|---|---|---|---|---|---|---|---|---|
7CEI
|
A
|
B
|
Colicin E7 nuclease
|
Im7 immunity protein
| 0 | 14.3 |
F
| 7 | 25 |
Keeble et al. (2006) Biochemistry 3243.
|
E
|
1DFJ
|
E
|
I
|
Ribonuclease A
|
Rnase inhibitor
| 0 | 13.23 |
B
| 6 | 25 |
Vincentini et al. (1990) Biochemistry 8827.
|
E
|
1BVN
|
P
|
T
|
α-amylase
|
Tendamistat
| 0 | 11.05 |
D
| 7 | 25 |
Piervincenzi and Chilkoti (2004) Biomol Eng 21:33.
|
E
|
1IQD
|
AB
|
C
|
Fab
|
Factor VIII domain C2
| 0 | 10.85 |
D
| 5 | 25 |
Jacquemin et al. (1998) Blood 92:496.
|
AB
|
1MAH
|
A
|
F
|
Acetylcholinesterase
|
Fasciculin 2
| 0 | 10.6 |
C
| 7.5 | 25 |
Marchot et al. (1993) J Biol Chem 12458.
|
E
|
1EZU
|
C
|
AB
|
D102N Trypsin
|
Y69F D70P Ecotin
| 0 | 10.1 |
E
| 8 | 25 |
Yang and Craik (1998) J Mol Biol 1001.
|
E
|
1JPS
|
HL
|
T
|
Fab D3H44
|
Tissue factor
| 0 | 10 |
D
| 7.4 | 25 |
Presta et al. (2001) Thromb Haem 3:379.
|
A
|
1IBR
|
A
|
B
|
Ran GTPase
|
Importin β
| 0 | 9.52 |
C
| 7.4 | 25 |
Görlich et al. (1996) EMBO 5584.
|
O
|
1R0R
|
A
|
C
|
Subtilisin Carlsberg
|
OMTKY
| 0 | 9.47 |
F
| 8.3 | 21 |
Horn et al. (2003) J Mol Biol 331:497.
|
E
|
1T6B
|
X
|
Y
|
Anthrax protective antigen
|
Anthrax toxin receptor
| 0 | 9.4 |
D
| 7.4 | 25 |
Wigdelsworth et al. (2004) J Biol Chem 23349.
|
O
|
1KXP
|
A
|
D
|
Actin
|
Vitamin D binding protein
| 0 | 9 |
C
| 7.5 | 25 |
McLeod et al. (1989) J Biol Chem 1260.
|
O
|
2FD6
|
HL
|
U
|
Urokinase plasminogen receptor antibody
|
Urokinase plasminogen activator receptor
| 0 | 9 |
C
| 7.4 | 23 |
Appella et al (1987) J Biol Chem 4437.
|
A
|
2I25
|
N
|
L
|
Shark single domain antigen receptor
|
Lysozyme
| 0 | 9 |
D
| 7.4 | 25 |
Dooley et al. (2006) PNAS 1846.
|
A
|
2B42
|
A
|
B
|
Xylanase
|
Xylanase inhibitor
| 0 | 8.97 |
D
| 5 | 22 |
Fierens et al (2005) Febs J 5872.
|
E
|
2JEL
|
HL
|
P
|
Fab Jel42
|
HPr
| 0 | 8.55 |
A
| 7.2 | 23 |
Smallshaw et al. (1998) J Mol Biol 280:765.
|
AB
|
1ML0
|
ABC
|
H
|
Hpr Kinase C-ter domain
|
HPr
| 0 | 8.51 |
D
| 8 | 25 |
Lavergne (2002) Biochemistry 41(20):6218.
|
E
|
1BJ1
|
HL
|
VW
|
Fab
|
vEGF
| 0 | 8.47 |
D
| 7.4 | 25 |
Muller et al. (1998) Structure 6(9):1153.
|
AB
|
1KXQ
|
H
|
A
|
Camel VHH
|
Pancreatic α-amylase
| 0 | 8.46 |
D
| 7.4 | 25 |
Lauwereys et al. (1998) EMBO 13:3512.
|
AB
|
1OPH
|
A
|
B
|
α-1-antitrypsin
|
Trypsinogen
| 0 | 8.3 |
A
| 7.4 | 25 |
Stratikos and Gettins (1997) PNAS 94:453.
|
E
|
1M10
|
A
|
B
|
Von Willebrand Factor Domain A1
|
Glycoprotein IB-α
| 0 | 8.24 |
D
| 7.4 | 25 |
Huizinga et al. (2002) Science 297:1176.
|
E
|
2AJF
|
A
|
E
|
ACE2
|
SARS spike protein receptor binding domain
| 0 | 7.79 |
D
| 7.4 | 25 |
Li et al. (2005) EMBO 24:1634.
|
O
|
1IJK
|
A
|
BC
|
Von Willebrand Factor Domain A1
|
Botrocetin
| 0 | 7.64 |
C
| 7.4 | 25 |
Miura et al. (2000) J Biol Chem 7539.
|
E
|
1H1V
|
A
|
G
|
Actin
|
Gelsonin
| 0 | 7.64 |
B
| 7 | 20 |
Kinosian et al. (1996) Biochemistry 16550.
|
O
|
1E6J
|
HL
|
P
|
Fab
|
HIV-1 capsid protein 24
| 0 | 7.53 |
D
| 7.4 | 25 |
Monaco-Malbet et al. (2000) Structure 8:1069.
|
A
|
2HLE
|
A
|
B
|
Ephrin B4 receptor
|
Ephrin B2 ectodomain
| 0 | 7.4 |
F
| 7.8 | 25 |
Chrencik et al. (2006) J Biol Chem 28185.
|
O
|
1A2K
|
C
|
AB
|
Ran GTPase
|
Nuclear Transport Factor 2
| 0 | 7 |
F
| 7.5 | 25 |
Chaillan-Huntington et al. (2000) J Biol Chem 5874.
|
O
|
2C0L
|
A
|
B
|
PTS1 and TRP region of PEX5
|
SCP2
| 0 | 6.96 |
F
| 7.4 | 35 |
Stanley et al. (2006) Mol Cell 24:653.
|
O
|
1RLB
|
ABCD
|
E
|
Transthyretin
|
Retinol binding protein
| 0 | 6.87 |
A
| 7.4 | 25 |
Noy et al. (1992) Biochemistry 31:11118.
|
O
|
1GRN
|
A
|
B
|
CDC42 GTPase
|
CDC42 GAP
| 0 | 6.41 |
A
| 8 | 25 |
Hoffman et al. (1998) J Biol Chem 4392.
|
O
|
1E6E
|
A
|
B
|
Adrenoxin reductase
|
Adrenoxin
| 0.000001 | 6.07 |
D
| 7.4 | 25 |
Schiffler et al. (2004) J Biol Chem 34269.
|
E
|
1J2J
|
A
|
B
|
Arf1 GTPase
|
GAT domain of GGA1
| 0.000001 | 5.96 |
D
| 8 | 25 |
Shiba et al. (2003) Nat Struct Biol 10:386.
|
O
|
2BTF
|
A
|
P
|
Actin
|
Profilin
| 0.000002 | 5.7 |
A
| 7 | 25 |
Schlűter et al. (1998) J Cell Sci 111:3261.
|
O
|
1HE8
|
B
|
A
|
Ras GTPase
|
PIP3 kinase
| 0.000002 | 5.6 |
A
| 7.5 | 20 |
Pacold et al. (2000) Cell 103:931.
|
O
|
1B6C
|
A
|
B
|
FKBP Binding Protein
|
TGFβ receptor
| 0.000003 | 5.55 |
D
| 7.4 | 25 |
Huse et al. (2001) Mol Cell 8:671.
|
O
|
1I4D
|
D
|
AB
|
Rac GTPase
|
Arfaptin
| 0.000003 | 5.52 |
F
| 8.7 | 22 |
Tarricone et al. (2001) Nature 411:215.
|
O
|
1GHQ
|
A
|
B
|
Complement C3
|
Epstein-Barr virus receptor CR2
| 0.000004 | 5.37 |
D
| 7.4 | 25 |
Sarrias et al. (2001) J Immun 167:1490.
|
O
|
2MTA
|
HL
|
A
|
Methylamine Dehydrogenase
|
Amicyanin
| 0.000005 | 5.35 |
G
| 7.5 | 25 |
Davidson et al. (1993) BBA 1144:39.
|
E
|
1E96
|
A
|
B
|
Rac GTPase
|
p67 Phox
| 0.000006 | 5.22 |
F
| 7 | 18 |
Lapouge et al. (2000) Mol Cell 6:899.
|
O
|
1Z0K
|
A
|
B
|
Rab4A GTPase
|
RAB4 binding domain of Rabenosyn
| 0.000007 | 5.14 |
D
| 7.5 | 25 |
Eathiraj et al. (2005) Nature 436:415.
|
O
|
1QA9
|
A
|
B
|
CD2
|
CD58
| 0.000009 | 5.05 |
D
| 7.4 | 37 |
van der Merwe et al. (1994) Biochemistry 10149.
|
O
|
1AK4
|
A
|
D
|
Cyclophilin
|
HIV capsid
| 0.000016 | 4.8 |
F
| 6.5 | 20 |
Yoo et al. (1997) J Mol Biol 269:780.
|
O
|
1GCQ
|
B
|
C
|
GRB2 C-ter SH3 domain
|
GRB2 N-ter SH3 domain
| 0.000017 | 4.77 |
D
| 7.4 | 25 |
Nishida et al. (2001) EMBO 20:2995.
|
O
|
1WQ1
|
R
|
G
|
Ras GTPase
|
Ras GAP
| 0.000017 | 4.77 |
B
| 7.5 | 25 |
Eccleston et al. (1993) J Biol Chem 27012.
|
O
|
2OOB
|
A
|
B
|
Ubiquitin ligase
|
Ubiquitin
| 0.00006 | 4.22 |
F
| 7 | 25 |
Kozlov et al (2007) J Biol Chem 35787.
|
O
|
1AKJ
|
AB
|
DE
|
MHC CLass 1 HLA-A2
|
T-cell CD8 coreceptor
| 0.000126 | 3.9 |
D
| 7.4 | 25 |
Wyer et all (1999) Immunity 10:219.
|
O
|
1S1Q
|
A
|
B
|
UEV domain
|
Ubiquitin
| 0.000635 | 3.19 |
D
| 7.2 | 20 |
Pornillos et al (2002), EMBO J 21:2397.
|
O
|
Information for the Haddock protein-protein affinity benchmark from here.
Please cite their work if you use the data.
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