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FGFR2_HUMAN_455_769

Fibroblast growth factor receptor 2 [Protein kinase superfamily. Tyr protein kinase family. Fibroblast growth factor receptor subfamily]

Composition of the binding site

Protein chains monomer [domain annotation]
A1 (FGFR2_HUMAN):D: Protein kinase (487:495, 515, 517, 534, 538, 548, 564:568, 570, 571, 574, 589, 590, 626, 630, 631, 633, 643, 644, 646, 664)487:495, 515, 517, 534, 538, 548, 564:568, 570, 571, 574, 589, 590, 626, 630, 631, 633, 643, 644, 646, 664

Full PDB list

1gjo, 1oec, 2psq, 2pvf, 2pvy, 2pwl, 2py3, 2pz5, 2pzp, 2pzr, 2q0b, 3b2t, 3cly, 3ri1, 4j95, 4j96, 4j97, 4j98, 4j99, 5eg3, 5ugl, 5ugx, 5uhn, 5ui0 (redundant Pocketome entry)

Pocket contact map

[download in TSV format]
   
PDB.ch
   
ligand
A1
L
4
8
7
G
4
8
8
E
4
8
9
G
4
9
0
C
4
9
1
F
4
9
2
G
4
9
3
V
4
9
5
A
5
1
5
K
5
1
7
E
5
3
4
M
5
3
8
I
5
4
8
V
5
6
4
E
5
6
5
Y
5
6
6
A
5
6
7
G
5
7
0
N
5
7
1
R
6
3
0
N
6
3
1
L
6
3
3
A
6
4
3
D
6
4
4
R
6
6
4
[1]1oec.a aa232 . . . . . . . . . . . . . . . . . . . . . . . . .
[1]2psq.a none . . . . . . . . . . . . . . . . . . . . . . . . .
[1]2pvf.a acp,mg,mg33 . . . . A . . . . . . . . . . . . . . . . . . . .
[1]2pwl.b acp27 . . . . A . . . . . . . . . . . . . . . . . . . .
[1]2py3.b acp,mg,mg33 . . - - - - . . . . . . . . G . . . . . . . . . .
[1]2pz5.b acp,mg,mg33 . - - - - - - . . . . . . . . . . . . . . . . . .
[1]2q0b.a acp10 . - - - - - . . . . . . . . A . . . . . . . . . .
[1]3b2t.a m3327 . . . . . . . . . . . . . . . . . . . . . . . . .
[1]3ri1.a 3rh21 . . . . . . . . . . . . . . . . . . . . . . . . .
[1]4j96.a none . . . . A . . . . . . . . . . . . . . . . . . . .
[1]4j97.b acp31 . . . - - - . . . . . . . . . . . . . . . . . . .
[1]4j99.c acp,mg32 . . . . A . . . . . . . . . . . . . . . . . . . .
[1]5eg3.a acp,mg,mg33 . . . . A . . . . . . . . . A . . . . . . . . . .
[1]5ugl.a anp31 . . . . A . . . . . . . . . . . . . . . . . . . .
[1]5ugx.a acp,mg32 . . . . A . . . . . . . . . A . . . . . . . . . .
[1]5ui0.a none . . . . A . . . . . . . . . A . . . . . . . . . .
[1]5ui0.b acp31 . . . . A . . . . . . . . . A . . . . . . . . . .

Legend

B backbone contact  S side chain contact  F BB + SCh
.
 no contact C covalent bond
X mutation to X * complex cases - deletion
M contact with cofactors/metals (if any)

Site contact map

[download in TSV format]
   
PDB.ch
A1
L
4
8
7
G
4
8
8
E
4
8
9
G
4
9
0
C
4
9
1
F
4
9
2
G
4
9
3
Q
4
9
4
V
4
9
5
A
5
1
5
K
5
1
7
E
5
3
4
M
5
3
8
I
5
4
8
V
5
6
4
E
5
6
5
Y
5
6
6
A
5
6
7
S
5
6
8
G
5
7
0
N
5
7
1
E
5
7
4
D
5
8
9
I
5
9
0
D
6
2
6
R
6
3
0
N
6
3
1
L
6
3
3
A
6
4
3
D
6
4
4
G
6
4
6
R
6
6
4
[1]1oec.a . . . * * . . . . . * . . . . . . . . . . . - - . . . . . * . .
[1]2psq.a . * . . . * . . . . * . . . . . . . . . . . - - . . . . . * . .
[1]2pvf.a . . . . A . . . . . . . . . . . . . . . . . - - . . . . . . . .
[1]2pwl.b . . . * A * . . . . . . . . . . . . . . . . - - . . . . . . . .
[1]2py3.b . . - - - - . . . . . . . . . G . . . . . . - - . . . . . . . .
[1]2pz5.b . - - - - - - . . . . . . . . . . . . . . . - - . . . . . . . .
[1]2q0b.a . - - - - - . . . . . . . . . A . . . . . . - - . . . . . * . .
[1]3b2t.a . . . * . . . . . . * . . . . . . . . . . . - - . . . . . . . .
[1]3ri1.a . * . . . * . . . . . . . . . . . . . . . . - - . . . . . . . .
[1]4j96.a . . . . A . . . . . . . . . . . . . . . . . . . . . . . . * . .
[1]4j97.b . . . - - - . . . . . . . . . . . . . . . . - . . . . . . * . .
[1]4j99.c . . . . A . . . . . . . . . . . . . . . . . . - . . . . . . . .
[1]5eg3.a . . . . A . . . . . . . . . . A . . . . . . - - . . . . . . . .
[1]5ugl.a . . . . A . . . . . . . . . . . . . . . . . - - . . . . . * . .
[1]5ugx.a . . . . A . . . . . . . . . . A . . . . . . . . . . . . . * . .
[1]5ui0.a . . . . A * . . . . . . . . . A . . . . . . . . . . . . . * . .
[1]5ui0.b . . . . A . . . . . . . . . . A . . . . . . . . . . . . . . . .

Legend

B backbone contact  S side chain contact  F BB + SCh
.
 no contact C covalent bond
X X X X X  clash
X mutation to X * complex cases - deletion
M contact with cofactors/metals (if any)

Pocket-ligand steric compatibility

Ligands (x) vs pockets (y) colored by number of steric clashes

zoom: [−] [+]; [view as image]; [download as text]

pocketligand
≥10
9
8
7
6
5
4
3
2
1
0
1oec.a:aa2
2psq.a is apo
2pvf.a:acp,mg
2pwl.b:acp
2py3.b:acp,mg
2pz5.b:acp,mg
2q0b.a:acp
3b2t.a:m33
3ri1.a:3rh
4j96.a is apo
4j97.b:acp
4j99.c:acp,mg
5eg3.a:acp,mg
5ugl.a:anp
5ugx.a:acp,mg
5ui0.a is apo
5ui0.b:acp
[1] 1oec.a
0
- 2.9 0 0.9 0.8 0 0.1 1.6 - 0.8 1.1 1.7 0.2 2.5 - 0.7
[1] 2psq.a 0.1
-
4.4 0.3 2.6 2.5 0 0.8 1.6 - 0.9 2.3 1.4 0.5 3.3 - 2.2
[1] 2pvf.a 0 -
0.2
0.1 0.3 0.3 0 0.6 0.3 - 0.9 0.5 0.1 0.4 0.2 - 0
[1] 2pwl.b 0 - 3.8
0
0.7 0.7 0 0 0.1 - 0.7 1.0 2.1 0.2 3.3 - 1.1
[1] 2py3.b 0 - 0.4 0.1
0.3
0.2 0 0.4 0.3 - 0.6 0.3 0.2 0.4 0.2 - 0
[1] 2pz5.b 0 - 0.3 0 0.3
0.3
0 0.1 0.3 - 0.2 0.3 0.2 0.2 0.2 - 0
[1] 2q0b.a 0.1 - 1.0 0.1 0.9 0.9
0
0 0.1 - 0.1 1.4 1.0 0.2 0.5 - 0.1
[1] 3b2t.a 0 - 2.0 0 0.6 0.5 0
0
1.4 - 0.4 0.9 0.7 0.1 1.2 - 0.3
[1] 3ri1.a 0.1 - 3.5 0.5 1.4 1.3 0 0.8
0
- 0.8 0.9 0.7 0.5 2.5 - 1.4
[1] 4j96.a 0 - 1.5 0 0.9 0.9 0 0.1 0.5
-
0.5 1.2 1.0 0.3 0.7 - 0.5
[1] 4j97.b 0 - 1.0 0 0.8 0.7 0 0 0.3 -
0
1.2 1.1 0.3 0.4 - 0.3
[1] 4j99.c 0.1 - 1.3 0 0.4 0.3 0 0 0.2 - 0.2
0
0.3 0.1 1.5 - 0.3
[1] 5eg3.a 0 - 0.5 0.1 0.6 0.5 0 0.3 0.2 - 0.7 0.4
0.2
0.6 0.3 - 0
[1] 5ugl.a 0.1 - 1.0 0.1 0.6 0.7 0.1 0.1 0.3 - 0.8 1.0 1.1
0
0.9 - 0.4
[1] 5ugx.a 0.2 - 1.0 0 0.7 0.6 0 0.1 0.2 - 1.0 1.2 0.7 0.3
0.2
- 0.2
[1] 5ui0.a 0 - 2.2 0 0.6 0.6 0 0.1 0.3 - 0.9 1.2 1.8 0.2 1.2
-
0.4
[1] 5ui0.b 0 - 0.3 0 0.4 0.3 0 0.1 0.3 - 0.2 0.4 0.1 0.3 0.3 -
0
[Pocket-ligand steric clashes matrix]

Pocket clash dissimilarity (1 cluster)

Pockets (x) vs pockets (y) colored by ligand clash profile difference

zoom: [−] [+]; [view as image]; [download as text]

pocketpocket
≥1.
.9
.8
.7
.6
.5
.4
.3
.2
.1
.0
1oec.a
2psq.a
2pvf.a
2pwl.b
2py3.b
2pz5.b
2q0b.a
3b2t.a
3ri1.a
4j96.a
4j97.b
4j99.c
5eg3.a
5ugl.a
5ugx.a
5ui0.a
5ui0.b
[1] 1oec.a
0
.24 .20 .14 .19 .18 .17 .10 .29 .13 .15 .13 .21 .13 .15 .14 .18
[1] 2psq.a .24
0
.23 .29 .23 .23 .20 .18 .11 .18 .20 .28 .24 .23 .21 .20 .23
[1] 2pvf.a .20 .23
0
.18 .02 .04 .08 .13 .15 .08 .08 .10 .03 .11 .06 .11 .04
[1] 2pwl.b .14 .29 .18
0
.18 .18 .21 .18 .20 .18 .21 .13 .19 .15 .18 .13 .17
[1] 2py3.b .19 .23 .02 .18
0
.02 .06 .12 .14 .07 .05 .10 .04 .11 .07 .11 .02
[1] 2pz5.b .18 .23 .04 .18 .02
0
.04 .11 .15 .06 .04 .08 .04 .10 .07 .10 .01
[1] 2q0b.a .17 .20 .08 .21 .06 .04
0
.11 .18 .05 .02 .12 .09 .09 .06 .10 .05
[1] 3b2t.a .10 .18 .13 .18 .12 .11 .11
0
.20 .08 .09 .14 .14 .09 .11 .10 .11
[1] 3ri1.a .29 .11 .15 .20 .14 .15 .18 .20
0
.16 .17 .18 .15 .16 .17 .15 .15
[1] 4j96.a .13 .18 .08 .18 .07 .06 .05 .08 .16
0
.04 .11 .08 .07 .04 .06 .06
[1] 4j97.b .15 .20 .08 .21 .05 .04 .02 .09 .17 .04
0
.11 .08 .08 .04 .09 .05
[1] 4j99.c .13 .28 .10 .13 .10 .08 .12 .14 .18 .11 .11
0
.11 .08 .11 .12 .08
[1] 5eg3.a .21 .24 .03 .19 .04 .04 .09 .14 .15 .08 .08 .11
0
.12 .08 .12 .05
[1] 5ugl.a .13 .23 .11 .15 .11 .10 .09 .09 .16 .07 .08 .08 .12
0
.07 .05 .10
[1] 5ugx.a .15 .21 .06 .18 .07 .07 .06 .11 .17 .04 .04 .11 .08 .07
0
.08 .07
[1] 5ui0.a .14 .20 .11 .13 .11 .10 .10 .10 .15 .06 .09 .12 .12 .05 .08
0
.10
[1] 5ui0.b .18 .23 .04 .17 .02 .01 .05 .11 .15 .06 .05 .08 .05 .10 .07 .10
0
[Pocket clash dissimilarity matrix]

Site backbone RMSD (median 1.3 Å)

Pockets (x) vs pockets (y) colored by RMSD of site residue backbone atoms

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pocketpocket
≥10 Å
9 Å
8 Å
7 Å
6 Å
5 Å
4 Å
3 Å
2 Å
1 Å
0 Å
1oec.a
2psq.a
2pvf.a
2pwl.b
2py3.b
2pz5.b
2q0b.a
3b2t.a
3ri1.a
4j96.a
4j97.b
4j99.c
5eg3.a
5ugl.a
5ugx.a
5ui0.a
5ui0.b
[1] 1oec.a
0
1.5 1.0 0.4 0.9 0.4 0.5 0.7 1.5 0.8 0.4 0.5 1.3 0.7 0.7 0.7 0.9
[1] 2psq.a 1.5
0
1.5 1.5 0.7 0.6 0.6 1.3 0.3 1.2 1.0 1.4 1.6 1.4 1.4 1.3 1.3
[1] 2pvf.a 1.0 1.5
0
1.1 1.1 0.7 0.7 0.9 1.4 0.8 0.7 0.9 0.8 1.0 0.8 0.8 0.7
[1] 2pwl.b 0.4 1.5 1.1
0
0.9 0.4 0.4 0.7 1.5 0.8 0.4 0.5 1.3 0.6 0.7 0.7 0.9
[1] 2py3.b 0.9 0.7 1.1 0.9
0
0.2 0.5 1.0 0.8 1.0 0.9 1.0 1.1 1.1 1.0 0.9 0.9
[1] 2pz5.b 0.4 0.6 0.7 0.4 0.2
0
0.3 0.4 0.6 0.5 0.4 0.6 0.6 0.7 0.5 0.4 0.3
[1] 2q0b.a 0.5 0.6 0.7 0.4 0.5 0.3
0
0.5 0.7 0.5 0.4 0.5 0.7 0.7 0.5 0.4 0.4
[1] 3b2t.a 0.7 1.3 0.9 0.7 1.0 0.4 0.5
0
1.3 0.6 0.4 0.6 1.0 0.7 0.7 0.6 0.7
[1] 3ri1.a 1.5 0.3 1.4 1.5 0.8 0.6 0.7 1.3
0
1.2 1.0 1.3 1.5 1.4 1.4 1.3 1.3
[1] 4j96.a 0.8 1.2 0.8 0.8 1.0 0.5 0.5 0.6 1.2
0
1.0 3.3 0.9 0.6 2.1 0.4 3.8
[1] 4j97.b 0.4 1.0 0.7 0.4 0.9 0.4 0.4 0.4 1.0 1.0
0
0.4 0.7 0.6 1.0 1.0 3.0
[1] 4j99.c 0.5 1.4 0.9 0.5 1.0 0.6 0.5 0.6 1.3 3.3 0.4
0
1.1 0.4 3.3 3.3 3.3
[1] 5eg3.a 1.3 1.6 0.8 1.3 1.1 0.6 0.7 1.0 1.5 0.9 0.7 1.1
0
1.2 0.9 1.0 0.8
[1] 5ugl.a 0.7 1.4 1.0 0.6 1.1 0.7 0.7 0.7 1.4 0.6 0.6 0.4 1.2
0
0.5 0.7 0.8
[1] 5ugx.a 0.7 1.4 0.8 0.7 1.0 0.5 0.5 0.7 1.4 2.1 1.0 3.3 0.9 0.5
0
2.1 5.3
[1] 5ui0.a 0.7 1.3 0.8 0.7 0.9 0.4 0.4 0.6 1.3 0.4 1.0 3.3 1.0 0.7 2.1
0
3.7
[1] 5ui0.b 0.9 1.3 0.7 0.9 0.9 0.3 0.4 0.7 1.3 3.8 3.0 3.3 0.8 0.8 5.3 3.7
0
[Binding site backbone RMSD matrix]

Site full-atom RMSD (median 0.7 Å)

Pockets (x) vs pockets (y) colored by RMSD of all site residue atoms

zoom: [−] [+]; [view as image]; [download as text]

pocketpocket
≥10 Å
9 Å
8 Å
7 Å
6 Å
5 Å
4 Å
3 Å
2 Å
1 Å
0 Å
1oec.a
2psq.a
2pvf.a
2pwl.b
2py3.b
2pz5.b
2q0b.a
3b2t.a
3ri1.a
4j96.a
4j97.b
4j99.c
5eg3.a
5ugl.a
5ugx.a
5ui0.a
5ui0.b
[1] 1oec.a
0
1.9 1.6 0.7 1.0 1.0 0.7 1.2 1.7 1.0 0.8 1.0 1.7 1.1 1.1 1.0 1.2
[1] 2psq.a 1.9
0
1.8 2.1 1.1 1.5 1.1 2.1 0.7 1.9 1.4 1.4 2.4 2.1 2.0 2.3 2.0
[1] 2pvf.a 1.6 1.8
0
1.6 1.6 1.6 1.5 1.9 1.7 1.7 1.6 1.1 1.5 1.9 1.9 1.7 1.5
[1] 2pwl.b 0.7 2.1 1.6
0
0.8 0.9 0.6 1.2 2.0 1.4 0.7 0.7 1.6 1.2 0.9 0.9 1.5
[1] 2py3.b 1.0 1.1 1.6 0.8
0
0.8 0.6 1.3 1.1 1.0 0.9 1.0 1.5 1.2 1.1 1.0 0.9
[1] 2pz5.b 1.0 1.5 1.6 0.9 0.8
0
0.8 1.5 1.5 1.2 0.9 1.3 1.4 1.5 1.3 1.2 1.1
[1] 2q0b.a 0.7 1.1 1.5 0.6 0.6 0.8
0
1.1 1.1 0.7 0.6 0.8 1.4 1.0 0.8 0.8 0.7
[1] 3b2t.a 1.2 2.1 1.9 1.2 1.3 1.5 1.1
0
1.7 1.3 1.2 1.3 1.8 1.4 1.2 1.2 1.2
[1] 3ri1.a 1.7 0.7 1.7 2.0 1.1 1.5 1.1 1.7
0
1.6 1.4 1.3 2.0 1.8 1.6 2.0 1.6
[1] 4j96.a 1.0 1.9 1.7 1.4 1.0 1.2 0.7 1.3 1.6
0
1.2 3.1 1.6 1.0 2.3 1.2 4.3
[1] 4j97.b 0.8 1.4 1.6 0.7 0.9 0.9 0.6 1.2 1.4 1.2
0
0.9 1.3 1.1 1.3 1.2 2.6
[1] 4j99.c 1.0 1.4 1.1 0.7 1.0 1.3 0.8 1.3 1.3 3.1 0.9
0
1.3 0.6 3.2 3.2 3.5
[1] 5eg3.a 1.7 2.4 1.5 1.6 1.5 1.4 1.4 1.8 2.0 1.6 1.3 1.3
0
1.9 1.8 1.6 1.4
[1] 5ugl.a 1.1 2.1 1.9 1.2 1.2 1.5 1.0 1.4 1.8 1.0 1.1 0.6 1.9
0
0.7 1.3 1.2
[1] 5ugx.a 1.1 2.0 1.9 0.9 1.1 1.3 0.8 1.2 1.6 2.3 1.3 3.2 1.8 0.7
0
2.4 5.2
[1] 5ui0.a 1.0 2.3 1.7 0.9 1.0 1.2 0.8 1.2 2.0 1.2 1.2 3.2 1.6 1.3 2.4
0
4.4
[1] 5ui0.b 1.2 2.0 1.5 1.5 0.9 1.1 0.7 1.2 1.6 4.3 2.6 3.5 1.4 1.2 5.2 4.4
0
[Binding site full-atom RMSD matrix]







[show 3D visualization]

[ENTRY 2D visualization]

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