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F16P1_HUMAN_1_338

Fructose-1,6-bisphosphatase 1 [FBPase class 1 family]

Composition of the binding site

Protein chains homodimer
A1 (F16P1_HUMAN):17:19, 21:23, 25:33, 35, 113, 114, 141, 161, 178, 17917:19, 21:23, 25:33, 35, 113, 114, 141, 161, 178, 179
A2 (F16P1_HUMAN):18, 19, 21:23, 25:33, 35, 113, 114, 141, 161, 178, 17918, 19, 21:23, 25:33, 35, 113, 114, 141, 161, 178, 179

Full PDB list

1bk4, 1fta, 2fhy, 2fie, 2fix, 2jjk, 2vt5, 2wbb, 2wbd, 2y5k, 2y5l, 3a29, 3kbz, 3kc0, 3kc1, 4mjo, 5ldz

Pocket contact map

[download in TSV format]
   
PDB.ch
   
ligand
A1 A2
V
1
8
M
1
9
E
2
1
G
2
2
R
2
3
A
2
5
R
2
6
G
2
7
T
2
8
G
2
9
E
3
0
L
3
1
T
3
2
Q
3
3
L
3
5
K
1
1
3
Y
1
1
4
R
1
4
1
V
1
6
1
M
1
7
8
D
1
7
9
V
1
8
M
1
9
E
2
1
G
2
2
R
2
3
A
2
5
R
2
6
G
2
7
T
2
8
G
2
9
E
3
0
L
3
1
T
3
2
L
3
5
K
1
1
3
Y
1
1
4
R
1
4
1
V
1
6
1
M
1
7
8
D
1
7
9
[1]1bk4.a none . . . . . . G . . . . M . . . . . . . G G - - - - - - - - - - - - - - - - - - - -
[1]1fta.a amp,amp46 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]2fhy.a a37,a3744 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]2fie.d a74,a7462 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]2fix.h 870,87060 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]2jjk.a r1535 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]2vt5.a rok.rok34 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]2wbb.a ro3,ro340 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]2wbd.b ro5,ro542 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]2y5k.a ycu,ycu60 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]2y5l.b ro8,ro840 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]3a29.a 2t0,2t038 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]3kbz.a 2t4,2t438 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]3kc0.d 2t5,2t536 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]3kc1.a 2t6,2t642 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]4mjo.b 2c1,2c158 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]5ldz.b none . . . . - - - . . . . . . . . . . . . . . - - - - - - - - - - - - - - - - - - - -

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 A2
F
1
7
V
1
8
M
1
9
E
2
1
G
2
2
R
2
3
A
2
5
R
2
6
G
2
7
T
2
8
G
2
9
E
3
0
L
3
1
T
3
2
Q
3
3
L
3
5
K
1
1
3
Y
1
1
4
R
1
4
1
V
1
6
1
M
1
7
8
D
1
7
9
V
1
8
M
1
9
E
2
1
G
2
2
R
2
3
A
2
5
R
2
6
G
2
7
T
2
8
G
2
9
E
3
0
L
3
1
T
3
2
Q
3
3
L
3
5
K
1
1
3
Y
1
1
4
R
1
4
1
V
1
6
1
M
1
7
8
D
1
7
9
[1]1bk4.a . . * . . . . G . . . . M . . . . . . . G G - - - - - - - - - - - - - - - - - - - - -
[1]1fta.a . . * . . . . . . . . . . . . . . . . . . . . * . * * . . . . . . . . . . . . . . . .
[1]2fhy.a . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . * . . .
[1]2fie.d . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . * . . . . . . . . * . . .
[1]2fix.h . . . . . . . . . * . . . . . . . . . . . . . . . . . . . . * . . . . . . . . . . . .
[1]2jjk.a . . * . . . . . . . . . . . . . . . * . . . . * . . . . . * . . . . . . . * . * . . .
[1]2vt5.a . . * . . . . . . . . . . . . . . . * . . . . * . . . . . . . . . . . . . . . . . . .
[1]2wbb.a . . . . . . . . . . . . . . . . . . * . . . . . . . . . . . . . . . . . . . . * . . .
[1]2wbd.b . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[1]2y5k.a . . . . . . . . . . . . . . . . . . * . . . . . . . * . . . . . . . . . . . . * . . .
[1]2y5l.b . . . . . . . . . . . . . . . . . . * . . . . . . . . . . . . . . . . . . . . . . . .
[1]3a29.a . . * . . . * . . . . . . . . . . . * . . . . * . * . * . . . . . . . . . . . . . . .
[1]3kbz.a . . * . . . * . . . . . . . . . . . * . . . . * . * . * . . . . . . . . . . . . . . .
[1]3kc0.d . . * . . . * . . . . . . . . . . . * . . . . * . * * * . . . . . . . . . . . * . . .
[1]3kc1.a . . * . . . * . . . . . . . . . . . * . . . . * . * . * . . . . . . . . . . . . . . .
[1]4mjo.b . . . . . . . . . . . . . . . . . . * . . . . . . . . . . . . . . . . . . . . . . . .
[1]5ldz.b . * * . . - - - . . . . . . . . . . * . . . - - - - - - - - - - - - - - - - - - - - -

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

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pocketligand
≥10
9
8
7
6
5
4
3
2
1
0
1bk4.a is apo
1fta.a:amp
2fhy.a:a37
2fie.d:a74
2fix.h:870
2jjk.a:r15
2vt5.a:rok.rok
2wbb.a:ro3
2wbd.b:ro5
2y5k.a:ycu
2y5l.b:ro8
3a29.a:2t0
3kbz.a:2t4
3kc0.d:2t5
3kc1.a:2t6
4mjo.b:2c1
5ldz.b is apo
[1] 1bk4.a
-
1.3 1.7 1.9 1.8 0.3 0.4 1.1 1.3 0.6 0.8 0.6 0.6 0.9 0.6 0.8 -
[1] 1fta.a -
0.2
4.2 3.9 4.7 2.5 1.7 5.6 4.2 3.8 3.7 0.6 0.3 0.3 0 3.8 -
[1] 2fhy.a - 3.7
0
1.9 2.1 1.7 1.5 1.8 0.5 1.1 0.3 1.8 1.6 1.3 1.2 0.9 -
[1] 2fie.d - 3.2 0.5
0.1
0.5 1.2 0.9 1.3 0.4 0.5 0.3 2.0 1.3 0.9 1.0 0.3 -
[1] 2fix.h - 3.7 0.9 0.6
0.4
1.4 0.7 0.6 0.5 1.3 0.7 3.7 2.8 2.2 2.6 0.8 -
[1] 2jjk.a - 4.1 4.0 4.9 4.9
0.5
0.4 3.3 3.5 3.5 3.3 2.0 1.7 0.8 1.4 2.9 -
[1] 2vt5.a - 2.9 3.8 3.6 3.6 1.0
0
3.1 3.2 2.2 2.6 2.0 1.2 0.8 1.1 2.3 -
[1] 2wbb.a - 5.4 1.0 2.2 2.1 0.9 0.4
0.2
0.7 1.2 0.7 3.3 2.5 1.7 2.0 0.6 -
[1] 2wbd.b - 1.3 0.3 1.3 1.3 0.5 0.3 0.7
0
0.3 0 1.1 0.7 0.6 0.5 0.3 -
[1] 2y5k.a - 3.7 1.6 1.7 2.7 0.8 0.6 1.8 0.9
0.4
0.4 1.6 0.9 0.3 0.4 0.6 -
[1] 2y5l.b - 2.4 0.3 2.4 1.9 0.6 0.5 0.8 0 0.6
0
1.5 1.1 0.7 0.8 0.3 -
[1] 3a29.a - 2.2 5.5 3.9 4.4 4.2 3.2 6.2 4.3 4.0 3.9
0.3
0 0.1 0.2 4.4 -
[1] 3kbz.a - 2.1 5.3 3.7 4.4 3.8 3.1 5.5 4.3 3.6 4.1 0.6
0
0.2 0.1 4.3 -
[1] 3kc0.d - 2.6 6.3 6.2 7.6 4.3 3.8 6.9 5.4 6.1 5.3 1.2 0.5
0.1
0.3 7.5 -
[1] 3kc1.a - 3.2 5.2 3.5 4.7 3.8 2.9 5.9 5.0 3.6 4.0 0.7 0.5 0.2
0
4.3 -
[1] 4mjo.b - 2.4 0.4 1.6 1.5 0.5 0.1 0.6 0 0.2 0.1 1.8 1.3 0.5 0.8
0
-
[1] 5ldz.b - 2.8 2.1 1.6 1.4 0.9 0.2 0.7 1.3 0.9 1.3 1.2 1.2 1.1 0.8 0.8
-
[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
1bk4.a
1fta.a
2fhy.a
2fie.d
2fix.h
2jjk.a
2vt5.a
2wbb.a
2wbd.b
2y5k.a
2y5l.b
3a29.a
3kbz.a
3kc0.d
3kc1.a
4mjo.b
5ldz.b
[1] 1bk4.a
0
.20 .21 .18 .21 .25 .20 .24 .14 .20 .18 .26 .24 .30 .27 .16 .09
[1] 1fta.a .20
0
.22 .22 .25 .24 .18 .31 .19 .20 .21 .13 .12 .18 .15 .20 .23
[1] 2fhy.a .21 .22
0
.11 .17 .21 .20 .15 .12 .13 .11 .22 .22 .24 .23 .11 .20
[1] 2fie.d .18 .22 .11
0
.13 .24 .21 .19 .10 .14 .13 .23 .21 .25 .23 .10 .19
[1] 2fix.h .21 .25 .17 .13
0
.24 .21 .20 .13 .21 .13 .29 .27 .32 .29 .15 .21
[1] 2jjk.a .25 .24 .21 .24 .24
0
.13 .15 .23 .17 .18 .27 .24 .28 .26 .19 .24
[1] 2vt5.a .20 .18 .20 .21 .21 .13
0
.18 .15 .18 .15 .20 .17 .25 .19 .13 .17
[1] 2wbb.a .24 .31 .15 .19 .20 .15 .18
0
.18 .15 .15 .33 .30 .34 .28 .13 .20
[1] 2wbd.b .14 .19 .12 .10 .13 .23 .15 .18
0
.13 .08 .22 .20 .26 .24 .06 .15
[1] 2y5k.a .20 .20 .13 .14 .21 .17 .18 .15 .13
0
.11 .21 .19 .24 .19 .11 .18
[1] 2y5l.b .18 .21 .11 .13 .13 .18 .15 .15 .08 .11
0
.25 .22 .30 .25 .07 .16
[1] 3a29.a .26 .13 .22 .23 .29 .27 .20 .33 .22 .21 .25
0
.03 .10 .07 .21 .26
[1] 3kbz.a .24 .12 .22 .21 .27 .24 .17 .30 .20 .19 .22 .03
0
.10 .04 .18 .23
[1] 3kc0.d .30 .18 .24 .25 .32 .28 .25 .34 .26 .24 .30 .10 .10
0
.12 .26 .31
[1] 3kc1.a .27 .15 .23 .23 .29 .26 .19 .28 .24 .19 .25 .07 .04 .12
0
.21 .24
[1] 4mjo.b .16 .20 .11 .10 .15 .19 .13 .13 .06 .11 .07 .21 .18 .26 .21
0
.14
[1] 5ldz.b .09 .23 .20 .19 .21 .24 .17 .20 .15 .18 .16 .26 .23 .31 .24 .14
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
1bk4.a
1fta.a
2fhy.a
2fie.d
2fix.h
2jjk.a
2vt5.a
2wbb.a
2wbd.b
2y5k.a
2y5l.b
3a29.a
3kbz.a
3kc0.d
3kc1.a
4mjo.b
5ldz.b
[1] 1bk4.a
0
1.0 1.4 1.2 1.4 0.9 0.8 0.9 1.0 0.9 1.1 1.2 1.1 1.1 1.0 0.9 0.8
[1] 1fta.a 1.0
0
0.9 0.8 1.0 1.2 1.1 1.1 0.8 0.7 0.8 0.7 0.6 0.7 0.7 0.7 1.0
[1] 2fhy.a 1.4 0.9
0
0.6 0.9 0.8 0.8 0.7 0.6 0.7 0.5 1.0 1.0 1.0 1.1 0.7 1.1
[1] 2fie.d 1.2 0.8 0.6
0
0.7 0.9 0.8 0.8 0.6 0.6 0.6 0.8 0.7 0.7 0.8 0.6 1.1
[1] 2fix.h 1.4 1.0 0.9 0.7
0
1.1 1.0 1.0 0.8 0.9 0.8 1.0 1.0 0.9 1.0 0.9 1.3
[1] 2jjk.a 0.9 1.2 0.8 0.9 1.1
0
0.5 0.5 0.7 0.7 0.7 1.3 1.3 1.4 1.4 0.7 0.9
[1] 2vt5.a 0.8 1.1 0.8 0.8 1.0 0.5
0
0.4 0.5 0.6 0.6 1.1 1.1 1.1 1.2 0.4 0.8
[1] 2wbb.a 0.9 1.1 0.7 0.8 1.0 0.5 0.4
0
0.5 0.7 0.6 1.2 1.2 1.2 1.3 0.5 0.9
[1] 2wbd.b 1.0 0.8 0.6 0.6 0.8 0.7 0.5 0.5
0
0.5 0.2 0.9 0.9 1.0 1.0 0.3 1.0
[1] 2y5k.a 0.9 0.7 0.7 0.6 0.9 0.7 0.6 0.7 0.5
0
0.5 0.8 0.8 0.9 0.9 0.4 0.9
[1] 2y5l.b 1.1 0.8 0.5 0.6 0.8 0.7 0.6 0.6 0.2 0.5
0
1.0 0.9 1.0 1.0 0.3 1.0
[1] 3a29.a 1.2 0.7 1.0 0.8 1.0 1.3 1.1 1.2 0.9 0.8 1.0
0
0.2 0.3 0.3 0.9 1.1
[1] 3kbz.a 1.1 0.6 1.0 0.7 1.0 1.3 1.1 1.2 0.9 0.8 0.9 0.2
0
0.2 0.2 0.8 1.1
[1] 3kc0.d 1.1 0.7 1.0 0.7 0.9 1.4 1.1 1.2 1.0 0.9 1.0 0.3 0.2
0
0.3 0.9 1.1
[1] 3kc1.a 1.0 0.7 1.1 0.8 1.0 1.4 1.2 1.3 1.0 0.9 1.0 0.3 0.2 0.3
0
0.9 1.1
[1] 4mjo.b 0.9 0.7 0.7 0.6 0.9 0.7 0.4 0.5 0.3 0.4 0.3 0.9 0.8 0.9 0.9
0
0.9
[1] 5ldz.b 0.8 1.0 1.1 1.1 1.3 0.9 0.8 0.9 1.0 0.9 1.0 1.1 1.1 1.1 1.1 0.9
0
[Binding site backbone RMSD matrix]

Site full-atom RMSD (median 0.9 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
1bk4.a
1fta.a
2fhy.a
2fie.d
2fix.h
2jjk.a
2vt5.a
2wbb.a
2wbd.b
2y5k.a
2y5l.b
3a29.a
3kbz.a
3kc0.d
3kc1.a
4mjo.b
5ldz.b
[1] 1bk4.a
0
1.6 1.7 1.6 1.8 1.5 1.5 1.6 1.5 1.5 1.5 1.8 1.7 1.6 1.7 1.4 1.3
[1] 1fta.a 1.6
0
1.3 1.2 1.4 1.5 1.3 1.7 1.3 1.2 1.3 1.0 0.9 1.4 1.1 1.2 1.4
[1] 2fhy.a 1.7 1.3
0
0.8 1.1 1.3 1.4 1.3 1.0 1.1 1.0 1.3 1.3 1.5 1.5 1.0 1.3
[1] 2fie.d 1.6 1.2 0.8
0
0.9 1.4 1.4 1.4 1.1 1.2 1.1 1.1 1.1 1.4 1.4 1.1 1.3
[1] 2fix.h 1.8 1.4 1.1 0.9
0
1.5 1.4 1.5 1.2 1.3 1.2 1.4 1.3 1.6 1.5 1.2 1.4
[1] 2jjk.a 1.5 1.5 1.3 1.4 1.5
0
1.1 1.2 1.3 0.9 1.3 1.5 1.4 1.7 1.6 1.2 1.1
[1] 2vt5.a 1.5 1.3 1.4 1.4 1.4 1.1
0
1.4 1.3 1.1 1.3 1.4 1.3 1.7 1.5 1.2 1.0
[1] 2wbb.a 1.6 1.7 1.3 1.4 1.5 1.2 1.4
0
1.3 1.3 1.2 1.6 1.6 1.8 1.8 1.1 1.0
[1] 2wbd.b 1.5 1.3 1.0 1.1 1.2 1.3 1.3 1.3
0
1.1 0.3 1.4 1.3 1.5 1.5 0.5 1.2
[1] 2y5k.a 1.5 1.2 1.1 1.2 1.3 0.9 1.1 1.3 1.1
0
1.1 1.2 1.1 1.4 1.3 1.0 1.1
[1] 2y5l.b 1.5 1.3 1.0 1.1 1.2 1.3 1.3 1.2 0.3 1.1
0
1.5 1.3 1.6 1.5 0.5 1.1
[1] 3a29.a 1.8 1.0 1.3 1.1 1.4 1.5 1.4 1.6 1.4 1.2 1.5
0
0.5 1.1 0.8 1.4 1.4
[1] 3kbz.a 1.7 0.9 1.3 1.1 1.3 1.4 1.3 1.6 1.3 1.1 1.3 0.5
0
1.1 0.8 1.2 1.3
[1] 3kc0.d 1.6 1.4 1.5 1.4 1.6 1.7 1.7 1.8 1.5 1.4 1.6 1.1 1.1
0
1.1 1.5 1.3
[1] 3kc1.a 1.7 1.1 1.5 1.4 1.5 1.6 1.5 1.8 1.5 1.3 1.5 0.8 0.8 1.1
0
1.4 1.3
[1] 4mjo.b 1.4 1.2 1.0 1.1 1.2 1.2 1.2 1.1 0.5 1.0 0.5 1.4 1.2 1.5 1.4
0
1.1
[1] 5ldz.b 1.3 1.4 1.3 1.3 1.4 1.1 1.0 1.0 1.2 1.1 1.1 1.4 1.3 1.3 1.3 1.1
0
[Binding site full-atom RMSD matrix]







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