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ENOG_HUMAN_2_434

Gamma-enolase [Enolase family]

Composition of the binding site

Protein chains monomer [domain annotation]
A1 (ENOG_HUMAN):R: Substrate binding (370:373)
38:40, 158, 166, 167, 210, 245, 293, 318, 341, 343, 394
38:40, 158, 166, 167, 210, 245, 293, 318, 341, 343, 370:373, 394
Metals (Me):Mg

Full PDB list

1te6, 2akm, 2akz, 3ucc, 3ucd, 3uje, 3ujf, 3ujr, 3ujs, 4za0, 4zcw, 5eu9, 5idz, 5td9, 5tij (redundant Pocketome entry)

Pocket contact map

[download in TSV format]
   
PDB.ch
   
ligand
A1 Me
G
3
8
A
3
9
S
4
0
H
1
5
8
Q
1
6
6
E
1
6
7
E
2
1
0
D
2
4
5
E
2
9
3
D
3
1
8
L
3
4
1
K
3
4
3
H
3
7
1
R
3
7
2
S
3
7
3
K
3
9
4
[1]2akm.b none . . . . . . . . . . . . . . . . Mg
[1]3ucd.b pep10 . . . . . . . . . . . . . . . . Mg
[1]3ujr.a 2pg11 . . . . . . . . . . . . . . . . Mg
[1]3ujs.a xsp11 . . . . . . . . . . . . . . . . Mg
[1]3ujs.b 0v510 . . . . . . . . . . . . . . . . Mg
[1]4za0.a pah9 . . . . . . . . . . . . . . . . Mg
[1]4zcw.a 4ng12 . . . . . . . . . . . . . . . . Mg
[1]5eu9.a 5tx13 . . . . . . . . . . . . . . . . Mg
[1]5idz.a 6bm12 . . . . . . . . . . . . . . . . Mg

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

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PDB.ch
A1 Me
G
3
8
A
3
9
S
4
0
H
1
5
8
Q
1
6
6
E
1
6
7
E
2
1
0
D
2
4
5
E
2
9
3
D
3
1
8
L
3
4
1
K
3
4
3
S
3
7
0
H
3
7
1
R
3
7
2
S
3
7
3
K
3
9
4
[1]2akm.b . . . . . . . . . . . . . . . . . Mg
[1]3ucd.b . . . * . . . . . . . . . . . . . Mg
[1]3ujr.a . . . * . . . . . . . . . . . . . Mg
[1]3ujs.a . . . . . . . . . . . . . . . . . Mg
[1]3ujs.b . . . . . . . . . . . . . . . . . Mg
[1]4za0.a . . . . . . . . . . . . . . . . . Mg
[1]4zcw.a . . . . . . . . . . . . . . . . . Mg
[1]5eu9.a . . . . . . . . . . . . . . . . . Mg
[1]5idz.a . . . . . . . . . . . . . . . . . Mg

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
2akm.b is apo
3ucd.b:pep
3ujr.a:2pg
3ujs.a:xsp
3ujs.b:0v5
4za0.a:pah
4zcw.a:4ng
5eu9.a:5tx
5idz.a:6bm
[1] 2akm.b
-
0.1 0 0.1 0.1 0.2 0.4 0.9 0.6
[1] 3ucd.b -
0
0.1 0.1 0.1 0.1 0.5 1.5 0.9
[1] 3ujr.a - 0
0.2
0.2 0.1 0.1 0.6 1.6 0.8
[1] 3ujs.a - 0 0.1
0.1
0.1 0 0.5 1.3 0.6
[1] 3ujs.b - 0 0 0
0
0 0.3 0.6 0.4
[1] 4za0.a - 0.1 0.1 0.4 0.2
0.1
0.5 0.6 0.5
[1] 4zcw.a - 0 0.1 0.2 0.2 0.1
0
0 0.2
[1] 5eu9.a - 0.2 0.2 0.2 0.2 0.1 0
0
0.4
[1] 5idz.a - 0 0 0 0 0 0.1 0.2
0
[Pocket-ligand steric clashes matrix]

Pocket clash dissimilarity (1 cluster)

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

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pocketpocket
≥1.
.9
.8
.7
.6
.5
.4
.3
.2
.1
.0
2akm.b
3ucd.b
3ujr.a
3ujs.a
3ujs.b
4za0.a
4zcw.a
5eu9.a
5idz.a
[1] 2akm.b
0
.06 .06 .05 .08 .07 .06 .06 .06
[1] 3ucd.b .06
0
.01 .04 .06 .07 .09 .09 .10
[1] 3ujr.a .06 .01
0
.04 .06 .07 .09 .09 .10
[1] 3ujs.a .05 .04 .04
0
.04 .07 .08 .08 .09
[1] 3ujs.b .08 .06 .06 .04
0
.03 .04 .04 .05
[1] 4za0.a .07 .07 .07 .07 .03
0
.04 .04 .04
[1] 4zcw.a .06 .09 .09 .08 .04 .04
0
.01 .02
[1] 5eu9.a .06 .09 .09 .08 .04 .04 .01
0
.03
[1] 5idz.a .06 .10 .10 .09 .05 .04 .02 .03
0
[Pocket clash dissimilarity matrix]

Site backbone RMSD (median 1.1 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
2akm.b
3ucd.b
3ujr.a
3ujs.a
3ujs.b
4za0.a
4zcw.a
5eu9.a
5idz.a
[1] 2akm.b
0
0.6 0.6 0.6 0.9 0.8 0.7 0.8 1.2
[1] 3ucd.b 0.6
0
0.1 0.1 0.9 0.7 0.8 0.8 1.3
[1] 3ujr.a 0.6 0.1
0
0.1 0.9 0.7 0.8 0.7 1.3
[1] 3ujs.a 0.6 0.1 0.1
0
0.9 0.7 0.8 0.8 1.3
[1] 3ujs.b 0.9 0.9 0.9 0.9
0
0.3 0.3 0.3 1.1
[1] 4za0.a 0.8 0.7 0.7 0.7 0.3
0
0.3 0.3 1.1
[1] 4zcw.a 0.7 0.8 0.8 0.8 0.3 0.3
0
0.2 1.0
[1] 5eu9.a 0.8 0.8 0.7 0.8 0.3 0.3 0.2
0
1.1
[1] 5idz.a 1.2 1.3 1.3 1.3 1.1 1.1 1.0 1.1
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

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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
2akm.b
3ucd.b
3ujr.a
3ujs.a
3ujs.b
4za0.a
4zcw.a
5eu9.a
5idz.a
[1] 2akm.b
0
0.7 0.7 0.8 1.6 1.5 1.4 1.1 1.7
[1] 3ucd.b 0.7
0
0.3 0.6 1.6 1.5 1.5 1.1 1.8
[1] 3ujr.a 0.7 0.3
0
0.6 1.6 1.5 1.4 1.1 1.8
[1] 3ujs.a 0.8 0.6 0.6
0
1.5 1.4 1.3 1.1 1.7
[1] 3ujs.b 1.6 1.6 1.6 1.5
0
0.5 0.5 1.1 1.1
[1] 4za0.a 1.5 1.5 1.5 1.4 0.5
0
0.6 1.2 1.1
[1] 4zcw.a 1.4 1.5 1.4 1.3 0.5 0.6
0
1.0 1.1
[1] 5eu9.a 1.1 1.1 1.1 1.1 1.1 1.2 1.0
0
1.4
[1] 5idz.a 1.7 1.8 1.8 1.7 1.1 1.1 1.1 1.4
0
[Binding site full-atom RMSD matrix]







[show 3D visualization]

[ENTRY 2D visualization]

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