@TOME V2.3
(Mar 2018)
Ref.
-
-
Doc.
Global output mode :
Sort entries by :
Atome Result
Tools Result
PDB occurence
Core Structure Cluster
Sequence Color type :
Secondary Structure
Hydrophobicity
Disulfide Bonds
TCoffee Identity Score
Uniprot annotation
Core Structure Cluster
Contacts with Ligands
Show alignment :
Atome selection
All alignments
Only Template with Ligand
Column output:
Score:
Atome Rank Value
Tools Score
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Alignment:
Sequence Identity (%)
Tcoffee Alignment Score
Hide column
3D Common Core:
Tito PKB Score
Verify3D Score
QMean Score
Hide column
Structural Clustering:
Cluster Num
3D-Jury Struct. Score
Hide column
Modeller Result :
Model Rank
QMean Score
Dfire Score
Dope Score
Errat Score
Verify3D Score
Modeller Score
Hide column
Complexes Modeling
Show Ligands of Templates
Complexes Affinity Score
Main Binding Site Identity
Hide column
Templates Information:
Uniprot entry
Cath class
Scop class
Smart class
Prosite class
Pfam class
EC Number
Taxonomy
Experiment Method
Hide column
Sequence & Result Tab:
PDB Template Sequence
Complexes Tab
Values color: [
Good
|
Correct
|
Middling
|
Bad
]
Modeled complexes Tab:
Displays
the 10 best
the 20 best
All
ligands Score after transfer from template to
Tito
Scwrl (Raw)
Scwrl (All SChains of Binding Site Recalculated)
Scwrl (Unconserved SChains of Binding Site Recalculated)
Modeller
model
Cell color: RMS between binding site of experimental template and receptor model:
[
‹ 3Å
|
‹ 10Å
|
› 10Å
]
Result:
pKd
Quality
PSim.
[
Good
|
Correct
|
Acceptable
| Bad | Empty = ligand not selected during the calculation step or result rejected ]
Query sequence : Q5TEW3_HUMAN: (2017-06-03 )
WYHGRIPRQVSENLVQRDGDFLVRDSLSSPGNFVLTCQWKNLAQHFKINRTVLRLSEAYSRVQYQFEMESFDSIPGLVRCY
Atome Classification :
(20 SA)
Binding Score for complex ligand / Scwrl (Unconserved SChains Recalculated) model
(Only selected ligand are displayed)
(Atome)
(Ident)
(Tito)
(Num)
(pKd)
(Uniprot)
CHAIN_B_2
(3OV1)
GRB2_HUMAN
[Raw transfer]
-
231
HHSearch
83.16
40%
-148
- C5 -
2KK6
Calc...
238
HHSearch
78.07
38%
-10
- C5 -
3OV1
6.8
GRB2_HUMAN
229
HHSearch
77.14
38%
-0
- C5 -
3WA4
Calc...
GRB2_HUMAN
1
PsiBlast_PDB
76.68
38%
-149
- C5 -
2KK6
-
-
76
PsiBlast_CBE
74.65
39%
-150
- C5 -
3BKB
-
-
227
HHSearch
71.09
40%
4
- C5 -
2DVJ
Calc...
CRK_HUMAN
228
HHSearch
70.68
40%
4
- C5 -
2EYZ
Calc...
CRK_HUMAN
95
PsiBlast_CBE
70.12
33%
1
- C5 -
1R1S
-
GRAP2_MOUSE
-
96
PsiBlast_CBE
69.68
33%
1
- C5 -
1R1S
-
GRAP2_MOUSE
-
101
PsiBlast_CBE
69.54
33%
12
- C5 -
1R1P
-
GRAP2_MOUSE
-
224
HHSearch
69.39
40%
-4
- C5 -
1JU5
Calc...
CRK_HUMAN
233
HHSearch
69.11
36%
-6
- C5 -
1I3Z
Calc...
SH21B_MOUSE
232
HHSearch
68.42
37%
12
- C5 -
1R1P
Calc...
GRAP2_MOUSE
98
PsiBlast_CBE
68.04
33%
6
- C5 -
1R1Q
-
GRAP2_MOUSE
-
99
PsiBlast_CBE
67.72
33%
13
- C5 -
1R1P
-
GRAP2_MOUSE
-
100
PsiBlast_CBE
67.68
33%
5
- C5 -
1R1P
-
GRAP2_MOUSE
-
94
PsiBlast_CBE
67.61
33%
15
- C5 -
1R1S
-
GRAP2_MOUSE
-
97
PsiBlast_CBE
67.51
33%
2
- C5 -
1R1Q
-
GRAP2_MOUSE
-
235
HHSearch
67.10
36%
-4
- C5 -
2EO3
Calc...
CRKL_HUMAN
234
HHSearch
66.97
33%
20
- C5 -
2CIA
Calc...