Difference between revisions of "Homology modelling Gaucher Disease"

From Bioinformatikpedia
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| 0.3881
  
| 0.3881
 
| style="border-style:solid; border-width: 0 1px 0 0" | 0.101
  
| style="border-style:solid; border-width: 0 1px 0 0" | 0.101
  +
| 2.158
  +
| 0.252
  +
| 0.093
  +
| 0.043
  +
|}
  +
</figtable>
  +
  +
  +
== SWISS-MODEL ==
  +
  +
=== Automated mode ===
  +
{|
  +
|[[File:swiss-auto-1ogs_A-2wnw_A.png|thumb|150px|2wnw_A]]
  +
|[[File:swiss-auto-1ogs_A-2y24_A.png|thumb|150px|2y24_A]]
  +
|[[File:swiss-auto-1ogs_A-3nco_A.png|thumb|150px|3nco_A]]
  +
|}
  +
  +
<figtable id="tab:modeller_results">
  +
{| style="border-collapse: separate; border-style: solid; border-spacing: 0; border-width: 2px 0 2px 0; text-align:right" width="700px"
  +
|- style="background-color: lightgrey; height=0"
  +
! style="border-style:solid; border-width: 0 1px 0 0" | Template
  +
! DOPE
  +
! DOPE z-score
  +
! style="border-style:solid; border-width: 0 1px 0 0" | QMEAN6
  +
! RMSD
  +
! TM-score
  +
! GDT_TS
  +
! GTD_HA
  +
|-
  +
| style="border-style:solid; border-width: 1px 0 0 0" colspan=8|
  +
|-
  +
|style="border-style:solid; border-width: 0 1px 0 0" | 2wnw_A
  +
| -53863
  +
| -0.786
  +
| style="border-style:solid; border-width: 0 1px 0 0" | 0.530
  +
| 1.006
  +
| 0.824
  +
| 0.661
  +
| 0.479
  +
|-
  +
|style="border-style:solid; border-width: 0 1px 0 0" | 2y24_A
  +
| -42674
  +
| 0.565
  +
| style="border-style:solid; border-width: 0 1px 0 0" | 0.430
  +
| 1.222
  +
| 0.550
  +
| 0.294
  +
| 0.223
  +
|-
  +
|style="border-style:solid; border-width: 0 1px 0 0" | 3nco_A
  +
| -27101
  +
| 1.122
  +
| style="border-style:solid; border-width: 0 1px 0 0" | 0.270
  +
| 2.158
  +
| 0.252
  +
| 0.093
  +
| 0.043
  +
|}
  +
</figtable>
  +
  +
=== Alignment mode ===
  +
{|
  +
|[[File:swiss-ali-1ogs_A-2wnw_A.png|thumb|150px|2wnw_A]]
  +
|[[File:swiss-ali-1ogs_A-2y24_A.png|thumb|150px|2y24_A]]
  +
|[[File:swiss-ali-1ogs_A-3nco_A.png|thumb|150px|3nco_A]]
  +
|}
  +
  +
<figtable id="tab:modeller_results">
  +
{| style="border-collapse: separate; border-style: solid; border-spacing: 0; border-width: 2px 0 2px 0; text-align:right" width="700px"
  +
|- style="background-color: lightgrey; height=0"
  +
! style="border-style:solid; border-width: 0 1px 0 0" | Template
  +
! DOPE
  +
! DOPE z-score
  +
! style="border-style:solid; border-width: 0 1px 0 0" | QMEAN6
  +
! RMSD
  +
! TM-score
  +
! GDT_TS
  +
! GTD_HA
  +
|-
  +
| style="border-style:solid; border-width: 1px 0 0 0" colspan=8|
  +
|-
  +
|style="border-style:solid; border-width: 0 1px 0 0" | 2wnw_A
  +
| -53963
  +
| -0.788
  +
| style="border-style:solid; border-width: 0 1px 0 0" | 0.540
  +
| 1.006
  +
| 0.824
  +
| 0.661
  +
| 0.479
  +
|-
  +
|style="border-style:solid; border-width: 0 1px 0 0" | 2y24_A
  +
| -40131
  +
| 1.001
  +
| style="border-style:solid; border-width: 0 1px 0 0" | 0.360
  +
| 1.222
  +
| 0.550
  +
| 0.294
  +
| 0.223
  +
|-
  +
|style="border-style:solid; border-width: 0 1px 0 0" | 3nco_A
  +
| -30244
  +
| 0.689
  +
| style="border-style:solid; border-width: 0 1px 0 0" | 0.240
 
| 2.158
  
| 2.158
 
| 0.252
  
| 0.252

Revision as of 12:46, 29 May 2012

Template selection

<figtable id="tab:ss_mapping">

Hit Nr Template Identity HHsearch prob
> 80% sequence identity
1 2nt0_A 100.0 100.0
40% - 80% sequence identity
< 30% sequence identity
2 2wnw_A 28.0 100.0
3 3clw_A 14.0 100.0
4 2y24_A 18.0 100.0
5 3kl0_A 19.0 100.0
6 3zr5_A 17.0 100.0
7 3ik2_A 14.0 99.2
22 3nco_A 11.0 97.7

</figtable>

Modeller

Single-template modeling

2wnw_A
2y24_A
3nco_A

<figtable id="tab:modeller_results">

Template DOPE DOPE z-score QMEAN6 RMSD TM-score GDT_TS GTD_HA
2wnw_A -55925 -0.471 0.689 1.006 0.824 0.661 0.479
2y24_A -47194 0.777 0.376 1.222 0.550 0.294 0.223
3nco_A -44033 1.224 0.139 2.158 0.252 0.093 0.043

</figtable>

Multiple-template modeling

2wnw_A-2y24_A-3kl0_A
2wnw_A-3nco_A
3ik2_A-3nco_A-1egz_A

<figtable id="tab:modeller_results">

Template DOPE DOPE z-score QMEAN6 RMSD TM-score GDT_TS GTD_HA
2wnw_A-2y24_A-3kl0 -39084 1.930 0.314 1.006 0.824 0.661 0.479
2wnw_A-3nco_A -46962 0.807 0.556 1.222 0.550 0.294 0.223
3ik2_A-3nco_A-1egz_A -25391 0.3881 0.101 2.158 0.252 0.093 0.043

</figtable>


SWISS-MODEL

Automated mode

2wnw_A
2y24_A
3nco_A

<figtable id="tab:modeller_results">

Template DOPE DOPE z-score QMEAN6 RMSD TM-score GDT_TS GTD_HA
2wnw_A -53863 -0.786 0.530 1.006 0.824 0.661 0.479
2y24_A -42674 0.565 0.430 1.222 0.550 0.294 0.223
3nco_A -27101 1.122 0.270 2.158 0.252 0.093 0.043

</figtable>

Alignment mode

2wnw_A
2y24_A
3nco_A

<figtable id="tab:modeller_results">

Template DOPE DOPE z-score QMEAN6 RMSD TM-score GDT_TS GTD_HA
2wnw_A -53963 -0.788 0.540 1.006 0.824 0.661 0.479
2y24_A -40131 1.001 0.360 1.222 0.550 0.294 0.223
3nco_A -30244 0.689 0.240 2.158 0.252 0.093 0.043

</figtable>

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