Difference between revisions of "Homology-modelling HEXA"

From Bioinformatikpedia
(Swissmodel)
(Homology structure groups)
Line 5: Line 5:
 
{| border="1" style="text-align:center; border-spacing:0;"
 
{| border="1" style="text-align:center; border-spacing:0;"
 
|-
 
|-
|colspan="3" | > 60% sequence identity
+
|colspan="4" | > 60% sequence identity
 
|-
 
|-
 
|PDB id
 
|PDB id
 
|name
 
|name
 
|similarity
 
|similarity
  +
|single template
 
|-
 
|-
 
|1ht6_A
 
|1ht6_A
 
|AMY1, alpha-amylase iso
 
|AMY1, alpha-amylase iso
 
|95%
 
|95%
  +
|
 
|-
 
|-
 
|3aj7_A
 
|3aj7_A
 
|Oligo-1,6-glucosidase
 
|Oligo-1,6-glucosidase
 
|90%
 
|90%
  +
|X
 
|-
 
|-
 
|1h4p_A
 
|1h4p_A
 
|Glucan 1,3-beta-glucosidase
 
|Glucan 1,3-beta-glucosidase
 
|85.2%
 
|85.2%
  +
|
 
|-
 
|-
 
|3bc9_A
 
|3bc9_A
 
|AMYB, alpha amylase, ca
 
|AMYB, alpha amylase, ca
 
|80.8%
 
|80.8%
  +
|
 
|-
 
|-
 
|2zum_A
 
|2zum_A
 
|458AA long hypothetical
 
|458AA long hypothetical
 
|75%
 
|75%
  +
|
 
|-
 
|-
 
|3bmv_A
 
|3bmv_A
 
|Cyclomaltodextrin gluca
 
|Cyclomaltodextrin gluca
 
|70.3%
 
|70.3%
  +
|
 
|-
 
|-
 
|2f2h_A
 
|2f2h_A
 
|Putative family 31 gluc
 
|Putative family 31 gluc
 
|64.8%
 
|64.8%
  +
|
 
|-
 
|-
 
|3emz_A
 
|3emz_A
 
|Xylanase, endo-1,4-beta
 
|Xylanase, endo-1,4-beta
 
|61%
 
|61%
  +
|
 
|-
 
|-
|colspan="3" | > 40%
+
|colspan="4" | > 40%
 
|-
 
|-
 
|2dep_A
 
|2dep_A
 
|Xylanase B, thermostabl
 
|Xylanase B, thermostabl
 
|54.9%
 
|54.9%
  +
|
 
|-
 
|-
 
|3cui_A
 
|3cui_A
 
|EXO-beta-1,4-glucanase;
 
|EXO-beta-1,4-glucanase;
 
|49.5%
 
|49.5%
  +
|
 
|-
 
|-
 
|1vhc_A
 
|1vhc_A
 
|Putative KHG/KDPG aldol
 
|Putative KHG/KDPG aldol
 
|45.1%
 
|45.1%
  +
|
 
|-
 
|-
 
|2hk0_A
 
|2hk0_A
 
|D-psicose 3-epimerase
 
|D-psicose 3-epimerase
 
|40.8%
 
|40.8%
  +
|
 
|-
 
|-
|colspan="3" | < 40%
+
|colspan="4" | < 40%
 
|-
 
|-
 
|2g0w_A
 
|2g0w_A
 
|LMO2234 protein; putati
 
|LMO2234 protein; putati
 
|35.5%
 
|35.5%
  +
|
 
|-
 
|-
 
|3q94_A
 
|3q94_A
 
|Fructose-bisphosphate a
 
|Fructose-bisphosphate a
 
|30.0%
 
|30.0%
  +
|
 
|-
 
|-
 
|3hn3_A
 
|3hn3_A
 
|Beta-G1, beta-glucuroni
 
|Beta-G1, beta-glucuroni
 
|25.1%
 
|25.1%
  +
|
 
|-
 
|-
 
|3lut_A
 
|3lut_A
 
|Voltage-gated potassium
 
|Voltage-gated potassium
 
|20.1%
 
|20.1%
  +
|
 
|-
 
|-
 
|}
 
|}

Revision as of 11:40, 7 June 2011

Homology structure groups

We decided to choose every 5% one protein:

> 60% sequence identity
PDB id name similarity single template
1ht6_A AMY1, alpha-amylase iso 95%
3aj7_A Oligo-1,6-glucosidase 90% X
1h4p_A Glucan 1,3-beta-glucosidase 85.2%
3bc9_A AMYB, alpha amylase, ca 80.8%
2zum_A 458AA long hypothetical 75%
3bmv_A Cyclomaltodextrin gluca 70.3%
2f2h_A Putative family 31 gluc 64.8%
3emz_A Xylanase, endo-1,4-beta 61%
> 40%
2dep_A Xylanase B, thermostabl 54.9%
3cui_A EXO-beta-1,4-glucanase; 49.5%
1vhc_A Putative KHG/KDPG aldol 45.1%
2hk0_A D-psicose 3-epimerase 40.8%
< 40%
2g0w_A LMO2234 protein; putati 35.5%
3q94_A Fructose-bisphosphate a 30.0%
3hn3_A Beta-G1, beta-glucuroni 25.1%
3lut_A Voltage-gated potassium 20.1%

Methods

Swissmodel