Difference between revisions of "ASPA Sequence Based Predictions"

From Bioinformatikpedia
(→‎PsiPred)
Line 3: Line 3:
 
===PsiPred===
  
===PsiPred===
   
−
[[File:3ef7a0ac-0a08-412e-bf9f-e54bac6babd0.psi 1.png|350px|thumb|right|PsiPred results for Aspartoacyclase]]
 +
[[File:3ef7a0ac-0a08-412e-bf9f-e54bac6babd0.psi 1.png|200px|thumb|right|PsiPred results for Aspartoacyclase]]
   
 
<pre># PSIPRED HFORMAT (PSIPRED V3.0)
  
<pre># PSIPRED HFORMAT (PSIPRED V3.0)
Line 44: Line 44:
   
 
===JPred3===
  
===JPred3===
  +
<pre>MTSCHIAEEHIQKVAIFGGTHGNELTGVFLVKHWLENGAEIQRTGLEVKPFITNPRAVKKCTRYID
−
...
  
  +
------------EEEEEEEE------HHHHHHHHHH---------EEEEEEEE-HHHHHH-----H
  +
  +
  +
  +
CDLNRIFDLENLGKKMSEDLPYEVRRAQEINHLFGPKDSEDSYDIIFDLHNTTSNMGCTLILEDSR
  +
---------------------HHHHHHHHHHHHHH-------EEEEEE-----------EEEE---
  +
  +
  +
  +
NNFLIQMFHYIKTSLAPLPCYVYLIEHPSLKYATTRSIAKYPVGIEVGPQPQGVLRADILDQMRKM
  +
-HHHHHHHHHHHH------EEEEEE---------HHEE----EEEEE---------HHHHHHHHHH
  +
  +
  +
  +
IKHALDFIHHFNEGKEFPPCAIEVYKIIEKVDYPRDENGEIAAIIHPNLQDQDWKPLHPGDPMFLT
  +
HHHHHHHHHHH----------EEEEEEEEEE----------EEEE----------------HHE--
  +
  +
  +
  +
LDGKTIPLGGDCTVYPVFVNEAAYYEKKEAFAKTTKLTLNAKSIRCCLH
  +
----EEEE----EEEEEEE-----HHH-HHHHHHHHEEE-----EEEE-</pre>
   
 
===DSSP===
  
===DSSP===
  +
<pre> 10 20 30 40 50 60
−
...
  
  +
| | | | | |
  +
1 - 60 EHIQKVAIFGGTHGNELTGVFLVKHWLENGAEIQRTGLEVKPFITNPRAVKKCTRYIDCD
  +
1 - 60 SSSSSS TTTT HHHHHHHHHHTT 333 TT SSSSSST HHHHHTTTT TTT
  +
1 - 60
  +
1 - 60 AA AA A AA AAA AA AAAA A A AA AAAA AAAA
  +
70 80 90 100 110 120
  +
| | | | | |
  +
61 - 120 LNRIFDLENLGKKMSEDLPYEVRRAQEINHLFGPKDSEDSYDIIFDLHNTTSNMGCTLIL
  +
61 - 120 333 THHHHTT TTT HHHHHHHHHHHHH TTTTTT TSSSSSSS TTT SSSSSS
  +
61 - 120 ** * * ** ** * *
  +
61 - 120 A AAA AAAAAAAAA A A AA AAA AA A
  +
130 140 150 160 170 180
  +
| | | | | |
  +
121 - 180 EDSRNNFLIQMFHYIKTSLAPLPCYVYLIEHPSLKYATTRSIAKYPVGIEVGPQPQGVLR
  +
121 - 180 T TT HHHHHHHHHHHHHHTTT SSSSS TT 3333TTSSSSSSSST TT
  +
121 - 180 * ** **
  +
121 - 180 A A A AA AAA AAAA A AAAAAA AA A A A
  +
190 200 210 220 230 240
  +
| | | | | |
  +
181 - 240 ADILDQMRKMIKHALDFIHHFNEGKEFPPCAIEVYKIIEKVDYPRDENGEIAAIIHPNLQ
  +
181 - 240 HHHHHHHHHHHHHHHHHHHHHHTT SSSSSSSSSSSS TTT TSS TTTT
  +
181 - 240
  +
181 - 240 A AA AA AA AA AAAA AA A A A AAA A AAAAA A AA
  +
250 260 270 280 290 300
  +
| | | | | |
  +
241 - 300 DQDWKPLHPGDPMFLTLDGKTIPLGGDCTVYPVFVNEAAYYEKKEAFAKTTKLTLNAKSI
  +
241 - 300 T TTT TTTSSSS TT SSS TTT SSSTTT 333TTTT TSSSSSSSSSSS
  +
241 - 300
  +
241 - 300 AA AA AAAAA A AAAAAA AAAAA A AAA A AAA A A
  +
  +
  +
301 - 302 RC
  +
301 - 302
  +
301 - 302
  +
301 - 302 AA
  +
  +
310 320 330 340 350 360
  +
| | | | | |
  +
303 - 362 EHIQKVAIFGGTHGNELTGVFLVKHWLENGAEIQRTGLEVKPFITNPRAVKKCTRYIDCD
  +
303 - 362 SSSSSS TTTT HHHHHHHHHHHH 3333 TT SSSSSST HHHHHTT T TTT
  +
303 - 362
  +
303 - 362 AA AA AA AAA AA AAAA A A A AA AAAA AAAA
  +
370 380 390 400 410 420
  +
| | | | | |
  +
363 - 422 LNRIFDLENLGKKMSEDLPYEVRRAQEINHLFGPKDSEDSYDIIFDLHNTTSNMGCTLIL
  +
363 - 422 333 THHHHTT TTT HHHHHHHHHHHHH TTTTTT TSSSSSSS TTT SSSSSS
  +
363 - 422 ** *** * ** ****
  +
363 - 422 A AAA AAAAAAAAA A A AA AAA AA A
  +
430 440 450 460 470 480
  +
| | | | | |
  +
423 - 482 EDSRNNFLIQMFHYIKTSLAPLPCYVYLIEHPSLKYATTRSIAKYPVGIEVGPQPQGVLR
  +
423 - 482 T TT HHHHHHHHHHHHHHTTT SSSSS TTTT 3333TTSSSSSSSS TT
  +
423 - 482
  +
423 - 482 A A A AA AA AAAA A AAAAAA AA A A
  +
490 500 510 520 530 540
  +
| | | | | |
  +
483 - 542 ADILDQMRKMIKHALDFIHHFNEGKEFPPCAIEVYKIIEKVDYPRDENGEIAAIIHPNLQ
  +
483 - 542 HHHHHHHHHHHHHHHHHHHHHHTT SSSSSSSSSSSS TTT TSS TTTT
  +
483 - 542 *** *
  +
483 - 542 A AA AA A AA A AA AA A A A AAA A AAAAA A A AA
  +
550 560 570 580 590 600
  +
| | | | | |
  +
543 - 602 DQDWKPLHPGDPMFLTLDGKTIPLGGDCTVYPVFVNEAAYYEKKEAFAKTTKLTLNAKSI
  +
543 - 602 T TTT TTTSSSS TT SSS TTT SSSTTT THHHHTT TSSSSSSSSSSS
  +
543 - 602 *
  +
543 - 602 AA AA AAAAA A AAAAAA AAAAA A AAA A AAAA A AA
  +
  +
  +
603 - 604 RC
  +
603 - 604
  +
603 - 604
  +
603 - 604 AA</pre>
  +
  +
Clearly solvent accessible: A; involved in symmetry contacts: *
  +
  +
pdb id: 2o53
   
 
==Prediction of disordered regions==
  
==Prediction of disordered regions==

Revision as of 01:19, 5 June 2011

Prediction of Secondary Structure Elements

PsiPred

PsiPred results for Aspartoacyclase
# PSIPRED HFORMAT (PSIPRED V3.0)

Conf: 987522213466199993246776008999999984450000587389976339987971
Pred: CCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCEEEEEECCHHHHHH
  AA: MTSCHIAEEHIQKVAIFGGTHGNELTGVFLVKHWLENGAEIQRTGLEVKPFITNPRAVKK
              10        20        30        40        50        60


Conf: 998788998878786647999999984999999999988199999997428994187898
Pred: CCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCEEEECCCCCC
  AA: CTRYIDCDLNRIFDLENLGKKMSEDLPYEVRRAQEINHLFGPKDSEDSYDIIFDLHNTTS
              70        80        90       100       110       120


Conf: 999505864599448999999998762999737862048886301220027861499667
Pred: CCCCEEEEECCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCCHHHHCCCCCCEEEEEC
  AA: NMGCTLILEDSRNNFLIQMFHYIKTSLAPLPCYVYLIEHPSLKYATTRSIAKYPVGIEVG
             130       140       150       160       170       180


Conf: 877898808999999999999998976406998899973479998113515579877700
Pred: CCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEEEECCCCCCCCCE
  AA: PQPQGVLRADILDQMRKMIKHALDFIHHFNEGKEFPPCAIEVYKIIEKVDYPRDENGEIA
             190       200       210       220       230       240


Conf: 552467669998546888832213699778518622057770372000011102000100
Pred: EEECCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCEEEEECCCCHHCCCCHHHEECCE
  AA: AIIHPNLQDQDWKPLHPGDPMFLTLDGKTIPLGGDCTVYPVFVNEAAYYEKKEAFAKTTK
             250       260       270       280       290       300


Conf: 3544256113309
Pred: EEEEECCCEEECC
  AA: LTLNAKSIRCCLH
             310

JPred3

MTSCHIAEEHIQKVAIFGGTHGNELTGVFLVKHWLENGAEIQRTGLEVKPFITNPRAVKKCTRYID
------------EEEEEEEE------HHHHHHHHHH---------EEEEEEEE-HHHHHH-----H



CDLNRIFDLENLGKKMSEDLPYEVRRAQEINHLFGPKDSEDSYDIIFDLHNTTSNMGCTLILEDSR
---------------------HHHHHHHHHHHHHH-------EEEEEE-----------EEEE---



NNFLIQMFHYIKTSLAPLPCYVYLIEHPSLKYATTRSIAKYPVGIEVGPQPQGVLRADILDQMRKM
-HHHHHHHHHHHH------EEEEEE---------HHEE----EEEEE---------HHHHHHHHHH



IKHALDFIHHFNEGKEFPPCAIEVYKIIEKVDYPRDENGEIAAIIHPNLQDQDWKPLHPGDPMFLT
HHHHHHHHHHH----------EEEEEEEEEE----------EEEE----------------HHE--



LDGKTIPLGGDCTVYPVFVNEAAYYEKKEAFAKTTKLTLNAKSIRCCLH
----EEEE----EEEEEEE-----HHH-HHHHHHHHEEE-----EEEE-

DSSP

                     10        20        30        40        50        60
                      |         |         |         |         |         |
    1 -   60 EHIQKVAIFGGTHGNELTGVFLVKHWLENGAEIQRTGLEVKPFITNPRAVKKCTRYIDCD
    1 -   60     SSSSSS TTTT HHHHHHHHHHTT  333  TT SSSSSST HHHHHTTTT TTT
    1 -   60
    1 -   60 AA AA               A  AA AAA AA AAAA A A     AA  AAAA AAAA
                     70        80        90       100       110       120
                      |         |         |         |         |         |
   61 -  120 LNRIFDLENLGKKMSEDLPYEVRRAQEINHLFGPKDSEDSYDIIFDLHNTTSNMGCTLIL
   61 -  120 333  THHHHTT   TTT HHHHHHHHHHHHH  TTTTTT TSSSSSSS TTT SSSSSS
   61 -  120       **  * * **            **   * *
   61 -  120   A  AAA  AAAAAAAAA   A   A  AA  AAA AA             A
                    130       140       150       160       170       180
                      |         |         |         |         |         |
  121 -  180 EDSRNNFLIQMFHYIKTSLAPLPCYVYLIEHPSLKYATTRSIAKYPVGIEVGPQPQGVLR
  121 -  180 T TT HHHHHHHHHHHHHHTTT SSSSS   TT     3333TTSSSSSSSST  TT
  121 -  180              *  ** **
  121 -  180  A A A      AA AAA AAAA A    AAAAAA        AA       A  A   A
                    190       200       210       220       230       240
                      |         |         |         |         |         |
  181 -  240 ADILDQMRKMIKHALDFIHHFNEGKEFPPCAIEVYKIIEKVDYPRDENGEIAAIIHPNLQ
  181 -  240 HHHHHHHHHHHHHHHHHHHHHHTT     SSSSSSSSSSSS     TTT   TSS TTTT
  181 -  240
  181 -  240  A  AA AA  AA     AA  AAAA AA A A  A AAA A AAAAA A      AA
                    250       260       270       280       290       300
                      |         |         |         |         |         |
  241 -  300 DQDWKPLHPGDPMFLTLDGKTIPLGGDCTVYPVFVNEAAYYEKKEAFAKTTKLTLNAKSI
  241 -  300 T TTT   TTTSSSS TT  SSS  TTT  SSSTTT 333TTTT TSSSSSSSSSSS
  241 -  300
  241 -  300 AA  AA AAAAA  A  AAAAAA AAAAA A          AAA    A  AAA A A


  301 -  302 RC
  301 -  302
  301 -  302
  301 -  302 AA
 
                  310       320       330       340       350       360
                    |         |         |         |         |         |
  303 -  362 EHIQKVAIFGGTHGNELTGVFLVKHWLENGAEIQRTGLEVKPFITNPRAVKKCTRYIDCD
  303 -  362     SSSSSS TTTT HHHHHHHHHHHH 3333  TT SSSSSST HHHHHTT T TTT
  303 -  362
  303 -  362 AA AA                  AA AAA AA AAAA A A A   AA  AAAA AAAA
                  370       380       390       400       410       420
                    |         |         |         |         |         |
  363 -  422 LNRIFDLENLGKKMSEDLPYEVRRAQEINHLFGPKDSEDSYDIIFDLHNTTSNMGCTLIL
  363 -  422 333  THHHHTT   TTT HHHHHHHHHHHHH  TTTTTT TSSSSSSS TTT SSSSSS
  363 -  422       **  ***  *            **    ****
  363 -  422   A  AAA  AAAAAAAAA   A   A  AA  AAA AA             A
                  430       440       450       460       470       480
                    |         |         |         |         |         |
  423 -  482 EDSRNNFLIQMFHYIKTSLAPLPCYVYLIEHPSLKYATTRSIAKYPVGIEVGPQPQGVLR
  423 -  482 T TT HHHHHHHHHHHHHHTTT SSSSS  TTTT    3333TTSSSSSSSS   TT
  423 -  482
  423 -  482  A A A      AA AA  AAAA A    AAAAAA        AA       A      A
                  490       500       510       520       530       540
                    |         |         |         |         |         |
  483 -  542 ADILDQMRKMIKHALDFIHHFNEGKEFPPCAIEVYKIIEKVDYPRDENGEIAAIIHPNLQ
  483 -  542 HHHHHHHHHHHHHHHHHHHHHHTT     SSSSSSSSSSSS     TTT   TSS TTTT
  483 -  542                             *** *
  483 -  542  A  AA AA  A      AA  A AA AA A A  A AAA A AAAAA A A    AA
                  550       560       570       580       590       600
                    |         |         |         |         |         |
  543 -  602 DQDWKPLHPGDPMFLTLDGKTIPLGGDCTVYPVFVNEAAYYEKKEAFAKTTKLTLNAKSI
  543 -  602 T TTT   TTTSSSS TT  SSS  TTT  SSSTTT THHHHTT TSSSSSSSSSSS
  543 -  602                                                        *
  543 -  602 AA  AA AAAAA  A  AAAAAA AAAAA A          AAA    A AAAA A AA


  603 -  604 RC
  603 -  604
  603 -  604
  603 -  604 AA

Clearly solvent accessible: A; involved in symmetry contacts: *

pdb id: 2o53

Prediction of disordered regions

DISOPRED

...

POODLE

...

IUPRED

...

Meta-Disorder

...

Prediction of transmembrane alpha-helices and signal peptides

TMHMM

...

Phobius & PolyPhobius

...

OCTOPUS & SPOCTOPUS

...

SignalP

...

TargetP

...

Prediction of GO terms

GOPET

...

Pfam

...

ProtFun 2.2

...

Retrieved from "https://i12r-studfilesrv.informatik.tu-muenchen.de/wiki/index.php?title=ASPA_Sequence_Based_Predictions&oldid=3362"