Difference between revisions of "Sequence-based predictions"

From Bioinformatikpedia
(GOPET)
(4. Prediction of GO terms)
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===TargetP===
 
===TargetP===
 
==4. Prediction of GO terms==
 
==4. Prediction of GO terms==
===GOPET===
+
===Generel===
  +
HFE is annotated with 27 GO Terms which are:
   
  +
{| border="1" style="text-align:center; border-spacing:0;"
  +
!GOID
  +
!GO Term
  +
!Aspect
  +
|-
  +
|GO:0002474 || antigen processing and presentation of peptide antigen via MHC class I || Process
  +
|-
  +
|GO:0005515 || protein binding || Function
  +
|-
  +
|GO:0005737 || cytoplasm || Component
  +
|-
  +
|GO:0005769 || early endosome || Component
  +
|-
  +
|GO:0005886 || plasma membrane || Component
  +
|-
  +
|GO:0005887 || integral to plasma membrane || Component
  +
|-
  +
|GO:0006461 || protein complex assembly || Process
  +
|-
  +
|GO:0006810 ||transport || Process
  +
|-
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|GO:0006811 || ion transport ||Process
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|-
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|GO:0006826 || iron ion transport || Process
  +
|-
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|GO:0006879 || cellular iron ion homeostasis || Process
  +
|-
  +
|GO:0006898 || receptor-mediated endocytosis || Process
  +
|-
  +
|GO:0006955 || immune response || Process
  +
|-
  +
|GO:0007565 || female pregnancy || Process
  +
|-
  +
|GO:0010106 || cellular response to iron ion starvation || Process
  +
|-
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|GO:0016020 || membrane || Component
  +
|-
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|GO:0016021 || integral to membrane || Component
  +
|-
  +
|GO:0019882 || antigen processing and presentation || Process
  +
|-
  +
|GO:0031410 || cytoplasmic vesicle || Component
  +
|-
  +
|GO:0042446 || hormone biosynthetic process || Process
  +
|-
  +
|GO:0042612 || MHC class I protein complex || Component
  +
|-
  +
|GO:0045177 || apical part of cell || Component
  +
|-
  +
|GO:0045178 || basal part of cell || Component
  +
|-
  +
|GO:0048471 || perinuclear region of cytoplasm ||Component
  +
|-
  +
|GO:0055037 || recycling endosome || Component
  +
|-
  +
|GO:0055072 || iron ion homeostasis || Process
  +
|-
  +
|GO:0060586 || multicellular organismal iron ion homeostasis || Process
  +
|-
  +
|}
   
  +
  +
  +
  +
  +
  +
===GOPET===
 
{| border="1" style="text-align:center; border-spacing:0;"
 
{| border="1" style="text-align:center; border-spacing:0;"
 
!GOID
 
!GOID

Revision as of 15:35, 31 May 2011

Sequence-based predictions

1. Secondary structure prediction

PSIPRED

Jpred3

Comparison with DSSP

2. Prediction of disordered regions

DISOPRED

POODLE

IUPRED

3. Prediction of transmembrane alpha-helices and signal peptides

TMHMM

Phobius and PolyPhobius

OCTOPUS and SPOCTOPUS

SignalP

TargetP

4. Prediction of GO terms

Generel

HFE is annotated with 27 GO Terms which are:

GOID GO Term Aspect
GO:0002474 antigen processing and presentation of peptide antigen via MHC class I Process
GO:0005515 protein binding Function
GO:0005737 cytoplasm Component
GO:0005769 early endosome Component
GO:0005886 plasma membrane Component
GO:0005887 integral to plasma membrane Component
GO:0006461 protein complex assembly Process
GO:0006810 transport Process
GO:0006811 ion transport Process
GO:0006826 iron ion transport Process
GO:0006879 cellular iron ion homeostasis Process
GO:0006898 receptor-mediated endocytosis Process
GO:0006955 immune response Process
GO:0007565 female pregnancy Process
GO:0010106 cellular response to iron ion starvation Process
GO:0016020 membrane Component
GO:0016021 integral to membrane Component
GO:0019882 antigen processing and presentation Process
GO:0031410 cytoplasmic vesicle Component
GO:0042446 hormone biosynthetic process Process
GO:0042612 MHC class I protein complex Component
GO:0045177 apical part of cell Component
GO:0045178 basal part of cell Component
GO:0048471 perinuclear region of cytoplasm Component
GO:0055037 recycling endosome Component
GO:0055072 iron ion homeostasis Process
GO:0060586 multicellular organismal iron ion homeostasis Process




GOPET

GOID Aspect Confidence GO Term
GO:0004872 Molecular Function 91% receptor activity
GO:0030106 Molecular Function 88% MHC class I receptor activity

Pfam

ProtFun 2.2