PTM Viewer PTM Viewer

AT5G07440.1

Arabidopsis thaliana [ath]

glutamate dehydrogenase 2

18 PTM sites : 6 PTM types

PLAZA: AT5G07440
Gene Family: HOM05D001569
Other Names: GDH2

Link out to other resources with this protein ID : TAIR   |   PeptideAtlas   |   ARAPORT   |   PhosPhAt

For each protein all PTMs are highlighted by default in the respective protein sequence (right-hand side). One can adjust a selection of PTMs in the PTM table on the left-hand side. In addition, functional protein domains and sites can be underlined if desired.

In the PTM table per PTM the PTM position and type is indicated, as well as the plain peptide sequence that was identified by mass spectrometry. The respective proteomics study is indicated by a number, providing a link to consult the experimental details. Additional PTM meta-data includes various confidence measures such as peptide score provided by search algorithms, posterior error probability (PEP), precursor mass deviation (in ppm) and modification site probability. The available confidence meta-data can be consulted in the extended PTM table by clicking SHOW CONFIDENCE. However, in the default PTM table, a color-coding of confidence is provided with green indicating high confidence, olive medium confidence, grey low confidence, and no color an unassigned confidence. More details regarding this confidence assignment can be consulted in the tutorial or the Plant PTM Viewer manuscript.

Besides confidence measures, log2 fold changes between two conditions with significance values (P- or Q-values) are shown if provided in the respective publication. Log2 fold changes are colored in heatmap-like gradient (green = induced, red = repressed) and significant values are highlighted in green. To determine significance, we employed the threshold used in the respective publication. For more details on the quantitative measurements we refer to the experimental details and respective publication, as methodologies can differ.

On the bottom of the page one can send the whole protein or a part of the protein (i.e. a functional domain) to PTM Blast. This will display aligned protein sequences that potentially report aligned PTMs.

PTMs



PTM Type

Mod AA

Pos

Peptide

Exp ID

Conf
nta M 1 MNALAATNRNFR131a
MNALAATNRN5
MNALAATNR6
80
96
99
118
119
131b
131c
167a
nt N 2 NALAATNR167b
ph T 7 MNALAATNR66
ph S 22 ILGLDSKIER114
ac K 23 ILGLDSKIER101
nt S 27 SLMIPFR167b
sno C 39 VECTIPK169
so C 39 VECTIPK110
nt G 63 GPMKGGIR167b
sno C 107 GGIGCSPR169
ph S 108 GGIGCSPR114
ph S 113 DLSLSELER114
ph S 115 DLSLSELER109
114
nt T 136 TDVPAPDMGTN92
ac K 255 NPEGIDINALIKHK101
ac K 303 ENAGDVKAK101
so C 381 TMCHTHSCNLR108
ph S 385 TMCHTHSCNLR109
114

Sequence

Length: 411

MNALAATNRNFRHASRILGLDSKIERSLMIPFREIKVECTIPKDDGTLVSYIGFRVQHDNARGPMKGGIRYHPEVDPDEVNALAQLMTWKTAVADIPYGGAKGGIGCSPRDLSLSELERLTRVFTQKIHDLIGIHTDVPAPDMGTNAQTMAWILDEYSKFHGHSPAVVTGKPIDLGGSLGREAATGRGVVFATEALLAEYGKSIQGLTFVIQGFGNVGTWAAKLIHEKGGKVVAVSDITGAIRNPEGIDINALIKHKDATGSLNDFNGGDAMNSDELLIHECDVLIPCALGGVLNKENAGDVKAKFIVEAANHPTDPDADEILSKKGVIILPDIYANAGGVTVSYFEWVQNIQGFMWEEEKVNLELQKYMTRAFHNIKTMCHTHSCNLRMGAFTLGVNRVARATQLRGWEA

ID PTM Type Color
nta N-terminal Acetylation X
nt N-terminus Proteolysis X
ph Phosphorylation X
ac Acetylation X
sno S-nitrosylation X
so S-sulfenylation X
Multiple types X

Domains & Sites

Clear highlighted range 
Interpro Domains
Show IPR ID From To
IPR006096 176 408
IPR006097 33 159
IPR033922 176 402
Sites
Show Type Position
Site 102
Site 102
Metal Ion-binding Site 142
Active Site 66
Active Site 90
Active Site 344
Active Site 185
Active Site 216

BLAST


Perform a BLAST search for this sequence, or a part of this sequence (minimum 50 characters)
A downloadable tutorial can be found here