F4JYC8 · PTM_ARATH
- ProteinDDT domain-containing protein PTM
- GenePTM
- StatusUniProtKB reviewed (Swiss-Prot)
- Amino acids1706 (go to sequence)
- Protein existenceEvidence at protein level
- Annotation score5/5
Function
function
Membrane-bound transcription factor required for the plastid-to-nucleus retrograde signaling. Functions in multiple retrograde pathways. The plastid-to-nucleus signal plays an important role in the coordinated expression of both nuclear- and chloroplast-localized genes that encode photosynthesis-related proteins. In the nucleus, activates ABI4 transcription in a PHD-dependent manner associated with histone modifications. Localized primarily in the chloroplast outer membrane as dormant form and, in response to retrograde signals, is released from the membrane through proteolytic cleavage and its cleaved fragment containing the transcription factor domain is redistributed to the nucleus, where it regulates the expression of particular nuclear genes.
GO annotations
all annotations | all molecular function | nucleotide binding | molecular_function | nucleic acid binding | dna binding | chromatin binding | dna-binding transcription factor activity | rna binding | cytoskeletal motor activity | catalytic activity | nuclease activity | signaling receptor binding | structural molecule activity | transporter activity | binding | protein binding | translation factor activity, rna binding | lipid binding | kinase activity | transferase activity | hydrolase activity | oxygen binding | enzyme regulator activity | carbohydrate binding | signaling receptor activity | translation regulator activity | transcription regulator activity | other molecular function | all biological process | carbohydrate metabolic process | generation of precursor metabolites and energy | nucleobase-containing compound metabolic process | dna metabolic process | translation | lipid metabolic process | transport | response to stress | cell cycle | cell communication | signal transduction | cell-cell signaling | multicellular organism development | circadian rhythm | biological_process | metabolic process | catabolic process | biosynthetic process | response to light stimulus | response to external stimulus | tropism | response to biotic stimulus | response to abiotic stimulus | response to endogenous stimulus | embryo development | post-embryonic development | fruit ripening | abscission | pollination | flower development | cellular process | programmed cell death | photosynthesis | cellular component organization | cell growth | protein metabolic process | cellular homeostasis | secondary metabolic process | reproductive process | cell differentiation | protein modification process | growth | epigenetic regulation of gene expression | response to chemical | anatomical structure development | regulation of molecular function | other biological process | all cellular component | cellular_component | extracellular region | cell wall | intracellular anatomical structure | nucleus | nuclear envelope | nucleoplasm | nucleolus | cytoplasm | mitochondrion | lysosome | endosome | vacuole | peroxisome | endoplasmic reticulum | golgi apparatus | cytosol | ribosome | cytoskeleton | plasma membrane | chloroplast | plastid | thylakoid | membrane | external encapsulating structure | other cellular component | |||
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Aspect | Term | |
---|---|---|
Cellular Component | chloroplast envelope | |
Cellular Component | chloroplast outer membrane | |
Cellular Component | ISWI-type complex | |
Cellular Component | nucleus | |
Molecular Function | metal ion binding | |
Molecular Function | methylated histone binding | |
Biological Process | chloroplast-nucleus signaling pathway | |
Biological Process | positive regulation of DNA-templated transcription | |
Biological Process | proteolysis |
Keywords
- Biological process
- Ligand
Protein family/group databases
Names & Taxonomy
Protein names
- Recommended nameDDT domain-containing protein PTM
- Alternative names
Gene names
Organism names
- Strain
- Taxonomic lineageEukaryota > Viridiplantae > Streptophyta > Embryophyta > Tracheophyta > Spermatophyta > Magnoliopsida > eudicotyledons > Gunneridae > Pentapetalae > rosids > malvids > Brassicales > Brassicaceae > Camelineae > Arabidopsis
Accessions
- Primary accessionF4JYC8
- Secondary accessions
Proteomes
Organism-specific databases
Genome annotation databases
Subcellular Location
UniProt Annotation
GO Annotation
Plastid, chloroplast outer membrane ; Multi-pass membrane protein
Note: Localized primarily in the chloroplast outer membrane as dormant form and, upon specific stimulation, is released from the membrane through proteolytic cleavage, and its cleaved fragment containing the transcription factor domain is redistributed to the nucleus, where it regulates the expression of particular nuclear genes.
Features
Showing features for transmembrane.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Transmembrane | 1539-1559 | Helical | ||||
Sequence: ALGSITLGSFGAITQFKSILP | ||||||
Transmembrane | 1569-1589 | Helical | ||||
Sequence: LAGPFAGAALSVSMFAVGLFL | ||||||
Transmembrane | 1596-1616 | Helical | ||||
Sequence: ANDLVQVPSMLFQGSLLLGLI | ||||||
Transmembrane | 1624-1644 | Helical | ||||
Sequence: AALHAATVSIHPLVIAGWCGL | ||||||
Transmembrane | 1682-1702 | Helical | ||||
Sequence: MLGLRVLGGPLALPWGLYVLI |
Keywords
- Cellular component
Phenotypes & Variants
Disruption phenotype
No visible phenotype under normal growth conditions.
PTM/Processing
Features
Showing features for chain.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Chain | PRO_0000435121 | 1-1706 | DDT domain-containing protein PTM | |||
Sequence: MEAKVPRPRGRPRKRQRLEDDNRKLNNRGKKQVLEVEPAVPISLLGCYMLKDFDDNEVFLGKIVSYDTGLYRVIYEDGDCEELESGDLRRLIISDSYLDDELRVRRKKLDKLILKKEEKKKRNSPENKAVELPNQVNGVQARAVTNSEDGDSYSDSESSESGDKRGSDLEIEAPLVPPVDLPPSSGTIGIPEEAVAHLLSVYGFLRSFSFQLYICPFELNDFVGALYFSGPNSLLDAVHVALLRALKGHLERLSSSKSVLASKCLRCIDWSLLDVLTWPVYLVQYFTAMGHASGPQWNIFNKFVVEIEYYSLPIGMKLKILQILCDDIFDVADLRDEIDAREESEIGFDPDRVATGLLENVPRRVHPRFAKTSAYKEKEVTDSSTNESKDLDSRCTNGGSNEVSSDLDGNSDECRICGMDGTLLCCDGCPLAYHSRCIGVVKMYIPDGPWFCPECTINKKGPKIAHGTSLRGAVQFGMDPHGRLFLGTCNHLLVLNISVNGDAVVKYYNVNDISKVVLVLISASSHTLEYVEICKAITQYWDLPEGISLREGEIGLTQAKDREDGKVSEITKSDSANISNRSHTQTVFDLPTSTLGNTNSAVTGGSCGIQGKKLAARVTYLGLSFKPNTYNNHYTNGELAVSAAASLAVLSSEETHEPDLRKYNSAKKAASSNILEQMKAFSLVAPRFFWPSPDKKEITRERCGWCHSCRLTSASRRGCMLNAAVAGATKGAMKIFSGLFPLKNGEGVLSSIAAYILYLEESLRGLIAGPFLSESPRKQWRKQVEEASTCKALKAPLLELEENICSIALSCDWFKQMDDWLIEHSIFQSAPVTLGVPQRRGPGRTKQNTQAEVTAEGSDADSFTWWRGGKLSKVILLKAVLSQPATKKAAWQGGSKKIPGLNYGDASYIPRRSRRSFWKAAVESSKNISQLALQVRYLDMSLRWRELVRPDQNLQNVKGPETDVAIFRNARICDKKLSDNKVSYGVFFGNQKHLPSRVMKNIMEVEKTQDRNEKYWLQEAHVPLYLIKEFEESLHRVQMPSSTKKPSKKLSKLQRKQLKASLMDIFSYIASRRDKMEKCSCASCDHDVLLRDTTTCSSCHGFCHKDCTSMSQHTNGNVEVLVTCKRCYLSKTRVPTNINHRQSTAPQFTINVRHQNAVIPVIKVKPPSQQLSSQKPRENTSGVKQVTPDSSVSKSKQKTLSCGVIWRKKNVEDTGVDFRNQNILLAGRSDKPSLEPVCGICLLPYNPGLTYIHCTKCEKWFHTEAVKLKDSQIPEVVGFKCCKCRRIRSPDCPYMDPKLKEQKQIKRIVFTNQKQRQGNSGLDSDSERMSEQKDSKPSTPLPATPLYPPDDVFIPEDDPLLVSVSKVKQITPSSFDLEWSTTAFAPGPQKLPVRRQVKREDSDAAYPELHPIVKPEAEEQALPVLTEWDLSGELLFDYEDMEFEPQTYFSLTELLTADDSGGGQYQENGDMVVSGNPQFEPTEKEECEDDMGPCQRCLQMDPAPDLLCTVCGLLIHSHCSPWSALPGSSWSCGQCRIRALGSITLGSFGAITQFKSILPDRSTKVDISLAGPFAGAALSVSMFAVGLFLSTEPDAANDLVQVPSMLFQGSLLLGLISRATLGYAALHAATVSIHPLVIAGWCGLTTTAFNMLPVGCLDGGRAVQGAFGKNALVTFGLSTYVMLGLRVLGGPLALPWGLYVLICRNT |
Proteomic databases
PTM databases
Expression
Gene expression databases
Interaction
Subunit
Interacts (via the DDT domain) with CHR11 (via C-terminus).
Protein-protein interaction databases
Structure
Family & Domains
Features
Showing features for region, motif, domain, compositional bias, zinc finger.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Region | 1-27 | Disordered | ||||
Sequence: MEAKVPRPRGRPRKRQRLEDDNRKLNN | ||||||
Motif | 9-18 | Nuclear localization signal | ||||
Sequence: RGRPRKRQRL | ||||||
Region | 144-168 | Disordered | ||||
Sequence: VTNSEDGDSYSDSESSESGDKRGSD | ||||||
Domain | 192-252 | DDT | ||||
Sequence: EEAVAHLLSVYGFLRSFSFQLYICPFELNDFVGALYFSGPNSLLDAVHVALLRALKGHLER | ||||||
Compositional bias | 375-389 | Basic and acidic residues | ||||
Sequence: YKEKEVTDSSTNESK | ||||||
Region | 375-408 | Disordered | ||||
Sequence: YKEKEVTDSSTNESKDLDSRCTNGGSNEVSSDLD | ||||||
Compositional bias | 390-407 | Polar residues | ||||
Sequence: DLDSRCTNGGSNEVSSDL | ||||||
Zinc finger | 411-458 | PHD-type 1 | ||||
Sequence: SDECRICGMDGTLLCCDGCPLAYHSRCIGVVKMYIPDGPWFCPECTIN | ||||||
Region | 1165-1194 | Disordered | ||||
Sequence: KPPSQQLSSQKPRENTSGVKQVTPDSSVSK | ||||||
Compositional bias | 1166-1194 | Polar residues | ||||
Sequence: PPSQQLSSQKPRENTSGVKQVTPDSSVSK | ||||||
Compositional bias | 1311-1325 | Polar residues | ||||
Sequence: TNQKQRQGNSGLDSD | ||||||
Region | 1311-1345 | Disordered | ||||
Sequence: TNQKQRQGNSGLDSDSERMSEQKDSKPSTPLPATP |
Keywords
- Domain
Phylogenomic databases
Family and domain databases
Sequence & Isoform
- Sequence statusComplete
This entry describes 2 isoforms produced by Alternative splicing.
F4JYC8-1
This isoform has been chosen as the canonical sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
- Name1
- Length1,706
- Mass (Da)189,210
- Last updated2011-06-28 v1
- Checksum8EA504D21BD5263F
F4JYC8-2
- Name2
- Differences from canonical
- 1537-1539: IRA → EWQ
- 1540-1706: Missing
Computationally mapped potential isoform sequences
There is 1 potential isoform mapped to this entry
Entry | Entry name | Gene name | Length | ||
---|---|---|---|---|---|
A0A2H1ZE73 | A0A2H1ZE73_ARATH | PTM | 1678 |
Sequence caution
Features
Showing features for compositional bias, sequence conflict, alternative sequence.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Compositional bias | 375-389 | Basic and acidic residues | ||||
Sequence: YKEKEVTDSSTNESK | ||||||
Compositional bias | 390-407 | Polar residues | ||||
Sequence: DLDSRCTNGGSNEVSSDL | ||||||
Compositional bias | 1166-1194 | Polar residues | ||||
Sequence: PPSQQLSSQKPRENTSGVKQVTPDSSVSK | ||||||
Compositional bias | 1311-1325 | Polar residues | ||||
Sequence: TNQKQRQGNSGLDSD | ||||||
Sequence conflict | 1334 | in Ref. 3; BAD93752 | ||||
Sequence: D → G | ||||||
Alternative sequence | VSP_058014 | 1537-1539 | in isoform 2 | |||
Sequence: IRA → EWQ | ||||||
Alternative sequence | VSP_058015 | 1540-1706 | in isoform 2 | |||
Sequence: Missing |
Keywords
- Coding sequence diversity
- Technical term
Sequence databases
Nucleotide Sequence | Protein Sequence | Molecule Type | Status | |
---|---|---|---|---|
AP002031 EMBL· GenBank· DDBJ | BAA98208.1 EMBL· GenBank· DDBJ | Genomic DNA | Sequence problems. | |
CP002688 EMBL· GenBank· DDBJ | AED93946.1 EMBL· GenBank· DDBJ | Genomic DNA | ||
AK221734 EMBL· GenBank· DDBJ | BAD93752.1 EMBL· GenBank· DDBJ | mRNA | Different initiation |