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Q9FMD5

- TIC40_ARATH

UniProt

Q9FMD5 - TIC40_ARATH

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Protein

Protein TIC 40, chloroplastic

Gene
TIC40, PDE120, At5g16620, MTG13.6
Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

Involved in protein precursor import into chloroplasts. Part of the motor complex consisting of a co-chaperone (TIC40) and a chaperone (HSP93) associated with the import channel (TIC110). Causes the release of bound transit peptides from TIC110 and stimulates ATP hydrolysis by HSP93. Involved in reinsertion of proteins from the chloroplast stroma into the inner membrane.6 Publications

GO - Molecular functioni

  1. protein binding Source: UniProtKB

GO - Biological processi

  1. chloroplast organization Source: TAIR
  2. protein import into chloroplast stroma Source: TAIR
Complete GO annotation...

Keywords - Biological processi

Protein transport, Transport

Protein family/group databases

TCDBi3.A.9.1.2. the chloroplast envelope protein translocase (cept or tic-toc) family.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein TIC 40, chloroplastic
Alternative name(s):
Protein PIGMENT DEFECTIVE EMBRYO 120
Translocon at the inner envelope membrane of chloroplasts 40
Short name:
AtTIC40
Gene namesi
Name:TIC40
Synonyms:PDE120
Ordered Locus Names:At5g16620
ORF Names:MTG13.6
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 5

Organism-specific databases

TAIRiAT5G16620.

Subcellular locationi

Plastidchloroplast inner membrane; Single-pass membrane protein 4 Publications

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini77 – 10428Chloroplast intermembrane Reviewed predictionAdd
BLAST
Transmembranei105 – 12521Helical; Reviewed predictionAdd
BLAST
Topological domaini126 – 447322Stromal Reviewed predictionAdd
BLAST

GO - Cellular componenti

  1. chloroplast Source: TAIR
  2. chloroplast envelope Source: TAIR
  3. chloroplast inner membrane Source: TAIR
  4. chloroplast thylakoid membrane Source: TAIR
  5. integral component of membrane Source: UniProtKB-KW
  6. membrane Source: TAIR
  7. Tic complex Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Membrane, Plastid, Plastid inner membrane

Pathology & Biotechi

Disruption phenotypei

Small and chlorotic, but not seedling lethal. Defective in chloroplast protein import.3 Publications

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi396 – 3961N → A: Loss of stimulation of HSP93 ATP hydrolysis. 1 Publication
Mutagenesisi405 – 4051N → A: Loss of stimulation of HSP93 ATP hydrolysis. 1 Publication
Mutagenesisi418 – 4181N → A: No effect on stimulation of HSP93 ATP hydrolysis. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 4343Chloroplast Reviewed predictionAdd
BLAST
Transit peptidei44 – 7633Chloroplast; inner membrane Reviewed predictionAdd
BLAST
Chaini77 – 447371Protein TIC 40, chloroplasticPRO_0000413673Add
BLAST

Proteomic databases

PaxDbiQ9FMD5.
PRIDEiQ9FMD5.

Expressioni

Tissue specificityi

Expressed in seedlings, flowers, leaves, stems and roots.2 Publications

Developmental stagei

Expressed throughout development.1 Publication

Gene expression databases

GenevestigatoriQ9FMD5.

Interactioni

Subunit structurei

Part of the Tic complex. Interacts with HSP93, TIC110 and LTD.4 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
TIC110Q8LPR93EBI-639157,EBI-639092

Protein-protein interaction databases

BioGridi16800. 5 interactions.
IntActiQ9FMD5. 2 interactions.
STRINGi3702.AT5G16620.1-P.

Structurei

Secondary structure

1
447
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi387 – 3937
Helixi397 – 4026
Helixi406 – 41510
Helixi419 – 4213
Helixi422 – 4254
Helixi429 – 44113
Beta strandi442 – 4443

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2LNMNMR-A386-447[»]
ProteinModelPortaliQ9FMD5.
SMRiQ9FMD5. Positions 386-447.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini310 – 34435STI1 1Add
BLAST
Domaini386 – 42540STI1 2Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi44 – 10764Ser-richAdd
BLAST

Domaini

The C-terminal half (89-105) of the Ser/Pro-rich region and the transmembrane domain are necessary and sufficient for membrane integration.
The TPR region (238-373) interacts with TIC110.
The STI1 2 domain (386-425) has a stimulatory effect on HSP93 ATP hydrolysis.

Sequence similaritiesi

Contains 2 STI1 domains.

Keywords - Domaini

Repeat, Transit peptide, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG276582.
HOGENOMiHOG000082622.
InParanoidiQ9FMD5.
OMAiQDMLNNM.
PhylomeDBiQ9FMD5.

Family and domain databases

InterProiIPR006636. STI1_HS-bd.
[Graphical view]
SMARTiSM00727. STI1. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q9FMD5-1 [UniParc]FASTAAdd to Basket

« Hide

MENLTLVSCS ASSPKLLIGC NFTSSLKNPT GFSRRTPNIV LRCSKISASA    50
QSQSPSSRPE NTGEIVVVKQ RSKAFASIFS SSRDQQTTSV ASPSVPVPPP 100
SSSTIGSPLF WIGVGVGLSA LFSYVTSNLK KYAMQTAMKT MMNQMNTQNS 150
QFNNSGFPSG SPFPFPFPPQ TSPASSPFQS QSQSSGATVD VTATKVETPP 200
STKPKPTPAK DIEVDKPSVV LEASKEKKEE KNYAFEDISP EETTKESPFS 250
NYAEVSETNS PKETRLFEDV LQNGAGPANG ATASEVFQSL GGGKGGPGLS 300
VEALEKMMED PTVQKMVYPY LPEEMRNPET FKWMLKNPQY RQQLQDMLNN 350
MSGSGEWDKR MTDTLKNFDL NSPEVKQQFN QIGLTPEEVI SKIMENPDVA 400
MAFQNPRVQA ALMECSENPM NIMKYQNDKE VMDVFNKISQ LFPGMTG 447
Length:447
Mass (Da):48,903
Last modified:March 1, 2001 - v1
Checksum:i52D3E7222AB461CE
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AB008270 Genomic DNA. Translation: BAB10189.1.
CP002688 Genomic DNA. Translation: AED92318.1.
AF428299 mRNA. Translation: AAL16131.1.
AY093010 mRNA. Translation: AAM13009.1.
BT006595 mRNA. Translation: AAP31939.1.
RefSeqiNP_197165.1. NM_121668.3.
UniGeneiAt.25049.
At.57178.

Genome annotation databases

EnsemblPlantsiAT5G16620.1; AT5G16620.1; AT5G16620.
GeneIDi831524.
KEGGiath:AT5G16620.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AB008270 Genomic DNA. Translation: BAB10189.1 .
CP002688 Genomic DNA. Translation: AED92318.1 .
AF428299 mRNA. Translation: AAL16131.1 .
AY093010 mRNA. Translation: AAM13009.1 .
BT006595 mRNA. Translation: AAP31939.1 .
RefSeqi NP_197165.1. NM_121668.3.
UniGenei At.25049.
At.57178.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2LNM NMR - A 386-447 [» ]
ProteinModelPortali Q9FMD5.
SMRi Q9FMD5. Positions 386-447.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 16800. 5 interactions.
IntActi Q9FMD5. 2 interactions.
STRINGi 3702.AT5G16620.1-P.

Protein family/group databases

TCDBi 3.A.9.1.2. the chloroplast envelope protein translocase (cept or tic-toc) family.

Proteomic databases

PaxDbi Q9FMD5.
PRIDEi Q9FMD5.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblPlantsi AT5G16620.1 ; AT5G16620.1 ; AT5G16620 .
GeneIDi 831524.
KEGGi ath:AT5G16620.

Organism-specific databases

TAIRi AT5G16620.

Phylogenomic databases

eggNOGi NOG276582.
HOGENOMi HOG000082622.
InParanoidi Q9FMD5.
OMAi QDMLNNM.
PhylomeDBi Q9FMD5.

Gene expression databases

Genevestigatori Q9FMD5.

Family and domain databases

InterProi IPR006636. STI1_HS-bd.
[Graphical view ]
SMARTi SM00727. STI1. 2 hits.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Structural analysis of Arabidopsis thaliana chromosome 5. III. Sequence features of the regions of 1,191,918 bp covered by seventeen physically assigned P1 clones."
    Nakamura Y., Sato S., Kaneko T., Kotani H., Asamizu E., Miyajima N., Tabata S.
    DNA Res. 4:401-414(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  2. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  3. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  4. "Tic40, a membrane-anchored co-chaperone homolog in the chloroplast protein translocon."
    Chou M.L., Fitzpatrick L.M., Tu S.L., Budziszewski G., Potter-Lewis S., Akita M., Levin J.Z., Keegstra K., Li H.M.
    EMBO J. 22:2970-2980(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, TOPOLOGY, DISRUPTION PHENOTYPE.
  5. Cited for: TISSUE SPECIFICITY.
  6. "Arabidopsis tic110 is essential for the assembly and function of the protein import machinery of plastids."
    Inaba T., Alvarez-Huerta M., Li M., Bauer J., Ewers C., Kessler F., Schnell D.J.
    Plant Cell 17:1482-1496(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH TIC110.
  7. "In vivo studies on the roles of Tic110, Tic40 and Hsp93 during chloroplast protein import."
    Kovacheva S., Bedard J., Patel R., Dudley P., Twell D., Rios G., Koncz C., Jarvis P.
    Plant J. 41:412-428(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, DISRUPTION PHENOTYPE.
  8. "Reconstitution of protein targeting to the inner envelope membrane of chloroplasts."
    Li M., Schnell D.J.
    J. Cell Biol. 175:249-259(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, PROTEOLYTIC PROCESSING, TOPOLOGY.
  9. "Stimulation of transit-peptide release and ATP hydrolysis by a cochaperone during protein import into chloroplasts."
    Chou M.L., Chu C.C., Chen L.J., Akita M., Li H.M.
    J. Cell Biol. 175:893-900(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH TIC110 AND HSP93, MUTAGENESIS OF ASN-396; ASN-405 AND ASN-418.
  10. "Functional similarity between the chloroplast translocon component, Tic40, and the human co-chaperone, Hsp70-interacting protein (Hip)."
    Bedard J., Kubis S., Bimanadham S., Jarvis P.
    J. Biol. Chem. 282:21404-21414(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH TIC110, DISRUPTION PHENOTYPE.
  11. "A novel serine/proline-rich domain in combination with a transmembrane domain is required for the insertion of AtTic40 into the inner envelope membrane of chloroplasts."
    Tripp J., Inoue K., Keegstra K., Froehlich J.E.
    Plant J. 52:824-838(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, PROTEOLYTIC PROCESSING.
  12. "Tic40 is important for reinsertion of proteins from the chloroplast stroma into the inner membrane."
    Chiu C.C., Li H.M.
    Plant J. 56:793-801(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  13. "LTD is a protein required for sorting light-harvesting chlorophyll-binding proteins to the chloroplast SRP pathway."
    Ouyang M., Li X., Ma J., Chi W., Xiao J., Zou M., Chen F., Lu C., Zhang L.
    Nat. Commun. 2:277-277(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH LTD.
  14. "Protein import into chloroplasts: the Tic complex and its regulation."
    Kovacs-Bogdan E., Soll J., Bolter B.
    Biochim. Biophys. Acta 1803:740-747(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: REVIEW.

Entry informationi

Entry nameiTIC40_ARATH
AccessioniPrimary (citable) accession number: Q9FMD5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 19, 2011
Last sequence update: March 1, 2001
Last modified: June 11, 2014
This is version 92 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

Inserts into the inner envelope membrane from the stroma after import from the cytoplasm. The transit peptide undergoes a two-step processing. The initial cleavage to generate the intermediate found in the stroma is mediated by the stromal processing peptidase (SPP) while the final processing step by a signal peptidase I-type (SPase I), possibly PLSP1, requires association with the inner membrane.

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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