Protein TIC 40, chloroplastic precursor - Arabidopsis thaliana (Mouse-ear cress)

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Q9FMD5 (TIC40_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified December 14, 2011. Version 73. History...

Clusters with 100%, 90%, 50% identity |

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

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 names

Name:	TIC40
Synonyms:	PDE120
Ordered Locus Names:	At5g16620
ORF Names:	MTG13.6

Organism

Arabidopsis thaliana (Mouse-ear cress)

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length	447 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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. Ref.4 Ref.6 Ref.7 Ref.9 Ref.10 Ref.12
Subunit structure	Part of the Tic complex. Interacts with HSP93, TIC110 and LTD. Ref.6 Ref.9 Ref.10 Ref.13
Subcellular location	Plastid › chloroplast inner membrane; Single-pass membrane protein Ref.4 Ref.8 Ref.10 Ref.11.
Tissue specificity	Expressed in seedlings, flowers, leaves, stems and roots. Ref.5 Ref.7
Developmental stage	Expressed throughout development. Ref.7
Domain	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.
Disruption phenotype	Small and chlorotic, but not seedling lethal. Defective in chloroplast protein import. Ref.4 Ref.7 Ref.10
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.
Sequence similarities	Contains 2 STI1 domains.

Ontologies

Keywords
Biological process	Protein transport Transport
Cellular component	Chloroplast Membrane Plastid Plastid inner membrane
Domain	Repeat Transit peptide Transmembrane Transmembrane helix
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	chloroplast organization Inferred from mutant phenotype Ref.7. Source: TAIR protein import into chloroplast stroma Inferred from mutant phenotype Ref.7. Source: TAIR
Cellular component	Tic complex Traceable author statement Ref.7. Source: TAIR chloroplast thylakoid membrane Inferred from direct assay. Source: TAIR integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW nucleus Inferred from electronic annotation. Source: InterPro
Molecular function	protein binding Inferred from physical interaction Ref.13. Source: UniProtKB
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
TIC110	Q8LPR9	3	EBI-639157,EBI-639092

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Transit peptide

1 – 43

Chloroplast Potential

Transit peptide

44 – 76

Chloroplast; inner membrane Potential

Chain

77 – 447

371

Protein TIC 40, chloroplastic

PRO_0000413673

Regions

Topological domain

77 – 104

Chloroplast intermembrane Potential

Transmembrane

105 – 125

Helical; Potential

Topological domain

126 – 447

322

Stromal Potential

Domain

310 – 344

STI1 1

Domain

386 – 425

STI1 2

Compositional bias

44 – 107

Ser-rich

Experimental info

Mutagenesis

396

N → A: Loss of stimulation of HSP93 ATP hydrolysis. Ref.9

Mutagenesis

405

N → A: Loss of stimulation of HSP93 ATP hydrolysis. Ref.9

Mutagenesis

418

N → A: No effect on stimulation of HSP93 ATP hydrolysis. Ref.9

Sequences

Sequence

Length

Mass (Da)

Tools

Q9FMD5 [UniParc].

Last modified March 1, 2001. Version 1.
Checksum: 52D3E7222AB461CE
Show »

FASTA

447

48,903

        10         20         30         40         50         60 
MENLTLVSCS ASSPKLLIGC NFTSSLKNPT GFSRRTPNIV LRCSKISASA QSQSPSSRPE 

        70         80         90        100        110        120 
NTGEIVVVKQ RSKAFASIFS SSRDQQTTSV ASPSVPVPPP SSSTIGSPLF WIGVGVGLSA 

       130        140        150        160        170        180 
LFSYVTSNLK KYAMQTAMKT MMNQMNTQNS QFNNSGFPSG SPFPFPFPPQ TSPASSPFQS 

       190        200        210        220        230        240 
QSQSSGATVD VTATKVETPP STKPKPTPAK DIEVDKPSVV LEASKEKKEE KNYAFEDISP 

       250        260        270        280        290        300 
EETTKESPFS NYAEVSETNS PKETRLFEDV LQNGAGPANG ATASEVFQSL GGGKGGPGLS 

       310        320        330        340        350        360 
VEALEKMMED PTVQKMVYPY LPEEMRNPET FKWMLKNPQY RQQLQDMLNN MSGSGEWDKR 

       370        380        390        400        410        420 
MTDTLKNFDL NSPEVKQQFN QIGLTPEEVI SKIMENPDVA MAFQNPRVQA ALMECSENPM 

       430        440 
NIMKYQNDKE VMDVFNKISQ LFPGMTG

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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: 9501997] [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. Ecker J.R. Science 302:842-846(2003) [PubMed: 14593172] [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: 12805212] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION, TOPOLOGY, DISRUPTION PHENOTYPE.
[5]	"The protein translocon of the plastid envelopes." Vojta A., Alavi M., Becker T., Hoermann F., Kuechler M., Soll J., Thomson R., Schleiff E. J. Biol. Chem. 279:21401-21405(2004) [PubMed: 15033972] [Abstract] 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: 15829604] [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: 15659100] [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: 17060496] [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: 17158958] [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: 17535810] [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: 17883373] [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: 18657235] [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: 21505433] [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: 20100520] [Abstract] Cited for: REVIEW.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	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.
IPI	IPI00530228.
RefSeq	NP_197165.1. NM_121668.3.
UniGene	At.25049. At.57178.
3D structure databases
ModBase	Search...
Protein-protein interaction databases
IntAct	Q9FMD5. 2 interactions.
STRING	Q9FMD5.
Proteomic databases
PRIDE	Q9FMD5.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	AT5G16620.1; AT5G16620.1; AT5G16620.
GeneID	831524.
GenomeReviews	Gene locus AT5G16620 in contig BA000015_GR.
KEGG	ath:AT5G16620.
NMPDR	fig\|3702.1.peg.23819.
Organism-specific databases
TAIR	At5g16620.
Phylogenomic databases
eggNOG	KOG1308.
GeneTree	EPGT00050000017791.
HOGENOM	HBG746509.
InParanoid	Q9FMD5.
OMA	QDMLNNM.
PhylomeDB	Q9FMD5.
ProtClustDB	CLSN2694805.
Gene expression databases
ArrayExpress	Q9FMD5.
Genevestigator	Q9FMD5.
Family and domain databases
InterPro	IPR006773. 26S_Psome_Ubiquitin-recp_Rpn13. IPR006636. STI1_HS-bd. [Graphical view]
Pfam	PF04683. Proteasom_Rpn13. 1 hit. [Graphical view]
SMART	SM00727. STI1. 2 hits. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

TIC40_ARATH

Accession

Primary (citable) accession number: Q9FMD5

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 19, 2011
Last sequence update:	March 1, 2001
Last modified:	December 14, 2011
This is version 73 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program

Relevant documents

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Regions

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Entry information

Relevant documents