Telomere repeat-binding protein 1 - Arabidopsis thaliana (Mouse-ear cress)

Preferred order of sections

Names and origin

Protein names

Recommended name:
Telomere repeat-binding protein 1
Short name=AtTRP1

Gene names

Name:	TRP1
Ordered Locus Names:	At5g59430
ORF Names:	F2O15.20

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	578 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Binds specifically to the plant telomeric double-stranded DNA sequences 5'-GGTTTAG-3'. At least 4 repeats of telomeric sequences are required for binding. Induces DNA bending.
Subunit structure	Homodimer and heterodimer with TRP2 and TRP3. Interacts with KU70. Ref.7 Ref.8
Subcellular location	Nucleus By similarity.
Tissue specificity	Expressed ubiquitously. Highest expression in flowers and leaves. Ref.8 Ref.9
Domain	A N-terminal domain (80-269) is responsible for the interaction with KU70. The C-terminal domain (464-578) is sufficient for telomere binding.
Disruption phenotype	No visible phenotype, probably due to redundancy. Ref.8
Sequence similarities	Contains 1 HTH myb-type DNA-binding domain. Contains 1 ubiquitin-like domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Ligand	DNA-binding
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	regulation of transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW protein binding Inferred from physical interaction Ref.7. Source: IntAct
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
KU70	Q9FQ08	2	EBI-476071,EBI-476083

Alternative products

This entry describes 4 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q8L7L8-1) 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.

Isoform 2 (identifier: Q8L7L8-2) The sequence of this isoform differs from the canonical sequence as follows: 555-578: QLQQNVNKLEQETQSQTTEGLLLL → PWRSSLLCVLLLLLMIM
Note: No experimental confirmation available.

Isoform 3 (identifier: Q8L7L8-3) The sequence of this isoform differs from the canonical sequence as follows: 555-578: QLQQNVNKLEQETQSQTTEGLLLL → HLGGRLSFVYYYYY
Note: Derived from EST data. No experimental confirmation available.

Isoform 4 (identifier: Q8L7L8-4) The sequence of this isoform differs from the canonical sequence as follows: 29-29: Missing.
Note: Derived from EST data. No experimental confirmation available.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 578

578

Telomere repeat-binding protein 1

PRO_0000394124

Regions

Domain

293 – 372

80

Ubiquitin-like

Domain

463 – 522

60

HTH myb-type

DNA binding

491 – 518

28

H-T-H motif By similarity

Region

465 – 469

5

Interaction with DNA

Region

511 – 515

5

Interaction with DNA

Region

522 – 529

8

Interaction with DNA

Compositional bias

457 – 461

5

Poly-Gln

Compositional bias

575 – 578

4

Poly-Leu

Natural variations

Alternative sequence

29

1

Missing in isoform 4.

VSP_039133

Alternative sequence

555 – 578

24

QLQQN…GLLLL → PWRSSLLCVLLLLLMIM in isoform 2.

VSP_039134

Alternative sequence

555 – 578

24

QLQQN…GLLLL → HLGGRLSFVYYYYY in isoform 3.

VSP_039135

Experimental info

Sequence conflict

4

1

H → R in CAB50690. Ref.1

Sequence conflict

58

1

S → P in CAB50690. Ref.1

Sequence conflict

137

1

D → E in BAH19498. Ref.6

Sequence conflict

473

1

V → A in AAM91585. Ref.5

Sequence conflict

473

1

V → A in AAN15436. Ref.5

Secondary structure

1

.

578

Helix Strand Turn

Details...

Sequences

Sequence		Length	Mass (Da)
Isoform 1 [UniParc]. Last modified May 18, 2010. Version 2. Checksum: 853B54C5FC2E5E01 Show »	FASTA	578	65,036
10 20 30 40 50 60 MVSHKCVEEF GYASYLVPSN ARAPRSARKR RSIEKRISKE DDNMCAIDLL ATVAGHLSFE 70 80 90 100 110 120 SGSSLMSIDK LIEDHRVKEE FPEEEKPLMP VALSPYRGSL SPCGFSSVIN GKVENEVDGF 130 140 150 160 170 180 SYSGGSDACQ VGNFSQDVKP DIDGDAVVLD ARPNVVVSLG SSSRTEVPSI GNCVSHGVRD 190 200 210 220 230 240 DVNLFSRDDD ENFSKYIHPR VTKHSPRTVP RIGDRRIRKI LASRHWKGGS RHSDTKPWRN 250 260 270 280 290 300 YYLHQQRSYP IKKRKNFDHI SDSVTDDYRM RTKMHRGSRK GQGASFVASD SHVKLRIKSF 310 320 330 340 350 360 RVPELFIEIP ETATVGSLKR MVMEAVSTLL SDGHRVGLMV QGKKVRDDNK TLHQTGISQD 370 380 390 400 410 420 NSHLDSLDFS LEPSSEMPQL LTSHPLGHAC EELLPVCQAT KIDNVLESDH HDSALFPSDS 430 440 450 460 470 480 LGNNNVTEDS KAMISVALNE LSSQSQPPSR KSRRSEQQQQ QAAQRRIRRP FSVAEVEALV 490 500 510 520 530 540 QAVEKLGTGR WRDVKLCAFE DADHRTYVDL KDKWKTLVHT AKISPQQRRG EPVPQELLNR 550 560 570 VLNAHGYWTQ QQMQQLQQNV NKLEQETQSQ TTEGLLLL « Hide
Isoform 2 [UniParc]. Checksum: 17BCF837A70A75FE Show »	FASTA	571	64,282
10 20 30 40 50 60 MVSHKCVEEF GYASYLVPSN ARAPRSARKR RSIEKRISKE DDNMCAIDLL ATVAGHLSFE 70 80 90 100 110 120 SGSSLMSIDK LIEDHRVKEE FPEEEKPLMP VALSPYRGSL SPCGFSSVIN GKVENEVDGF 130 140 150 160 170 180 SYSGGSDACQ VGNFSQDVKP DIDGDAVVLD ARPNVVVSLG SSSRTEVPSI GNCVSHGVRD 190 200 210 220 230 240 DVNLFSRDDD ENFSKYIHPR VTKHSPRTVP RIGDRRIRKI LASRHWKGGS RHSDTKPWRN 250 260 270 280 290 300 YYLHQQRSYP IKKRKNFDHI SDSVTDDYRM RTKMHRGSRK GQGASFVASD SHVKLRIKSF 310 320 330 340 350 360 RVPELFIEIP ETATVGSLKR MVMEAVSTLL SDGHRVGLMV QGKKVRDDNK TLHQTGISQD 370 380 390 400 410 420 NSHLDSLDFS LEPSSEMPQL LTSHPLGHAC EELLPVCQAT KIDNVLESDH HDSALFPSDS 430 440 450 460 470 480 LGNNNVTEDS KAMISVALNE LSSQSQPPSR KSRRSEQQQQ QAAQRRIRRP FSVAEVEALV 490 500 510 520 530 540 QAVEKLGTGR WRDVKLCAFE DADHRTYVDL KDKWKTLVHT AKISPQQRRG EPVPQELLNR 550 560 570 VLNAHGYWTQ QQMQPWRSSL LCVLLLLLMI M « Hide
Isoform 3 [UniParc]. Checksum: 88CA324D8E8DDC3D Show »	FASTA	568	64,081
10 20 30 40 50 60 MVSHKCVEEF GYASYLVPSN ARAPRSARKR RSIEKRISKE DDNMCAIDLL ATVAGHLSFE 70 80 90 100 110 120 SGSSLMSIDK LIEDHRVKEE FPEEEKPLMP VALSPYRGSL SPCGFSSVIN GKVENEVDGF 130 140 150 160 170 180 SYSGGSDACQ VGNFSQDVKP DIDGDAVVLD ARPNVVVSLG SSSRTEVPSI GNCVSHGVRD 190 200 210 220 230 240 DVNLFSRDDD ENFSKYIHPR VTKHSPRTVP RIGDRRIRKI LASRHWKGGS RHSDTKPWRN 250 260 270 280 290 300 YYLHQQRSYP IKKRKNFDHI SDSVTDDYRM RTKMHRGSRK GQGASFVASD SHVKLRIKSF 310 320 330 340 350 360 RVPELFIEIP ETATVGSLKR MVMEAVSTLL SDGHRVGLMV QGKKVRDDNK TLHQTGISQD 370 380 390 400 410 420 NSHLDSLDFS LEPSSEMPQL LTSHPLGHAC EELLPVCQAT KIDNVLESDH HDSALFPSDS 430 440 450 460 470 480 LGNNNVTEDS KAMISVALNE LSSQSQPPSR KSRRSEQQQQ QAAQRRIRRP FSVAEVEALV 490 500 510 520 530 540 QAVEKLGTGR WRDVKLCAFE DADHRTYVDL KDKWKTLVHT AKISPQQRRG EPVPQELLNR 550 560 VLNAHGYWTQ QQMQHLGGRL SFVYYYYY « Hide
Isoform 4 [UniParc]. Checksum: 6CF814FEE16B7055 Show »	FASTA	577	64,908
10 20 30 40 50 60 MVSHKCVEEF GYASYLVPSN ARAPRSARRR SIEKRISKED DNMCAIDLLA TVAGHLSFES 70 80 90 100 110 120 GSSLMSIDKL IEDHRVKEEF PEEEKPLMPV ALSPYRGSLS PCGFSSVING KVENEVDGFS 130 140 150 160 170 180 YSGGSDACQV GNFSQDVKPD IDGDAVVLDA RPNVVVSLGS SSRTEVPSIG NCVSHGVRDD 190 200 210 220 230 240 VNLFSRDDDE NFSKYIHPRV TKHSPRTVPR IGDRRIRKIL ASRHWKGGSR HSDTKPWRNY 250 260 270 280 290 300 YLHQQRSYPI KKRKNFDHIS DSVTDDYRMR TKMHRGSRKG QGASFVASDS HVKLRIKSFR 310 320 330 340 350 360 VPELFIEIPE TATVGSLKRM VMEAVSTLLS DGHRVGLMVQ GKKVRDDNKT LHQTGISQDN 370 380 390 400 410 420 SHLDSLDFSL EPSSEMPQLL TSHPLGHACE ELLPVCQATK IDNVLESDHH DSALFPSDSL 430 440 450 460 470 480 GNNNVTEDSK AMISVALNEL SSQSQPPSRK SRRSEQQQQQ AAQRRIRRPF SVAEVEALVQ 490 500 510 520 530 540 AVEKLGTGRW RDVKLCAFED ADHRTYVDLK DKWKTLVHTA KISPQQRRGE PVPQELLNRV 550 560 570 LNAHGYWTQQ QMQQLQQNVN KLEQETQSQT TEGLLLL « Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"A plant gene encoding a Myb-like protein that binds telomeric GGTTTAG repeats in vitro." Chen C.M., Wang C.T., Ho C.H. J. Biol. Chem. 276:16511-16519(2001) [PubMed: 11278537] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], DNA-BINDING.
[2]	"The MYB transcription factor family in Arabidopsis: a genome-wide cloning and expression pattern analysis." Qu L., Gu H. Submitted (FEB-2004) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
[3]	"Structural analysis of Arabidopsis thaliana chromosome 5. XI." Kaneko T., Katoh T., Asamizu E., Sato S., Nakamura Y., Kotani H., Tabata S. Submitted (APR-1999) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[4]	The Arabidopsis Information Resource (TAIR) Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: cv. Columbia.
[5]	"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] (ISOFORM 1). Strain: cv. Columbia.
[6]	"Analysis of multiple occurrences of alternative splicing events in Arabidopsis thaliana using novel sequenced full-length cDNAs." Iida K., Fukami-Kobayashi K., Toyoda A., Sakaki Y., Kobayashi M., Seki M., Shinozaki K. DNA Res. 16:155-164(2009) [PubMed: 19423640] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2). Strain: cv. Columbia.
[7]	"Interactions of putative telomere-binding proteins in Arabidopsis thaliana: identification of functional TRF2 homolog in plants." Kuchar M., Fajkus J. FEBS Lett. 578:311-315(2004) [PubMed: 15589838] [Abstract] Cited for: INTERACTION WITH KU70.
[8]	"A C-terminal Myb extension domain defines a novel family of double-strand telomeric DNA-binding proteins in Arabidopsis." Karamysheva Z.N., Surovtseva Y.V., Vespa L., Shakirov E.V., Shippen D.E. J. Biol. Chem. 279:47799-47807(2004) [PubMed: 15364931] [Abstract] Cited for: GENE FAMILY, TISSUE SPECIFICITY, SUBUNIT, DISRUPTION PHENOTYPE.
[9]	"AtTBP2 and AtTRP2 in Arabidopsis encode proteins that bind plant telomeric DNA and induce DNA bending in vitro." Hwang M.G., Kim K., Lee W.K., Cho M.H. Mol. Genet. Genomics 273:66-75(2005) [PubMed: 15688221] [Abstract] Cited for: DNA-BINDING, TISSUE SPECIFICITY.
[10]	"Solution structure of the Arabidopsis thaliana telomeric repeat-binding protein DNA binding domain: a new fold with an additional C-terminal helix." Sue S.C., Hsiao H.H., Chung B.C., Cheng Y.H., Hsueh K.L., Chen C.M., Ho C.H., Huang T.H. J. Mol. Biol. 356:72-85(2006) [PubMed: 16337232] [Abstract] Cited for: STRUCTURE BY NMR OF 464-560, DNA-BINDING.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

Y17722 Genomic DNA. Translation: CAB50690.1.
AY519544 mRNA. Translation: AAS10014.1.
AB025604 Genomic DNA. Translation: BAA97479.1.
CP002688 Genomic DNA. Translation: AED97184.1.
CP002688 Genomic DNA. Translation: AED97185.1.
CP002688 Genomic DNA. Translation: AED97186.1.
CP002688 Genomic DNA. Translation: AED97187.1.
AY128382 mRNA. Translation: AAM91585.1.
BT000117 mRNA. Translation: AAN15436.1.
AK316779 mRNA. Translation: BAH19498.1.
AK318830 mRNA. Translation: BAH56945.1.

IPI

IPI00524547.
IPI00846414.
IPI00846757.
IPI00968533.

PIR

T51230.

RefSeq

NP_001078770.1. NM_001085301.1.
NP_001078771.1. NM_001085302.1.
NP_200751.1. NM_125334.3.
NP_851221.1. NM_180890.1.

UniGene

At.42990.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2AJE	NMR	-	A	464-560	[»]

ProteinModelPortal

Q8L7L8.

SMR

Q8L7L8. Positions 435-560.

ModBase

Search...

Protein-protein interaction databases

IntAct

Q8L7L8. 1 interaction.

MINT

MINT-1212501.

STRING

Q8L7L8.

Proteomic databases

PRIDE

Q8L7L8.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblPlants

AT5G59430.1; AT5G59430.1; AT5G59430.
AT5G59430.2; AT5G59430.2; AT5G59430.

GeneID

836062.

GenomeReviews

Gene locus AT5G59430 in contig BA000015_GR.

KEGG

ath:AT5G59430.

Organism-specific databases

TAIR

At5g59430.

Phylogenomic databases

GeneTree

EPGT00050000009405.

OMA

CAFEDAD.

PhylomeDB

Q8L7L8.

ProtClustDB

CLSN2686463.

Gene expression databases

Genevestigator

Q8L7L8.

Family and domain databases

InterPro

IPR009057. Homeodomain-like.
IPR012287. Homeodomain-rel.
IPR001005. SANT_DNA-bd.
IPR017930. Tscrpt_reg_HTH_Myb-type.
IPR019955. Ubiquitin_supergroup.
[Graphical view]

Gene3D

G3DSA:1.10.10.60. Homeodomain-rel. 1 hit.

SMART

SM00717. SANT. 1 hit.
[Graphical view]

SUPFAM

SSF46689. Homeodomain_like. 1 hit.

PROSITE

PS51294. HTH_MYB. 1 hit.
PS00299. UBIQUITIN_1. False negative.
PS50053. UBIQUITIN_2. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

TRP1_ARATH

Accession

Primary (citable) accession number: Q8L7L8
Secondary accession number(s): A8MQF8

Q9XGN0

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 18, 2010
Last sequence update:	May 18, 2010
Last modified:	January 25, 2012
This is version 59 of the entry and version 2 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

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Alternative products

Sequence annotation (Features)

Molecule processing

Regions

Natural variations

Experimental info

Secondary structure

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