PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

KN540718.1_FGP001

Organism

Oryza longistaminata

Taxonomic ID

4528

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

GATA

Protein Properties

Length: 1006aa MW: 117184 Da PI: 9.3478

Description

GATA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KN540718.1_FGP001	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GATA	39.8	6.4e-13	113	145	1	31
GATA 1 CsnCgttk..TplWRrgpdgnktLCnaCGlyyr 31 C+nCg ++ Tp++R++p+g+k+ CnaCGl+++ KN540718.1_FGP001 113 CTNCGESSdaTPMMRHAPNGTKSFCNACGLMWA 145 ********************************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51320	11.01	1	27	IPR010399	Tify domain
PROSITE profile	PS51017	11.112	54	96	IPR010402	CCT domain
Pfam	PF06203	3.6E-11	54	94	IPR010402	CCT domain
SMART	SM00401	1.1E-5	107	160	IPR000679	Zinc finger, GATA-type
SuperFamily	SSF57716	1.09E-6	109	148	No hit	No description
CDD	cd00202	7.34E-8	112	144	No hit	No description
Gene3D	G3DSA:3.30.50.10	9.1E-11	112	147	IPR013088	Zinc finger, NHR/GATA-type
Pfam	PF00320	1.8E-10	113	145	IPR000679	Zinc finger, GATA-type
Gene3D	G3DSA:3.40.50.300	4.8E-7	153	317	IPR027417	P-loop containing nucleoside triphosphate hydrolase
SuperFamily	SSF52540	1.77E-6	155	362	IPR027417	P-loop containing nucleoside triphosphate hydrolase
SuperFamily	SSF52540	2.87E-5	768	962	IPR027417	P-loop containing nucleoside triphosphate hydrolase

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1006 aa Download sequence Send to blast
MYYQGQEYVF DSVQPQKIEN IFHHLNGQEM IPQSIRPQPT NLVRPITVPE DFDRFAALTR 60 YREKKRNIKF IKKADYSARK EVALRMKRSK GKFAPTVQSS ENSLAHRKGI TFCTNCGESS 120 DATPMMRHAP NGTKSFCNAC GLMWANSVLG RASSVGAFVK RGEESGHVKI SLRGNTPEHI 180 IRITRKIDTK NKSEWQLDGT TVPRKEVVDL IKKFNIQVNN LTQFLPQDRV VEFAKLTPIQ 240 LLEETEKAVG FPDLPVQHRQ LIDRSKQLKN LEVMSLVLRS KAVKQKEQTL NNLKALNAEL 300 KEDVERVQQR DKLMKKVDLM RKRLQWLKYE MKKKEWIEAH EQEKTMKKKM EEAAKIWEDS 360 KRPIEELKKE KMSHTSNTKK TSNQLAENMK KRQDVTDKEL QLAWTLLYLN QVSSTISLLL 420 ELMENKNNKL LHKLKYFGAE KINEAYNWVQ DNRYKFRTEV YGPVLLEVNI QDKAHASYLE 480 GHVPNYIWKS FITQDASDRD LLVRQFKKYD IPVLNYMGDK GIRTEPFNIT MEMQQVGIYS 540 RLDQVFEAPP AVKDVLISQA KLDHSYVGTD ETQNRADDVP KLGMSDFWTP NNHYRWSRSR 600 YGGHLSALVD DVNPSRYFMG NLDVGDIERL RSQKDKHTEN IEGMVEELKI LLKKQSQLED 660 EAAKFHRKKE EMLCEKAKQD GIKRRVVSKR IMLESIYKEE DMESSKIKLV DQVAKLNDQQ 720 FQVVLQRKDL LIRAVVLKRT CTQENMASIE LDTKIWEMEK NVQKFERDAV EAARGYANCK 780 RKTQVHEQQL HIAKQHAESI AKITKELEKE FHKMPATIEE LDCAIQDTES EANSMFFLNQ 840 NVLLEYQNRK HEIDSISEKL EHDKEEYQRC YSDIETTKGK WLPTLRTLVS KINNTFSRNF 900 QEMAVAGEVS LDEHGLDFEQ YGILIKVKFR QTGMDPINER KMFQQLVRAA SQPNTPQCFL 960 LTPKLLPDLE YSDACSILNI MTGTWIEKPA KAWSTGDCWR TVMNVH

Sequence ? help Back to Top

Protein Sequence Length: 1006 aa Download sequence Send to blast

MYYQGQEYVF DSVQPQKIEN IFHHLNGQEM IPQSIRPQPT NLVRPITVPE DFDRFAALTR  60
YREKKRNIKF IKKADYSARK EVALRMKRSK GKFAPTVQSS ENSLAHRKGI TFCTNCGESS  120
DATPMMRHAP NGTKSFCNAC GLMWANSVLG RASSVGAFVK RGEESGHVKI SLRGNTPEHI  180
IRITRKIDTK NKSEWQLDGT TVPRKEVVDL IKKFNIQVNN LTQFLPQDRV VEFAKLTPIQ  240
LLEETEKAVG FPDLPVQHRQ LIDRSKQLKN LEVMSLVLRS KAVKQKEQTL NNLKALNAEL  300
KEDVERVQQR DKLMKKVDLM RKRLQWLKYE MKKKEWIEAH EQEKTMKKKM EEAAKIWEDS  360
KRPIEELKKE KMSHTSNTKK TSNQLAENMK KRQDVTDKEL QLAWTLLYLN QVSSTISLLL  420
ELMENKNNKL LHKLKYFGAE KINEAYNWVQ DNRYKFRTEV YGPVLLEVNI QDKAHASYLE  480
GHVPNYIWKS FITQDASDRD LLVRQFKKYD IPVLNYMGDK GIRTEPFNIT MEMQQVGIYS  540
RLDQVFEAPP AVKDVLISQA KLDHSYVGTD ETQNRADDVP KLGMSDFWTP NNHYRWSRSR  600
YGGHLSALVD DVNPSRYFMG NLDVGDIERL RSQKDKHTEN IEGMVEELKI LLKKQSQLED  660
EAAKFHRKKE EMLCEKAKQD GIKRRVVSKR IMLESIYKEE DMESSKIKLV DQVAKLNDQQ  720
FQVVLQRKDL LIRAVVLKRT CTQENMASIE LDTKIWEMEK NVQKFERDAV EAARGYANCK  780
RKTQVHEQQL HIAKQHAESI AKITKELEKE FHKMPATIEE LDCAIQDTES EANSMFFLNQ  840
NVLLEYQNRK HEIDSISEKL EHDKEEYQRC YSDIETTKGK WLPTLRTLVS KINNTFSRNF  900
QEMAVAGEVS LDEHGLDFEQ YGILIKVKFR QTGMDPINER KMFQQLVRAA SQPNTPQCFL  960
LTPKLLPDLE YSDACSILNI MTGTWIEKPA KAWSTGDCWR TVMNVH

Functional Description ? help Back to Top
Source	Description
UniProt	Core component of the SMC5-SMC6 complex that promotes sister chromatid alignment after DNA damage and facilitates double-stranded DNA breaks (DSBs) repair via homologous recombination between sister chromatids. {ECO:0000269\|PubMed:19737979}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	KN540718.1_FGP001

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003567770.1	0.0	structural maintenance of chromosomes protein 5 isoform X1
Swissprot	Q9LFS8	0.0	SMC5_ARATH; Structural maintenance of chromosomes protein 5
TrEMBL	B8BL58	0.0	B8BL58_ORYSI; Uncharacterized protein
STRING	OMERI11G14040.1	0.0	(Oryza meridionalis)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G51600.2	1e-30	ZIM-LIKE 2

Publications ? help Back to Top
Watanabe K, et al. The STRUCTURAL MAINTENANCE OF CHROMOSOMES 5/6 complex promotes sister chromatid alignment and homologous recombination after DNA damage in Arabidopsis thaliana. Plant Cell, 2009. 21(9): p. 2688-99 [PMID:19737979] Gardiner J,Overall R,Marc J Putative Arabidopsis homologues of metazoan coiled-coil cytoskeletal proteins. Cell Biol. Int., 2011. 35(8): p. 767-74 [PMID:21284606] Schubert V,Lermontova I,Schubert I The Arabidopsis CAP-D proteins are required for correct chromatin organisation, growth and fertility. Chromosoma, 2013. 122(6): p. 517-33 [PMID:23929493] Liu CH, et al. Repair of DNA Damage Induced by the Cytidine Analog Zebularine Requires ATR and ATM in Arabidopsis. Plant Cell, 2015. 27(6): p. 1788-800 [PMID:26023162] Pradillo M, et al. Involvement of the Cohesin Cofactor PDS5 (SPO76) During Meiosis and DNA Repair in Arabidopsis thaliana. Front Plant Sci, 2015. 6: p. 1034 [PMID:26648949] Diaz M,Pecinka A Scaffolding for Repair: Understanding Molecular Functions of the SMC5/6 Complex. Genes (Basel), 2018. [PMID:29329249] Lai J, et al. The Transcriptional Coactivator ADA2b Recruits a Structural Maintenance Protein to Double-Strand Breaks during DNA Repair in Plants. Plant Physiol., 2018. 176(4): p. 2613-2622 [PMID:29463775]