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

Cla001900

Organism

Citrullus lanatus

Taxonomic ID

3654

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Citrullus

Family

ARF

Protein Properties

Length: 719aa MW: 80185.6 Da PI: 6.2096

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cla001900	genome	ICuGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	69.9	3.4e-22	169	269	1	98
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 f+k+lt sd++++g +++ +++a+++ +++ ++l+ +d++g +W +++i+r++++r++lt+GW+ Fv++++L +gD ++F + +++el+ Cla001900 169 FCKTLTASDTSTHGGFSVLRRHADDClppldmsQQP--PWQELVATDLHGSQWHFRHIFRGQPRRHLLTTGWSVFVSSKKLVAGDAFIFL--RGENGELR 264 99**************************964333..4459********************************************..449999 PP EEEE- CS B3 94 vkvfr 98 v+v+r Cla001900 265 VGVRR 269 ***97 PP
2	Auxin_resp	103.4	2.9e-34	295	377	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha++t++ F+v+Y+Pr+s+s F v+++k+++a ++k+svGmRfkm+fe+e+++er++sGt+vg+ d + W nS+WrsLk Cla001900 295 ASHAIATGTLFSVFYKPRTSRSTFLVSLNKYLEAQNHKLSVGMRFKMRFEGEEVPERSFSGTIVGLGDNASPGWANSEWRSLK 377 789******************************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	5.36E-43	158	298	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.2E-39	165	284	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.64E-20	167	269	No hit	No description
Pfam	PF02362	6.3E-20	169	269	IPR003340	B3 DNA binding domain
SMART	SM01019	6.3E-21	169	271	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.194	169	271	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.1E-32	295	377	IPR010525	Auxin response factor
PROSITE profile	PS51745	28.967	594	687	IPR000270	PB1 domain
Pfam	PF02309	1.8E-11	595	684	IPR033389	AUX/IAA domain
SuperFamily	SSF54277	1.7E-11	596	671	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009733	Biological Process	response to auxin
GO:0010150	Biological Process	leaf senescence
GO:0045892	Biological Process	negative regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0042802	Molecular Function	identical protein binding

Sequence ? help Back to Top
Protein Sequence Length: 719 aa Download sequence Send to blast
MSVLCGCQGA CEAQASMSHY GAVWIFKYDN VCAAPNFRWY QDDISQYATG PLPXXXXXXX 60 SDALYRELWH ACAGPLVTLP RQDERVYYFP QGHMEQLEAS MHQGLEQQMP SFNLPSKILC 120 KVVNVVLRAE PDTDEVYAQI TLLPESNQSE VTSPDPALPE PTRCNVHSFC KTLTASDTST 180 HGGFSVLRRH ADDCLPPLDM SQQPPWQELV ATDLHGSQWH FRHIFRGQPR RHLLTTGWSV 240 FVSSKKLVAG DAFIFLRGEN GELRVGVRRL MRQLNNMPSS VISSHSMHLG VLATASHAIA 300 TGTLFSVFYK PRTSRSTFLV SLNKYLEAQN HKLSVGMRFK MRFEGEEVPE RSFSGTIVGL 360 GDNASPGWAN SEWRSLKVQW DEPSSILRPD KVSAWELEPL VASNPLSTQP TQRNKRPRPT 420 VLPSSSPDAT VLGGWKPTVE SSAFSYTEPQ RGRDLYSSPK FSTAASNSLG FNANGSLGAV 480 SSNTYWSNTN RVENIMDTSS HVANREPIEK KQNTRNGCRL FGIQLLGNSN VDEASPISTP 540 KMVGEDRLVP PVDSEFDQHS EPSNIPRSDI PSVSCDADKS CLISPLESQS RQIRSCTKVH 600 MQGIAVGRAV DLTRFNQYDD LLRKLEEMFD IEGELCGSLK KWQVVYTDDE DDMMMVGDDP 660 WNEFCSMVRK IFIYTTEEVK RLSPKIKLPL GGDGKLCKPD SDTIANHTED QSSIVGSDC

Sequence ? help Back to Top

Protein Sequence Length: 719 aa Download sequence Send to blast

MSVLCGCQGA CEAQASMSHY GAVWIFKYDN VCAAPNFRWY QDDISQYATG PLPXXXXXXX  60
SDALYRELWH ACAGPLVTLP RQDERVYYFP QGHMEQLEAS MHQGLEQQMP SFNLPSKILC  120
KVVNVVLRAE PDTDEVYAQI TLLPESNQSE VTSPDPALPE PTRCNVHSFC KTLTASDTST  180
HGGFSVLRRH ADDCLPPLDM SQQPPWQELV ATDLHGSQWH FRHIFRGQPR RHLLTTGWSV  240
FVSSKKLVAG DAFIFLRGEN GELRVGVRRL MRQLNNMPSS VISSHSMHLG VLATASHAIA  300
TGTLFSVFYK PRTSRSTFLV SLNKYLEAQN HKLSVGMRFK MRFEGEEVPE RSFSGTIVGL  360
GDNASPGWAN SEWRSLKVQW DEPSSILRPD KVSAWELEPL VASNPLSTQP TQRNKRPRPT  420
VLPSSSPDAT VLGGWKPTVE SSAFSYTEPQ RGRDLYSSPK FSTAASNSLG FNANGSLGAV  480
SSNTYWSNTN RVENIMDTSS HVANREPIEK KQNTRNGCRL FGIQLLGNSN VDEASPISTP  540
KMVGEDRLVP PVDSEFDQHS EPSNIPRSDI PSVSCDADKS CLISPLESQS RQIRSCTKVH  600
MQGIAVGRAV DLTRFNQYDD LLRKLEEMFD IEGELCGSLK KWQVVYTDDE DDMMMVGDDP  660
WNEFCSMVRK IFIYTTEEVK RLSPKIKLPL GGDGKLCKPD SDTIANHTED QSSIVGSDC

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	0.0	61	400	16	355	Auxin response factor 1
4ldw_A	0.0	61	400	16	355	Auxin response factor 1
4ldw_B	0.0	61	400	16	355	Auxin response factor 1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	414	418	KRPRP

Functional Description ? help Back to Top
Source	Description
UniProt	Auxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Seems to act as transcriptional repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Acts as repressor of IAA2, IAA3 and IAA7. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16176952}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00097	PBM	Transfer from AT1G59750	Download

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KU323414	0.0	KU323414.1 UNVERIFIED: Trichosanthes dioica clone TdARF_12 auxin response factor 1-like mRNA, partial sequence.
GenBank	KU323427	0.0	KU323427.1 UNVERIFIED: Trichosanthes dioica clone TdARF_35 auxin response factor 1-like mRNA, partial sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_008460595.1	0.0	PREDICTED: auxin response factor 1
Refseq	XP_016902572.1	0.0	PREDICTED: auxin response factor 1
Swissprot	Q8L7G0	0.0	ARFA_ARATH; Auxin response factor 1
TrEMBL	A0A1S3CCX0	0.0	A0A1S3CCX0_CUCME; Auxin response factor
STRING	XP_008460595.1	0.0	(Cucumis melo)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF6802	26	38

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G59750.2	0.0	auxin response factor 1

Publications ? help Back to Top
Montesinos JC,Pastor-Cantizano N,Robinson DG,Marcote MJ,Aniento F Arabidopsis p24δ5 and p24δ9 facilitate Coat Protein I-dependent transport of the K/HDEL receptor ERD2 from the Golgi to the endoplasmic reticulum. Plant J., 2014. 80(6): p. 1014-30 [PMID:25312353] Marais C, et al. The Qb-SNARE Memb11 interacts specifically with Arf1 in the Golgi apparatus of Arabidopsis thaliana. J. Exp. Bot., 2015. 66(21): p. 6665-78 [PMID:26208648] Wójcikowska B,Gaj MD Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis. Plant Cell Rep., 2017. 36(6): p. 843-858 [PMID:28255787] Zhang M,Hu X,Zhu M,Xu M,Wang L Transcription factors NF-YA2 and NF-YA10 regulate leaf growth via auxin signaling in Arabidopsis. Sci Rep, 2017. 7(1): p. 1395 [PMID:28469131]