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

Neem_19703_f_1

Organism

Azadirachta indica

Taxonomic ID

124943

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta

Family

C3H

Protein Properties

Length: 410aa MW: 45684.4 Da PI: 6.07

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Neem_19703_f_1	genome	NGD	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	41	3.1e-13	103	125	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 e C ++++tGtCk+G++CkF+H+ Neem_19703_f_1 103 EDCAYYMKTGTCKFGSNCKFNHP 125 89********************8 PP
2	zf-CCCH	39.4	1e-12	160	184	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C++++r+G CkyG++C+F+H+ Neem_19703_f_1 160 GEKECPYYMRNGSCKYGANCRFNHP 184 6789********************9 PP
3	zf-CCCH	28.3	3e-09	295	321	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C++f++tG Cky ++Ck++H++ Neem_19703_f_1 295 PGQPECSYFLKTGDCKYKSNCKYHHPK 321 5789*********************96 PP
4	zf-CCCH	36.9	6.3e-12	343	366	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 + +C++++r+G+Ck+G+ CkF H+ Neem_19703_f_1 343 QNICSYYSRYGICKFGPACKFDHP 366 679********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	5.23E-7	98	127	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.112	99	127	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.2E-6	99	126	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	8.0E-11	103	125	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.4E-5	105	124	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.591	159	186	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.5E-6	160	185	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.0E-10	160	184	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	6.41E-6	161	185	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.8E-5	164	183	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.5E-4	294	321	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.333	294	322	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.1E-6	296	321	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.31E-5	298	323	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.49E-6	338	366	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.1E-5	340	367	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.84	340	368	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.0E-9	343	366	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.0E-4	345	365	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 410 aa Download sequence Send to blast
MELSETIPVP SLHHENPKLE LGLQSSSPKS DLDPAPSDLN HATELEDELQ NLDLREMEER 60 YSSKEEESES DDNNKIKSEV QRENENGNQI RKRYPYPVRP EAEDCAYYMK TGTCKFGSNC 120 KFNHPIRRKN QATKEKVRER EESAERPAQS QSQSQIECKG EKECPYYMRN GSCKYGANCR 180 FNHPDPTAVG ISDSPSGYAN GGSLSSKAAS QASLGSWSSP RALNETSPFV PMMFSPSQGV 240 PSQNSEWNGY QAPLYPPERS MQSSPTYVMN NPALETNVYT NHQPQMLVDE FPERPGQPEC 300 SYFLKTGDCK YKSNCKYHHP KNRISKSPPC ALSDKGLPLR PDQNICSYYS RYGICKFGPA 360 CKFDHPINTA ASSTECGPDP PTSFGNSATR QETVVGGTGN GSDNKIQQPV

Sequence ? help Back to Top

Protein Sequence Length: 410 aa Download sequence Send to blast

MELSETIPVP SLHHENPKLE LGLQSSSPKS DLDPAPSDLN HATELEDELQ NLDLREMEER  60
YSSKEEESES DDNNKIKSEV QRENENGNQI RKRYPYPVRP EAEDCAYYMK TGTCKFGSNC  120
KFNHPIRRKN QATKEKVRER EESAERPAQS QSQSQIECKG EKECPYYMRN GSCKYGANCR  180
FNHPDPTAVG ISDSPSGYAN GGSLSSKAAS QASLGSWSSP RALNETSPFV PMMFSPSQGV  240
PSQNSEWNGY QAPLYPPERS MQSSPTYVMN NPALETNVYT NHQPQMLVDE FPERPGQPEC  300
SYFLKTGDCK YKSNCKYHHP KNRISKSPPC ALSDKGLPLR PDQNICSYYS RYGICKFGPA  360
CKFDHPINTA ASSTECGPDP PTSFGNSATR QETVVGGTGN GSDNKIQQPV

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006440011.1	0.0	zinc finger CCCH domain-containing protein 43 isoform X2
Swissprot	Q9STM4	1e-121	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	V4TTN0	0.0	V4TTN0_9ROSI; Uncharacterized protein
STRING	XP_006440009.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4176	27	58

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48440.1	1e-114	C3H family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546]