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_5849_f_3

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: 450aa MW: 50210.7 Da PI: 7.1648

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Neem_5849_f_3	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	40.9	3.5e-13	103	125	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 e C ++++tGtCk+G++CkF+H+ Neem_5849_f_3 103 EDCAYYMKTGTCKFGSNCKFNHP 125 89********************8 PP
2	zf-CCCH	30.3	7.4e-10	157	177	5	25
--SGGGGTS--TTTTT-SS-S CS zf-CCCH 5 lCrffartGtCkyGdrCkFaH 25 +C++++rtG CkyG C+++H Neem_5849_f_3 157 ECKYYLRTGGCKYGKACRYNH 177 7******************** PP
3	zf-CCCH	39.9	6.9e-13	200	224	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C++++r+G CkyG++C+F+H+ Neem_5849_f_3 200 GEKECPYYMRNGSCKYGANCRFNHP 224 7899********************9 PP
4	zf-CCCH	28.2	3.3e-09	335	361	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C++f++tG Cky ++Ck++H++ Neem_5849_f_3 335 PGQPECSYFLKTGDCKYKSNCKYHHPK 361 5789*********************96 PP
5	zf-CCCH	36.7	7.1e-12	383	406	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 + +C++++r+G+Ck+G+ CkF H+ Neem_5849_f_3 383 QNICSYYSRYGICKFGPACKFDHP 406 679********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	6.02E-7	98	127	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.2E-6	99	126	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.112	99	127	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	9.0E-11	103	125	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.5E-5	105	124	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.1E-4	152	179	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.042	152	180	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.44E-5	156	181	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.0E-7	157	177	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	7.0E-5	158	178	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.0E-7	198	225	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.324	198	226	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.1E-10	200	224	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.49E-6	200	225	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.0E-5	204	223	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.333	334	362	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.5E-4	334	361	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.3E-6	336	361	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.57E-5	338	363	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.14E-6	378	406	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.1E-5	380	407	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.84	380	408	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.3E-9	383	406	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.6E-4	385	405	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: 450 aa Download sequence Send to blast
MELSETIPVP SLHHENPKLE LGLQSSSPKS DLDPAPSDLN HATELEDELQ NLDLREMEER 60 YSSKEEESES DDNNKIKSEV QRENENGNQI RKRYPYPVRP EAEDCAYYMK TGTCKFGSNC 120 KFNHPIRRKN QATKEKVRER EESAERPAQS QSQSQIECKY YLRTGGCKYG KACRYNHTKA 180 KTSVTPILEL NFLGLPIRPG EKECPYYMRN GSCKYGANCR FNHPDPTAVG ISDSPSGYAN 240 GGSLSSKAAS QASLGSWSSP RALNETSPFV PMMFSPSQGV PSQNSEWNGY QAPLYPPERS 300 MQSSPTYVMN NPALETNVYT NHQPQMLVDE FPERPGQPEC SYFLKTGDCK YKSNCKYHHP 360 KNRISKSPPC ALSDKGLPLR PDQNICSYYS RYGICKFGPA CKFDHPINTA ASSTECGPDP 420 PTSFGNSATR QETVVGGTGN GSDNKIQQPV

Sequence ? help Back to Top

Protein Sequence Length: 450 aa Download sequence Send to blast

MELSETIPVP SLHHENPKLE LGLQSSSPKS DLDPAPSDLN HATELEDELQ NLDLREMEER  60
YSSKEEESES DDNNKIKSEV QRENENGNQI RKRYPYPVRP EAEDCAYYMK TGTCKFGSNC  120
KFNHPIRRKN QATKEKVRER EESAERPAQS QSQSQIECKY YLRTGGCKYG KACRYNHTKA  180
KTSVTPILEL NFLGLPIRPG EKECPYYMRN GSCKYGANCR FNHPDPTAVG ISDSPSGYAN  240
GGSLSSKAAS QASLGSWSSP RALNETSPFV PMMFSPSQGV PSQNSEWNGY QAPLYPPERS  300
MQSSPTYVMN NPALETNVYT NHQPQMLVDE FPERPGQPEC SYFLKTGDCK YKSNCKYHHP  360
KNRISKSPPC ALSDKGLPLR PDQNICSYYS RYGICKFGPA CKFDHPINTA ASSTECGPDP  420
PTSFGNSATR QETVVGGTGN GSDNKIQQPV

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006440009.1	0.0	zinc finger CCCH domain-containing protein 67 isoform X1
Swissprot	Q9STM4	1e-151	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	V4VKL3	0.0	V4VKL3_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-144	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]