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

Lsa004147

Organism

Lactuca sativa

Taxonomic ID

4236

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; campanulids; Asterales; Asteraceae; Cichorioideae; Cichorieae; Lactucinae; Lactuca

Family

C3H

Protein Properties

Length: 442aa MW: 46857.7 Da PI: 7.9217

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gnl\|UG\|Lsa#S58692261	PU_ref	Unigene	View CDS
PUT-187a-Lactuca_sativa-7558	PU_unref	plantGDB	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	38.2	2.4e-12	42	67	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 +++ C +++rtG+C yG+rC+F+H++ Lsa004147 42 DEADCIYYLRTGFCGYGSRCRFNHPR 67 6799********************96 PP
2	zf-CCCH	37.2	5.1e-12	89	113	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++ C++f+rtG Ck+G++Ck++H++ Lsa004147 89 QPVCQYFMRTGMCKFGASCKYHHPR 113 689********************96 PP
3	zf-CCCH	35.4	1.8e-11	134	159	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 ++++C+++ +tG+Ck+G +CkF+H++ Lsa004147 134 GEKECSYYVKTGQCKFGVTCKFHHPQ 159 7899********************97 PP
4	zf-CCCH	39.2	1.2e-12	286	312	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C+f+++tG Ck+G++C+++H+p Lsa004147 286 PGEPECQFYMKTGDCKFGSSCRYHHPP 312 5799*********************97 PP
5	zf-CCCH	36.9	6.3e-12	334	358	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 +lC+++a++G Ck+G++CkF H++ Lsa004147 334 APLCSHYAQNGVCKFGPSCKFDHPM 358 68*********************95 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	5.9E-5	40	67	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.295	40	68	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	8.7E-10	42	67	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.57E-6	43	68	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.2E-5	46	67	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.45	86	114	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.5E-7	86	113	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	8.5E-9	89	113	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.24E-6	89	114	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.7E-5	91	113	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.9E-5	132	159	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.389	132	160	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.5E-9	134	159	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	8.24E-6	135	160	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.4E-4	138	158	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.4E-6	285	312	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.164	285	313	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.6E-10	287	312	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.18E-5	289	312	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.3E-4	291	312	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.896	331	359	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.6E-7	331	358	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.19E-6	334	361	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.9E-9	334	358	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.5E-5	336	356	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: 442 aa Download sequence Send to blast
MEMSQSDPVT EWSSSGGQIG LEEPMWQLGL GDASESYPER PDEADCIYYL RTGFCGYGSR 60 CRFNHPRDRG SVIGALRASG GEYPERIGQP VCQYFMRTGM CKFGASCKYH HPRQGVGSLS 120 SVALNVSGYP LRPGEKECSY YVKTGQCKFG VTCKFHHPQP AGMVASPVPL SAMPSAMYPN 180 VQSPSVASSQ AYGVLTGNWP VARPPLVPGS YLPGTYGPVL MPPGMVPFPG WNPYQASLHP 240 SGSPSSQPII GPGPGGGYAM TQLSPSAPSY PLTKSQKEQH VFPERPGEPE CQFYMKTGDC 300 KFGSSCRYHH PPEWNLPKSN FGLSPMGLPL RPGAPLCSHY AQNGVCKFGP SCKFDHPMGT 360 LSYSPSASSL ADMPVAPYPV GSYMGTLAPS SSSSELRPEV TSASIASNFS KMNQISQSAG 420 SSSTTTHGGS GGGSGGDGHS TN

Sequence ? help Back to Top

Protein Sequence Length: 442 aa Download sequence Send to blast

MEMSQSDPVT EWSSSGGQIG LEEPMWQLGL GDASESYPER PDEADCIYYL RTGFCGYGSR  60
CRFNHPRDRG SVIGALRASG GEYPERIGQP VCQYFMRTGM CKFGASCKYH HPRQGVGSLS  120
SVALNVSGYP LRPGEKECSY YVKTGQCKFG VTCKFHHPQP AGMVASPVPL SAMPSAMYPN  180
VQSPSVASSQ AYGVLTGNWP VARPPLVPGS YLPGTYGPVL MPPGMVPFPG WNPYQASLHP  240
SGSPSSQPII GPGPGGGYAM TQLSPSAPSY PLTKSQKEQH VFPERPGEPE CQFYMKTGDC  300
KFGSSCRYHH PPEWNLPKSN FGLSPMGLPL RPGAPLCSHY AQNGVCKFGP SCKFDHPMGT  360
LSYSPSASSL ADMPVAPYPV GSYMGTLAPS SSSSELRPEV TSASIASNFS KMNQISQSAG  420
SSSTTTHGGS GGGSGGDGHS TN

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023749260.1	0.0	zinc finger CCCH domain-containing protein 34-like
Swissprot	Q6NPN3	1e-152	C3H58_ARATH; Zinc finger CCCH domain-containing protein 58
TrEMBL	A0A2J6JGS8	0.0	A0A2J6JGS8_LACSA; Uncharacterized protein
STRING	XP_009588295.1	0.0	(Nicotiana tomentosiformis)

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]