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

Gorai.005G158200.1

Common Name

B456_005G158200, LOC105794382

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

C2H2

Protein Properties

Length: 590aa MW: 63534.6 Da PI: 9.0166

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.005G158200.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.2	3e-05	73	95	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Gorai.005G158200.1 73 FICEVCNKGFQREQNLQLHRRGH 95 89*******************88 PP
2	zf-C2H2	13.1	0.00028	149	171	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Gorai.005G158200.1 149 WKCEKCSKRYAVQSDWKAHSKTC 171 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	6.6E-6	72	95	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.96E-7	72	95	No hit	No description
Pfam	PF12171	2.9E-5	73	95	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	73	95	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.99	73	95	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	75	95	IPR007087	Zinc finger, C2H2
SMART	SM00355	100	114	144	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.1E-5	137	170	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.96E-7	144	169	No hit	No description
SMART	SM00355	130	149	169	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 590 aa Download sequence Send to blast
MAAASSSTPF FGTREENQNQ MMQVQSSTAT PTSSTAPTTA PQKRKRNHPG TSSDPDAEVI 60 ALSPKTLMAT NRFICEVCNK GFQREQNLQL HRRGHNLPWK LRQKTTKEVK RKVYLCPEPT 120 CVHHDPSKAL GDLTGIKKHY SRKHGEKKWK CEKCSKRYAV QSDWKAHSKT CGTREYRCDC 180 GTLFSRRDSF ITHRAFCDAL AQESARHPTN LSTMGSHHLF GGNHHMSLGL SHVGSQIPPL 240 QDQNQVQPSR NLLRLGSTSG AVKFDHLISP SNPSSLQNMP SSMFFMAEAA NQGFHQDHQS 300 HHGHGLYPNK PLHGLMQLPD LQGSTNNSPT SSNFFNLGFF SNTSATSSIS TSEIGGGQGP 360 ALFPSNMGDQ VGSGMSSLYT TSMQHENISP HMSATALLQK AAQIGSTTSN NTTSTLLRGL 420 GSSLSGGTKS DRPVFSPNFG SNFEGGNGSE TLRSHMEDDS NLQGLMNSLA ANGNSSIFDG 480 GPSHGQDNNF GGFNGSGLTL EPQSSNANFC NVNEAKLHQN LAAGIGGTDK LTLDFLGVGG 540 MVGNISGGFS QREQHGINIS SLEPDMKSSV QPNTEHFGHA KLVKAPRQA*

Sequence ? help Back to Top

Protein Sequence Length: 590 aa Download sequence Send to blast

MAAASSSTPF FGTREENQNQ MMQVQSSTAT PTSSTAPTTA PQKRKRNHPG TSSDPDAEVI  60
ALSPKTLMAT NRFICEVCNK GFQREQNLQL HRRGHNLPWK LRQKTTKEVK RKVYLCPEPT  120
CVHHDPSKAL GDLTGIKKHY SRKHGEKKWK CEKCSKRYAV QSDWKAHSKT CGTREYRCDC  180
GTLFSRRDSF ITHRAFCDAL AQESARHPTN LSTMGSHHLF GGNHHMSLGL SHVGSQIPPL  240
QDQNQVQPSR NLLRLGSTSG AVKFDHLISP SNPSSLQNMP SSMFFMAEAA NQGFHQDHQS  300
HHGHGLYPNK PLHGLMQLPD LQGSTNNSPT SSNFFNLGFF SNTSATSSIS TSEIGGGQGP  360
ALFPSNMGDQ VGSGMSSLYT TSMQHENISP HMSATALLQK AAQIGSTTSN NTTSTLLRGL  420
GSSLSGGTKS DRPVFSPNFG SNFEGGNGSE TLRSHMEDDS NLQGLMNSLA ANGNSSIFDG  480
GPSHGQDNNF GGFNGSGLTL EPQSSNANFC NVNEAKLHQN LAAGIGGTDK LTLDFLGVGG  540
MVGNISGGFS QREQHGINIS SLEPDMKSSV QPNTEHFGHA KLVKAPRQA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-34	145	206	3	64	Zinc finger protein JACKDAW
5b3h_F	1e-34	145	206	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Gra.2370	9e-38	flower\|seedling\| flowering

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	48819943	9e-38

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC208494	1e-123	AC208494.1 Populus trichocarpa clone JGIACSB265-L05, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012478989.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like isoform X1
Refseq	XP_012478990.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like isoform X1
TrEMBL	A0A0D2NDJ2	0.0	A0A0D2NDJ2_GOSRA; Uncharacterized protein
STRING	Gorai.005G158200.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4373	26	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-117	indeterminate(ID)-domain 5

Link Out ? help Back to Top
Phytozome	Gorai.005G158200.1
Entrez Gene	105794382

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886]