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

PH01001113G0050

Organism

Phyllostachys heterocycla

Taxonomic ID

38705

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Bambusoideae; Arundinarodae; Arundinarieae; Arundinariinae; Phyllostachys

Family

C3H

Protein Properties

Length: 647aa MW: 69512.4 Da PI: 8.4774

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PH01001113G0050	genome	ICBR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	24.9	3.5e-08	252	274	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 ++C++f+r G C+ Gd+C F+Hg PH01001113G0050 252 VPCPNFRRPGGCPSGDSCEFSHG 274 79********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF48403	8.78E-11	68	136	IPR020683	Ankyrin repeat-containing domain
Gene3D	G3DSA:1.25.40.20	1.7E-12	68	136	IPR020683	Ankyrin repeat-containing domain
PROSITE profile	PS50088	9.431	69	101	IPR002110	Ankyrin repeat
Pfam	PF12796	1.9E-8	69	135	IPR020683	Ankyrin repeat-containing domain
PROSITE profile	PS50297	17.661	69	134	IPR020683	Ankyrin repeat-containing domain
SMART	SM00248	1.7	69	100	IPR002110	Ankyrin repeat
CDD	cd00204	7.63E-8	71	122	No hit	No description
PROSITE profile	PS50088	11.247	105	134	IPR002110	Ankyrin repeat
SMART	SM00248	0.031	105	137	IPR002110	Ankyrin repeat
SMART	SM00356	5.6E-4	248	275	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.995	248	276	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.62E-5	249	277	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.6E-6	252	274	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.0E-6	252	275	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	21	284	307	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005515	Molecular Function	protein binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 647 aa Download sequence Send to blast
MGDLPDLVGA ARAQVEGGGA RRDRLAALLE LSAADDVDGL REALAGAGEE AAELADGVGL 60 WYGRSKAYEP RTPLMVAATY GSAVVVSLLL DLGGCVDVNR RPGVDGATAL HCAASGGSRN 120 AVAVVKLLLA AGADAATPRL CRTPWAILRC SLAAVEHSPS RPRWLRGNRS PSSRSSSLSP 180 ITVDRGKKEY PVDPTLPDIK SSVYATDDFR MFAFKVRPCS RAYSHDWTEC PFVHPGENAR 240 RRDPRKHPYT AVPCPNFRRP GGCPSGDSCE FSHGVFESWL HPSQYRTRLC KEGAACARRI 300 CFFAHDEDEI RLVPHNSGAG LLSPRATSSI DMTAAAALGL LPGSPTRHFV PPPVSPSAGS 360 NGGAAAANWL QGSRLRSSFN ARGVSVDDLG MLLEWESQYL GALCLPPSSR LQPRLSTGLS 420 IRPTAIAPSN LEDMYASDIA MSPRFSNDQG HSVYSPAHKS AILNKIHQQK GLLSPVNTNR 480 MYSPRTLDPS ALIHSPFGGM SPRYPQTMEP TSPLSARVGA TVTQREMFEQ YASLNKNQLP 540 SVGSPRNFNA SWGNNMGSPM GKVDWGVDGE ELVRLRRPKQ SGLAEAEPNV SWVQSLVSHA 600 ELNGKRGEMP GMASGSTNRP DRNNQADLLD QTVIGSWLEQ MHLDQK*

Sequence ? help Back to Top

Protein Sequence Length: 647 aa Download sequence Send to blast

MGDLPDLVGA ARAQVEGGGA RRDRLAALLE LSAADDVDGL REALAGAGEE AAELADGVGL  60
WYGRSKAYEP RTPLMVAATY GSAVVVSLLL DLGGCVDVNR RPGVDGATAL HCAASGGSRN  120
AVAVVKLLLA AGADAATPRL CRTPWAILRC SLAAVEHSPS RPRWLRGNRS PSSRSSSLSP  180
ITVDRGKKEY PVDPTLPDIK SSVYATDDFR MFAFKVRPCS RAYSHDWTEC PFVHPGENAR  240
RRDPRKHPYT AVPCPNFRRP GGCPSGDSCE FSHGVFESWL HPSQYRTRLC KEGAACARRI  300
CFFAHDEDEI RLVPHNSGAG LLSPRATSSI DMTAAAALGL LPGSPTRHFV PPPVSPSAGS  360
NGGAAAANWL QGSRLRSSFN ARGVSVDDLG MLLEWESQYL GALCLPPSSR LQPRLSTGLS  420
IRPTAIAPSN LEDMYASDIA MSPRFSNDQG HSVYSPAHKS AILNKIHQQK GLLSPVNTNR  480
MYSPRTLDPS ALIHSPFGGM SPRYPQTMEP TSPLSARVGA TVTQREMFEQ YASLNKNQLP  540
SVGSPRNFNA SWGNNMGSPM GKVDWGVDGE ELVRLRRPKQ SGLAEAEPNV SWVQSLVSHA  600
ELNGKRGEMP GMASGSTNRP DRNNQADLLD QTVIGSWLEQ MHLDQK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5elk_A	3e-11	197	307	2	118	RING finger protein unkempt homolog
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PH01001113G0050

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006657856.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 50
Refseq	XP_015695270.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 50
Swissprot	Q84SL2	0.0	C3H50_ORYSJ; Zinc finger CCCH domain-containing protein 50
TrEMBL	J3MM59	0.0	J3MM59_ORYBR; Uncharacterized protein
STRING	OB07G24910.1	0.0	(Oryza brachyantha)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP823	37	126

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12850.1	1e-115	CCCH-type zinc finger protein with ARM repeat domain

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]