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

CCG012517.1

Organism

Populus euphratica

Taxonomic ID

75702

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

Trihelix

Protein Properties

Length: 890aa MW: 98809.4 Da PI: 8.9558

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
CCG012517.1	genome	LZU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	68.1	1.7e-21	798	878	1	86
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 +W+ +ev+ Li++r e+++r++ + +++lWee+s+++++ g++ sp qCk w +l+k+yk+ k +k+ ++++pyf++++ CCG012517.1 798 KWKPEEVKSLIKMRGELHSRFQVVRGRMALWEEISANLMADGINHSPGQCKYLWTSLAKKYKESKSDKKS-----QKSWPYFEDMD 878 7**************************************************************99998.....356*****8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.60.15.10	5.6E-69	81	331	IPR001279	Metallo-beta-lactamase
SuperFamily	SSF56281	1.89E-71	82	496	IPR001279	Metallo-beta-lactamase
SMART	SM00849	1.8E-25	94	291	IPR001279	Metallo-beta-lactamase
Pfam	PF00753	2.8E-11	95	240	IPR001279	Metallo-beta-lactamase
Pfam	PF07521	1.4E-5	439	468	IPR011108	Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profile	PS50090	7.306	791	855	IPR017877	Myb-like domain
Gene3D	G3DSA:1.10.10.60	5.2E-4	792	857	IPR009057	Homeodomain-like
Pfam	PF13837	2.4E-19	796	880	No hit	No description
CDD	cd12203	2.23E-17	797	854	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 890 aa Download sequence Send to blast
MAAAFSALSL SPYTLVCRHN STKHSISCST ASPTTTTIGS RGTKAPPRHK RSGRMEGAGK 60 SMEDSVKRKM EQFYEGSDGP PLRIVPIGGL GEIGMNCMLV GNYDRYILID AGVMFPDYDE 120 LGVQKIIPDT TFIRRWRHKI EAVIITHGHE DHIGALPWVI PALDHHTPIY ASSFTMELIK 180 KRLKENGIFV PSRLKVFKTK RKFAAGPFEI EPIRVTHSIP DCCGLVLRCA DGTILHTGDW 240 KIDESPLDGK VFDRETLEEL SKEGVTLMMS DSTNVLSPGR TLSESVVADA LLRRISAAKG 300 RIITTQFASN IHRLGSVKAA ADLTGRKMVF VGMSLRTYLD AAWKDGKALI DPSTLVKMED 360 IDAYAPKDLL IVTTGSQAEP RAALNLASYG SSHALKLKKE DVILYSAKVI PGNESRVMKM 420 MNRISEIGST IVIGKNELLH TSGHGYRGEL EEVLKIVKPQ HFLPIHGELL FLKEHELLGK 480 STGIRHTTVI KNGEMLGVSH LRNRRVLSNG FVSLGKENLQ LMYNDGDKAF GTSTELCVDE 540 RMRIATDGIV VVSMEILRPQ NADGLVENSL KGKIKITTRC LWLDKGKLLD ALHKAAHAAL 600 SSCPVNCPLA HMERTVSELL RKMVRKYSGK RPEVIAIAME NPAAVLSDEL NAKLSGNSHV 660 GLGISALRKM ADGHKKKIQV DRKQPEGYGY AHLEKTSTQN SEVDGFEFER ELSKEEETSS 720 SPSLAEGHSS DSENQDDFRK SFIPPSPVNE LVKSGENLVP PWEHVNELKE DGIISSDDDS 780 LENQNSRSKR SKPVKRNKWK PEEVKSLIKM RGELHSRFQV VRGRMALWEE ISANLMADGI 840 NHSPGQCKYL WTSLAKKYKE SKSDKKSQKS WPYFEDMDNI LSDSETMATK

Sequence ? help Back to Top

Protein Sequence Length: 890 aa Download sequence Send to blast

MAAAFSALSL SPYTLVCRHN STKHSISCST ASPTTTTIGS RGTKAPPRHK RSGRMEGAGK  60
SMEDSVKRKM EQFYEGSDGP PLRIVPIGGL GEIGMNCMLV GNYDRYILID AGVMFPDYDE  120
LGVQKIIPDT TFIRRWRHKI EAVIITHGHE DHIGALPWVI PALDHHTPIY ASSFTMELIK  180
KRLKENGIFV PSRLKVFKTK RKFAAGPFEI EPIRVTHSIP DCCGLVLRCA DGTILHTGDW  240
KIDESPLDGK VFDRETLEEL SKEGVTLMMS DSTNVLSPGR TLSESVVADA LLRRISAAKG  300
RIITTQFASN IHRLGSVKAA ADLTGRKMVF VGMSLRTYLD AAWKDGKALI DPSTLVKMED  360
IDAYAPKDLL IVTTGSQAEP RAALNLASYG SSHALKLKKE DVILYSAKVI PGNESRVMKM  420
MNRISEIGST IVIGKNELLH TSGHGYRGEL EEVLKIVKPQ HFLPIHGELL FLKEHELLGK  480
STGIRHTTVI KNGEMLGVSH LRNRRVLSNG FVSLGKENLQ LMYNDGDKAF GTSTELCVDE  540
RMRIATDGIV VVSMEILRPQ NADGLVENSL KGKIKITTRC LWLDKGKLLD ALHKAAHAAL  600
SSCPVNCPLA HMERTVSELL RKMVRKYSGK RPEVIAIAME NPAAVLSDEL NAKLSGNSHV  660
GLGISALRKM ADGHKKKIQV DRKQPEGYGY AHLEKTSTQN SEVDGFEFER ELSKEEETSS  720
SPSLAEGHSS DSENQDDFRK SFIPPSPVNE LVKSGENLVP PWEHVNELKE DGIISSDDDS  780
LENQNSRSKR SKPVKRNKWK PEEVKSLIKM RGELHSRFQV VRGRMALWEE ISANLMADGI  840
NHSPGQCKYL WTSLAKKYKE SKSDKKSQKS WPYFEDMDNI LSDSETMATK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5a0t_A	2e-84	82	640	19	560	RIBONUCLEASE J
5a0t_B	2e-84	82	640	19	560	RIBONUCLEASE J
5a0v_A	2e-84	82	640	19	560	RIBONUCLEASE J
5a0v_B	2e-84	82	640	19	560	RIBONUCLEASE J
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Functional Description ? help Back to Top
Source	Description
UniProt	Essential protein required during embryogenesis, especially in initiating and maintaining the organization of shoot apical meristems (SAMs), cotyledons, and hypocotyls (PubMed:15266054, PubMed:25871650). Involved in auxin-mediated pathways during embryogenesis (PubMed:25871650). RNase that has both endonuclease and 5'-3' exonuclease activities. Involved in RNA surveillance to prevent overaccumulation of antisense RNA (PubMed:22033332). Probably involved in maturation of rRNA and in some organisms also mRNA maturation and/or decay (By similarity). {ECO:0000250\|UniProtKB:Q72JJ7, ECO:0000269\|PubMed:15266054, ECO:0000269\|PubMed:22033332, ECO:0000269\|PubMed:25871650}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By light. {ECO:0000269\|PubMed:25871650}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011024044.1	0.0	PREDICTED: uncharacterized protein LOC105125338
Swissprot	Q84W56	0.0	RNJ_ARATH; Ribonuclease J
TrEMBL	B9IF88	0.0	B9IF88_POPTR; Uncharacterized protein
STRING	POPTR_0015s10570.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF5099	34	50

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63420.1	0.0	Trihelix family protein

Publications ? help Back to Top
Bryant N,Lloyd J,Sweeney C,Myouga F,Meinke D Identification of nuclear genes encoding chloroplast-localized proteins required for embryo development in Arabidopsis. Plant Physiol., 2011. 155(4): p. 1678-89 [PMID:21139083] Halpert M,Liveanu V,Glaser F,Schuster G The Arabidopsis chloroplast RNase J displays both exo- and robust endonucleolytic activities. Plant Mol. Biol., 2019. 99(1-2): p. 17-29 [PMID:30511330]