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

Achn114091

Organism

Actinidia chinensis

Taxonomic ID

3625

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; Ericales; Actinidiaceae; Actinidia

Family

Trihelix

Protein Properties

Length: 1161aa MW: 129106 Da PI: 6.6373

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Achn114091	genome	IKGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	58.9	1.3e-18	711	784	1	74
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtse 74 rW +ev++Li++r +++ r++ +k++k lWee+s+++ + g++rsp qCk+ w l k+y+ ++++++++e Achn114091 711 RWNPDEVMKLINLRGQLHIRFQVAKQQKVLWEEISSNLLADGVNRSPRQCKSQWTYLVKKYEGFSTQQESKSDE 784 8*************************************************************999999887654 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.60.15.10	7.2E-57	76	307	IPR001279	Metallo-beta-lactamase
SuperFamily	SSF56281	5.2E-57	77	429	IPR001279	Metallo-beta-lactamase
SMART	SM00849	7.7E-20	89	267	IPR001279	Metallo-beta-lactamase
Pfam	PF00753	1.9E-8	90	157	IPR001279	Metallo-beta-lactamase
PROSITE profile	PS50090	7.712	704	768	IPR017877	Myb-like domain
Gene3D	G3DSA:1.10.10.60	3.2E-4	707	770	IPR009057	Homeodomain-like
SMART	SM00717	1.5E-4	708	770	IPR001005	SANT/Myb domain
Pfam	PF13837	2.3E-12	710	779	No hit	No description
CDD	cd12203	8.20E-19	710	773	No hit	No description
SuperFamily	SSF47616	1.9E-8	763	855	IPR010987	Glutathione S-transferase, C-terminal-like
PROSITE pattern	PS00824	0	897	905	IPR001326	Translation elongation factor EF1B, beta/delta chains, conserved site
SuperFamily	SSF54984	4.19E-30	953	1044	IPR014038	Translation elongation factor EF1B, beta/delta subunit, guanine nucleotide exchange domain
CDD	cd00292	6.01E-38	953	1044	No hit	No description
Gene3D	G3DSA:3.30.70.60	8.4E-38	953	1044	IPR014717	Translation elongation factor EF1B/ribosomal protein S6
SMART	SM00888	5.5E-39	955	1044	IPR014038	Translation elongation factor EF1B, beta/delta subunit, guanine nucleotide exchange domain
Pfam	PF00736	1.2E-31	957	1044	IPR014038	Translation elongation factor EF1B, beta/delta subunit, guanine nucleotide exchange domain
PROSITE pattern	PS00825	0	1033	1044	IPR001326	Translation elongation factor EF1B, beta/delta chains, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006414	Biological Process	translational elongation
GO:0005853	Cellular Component	eukaryotic translation elongation factor 1 complex
GO:0003677	Molecular Function	DNA binding
GO:0003746	Molecular Function	translation elongation factor activity

Sequence ? help Back to Top
Protein Sequence Length: 1161 aa Download sequence Send to blast
MSAFSALSTC PYSFSRRLNP KYCYISCSLA PPSSTGTHGL KIPQKISGRL EGAGKSMEDS 60 VKRKMEQFYE GSDGPPLRVL PIGGLGEIGM NCMLVGNYDR YILIDAGIMF PDYDMLGVQK 120 IIPDTTFIRK WSHKIEAVII THGHEDHIGA LPWLIKKRLI EFGIFVPSRL KVFRTRRRFS 180 AGPFEIEPIT VTHSIPDCCG LVLRCADGTI LHTGDWKIDE SPLDGKVFDR EALEELSKEG 240 VTLMMSDSTN VLSPGRTLSE TVVADALLRH ISAAKGRVIT TQFSSNIHRL GSIKAAADLT 300 GRKLVFVGMS LRTYLDAAWK DGKAPIDPST LVKVEDIDTY APKDLLIVTT GSQAEPRAAL 360 NLASHGSSHL LKLSKEDIIL YSAKVIPGNE TRVMKMFNRI SEIGSTMIMG KNEKLHSSGH 420 GYRDELLMYS DGDKAFGTST DLYLDERWKI ALNGIVMVSM EILRRQEAVG SAEKTLKGKI 480 KITTRCLWLD EGKLLDALHK AAHATLSSCP VNCPLAHIER TVSEVLRKLV RKYSNKRPEV 540 IVIAVENPET VLSDELNARL SGEPRGGFRI SALRNVADGH PKKRRPTKIQ EEEGRNGIHS 600 MRNTQHELED HSGVEGERLV SEEATISGSE LAARFSLNSE SAERFSVNSE SDEFWKSSIV 660 SSPIDELVKD STGSIPQEED REKLKKEIVF DDSVEIPISR LQSSKPVKLN RWNPDEVMKL 720 INLRGQLHIR FQVAKQQKVL WEEISSNLLA DGVNRSPRQC KSQWTYLVKK YEGFSTQQES 780 KSDEKGLVMA VTCFDVNSQS GLKKLYEYLL TRSYITGYQA SKDDITVHAA LSKPPSSEYV 840 NVSRWYNHIE ALLRISGVSG EGCGVTVEGS ATADAVATPP PADSKASSYA SAADDDDDDD 900 VDLFGEETEE EKKAAEERAA AVKASGKKKE YHFVLYLFLF LTSDKIFLIL MTAGKSSVLL 960 DVKPWDDETD MKKLEEAVRS VQMEGLFWGA SKLVPVGYGI KKLQIMLTIV DDLVSVDDMI 1020 EDYLTAEPVN EYVQSCDIVA FNKISILAYC ILYVSLSSFL LLNDSCDRIS TIRLASSGCR 1080 RCFAAKLSYF AVFIFPCIDQ CHLNFCINAD EFKNGYAVAM TVLFFICICN DDHKSGKILQ 1140 SSMNEKNWRN KRTAMKELLA *

Sequence ? help Back to Top

Protein Sequence Length: 1161 aa Download sequence Send to blast

MSAFSALSTC PYSFSRRLNP KYCYISCSLA PPSSTGTHGL KIPQKISGRL EGAGKSMEDS  60
VKRKMEQFYE GSDGPPLRVL PIGGLGEIGM NCMLVGNYDR YILIDAGIMF PDYDMLGVQK  120
IIPDTTFIRK WSHKIEAVII THGHEDHIGA LPWLIKKRLI EFGIFVPSRL KVFRTRRRFS  180
AGPFEIEPIT VTHSIPDCCG LVLRCADGTI LHTGDWKIDE SPLDGKVFDR EALEELSKEG  240
VTLMMSDSTN VLSPGRTLSE TVVADALLRH ISAAKGRVIT TQFSSNIHRL GSIKAAADLT  300
GRKLVFVGMS LRTYLDAAWK DGKAPIDPST LVKVEDIDTY APKDLLIVTT GSQAEPRAAL  360
NLASHGSSHL LKLSKEDIIL YSAKVIPGNE TRVMKMFNRI SEIGSTMIMG KNEKLHSSGH  420
GYRDELLMYS DGDKAFGTST DLYLDERWKI ALNGIVMVSM EILRRQEAVG SAEKTLKGKI  480
KITTRCLWLD EGKLLDALHK AAHATLSSCP VNCPLAHIER TVSEVLRKLV RKYSNKRPEV  540
IVIAVENPET VLSDELNARL SGEPRGGFRI SALRNVADGH PKKRRPTKIQ EEEGRNGIHS  600
MRNTQHELED HSGVEGERLV SEEATISGSE LAARFSLNSE SAERFSVNSE SDEFWKSSIV  660
SSPIDELVKD STGSIPQEED REKLKKEIVF DDSVEIPISR LQSSKPVKLN RWNPDEVMKL  720
INLRGQLHIR FQVAKQQKVL WEEISSNLLA DGVNRSPRQC KSQWTYLVKK YEGFSTQQES  780
KSDEKGLVMA VTCFDVNSQS GLKKLYEYLL TRSYITGYQA SKDDITVHAA LSKPPSSEYV  840
NVSRWYNHIE ALLRISGVSG EGCGVTVEGS ATADAVATPP PADSKASSYA SAADDDDDDD  900
VDLFGEETEE EKKAAEERAA AVKASGKKKE YHFVLYLFLF LTSDKIFLIL MTAGKSSVLL  960
DVKPWDDETD MKKLEEAVRS VQMEGLFWGA SKLVPVGYGI KKLQIMLTIV DDLVSVDDMI  1020
EDYLTAEPVN EYVQSCDIVA FNKISILAYC ILYVSLSSFL LLNDSCDRIS TIRLASSGCR  1080
RCFAAKLSYF AVFIFPCIDQ CHLNFCINAD EFKNGYAVAM TVLFFICICN DDHKSGKILQ  1140
SSMNEKNWRN KRTAMKELLA *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5a0t_A	1e-69	77	429	19	386	RIBONUCLEASE J
5a0t_B	1e-69	77	429	19	386	RIBONUCLEASE J
5a0v_A	1e-69	77	429	19	386	RIBONUCLEASE J
5a0v_B	1e-69	77	429	19	386	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}.

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_028058465.1	0.0	ribonuclease J-like isoform X2
Swissprot	Q84W56	0.0	RNJ_ARATH; Ribonuclease J
TrEMBL	A5C3R9	0.0	A5C3R9_VITVI; Uncharacterized protein
STRING	XP_002511207.1	0.0	(Ricinus communis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA5874	23	31

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]