PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Niben101Scf00069g00005.1
Organism
Nicotiana benthamiana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family C3H
Protein Properties Length: 887aa    MW: 100153 Da    PI: 7.9617
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf00069g00005.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH25.22.9e-08590610526
                               --SGGGGTS--TTTTT-SS-SS CS
                   zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                               lC+ff+  G+C++G++C+F+H+
  Niben101Scf00069g00005.1 590 LCKFFLS-GQCNRGSQCSFSHS 610
                               9**7777.*************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004875.2E-2119208IPR014001Helicase superfamily 1/2, ATP-binding domain
Gene3DG3DSA:3.40.50.3005.3E-3822176IPR027417P-loop containing nucleoside triphosphate hydrolase
PfamPF002701.5E-728175IPR011545DEAD/DEAH box helicase domain
PROSITE profilePS5119219.38131192IPR014001Helicase superfamily 1/2, ATP-binding domain
SuperFamilySSF525407.16E-3135177IPR027417P-loop containing nucleoside triphosphate hydrolase
CDDcd000462.21E-1638173No hitNo description
SuperFamilySSF525407.16E-31234342IPR027417P-loop containing nucleoside triphosphate hydrolase
SMARTSM003561.2E-4586611IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.67E-6588610IPR000571Zinc finger, CCCH-type
PfamPF006421.4E-6589610IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.8E-5589612IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.953590612IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.197613640IPR000571Zinc finger, CCCH-type
SMARTSM003560.26613639IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.63E-7618651IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009507Cellular Componentchloroplast
GO:0003676Molecular Functionnucleic acid binding
GO:0005524Molecular FunctionATP binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 887 aa     Download sequence    Send to blast
MASSSASLSS ASSTASEFPL LAVMGMKSKI LEKIQENRVT LVVGETGCGK SSQVPQFLLE  60
GNMEPILCTQ PRRFAVVAVA NMVAKSRKCE VGEEVGYHIG HSRVYSERSK IVFKTAGVLL  120
EEMLEKGLNA LKYKVIILDE VHERSVESDL VLVCIKQFLL KKSDLRVVLM SATADIARYR  180
EYFRDLSRGE RVELLAIPNS GQDTIYQRKV SYIEQVAELL KMESEETALK CCSGPSPLTA  240
DADIKPQMYQ LIHNLIIHIH KNERDIEKGI LVFLPTYFAL EQQWLLLKPF SVSFKVHILH  300
SSIDTEQALK AMKICKSHRK ADQRRGRTGR TCDGHVYRLV KRAFYAQLED YEPPAILRLS  360
LRQQVLLLCC AESKAINDPK VLLRKALDTP DPDVVEDALS LLVDLHALQK TPPRSRYEPT  420
FYGRLLASFS LSFDASILIL KFGAIGMLRE GIVLGIMMDM QPLPILRPFG HESLFMKYID  480
NFFSGDYKTT GGIPSYYNPN EYQHKCHLDC DQYLDAGALD MDYKLLEQGG EIRKCISIPF  540
LGHNESLAHK VAQNLASVVK EMRSQSSADV SGNPDMLVYG NGVSTGEASL CKFFLSGQCN  600
RGSQCSFSHS LQAKRPTCKF FFSLQGCRNG DSCFFSHDSV PSTYSGVLSS LCRPENADAD  660
MLSLLRWFPA PHHGCILILD DNDLYFSSHI AHHYAPSSII STTSLLDEST LDQLPTDVRI  720
LWGHSNPYNT IVSNTAGSPV PWSEVKCVLW FPKLETGHRE GQKSVMQTFF EYLAIRMLGY  780
ALYDVRVIVT MNNMRFSYLQ VEKLARECCF FLRESFLFDE QNLGELFDEV NARKPMLQPK  840
PVSYVFSLHP PADVQSRDFA TLLSQNKNKR RDRKERRKTP KSSIDKR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5aor_A3e-3821431384864DOSAGE COMPENSATION REGULATOR
5aor_B3e-3821431384864DOSAGE COMPENSATION REGULATOR
Search in ModeBase
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010259561.10.0PREDICTED: DExH-box ATP-dependent RNA helicase DExH8 isoform X2
SwissprotQ1EHT70.0C3H4_ORYSJ; Zinc finger CCCH domain-containing protein 4
TrEMBLA0A1U8A0840.0A0A1U8A084_NELNU; DExH-box ATP-dependent RNA helicase DExH8 isoform X2
STRINGXP_009799464.10.0(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA755322
Publications ? help Back to Top
  1. 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]
  2. Mebel AM,Kisiov VV,Kaiser RI
    Ab initio/Rice-Ramsperger-Kassel-Marcus study of the singlet C4H4 potential energy surface and of the reactions of C2(X1 Sigmag+) with C4H4(X1A1g) and C(1D) with C3H4 (allene and methylacetylene).
    J Chem Phys, 2006. 125(13): p. 133113
    [PMID:17029439]