PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Aco007976.1
Organism
Ananas comosus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Bromeliaceae; Ananas
Family C3H
Protein Properties Length: 784aa    MW: 91127.5 Da    PI: 7.2217
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Aco007976.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.41.9e-06245264625
                  -SGGGGTS--TTTTT-SS-S CS
      zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                  C+f+++tG C++G rC++ H
  Aco007976.1 245 CPFHLKTGACRFGQRCSRVH 264
                  ******************99 PP
2zf-CCCH27.65e-09374401126
                  --S---SGGGGTS..--TTTTT-SS-SS CS
      zf-CCCH   1 yktelCrffartG..tCkyGdrCkFaHg 26 
                  +k ++C  ++++   tC++G +C+F+H+
  Aco007976.1 374 WKVAICGEYMKSRlkTCSRGTTCNFIHC 401
                  899************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010312.23239267IPR000571Zinc finger, CCCH-type
SMARTSM003563.4240266IPR000571Zinc finger, CCCH-type
PfamPF006422.0E-4244264IPR000571Zinc finger, CCCH-type
PRINTSPR018485.5E-37245264IPR009145U2 auxiliary factor small subunit
PRINTSPR018485.5E-37264284IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3306.7E-26270369IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS501029.507271371IPR000504RNA recognition motif domain
CDDcd125404.84E-47272369No hitNo description
SMARTSM003611.4E-6293367IPR003954RNA recognition motif domain, eukaryote
PRINTSPR018485.5E-37300315IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549282.31E-16303369IPR012677Nucleotide-binding alpha-beta plait domain
PfamPF000762.3E-4308364IPR000504RNA recognition motif domain
PRINTSPR018485.5E-37328350IPR009145U2 auxiliary factor small subunit
PRINTSPR018485.5E-37355379IPR009145U2 auxiliary factor small subunit
SMARTSM003560.05373402IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010310.822373403IPR000571Zinc finger, CCCH-type
PfamPF006422.0E-6374401IPR000571Zinc finger, CCCH-type
PRINTSPR018485.5E-37393405IPR009145U2 auxiliary factor small subunit
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000398Biological ProcessmRNA splicing, via spliceosome
GO:0089701Cellular ComponentU2AF
GO:0000166Molecular Functionnucleotide binding
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 784 aa     Download sequence    Send to blast
MADPEIAGAS PAPPMEPHDD EDEGDGGGGG GGGGGGGGLT RKAKRKAMKK MKRKQERRDA  60
AIRDREEEEA RAKDPEEQLK IRLREEEEAR IAERERRAFE ERERLWLEAA AARRAAEEAA  120
AAAEEEAERR KKLLEASEAE KNKEEHADKP EQDEEWEYVE EGPAEIIWQG NEIIVKKKRV  180
RVAKGSARRQ QIEEDDDRPT SNPLPPQSAA FTSYRQGPSI SAQEALEKVA QQTPNFGTEQ  240
DKAHCPFHLK TGACRFGQRC SRVHFYPDKS CTFLIKNMYN GPGLTLEQDE GLECTDEEVE  300
RCYEEFYEDV HTEFLKFGEL VNFKVCRNGS YHLRGNVYVH YKSLDSAVLA YNNINGRYFA  360
GKQITCEFVG ITRWKVAICG EYMKSRLKTC SRGTTCNFIH CFRNPGGDYE WADWDNPPPK  420
YWIRKMATLF GPSDELQYDN QIELADFDKS RISDRRRTPR NGRSGSRRSD DEMDDPNGPK  480
RDHCSHSGRE HSRRRRELSS GVKHKHSEEA IKYDSHKYHS IEDISKKKDR GLLPKCRKTE  540
EETGPNYHQE FKRTYSAKED LDRQKRENDR CKSKRYKSHK PEKEEFIDDY REPSYSSPSN  600
DKSIARASIH EERYNERHHS DDLSFERDST GVFESPKNEH NSDRREHRQH NSWHHAKGDR  660
RYHKIDDDRS REYRGNDHGV SSNDFADRWR STDNDMDSEN SEDHSRSEKS NQSKRKHTKQ  720
GQKRKHHEEK HEYEGSDEEF TSSDSDSQEL SSRAYKRRSR SREKHQHRGN SKRRNSSRGS  780
HDS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A2e-312364009167Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1755773KRRSRSREKHQHRGNSKRR
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020111757.10.0zinc finger CCCH domain-containing protein 16
SwissprotQ9SY740.0C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBLA0A2H3XNM90.0A0A2H3XNM9_PHODC; zinc finger CCCH domain-containing protein 16
STRINGXP_008786457.10.0(Phoenix dactylifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP92961317
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.11e-144C3H family protein
Publications ? help Back to Top
  1. Lorković ZJ,Wieczorek Kirk DA,Lambermon MH,Filipowicz W
    Pre-mRNA splicing in higher plants.
    Trends Plant Sci., 2000. 5(4): p. 160-7
    [PMID:10740297]
  2. Domon C,Lorković ZJ,Valcárcel J,Filipowicz W
    Multiple forms of the U2 small nuclear ribonucleoprotein auxiliary factor U2AF subunits expressed in higher plants.
    J. Biol. Chem., 1998. 273(51): p. 34603-10
    [PMID:9852132]