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 Csa11g010730.1
Organism
Camelina sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family HSF
Protein Properties Length: 759aa    MW: 83741.4 Da    PI: 9.5419
Description HSF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa11g010730.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HSF_DNA-bind50.46.2e-165376322101
                     HHHHHHHHHCTGGGTTTSEESSSSSEEEES-HHHHHHHTH....HHHSTT--HHHHHHHHHHTTEEE---SSBTTTTXTTSEEEEESXXXXXXXX CS
    HSF_DNA-bind   2 FlkklyeiledeelkeliswsengnsfvvldeeefakkvL....pkyFkhsnfaSFvRQLnmYgFkkvkdeekkskskekiweFkhksFkkgkke 92 
                     F + +ye+++d++l+++isw +++nsf++++++e+++++L    p+     n++ F   L+ YgFk+vk + +        +eF + +F +gk e
  Csa11g010730.1 537 FYTCIYEVVNDPSLDSIISWGKSNNSFIIWNSRELSSELLsisrPSRLPCANIKMFFHDLQHYGFKRVKGSPH--------IEFGNAYFVRGKPE 623
                     78889***********************************6666678999******************99885........7************* PP

                     XXXXXXXXX CS
    HSF_DNA-bind  93 llekikrkk 101
                     ll+k+++k+
  Csa11g010730.1 624 LLRKMQQKS 632
                     ******997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF533832.18E-17281491IPR015424Pyridoxal phosphate-dependent transferase
HamapMF_0005143.85282508IPR001085Serine hydroxymethyltransferase
CDDcd00378085497No hitNo description
PfamPF004641.3E-19085473IPR001085Serine hydroxymethyltransferase
Gene3DG3DSA:3.40.640.101.6E-101112373IPR015421Pyridoxal phosphate-dependent transferase, major region, subdomain 1
PROSITE patternPS000960306322IPR019798Serine hydroxymethyltransferase, pyridoxal phosphate binding site
Gene3DG3DSA:3.90.1150.107.5E-54374497IPR015422Pyridoxal phosphate-dependent transferase, major region, subdomain 2
SMARTSM004153.0E-15533631IPR000232Heat shock factor (HSF)-type, DNA-binding
SuperFamilySSF467851.03E-16535630IPR011991Winged helix-turn-helix DNA-binding domain
Gene3DG3DSA:1.10.10.106.3E-18536630IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF004472.0E-15537631IPR000232Heat shock factor (HSF)-type, DNA-binding
SuperFamilySSF533831.2E-11635757IPR015424Pyridoxal phosphate-dependent transferase
Gene3DG3DSA:3.90.1150.101.8E-14672757IPR015422Pyridoxal phosphate-dependent transferase, major region, subdomain 2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0006544Biological Processglycine metabolic process
GO:0006563Biological ProcessL-serine metabolic process
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0004372Molecular Functionglycine hydroxymethyltransferase activity
GO:0030170Molecular Functionpyridoxal phosphate binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 759 aa     Download sequence    Send to blast
MQACCAGTSM VSLQQPGRVQ GSVFPSLIPP VTKFSQQLKF NVSQPLRSSF LERNLVSERR  60
ASSVSLSNVE MSSNEIPFAD SGLGEVDPEV RTIITKEKDR QFRSLELIAS ENFTSRAVME  120
AVGSCLTNKY SEGLPGKRYY GGNEYIDQLE TLCQNRALAT FRLDSSQWGV NVQPLSGSPA  180
NFAVYTAILS PHDRIMGLDL PHGGHLSHGF MTAKRRVSGT SIYFESMPYR LDESTGIVDY  240
DMLEKTAALF RPKLIIAGAS AYSRDFDYPR MRKIADSVGA FLMMDMAHIS GLVAASVVAD  300
PFEYCDIVTT TTHKSLRGPR GGMIFFRKDP VNGVELESAI NNAVFPGLQG GPHNHTIGGL  360
AVCLKHAQSP EFKAYQKRVV SNCRALANRL VELGFKLVSG GSDNHLVLVD LRPLGMDGAR  420
VEKILDMASI TLNKNSVPGD KSALVPGGIR IGSPAMTTRG LSEKDFVAVA DFIKEGVEIA  480
IEAKKLVPGS KLQEFTKLVT SPEFPLKEKG LFVVSSTFLG ISRSAKSLAM AEYLDSFYTC  540
IYEVVNDPSL DSIISWGKSN NSFIIWNSRE LSSELLSISR PSRLPCANIK MFFHDLQHYG  600
FKRVKGSPHI EFGNAYFVRG KPELLRKMQQ KSFDKNHRKY QAARAKNQAI KDAVARLQHL  660
PYYDIDRGKK CLGSRGIRIG SPAMTTRGLS EKDFVAVADL IKEDVEIAIE AMMKLVPGSK  720
LQEFTKLVTS LEFLLKERVK SLKERVESFT SRFLIPGI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ccz_A0.0787584455Serine hydroxymethyltransferase
6ccz_B0.0787584455Serine hydroxymethyltransferase
6cd0_A0.0787584455Serine hydroxymethyltransferase
6cd0_B0.0787584455Serine hydroxymethyltransferase
6cd0_C0.0787584455Serine hydroxymethyltransferase
6cd0_D0.0787584455Serine hydroxymethyltransferase
6cd1_A0.0787584455Serine hydroxymethyltransferase
6cd1_B0.0787584455Serine hydroxymethyltransferase
6cd1_C0.0787584455Serine hydroxymethyltransferase
6cd1_D0.0787584455Serine hydroxymethyltransferase
6cd1_E0.0787584455Serine hydroxymethyltransferase
6cd1_F0.0787584455Serine hydroxymethyltransferase
6cd1_G0.0787584455Serine hydroxymethyltransferase
6cd1_H0.0787584455Serine hydroxymethyltransferase
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtCatalyzes the interconversion of serine and glycine and directs the hydroxymethyl moiety of serine into the metabolic network of H4PteGlu(n)-bound one-carbon units. {ECO:0000269|PubMed:20518745}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCsa11g010730.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF3754500.0AF375450.1 Arabidopsis thaliana AT4g32520/F8B4_220 mRNA, complete cds.
GenBankBT0006410.0BT000641.1 Arabidopsis thaliana At4g32520/F8B4_220 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010437901.10.0PREDICTED: serine hydroxymethyltransferase 3, chloroplastic
SwissprotQ94JQ30.0GLYP3_ARATH; Serine hydroxymethyltransferase 3, chloroplastic
TrEMBLR0F3X20.0R0F3X2_9BRAS; Serine hydroxymethyltransferase
STRINGXP_010437901.10.0(Camelina sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G19630.12e-18HSF family protein
Publications ? help Back to Top
  1. McClung CR, et al.
    Integrated temporal regulation of the photorespiratory pathway. Circadian regulation of two Arabidopsis genes encoding serine hydroxymethyltransferase.
    Plant Physiol., 2000. 123(1): p. 381-92
    [PMID:10806255]
  2. Bauwe H,Kolukisaoglu U
    Genetic manipulation of glycine decarboxylation.
    J. Exp. Bot., 2003. 54(387): p. 1523-35
    [PMID:12730263]
  3. Hajduch M, et al.
    Systems analysis of seed filling in Arabidopsis: using general linear modeling to assess concordance of transcript and protein expression.
    Plant Physiol., 2010. 152(4): p. 2078-87
    [PMID:20118269]
  4. Zhang Y,Sun K,Sandoval FJ,Santiago K,Roje S
    One-carbon metabolism in plants: characterization of a plastid serine hydroxymethyltransferase.
    Biochem. J., 2010. 430(1): p. 97-105
    [PMID:20518745]