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Protein

Transcription elongation factor SPT6 homolog

Gene

SPT6

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Transcription elongation factor that enhances the transcription elongation by RNA polymerase II (RNAPII) (By similarity). Plays an important role in regulating embryo apical and basal patterning during early embryogenesis, partly through negative regulation of the transcription factors PHABULOSA and PHAVOLUTA.By similarity

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionElongation factor
Biological processProtein biosynthesis, Transcription, Transcription regulation

Names & Taxonomyi

Protein namesi
Recommended name:
Transcription elongation factor SPT6 homologCurated
Short name:
AtSPT61 Publication
Gene namesi
Name:SPT61 Publication
Synonyms:GTB1Imported, SPT6L1 Publication
Ordered Locus Names:At1g65440Imported
ORF Names:T8F5.22Imported
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 1

Organism-specific databases

AraportiAT1G65440
TAIRilocus:2206330 AT1G65440

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Disruption phenotypei

Embryonic lethality leading to aborted seed development.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004375001 – 1647Transcription elongation factor SPT6 homologAdd BLAST1647

Proteomic databases

PaxDbiA8MS85
PRIDEiA8MS85

PTM databases

iPTMnetiA8MS85

Expressioni

Tissue specificityi

Expressed in shoot apical meristem, leaf primordia, vasculature of young leaves, inflorescence meristem, floral meristem, young floral organs, developing ovules and anthers.1 Publication

Developmental stagei

During embryo development, expressed throughout embryos at the globular, heart, torpedo and bent-cotyledon stages.1 Publication

Gene expression databases

ExpressionAtlasiA8MS85 baseline and differential

Interactioni

Subunit structurei

Interacts (via N-terminus) with IWS1.1 Publication

GO - Molecular functioni

Protein-protein interaction databases

STRINGi3702.AT1G65440.1

Structurei

3D structure databases

ProteinModelPortaliA8MS85
SMRiA8MS85
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini1103 – 1174S1 motifPROSITE-ProRule annotationAdd BLAST72
Repeati1443 – 144411 Publication2
Repeati1452 – 145321 Publication2
Repeati1511 – 151231 Publication2
Repeati1522 – 152341 Publication2
Repeati1530 – 153151 Publication2
Repeati1547 – 154861 Publication2
Repeati1563 – 156471 Publication2
Repeati1574 – 157581 Publication2
Repeati1601 – 160291 Publication2
Repeati1615 – 1616101 Publication2
Repeati1630 – 1631111 Publication2
Repeati1646 – 1647121 Publication2

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1443 – 164712 X 2 AA repeats of [WG]-[GW] repeatsCuratedAdd BLAST205

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi8 – 190Asp-richPROSITE-ProRule annotationAdd BLAST183
Compositional biasi10 – 74Glu-richPROSITE-ProRule annotationAdd BLAST65
Compositional biasi77 – 114Lys-richPROSITE-ProRule annotationAdd BLAST38

Sequence similaritiesi

Belongs to the SPT6 family.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG1856 Eukaryota
COG2183 LUCA
HOGENOMiHOG000241511
InParanoidiA8MS85
KOiK11292
OMAiEADWIYR
OrthoDBiEOG0936008H
PhylomeDBiA8MS85

Family and domain databases

CDDicd09928 SH2_Cterm_SPT6_like, 1 hit
cd09918 SH2_Nterm_SPT6_like, 1 hit
Gene3Di1.10.10.650, 1 hit
1.10.3500.10, 2 hits
3.30.420.140, 2 hits
3.30.505.10, 2 hits
InterProiView protein in InterPro
IPR012340 NA-bd_OB-fold
IPR012337 RNaseH-like_sf
IPR010994 RuvA_2-like
IPR022967 S1_dom
IPR003029 S1_domain
IPR036860 SH2_dom_sf
IPR028083 Spt6_acidic_N_dom
IPR027999 Spt6_dom
IPR032706 Spt6_HHH
IPR028088 Spt6_HTH_DNA-bd_dom
IPR035420 Spt6_SH2
IPR035018 Spt6_SH2_C
IPR035019 Spt6_SH2_N
IPR028231 Spt6_YqgF
IPR023323 Tex-like_dom_sf
IPR023319 Tex-like_HTH_dom_sf
IPR017072 TF_Spt6
IPR006641 YqgF/RNaseH-like_dom
IPR037027 YqgF/RNaseH-like_dom_sf
PANTHERiPTHR10145 PTHR10145, 1 hit
PfamiView protein in Pfam
PF14878 DLD, 1 hit
PF14635 HHH_7, 1 hit
PF14641 HTH_44, 1 hit
PF14633 SH2_2, 1 hit
PF14632 SPT6_acidic, 1 hit
PF14639 YqgF, 1 hit
PIRSFiPIRSF036947 Spt6, 1 hit
SMARTiView protein in SMART
SM00316 S1, 1 hit
SM00732 YqgFc, 1 hit
SUPFAMiSSF47781 SSF47781, 2 hits
SSF50249 SSF50249, 1 hit
SSF53098 SSF53098, 1 hit
SSF55550 SSF55550, 2 hits
PROSITEiView protein in PROSITE
PS50126 S1, 1 hit

Sequencei

Sequence statusi: Complete.

This entry describes 1 isoform i produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: A8MS85-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MARNAISDDE EDHELEDDDG EPVHGDPAEH DENDDEEDDD DVGNEYENDG
60 70 80 90 100
FIVNDEDEEE EEEEDEERKD SDEERQKKKK KRKKKDEGLD EDDYLLLQDN
110 120 130 140 150
NVKFKKRQYK RLKKAQREQG NGQGESSDDE FDSRGGTRRS AEDKIKDRLF
160 170 180 190 200
DDVDVDDPPD DVGDEEDLVV EEDVVGSEDE MADFIVDEDD EHGPPKRGNS
210 220 230 240 250
KKKKYRQGSD ITAMRDANEI FGDVDELLTI RKKGLASNQR MERRLEDEFE
260 270 280 290 300
PTVLSEKYMT GNDDEIRQLD IPERMQISEE STGSPPVDEI SIEEESNWIY
310 320 330 340 350
AQLASQLRES DGTFDGRGFS VNKDDIAKFL ELHHVQKLEI PFIAMYRKEQ
360 370 380 390 400
CRSLLDTGDF DGANQGKKPE TKWHKVFWMI HDLDKKWLLL RKRKMALHGY
410 420 430 440 450
YTKRYEEESR RVYDETRLNL NQYLFESVIK SLKVAETERE VDDVDSKFNL
460 470 480 490 500
HFPPGEIGVD EGQYKRPKRK SQYSICSKAG LWEVANKFGY SAEQLGLALS
510 520 530 540 550
LEKLVDELED AKETPEEMAK NFVCAMFENS LAVLKGARHM AAVEISCEPS
560 570 580 590 600
VKKYVRGIYM ENAVVSTSPT ADGNTVIDSF HQFSGIKWLR EKPLSKFEGA
610 620 630 640 650
QWLLIQKGEE EKLLQVTFKL PENYMNRLIS DCNEHYLSVG VSKYAQLWNE
660 670 680 690 700
QRKLILEDAL HAFLLPSMEK EARSLLTSRA KSRLLSEYGQ ALWNKVSAGP
710 720 730 740 750
YQKKEMDINL DEEAAPRVMA CCWGPGKPPN TFVMLDSSGE VLDVLYAGSL
760 770 780 790 800
TSRSQNVNDQ QRKKSDQDRV LKFMMDHQPH VVALGAVNLS CTRLKDDIYE
810 820 830 840 850
VIFQMVEEKP RDVGHGMDDL SIVYVDESLP RLYENSRISG EQLPQQSGNV
860 870 880 890 900
RRAVALGRYL QNPLAMVATL CGPGREILSW KLHPLENFLQ LDEKYGMVEQ
910 920 930 940 950
VMVDITNQVG IDINLAASHD WFFSPLQFIS GLGPRKAASL QRSLVRAGSI
960 970 980 990 1000
FVRKDLIMHG LGKKVFVNAA GFLRIRRSGL AASSSQFIDL LDDTRIHPES
1010 1020 1030 1040 1050
YSLAQELAKD IYDEDVRGDS NDDEDAIEMA IEHVRDRPAS LRKVVLDEYL
1060 1070 1080 1090 1100
ASKKRENKKE TYSNIIRELS CGFQDWRIPF KEPSPDEEFY MISGETEDTI
1110 1120 1130 1140 1150
AEGRIVQASV RRLQNGRAIC VLDSGLTGML MKEDFSDDGR DIVDLADQLK
1160 1170 1180 1190 1200
EGDILTCKIK SIQKQRYQVF LICKESEMRN NRHQHNQNVD AYYHEDRNSL
1210 1220 1230 1240 1250
QLVKEKARKE KELVRKHFKS RMIVHPRFQN ITADQATEYL SDKDFGESIV
1260 1270 1280 1290 1300
RPSSRGLNFL TLTLKIYDGV YAHKEIAEGG KENKDITSLQ CIGKTLTIGE
1310 1320 1330 1340 1350
DTFEDLDEVM DRYVDPLVSH LKTMLNYRKF RKGTKSEVDD LLRIEKGENP
1360 1370 1380 1390 1400
SRIVYCFGIS HEHPGTFILS YIRSTNPHHE YIGLYPKGFK FRKRMFEDID
1410 1420 1430 1440 1450
RLVAYFQRHI DDPLQESAPS IRSIAAKVPM RSPADHGSSG GSGWGSSQSE
1460 1470 1480 1490 1500
GGWKGNSDRS GSGRGGEYRN GGGRDGHPSG APRPYGGRGR GRGRGRRDDM
1510 1520 1530 1540 1550
NSDRQDGNGD WGNNDTGTAD GGWGNSGGGG WGSESAGKKT GGGSTGGWGS
1560 1570 1580 1590 1600
ESGGNKSDGA GSWGSGSGGG GSGGWGNDSG GKKSSEDGGF GSGSGGGGSD
1610 1620 1630 1640
WGNESGGKKS SADGGWGSES GGKKSDGEGG WGNEPSSRKS DGGGGGW
Note: A number of isoforms are produced. According to EST sequences.Curated
Length:1,647
Mass (Da):185,034
Last modified:December 4, 2007 - v1
Checksum:i0280D05F681709CE
GO

Sequence cautioni

The sequence AAC27151 differs from that shown. Reason: Erroneous gene model prediction.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC004512 Genomic DNA Translation: AAC27151.1 Sequence problems.
CP002684 Genomic DNA Translation: AEE34373.1
CP002684 Genomic DNA Translation: ANM59396.1
AK229565 mRNA Translation: BAF01417.1
PIRiT02367
RefSeqiNP_001321759.1, NM_001334206.1 [A8MS85-1]
NP_176723.3, NM_105218.5 [A8MS85-1]
UniGeneiAt.20510

Genome annotation databases

EnsemblPlantsiAT1G65440.1; AT1G65440.1; AT1G65440 [A8MS85-1]
AT1G65440.2; AT1G65440.2; AT1G65440
AT1G65440.4; AT1G65440.4; AT1G65440 [A8MS85-1]
GeneIDi842855
GrameneiAT1G65440.1; AT1G65440.1; AT1G65440 [A8MS85-1]
AT1G65440.2; AT1G65440.2; AT1G65440
AT1G65440.4; AT1G65440.4; AT1G65440 [A8MS85-1]
KEGGiath:AT1G65440

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiSPT61_ARATH
AccessioniPrimary (citable) accession number: A8MS85
Secondary accession number(s): O80815, Q0WN83
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 5, 2016
Last sequence update: December 4, 2007
Last modified: May 23, 2018
This is version 95 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

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