Kinesins Modify ERR1-Dependent Transcription Using a Conserved Nuclear Receptor Box Motif
Abstract
:1. Introduction
2. Results
2.1. Identification of Kinesin Family Motor Transcriptional Regulator Candidates
2.2. KIF1B-NR1 Inhibits ERR1-Dependent Transcription
2.3. KIF1B-NR1 Interacts with ERR1
2.4. KIF1B-NR1 Globally Inhibits ERR1 Target Genes
2.5. KIF1B-NR1 Inhibits Nuclear Import of ERR1 by Sequestering ERR1 in the Cytoplasm
3. Discussion
4. Materials and Methods
4.1. Cell Culture, Transfection, and Microinjection
4.2. Expression Constructs
- KIF1A (NR1+NR2): forward, 5′-GAC ATG AAG CAG GAG ATG GAG and reverse, 5′-CAG GAG GTG GAG AAG ACT AGG.
- KIF1B (NR1+NR2): forward, 5′-CGC TCA GGA AAC CGT ATC ATC ATG and reverse, 5′-GTA GAC TCT AGG AGC AAC TCT CTG.
- KIF1B-NR1: forward, 5′-CCT GTG GAC TGG ACA TTT GCC and reverse, 5′-AGA CCA ATA GTG TGT TGC TCC.
- KIF1B-NR2: forward, 5′-GAT CTC TTC AGT GAC GGG and reverse, 5′-CAA GGA CAG ACC AGA ACG.
- KIF18: forward, 5′-GCT TGT CTT CAG GAA CAG CAA CAC AGG and reverse, 5′-GGA CCA GTT CAG CCT ATT CCT TGT TGC.
4.3. Co-Immunoprecipitation and Immunoblotting
4.4. Luciferase Reporter Assays
4.5. Time-Lapse Imaging and Analysis
4.6. qRT-PCR
- Tbp1: forward, 5′–TGT ATC CAC AGT GAA TCT TGG TTG and reverse, 5′–GGT TCG TGG CTC TCT TAT CCT C.
- 14-3-3: forward, 5′–GCATGAAGTCTGTAACTGAGCA and reverse, 5′–GCACCTTCCGTCTTTTGTTC.
- Claudin-4: forward, 5′–CCATATAACTGCTCAACCTGTCC and reverse, 5′–AGATAAAGCCAGTCCTGATGC.
- ERR1: forward, 5′–TCTCCGCTTGGTGATCTCA and reverse, 5′–CTATGGTGTGGCATCCTGTG.
- HIF1A: forward, 5′–CAACCCAGACATATCCACCTC and reverse, 5′–CTCTGATCATCTGACCAAAACTCA.
- HIF2: forward, 5′–CTTTGCGAGCATCCGGTA and reverse, 5′–AGCCTATGAATTCTACCATGCG.
- Osteopontin: forward, 5′–CCCCACAGTAGACACATATGATG and reverse, 5′–TTCAACTCCTCGCTTTCCAT.
- PGC1A: forward, 5′–GTC CTT TTC TCG ACA CAG GT and reverse, 5′–GTC TGT AGT GGC TTG ACT CAT AG.
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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Scan Kinesins for LxxLL Motif --> Define Kinesin Domain Containing LxxLL --> Scan for Monopartite, Classical NLS --> Include/Exclude | |||||||||
---|---|---|---|---|---|---|---|---|---|
Kinesin Family | LxxLL (+/− 6 amino acids) | Position in Sequence | Kinesin Domain | NLS | Kinesin Family | LxxLL (+/− 6 amino acids) | Position in Sequence | Kinesin Domain | NLS |
Kinesin-1 family | Kinesin-6 family | ||||||||
KIF5A | None | N/A | N/A | + | KIF20A | LHPTPDLKPLLSNEVIW | 201–205 | motor | − |
KIF5B | None | N/A | N/A | − | EIYNELLYDLLEPPSQQ | 313–317 | motor | ||
KIF5C | QEREMKLEKLLLLNDKR | 767–771 | coiled-coil | − | DEKIEELEALLQEARQQ | 651–655 | coiled-coil | ||
PGKKPFLRNLLPRTPTC | 850–854 | tail | |||||||
Kinesin-2 family | KIF20B | None | N/A | N/A | − | ||||
KIF23 | None | N/A | N/A | + | |||||
KIF3A | PYRNSKLTRLLQDSLGG | 302–306 | motor | + | |||||
KIF3B | PYRDSKLTRLLQDSLGG | 297–301 | motor | + | Kinesin-7 family | ||||
KIF3C | PYRDSKLTRLLQDSLGG | 322–326 | motor | − | |||||
KIF17 | PYRDSKLTRLLQDSLGG | 287–301 | motor | + | KIF10/CENPE | AMEKDQLAQLLEEKDLL | 376–380 | coiled-coil | + |
QMSPSSLSALLSRQVPP | 368–382 | coiled-coil | |||||||
EPQEVPLQGLLGLQDPF | 601–615 | stalk | Kinesin-8 family | ||||||
ERDSMLLQQLLEQVQPL | 852–866 | tail | |||||||
KIF18A | PYRNSKLTRLLKDSLGG | 312–316 | motor | + | |||||
Kinesin-3 family | RQEYLKLEMLLKENELK | 443–447 | coiled-coil | ||||||
RQTEAVLNALLPTLRKQ | 573–577 | stalk | |||||||
KIF1A | PYRDSVLTWLLRENLGG | 311–315 | motor | + | KIF18B | PYRDSKLTRLLKDSLGG | 308–312 | motor | + |
KDEVTRLRDLLYAQGLG | 379–383 | motor | KIF19 | NYRDSKLTRLLKDSLGG | 303–307 | motor | + | ||
WYQFTSLRDLLWGNAIF | 722–726 | stalk | |||||||
GRAFVYLSNLLYPVPLV | 857–861 | tail | Kinesin-9 family | ||||||
KIF1B | PYRDSVLTWLLRENLGG | 311–315 | motor | + | |||||
KEEVTRLKDLLRAQGLG | 379–383 | neck-coil or coiled-coil | KIF6 | HHCFHHLKKLLNDKKIL | 428–432 | stalk | − | ||
SHQFTSLRDLLWGNAVY | 762–766 | stalk | KIF9 | EIYNESLFDLLSTLPYV | 149–153 | motor | − | ||
GRAFVYLSNLLYPVPLI | 980–984 | tail | |||||||
KIF1C | PYRDSVLTWLLKENLGG | 305–309 | motor | + | Kinesin-10 family | ||||
QEEVARLRELLMAQGLS | 373–377 | motor | |||||||
KIF13A | PYRDSVLTWLLKDNLGG | 309–313 | motor | + | KIF22 | GVIPRALMDLLQLTREE | 151–155 | motor | + |
LNADPALNELLVYYLKD | 458–462 | stalk | PYRDSKLTRLLQDSLGG | 325–329 | motor | ||||
KIF13B | PYRDSVLTWLLKDSLGG | 310–314 | motor | + | SMDPAMLERLLSLDRLL | 440–444 | stalk | ||
LNADPALNELLVYYLKE | 459–463 | stalk | LERLLSLDRLLASQGSQ | 446–450 | stalk | ||||
KIF14 | PYRESVLTWLLKESLGG | 658–662 | motor | − | |||||
VLMKHWLSDLLPCTNIA | 1325–1329 | stalk | Kinesin-11 family | ||||||
KIF16A | PYRDSVLTWLLKDSLGG | 341–345 | motor | + | |||||
REEIERLKALLLSFELR | 409–413 | coiled-coil | KIF26A | TLRDPCLSALLLDKLPA | 100–104 | N-terminal region | + | ||
AASRLGLSPLLWKERRA | 617–621 | stalk | CGRDQSLRDLLAEVAPG | 530–534 | motor | ||||
AYLKNNLPVLLQNQNSK | 1798–1802 | stalk | PYRDHRLTMLLRESLAT | 681–685 | motor | ||||
HNLSLHLSQLLHSTSEL | 3684–3688 | stalk | KIF26B | WGKEENLRDLLSEVATG | 607–611 | motor | + | ||
KIF16B | PYRDSVLTWLLKDSLGG | 315–319 | motor | − | PYKESKLAMLLRESLGN | 757–761 | motor | ||
RAEIARLKTLLAQGNQI | 383–387 | coiled-coil | |||||||
FHIENKLKDLLAEKEKF | 669–673 | coiled-coil | Kinesin-12 family | ||||||
QYKERQLQYLLQNHLPT | 909–913 | stalk | |||||||
YLLQNHLPTLLEEKQRA | 917–921 | stalk | KIF12 | FGSLEALMELLQTGLSR | 204–208 | motor | − | ||
KIF28 | PYRDSVLTKLLQSALGG | 312–316 | motor | − | PFRDSKLTKLLADSLGG | 317–321 | motor | ||
KIF15 | CYRDSKLTFLLRDSLGG | 320–324 | motor | − | |||||
Kinesin-4 family | QKANLNLENLLEATKAC | 630–634 | coiled-coil | ||||||
KSDLNNLMELLEAEKER | 902–906 | coiled-coil | |||||||
KIF4A | PYRDSKLTRLLQDSLGG | 293–297 | motor | + | PHFQTHLAKLLETQEQE | 1152–1156 | coiled-coil | ||
KQQVQQLQVLLLQAHGG | 361–365 | motor | |||||||
EEAKRHLNDLLEDRKIL | 764–768 | coiled-coil | Kinesin-13 family | ||||||
KIF4B | PYRDSKLTRLLQDSLGG | 293–297 | motor | + | |||||
KQQVQQLQVLLLQAHGGT | 361–365 | coiled-coil | KIF2A | None | N/A | N/A | − | ||
EEAKRHLNDLLEDRKIL | 764–768 | coiled-coil | KIF2B | IEEVETLPTLLGKDTTI | 601–605 | C-terminal domain | + | ||
KIF7 | None | N/A | N/A | + | KIF2C | AAINPELLQLLPLHPKD | 68–72 | N-terminal domain | − |
KIF21A | PYRDSKLTRLLQDSLGG | 328–332 | motor | + | EIYNGKLFDLLNKKAKL | 409–413 | motor | ||
AELNPELDALLGHALQD | 1097–1101 | tail | KIF24 | EIYCGQLYDLLNRRKRL | 367–371 | motor | − | ||
KIF21B | PYRDSKLTRLLQDSLGG | 327–331 | motor | + | |||||
KIF27 | EVYKEDLRDLLELETSM | 143–147 | motor | + | Kinesin-14 family | ||||
KIFC1 | PYRNSKLTYLLQNSLGG | 620–624 | motor | + | |||||
Kinesin-5 family | KIFC2 | LTVTSQLLALLAWLRSP | 124–128 | N terminal domain | − | ||||
PFRDSQLTRLLQPALGP | 687–691 | motor | |||||||
KIF11 | IYNEELFDLLNPSSDV | 168–172 | motor | − | KIFC3 | EIYNEVLRDLLGKEPQE | 582–586 | motor | + |
NEREQELHNLLEVVSQC | 844–848 | tail | PFRNSKLTYLLQDSLSG | 725–729 | motor | ||||
KIF25 | GDVCPLLTSLLDGYNVC | 50–54 | motor | − | |||||
AALAGVLGALLEHRGHA | 303–307 | motor | |||||||
PYRNSRLTHLLQDCLGG | 320–324 | motor |
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Seneviratne, A.M.P.B.; Lidagoster, S.; Valbuena-Castor, S.; Lashley, K.; Saha, S.; Alimova, A.; Kreitzer, G. Kinesins Modify ERR1-Dependent Transcription Using a Conserved Nuclear Receptor Box Motif. Int. J. Mol. Sci. 2023, 24, 3795. https://doi.org/10.3390/ijms24043795
Seneviratne AMPB, Lidagoster S, Valbuena-Castor S, Lashley K, Saha S, Alimova A, Kreitzer G. Kinesins Modify ERR1-Dependent Transcription Using a Conserved Nuclear Receptor Box Motif. International Journal of Molecular Sciences. 2023; 24(4):3795. https://doi.org/10.3390/ijms24043795
Chicago/Turabian StyleSeneviratne, A. M. Pramodh Bandara, Sarah Lidagoster, Sofia Valbuena-Castor, Kareena Lashley, Sumit Saha, Aleksandra Alimova, and Geri Kreitzer. 2023. "Kinesins Modify ERR1-Dependent Transcription Using a Conserved Nuclear Receptor Box Motif" International Journal of Molecular Sciences 24, no. 4: 3795. https://doi.org/10.3390/ijms24043795