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Protein

Lissencephaly-1 homolog

Gene

pafah1b1

Organism
Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Positively regulates the activity of the minus-end directed microtubule motor protein dynein. May enhance dynein-mediated microtubule sliding by targeting dynein to the microtubule plus end. Required for several dynein- and microtubule-dependent processes such as the maintenance of Golgi integrity, the peripheral transport of microtubule fragments and the coupling of the nucleus and centrosome. May be required for proliferation of neuronal precursors and neuronal migration.UniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Cell cycle, Cell division, Differentiation, Mitosis, Neurogenesis, Transport

Enzyme and pathway databases

ReactomeiR-XTR-2467813. Separation of Sister Chromatids.
R-XTR-2500257. Resolution of Sister Chromatid Cohesion.
R-XTR-2565942. Regulation of PLK1 Activity at G2/M Transition.
R-XTR-380259. Loss of Nlp from mitotic centrosomes.
R-XTR-380270. Recruitment of mitotic centrosome proteins and complexes.
R-XTR-5620912. Anchoring of the basal body to the plasma membrane.
R-XTR-5663220. RHO GTPases Activate Formins.
R-XTR-6811436. COPI-independent Golgi-to-ER retrograde traffic.
R-XTR-8854518. AURKA Activation by TPX2.

Names & Taxonomyi

Protein namesi
Recommended name:
Lissencephaly-1 homologUniRule annotation
Gene namesi
Name:pafah1b1
Synonyms:lis1UniRule annotation
ORF Names:TNeu059p06.1
OrganismiXenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Taxonomic identifieri8364 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusSilurana
Proteomesi
  • UP000008143 Componenti: Unassembled WGS sequence

Organism-specific databases

XenbaseiXB-GENE-1002843. pafah1b1.

Subcellular locationi

  • Cytoplasmcytoskeleton UniRule annotation
  • Cytoplasmcytoskeletonmicrotubule organizing centercentrosome UniRule annotation

  • Note: Localizes to the plus end of microtubules and to the centrosome.UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Cytoskeleton, Microtubule

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedUniRule annotation
Chaini2 – 410409Lissencephaly-1 homologPRO_0000240420Add
BLAST

Proteomic databases

PaxDbiQ6NZH4.
PRIDEiQ6NZH4.

Expressioni

Gene expression databases

BgeeiQ6NZH4.

Interactioni

Subunit structurei

Can self-associate. Interacts with dynein, dynactin, nde1 and ndel1.UniRule annotation

GO - Molecular functioni

Protein-protein interaction databases

STRINGi8364.ENSXETP00000042100.

Structurei

3D structure databases

ProteinModelPortaliQ6NZH4.
SMRiQ6NZH4. Positions 1-79, 92-408.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini7 – 3933LisHUniRule annotationAdd
BLAST
Repeati106 – 14742WD 1Add
BLAST
Repeati148 – 18740WD 2Add
BLAST
Repeati190 – 22940WD 3Add
BLAST
Repeati232 – 27140WD 4Add
BLAST
Repeati274 – 33360WD 5Add
BLAST
Repeati336 – 37742WD 6Add
BLAST
Repeati379 – 41032WD 7Add
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili56 – 8227UniRule annotationAdd
BLAST

Domaini

Dimerization mediated by the LisH domain may be required to activate dynein.UniRule annotation

Sequence similaritiesi

Belongs to the WD repeat LIS1/nudF family.UniRule annotation
Contains 1 LisH domain.UniRule annotation
Contains 7 WD repeats.UniRule annotation

Keywords - Domaini

Coiled coil, Repeat, WD repeat

Phylogenomic databases

eggNOGiKOG0295. Eukaryota.
ENOG410XP3K. LUCA.
GeneTreeiENSGT00810000125363.
HOGENOMiHOG000184015.
HOVERGENiHBG006271.
InParanoidiQ6NZH4.
KOiK16794.
OMAiVANPETK.
OrthoDBiEOG7QZG9N.
TreeFamiTF105741.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
HAMAPiMF_03141. lis1.
InterProiIPR017252. Dynein_regulator_LIS1.
IPR020472. G-protein_beta_WD-40_rep.
IPR006594. LisH.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR019775. WD40_repeat_CS.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF08513. LisH. 1 hit.
PF00400. WD40. 7 hits.
[Graphical view]
PIRSFiPIRSF037647. Dynein_regulator_Lis1. 1 hit.
PRINTSiPR00320. GPROTEINBRPT.
SMARTiSM00667. LisH. 1 hit.
SM00320. WD40. 7 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS50896. LISH. 1 hit.
PS00678. WD_REPEATS_1. 4 hits.
PS50082. WD_REPEATS_2. 7 hits.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q6NZH4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVLSQRQRDE LNRAIADYLR SNGYEEAYSV FKKEAELDMN EELDKKYAGL
60 70 80 90 100
LEKKWTSVIR LQKKVMELES KLNEAKEEFT SGGPIGQKRD PKEWIPRPPE
110 120 130 140 150
KYALSGHRSP VTRVIFHPVF SVMVTASEDA TIKVWDYETG DFERTLKGHT
160 170 180 190 200
DSVQDISFDH SGKLLASCSA DMTIKLWDFQ GFECIRTMHG HDHNVSSVAI
210 220 230 240 250
MPNGDHIVSA SRDKTIKMWE VQTGYCVKTF TGHREWVRMV RPNQDGTLIA
260 270 280 290 300
SCSNDQTVRV WVVATKECKA ELREHEHVVE CISWAPESSY STISDATGSE
310 320 330 340 350
TKKSGKPGPF LLSGSRDKTI KMWDISIGMC LMTLVGHDNW VRGVQFHPGG
360 370 380 390 400
KFILSCADDK TIRIWDYKNK RCMKTLNAHE HFVTSLDFHK TAPYVVTGSV
410
DQTVKVWECR
Length:410
Mass (Da):46,749
Last modified:January 23, 2007 - v3
Checksum:i1DA377BFC1546671
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CR760201 mRNA. Translation: CAJ83045.1.
BC066132 mRNA. Translation: AAH66132.1.
RefSeqiNP_991399.1. NM_205830.1.
UniGeneiStr.47049.

Genome annotation databases

EnsembliENSXETT00000042100; ENSXETP00000042100; ENSXETG00000019410.
GeneIDi403097.
KEGGixtr:403097.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CR760201 mRNA. Translation: CAJ83045.1.
BC066132 mRNA. Translation: AAH66132.1.
RefSeqiNP_991399.1. NM_205830.1.
UniGeneiStr.47049.

3D structure databases

ProteinModelPortaliQ6NZH4.
SMRiQ6NZH4. Positions 1-79, 92-408.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi8364.ENSXETP00000042100.

Proteomic databases

PaxDbiQ6NZH4.
PRIDEiQ6NZH4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSXETT00000042100; ENSXETP00000042100; ENSXETG00000019410.
GeneIDi403097.
KEGGixtr:403097.

Organism-specific databases

CTDi5048.
XenbaseiXB-GENE-1002843. pafah1b1.

Phylogenomic databases

eggNOGiKOG0295. Eukaryota.
ENOG410XP3K. LUCA.
GeneTreeiENSGT00810000125363.
HOGENOMiHOG000184015.
HOVERGENiHBG006271.
InParanoidiQ6NZH4.
KOiK16794.
OMAiVANPETK.
OrthoDBiEOG7QZG9N.
TreeFamiTF105741.

Enzyme and pathway databases

ReactomeiR-XTR-2467813. Separation of Sister Chromatids.
R-XTR-2500257. Resolution of Sister Chromatid Cohesion.
R-XTR-2565942. Regulation of PLK1 Activity at G2/M Transition.
R-XTR-380259. Loss of Nlp from mitotic centrosomes.
R-XTR-380270. Recruitment of mitotic centrosome proteins and complexes.
R-XTR-5620912. Anchoring of the basal body to the plasma membrane.
R-XTR-5663220. RHO GTPases Activate Formins.
R-XTR-6811436. COPI-independent Golgi-to-ER retrograde traffic.
R-XTR-8854518. AURKA Activation by TPX2.

Gene expression databases

BgeeiQ6NZH4.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
HAMAPiMF_03141. lis1.
InterProiIPR017252. Dynein_regulator_LIS1.
IPR020472. G-protein_beta_WD-40_rep.
IPR006594. LisH.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR019775. WD40_repeat_CS.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF08513. LisH. 1 hit.
PF00400. WD40. 7 hits.
[Graphical view]
PIRSFiPIRSF037647. Dynein_regulator_Lis1. 1 hit.
PRINTSiPR00320. GPROTEINBRPT.
SMARTiSM00667. LisH. 1 hit.
SM00320. WD40. 7 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS50896. LISH. 1 hit.
PS00678. WD_REPEATS_1. 4 hits.
PS50082. WD_REPEATS_2. 7 hits.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Sanger Xenopus tropicalis EST/cDNA project
    Submitted (MAR-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Neurula.
  2. NIH - Xenopus Gene Collection (XGC) project
    Submitted (FEB-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Embryo.

Entry informationi

Entry nameiLIS1_XENTR
AccessioniPrimary (citable) accession number: Q6NZH4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: January 23, 2007
Last modified: July 6, 2016
This is version 109 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.