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Protein

Crooked neck-like protein 1

Gene

CRNKL1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Involved in pre-mRNA splicing process.

GO - Molecular functioni

  • poly(A) RNA binding Source: UniProtKB
  • RNA binding Source: UniProtKB

GO - Biological processi

  • mRNA splicing, via spliceosome Source: UniProtKB
  • spliceosomal complex assembly Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Enzyme and pathway databases

ReactomeiR-HSA-72163. mRNA Splicing - Major Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
Crooked neck-like protein 1
Alternative name(s):
Crooked neck homolog
Short name:
hCrn
Gene namesi
Name:CRNKL1
Synonyms:CRN
ORF Names:CGI-201, MSTP021
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 20

Organism-specific databases

HGNCiHGNC:15762. CRNKL1.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus, Spliceosome

Pathology & Biotechi

Organism-specific databases

DisGeNETi51340.
OpenTargetsiENSG00000101343.
PharmGKBiPA26886.

Polymorphism and mutation databases

BioMutaiCRNKL1.
DMDMi147744555.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002057191 – 848Crooked neck-like protein 1Add BLAST848
Isoform 2 (identifier: Q9BZJ0-2)
Initiator methionineiRemovedCombined sources

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei503PhosphoserineCombined sources1
Isoform 2 (identifier: Q9BZJ0-2)
Modified residuei2N-acetylalanineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiQ9BZJ0.
MaxQBiQ9BZJ0.
PaxDbiQ9BZJ0.
PeptideAtlasiQ9BZJ0.
PRIDEiQ9BZJ0.

PTM databases

iPTMnetiQ9BZJ0.
PhosphoSitePlusiQ9BZJ0.

Expressioni

Tissue specificityi

Widely expressed. Highly expressed in testis. Not expressed in brain and lung.

Gene expression databases

BgeeiENSG00000101343.
ExpressionAtlasiQ9BZJ0. baseline and differential.
GenevisibleiQ9BZJ0. HS.

Organism-specific databases

HPAiHPA054478.

Interactioni

Subunit structurei

Identified in the spliceosome C complex. Present in a spliceosome complex assembled in vitro containing CRNKL1, HPRP8BP and SNRPB2. Isoform 2 seems to be predominant in the spliceosome complex. Interacts with PPIL2 (via the PPIase cyclophilin-type domain); they may form a trimeric complex with HSP90.3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
CCDC12Q8WUD42EBI-1049701,EBI-2557572

Protein-protein interaction databases

BioGridi119487. 63 interactors.
IntActiQ9BZJ0. 16 interactors.
MINTiMINT-4654476.
STRINGi9606.ENSP00000366557.

Structurei

3D structure databases

ProteinModelPortaliQ9BZJ0.
SMRiQ9BZJ0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati222 – 254HAT 1Add BLAST33
Repeati256 – 288HAT 2Add BLAST33
Repeati290 – 322HAT 3Add BLAST33
Repeati324 – 355HAT 4Add BLAST32
Repeati357 – 388HAT 5Add BLAST32
Repeati390 – 425HAT 6Add BLAST36
Repeati427 – 461HAT 7Add BLAST35
Repeati471 – 503HAT 8Add BLAST33
Repeati505 – 539HAT 9Add BLAST35
Repeati549 – 585HAT 10Add BLAST37
Repeati587 – 618HAT 11Add BLAST32
Repeati620 – 652HAT 12Add BLAST33
Repeati654 – 688HAT 13Add BLAST35
Repeati690 – 721HAT 14Add BLAST32
Repeati726 – 767HAT 15Add BLAST42
Repeati769 – 807HAT 16Add BLAST39
Repeati809 – 834HAT 17Add BLAST26

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni411 – 628Mediates interaction with HSP90By similarityAdd BLAST218

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi207 – 210Poly-Pro4

Sequence similaritiesi

Belongs to the crooked-neck family.Curated
Contains 17 HAT repeats.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG1915. Eukaryota.
ENOG410XQJF. LUCA.
GeneTreeiENSGT00550000074931.
HOVERGENiHBG051046.
InParanoidiQ9BZJ0.
KOiK12869.
OMAiFEEKHGY.
OrthoDBiEOG091G040G.
PhylomeDBiQ9BZJ0.
TreeFamiTF300305.

Family and domain databases

Gene3Di1.25.40.10. 4 hits.
InterProiIPR003107. HAT.
IPR013026. TPR-contain_dom.
IPR011990. TPR-like_helical_dom.
[Graphical view]
PfamiPF02184. HAT. 2 hits.
[Graphical view]
SMARTiSM00386. HAT. 13 hits.
[Graphical view]
SUPFAMiSSF48452. SSF48452. 2 hits.

Sequences (5)i

Sequence statusi: Complete.

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

This entry describes 5 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9BZJ0-1) [UniParc]FASTAAdd to basket
Also known as: Type-II

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
MTATVENLTF QKDTLGNAVD KNTSRLELRS YSLAGRHGST EPLVLAWSSQ
60 70 80 90 100
FRRLTWGCAL DALHRSPCVA ASQHGVTHLI RSSRTPHSTR CRKEDAQPGH
110 120 130 140 150
HGNGAASVTA QARGQRSVLQ VPLPVPRSCL FSESFVVSVS SQSRFLASVP
160 170 180 190 200
GTGVQRSTAA DMAASTAAGK QRIPKVAKVK NKAPAEVQIT AEQLLREAKE
210 220 230 240 250
RELELLPPPP QQKITDEEEL NDYKLRKRKT FEDNIRKNRT VISNWIKYAQ
260 270 280 290 300
WEESLKEIQR ARSIYERALD VDYRNITLWL KYAEMEMKNR QVNHARNIWD
310 320 330 340 350
RAITTLPRVN QFWYKYTYME EMLGNVAGAR QVFERWMEWQ PEEQAWHSYI
360 370 380 390 400
NFELRYKEVD RARTIYERFV LVHPDVKNWI KYARFEEKHA YFAHARKVYE
410 420 430 440 450
RAVEFFGDEH MDEHLYVAFA KFEENQKEFE RVRVIYKYAL DRISKQDAQE
460 470 480 490 500
LFKNYTIFEK KFGDRRGIED IIVSKRRFQY EEEVKANPHN YDAWFDYLRL
510 520 530 540 550
VESDAEAEAV REVYERAIAN VPPIQEKRHW KRYIYLWINY ALYEELEAKD
560 570 580 590 600
PERTRQVYQA SLELIPHKKF TFAKMWILYA QFEIRQKNLS LARRALGTSI
610 620 630 640 650
GKCPKNKLFK VYIELELQLR EFDRCRKLYE KFLEFGPENC TSWIKFAELE
660 670 680 690 700
TILGDIDRAR AIYELAISQP RLDMPEVLWK SYIDFEIEQE ETERTRNLYR
710 720 730 740 750
RLLQRTQHVK VWISFAQFEL SSGKEGSLTK CRQIYEEANK TMRNCEEKEE
760 770 780 790 800
RLMLLESWRS FEEEFGTASD KERVDKLMPE KVKKRRKVQT DDGSDAGWEE
810 820 830 840
YFDYIFPEDA ANQPNLKLLA MAKLWKKQQQ EKEDAEHHPD EDVDESES
Length:848
Mass (Da):100,452
Last modified:May 15, 2007 - v4
Checksum:iE30A39E981BC50AC
GO
Isoform 2 (identifier: Q9BZJ0-2) [UniParc]FASTAAdd to basket
Also known as: Short

The sequence of this isoform differs from the canonical sequence as follows:
     1-161: Missing.

Show »
Length:687
Mass (Da):83,148
Checksum:iB370161134F63B1D
GO
Isoform 3 (identifier: Q9BZJ0-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     23-34: Missing.

Show »
Length:836
Mass (Da):99,074
Checksum:i2ED68C036D071E71
GO
Isoform 4 (identifier: Q9BZJ0-4) [UniParc]FASTAAdd to basket
Also known as: Type-III

The sequence of this isoform differs from the canonical sequence as follows:
     23-34: Missing.
     117-848: Missing.

Note: May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay.
Show »
Length:104
Mass (Da):11,268
Checksum:iAF15BD5353314E12
GO
Isoform 5 (identifier: Q9BZJ0-5) [UniParc]FASTAAdd to basket
Also known as: type-IV

The sequence of this isoform differs from the canonical sequence as follows:
     23-74: TSRLELRSYS...RSPCVAASQH → ILASLLVSTA...SRLKREVKGQ
     75-848: Missing.

Note: May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay.
Show »
Length:74
Mass (Da):7,946
Checksum:i59162B429E1F0AF0
GO

Sequence cautioni

The sequence BAB14303 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence BAB14485 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti213K → R in AAF65571 (PubMed:11342225).Curated1
Sequence conflicti213K → R in AAK01924 (PubMed:11342225).Curated1
Sequence conflicti213K → R in AAK01925 (PubMed:11342225).Curated1
Sequence conflicti513V → A in BAB14659 (PubMed:14702039).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_02499535G → R.1 PublicationCorresponds to variant rs7508949dbSNPEnsembl.1
Natural variantiVAR_04931851F → L.Corresponds to variant rs2273058dbSNPEnsembl.1
Natural variantiVAR_049319111Q → H.Corresponds to variant rs2255258dbSNPEnsembl.1
Natural variantiVAR_049320158T → A.Corresponds to variant rs2255255dbSNPEnsembl.1
Natural variantiVAR_049321843V → I.Corresponds to variant rs35201190dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0020581 – 161Missing in isoform 2. 2 PublicationsAdd BLAST161
Alternative sequenceiVSP_00206023 – 74TSRLE…AASQH → ILASLLVSTALPTSSAAPGR RTPRAAARRTRSLVTMETVP PPSRLKREVKGQ in isoform 5. 1 PublicationAdd BLAST52
Alternative sequenceiVSP_00205923 – 34Missing in isoform 3 and isoform 4. 1 PublicationAdd BLAST12
Alternative sequenceiVSP_00206175 – 848Missing in isoform 5. 1 PublicationAdd BLAST774
Alternative sequenceiVSP_002062117 – 848Missing in isoform 4. 1 PublicationAdd BLAST732

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF255443 mRNA. Translation: AAF65571.2.
AF318302 mRNA. Translation: AAK01924.1.
AF318303 mRNA. Translation: AAK01925.1.
AF318304 mRNA. Translation: AAK01926.1.
AF318305 mRNA. Translation: AAK01927.1.
AF111802 mRNA. Translation: AAL39004.1.
AK023246 mRNA. Translation: BAB14485.1. Different initiation.
AK023728 mRNA. Translation: BAB14659.1.
AK292799 mRNA. Translation: BAF85488.1.
AL035454 Genomic DNA. Translation: CAI42113.1.
AK022908 mRNA. Translation: BAB14303.1. Different initiation.
CCDSiCCDS33446.1. [Q9BZJ0-1]
CCDS63238.1. [Q9BZJ0-2]
CCDS63239.1. [Q9BZJ0-3]
RefSeqiNP_001265554.1. NM_001278625.1.
NP_001265555.1. NM_001278626.1.
NP_001265556.1. NM_001278627.1.
NP_001265557.1. NM_001278628.1. [Q9BZJ0-2]
NP_057736.4. NM_016652.5. [Q9BZJ0-1]
UniGeneiHs.171342.

Genome annotation databases

EnsembliENST00000377340; ENSP00000366557; ENSG00000101343. [Q9BZJ0-1]
ENST00000496549; ENSP00000428436; ENSG00000101343. [Q9BZJ0-5]
ENST00000536226; ENSP00000440733; ENSG00000101343. [Q9BZJ0-2]
GeneIDi51340.
KEGGihsa:51340.
UCSCiuc002wrs.5. human. [Q9BZJ0-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF255443 mRNA. Translation: AAF65571.2.
AF318302 mRNA. Translation: AAK01924.1.
AF318303 mRNA. Translation: AAK01925.1.
AF318304 mRNA. Translation: AAK01926.1.
AF318305 mRNA. Translation: AAK01927.1.
AF111802 mRNA. Translation: AAL39004.1.
AK023246 mRNA. Translation: BAB14485.1. Different initiation.
AK023728 mRNA. Translation: BAB14659.1.
AK292799 mRNA. Translation: BAF85488.1.
AL035454 Genomic DNA. Translation: CAI42113.1.
AK022908 mRNA. Translation: BAB14303.1. Different initiation.
CCDSiCCDS33446.1. [Q9BZJ0-1]
CCDS63238.1. [Q9BZJ0-2]
CCDS63239.1. [Q9BZJ0-3]
RefSeqiNP_001265554.1. NM_001278625.1.
NP_001265555.1. NM_001278626.1.
NP_001265556.1. NM_001278627.1.
NP_001265557.1. NM_001278628.1. [Q9BZJ0-2]
NP_057736.4. NM_016652.5. [Q9BZJ0-1]
UniGeneiHs.171342.

3D structure databases

ProteinModelPortaliQ9BZJ0.
SMRiQ9BZJ0.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119487. 63 interactors.
IntActiQ9BZJ0. 16 interactors.
MINTiMINT-4654476.
STRINGi9606.ENSP00000366557.

PTM databases

iPTMnetiQ9BZJ0.
PhosphoSitePlusiQ9BZJ0.

Polymorphism and mutation databases

BioMutaiCRNKL1.
DMDMi147744555.

Proteomic databases

EPDiQ9BZJ0.
MaxQBiQ9BZJ0.
PaxDbiQ9BZJ0.
PeptideAtlasiQ9BZJ0.
PRIDEiQ9BZJ0.

Protocols and materials databases

DNASUi51340.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000377340; ENSP00000366557; ENSG00000101343. [Q9BZJ0-1]
ENST00000496549; ENSP00000428436; ENSG00000101343. [Q9BZJ0-5]
ENST00000536226; ENSP00000440733; ENSG00000101343. [Q9BZJ0-2]
GeneIDi51340.
KEGGihsa:51340.
UCSCiuc002wrs.5. human. [Q9BZJ0-1]

Organism-specific databases

CTDi51340.
DisGeNETi51340.
GeneCardsiCRNKL1.
H-InvDBHIX0015678.
HGNCiHGNC:15762. CRNKL1.
HPAiHPA054478.
MIMi610952. gene.
neXtProtiNX_Q9BZJ0.
OpenTargetsiENSG00000101343.
PharmGKBiPA26886.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1915. Eukaryota.
ENOG410XQJF. LUCA.
GeneTreeiENSGT00550000074931.
HOVERGENiHBG051046.
InParanoidiQ9BZJ0.
KOiK12869.
OMAiFEEKHGY.
OrthoDBiEOG091G040G.
PhylomeDBiQ9BZJ0.
TreeFamiTF300305.

Enzyme and pathway databases

ReactomeiR-HSA-72163. mRNA Splicing - Major Pathway.

Miscellaneous databases

GenomeRNAii51340.
PROiQ9BZJ0.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000101343.
ExpressionAtlasiQ9BZJ0. baseline and differential.
GenevisibleiQ9BZJ0. HS.

Family and domain databases

Gene3Di1.25.40.10. 4 hits.
InterProiIPR003107. HAT.
IPR013026. TPR-contain_dom.
IPR011990. TPR-like_helical_dom.
[Graphical view]
PfamiPF02184. HAT. 2 hits.
[Graphical view]
SMARTiSM00386. HAT. 13 hits.
[Graphical view]
SUPFAMiSSF48452. SSF48452. 2 hits.
ProtoNetiSearch...

Entry informationi

Entry nameiCRNL1_HUMAN
AccessioniPrimary (citable) accession number: Q9BZJ0
Secondary accession number(s): A8K9T4
, Q5JY64, Q8WYI5, Q9BZI9, Q9BZJ1, Q9BZJ2, Q9GZW7, Q9H8F8, Q9NQH5, Q9NYD8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 2003
Last sequence update: May 15, 2007
Last modified: November 2, 2016
This is version 138 of the entry and version 4 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 20
    Human chromosome 20: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. 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.