LOCUS       NP_001265557             687 aa            linear   PRI 30-APR-2025
DEFINITION  crooked neck-like protein 1 isoform d [Homo sapiens].
ACCESSION   NP_001265557
VERSION     NP_001265557.1
DBSOURCE    REFSEQ: accession NM_001278628.2
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (residues 1 to 687)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   2  (residues 1 to 687)
  AUTHORS   Xiao,H., Wyler,E., Milek,M., Grewe,B., Kirchner,P., Ekici,A.,
            Silva,A.B.O.V., Jungnickl,D., Full,F., Thomas,M., Landthaler,M.,
            Ensser,A. and Uberla,K.
  TITLE     CRNKL1 Is a Highly Selective Regulator of Intron-Retaining HIV-1
            and Cellular mRNAs
  JOURNAL   mBio 12 (1), e02525-20 (2021)
   PUBMED   33468685
  REMARK    GeneRIF: CRNKL1 Is a Highly Selective Regulator of Intron-Retaining
            HIV-1 and Cellular mRNAs.
            Publication Status: Online-Only
REFERENCE   3  (residues 1 to 687)
  AUTHORS   Bertram,K., Agafonov,D.E., Liu,W.T., Dybkov,O., Will,C.L.,
            Hartmuth,K., Urlaub,H., Kastner,B., Stark,H. and Luhrmann,R.
  TITLE     Cryo-EM structure of a human spliceosome activated for step 2 of
            splicing
  JOURNAL   Nature 542 (7641), 318-323 (2017)
   PUBMED   28076346
REFERENCE   4  (residues 1 to 687)
  AUTHORS   Baltz,A.G., Munschauer,M., Schwanhausser,B., Vasile,A.,
            Murakawa,Y., Schueler,M., Youngs,N., Penfold-Brown,D., Drew,K.,
            Milek,M., Wyler,E., Bonneau,R., Selbach,M., Dieterich,C. and
            Landthaler,M.
  TITLE     The mRNA-bound proteome and its global occupancy profile on
            protein-coding transcripts
  JOURNAL   Mol Cell 46 (5), 674-690 (2012)
   PUBMED   22681889
REFERENCE   5  (residues 1 to 687)
  AUTHORS   Hegele,A., Kamburov,A., Grossmann,A., Sourlis,C., Wowro,S.,
            Weimann,M., Will,C.L., Pena,V., Luhrmann,R. and Stelzl,U.
  TITLE     Dynamic protein-protein interaction wiring of the human spliceosome
  JOURNAL   Mol Cell 45 (4), 567-580 (2012)
   PUBMED   22365833
REFERENCE   6  (residues 1 to 687)
  AUTHORS   Hillman,R.T., Green,R.E. and Brenner,S.E.
  TITLE     An unappreciated role for RNA surveillance
  JOURNAL   Genome Biol 5 (2), R8 (2004)
   PUBMED   14759258
REFERENCE   7  (residues 1 to 687)
  AUTHORS   Chung,S., Zhou,Z., Huddleston,K.A., Harrison,D.A., Reed,R.,
            Coleman,T.A. and Rymond,B.C.
  TITLE     Crooked neck is a component of the human spliceosome and implicated
            in the splicing process
  JOURNAL   Biochim Biophys Acta 1576 (3), 287-297 (2002)
   PUBMED   12084575
  REMARK    GeneRIF: Data show that crooked neck activity appears essential as
            extracts depleted of hcrn fail to splice pre-mRNA. These and
            related data support the view that crooked neck is a
            phylogenetically conserved pre-mRNA splicing factor.
REFERENCE   8  (residues 1 to 687)
  AUTHORS   Jurica,M.S., Licklider,L.J., Gygi,S.R., Grigorieff,N. and
            Moore,M.J.
  TITLE     Purification and characterization of native spliceosomes suitable
            for three-dimensional structural analysis
  JOURNAL   RNA 8 (4), 426-439 (2002)
   PUBMED   11991638
REFERENCE   9  (residues 1 to 687)
  AUTHORS   Deloukas,P., Matthews,L.H., Ashurst,J., Burton,J., Gilbert,J.G.,
            Jones,M., Stavrides,G., Almeida,J.P., Babbage,A.K., Bagguley,C.L.,
            Bailey,J., Barlow,K.F., Bates,K.N., Beard,L.M., Beare,D.M.,
            Beasley,O.P., Bird,C.P., Blakey,S.E., Bridgeman,A.M., Brown,A.J.,
            Buck,D., Burrill,W., Butler,A.P., Carder,C., Carter,N.P.,
            Chapman,J.C., Clamp,M., Clark,G., Clark,L.N., Clark,S.Y.,
            Clee,C.M., Clegg,S., Cobley,V.E., Collier,R.E., Connor,R.,
            Corby,N.R., Coulson,A., Coville,G.J., Deadman,R., Dhami,P.,
            Dunn,M., Ellington,A.G., Frankland,J.A., Fraser,A., French,L.,
            Garner,P., Grafham,D.V., Griffiths,C., Griffiths,M.N., Gwilliam,R.,
            Hall,R.E., Hammond,S., Harley,J.L., Heath,P.D., Ho,S., Holden,J.L.,
            Howden,P.J., Huckle,E., Hunt,A.R., Hunt,S.E., Jekosch,K.,
            Johnson,C.M., Johnson,D., Kay,M.P., Kimberley,A.M., King,A.,
            Knights,A., Laird,G.K., Lawlor,S., Lehvaslaiho,M.H., Leversha,M.,
            Lloyd,C., Lloyd,D.M., Lovell,J.D., Marsh,V.L., Martin,S.L.,
            McConnachie,L.J., McLay,K., McMurray,A.A., Milne,S., Mistry,D.,
            Moore,M.J., Mullikin,J.C., Nickerson,T., Oliver,K., Parker,A.,
            Patel,R., Pearce,T.A., Peck,A.I., Phillimore,B.J.,
            Prathalingam,S.R., Plumb,R.W., Ramsay,H., Rice,C.M., Ross,M.T.,
            Scott,C.E., Sehra,H.K., Shownkeen,R., Sims,S., Skuce,C.D.,
            Smith,M.L., Soderlund,C., Steward,C.A., Sulston,J.E., Swann,M.,
            Sycamore,N., Taylor,R., Tee,L., Thomas,D.W., Thorpe,A., Tracey,A.,
            Tromans,A.C., Vaudin,M., Wall,M., Wallis,J.M., Whitehead,S.L.,
            Whittaker,P., Willey,D.L., Williams,L., Williams,S.A., Wilming,L.,
            Wray,P.W., Hubbard,T., Durbin,R.M., Bentley,D.R., Beck,S. and
            Rogers,J.
  TITLE     The DNA sequence and comparative analysis of human chromosome 20
  JOURNAL   Nature 414 (6866), 865-871 (2001)
   PUBMED   11780052
REFERENCE   10 (residues 1 to 687)
  AUTHORS   Lai,C.H., Chiu,J.Y. and Lin,W.
  TITLE     Identification of the human crooked neck gene by comparative gene
            identification
  JOURNAL   Biochim Biophys Acta 1517 (3), 449-454 (2001)
   PUBMED   11342225
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DB040881.1, BI550198.1,
            AL832435.1 and AA255987.1.
            
            Summary: The crooked neck (crn) gene of Drosophila is essential for
            embryogenesis and is thought to be involved in cell cycle
            progression and pre-mRNA splicing. A protein encoded by this human
            locus has been found to localize to pre-mRNA splicing complexes in
            the nucleus and is necessary for pre-mRNA splicing. Alternatively
            spliced transcript variants have been described. [provided by
            RefSeq, Jul 2013].
            
            Transcript Variant: This variant (5) differs in the 5' UTR, lacks a
            portion of the 5' coding region, and initiates translation at a
            downstream start codon, compared to variant 1. This variant
            represents use of an alternate promoter, compared to variant 1. The
            encoded isoform (d) is shorter than isoform a.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AL832435.1, AF111802.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000536226.2/ ENSP00000440733.1
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
FEATURES             Location/Qualifiers
     source          1..687
                     /organism="Homo sapiens"
                     /db_xref="taxon:9606"
                     /chromosome="20"
                     /map="20p11.23"
     Protein         1..687
                     /product="crooked neck-like protein 1 isoform d"
                     /note="crooked neck-like 1; crooked neck-like protein 1;
                     crooked neck homolog; Crn, crooked neck-like 1; SYF3
                     pre-mRNA-splicing factor; crooked neck pre-mRNA splicing
                     factor-like 1"
                     /calculated_mol_wt=83018
     Region          84..109
                     /region_name="TPR repeat"
                     /note="TPR repeat [structural motif]"
                     /db_xref="CDD:276809"
     Site            order(85..86,89..90,92,116,119..120,123..124,126..127,150,
                     153..154,157..158,161)
                     /site_type="other"
                     /note="putative protein binding surface [polypeptide
                     binding]"
                     /db_xref="CDD:276809"
     Region          92..281
                     /region_name="LapB"
                     /note="Lipopolysaccharide biosynthesis regulator
                     YciM/LapB, contains six TPR domains and a C-terminal
                     metal-binding domain [Cell wall/membrane/envelope
                     biogenesis]; COG2956"
                     /db_xref="CDD:442196"
     Region          114..144
                     /region_name="TPR repeat"
                     /note="TPR repeat [structural motif]"
                     /db_xref="CDD:276809"
     Region          149..177
                     /region_name="TPR repeat"
                     /note="TPR repeat [structural motif]"
                     /db_xref="CDD:276809"
     Region          196..227
                     /region_name="HAT"
                     /note="HAT (Half-A-TPR) repeat; pfam02184"
                     /db_xref="CDD:111114"
     Region          319..563
                     /region_name="LapB"
                     /note="Lipopolysaccharide biosynthesis regulator
                     YciM/LapB, contains six TPR domains and a C-terminal
                     metal-binding domain [Cell wall/membrane/envelope
                     biogenesis]; COG2956"
                     /db_xref="CDD:442196"
     Region          412..440
                     /region_name="TPR repeat"
                     /note="TPR repeat [structural motif]"
                     /db_xref="CDD:276809"
     Site            order(413,416..417,420..421,423,446,449..450,453..454,
                     456..457,480,483..484,487..488,491)
                     /site_type="other"
                     /note="putative protein binding surface [polypeptide
                     binding]"
                     /db_xref="CDD:276809"
     Region          445..474
                     /region_name="TPR repeat"
                     /note="TPR repeat [structural motif]"
                     /db_xref="CDD:276809"
     Region          479..507
                     /region_name="TPR repeat"
                     /note="TPR repeat [structural motif]"
                     /db_xref="CDD:276809"
     CDS             1..687
                     /gene="CRNKL1"
                     /gene_synonym="CLF; Clf1; CRN; HCRN; MSTP021; SYF3"
                     /coded_by="NM_001278628.2:125..2188"
                     /note="isoform d is encoded by transcript variant 5"
                     /db_xref="CCDS:CCDS63238.1"
                     /db_xref="GeneID:51340"
                     /db_xref="HGNC:HGNC:15762"
                     /db_xref="MIM:610952"
ORIGIN      
        1 maastaagkq ripkvakvkn kapaevqita eqllreaker elellppppq qkitdeeeln
       61 dyklrkrktf ednirknrtv isnwikyaqw eeslkeiqra rsiyeraldv dyrnitlwlk
      121 yaememknrq vnharniwdr aittlprvnq fwykytymee mlgnvagarq vferwmewqp
      181 eeqawhsyin felrykevdr artiyerfvl vhpdvknwik yarfeekhay faharkvyer
      241 aveffgdehm dehlyvafak feenqkefer vrviykyald riskqdaqel fknytifekk
      301 fgdrrgiedi ivskrrfqye eevkanphny dawfdylrlv esdaeaeavr evyeraianv
      361 ppiqekrhwk ryiylwinya lyeeleakdp ertrqvyqas leliphkkft fakmwilyaq
      421 feirqknlsl arralgtsig kcpknklfkv yielelqlre fdrcrklyek flefgpenct
      481 swikfaelet ilgdidrara iyelaisqpr ldmpevlwks yidfeieqee tertrnlyrr
      541 llqrtqhvkv wisfaqfels sgkegsltkc rqiyeeankt mrnceekeer lmlleswrsf
      601 eeefgtasdk ervdklmpek vkkrrkvqtd dgsdagweey fdyifpedaa nqpnlkllam
      661 aklwkkqqqe kedaehhpde dvdeses
//
