LOCUS       NP_001406850            2058 aa            linear   ROD 31-MAR-2024
DEFINITION  chromodomain-helicase-DNA-binding protein 3 [Rattus norvegicus].
ACCESSION   NP_001406850 XP_038943549
VERSION     NP_001406850.1
DBSOURCE    REFSEQ: accession NM_001419921.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (residues 1 to 2058)
  AUTHORS   Snijders Blok,L., Rousseau,J., Twist,J., Ehresmann,S., Takaku,M.,
            Venselaar,H., Rodan,L.H., Nowak,C.B., Douglas,J., Swoboda,K.J.,
            Steeves,M.A., Sahai,I., Stumpel,C.T.R.M., Stegmann,A.P.A.,
            Wheeler,P., Willing,M., Fiala,E., Kochhar,A., Gibson,W.T.,
            Cohen,A.S.A., Agbahovbe,R., Innes,A.M., Au,P.Y.B., Rankin,J.,
            Anderson,I.J., Skinner,S.A., Louie,R.J., Warren,H.E., Afenjar,A.,
            Keren,B., Nava,C., Buratti,J., Isapof,A., Rodriguez,D.,
            Lewandowski,R., Propst,J., van Essen,T., Choi,M., Lee,S.,
            Chae,J.H., Price,S., Schnur,R.E., Douglas,G., Wentzensen,I.M.,
            Zweier,C., Reis,A., Bialer,M.G., Moore,C., Koopmans,M.,
            Brilstra,E.H., Monroe,G.R., van Gassen,K.L.I., van Binsbergen,E.,
            Newbury-Ecob,R., Bownass,L., Bader,I., Mayr,J.A., Wortmann,S.B.,
            Jakielski,K.J., Strand,E.A., Kloth,K., Bierhals,T., Roberts,J.D.,
            Petrovich,R.M., Machida,S., Kurumizaka,H., Lelieveld,S., Pfundt,R.,
            Jansen,S., Deriziotis,P., Faivre,L., Thevenon,J., Assoum,M.,
            Shriberg,L., Kleefstra,T., Brunner,H.G., Wade,P.A., Fisher,S.E. and
            Campeau,P.M.
  CONSRTM   DDD study
  TITLE     CHD3 helicase domain mutations cause a neurodevelopmental syndrome
            with macrocephaly and impaired speech and language
  JOURNAL   Nat Commun 9 (1), 4619 (2018)
   PUBMED   30397230
  REMARK    Erratum:[Nat Commun. 2019 Feb 15;10(1):883. PMID: 30770872]
            Publication Status: Online-Only
REFERENCE   2  (residues 1 to 2058)
  AUTHORS   Basta,J. and Rauchman,M.
  TITLE     The nucleosome remodeling and deacetylase complex in development
            and disease
  JOURNAL   Transl Res 165 (1), 36-47 (2015)
   PUBMED   24880148
  REMARK    Review article
REFERENCE   3  (residues 1 to 2058)
  AUTHORS   Todd,M.A. and Picketts,D.J.
  TITLE     PHF6 interacts with the nucleosome remodeling and deacetylation
            (NuRD) complex
  JOURNAL   J Proteome Res 11 (8), 4326-4337 (2012)
   PUBMED   22720776
REFERENCE   4  (residues 1 to 2058)
  AUTHORS   Castello,A., Fischer,B., Eichelbaum,K., Horos,R., Beckmann,B.M.,
            Strein,C., Davey,N.E., Humphreys,D.T., Preiss,T., Steinmetz,L.M.,
            Krijgsveld,J. and Hentze,M.W.
  TITLE     Insights into RNA biology from an atlas of mammalian mRNA-binding
            proteins
  JOURNAL   Cell 149 (6), 1393-1406 (2012)
   PUBMED   22658674
REFERENCE   5  (residues 1 to 2058)
  AUTHORS   Wang,L., Liu,H.L., Li,Y. and Yuan,P.
  TITLE     Proteomic analysis of pancreatic intraepithelial neoplasia and
            pancreatic carcinoma in rat models
  JOURNAL   World J Gastroenterol 17 (11), 1434-1441 (2011)
   PUBMED   21472101
REFERENCE   6  (residues 1 to 2058)
  AUTHORS   Liska,F., Gosele,C., Rivkin,E., Tres,L., Cardoso,M.C., Domaing,P.,
            Krejci,E., Snajdr,P., Lee-Kirsch,M.A., de Rooij,D.G., Kren,V.,
            Krenova,D., Kierszenbaum,A.L. and Hubner,N.
  TITLE     Rat hd mutation reveals an essential role of centrobin in spermatid
            head shaping and assembly of the head-tail coupling apparatus
  JOURNAL   Biol Reprod 81 (6), 1196-1205 (2009)
   PUBMED   19710508
  REMARK    Erratum:[Biol Reprod. 2010 Apr;82(4):804. Rooij, Dirk G de
            [corrected to de Rooij, Dirk G]]
REFERENCE   7  (residues 1 to 2058)
  AUTHORS   Sun,J.M., Chen,H.Y. and Davie,J.R.
  TITLE     Differential distribution of unmodified and phosphorylated histone
            deacetylase 2 in chromatin
  JOURNAL   J Biol Chem 282 (45), 33227-33236 (2007)
   PUBMED   17827154
REFERENCE   8  (residues 1 to 2058)
  AUTHORS   Sillibourne,J.E., Delaval,B., Redick,S., Sinha,M. and Doxsey,S.J.
  TITLE     Chromatin remodeling proteins interact with pericentrin to regulate
            centrosome integrity
  JOURNAL   Mol Biol Cell 18 (9), 3667-3680 (2007)
   PUBMED   17626165
REFERENCE   9  (residues 1 to 2058)
  AUTHORS   Kim,J., Sif,S., Jones,B., Jackson,A., Koipally,J., Heller,E.,
            Winandy,S., Viel,A., Sawyer,A., Ikeda,T., Kingston,R. and
            Georgopoulos,K.
  TITLE     Ikaros DNA-binding proteins direct formation of chromatin
            remodeling complexes in lymphocytes
  JOURNAL   Immunity 10 (3), 345-355 (1999)
   PUBMED   10204490
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000010.1.
            
            On Apr 21, 2023 this sequence version replaced XP_038943549.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26643287.24606.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760386 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
FEATURES             Location/Qualifiers
     source          1..2058
                     /organism="Rattus norvegicus"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="10"
                     /map="10q24"
     Protein         1..2058
                     /product="chromodomain-helicase-DNA-binding protein 3"
                     /EC_number="3.6.4.12"
                     /calculated_mol_wt=232699
     Region          203..256
                     /region_name="CHDNT"
                     /note="CHDNT (NUC034) domain; pfam08073"
                     /db_xref="CDD:462357"
     Region          <380..482
                     /region_name="TNG2"
                     /note="Chromatin remodeling protein, contains PhD zinc
                     finger [Chromatin structure and dynamics]; COG5034"
                     /db_xref="CDD:227367"
     Region          437..479
                     /region_name="PHD1_CHD_II"
                     /note="PHD finger 1 found in class II
                     Chromodomain-Helicase-DNA binding (CHD) proteins; cd15531"
                     /db_xref="CDD:277006"
     Site            order(437,446..450,454,474)
                     /site_type="other"
                     /note="putative histone H3 binding site [polypeptide
                     binding]"
                     /db_xref="CDD:277006"
     Region          513..555
                     /region_name="PHD2_CHD_II"
                     /note="PHD finger 2 found in class II
                     Chromodomain-Helicase-DNA binding (CHD) proteins; cd15532"
                     /db_xref="CDD:277007"
     Site            order(513,522..526,530,550)
                     /site_type="other"
                     /note="putative histone H3 binding site [polypeptide
                     binding]"
                     /db_xref="CDD:277007"
     Region          560..638
                     /region_name="CD1_tandem_CHD3-4_like"
                     /note="repeat 1 of the paired tandem chromodomains of
                     chromodomain helicase DNA-binding protein 3 and 4, and
                     similar proteins; cd18667"
                     /db_xref="CDD:349314"
     Site            order(562,609,611..612,616)
                     /site_type="other"
                     /note="peptide binding site [polypeptide binding]"
                     /db_xref="CDD:349314"
     Region          683..737
                     /region_name="CD2_tandem_CHD3-4_like"
                     /note="repeat 2 of the paired tandem chromodomains of
                     chromodomain helicase DNA-binding protein 3 and 4, and
                     similar proteins; cd18662"
                     /db_xref="CDD:349309"
     Site            order(703,720)
                     /site_type="other"
                     /note="putative peptide binding site [polypeptide
                     binding]"
                     /db_xref="CDD:349309"
     Region          774..>1328
                     /region_name="PLN03142"
                     /note="Probable chromatin-remodeling complex ATPase chain;
                     Provisional"
                     /db_xref="CDD:215601"
     Region          791..1022
                     /region_name="DEXHc_CHD3"
                     /note="DEAH-box helicase domain of the chromodomain
                     helicase DNA binding protein 3; cd18055"
                     /db_xref="CDD:350813"
     Site            order(818..824,858,938..939)
                     /site_type="other"
                     /note="ATP binding site [chemical binding]"
                     /db_xref="CDD:350813"
     Region          <1369..1412
                     /region_name="DUF1087"
                     /note="CHD subfamily II, DUF1087; pfam06465"
                     /db_xref="CDD:461922"
     Region          1433..1572
                     /region_name="CHDII_SANT-like"
                     /note="CHD subfamily II, SANT-like domain; pfam06461"
                     /db_xref="CDD:461920"
     Region          <1564..>1749
                     /region_name="PHA03169"
                     /note="hypothetical protein; Provisional"
                     /db_xref="CDD:223003"
     Region          1793..1938
                     /region_name="CHDCT2"
                     /note="CHDCT2 (NUC038) domain; pfam08074"
                     /db_xref="CDD:462358"
     CDS             1..2058
                     /gene="Chd3"
                     /coded_by="NM_001419921.1:12..6188"
                     /db_xref="GeneID:303241"
                     /db_xref="RGD:1311923"
ORIGIN      
        1 masplrdeee eeeemvvsee eeeeeeegde eeeeveaade ddeeedeegv lgrgpghdrg
       61 rdrhsppsch lfpppppppp plppppppdk ddirllpsal gvkkrkrgpk kqkenkpgkp
      121 rkrkkldsee efgserdeyr eksesggsey gtgpgrkrrr khrekrekkt krrkrgegdg
      181 ghkqveqkss atllltwgle dvehvfseed yhtltnykaf sqfmrpliak knpkipmskm
      241 mtilgakwre fsannpfkgs aaavaaaaaa aaaavaeqvs aavssatpia psgpppalpp
      301 ppapeiqppp irraktkegk gpghkrrgks arapdgrkkl rgkkmaplki klgllggrrr
      361 kagscvfqgd egpepeaees dldsgsvhsa sgrpdgpvra kklkrgrpgr kkkkvlgcpt
      421 vtgeeevdgy etdhqdycev cqqggeiilc dtcprayhlv cldpeldrap egkwscphce
      481 kegvqweake eeedyeeege egekeeeddh meycrvckdg gellccdaci ssyhihclnp
      541 plpdipngew lcprctcpvl kgrvqkilhw rwgeppvavp apqqadgdpd appprvlqgr
      601 sereffvkwv glsywhcswa kelqleifhl vmyrnyqrkn dmdepppldy gsgeddgksd
      661 krkvkdphya emeekyyrfg ikpewmtvhr iinhsmdkkg nyhylvkwkd lpydqstwee
      721 demnipeydd hkqsywrhre limgedpaqp rkykkkkkei qgdgppsspt ndptvkyetq
      781 prfitatggt lhmyqlegln wlrfswaqgt dtilademgl gktiqtivfl yslykeghtk
      841 gpflvsapls tiinwerefq mwapkfyvvt ytgdkdsrai irenefsfed naikggkkaf
      901 kmkreaqvkf hvlltsyeli tidqaalgsi rwaclvvdea hrlknnqskf frvlngykid
      961 hkllltgtpl qnnleelfhl lnfltperfn nlegfleefa diskedqikk lhdllgphml
     1021 rrlkadvfkn mpaktelivr velspmqkky ykyiltrnfe alnsrgggnq vsllnimmdl
     1081 kkccnhpylf pvaamespkl psgayeggal ikssgkllll qkmlrklkeq ghrvlifsqm
     1141 tkmldlledf ldyegykyer idggitgalr qeaidrfnap gaqqfcflls tragglginl
     1201 atadtviifd sdwnphndiq afsrahrigq ankvmiyrfv trasveerit qvakrkmmlt
     1261 hlvvrpglgs kagsmskqel ddilkfgtee lfkdenegen keedssvihy dneaiarlld
     1321 rnqdatddtd vqnmneylss fkvaqyvvre edkieeiere iikqeenvdp dywekllrhh
     1381 yeqqqedlar nlgkgkrvrk qvnyndaaqe dqdnqseysv gseeededfd erpegrrqsk
     1441 rqlrnekdkp lppllarvgg nievlgfntr qrkaflnavm rwgmppqdaf ttqwlvrdlr
     1501 gktekefkay vslfmrhlce pgadgsetfa dgvpreglsr qqvltrigvm slvkkkvqef
     1561 ehingrwsmp elmpdpsads krssrasspt ktspttpeas ttnspctskp atpapsekgd
     1621 gvrtllekdd tenpeekpek sskvgekmet eidspspaps lgerlehrki lleddapgvp
     1681 geiepepgyr gdreksasep tpgergeekp ldgqehrert egetgdlgkr edvkadrelr
     1741 lgpprdeprp ngrreekvek prfmfniadg gftelhtlwq neeraaissg klneiwhrrh
     1801 dywllagivl hgyarwqdiq ndaqfaiine pfkteankgn flemknkfla rrfklleqal
     1861 vieeqlrraa ylnlsqepah pamalharfa eaeclaeshq hlskeslagn kpanavlhkv
     1921 lnqleellsd mkadvtrlpa tlsrippiaa rlqmsersil srlaskgtep hptpafppgp
     1981 yatppgygaa fsaapvgala aaganysqmp agsfitattn gppvlvkkek emvgalvsdg
     2041 lgldrkepra gevicidd
//
