SYDE2_HUMAN
ID SYDE2_HUMAN Reviewed; 1194 AA.
AC Q5VT97; Q5VT96; Q8NDB8; Q9H8A6;
DT 04-DEC-2007, integrated into UniProtKB/Swiss-Prot.
DT 08-MAR-2011, sequence version 2.
DT 03-AUG-2022, entry version 138.
DE RecName: Full=Rho GTPase-activating protein SYDE2;
DE AltName: Full=Synapse defective protein 1 homolog 2;
DE Short=Protein syd-1 homolog 2;
GN Name=SYDE2;
OS Homo sapiens (Human).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae;
OC Homo.
OX NCBI_TaxID=9606;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RX PubMed=16710414; DOI=10.1038/nature04727;
RA Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A.,
RA Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C.,
RA Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.,
RA Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C.,
RA Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W.,
RA Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J.,
RA Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J.,
RA Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y.,
RA Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J.,
RA Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H.,
RA Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L.,
RA Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J.,
RA Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S.,
RA Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K.,
RA Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R.,
RA Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M.,
RA Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S.,
RA Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J.,
RA Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W.,
RA McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N.,
RA Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V.,
RA Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J.,
RA Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E.,
RA Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S.,
RA Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M.,
RA White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H.,
RA Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E.,
RA Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G.,
RA Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.;
RT "The DNA sequence and biological annotation of human chromosome 1.";
RL Nature 441:315-321(2006).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-123 (ISOFORMS 1/2).
RG The Cancer Genome Anatomy Project (CGAP) at the National Cancer Institute;
RL Submitted (NOV-2002) to the EMBL/GenBank/DDBJ databases.
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 76-638 (ISOFORMS 1/2), AND
RP VARIANT ILE-569.
RC TISSUE=Thyroid;
RX PubMed=14702039; DOI=10.1038/ng1285;
RA Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R.,
RA Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H.,
RA Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.,
RA Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K.,
RA Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H.,
RA Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M.,
RA Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K.,
RA Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T.,
RA Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M.,
RA Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S.,
RA Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H.,
RA Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K.,
RA Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N.,
RA Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S.,
RA Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O.,
RA Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H.,
RA Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B.,
RA Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y.,
RA Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K.,
RA Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T.,
RA Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T.,
RA Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y.,
RA Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H.,
RA Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y.,
RA Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H.,
RA Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O.,
RA Isogai T., Sugano S.;
RT "Complete sequencing and characterization of 21,243 full-length human
RT cDNAs.";
RL Nat. Genet. 36:40-45(2004).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 162-1194 (ISOFORM 2), AND VARIANT
RP ILE-569.
RC TISSUE=Lymph node;
RX PubMed=17974005; DOI=10.1186/1471-2164-8-399;
RA Bechtel S., Rosenfelder H., Duda A., Schmidt C.P., Ernst U.,
RA Wellenreuther R., Mehrle A., Schuster C., Bahr A., Bloecker H., Heubner D.,
RA Hoerlein A., Michel G., Wedler H., Koehrer K., Ottenwaelder B., Poustka A.,
RA Wiemann S., Schupp I.;
RT "The full-ORF clone resource of the German cDNA consortium.";
RL BMC Genomics 8:399-399(2007).
RN [5]
RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-622, AND IDENTIFICATION BY
RP MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC TISSUE=Cervix carcinoma;
RX PubMed=18669648; DOI=10.1073/pnas.0805139105;
RA Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E.,
RA Elledge S.J., Gygi S.P.;
RT "A quantitative atlas of mitotic phosphorylation.";
RL Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008).
RN [6]
RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-622, AND IDENTIFICATION BY
RP MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC TISSUE=Leukemic T-cell;
RX PubMed=19690332; DOI=10.1126/scisignal.2000007;
RA Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K.,
RA Rodionov V., Han D.K.;
RT "Quantitative phosphoproteomic analysis of T cell receptor signaling
RT reveals system-wide modulation of protein-protein interactions.";
RL Sci. Signal. 2:RA46-RA46(2009).
RN [7]
RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-622, AND IDENTIFICATION BY
RP MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RX PubMed=21406692; DOI=10.1126/scisignal.2001570;
RA Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T.,
RA Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B.;
RT "System-wide temporal characterization of the proteome and phosphoproteome
RT of human embryonic stem cell differentiation.";
RL Sci. Signal. 4:RS3-RS3(2011).
RN [8]
RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-315; SER-317 AND SER-622, AND
RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC TISSUE=Erythroleukemia;
RX PubMed=23186163; DOI=10.1021/pr300630k;
RA Zhou H., Di Palma S., Preisinger C., Peng M., Polat A.N., Heck A.J.,
RA Mohammed S.;
RT "Toward a comprehensive characterization of a human cancer cell
RT phosphoproteome.";
RL J. Proteome Res. 12:260-271(2013).
CC -!- FUNCTION: GTPase activator for the Rho-type GTPases by converting them
CC to an inactive GDP-bound state. {ECO:0000250}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q5VT97-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q5VT97-2; Sequence=VSP_029718, VSP_029719;
CC -!- CAUTION: It is uncertain whether Met-1 or Met-79 is the initiator.
CC {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAB14711.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};
CC Sequence=BAB14711.1; Type=Miscellaneous discrepancy; Note=Probable cloning artifact.; Evidence={ECO:0000305};
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DR EMBL; AL603750; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; BF196265; -; NOT_ANNOTATED_CDS; mRNA.
DR EMBL; AK023877; BAB14711.1; ALT_SEQ; mRNA.
DR EMBL; AL834286; CAD38960.1; -; mRNA.
DR CCDS; CCDS44169.1; -. [Q5VT97-1]
DR RefSeq; NP_115560.1; NM_032184.1. [Q5VT97-1]
DR AlphaFoldDB; Q5VT97; -.
DR SMR; Q5VT97; -.
DR BioGRID; 123912; 38.
DR IntAct; Q5VT97; 27.
DR STRING; 9606.ENSP00000340594; -.
DR iPTMnet; Q5VT97; -.
DR PhosphoSitePlus; Q5VT97; -.
DR BioMuta; SYDE2; -.
DR DMDM; 325511351; -.
DR EPD; Q5VT97; -.
DR jPOST; Q5VT97; -.
DR MassIVE; Q5VT97; -.
DR MaxQB; Q5VT97; -.
DR PaxDb; Q5VT97; -.
DR PeptideAtlas; Q5VT97; -.
DR PRIDE; Q5VT97; -.
DR ProteomicsDB; 65314; -. [Q5VT97-1]
DR ProteomicsDB; 65315; -. [Q5VT97-2]
DR Antibodypedia; 9398; 30 antibodies from 11 providers.
DR DNASU; 84144; -.
DR Ensembl; ENST00000341460.6; ENSP00000340594.5; ENSG00000097096.9. [Q5VT97-1]
DR GeneID; 84144; -.
DR KEGG; hsa:84144; -.
DR MANE-Select; ENST00000341460.6; ENSP00000340594.5; NM_032184.2; NP_115560.1.
DR UCSC; uc009wcm.4; human. [Q5VT97-1]
DR CTD; 84144; -.
DR GeneCards; SYDE2; -.
DR HGNC; HGNC:25841; SYDE2.
DR HPA; ENSG00000097096; Low tissue specificity.
DR neXtProt; NX_Q5VT97; -.
DR OpenTargets; ENSG00000097096; -.
DR VEuPathDB; HostDB:ENSG00000097096; -.
DR eggNOG; KOG1452; Eukaryota.
DR GeneTree; ENSGT01030000234635; -.
DR HOGENOM; CLU_005764_1_0_1; -.
DR InParanoid; Q5VT97; -.
DR OMA; QHSYQKK; -.
DR OrthoDB; 1300981at2759; -.
DR PhylomeDB; Q5VT97; -.
DR TreeFam; TF323458; -.
DR PathwayCommons; Q5VT97; -.
DR Reactome; R-HSA-9013149; RAC1 GTPase cycle.
DR SignaLink; Q5VT97; -.
DR SIGNOR; Q5VT97; -.
DR BioGRID-ORCS; 84144; 10 hits in 1072 CRISPR screens.
DR ChiTaRS; SYDE2; human.
DR GenomeRNAi; 84144; -.
DR Pharos; Q5VT97; Tdark.
DR PRO; PR:Q5VT97; -.
DR Proteomes; UP000005640; Chromosome 1.
DR RNAct; Q5VT97; protein.
DR Bgee; ENSG00000097096; Expressed in calcaneal tendon and 109 other tissues.
DR GO; GO:0005829; C:cytosol; TAS:Reactome.
DR GO; GO:0097060; C:synaptic membrane; IBA:GO_Central.
DR GO; GO:0005096; F:GTPase activator activity; ISS:UniProtKB.
DR GO; GO:0090630; P:activation of GTPase activity; ISS:UniProtKB.
DR GO; GO:0016477; P:cell migration; IDA:MGI.
DR GO; GO:0046578; P:regulation of Ras protein signal transduction; IBA:GO_Central.
DR GO; GO:0051056; P:regulation of small GTPase mediated signal transduction; TAS:Reactome.
DR GO; GO:0007165; P:signal transduction; IEA:InterPro.
DR Gene3D; 1.10.555.10; -; 1.
DR Gene3D; 2.60.40.150; -; 1.
DR InterPro; IPR000008; C2_dom.
DR InterPro; IPR035892; C2_domain_sf.
DR InterPro; IPR008936; Rho_GTPase_activation_prot.
DR InterPro; IPR000198; RhoGAP_dom.
DR Pfam; PF00620; RhoGAP; 1.
DR SMART; SM00324; RhoGAP; 1.
DR SUPFAM; SSF48350; SSF48350; 1.
DR SUPFAM; SSF49562; SSF49562; 1.
DR PROSITE; PS50004; C2; 1.
DR PROSITE; PS50238; RHOGAP; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; GTPase activation; Phosphoprotein;
KW Reference proteome.
FT CHAIN 1..1194
FT /note="Rho GTPase-activating protein SYDE2"
FT /id="PRO_0000312160"
FT DOMAIN 660..779
FT /note="C2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00041"
FT DOMAIN 816..1031
FT /note="Rho-GAP"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00172"
FT REGION 1..106
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 133..182
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 1057..1080
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1063..1080
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOD_RES 315
FT /note="Phosphoserine"
FT /evidence="ECO:0007744|PubMed:23186163"
FT MOD_RES 317
FT /note="Phosphoserine"
FT /evidence="ECO:0007744|PubMed:23186163"
FT MOD_RES 622
FT /note="Phosphoserine"
FT /evidence="ECO:0007744|PubMed:18669648,
FT ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:21406692,
FT ECO:0007744|PubMed:23186163"
FT VAR_SEQ 850..863
FT /note="VGLYRLCGSAAVKK -> LSYYGSLLLPLLID (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:17974005"
FT /id="VSP_029718"
FT VAR_SEQ 864..1194
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:17974005"
FT /id="VSP_029719"
FT VARIANT 484
FT /note="I -> M (in dbSNP:rs12090608)"
FT /id="VAR_037419"
FT VARIANT 569
FT /note="V -> I (in dbSNP:rs817443)"
FT /evidence="ECO:0000269|PubMed:14702039,
FT ECO:0000269|PubMed:17974005"
FT /id="VAR_037420"
FT VARIANT 1157
FT /note="V -> I (in dbSNP:rs709786)"
FT /id="VAR_037421"
FT CONFLICT 70
FT /note="R -> A (in Ref. 2; BF196265)"
FT /evidence="ECO:0000305"
FT CONFLICT 118
FT /note="E -> K (in Ref. 2; BF196265)"
FT /evidence="ECO:0000305"
FT CONFLICT 175
FT /note="Q -> P (in Ref. 3; BAB14711)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 1194 AA; 133230 MW; 592A8A0D29BC02BE CRC64;
MHDLPPDSGA RRGGRGLADH SFPAGARAPG QPPSRGAAYR RACPRDGERG GGGRPRQQVS
PPRSPQREPR GGQLRTPRMR PSCSRSLESL RVGAKPPPFQ RWPSDSWIRC GAHRDWDEPP
PRGGRMDGWS GDRARAAAPT GLQPPGCKDH GCSSGSPFRD PAGSSVIRSG KGDRQEGPSF
LRPPAVTVKK LQKWMYKGRL LSLGMKGRAR GTAPKVTGTQ AASPNVGALK VRENRVLSVP
PDQRITLTDL FENAYGSSMK GRELEELKDN IEFRGHKPLN SITVSKKRNW LYQSTLRPLN
LEEENKKCQD RSHLSISPVS LPKHQLSQSF LKSSKEYCTY VVCNATNSSL SKNCALDFNE
ENDADDEGEI WYNPIPEDDD LGISSALSFG EADSAVLKLP AVNLSMLSGS DLMKAERHTE
DSLCSSEHAG DIQTTRSNGM NPIHPAHSTE FVQQYKQKLG HKTQEGIMVE DSPMLKSPFA
GSGILAATNS TELGIMEPSS PNPSPVKKGS SINWSLPDKI KSPRTVRKLS MKMKKLPEFS
RKLSVKGTLN YINSPDNTPS LSKYNCREVH HTDILPSGNT TTAAKRNVIS RYHLDTSVSS
QQSYQKKNSM SSKYSCKGGY LSDGDSPELT TKASKHGSEN KFGKGKEIIS NSCSKNEIDI
DAFRHYSFSD QPKCSQYISG LMSVHFYGAE DLKPPRIDSK DVFCAIQVDS VNKARTALLT
CRTTFLDMDH TFNIEIENAQ HLKLVVFSWE PTPRKNRVCC HGTVVLPTLF RVTKTHQLAV
KLEPRGLIYV KVTLMEQWEN SLHGLDINQE PIIFGVDIQK VVEKENIGLM VPLLIQKCIM
EIEKRGCQVV GLYRLCGSAA VKKELREAFE RDSKAVGLCE NQYPDINVIT GVLKDYLREL
PSPLITKQLY EAVLDAMAKS PLKMSSNGCE NDPGDSKYTV DLLDCLPEIE KATLKMLLDH
LKLVASYHEV NKMTCQNLAV CFGPVLLSQR QEPSTHNNRV FTDSEELASA LDFKKHIEVL
HYLLQLWPVQ RLTVKKSTDN LFPEQKSSLN YLRQKKERPH MLNLSGTDSS GVLRPRQNRL
DSPLSNRYAG DWSSCGENYF LNTKENLNDV DYDDVPSEDR KIGENYSKMD GPEVMIEQPI
PMSKECTFQT YLTMQTVEST VDRKNNLKDL QESIDTLIGN LERELNKNKL NMSF
