#=GF ID CoV_S2_C
#=GF AC PF19214.4
#=GF DE Coronavirus spike glycoprotein S2, intravirion
#=GF PI Corona_Spike_C; Corona_S2_C;
#=GF AU Bateman A;0000-0002-6982-4660
#=GF AU Chuguransky S;0000-0002-0520-0736
#=GF SE Bateman A
#=GF GA 27.00 27.00;
#=GF TC 28.90 27.90;
#=GF NC 26.50 23.70;
#=GF BM hmmbuild HMM.ann SEED.ann
#=GF SM hmmsearch --cpu 4 -E 1000 -Z 75585367 HMM pfamseq
#=GF TP Domain
#=GF RN [1]
#=GF RM 19801669
#=GF RT Role of spike protein endodomains in regulating coronavirus
#=GF RT entry.
#=GF RA Shulla A, Gallagher T;
#=GF RL J Biol Chem. 2009;284:32725-32734.
#=GF DR INTERPRO; IPR043614;
#=GF DR SO; 0000417; polypeptide_domain;
#=GF CC This entry represents the cysteine rich intravirion region found
#=GF CC at the C-terminus of coronavirus spike proteins (S) [1]. These
#=GF CC cysteine residues are targets for palmitoylation, necessary for
#=GF CC efficiently S incorporation into virions and S-mediated membrane
#=GF CC fusions.
#=GF SQ 69
#=GS A0A0U1UZD0_9ALPC/1303-1343 AC A0A0U1UZD0.1
#=GS C6GHB7_9ALPC/1426-1465 AC C6GHB7.1
#=GS E0ZN60_BCHK9/1240-1280 AC E0ZN60.1
#=GS SPIKE_CVPPU/1408-1447 AC P07946.2
#=GS SPIKE_BCHK5/1317-1352 AC A3EXD0.1
#=GS A0A1L7HJ82_9ALPC/1098-1134 AC A0A1L7HJ82.1
#=GS SPIKE_CVMA5/1285-1322 AC P11224.2
#=GS V9PIU7_9ALPC/1413-1452 AC V9PIU7.1
#=GS Q77NQ7_CVM2/1322-1359 AC Q77NQ7.1
#=GS SPIKE_CVHNL/1316-1356 AC Q6Q1S2.1
#=GS C0KYU0_9BETC/1337-1374 AC C0KYU0.1
#=GS SPIKE_IBVB/1113-1162 AC P11223.1
#=GS A0A0U1UZ37_9ALPC/1218-1255 AC A0A0U1UZ37.1
#=GS SPIKE_BCHK9/1232-1274 AC A3EXG6.1
#=GS A0A3G8EWD5_9ALPC/1359-1399 AC A0A3G8EWD5.1
#=GS A0A0U1WHD9_9ALPC/1342-1378 AC A0A0U1WHD9.1
#=GS A7BKC2_9BETC/1327-1363 AC A7BKC2.1
#=GS SPIKE_CVHN5/1315-1350 AC Q0ZME7.1
#=GS A0A0U1WHB7_9ALPC/1339-1376 AC A0A0U1WHB7.1
#=GS A0A0K2RVL1_9BETC/1327-1363 AC A0A0K2RVL1.1
#=GS A0A0S2ZWY7_9GAMC/1149-1198 AC A0A0S2ZWY7.1
#=GS Q19U39_CVHK1/1315-1350 AC Q19U39.1
#=GS A0A4D6FWE9_9GAMC/1135-1184 AC A0A4D6FWE9.1
#=GS A0A059VFK8_9ALPC/1347-1386 AC A0A059VFK8.1
#=GS SPIKE_CVH22/1135-1173 AC P15423.1
#=GS K4JZP8_9ALPC/1315-1351 AC K4JZP8.1
#=GS A0A023Y9K3_MERS/1285-1322 AC A0A023Y9K3.1
#=GS A0A1B3Q5W5_9BETC/1250-1290 AC A0A1B3Q5W5.1
#=GS A0A0U1WHM0_BCHK5/1318-1353 AC A0A0U1WHM0.1
#=GS A0A0U1UYV9_9ALPC/1342-1378 AC A0A0U1UYV9.1
#=GS B7U2N3_9BETC/1327-1363 AC B7U2N3.1
#=GS B1PHK2_9ALPC/1339-1375 AC B1PHK2.1
#=GS U5LNM4_9BETC/1294-1330 AC U5LNM4.1
#=GS E0ZN36_BCHK9/1229-1269 AC E0ZN36.1
#=GS A0A0F6YS09_9GAMC/1142-1191 AC A0A0F6YS09.1
#=GS A0A140ESF1_9NIDO/1118-1160 AC A0A140ESF1.1
#=GS A0A2Z4EVK1_9NIDO/1229-1269 AC A0A2Z4EVK1.1
#=GS SPIKE_FIPV/1413-1452 AC P10033.1
#=GS H9BR00_9NIDO/1164-1206 AC H9BR00.1
#=GS A0A125R5A5_9ALPC/1428-1467 AC A0A125R5A5.1
#=GS R9UQ53_MERS/1316-1353 AC R9UQ53.1
#=GS E0ZN52_BCHK9/1229-1269 AC E0ZN52.1
#=GS SPIKE_CVP67/1313-1349 AC Q8BB25.1
#=GS B6VDX8_THCOV/1151-1192 AC B6VDX8.1
#=GS B1PHI8_9ALPC/1338-1384 AC B1PHI8.1
#=GS A0A0Y0RQT7_9ALPC/1410-1449 AC A0A0Y0RQT7.1
#=GS H9BR17_9NIDO/1199-1243 AC H9BR17.1
#=GS B3FHU5_CVTKE/1160-1206 AC B3FHU5.1
#=GS A0A240FW18_9ALPC/1101-1134 AC A0A240FW18.1
#=GS A0A0A7UZR7_9BETC/1322-1358 AC A0A0A7UZR7.1
#=GS S5YNL4_9ALPC/1325-1364 AC S5YNL4.1
#=GS A3EXH4_BCHK9/1235-1275 AC A3EXH4.1
#=GS A0A1L2KGD3_9ALPC/1335-1373 AC A0A1L2KGD3.1
#=GS A0A075E3N9_9NIDO/1118-1160 AC A0A075E3N9.1
#=GS A3EXJ0_BCHK9/1232-1272 AC A3EXJ0.1
#=GS I1VWF5_CVH22/1131-1169 AC I1VWF5.1
#=GS A8JNZ2_9ALPC/1088-1128 AC A8JNZ2.1
#=GS A0A172AZS6_9ALPC/1397-1438 AC A0A172AZS6.1
#=GS Q2QKN3_9BETC/1313-1349 AC Q2QKN3.1
#=GS SPIKE_BC512/1332-1371 AC Q0Q466.1
#=GS A0A1X9JJW0_9ALPC/1090-1126 AC A0A1X9JJW0.1
#=GS I7B987_9BETC/1196-1233 AC I7B987.1
#=GS H9BR25_9NIDO/1162-1200 AC H9BR25.1
#=GS A0A0U1WHD7_9ALPC/1346-1387 AC A0A0U1WHD7.1
#=GS H9BR08_9NIDO/1175-1216 AC H9BR08.1
#=GS D9J204_9ALPC/1387-1429 AC D9J204.1
#=GS SPIKE_BCHK4/1317-1352 AC A3EX94.1
#=GS A0A088DJY6_9BETC/1281-1317 AC A0A088DJY6.1
#=GS H9BR35_9NIDO/1170-1214 AC H9BR35.1
A0A0U1UZD0_9ALPC/1303-1343 .WCCIATGCCGCC.-...SCi.....taSCA.GCCDCRGKR....---LQRYEVEKIHIQ...........
C6GHB7_9ALPC/1426-1465 .FCCLSTGCCG-C.F...GC........-LG.SCCHSLCSR....RQFESYEPIEKVHVH...........
E0ZN60_BCHK9/1240-1280 .MLLCMTNCCSCFkG...MC........ACK.PCH--YDEV....EDVYPAVRVYNKRT-a..........
SPIKE_CVPPU/1408-1447 .FCCCSTGCCG-C.I...GC........-LG.SCCHSICSR....RQFENYEPIEKVHVH...........
SPIKE_BCHK5/1317-1352 .FILCCTGCGTSC.L...GK.......lKCN.RCCDSYDEY....E-------VEKIHVH...........
A0A1L7HJ82_9ALPC/1098-1134 .WCCCATGCCGCC.G...LCg......aACN.GCCTK----....--PQPIE-FEKVHVQ...........
SPIKE_CVMA5/1285-1322 .FICCCTGCGSCC.F...KK........-CG.NCCDEYGGH....QDSI---VIHNI---ssh........
V9PIU7_9ALPC/1413-1452 .FCCFSTGCCG-C.I...GC........-LG.SCCHSICSR....RQFENYEPIEKVHVH...........
Q77NQ7_CVM2/1322-1359 .FICCCTGCGSCC.F...KK........-CG.NCCDECGGH....QDSI---VIHNI---ssh........
SPIKE_CVHNL/1316-1356 .FCCLSTGCCGCCnC...LT.......sSMR.GCCDCGSTK....---LPYYEFEKVHVQ...........
C0KYU0_9BETC/1337-1374 .FICCCTGCGSCC.F...RK........-CG.SCCDEYGGH....QDSI---VIHNI---sah........
SPIKE_IBVB/1113-1162 .WVFFMTGCCGCC.C...GCfgimplmsKCG.KKSSYYTTF....DNDVVTEQYRPKKS-v..........
A0A0U1UZ37_9ALPC/1218-1255 .YCCIATGCCG-C.L...SC........IFS.SCADCRGRR....---LQRYEVEKIHIQ...........
SPIKE_BCHK9/1232-1274 .MLMCMTNCCSCFkG...MC........DCR.RCCGSYDSY....DDVYPAVRVNKKRT-v..........
A0A3G8EWD5_9ALPC/1359-1399 .WCCIATGCCGCC.-...SCi.....taSCA.GCCDCRGRN....---LQRYEVEKVHVQ...........
A0A0U1WHD9_9ALPC/1342-1378 .WCCLSTGCCGCC.-...SC........-MA.STLDFRGSR....---LQQYEVEKVHIQ...........
A7BKC2_9BETC/1327-1363 .FICCCTGCGTSC.F...KI........-CG.GCCDDYTGH....QELV----IKTSH--dd.........
SPIKE_CVHN5/1315-1350 .FICCCTGCGSAC.F...SK........-CH.NCCDEYGGH....NDFV-----------ikashd.....
A0A0U1WHB7_9ALPC/1339-1376 .WCCLATGCCGCC.-...SC........LVN.SCSDCGGRR....---LQRYEIEKVHIQ...........
A0A0K2RVL1_9BETC/1327-1363 .FICCCTGCGTSC.F...KK........-CG.GCCDDYTGH....QELV----IKTSH--dd.........
A0A0S2ZWY7_9GAMC/1149-1198 .WVFFMTGCCGCC.C...GCfgiiplmsKCG.KKSSYYTTF....DNDVVTEQYKPKKS-v..........
Q19U39_CVHK1/1315-1350 .FICCCTGCGSAC.F...SK........-CH.NCCDEYGGH....NDFV-----------ikashd.....
A0A4D6FWE9_9GAMC/1135-1184 .WIFFMTGCCGGC.C...GCcgliplaqRCS.KKSSYYQTF....DDDVVGERIRPKK--nv.........
A0A059VFK8_9ALPC/1347-1386 .FCCISTGCCGCC.-...GC........-CC.ACFSGCCRG....PRLQPYEVFEKVHVQ...........
SPIKE_CVH22/1135-1173 .LCCCSTGCCG-F.F...SCf.....asSIR.GCCES----....-TKLPYYDVEKIHIQ...........
K4JZP8_9ALPC/1315-1351 .YCCCATGCCG-C.F...SC........-LS.NSCDCRGKN....---LQRYEVEKVHIQ...........
A0A023Y9K3_MERS/1285-1322 .FLLCCTGCGTNC.M...GK.......lKCN.RCCDKYDDY....D-----VEPHKIHVH...........
A0A1B3Q5W5_9BETC/1250-1290 l-LLCMTNCCSCArG...VC........SCK.SCA--YEEH....EDVYPAVRVHGKRT-a..........
A0A0U1WHM0_BCHK5/1318-1353 .FILCCTGCGTSC.L...GK.......lKCN.RCCDSYDEY....E-------VEKIHVH...........
A0A0U1UYV9_9ALPC/1342-1378 .WCCLSTGCCGCC.-...SC........-MA.STLDFRGSR....---LQQYEVEKVHIQ...........
B7U2N3_9BETC/1327-1363 .FICCCTGCGTSC.F...KK........-CG.GCCDDYTGH....QELV----IKTSH--dd.........
B1PHK2_9ALPC/1339-1375 .WCCLATGCCGCC.-...SC........-MA.STLDFRGSR....---LQQYEVEKVHIQ...........
U5LNM4_9BETC/1294-1330 .FILCCTGCGTSC.L...GK.......iNCT.RCCDKYDDF....DM------PEKIHIH...........
E0ZN36_BCHK9/1229-1269 .MLLCMTNCCSCFkG...MC........SCK.QCH--YDEV....DDVYPAVRVYNKRT-a..........
A0A0F6YS09_9GAMC/1142-1191 .WIFFMTGCCGCC.C...GCfgiiplmyKCS.KKSSYYTTF....DDDVVGEQIRPKK--fv.........
A0A140ESF1_9NIDO/1118-1160 .TIFLCTGCCGGC.F...GC........-CG.GCFGLFSKKk.ryTDDQPTP-SFKFK--ew.........
A0A2Z4EVK1_9NIDO/1229-1269 .MLCCMTNCCSGFrG...IC........SCK.QC--QYDDY....ADVYPAVRVSGKRT-v..........
SPIKE_FIPV/1413-1452 .FCCFSTGCCG-C.I...GC........-LG.SCCHSICSR....RQFENYEPIEKVHVH...........
H9BR00_9NIDO/1164-1206 .TIFLCTGCCGGC.F...GC........-CG.GCFGLFSKKk.ryTDDHPTP-SFKFK--ew.........
A0A125R5A5_9ALPC/1428-1467 .FCCLSTGCCG-C.F...GC........-LG.SCCHSLCSR....RHFENYEPIEKVHIH...........
R9UQ53_MERS/1316-1353 .FILCCTGCGTNC.M...GK.......lKCN.RCCDRYEEY....D-L----EPHKVHVH...........
E0ZN52_BCHK9/1229-1269 .MLLCMTNCCSCFkG...MC........SCK.QCH--YDEV....DDVYPAVRVYNKRT-a..........
SPIKE_CVP67/1313-1349 .FICCCTGCGTSC.F...KK........-CG.GCCDDYTGH....QEFV----IKTSH--dd.........
B6VDX8_THCOV/1151-1192 .TIFLCTGCCGGC.F...GC........-CG.GCFGLFSKR...kFDSDPTPVSFKLKEW...........
B1PHI8_9ALPC/1338-1384 .WCCLATGCCGCYnCllkSC.......sDCG.GNAYNVTKL....RKSTFSNVGWSLSV-a..........
A0A0Y0RQT7_9ALPC/1410-1449 .FCCCSTGCCG-C.I...GC........-LG.SCCHSICSR....RQFENYEPIEKVHVH...........
H9BR17_9NIDO/1199-1243 .TIFLCTGCCGGC.F...GC........-CG.GCFGLFSKKidpmRQYMNRYE-------tptsksd....
B3FHU5_CVTKE/1160-1206 .WVFFMTGCCGCC.C...GCfgiiplmsKCG.KKSSYYTTF....DNDVVYN--------ktdlk......
A0A240FW18_9ALPC/1101-1134 .WIFMCTGCCGLCdC...IR........--R.SCCDS----....---NTYEPIEKIHIQ...........
A0A0A7UZR7_9BETC/1322-1358 .FVCCCTGCGSSC.F...KK........-CG.SCCDDYGGH....QDIV----VKTSH--dd.........
S5YNL4_9ALPC/1325-1364 .FCCIATGCCGCC.-...GC........-CA.SCLTGCCKG....PRLQPYEAIEKVHVQ...........
A3EXH4_BCHK9/1235-1275 .MLLCMTNCCSCFkG...MC........ACK.PCH--YDEV....EDVYPAVRVYNKRT-a..........
A0A1L2KGD3_9ALPC/1335-1373 .FCCIGTGCCGCC.-...SCl.....agSLG.SCCGS----....TKLKPYE-FEKVHIQ...........
A0A075E3N9_9NIDO/1118-1160 .TIFLCTGCCGGC.F...GC........-CG.GCFGLFSKKk.ryTDDQPTP-SFKFK--ew.........
A3EXJ0_BCHK9/1232-1272 .MLLCMTNCCSCFkG...MC........SCR.HC--YYDEI....EDVYPAVRVHNKRT-a..........
I1VWF5_CVH22/1131-1169 .LCCCSTGCCG-F.F...SCl.....asSTR.GCCES----....T-KLPYYDVEKIHIQ...........
A8JNZ2_9ALPC/1088-1128 .WCCLATGCCGMC.-...GCl.....aaTCA.SCCDCRGTK....---LQSYEIEKIHIQ...........
A0A172AZS6_9ALPC/1397-1438 .FCCLSTGCCGCCgCl.tSC........-LA.GCCKNSCKR....PS--YYEPMEKVHIN...........
Q2QKN3_9BETC/1313-1349 .FICCCTGCGTSC.F...KK........-CG.GCCDDYTGH....QEFV----IKTSH--dd.........
SPIKE_BC512/1332-1371 .FCCISTGCCGCC.-...GC........-CG.SCFSGCCRG....TKLQHYEPIEKVHVQ...........
A0A1X9JJW0_9ALPC/1090-1126 .WCCCATGCCGCC.G...MLg......sACN.GCCTKPQT-....------VEFEKVHVQ...........
I7B987_9BETC/1196-1233 .FICCCTGCGSCC.F...RK........-CG.SCCDEYGGH....QDSI---VIHNI---sah........
H9BR25_9NIDO/1162-1200 .TIFLCTGCCGGC.F...GC........-FG.GCCGLFSRV....KHH------------efshlpveeq.
A0A0U1WHD7_9ALPC/1346-1387 .FCCCSTGCCGIFsC...MA.......sSCG.ACCDIRG--....TKLQRYEAIEKVHVQ...........
H9BR08_9NIDO/1175-1216 .TIFLCTGCCGGC.F...GC........-CG.GCFGLFSHN....KRNTE----------sipitsfklke
D9J204_9ALPC/1387-1429 .FCCLSTGCCGCC.-...GCl......sSCAaGCCKYGCSR....-DLSRYEPIEKVHVN...........
SPIKE_BCHK4/1317-1352 .FLLCCTGCGTSC.L...GK.......mKCK.NCCDSYEEY....D-------VEKIHVH...........
A0A088DJY6_9BETC/1281-1317 .MLCCMTSCCSCFkG...LC........ACK.RCCDSFDEP....DE------PIKYH--yp.........
H9BR35_9NIDO/1170-1214 .TIFLCTGCCGGC.F...GC........-FG.GCCGLFRKHkfyeEDTKQTPVFFKVKEW...........
#=GC seq_cons .ahChsTGCCGsC.h...uC.........Cu.uCCsphsph....pp.h.h..lcph+h............
//
