HHsearch 1.5 NAME c9in1D_ FAM FILE c9in1D_ COM /bmm/www/servers/phyre2/HH/hhmake -i c9in1D_.a3m DATE Sat Apr 5 13:19:12 2025 LENG 111 match states, 111 columns in multiple alignment FILT 19 out of 21 sequences passed filter (-id 90 -cov 0 -qid 0 -qsc -20.00 -diff 100) NEFF 3.6 EVD 0.4435 1.3594 SEQ >ss_pred CCCCCCEEECCCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHCCCCCHHHHHHHCCCHHHHHHCCCEEEECCCCEEEEEEEEEEEECCCCCCHHHHHHHH HHHHHHHHCCC >ss_conf 9868410106899973011220358764545558688998310473765798848897885313321210059839999999898477888989999999 99988862387 >Consensus xxxKprxKRtxxkxxxVxqxFGxRGpxxxxxNFGdxexvxxGvxdxxxpqlAelvPxxxAxlFxSxvxxkxxxdxxxltytxxxxvxkxdpxxxxxxxxl xaxvdaxxxxP >c9in1D_ ASKKPRQKRTATKAYNVTQAFGRRGPEQTQGNFGDQELIRQGTDYKHWPQIAQFAPSASAFFGMSRIGMEVTPSGTWLTYTGAIKLDDKDPNFKDQVILL NKHIDAYKTFP >UniRef50_Q6Q1R8(232-326:377) Nucleoprotein n=17 Tax=Human coronavirus NL63 RepID=NCAP_CVHNL E=1e-08 s/c=0.64 id=38% cov=84% --KKPRWKRVPTREENVIQCF---GPRDFNHNMGDSDLVQNGVDAKGFPQLAELIPNQAALFFDSEVSTDEVGDNVQITYTYKMLVakDNKNlPKFIEQI -------------- >UniRef50_P59713(269-381:457) Nucleoprotein n=40 Tax=Coronavirinae RepID=NCAP_CVPV E=3e-29 s/c=1.14 id=41% cov=95% --NKPRQKRTPNKQCPVQQCFGKRGPNQ---NFGGPEMLKLGTSDPQFPILAELAPTAGAFFFGSKLELvkknsvgvdEPTKDVYELQYSGAVRFDSTLP GFETIMKVLRENLNAYQN-- >UniRef50_Q0Q462(235-335:394) Nucleoprotein n=1 Tax=Scotophilus bat coronavirus 512 RepID=NCAP_BC512 E=3e-28 s/c=1.24 id=29% cov=92% AKDKPEWRRTPSGDESVEVCFGPRGGTR---NFGSSEFVAKGVNAPGYAQAASLVPGAAALLFGGNVATKEMADGVEITYTYKMLVPKDDKNLE----IF LAQVDAYK--- >UniRef50_P15130(245-352:389) Nucleoprotein n=26 Tax=Coronavirinae RepID=NCAP_CVH22 E=3e-23 s/c=1.01 id=30% cov=96% --QKPRWKRQPNDDvtSNVTQCF---GPRDLDHNFGSAGVVANGVKAKGYPQFAELVPSTAAMLFDSHIVSKESGNTVVLTFTTRVTVPKDHPHLGKFLE ELNAFTREMQQHP >UniRef50_P05991(232-330:382) Nucleoprotein n=87 Tax=Coronavirinae RepID=NCAP_CVPFS E=6e-17 s/c=0.89 id=32% cov=88% -ENKHTWKRTAGKG-DVTRFYGAR---SSSANFGDSDLVANGSSAKHYPQLAECVPSVSSILFGSYWTSKEDGDQIEVTFTHKYHLPKDDPKTEQFLQQI NA--------- >UniRef50_B2BW44(223-316:379) Nucleocapsid protein n=1 Tax=Beluga Whale coronavirus SW1 RepID=B2BW44_9GAMC E=4e-12 s/c=0.77 id=28% cov=77% -------KRTLPPNKPVDQVFGSR---DTEKNFGDAEMIKKGMSDPRFTAALIPTPGPQAALFGSHVTLKEKPDGLEITYKYRTLFPKTDERYEE----- ----------- >UniRef50_Q96605(225-333:409) Nucleoprotein n=300 Tax=Avian coronavirus RepID=NCAP_IBVV1 E=1e-07 s/c=0.53 id=21% cov=99% -AERKYHKRAIAPGKRIDEVFGQRRKGQAP-NFGDDKMIEEGVKDGRLTAMLNLVPTPHACLLGSMVTAKLQPDGLHVRFSFETVVKREDPQFANYSKIC DECVDGVGTRP >UniRef50_B6VDZ1(191-293:352) Nucleocapsid phosphoprotein n=4 Tax=Avian coronavirus RepID=B6VDZ1_9GAMC E=2e-18 s/c=0.90 id=22% cov=93% -------KRTLLKGKTISQVFGTR--SKAGANVGSADSEKAGMADSRIMTLARFVPGVQELLFAGHLDSNFQQDGaLTLTFTYSITVKQDSPDYDRLKDA LNTVVNQTYEAP >UniRef50_A3EXH0(167-392:468) Nucleoprotein n=5 Tax=Coronavirinae RepID=NCAP_BCHK9 E=1e-71 s/c=0.66 id=45% cov=101% NAKKLRHKRTAHKGSGVTVNYGRRGPGDLEGNFGDREMIKLGTDDPRFAAAAQMAPNVSSFLFMSHLSTRDEDDALWLHYKGAIKLPKDDPNYEQWTKIL AENLNAYKDFP # NULL 3706 5728 4211 4064 4839 3729 4763 4308 4069 3323 5509 4640 4464 4937 4285 4423 3815 3783 6325 4665 HMM A C D E F G H I K L M N P Q R S T V W Y M->M M->I M->D I->M I->I D->M D->D Neff Neff_I Neff_D 0 * * 0 * 0 * * * * A 1 403 * * * * * * * * * * 2036 * * * * * * * * 1 0 * * * * * * 2126 0 0 S 2 1649 * * 2747 * * * * 1352 * * * * * * 2834 * * * * 2 0 * * * * * * 2959 0 0 K 3 * * 2054 2903 * * * * 2041 * * 2310 * 2467 * * * * * * 3 0 * * * * * * 3363 0 0 K 4 * * * * * * * 4013 310 * * * * * 2928 * * * * * 4 0 * * * * * * 3345 0 0 P 5 * * * * * * 3707 * 2928 3786 3630 * 647 * * * * * * * 5 0 * * * * * * 3345 0 0 R 6 * * * 2170 * * * * * * * * * * 811 * 3707 * * 2928 6 0 * * * * * * 3345 0 0 Q 7 * * * * * * 1812 * * * * * * 2437 * * * * 914 * 7 0 * * * * * * 3345 0 0 K 8 * * * * * * * * 141 * * * * * 3428 * * * * * 8 0 * * * * * * 3643 0 0 R 9 * * * * * * * * * * * * * * 0 * * * * * 9 0 * * * * * * 3643 0 0 T 10 3397 * * * * * * 4354 * * * * * 3605 * 4378 1163 1840 * * 10 0 * * * * * * 3643 0 0 A 11 2019 * * * * * * 3397 * 2487 * * 1059 * * * * * * * 11 0 * * * * * * 3643 0 0 T 12 3397 * * * * 4025 4155 * 4354 4039 * 1684 3088 * * 4505 2287 * * * 12 57 4701 * 1000 1000 * * 3643 1000 0 K 13 * * 4515 * * 3428 * * 755 * * * 2736 * 3722 4474 * * * * 13 0 * * * * * * 3643 0 0 A 14 4058 * 3510 2559 * 1305 * * * * * 4181 * 3402 * 3483 4701 * * * 14 160 4515 4025 1000 1000 * * 3643 1000 0 Y 15 * 3340 * 1879 * * * * 1792 * * 4295 * * * 2704 * * * 2876 15 0 * * * * 0 * 3586 0 1000 N 16 * * 2756 * * 4155 * * * * * 1800 3298 * 3397 2828 2545 * * * 16 0 * * * * * * 3643 0 0 V 17 * * * * * * * 2196 * * * * * * * * * 355 * * 17 0 * * * * * * 3643 0 0 T 18 4354 * 2736 4505 * * * 3722 * * * * * 3402 4474 3020 1518 3855 * * 18 0 * * * * * * 3643 0 0 Q 19 3369 * * 3397 * * * * 4474 * * * * 836 4025 * 4588 3320 * * 19 0 * * * * * * 3643 0 0 A 20 2953 1059 * * 4025 * * * * * * 4155 * * * * * 1871 * * 20 0 * * * * * * 3643 0 0 F 21 * * * * 180 * * * * * * * * * * * * * * 3089 21 327 * 2301 * * * * 3643 0 0 G 22 * * * * * 0 * * * * * * * * * * * * * * 22 105 * 3827 * * * 0 3568 0 1726 R 23 3558 * * * * * * * 3002 * 3503 3726 2853 3160 2103 3893 3718 * * * 23 0 * * * * * 0 3507 0 1853 R 24 * * * * * * * * * * * * * * 0 * * * * * 24 696 * 1385 * * 323 2320 3507 0 1853 G 25 * * * * * 232 * * * * * * * * 2754 * * * * * 25 0 * * * * 2413 300 3213 0 2523 P 26 * * * * * 2917 * * 2809 * * * 464 * * * * * * * 26 0 * * * * 1500 629 3250 0 2345 E 27 * * * 3842 4163 1924 * * * * * 3189 * * 1719 2784 4258 * * * 27 0 * * * * 0 * 3552 0 1950 Q 28 * * 1479 * * * * * 3188 * * * 3855 2002 3231 3232 * * * * 28 300 * 2415 * * * * 3643 0 0 T 29 1780 * * * 2803 * * * * 2240 * * * * * 3848 2168 4017 * * 29 0 * * * * * 0 3465 0 1849 Q 30 * * 4224 2370 * 2743 * * * * * 3413 3176 2637 * 2068 * * * * 30 169 * 3176 * * * 0 3465 0 1849 G 31 2043 * * * * 2599 2193 * 3501 * * * * * 2403 3377 * * * * 31 0 * * * * 0 * 3220 0 2335 N 32 * * * * * * * * * * * 0 * * * * * * * * 32 0 * * * * * * 3643 0 0 F 33 * * * * 320 * * * * * 3722 * * * * * * 3020 * * 33 0 * * * * * * 3643 0 0 G 34 * * * * * 0 * * * * * * * * * * * * * * 34 0 * * * * * * 3643 0 0 D 35 * * 718 * * 3402 * * * * * 4701 * * * 2244 4385 * * * 35 0 * * * * * * 3643 0 0 Q 36 1883 * 3397 * * 3480 * * 4385 4701 3855 * 4425 4058 4155 2144 * * * * 36 0 * * * * * * 3643 0 0 E 37 * * 1711 1332 * 3448 * * 3397 * * * * 3855 * * 4588 * * * 37 0 * * * * * * 3643 0 0 L 38 * * * * 3428 * * * * 1592 1733 * * * * 4039 4001 3605 * 3855 38 0 * * * * * * 3643 0 0 I 39 * * * 3020 * * * 1909 * 2910 * 3855 * * * * * 1292 * * 39 0 * * * * * * 3643 0 0 R 40 2086 * * 2797 * * * * 1328 * * * * 3050 3299 * * * * * 40 0 * * * * * * 3643 0 0 Q 41 4039 * * 2439 * * * * 2756 2186 * 2189 * 4058 * * 4001 * * 4474 41 0 * * * * * * 3643 0 0 G 42 * * * * * 0 * * * * * * * * * * * * * * 42 0 * * * * * * 3643 0 0 T 43 * * * * * * * * * * 2487 * * * * 4025 1837 1058 * * 43 0 * * * * * * 3643 0 0 D 44 3020 * 2054 2297 * * * * 2497 * * 4505 * * * 2244 * * * * 44 0 * * * * * * 3643 0 0 Y 45 1326 * 1020 * * * * * * * * * * * * * * * * 3212 45 0 * * * * * * 3643 0 0 K 46 * * * * * 3397 * * 1450 * * * 1390 * * 2666 * * * * 46 0 * * * * * * 3643 0 0 H 47 * * * * * 1995 2222 * * * * * * 3402 1327 * * * * 4588 47 0 * * * * * * 3643 0 0 W 48 * * * * 1417 * * 3020 * 3397 * * * * * * * * 2953 1846 48 0 * * * * * * 3643 0 0 P 49 2746 * * * * * * * * * 3020 * 792 * * * 2736 * * * 49 0 * * * * * * 3643 0 0 Q 50 1896 * * * * * * 3402 * * * * * 914 * * 3240 * * * 50 0 * * * * * * 3643 0 0 I 51 2687 * * * 3605 * * 1884 * 1334 3397 * * * * * * * * * 51 0 * * * * * * 3643 0 0 A 52 235 * * * * * * * * 2736 * * * * * * * * * * 52 0 * * * * * * 3643 0 0 Q 53 * * * 950 * * * 4181 * * * 3397 * 3106 3020 3428 * * * * 53 0 * * * * * * 3643 0 0 F 54 * 4025 * * 3049 * 4001 * * 635 4155 * 4181 * * * * * * * 54 0 * * * * * * 3643 0 0 A 55 1605 * * * * * * 3722 * 3429 * * * * * * 4181 1160 * * 55 0 * * * * * * 3643 0 0 P 56 * * * * * * * * * * * * 0 * * * * * * * 56 0 * * * * * * 3643 0 0 S 57 * * * * * 1921 * * * * * 2468 * * * 1874 1824 * * * 57 0 * * * * * * 3643 0 0 A 58 1901 * * * * * * * * * * * 2736 2568 * * 3014 1787 * * 58 0 * * * * * * 3643 0 0 S 59 1376 * * * * 3402 3397 * * * * * * 2487 * 2019 * * * * 59 0 * * * * * * 3643 0 0 A 60 397 * * 3020 * * * * * * * * * * * 3089 * * * * 60 0 * * * * * * 3643 0 0 F 61 4181 3397 * * 1837 * * 4025 * 1458 2789 * * * * * * * * * 61 0 * * * * * * 3643 0 0 F 62 3429 * * * 2118 * * * * 719 3855 * * * * * * * * * 62 0 * * * * * * 3643 0 0 G 63 * * * * 366 4058 * * * 3397 * * * * * 3855 * * * * 63 0 * * * * * * 3643 0 0 M 64 3020 * 2325 * * 1023 * * * * 3106 * * * * * 3855 * * * 64 0 * * * * * * 3643 0 0 S 65 * * * * * 2209 * * * * * * * * * 351 * * * * 65 0 * * * * * * 3643 0 0 R 66 * * * 2623 * * 1659 * 4425 * 3397 3428 * 3855 2680 * * * * 4025 66 0 * * * * * * 3643 0 0 I 67 * * * * 3855 * * 2128 * 1868 * * * * * * * 1447 4025 * 67 0 * * * * * * 3643 0 0 G 68 3428 * 3333 2287 * 4058 * * 3855 * * * * * * 2527 1963 4515 * * 68 0 * * * * * * 3643 0 0 M 69 3397 * * * * * * * * 2739 4058 * * * * 2130 1732 2592 * * 69 258 2611 * 3064 184 * * 3643 1500 0 E 70 * * 3722 2160 * * * * 1083 * * 3020 * * 3251 * * * * * 70 0 * * * * * * 3643 0 0 V 71 * * 3266 1139 3020 * * * * 3397 * 3855 3402 * * * * 4058 * * 71 0 * * * * * * 3643 0 0 T 72 3530 * 4025 3403 4385 3855 * * 4181 4354 4505 * * 1909 * 4515 3230 3722 * * 72 0 * * * * * * 3643 0 0 P 73 2686 * 4155 3855 * 1709 * * 2811 * * * 2251 4039 * * * * * * 73 0 * * * * * * 3643 0 0 S 74 * * 468 4588 * 4001 * * * * * 4515 3855 * * 4058 * * * * 74 0 * * * * * * 3643 0 0 G 75 3076 * 4588 4385 4474 1667 * * * * * 3722 * 4025 * 3517 4515 2611 * * 75 91 4039 * 0 * * * 3643 1000 0 T 76 * * * * * * * 3013 * 1905 * * * * * * 4058 1572 * 2234 76 0 * * * * * * 3643 0 0 W 77 * * * 1333 3855 * 3397 4588 * * * * * 3722 * * 3020 3605 3106 * 77 0 * * * * * * 3643 0 0 L 78 * * * * * * * 1674 * 1043 * * * * * * * 2312 * * 78 0 * * * * * * 3643 0 0 T 79 * * * * * * 4155 * 4385 * * * * 4425 2806 3855 650 * * * 79 0 * * * * * * 3643 0 0 Y 80 * * * * 1430 * * * * * * * * * * * * * * 669 80 0 * * * * * * 3643 0 0 T 81 * * * * * * 2895 * 3168 * * 3366 * * * 1873 1380 * * * 81 0 * * * * * * 3643 0 0 G 82 * * * * 3397 1837 4025 * * * * * * * * * 3605 * * 1054 82 0 * * * * * * 3643 0 0 A 83 1837 * * 3397 * * * * 1847 * * * * * 2483 3020 * 4474 * * 83 0 * * * * * * 3643 0 0 I 84 * * * * * * * 1765 * * 1452 * * * * * 2736 2958 * 4025 84 0 * * * * * * 3643 0 0 K 85 * * * * * * 4025 * 1914 2515 * 4385 * * 2840 * 2211 3397 * * 85 0 * * * * * * 3643 0 0 L 86 * * * * 2739 * * * * 2019 * * * * * * * 728 * * 86 56 4715 * 1000 1000 * * 3643 1000 0 D 87 4730 * 1933 * * * * * 2196 * * * 1194 * * 4474 * * * * 87 0 * * * * * * 3643 0 0 D 88 * * 4058 4001 * * * * 944 * * 4715 3855 4039 3397 3402 * * * * 88 0 * * * * * * 3643 0 0 K 89 * * 1547 2808 * 4001 * * 2580 * * * * * * 3466 2360 * * * 89 0 * * * * * * 3643 0 0 D 90 * * 979 * * * 3605 * * 3402 * 2375 * * * 3020 * * * * 90 125 3589 * 1059 943 * * 3643 1324 0 P 91 * * * 4181 * * * * 2547 * * * 463 * * 4378 * * * * 91 0 * * * * * * 3643 0 0 N 92 * * 3020 * * 3402 4515 * 3329 * * 1172 * 3397 3320 * * * * * 92 72 * 4354 * * * * 3643 0 0 F 93 * * * * 1536 * * * * 1851 * * * * * * 3996 * * 1665 93 0 * * * * * 0 3610 0 1000 K 94 3359 * 3966 1325 * 3546 * 4648 4016 4419 * 3817 4662 4291 * 4512 * * * * 94 85 * 4128 * * * 0 3610 0 1000 D 95 * * 3956 2709 * * * * 2261 * * 3293 * 2949 2440 * 3273 4193 * * 95 0 * * * * * 0 3565 0 1243 Q 96 * * * * 1666 * * 3167 * 2755 * * * 2599 * * * * 2775 3129 96 0 * * * * 1000 1000 3529 0 1243 V 97 * * * * * * * 3586 2859 1986 2502 * * * * 3216 3954 2492 * * 97 0 * * * * * 0 3602 0 1000 I 98 * * 2292 1709 * * * 3809 1772 * * * * 2991 * * * * * * 98 0 * * * * 0 * 3607 0 1000 L 99 2868 * * 4338 * * * 1752 * 2983 * * * 1838 * * * 3180 * * 99 0 * * * * * * 3626 0 0 L 100 * 3193 * * 4259 * * 2970 * 733 * * * * * * * 3198 * * 100 0 * * * * * * 3626 0 0 N 101 3984 * 2061 * * * * * * 4259 * 1237 * * 4197 3194 * 4139 * * 101 0 * * * * * * 3626 0 0 K 102 1140 * * 2139 * * * * 3842 * * * * 4164 * 4139 2868 * * * 102 0 * * * * * * 3626 0 0 H 103 * 3050 * * 3641 * 3628 * * * * 1805 * 2919 * * * 2675 * 2804 103 0 * * * * * * 3525 0 0 I 104 3832 * * * * * * 2617 * 1851 * * * * * * 3641 1288 * * 104 0 * * * * * * 3525 0 0 D 105 * * 839 * * * * * * * * 1471 * * 3641 * * * * * 105 0 * * * * * * 3525 0 0 A 106 827 * * 3423 * 2833 * * * * * * * 3094 * 3543 * * * * 106 0 * * * * * * 3403 0 0 Y 107 * * * * 3478 * * * * * 3190 * * * * * 3002 2755 * 922 107 0 * * * * * * 3313 0 0 K 108 * * * * * 2755 * * 1089 * * * * 1960 * * * * * 3002 108 0 * * * * * * 3313 0 0 T 109 * * 3174 2787 * * * * * * * 3122 * 2939 * 3168 1367 * * * 109 0 * * * * * * 3285 0 0 F 110 2449 * * * 1164 * 2517 * * * * * * * 2352 * * * * * 110 0 * * * * * * 2940 0 0 P 111 * * * * * * * * * * * * 0 * * * * * * * 111 0 * * 0 * * * 2940 0 0 //