HHsearch 1.5 NAME c9miiB_ FAM FILE c9miiB_ COM /bmm/www/servers/phyre2/HH/hhmake -i c9miiB_.a3m DATE Sat May 24 10:35:33 2025 LENG 122 match states, 122 columns in multiple alignment FILT 62 out of 64 sequences passed filter (-id 90 -cov 0 -qid 0 -qsc -20.00 -diff 100) NEFF 3.8 EVD 0.4034 -1.1799 SEQ >ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCCCHHHCCCCHHHHHHHHHHHHHHH HHHHHHHHHHHHHHHHHHHHCC >ss_conf 9202322456776677788753244456433468999998888653454554217665510336630232357675212203522777789999766999 9999999999999999997239 >Consensus lgxlxaagsxmgaasxaltvqxxxLltvwGikxLqaRvxaxexylkdqxllxxwGCxxkxichtxVpwnxswxnxsxxxiWxNmTWxqWekxIxnxtxxI xxlLeeaqxqqekNxxxLxxLd >c9miiB_ LGFLGAAGSTMGAASMTLTVQARNLLTVWGIKQLQARVLAVERYLRDQQLLGIWGCSGKLICCTNVPWNSSWSNRNLSEIWDNMTWLQWDKEISNYTQII YGLLEESQNQQEKNEQDLLALD >UniRef50_B7FCA6(552-692:884) Env protein n=2 Tax=Simian immunodeficiency virus RepID=B7FCA6_SIVCZ E=2e-43 s/c=1.25 id=48% cov=98% LGFLGLAGSAMGTVSTVLTIQSQHLlagilqqqknllelvekqqellrLTIWGVKNLQARLSAIEGFLEDQLKLKQWGCELTQVCHTNVPWNESW---NA TPNWNNETWQHWYRRTDELQANISVLLVEAHNTEQKNMFELQKL- >UniRef50_Q64G85(22-116:145) Envelope glycoprotein (Fragment) n=1 Tax=Human immunodeficiency virus 1 RepID=Q64G85_9HIV1 E=7e-13 s/c=0.79 id=48% cov=77% -----------------------------GIKQLHARVLALERYLKDQQLLRDLGLLWKTHLHHCCaLGTVVGGNRTKDYIWDNMTWDAGGIEKLAITQT QYtGWLEGIANPAGNKEKDLLALD >UniRef50_Q64G54(6-109:139) Envelope glycoprotein (Fragment) n=1 Tax=Human immunodeficiency virus 1 RepID=Q64G54_9HIV1 E=2e-07 s/c=0.54 id=32% cov=85% --------------ATAYSCNSRSR----GIKQLQTRVLALGKIPKGSTAPRNLGLLWKTHLHHCCAVESSWSNKSQGAIWvTRLGWSAIEKLIITQT-H YTGCLKNRKTSRNKLKRDLLALD >UniRef50_Q9DKV4(563-706:849) Envelope n=25 Tax=Ovine/caprine lentivirus group RepID=Q9DKV4_CAEV E=4e-20 s/c=0.69 id=28% cov=98% MAIVAAAGASLGVAnaiqqsytrdavqtlANATAVQQQVLEASYamiqhvakGIRILEARVARMEVMMDRMMLYQEVDCW--HYHQYCVTSTRADIVNyi NWTRFKDNCTWQEWEREISAHEGNITILLKESARITQLAQQKVQRI- >UniRef50_Q64FP6(10-115:144) Envelope glycoprotein (Fragment) n=2 Tax=Human immunodeficiency virus 1 RepID=Q64FP6_9HIV1 E=6e-11 s/c=0.65 id=43% cov=40% --------------------------------------------------------------------------NPLNEIWNNMTWQPWDKEISNFHTDI YSLIEDRRTSRKRMNRTYWHLD >UniRef50_Q70IG7(527-672:864) Envelope glycoprotein gp160 n=3 Tax=Primate lentivirus group RepID=Q70IG7_SIVCZ E=6e-36 s/c=1.03 id=44% cov=100% IGFLSAAGTVMGAVGTGLAVQSRDLlagivqqqqellraveghsallqLSVWGIKNLNARLTAIEKYLKDQALLNEWGCAWKQICHTSVEWSNQSIPglA LYQPDFQNMTWQQWETDIAALFGNVSDALKKAQAQQERNVHEVQSL- >UniRef50_Q64G66(10-98:98) Envelope glycoprotein (Fragment) n=1 Tax=Human immunodeficiency virus 1 RepID=Q64G66_9HIV1 E=3e-17 s/c=1.00 id=45% cov=58% -------------------------------------VLAIKKYLKNQPLLGISGCSCKTHLHHCCTLGLYWSLQSQKKIQNHITYMQWNKKISNYTGTI YKLLNES--------------- >UniRef50_Q3Y655(6-106:143) Envelope glycoprotein (Fragment) n=2 Tax=Human immunodeficiency virus 1 RepID=Q3Y655_9HIV1 E=9e-16 s/c=0.84 id=42% cov=79% -----------------LIVETHSLGALSSSRQ---ESSALERYLKDQQLLGIWGCSGNSSAPLLCLGTLV-GVINLSMIFGRTCLgCSGIEKLSNYTNT IYKLLEDSQIQQDNNEK------ # 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 * * * * L 1 * * * * * * * 3598 * 447 2764 * * * * * * 4781 * * 1 0 * * * * * * 2751 0 0 G 2 2059 * * * * 396 * * * * * * * * * * * * * * 2 0 * * * * * * 2751 0 0 F 3 * * * * 655 * * 2764 * 2878 * * * * * * * 3617 * * 3 0 * * * * * * 2751 0 0 L 4 * * * * * * * * * 230 * * * * * * * 2764 * * 4 0 * * * * * * 2751 0 0 G 5 2043 * * * * 1678 * * * * * * * * * 1169 * * * * 5 0 * * * * * * 2751 0 0 A 6 468 * * * * 4149 * * * 4045 * * * * * * 2644 * * * 6 0 * * * * * * 2751 0 0 A 7 0 * * * * * * * * * * * * * * * * * * * 7 0 * * * * * * 2775 0 0 G 8 * * * * * 0 * * * * * * * * * * * * * * 8 0 * * * * * * 2775 0 0 S 9 2250 * * * * 4932 * * * * * * * * * 725 2717 * * * 9 0 * * * * * * 2853 0 0 T 10 1280 * * * * * * * * * * * * * * 2881 1310 4344 * * 10 0 * * * * * * 2853 0 0 M 11 * * * * * * * * * 2917 205 * * * * * * * * * 11 0 * * * * * * 2890 0 0 G 12 * * * * * 44 * * * * * * * * * 5068 * * * * 12 0 * * * * * * 2890 0 0 A 13 725 * * * * * * * * 4555 * * * * * 3128 3242 2917 * * 13 0 * * * * * * 2890 0 0 A 14 568 * * * * * * * * * * * * * 4345 * * 1855 * * 14 205 2917 * 3907 100 * * 2890 1000 0 S 15 1308 * * * * 4501 * * * * * * * * * 857 * * * * 15 0 * * * * * * 3206 0 0 M 16 * * * * * * * 3386 * 4661 4690 3139 * * * * 986 2266 * * 16 0 * * * * * * 3206 0 0 T 17 629 * * * * 4757 * 3898 * * * * * * * * 2402 4060 * * 17 0 * * * * * * 3380 0 0 L 18 * * * * * * * 4198 * 454 5160 * * * * * 3502 5381 * 3732 18 0 * * * * * * 3566 0 0 T 19 2776 * * 3524 * * * 3629 * * * * * * * 3161 872 5160 * * 19 0 * * * * * * 3566 0 0 V 20 2153 3893 * * * 3987 * 3614 * 5084 * * * * * * * 906 * * 20 0 * * * * * * 3256 0 0 Q 21 * * 4346 3551 * * * * * * * 3893 * 389 4845 * * * * * 21 0 * * * * * * 3256 0 0 A 22 2259 * * * * * * * * * * * * 2039 * 1373 2630 * * * 22 0 * * * * * * 3256 0 0 R 23 * * * * * * 2039 * * * * * * 1736 1215 5294 * * * * 23 0 * * * * * * 3256 0 0 N 24 5348 * 5281 * * 5681 3384 * * 3311 4854 4957 * 3308 * 1567 3052 3211 * * 24 137 4596 4346 4524 64 * * 3256 1404 0 L 25 * * * * * * * * * 253 * * * * 2970 * * 4910 * * 25 2025 563 3688 4249 78 * 0 3532 2859 1000 L 26 * * * 3357 * 3425 * * * 323 * 6669 * * * * * * * * 26 0 * * * * * 0 3346 0 1497 T 27 2390 * * * * * * * * * * * * * * 2058 813 * * * 27 14 6669 * 0 * * 0 3346 1000 1497 V 28 5325 * * * * * * 2130 * 3406 * * * * * 3196 * 881 * * 28 0 * * * * 1000 1000 3341 0 1497 W 29 * * * * * 3912 * * * * * * * * * 3385 * * 498 2946 29 176 3122 * 3000 193 0 * 3168 1000 1000 G 30 * * * * * 78 * * * * * * * * * 4248 * * * * 30 0 * * * * * * 3449 0 0 I 31 5826 * * * * * 4050 749 * * * * * * * 4248 4278 2166 * * 31 0 * * * * * * 3449 0 0 K 32 * * * * * * * * 392 * * * * * 2071 * * * * * 32 0 * * * * * * 3449 0 0 Q 33 * * * * * * * 2960 * * * 1766 * 949 * * 4068 * * * 33 78 * 4248 * * * * 3449 0 0 L 34 3922 * * * * * * * * 98 * * * * * * * * * * 34 0 * * * * * 0 3366 0 1000 Q 35 * * * 2944 * * 3933 * * * * 3299 3922 802 3977 * * * * * 35 0 * * * * * 0 3366 0 1000 A 36 425 * * * * 3922 * * * * * * * * * * 2712 4773 * * 36 0 * * * * 0 * 3366 0 1000 R 37 * * * 4253 * * * * 3746 * * * * * 196 * * * * * 37 0 * * * * * * 3452 0 0 V 38 * * * * * * * 5226 * 2094 4895 * * * * 3188 * 747 * * 38 0 * * * * * * 3495 0 0 L 39 2647 * * * * * * * * 965 * * * 5411 * 3439 2235 * * * 39 0 * * * * * * 3495 0 0 A 40 557 * * * * 2934 * * * * * * * * 3000 5593 4515 * * * 40 23 * 5952 * * * * 3491 0 0 V 41 * 4082 * * * * * 2216 * 1334 3895 * * * * 5468 * 2281 * 4893 41 0 * * * * * 0 3474 0 1000 E 42 * * * 295 * 3417 * * 4837 * * * * * 4891 * * * 5464 * 42 0 * * * * * 0 3473 0 1000 R 43 4104 * * 5884 * 3677 * * 1321 * * 5547 * * 1826 6695 3922 3888 * * 43 31 5542 * 0 * * 0 3634 1000 1000 Y 44 * * * * 4785 * * 2964 * 3344 3888 6331 * * * * 4005 * * 749 44 0 * * * * * 0 3634 0 1000 L 45 * * * * * * * 3696 * 762 3888 * 2964 * * 5542 * 3735 * 4614 45 0 * * * * * 0 3634 0 1000 R 46 5605 * 2992 3068 * 4614 * * 1054 * * * * 3689 2893 * * * * * 46 0 * * * * * 0 3634 0 1000 D 47 * * 791 4779 * 2964 6336 4614 * * * 3667 * * 2992 * * * * * 47 0 * * * * * 0 3634 0 1000 Q 48 * * * * * * * * * * 2992 4614 * 504 * 2964 * * * * 48 0 * * * * * 0 3634 0 1000 Q 49 2246 * * 6342 * * * * * 5596 2992 * 4704 1456 * 3675 2964 5568 * * 49 0 * * * * * 0 3634 0 1000 L 50 2964 * * * 6679 * * 4048 3519 961 * * * 4715 3975 4614 * 4104 * * 50 0 * * * * * 0 3634 0 1000 L 51 * * * * * * * * * 557 5287 * 2964 * * 4614 * * * 2992 51 0 * * * * * 0 3634 0 1000 G 52 4228 * * * * 1991 4104 * 4084 * * 2594 * 3888 2394 3135 * 4614 * * 52 0 * * * * * 0 3634 0 1000 I 53 6029 * 3382 2704 4614 * * 2098 * 2974 6751 3060 * 3637 * 3271 5605 * * * 53 0 * * * * * 0 3634 0 1000 W 54 * * * * 5605 4614 * 4779 * 2010 * * * * * 4704 * 3888 893 6751 54 0 * * * * 0 * 3634 0 1000 G 55 * * 2944 * * 201 * * * * * * * * * * * * * * 55 0 * * * * * * 3989 0 0 C 56 * 314 * * 5011 6169 * * * 2728 * * * * * * * * * * 56 0 * * * * * * 3989 0 0 S 57 2073 * * 4116 * * * * 4629 2728 * * * 5797 * 1452 * * 2944 * 57 203 * 2932 * * * * 3989 0 0 G 58 * 4190 5877 * 3075 1398 * * * 4501 * 3787 * * * * * * 1674 * 58 0 * * * * * 0 3468 0 1234 K 59 5296 * * * * 6351 * * 546 * 4251 4978 * * 3112 4911 4501 * * * 59 113 3729 * 0 * 0 * 3468 1558 1234 L 60 6045 * * * * * 2385 6291 * 2389 * * * 1688 * 3828 2409 5591 * * 60 18 * 6335 * * * * 3971 0 0 I 61 * * * * * * 2766 1517 * 4431 * * * * * 3484 * 2002 * 3079 61 0 * * * * * 0 4000 0 1000 C 62 3795 698 * * 5910 * 3441 * * 2766 * * * 4160 * * * * * * 62 0 * * * * * 0 4000 0 1000 C 63 * 6646 * * * * 844 * * * * * 3795 4034 4581 * 2479 * * 3670 63 0 * * * * * 0 4078 0 1000 T 64 * 5028 * * * * 2898 * * 4036 * * * * * 4494 707 * * 3092 64 0 * * * * * 0 4139 0 1000 N 65 4005 1826 6895 * * * * 5294 * 4590 5684 2730 * * 5607 2842 2163 * 5225 * 65 25 5840 * 0 * * 0 4139 1000 1000 V 66 5028 2173 * * * * * * * * * * * * * * * 420 * * 66 28 5691 * 0 * * 0 4139 1000 1000 P 67 4403 * * 3758 * * * * 4679 3450 * * 870 * * * 2315 * * * 67 18 * 6338 * * * 0 4139 0 1000 W 68 * * * * * 2853 * * * 4128 * * * * * 3081 * 4684 627 * 68 90 * 4049 * * * 0 4140 0 1266 N 69 * * * 3830 * 4150 * 5628 5809 * * 1174 * 5098 * 4557 1642 * * * 69 70 * 4395 * * * 0 4187 0 1773 S 70 5134 * 4121 4377 5705 * * 5295 4603 2432 * 3331 * 5089 2954 2300 4522 3922 * 5353 70 28 * 5705 * * 3070 183 4142 0 2057 S 71 2887 * * * * * * * * * * * * 4129 * 1369 2370 2699 * 3776 71 133 * 3501 * * 3423 141 4124 0 2133 W 72 * 5011 4208 4208 * 3304 * * * * * * * 5283 5651 4444 * * 582 * 72 140 4537 4332 0 * 1230 802 3902 1462 2543 S 73 4394 * * 4667 * 2063 * 2903 * * * 5789 4603 * * 1560 4957 3194 * * 73 102 * 3869 * * 1303 750 4095 0 2294 N 74 4435 * * 5678 * 3966 * * * 4248 * 677 4685 * * * * 2705 * * 74 151 3850 5054 2253 340 2613 257 4073 1395 2291 R 75 4760 * 3824 * * * 5604 2957 2513 * * 2406 * 4256 2616 4073 4273 * * 4249 75 268 2941 4669 1026 974 796 1237 4081 1867 2250 N 76 * * 4393 * * * 5215 * 4792 3730 * 1687 5588 * * 1500 2952 * * * 76 41 5173 * 1000 1000 2133 373 4262 1000 2118 L 77 5385 * 5207 4201 6165 * 5801 3730 3831 1916 5158 4805 5202 2635 * 5706 5273 * 3625 3753 77 0 * * * * 821 1205 4294 0 1906 S 78 * * 2450 3231 * 3975 * * 4108 * * 5017 6083 3260 4817 3513 1663 * * * 78 79 4222 * 0 * 596 1563 4298 1400 1320 E 79 4310 5366 3060 2807 * * * * 3600 * 4398 * 1681 6304 3677 4629 6266 * * 3709 79 46 5882 6110 2585 263 * 0 4337 1000 1000 I 80 5250 * 2875 5502 3674 5315 * 782 * * * 3609 5398 5338 * * * * * * 80 0 * * * * 568 1620 4339 0 1254 W 81 * * * * 3608 * * * 3785 * * * * 4357 * * * * 328 * 81 106 4259 5736 0 * * 0 4502 1000 1000 D 82 5568 * 1944 3297 * 2722 * * 5439 * * 1968 * 3708 * * 3342 * * 6387 82 0 * * * * 499 1774 4495 0 1200 N 83 * * * * * * 4357 * 4564 * * 379 * * 3337 5534 5671 * * * 83 0 * * * * 0 * 4502 0 1000 M 84 * 3771 4412 3859 * * * 4390 * 2830 864 * * 5507 * * 4290 * * * 84 0 * * * * * * 4490 0 0 T 85 * 4490 4720 * * 4270 * * * * * * * * * * 208 * * * 85 0 * * * * * * 4490 0 0 W 86 * * * * * * * * * 3600 * * * * * * * * 201 4390 86 127 3569 * 0 * * * 4490 1409 0 L 87 * 4403 4202 * * * 5343 4461 4414 3220 2443 * * 1319 * 4259 * * * 4752 87 0 * * * * * * 4462 0 0 Q 88 3230 * * 1560 * * 5555 * 5268 * * 4752 5486 1413 * 4403 5343 * * * 88 0 * * * * * * 4462 0 0 W 89 * * * * * 2850 * 4259 * * * * * * * * * * 306 * 89 0 * * * * * * 4462 0 0 D 90 * * 1920 1245 * 4183 4313 3583 * * * 4441 * 5211 * 5348 * * * 5186 90 0 * * * * * * 4520 0 0 K 91 * * * 3175 * * * 4135 1567 5070 5505 * * 4904 1503 * 4143 * * * 91 0 * * * * * * 4620 0 0 E 92 * * 5129 1590 * * 5680 * 2285 2791 * 5214 * 3223 3143 5455 * * * * 92 0 * * * * * * 4620 0 0 I 93 * * * * * * * 1074 4135 3414 * * * * * * 3608 1775 * * 93 0 * * * * * * 4620 0 0 S 94 3576 * 2098 4622 * 4802 * 4214 5066 4135 * 3670 * 5395 3883 1760 * * * * 94 0 * * * * * * 4620 0 0 N 95 3120 * * 5369 6295 * * * * * 5066 796 * 5113 5214 4865 3579 * * 3869 95 0 * * * * * * 4620 0 0 Y 96 5352 * 5279 * 4547 * 4097 3747 * 2012 * * * 4214 * 4816 * 5680 6168 1310 96 0 * * * * * * 4620 0 0 T 97 * * 4980 2620 5166 * 5096 * * * 5196 * 6253 4041 * 3955 779 * * * 97 87 * 4089 * * * * 4329 0 0 Q 98 3813 * 2589 * * 1605 * * * * * 3997 * 2229 * 3437 3930 * * * 98 0 * * * * 0 * 4108 0 1000 I 99 * * 5096 3940 * * 3706 3311 6165 3980 * 1723 * 5528 * * 2013 3670 * * 99 0 * * * * * * 4329 0 0 I 100 * * * * * * * 323 * 5097 * * * 4001 * * * 5166 5493 4089 100 0 * * * * * * 4329 0 0 Y 101 * * 4314 4454 5042 * 5740 * * * * * * 5059 * 2333 2416 * * 1187 101 93 4001 * 0 * * * 4329 1000 0 G 102 4181 * 2793 3597 * 2610 * 4660 2791 5097 * 3545 * 4440 5908 3200 5496 4024 * * 102 0 * * * * * * 4329 0 0 L 103 3713 4089 5415 4751 * * * 5528 * 852 4148 * * 6075 4947 4732 5335 * 4001 * 103 0 * * * * * * 4329 0 0 L 104 * * * * * * * 2197 * 355 * * * * * * * * * * 104 0 * * * * * * 4329 0 0 E 105 5335 * * 1092 * 6565 * * 2701 * * 4737 * 2738 4409 * 4947 3736 * * 105 0 * * * * * * 4329 0 0 E 106 4480 * 3056 1382 * 4004 * 4247 3744 5612 * 3856 * 2988 5531 * * 5356 * * 106 0 * * * * * * 4361 0 0 S 107 923 * * * * * * 4004 * * * * * * 3403 1664 * * * * 107 0 * * * * * * 4361 0 0 Q 108 2898 * * * * * 3219 * 3492 * * * * 1007 4291 * * * * 3049 108 0 * * * * * * 4324 0 0 N 109 3696 * 3199 2943 * * * 3076 * 5234 * 2193 6041 5015 4116 6144 2829 4026 * * 109 0 * * * * * * 4242 0 0 Q 110 * * * 4966 * * 4834 4713 * 5325 * * 4109 743 5116 3092 3874 * * * 110 0 * * * * * * 4271 0 0 Q 111 3969 * * 2457 * * 5173 * * * * * * 830 3020 * 4619 * * * 111 0 * * * * * * 4383 0 0 E 112 * * 4685 942 * 3969 * * 3957 4514 * 3714 * 2377 * * * * * * 112 0 * * * * * * 4383 0 0 K 113 * * * 3455 * * * * 1432 4619 * 2656 * 4487 2063 4734 5848 * * * 113 0 * * * * * * 4383 0 0 N 114 4612 * * * * * * * 3968 4001 3981 450 * * * * 4741 * * * 114 0 * * * * * * 4390 0 0 E 115 * * * 1403 * * * * 3209 3756 3876 4266 * 2828 * * 4659 2845 * * 115 0 * * * * * * 4390 0 0 Q 116 * * 4107 * 4158 * 2724 * 1825 * * 4509 * 2499 2949 * * * * 3293 116 0 * * * * * * 4390 0 0 D 117 3554 * 1537 1658 * * * * 2643 * * * * 4689 * * 4196 * * * 117 0 * * * * * * 4194 0 0 L 118 * * * * 4509 * * * * 396 * * * * * * * 3604 * 3133 118 0 * * * * * * 4194 0 0 L 119 5242 * * 5167 * * * * 4509 1179 * * * 1475 * * 5406 * 4196 5485 119 0 * * * * * * 4194 0 0 A 120 2012 * * 2295 * * 4168 * 1839 * * * * 4116 3479 3925 * * * * 120 0 * * * * * * 4148 0 0 L 121 * * * * * * * 4114 * 86 * * * * * * * * * * 121 0 * * * * * * 4087 0 0 D 122 * * 330 * * * * * * * * 2291 * * * * * * * * 122 0 * * 0 * * * 3102 0 0 //