HHsearch 1.5 NAME c3k9aA_ FAM FILE c3k9aA_ COM /bmm/www/servers/phyre2/HH/hhmake -i c3k9aA_.a3m DATE Sat Aug 28 19:26:37 2010 LENG 82 match states, 82 columns in multiple alignment FILT 51 out of 55 sequences passed filter (-id 90 -cov 0 -qid 0 -qsc -20.00 -diff 100) NEFF 3.5 EVD 0.4602 1.1542 SEQ >ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCC >sa_dssp EEBEEDBEDADEDBEDBDDDCEDBDDEBEEDEDDEEDCEDDCDDCCEDBEEBDDDBEDBDDEBDEEEEEEEEEDDECDDDDE >ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC >ss_conf 9405899999999999999999999864302899874776465630589999999999999999999953323324433049 >Consensus xxgivqqqxxlLxxiexQqxlLxLtvWGiknxxTWxqWerxIxnxtxxIxxlLeeAqxqqekNxxeLxxLxxWxslwnWFdi >c3k9aA_ GSGIVQQQSNLLRAIEAQQHLLQLTVWGIKQGGGGSEWEREISNYTDIIYRLIEESQNQQEKNEQELLALDKWASLWNWFDI >UniRef50_Q699W2(552-677:870) Env protein n=5 Tax=Primate lentivirus group RepID=Q699W2_SIVCZ E=4e-08 s/c=0.47 id=50% cov=100% -SGIVQQQQELLKAVEAHGQLLTLTAWGVRNlntrltaiekylkdqaklnewGCAFKqichttvpwnnsledpdwdnmtwqEWEMKVANYTDEWEGALQR AQEQQERNVHALQSLQDWDSLWNWFDL >UniRef50_B7FCA6(578-707:884) Env protein n=2 Tax=Simian immunodeficiency virus RepID=B7FCA6_SIVCZ E=2e-09 s/c=0.49 id=43% cov=100% -AGILQQQKNLLELVEKQQELLRLTIWGVKNlqarlsaiegfledqlklkqwGCeltqvchtnvpwneswnatpnwnneTWQHWYRRTDELQANISVLLV EAHNTEQKNMFELQKLQDWTtwgSWLQWFNI >UniRef50_Q9YP75(43-95:278) Envelope glycoprotein (Fragment) n=1 Tax=Simian immunodeficiency virus RepID=Q9YP75_SIVCZ E=2e-10 s/c=1.26 id=22% cov=62% --------------------------------MTWQEWEKSIASLEGNISKTLAQAHDHEQNTLDQYQKLVSWSDFWSWFDL >UniRef50_Q90PW8(544-668:857) Env protein n=40 Tax=Primate lentivirus group RepID=Q90PW8_SIVCZ E=7e-17 s/c=0.70 id=40% cov=100% -AGILQQQKKLLDIVEQQQELLKLTVWGTKNlqarvtaiekyladqsllntfGCAWRQvchttvewiysqtpewnkqtwleWERNISRLEGNISVALQDA QEQHERNVHDLEKLNSWGDMLSWLNM >UniRef50_P19503(569-694:889) Transmembrane protein gp41 n=1477 Tax=Lentivirus RepID=ENV_SIVSP E=3e-15 s/c=0.66 id=45% cov=100% -AGIVQQQQQLLDVVKRQQELLRLTVWGAknlqtrvtaiekylkdqaqlnswgcafrqvchttvprpndtltpnWNNMTWQEWEKQVNFLEANITQSLEE AQIQQEKNTYELQKLNSWDIFGNWFDL >UniRef50_Q9WPP0(601-711:919) Envelope glycoprotein n=50 Tax=Lentivirus RepID=Q9WPP0_SIVCZ E=6e-10 s/c=0.59 id=35% cov=83% --------------VEKQQELLRLTIWGVKNlqarltaleeyvqdqsllaswGCqwkqvchtnvpwnynitpnwtkdTWMEWDRQVKMYDDNITALLQEA YVTELENQNKFKQLQEF-NFWSWLDL >UniRef50_Q99FH6(554-671:837) Envelope glycoprotein n=1 Tax=Simian immunodeficiency virus RepID=Q99FH6_SIVCZ E=1e-12 s/c=0.63 id=40% cov=89% ----------LLKLVETQSALLQLTVWGVKNlqvrvatiegyleeqaklasigcanmqicrtivpwnktwgeedpwqNMTWKQWHERVRNYTDIIEADLV EAYDLQEENEKKLAELGDWTNWFSGFGL >UniRef50_Q64FP6(73-126:144) Envelope glycoprotein (Fragment) n=2 Tax=Human immunodeficiency virus 1 RepID=Q64FP6_9HIV1 E=3e-08 s/c=1.10 id=35% cov=67% ----------------------------IWNNMTWQPWDKEISNFHTDIYSLIEDRRTSRKRMNRTYWHLDKWQILGNWVSI >UniRef50_Q66LK5(60-110:137) Envelope glycoprotein (Fragment) n=1 Tax=Human immunodeficiency virus 1 RepID=Q66LK5_9HIV1 E=0.0003 s/c=0.91 id=36% cov=57% ------------------------STWGNKSldkiwNMTWIQWEKEIDNFPGIISSLIEASKPSRKGMTR---------NFWNW--- # 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 * * * * G 1 * * * * * 0 * * * * * * * * * * * * * * 1 0 * * * * * * 1000 0 0 S 2 916 * * * * * * * * * * * * * * 1265 4211 * * * 2 0 * * * * * * 2531 0 0 G 3 * * * * * 0 * * * * * * * * * * * * * * 3 0 * * * * * * 2582 0 0 I 4 * * * * * * * 0 * * * * * * * * * * * * 4 0 * * * * * * 2582 0 0 V 5 * * * * * * * * * 2654 * * * * * * * 250 * * 5 0 * * * * * * 2582 0 0 Q 6 * * * 4424 * * * * * * * * * 174 3902 * * * * * 6 0 * * * * * * 2582 0 0 Q 7 * * * * * * * * * * * * * 0 * * * * * * 7 0 * * * * * * 2582 0 0 Q 8 * * * * * * * * * * * * * 0 * * * * * * 8 0 * * * * * * 2582 0 0 S 9 3860 * 3493 5287 * * * * 1692 * * 2522 * 1954 * 3736 * * * * 9 0 * * * * * * 2582 0 0 N 10 * * * 3401 * * 3513 * 3695 * * 716 * 2924 * * * * * * 10 0 * * * * * * 2688 0 0 L 11 * * * * * * * * * 91 4034 * * * * * * * * * 11 0 * * * * * * 2729 0 0 L 12 * * * * * * * * * 0 * * * * * * * * * * 12 0 * * * * * * 2729 0 0 R 13 4707 * 2996 2423 * * * * 2086 * * * * 4262 1465 * * * * * 13 0 * * * * * * 2729 0 0 A 14 676 * * * * * * 4609 * 2414 4034 * * * * * * 3568 * * 14 0 * * * * * * 2729 0 0 I 15 * * * * * * * 974 * * * * * * * * * 1026 * * 15 0 * * * * * * 2953 0 0 E 16 * * 5775 324 * 5175 * * 3617 * * * * 3765 * * * * * * 16 0 * * * * * * 2953 0 0 A 17 957 * * * * 4623 5639 * 2228 * * * * 3814 4282 * 3506 * * * 17 0 * * * * * * 2953 0 0 Q 18 * * * * * * 3515 * * * * * * 132 * * * * * * 18 0 * * * * * * 2953 0 0 Q 19 * * * * * 4414 * * * * * * * 286 * 2912 * * * * 19 0 * * * * * * 2953 0 0 H 20 3328 * * 1602 * * 1099 * * * * * * 3264 * * * * * * 20 0 * * * * * * 2960 0 0 L 21 * * * * * * * * * 225 2790 * * * * * * * * * 21 0 * * * * * * 2960 0 0 L 22 * * * * * * * * * 0 * * * * * * * * * * 22 0 * * * * * * 2972 0 0 Q 23 * * * 5286 * 5061 * * 1974 * * * * 1413 1892 * 4481 * * * 23 37 * 5286 * * * * 2972 0 0 L 24 * * * * * * * * * 42 5111 * * * * * * * * * 24 0 * * * * 0 * 2961 0 1000 T 25 * * * 5278 * * * * * * * * * * * 1875 511 * * * 25 44 * 5073 * * * * 3091 0 0 V 26 4455 * * * * * * 1682 * * * * * * * * 4845 718 * * 26 0 * * * * 0 * 2998 0 1000 W 27 * * * * 4977 * * * * * * * * * * * * * 47 * 27 0 * * * * * * 3197 0 0 G 28 * * * * * 0 * * * * * * * * * * * * * * 28 120 4691 4596 5631 29 * * 3197 1282 0 I 29 5531 * * * * * * 1063 * * * 4890 * * * * 3724 1357 * * 29 113 3735 * 5503 32 * 0 3438 1453 1259 K 30 * * * * * * * * 467 * * * * * 3642 * * * 2346 * 30 64 4528 * 5374 35 * 0 3438 1263 1259 Q 31 * * 5596 * * * * * * * * 860 * 1727 5342 4890 3884 * * * 31 1624 566 * 4729 55 0 * 3438 2945 1259 G 32 3342 * * * * 1098 * * * * * 1204 * * * * * * * * 32 0 * * * * * * 3531 0 0 G 33 * 1158 * 5247 * 6038 * * * 4767 1306 * 3851 * * * * * * * 33 306 2389 * 4586 61 * * 3767 2049 0 G 34 3033 * * * * 3142 * * 5623 * * * * * * 3541 603 * * * 34 132 3511 * 3851 104 * * 3767 1469 0 G 35 * * * * 5003 2390 * * * * * 4433 * * * * * * 451 * 35 0 * * * * * * 3767 0 0 S 36 * * * * * * * 3683 2049 4008 3149 5119 * 1473 4972 3564 * * * * 36 257 2613 * 4796 53 * * 3767 1880 0 E 37 * * * 1374 * * 4360 * 4365 * * * 4677 1396 * 5128 3854 * * * 37 112 4054 6095 4258 77 * * 3766 1378 0 W 38 3787 * * * * * * * * * * * * * * * * * 108 * 38 0 * * * * * 0 3765 0 1000 E 39 * * 1620 1337 * * 3621 * * * * * 3834 4278 * 5281 * * * 4317 39 0 * * * * * 0 3885 0 1000 R 40 * * * 4274 * * * * 1910 5091 5072 * * 4180 981 * 4025 * * * 40 0 * * * * 0 * 3882 0 1000 E 41 * * 4813 1959 * * 4759 * 2826 3406 * 3220 * 2878 2734 4593 * * * * 41 0 * * * * * * 4075 0 0 I 42 * * * * * * * 1231 * 3172 * * * * * * 3340 1457 * * 42 119 3657 * 2807 222 * * 4075 1000 0 S 43 3037 * 1760 5848 * 6568 * * 4559 * * 3435 * 5422 3499 1697 * * * * 43 0 * * * * * * 4075 0 0 N 44 4813 3657 * 4445 6118 * * * * * 4559 754 * * 5157 4115 5097 * * 3748 44 0 * * * * * * 4075 0 0 Y 45 6281 * 5415 * 3840 * * 6075 * 1586 * * * * * 4619 3657 4759 5958 1423 45 0 * * * * * * 4075 0 0 T 46 * * 4574 2733 4929 * 4637 * * * 5123 * 5531 3705 * 3577 933 * * * 46 0 * * * * * * 3877 0 0 D 47 3344 * 2196 * * 1784 * * * * * 3658 * 2840 * 3328 3747 * * * 47 0 * * * * * * 3877 0 0 I 48 * * 4637 3443 * * 5252 2601 5853 3830 * 1597 * 5618 * * 3195 2955 * * 48 0 * * * * * * 3877 0 0 I 49 * * * * * * * 191 * * * * 3961 * * * * 4834 5328 * 49 0 * * * * * * 3974 0 0 Y 50 * * 3747 3676 4786 * 6574 * * * * * * 4715 * 1993 2999 * 3961 1636 50 0 * * * * * * 3974 0 0 R 51 3348 * 2417 2671 * 4600 * 6501 3546 * * 3764 * 4008 5934 2773 5047 3458 * * 51 0 * * * * * * 3974 0 0 L 52 3477 * 4228 4417 * * * 5541 * 857 4089 * * 5546 4225 4271 4291 * * * 52 0 * * * * * * 3974 0 0 I 53 * * * * * * * 1946 3961 565 * * * * * * * * * * 53 0 * * * * * * 3974 0 0 E 54 4818 * * 1189 * 6520 * * 3951 3961 * * * 2467 5572 * 4225 2936 * * 54 0 * * * * * * 3974 0 0 E 55 3859 * 3438 1207 * * * 3737 3551 5204 * 6455 * 2619 5325 * * 5707 * * 55 0 * * * * * * 3975 0 0 S 56 569 * * * * * * * 3961 * * * * * 4532 2193 * * * * 56 0 * * * * * * 3975 0 0 Q 57 * * * * * * 2735 * 4618 * * * * 829 3951 * * * * 2462 57 96 3961 * 5087 43 * * 3975 1000 0 N 58 3544 * 2767 2774 * * * 2598 * * * 2612 4618 4224 5204 5931 3458 3973 * * 58 0 * * * * * * 3975 0 0 Q 59 * * * 4224 * * 4813 * * 4225 * * * 770 5076 2755 3424 * * * 59 0 * * * * * * 3975 0 0 Q 60 * * * 2154 * * 5063 * * * * * * 744 2755 * * * * * 60 0 * * * * * * 3975 0 0 E 61 * * * 798 * * * * 2755 4477 * 5649 * 2239 * * * * * * 61 0 * * * * * * 3975 0 0 K 62 * * * 2994 * 5472 * * 1476 * * 4249 * 4367 1585 4716 5649 * * * 62 0 * * * * * * 3975 0 0 N 63 * * * * * * * * * * 2628 317 * * * * 4813 * * * 63 0 * * * * * * 3975 0 0 E 64 * * * 1771 * * * * 4341 3405 3454 2993 * 2994 * * 3867 2715 * * 64 0 * * * * * * 3975 0 0 Q 65 * * 3782 * 3691 * 2623 * 1718 * * 4477 * 3041 3606 * * * * 2888 65 60 * 4618 * * * * 3975 0 0 E 66 3310 * 2428 1383 * * * * 2710 * * 6026 * 4190 * * 3225 * * * 66 0 * * * * * 0 4036 0 1199 L 67 * * * * 4385 * * * * 374 * * * * * * * 4750 * 2805 67 22 * 6026 * * * 0 4036 0 1199 L 68 4164 * * 4967 * * * * 4376 1468 * * * 1313 * * 5753 * 4089 5454 68 0 * * * * * 0 3977 0 1414 A 69 2519 * * 2089 * * 4065 * 1573 * * * * 4078 4217 3615 * * * * 69 0 * * * * * 0 3891 0 1414 L 70 * * * * 4217 * * * * 80 * * * * * * * * * * 70 0 * * * * * 0 3891 0 1414 D 71 5702 * 1203 * * 3551 * * * 5231 * 3339 * 2314 * 5498 5150 4296 * 4911 71 0 * * * * * 0 3781 0 1414 K 72 * * 2054 2296 * * * * 1738 * * * * 4660 * 2209 * * * * 72 0 * * * * * 0 3781 0 1414 W 73 * * * * 4516 5702 * * * 3656 * * * * * * * * 221 * 73 64 * 4516 * * * 0 3781 0 1414 A 74 2193 * 2575 * * 4142 * * 5398 * * 5890 * 3652 * 2544 1915 * * * 74 114 4201 5544 1585 585 307 2383 3698 1137 1801 S 75 * * 2700 * * 4434 * 3675 * * * 2337 * * * 1074 5215 5521 * * 75 0 * * * * * 0 3806 0 1437 L 76 * * * * 2381 * * 5637 * 851 4944 * * * * * * * 2313 * 76 0 * * * * 1273 771 3806 0 1437 W 77 5124 * * * 4612 3261 * * * 3581 * * * * * * 3783 * 578 * 77 0 * * * * 0 * 3836 0 1000 N 78 * * 5088 5266 * * 5824 * 4312 * * 933 * 5465 * 1688 5663 * * * 78 0 * * * * * * 3833 0 0 W 79 * * * * * 4933 * * * * * * * * * * * * 48 * 79 0 * * * * * * 3833 0 0 F 80 * * * * 360 * * * * 2600 * * * * * * * 4154 * * 80 0 * * * * * * 3781 0 0 D 81 * * 636 * * 4730 * * * * * 2382 * * * 3198 5791 * * * 81 0 * * * * * * 3725 0 0 I 82 * * * * * * * 801 * 1388 4506 * * * * * * * * * 82 0 * * 0 * * * 3696 0 0 //