HHsearch 1.5 NAME c4cc9B_ FAM FILE c4cc9B_ COM /bmm/www/servers/phyre2/HH/hhmake -i c4cc9B_.a3m DATE Sat Jan 11 09:49:30 2014 LENG 98 match states, 98 columns in multiple alignment FILT 23 out of 27 sequences passed filter (-id 90 -cov 0 -qid 0 -qsc -20.00 -diff 100) NEFF 3.5 EVD 0.4011 -0.9534 SEQ >ss_dssp CCCCCCCSGGGSCHHHHHHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHHHHHHHHHTCCCCCCCCCCCCCCTTC >sa_dssp EEEEEEEDEEDDDEDDCDEDBDCCBEDBCEDADECBEEEDBDECDEEBDEDCCEEDEDDDCDACDDABCDADECCEECDEEEDDDEEEEECEEBEEEE >ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC >ss_conf 98898999994310027899999999999999962899999999999996258612567899999999999999999998201202788998999899 >Consensus rErxPxxxxpxrxixexxeWLxxxleeInxEAxrHFprelLxxvwxxcxexxxdxxxxsxxxxxxxyirllQkaLfxHxrxGCxxxrxxxppxxxxxx >c4cc9B_ RERIPPGNSGEETIGEAFDWLDRTVEEINRAAVNHLPRELIFQVWRRSWEYWHDEMGMSVSYTKYRYLCLIQKAMFMHCKKGCRCLRPGPPPPPPPGL >UniRef50_Q7ZB26(8-102:113) Vpx protein n=1 Tax=Simian immunodeficiency virus RepID=Q7ZB26_SIVCZ E=1e-29 s/c=1.37 id=43% cov=98% -ERAPAEPMGAGEV-ELEEWLQRSLLRINQEARLHFHPEFLFRLWNTCMEHYHDALQLSFTYSKYRYLLLLQKAMFMHFQQGCSCLQGRHPPPLRPA- >UniRef50_Q00C39(2-88:129) Protein Tat n=34 Tax=Human immunodeficiency virus 1 RepID=Q00C39_9HIV1 E=2e-05 s/c=0.58 id=27% cov=71% ------------------EWALGLLEELKSEAVRHFPRTWLHGLGQHIYETYGDTWTGVEAIIG-----MLQQLLFIHFRIGCRHSRIGITP------ >UniRef50_P27984(26-98:119) Protein Vpx n=9 Tax=Simian immunodeficiency virus RepID=VPX_SIVVG E=1e-16 s/c=1.20 id=38% cov=74% ------------------EWLRDMLEDINQEAKMHFGRELLFQVWNYCQEEGERNRTPMLERA-YKYYKLVQKALFVHFRCGCRRRQPFEP------- >UniRef50_P22385(7-94:104) Protein Vpr n=1 Tax=Simian immunodeficiency virus (ISOLATE GB1) RepID=VPR_SIVGB E=2e-15 s/c=0.95 id=30% cov=71% ------------------QWLADTMEEIKEEARKHFPLIILNAVSEYCVQN-----TGSEEEACEKFITLMNRAIWVHLAQGCdgtfRERRPQLPP---- -- >UniRef50_Q99FH9(9-92:92) Vpr protein n=1 Tax=Simian immunodeficiency virus RepID=Q99FH9_SIVCZ E=1e-14 s/c=0.96 id=29% cov=86% REDPPEDESPERD----FTWLQDQVENITREARRHFPLTHISVIMWGCTrRHWGRPWT-----AGLAYVRIMECALYLHVHAG-QCRFPSTQNP----- >UniRef50_B7UES3(3-78:96) VPR protein n=1 Tax=Simian immunodeficiency virus - olc RepID=B7UES3_SIVCZ E=1e-13 s/c=1.03 id=37% cov=78% -ERVPEDQGPPREPLE--DWVRDTMEEIIVEAKRHFPRELLVRVFLFCaQRHINDEMSTSLL-----FIRLLQRALFQHYRNGC--------------- >UniRef50_B3CKH0(6-78:117) Vpr protein n=3 Tax=Simian immunodeficiency virus RepID=B3CKH0_SIVCZ E=2e-09 s/c=0.87 id=28% cov=76% RERPPTG--GPQAIPEDLLG----MQELFAMAKRHFPREVLVRVFLYCSQQRNYEEQATMHY----FHRVLQRGLYLHLIQGC--------------- >UniRef50_P20884(7-103:104) Protein Vpr n=5 Tax=Human immunodeficiency virus 2 RepID=VPR_HV2ST E=4e-15 s/c=0.85 id=23% cov=85% -ESPPEDRTPPREPGD--EWVIETLREIK-EALKHFDPRLLITLGNYIYARHGDTL-----EGARGLIRILQRALLLHFRAGCGRSRIGQP------- >UniRef50_Q699W5(2-92:117) Vpr protein n=4 Tax=Simian immunodeficiency virus RepID=Q699W5_SIVCZ E=2e-13 s/c=0.85 id=24% cov=85% -ERYPPSHPPhftSRTIPMTRLGLQQAMQDLNEEALKHFTREELFGVWNHCVDLPAQPDwtgEQAWAASVIDYIKIVQKMLWLHLREAC----------- ---- # 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 * * * * R 1 * * * * * * * * * * * * * * 0 * * * * * 1 0 * * * * * * 2300 0 0 E 2 * * * 0 * * * * * * * * * * * * * * * * 2 0 * * * * * * 3162 0 0 R 3 * * 3072 * * * * * * * * * * * 394 3061 * * * * 3 0 * * * * * * 3162 0 0 I 4 3360 * * * * * * 3508 * * * * 1524 * * * * 1872 * 2367 4 0 * * * * * * 3162 0 0 P 5 * * * * * * * * * * * * 0 * * * * * * * 5 0 * * * * * * 3319 0 0 P 6 3497 * * 1080 * * * * * * * * 1568 * * * 3308 * * * 6 0 * * * * * * 3319 0 0 G 7 3567 * 1363 3497 * 1937 * * * * * * * * * 2497 * * * * 7 154 * 3308 * * * * 3319 0 0 N 8 * * * 3101 * 2784 2324 * * * * 2505 2386 3396 3716 * * * * * 8 0 * * * * * 0 3138 0 1000 S 9 * * * * * 3396 * * * * 3326 * 2324 * * 1772 1677 * * * 9 0 * * * * 0 * 3138 0 1000 G 10 * * * * * 1204 * * * * * * 821 * * * * * * * 10 281 2497 * 1585 585 * * 3319 1107 0 E 11 2532 * * 1900 * * * * * * * * 2003 * 2916 2497 * * * * 11 0 * * * * * * 3319 0 0 E 12 * * * 2642 * 2532 * * * * * * * 3308 821 * * * * * 12 0 * * * * * * 3319 0 0 T 13 3308 * 1623 2077 * * * * * * * * * * * * 1568 * * * 13 164 * 3214 * * * * 3319 0 0 I 14 * * * * * * * 1034 * 2742 * * 2563 * * * * 2373 * * 14 310 * 2373 * * * 0 3125 0 1000 G 15 * * * * * 937 * * * 3204 * * 1438 * * * * * * * 15 0 * * * * 625 1508 2863 0 1783 E 16 * * 3645 797 * * * * * * 2357 * * * * 2742 * * * * 16 554 * 1650 * * * 0 3125 0 1000 A 17 2372 * 2898 * 1466 * * * * 3285 * * * * * * 2264 * * * 17 0 * * * * 1897 451 3110 0 1986 F 18 2420 * 3230 3525 1651 * * * * 3099 * * * * 2438 * * * * * 18 0 * * * * 0 * 3321 0 1606 D 19 * * 2724 1251 * * * * * 2519 * * 4354 2899 * * 3818 * * * 19 0 * * * * * * 3791 0 0 W 20 * * * * * 2519 * * * * * * * * * * * * 277 * 20 97 * 3940 * * * * 3791 0 0 L 21 4547 * * * * * * 4917 * 556 * * * * * * 3911 2495 * * 21 0 * * * * * 0 3761 0 1000 D 22 3259 * 4469 4584 * * 4358 2617 * 3714 * 4471 * 1786 2703 * * 4962 * * 22 0 * * * * * 0 3761 0 1000 R 23 3878 * 1482 2348 * 4547 * * * * * * * 3281 2109 * * * * * 23 0 * * * * * 0 3761 0 1000 T 24 2549 * * * * * * 3918 * 3714 2701 * * 3881 * 4289 1389 4962 * * 24 0 * * * * 0 * 3761 0 1000 V 25 * * * * * * * 3253 * 1147 1767 * * * * * * 2741 * * 25 0 * * * * * * 3899 0 0 E 26 * * * 977 * * * * * 4400 * * * 2250 3028 * 4417 * 3947 * 26 0 * * * * * * 3899 0 0 E 27 4641 * 2374 707 * 4554 * * * * * 3952 * * 4400 * * * * * 27 0 * * * * * * 3899 0 0 I 28 * * * * * * * 906 * 1253 * * * * * * * 4417 * * 28 0 * * * * * * 3899 0 0 N 29 * * * * 4013 * * 4631 1726 * * 1068 * * 4216 * 3952 * * * 29 46 * 4994 * * * * 3899 0 0 R 30 3990 * 4194 1697 * * * * * 4394 * 4912 * 2446 2142 4577 * 4597 * * 30 0 * * * * 0 * 3898 0 1000 A 31 3558 * * 229 * * * * * * 4013 * * * * * * * * * 31 0 * * * * * * 3899 0 0 A 32 0 * * * * * * * * * * * * * * * * * * * 32 0 * * * * * * 3899 0 0 V 33 * * * 4216 * * * * 2767 1681 * * * 4188 2299 * * 2124 * * 33 0 * * * * * * 3899 0 0 N 34 * 4188 * * * * * * 1757 3408 4488 3000 * * 1375 * * * * * 34 0 * * * * * * 3899 0 0 H 35 * * * * * * 0 * * * * * * * * * * * * * 35 0 * * * * * * 3899 0 0 L 36 * * * * 193 * * * * 3000 * * * * * * * * * * 36 0 * * * * * * 3899 0 0 P 37 * * 2703 * * 4488 3408 * * * * * 864 * * 3947 3419 * * * 37 0 * * * * * * 3899 0 0 R 38 4216 * * * * * * * * 3198 * * 2013 * 763 * * * * * 38 0 * * * * * * 3899 0 0 E 39 4216 * * 931 * * * 4496 * * * 4188 4982 * 2703 * 3243 4974 * * 39 0 * * * * * * 3899 0 0 L 40 * * * 2659 3408 * 3952 3349 * 1257 * * * * * * * 4013 3259 * 40 0 * * * * * * 3899 0 0 I 41 * * * * * * * 2080 * 495 * * * * * * * 4216 * * 41 0 * * * * * * 3899 0 0 F 42 4216 * * * 1279 * 3259 3028 * * * 4496 * * 3947 3952 5015 3289 * * 42 0 * * * * * * 3899 0 0 Q 43 2586 * 4982 * * 2114 * * * * * * * 2162 1992 * 4994 3952 * * 43 0 * * * * * * 3899 0 0 V 44 4554 * * * * * * 2949 * 1297 * * * * * * * 1248 * * 44 0 * * * * * * 3899 0 0 W 45 * * * * 3289 1954 * * * 4216 3952 * * * * 4496 * * 1068 * 45 0 * * * * * * 3899 0 0 R 46 * * * 3196 * * * * 5018 3289 * 2013 * 2334 2924 * * * 3065 4050 46 50 * 4872 * * * * 3899 0 0 R 47 * * * * 3706 3937 2555 * * * * 4160 * 3928 2966 * 3356 * * 1553 47 0 * * * * * 0 3876 0 1000 S 48 * 968 * * * * * 1761 * * * * * * * 2966 * 3928 * * 48 63 4548 * 0 * * 0 3876 1000 1000 W 49 4198 * * * * * 4998 * * * 4371 * * 3491 * 3966 2933 2022 2966 2267 49 97 3937 * 0 * * 0 3876 1000 1000 E 50 4903 * 2737 1227 * * * * * * * 3355 * 3191 2747 * 4913 * * * 50 71 4389 * 2322 322 0 * 3876 1000 1000 Y 51 * * 4421 3330 * * 2328 * * 3164 * 3214 * 4013 3066 4216 4609 * * 2651 51 149 * 3349 * * * * 3899 0 0 W 52 * * * * * 4368 2904 3586 * * * * 2486 * 3848 * * * 1655 2563 52 0 * * * * * 0 3765 0 1336 H 53 2486 * * 4368 * 1605 1844 * * * * 3117 * * * * 4307 * * * 53 0 * * * * * 0 3765 0 1336 D 54 * * 810 * * 4307 * 4076 * * * 3760 * 4298 2992 * * * * 3848 54 0 * * * * * 0 3765 0 1336 E 55 4283 * 4076 1718 * * * * * * * 4368 2347 * 3490 * 1991 * * * 55 102 3870 * 1585 585 * 0 3765 1000 1336 M 56 3870 * 4298 3848 * * 4740 * * 2080 2860 * * 3369 3215 * * * 2357 * 56 359 4298 2560 1585 585 0 * 3765 1000 1336 G 57 3283 * 3807 4240 * 1673 * * * * * * * 3034 * 4388 1789 * * * 57 190 * 3020 * * * 0 3829 0 1552 M 58 3759 * 3819 * * 2243 * * * 4075 2724 * 4181 2255 4115 * 4211 * 4131 * 58 0 * * * * * 0 3657 0 2128 S 59 2349 * * * * * * * * * 4181 * 3829 * * 1129 2789 3708 * * 59 0 * * * * * 0 3657 0 2128 V 60 3219 * * 1932 4075 * * * * 2073 3759 * * * 3829 * * 4317 2845 * 60 0 * * * * * 0 3657 0 2128 S 61 2213 * * 2004 * * 3759 3829 3853 4211 * * * * * 2263 4075 * * * 61 80 * 4211 * * 783 1256 3657 0 2128 Y 62 2983 * * 1481 * 4678 * 4271 * * * * * * 4288 * * 4275 * 1637 62 112 * 3740 * * 611 1535 3742 0 1896 T 63 1910 3808 * * * 1643 * 3353 * * * * * * * 3228 2860 * * * 63 161 * 3245 * * * 0 3708 0 1377 K 64 2183 3060 * * * 2468 * * 2256 * * * * * 4443 * * 2719 3798 * 64 145 * 3388 * * 1864 463 3627 0 2129 Y 65 * * * 2784 * 4598 * 2656 * 3727 3953 * * * 3091 * * * * 1332 65 0 * * * * 1183 838 3593 0 2543 R 66 2698 * 2427 2779 * 4840 * * 2565 * * * * * 1688 * * * * * 66 0 * * * * 677 1418 3676 0 1837 Y 67 4171 * * * 2735 * * 3757 * 2636 * * * * * * * * * 838 67 0 * * * * * 0 3867 0 1000 L 68 * * * * * * 3982 1072 * 2155 * * * * * * 3895 3904 * 3284 68 0 * * * * * 0 3867 0 1000 C 69 * 2967 * * * * * * 1874 3371 * * * * 1317 * 3307 * * * 69 0 * * * * 0 * 3867 0 1000 L 70 * * * * * * * 1700 * 1207 4609 * * * * * 4050 3430 3947 * 70 0 * * * * * * 3899 0 0 I 71 * * * * * * * 3558 * 954 2352 * * * * * * 2301 * * 71 0 * * * * * * 3899 0 0 Q 72 * * * 3952 * * * * * * * 3349 * 256 * * * * * * 72 0 * * * * * * 3899 0 0 K 73 * 3952 * * * * * * 1279 * * * * 3259 1498 * 3947 * * * 73 0 * * * * * * 3899 0 0 A 74 566 * * * * 4013 * 3947 * 3259 3419 * * * * * * * * * 74 0 * * * * * * 3899 0 0 M 75 * * * * * * * 3566 * 276 3478 * * * * * * * * * 75 0 * * * * * * 3899 0 0 F 76 * * * * 775 * * * * 4994 * * * * * * * * 2859 2022 76 0 * * * * * * 3899 0 0 M 77 * * * * * * * 2286 * 1825 3478 * * 4631 3947 * 3817 2019 * * 77 0 * * * * * * 3899 0 0 H 78 * * * * * * 0 * * * * * * * * * * * * * 78 0 * * * * * * 3899 0 0 C 79 * 2863 * * 1286 * * * * 2202 4133 * * * * * * 3869 * 3190 79 0 * * * * * * 3825 0 0 K 80 4166 * * * * * 3869 3946 2415 * * * * 3351 928 * * * * * 80 0 * * * * * * 3825 0 0 K 81 2344 4433 * 2617 * 3469 * 3173 4501 * * 4527 * 2559 3533 4357 * * * * 81 0 * * * * * * 3825 0 0 G 82 3369 * * * * 241 * * * * * * * * 4133 * * * * * 82 102 * 3869 * * * * 3825 0 0 C 83 * 0 * * * * * * * * * * * * * * * * * * 83 162 3235 * 2000 415 0 * 3692 1000 1000 R 84 * * * * * 3322 4277 * * * * 4339 * 2684 1220 2757 3917 * * * 84 0 * * * * * * 3145 0 0 C 85 * 1289 * 3379 * * 1771 * * * * * * * 2310 * * * * * 85 0 * * * * * * 3101 0 0 L 86 * * * * * * * * * 1876 * * * * 1636 1301 * * * * 86 0 * * * * * * 3071 0 0 R 87 * * * * 3056 * * * * * * * * 2143 614 * * * * * 87 0 * * * * * * 3056 0 0 P 88 * * * * * 3111 * 1256 * * * * 1103 * * * * * * * 88 0 * * * * * * 3056 0 0 G 89 * * * * 3175 870 * * * * * * * 3238 3111 3056 * * * * 89 0 * * * * * * 3056 0 0 P 90 * * * 3057 * * 2993 2416 * 3068 * * 2857 2508 * * 2903 * * * 90 0 * * * * * * 3047 0 0 P 91 * * * * * * * * * * * * 559 2903 * * 2416 * * * 91 0 * * * * * * 3047 0 0 P 92 * * * * * * * * * * * 2428 297 * * * * * * * 92 0 * * * * * * 2692 0 0 P 93 * * * * * * * 2000 * * * * 415 * * * * * * * 93 0 * * * * * * 2312 0 0 P 94 * * * * * * * * * 1594 * * 1608 * * * 1553 * * * 94 0 * * * * * * 1930 0 0 P 95 * * * * * * * * * * * * 580 * 1594 * * * * * 95 0 * * * * * * 1930 0 0 P 96 * * * * * * * * * * * * 601 * 1553 * * * * * 96 0 * * * * * * 1930 0 0 G 97 1594 * * * * 580 * * * * * * * * * * * * * * 97 0 * * * * * * 1930 0 0 L 98 * * * * * * * * * 0 * * * * * * * * * * 98 0 * * 0 * * * 1000 0 0 //