HHsearch 1.5 NAME c1x9vA_ FAM FILE c1x9vA_ COM /bmm/www/servers/phyre/brandnew/HH/hhmake -i c1x9vA_.a3m DATE Sat Mar 13 06:33:05 2010 LENG 45 match states, 45 columns in multiple alignment FILT 8 out of 12 sequences passed filter (-id 90 -cov 0 -qid 0 -qsc -20.00 -diff 100) NEFF 1.5 EVD 0.5293 4.2142 SEQ >ss_dssp CTTHHHHHHHHHHHHHHHHHHHHHSSCCCTTTSSCCCSTTTCCCC >sa_dssp EEEEBDDCEEEDEEDEEEDEDDEEEEEDEEECEEEEEEEEEDEEE >ss_pred CHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCC >ss_conf 955789999999999999998861462002444578888877789 >Consensus dTxeGxxxlIxxLQxxLfxHFRxGCxhSRIGixxQxrgxnxxsxx >c1x9vA_ DTWTGVEALIRILQQLLFIHFRIGCRHSRIGIIQQRRTRNGASKS >UniRef50_P06938(57-96:105) Protein Vpr n=336 Tax=Primate lentivirus group RepID=VPR_HV2RO E=0.0004 s/c=1.14 id=56% cov=91% DTLEGARELIKVLQRALFTHFRAGCGHSRIG---QTRGGNPLS-- >UniRef50_P0C1P3(52-96:96) Protein Vpr n=764 Tax=Human immunodeficiency virus 1 RepID=VPR_HV197 E=1e-13 s/c=1.73 id=80% cov=102% DTWEGVEAIIRILQQLLFIHFRIGCHHSRIGILRQRRGGNGASRS >UniRef50_P0C1P6(57-96:101) Protein Vpr n=7 Tax=Primate lentivirus group RepID=VPR_HV2EH E=2e-06 s/c=1.34 id=51% cov=91% NTLEGAGELIKLLQRALFLHFRGGCQHSRIG---QPGGGNPLS-- >UniRef50_P20884(56-95:104) Protein Vpr n=5 Tax=Human immunodeficiency virus 2 RepID=VPR_HV2ST E=3e-06 s/c=1.32 id=59% cov=91% DTLEGARGLIRILQRALLLHFRAGCGRSRIG---QPRGRNPLS-- >UniRef50_A9U9G6(52-92:165) Protein Tat n=20 Tax=Human immunodeficiency virus 1 RepID=A9U9G6_9HIV1 E=1e-09 s/c=1.58 id=86% cov=78% DTWAGVEAIIRILQQLLFIHFRIGCRHSRIGITP----------- >UniRef50_P18100(57-87:87) Protein Vpr n=9 Tax=Primate lentivirus group RepID=VPR_HV2BE E=2e-06 s/c=1.73 id=56% cov=71% DTLEGARELIKTLQRALFVHFRAGCNRSRIG-------------- >UniRef50_Q00C39(1-129:129) Protein Tat n=34 Tax=Human immunodeficiency virus 1 RepID=Q00C39_9HIV1 E=8e-61 s/c=0.62 id=72% cov=102% DTWTGVEAIIGMLQQLLFIHFRIGCRHSRIGITPQRRARMEPVDP # 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 * * * * D 1 * * 232 * * * * * * * * 2749 * * * * * * * * 1 0 * * * * * * 1563 0 0 T 2 * * * * * * * * * * * * * * * * 0 * * * 2 0 * * * * * * 1563 0 0 W 3 * * * * * * * * * 894 * * * * * * * * 1114 * 3 0 * * * * * * 1563 0 0 T 4 3101 * * 621 * * * * * * * * * * * * 2101 * * * 4 0 * * * * * * 1563 0 0 G 5 * * * * * 0 * * * * * * * * * * * * * * 5 0 * * * * * * 1563 0 0 V 6 894 * * * * * * * * * * * * * * * * 1114 * * 6 0 * * * * * * 1563 0 0 E 7 * * * 1114 * 2749 * * * * * * * * 1361 * * * * * 7 0 * * * * * * 1563 0 0 A 8 1114 * * 1322 * 2858 * * * * * * * * * * * * * * 8 0 * * * * * * 1563 0 0 L 9 * * * * * * * 1503 * 628 * * * * * * * * * * 9 0 * * * * * * 1563 0 0 I 10 * * * * * * * 0 * * * * * * * * * * * * 10 0 * * * * * * 1563 0 0 R 11 * * * * * 3010 * * 1322 * * * * * 1071 * * * * * 11 0 * * * * * * 1563 0 0 I 12 * * * * * * * 1071 * 2749 3010 * * * * * 2944 3043 * * 12 0 * * * * * * 1563 0 0 L 13 * * * * * * * * * 0 * * * * * * * * * * 13 0 * * * * * * 1563 0 0 Q 14 * * * * * * * * * * * * * 0 * * * * * * 14 0 * * * * * * 1563 0 0 Q 15 * * * * * * * * * * * * * 1114 894 * * * * * 15 0 * * * * * * 1563 0 0 L 16 894 * * * * * * * * 1114 * * * * * * * * * * 16 0 * * * * * * 1563 0 0 L 17 * * * * * * * * * 0 * * * * * * * * * * 17 0 * * * * * * 1563 0 0 F 18 * * * * 214 * * * * 2858 * * * * * * * * * * 18 0 * * * * * * 1563 0 0 I 19 * * * * * * * 1114 * 1802 * * * * * * 3043 2944 * * 19 0 * * * * * * 1563 0 0 H 20 * * * * * * 0 * * * * * * * * * * * * * 20 0 * * * * * * 1563 0 0 F 21 * * * * 0 * * * * * * * * * * * * * * * 21 0 * * * * * * 1563 0 0 R 22 * * * * * * * * * * * * * * 0 * * * * * 22 0 * * * * * * 1563 0 0 I 23 1361 * * * * 2749 * 1114 * * * * * * * * * * * * 23 0 * * * * * * 1563 0 0 G 24 * * * * * 0 * * * * * * * * * * * * * * 24 0 * * * * * * 1563 0 0 C 25 * 0 * * * * * * * * * * * * * * * * * * 25 0 * * * * * * 1563 0 0 R 26 * * * * * 1947 3155 * * * * 2944 * 2749 1516 * * * * * 26 0 * * * * * * 1563 0 0 H 27 * * * * * * 450 * * * * * * * 1900 * * * * * 27 0 * * * * * * 1563 0 0 S 28 * * * * * * * * * * * * * * * 0 * * * * 28 0 * * * * * * 1563 0 0 R 29 * * * * * * * * * * * * * * 0 * * * * * 29 0 * * * * * * 1563 0 0 I 30 * * * * * * * 0 * * * * * * * * * * * * 30 0 * * * * * * 1563 0 0 G 31 * * * * * 0 * * * * * * * * * * * * * * 31 913 * 1092 * * * * 1563 0 0 I 32 * * * * * * * 0 * * * * * * * * * * * * 32 0 * * * * * 0 1172 0 1245 I 33 * * * * * * * 1986 * 1958 * * * * * * 1029 * * * 33 0 * * * * * 0 1172 0 1245 Q 34 * * * * * * * * * * * * 1029 1986 1958 * * * * * 34 0 * * * * 0 * 1172 0 1245 Q 35 * * * * * * * * * * * * * 0 * * * * * * 35 0 * * * * * * 1642 0 0 R 36 * * * * * * * * * * * * 1612 * 930 * 2756 * * * 36 0 * * * * * * 1642 0 0 R 37 * * * * * 2561 * * * * * * * * 268 * * * * * 37 0 * * * * * * 1642 0 0 T 38 2311 * * * * 654 * * * * * * * * * * 2615 * * * 38 0 * * * * * * 1642 0 0 R 39 * * * * * 1066 * * * * * * * * 937 * * * * * 39 0 * * * * * * 1642 0 0 N 40 * * * * * * * * * * 2311 325 * * * * * * * * 40 0 * * * * * * 1642 0 0 G 41 * * * 2311 * 1628 * * * * * * 1074 * * * * * * * 41 0 * * * * * * 1642 0 0 A 42 1628 * * * * * * * * 1074 * * 2311 * * * * * * * 42 0 * * * * * * 1642 0 0 S 43 * * * * * * * * * * * * * * * 325 * 2311 * * 43 0 * * * * * * 1642 0 0 K 44 * * 1507 * * * * * 1651 * * * * * 1601 * * * * * 44 0 * * * * * * 1290 0 0 S 45 * * * * * * * * * * * * 1507 * * 626 * * * * 45 0 * * 0 * * * 1290 0 0 //