HHsearch 1.5 NAME c1ce4A_ FAM FILE c1ce4A_ COM /bmm/www/servers/phyre/brandnew/HH/hhmake -i c1ce4A_.a3m DATE Mon Mar 8 19:03:16 2010 LENG 35 match states, 35 columns in multiple alignment FILT 56 out of 60 sequences passed filter (-id 90 -cov 0 -qid 0 -qsc -20.00 -diff 100) NEFF 2.7 EVD 0.4627 2.9052 SEQ >ss_dssp CCSSGGGCCSCCSCCTTGGGGCHHHHHHHHHHTCC >sa_dssp EEEACEDDEEBEEEDECEEECEEECCECAEDCDEE >ss_pred CCCCCCCEEEEEEECCCCEEEEEECEECCCCEECC >ss_conf 95788860312773588226742020222011049 >Consensus CTRPxnntrxxixIGPGxxfYxtgxIiGDiRqAxC >c1ce4A_ CTRPNNNTRKSIHIGPGRAFYTTGEIIGDIRQAHC >UniRef50_Q9IDV2(283-317:836) Transmembrane protein gp41 n=2955 Tax=Primate lentivirus group RepID=ENV_HV1YB E=1e-05 s/c=1.45 id=53% cov=103% CTRPGNNTGGQVQIGPAMTFYNIEKIVGDVRQAYC >UniRef50_Q58GM4(47-79:165) Envelope glycoprotein (Fragment) n=3 Tax=Human immunodeficiency virus 1 RepID=Q58GM4_9HIV1 E=1e-07 s/c=1.74 id=59% cov=97% --RPSNNTRTSVRIGPGQTFYATRCCTGNIRQAYC >UniRef50_Q1A261(319-353:880) Transmembrane protein gp41 n=32471 Tax=Lentivirus RepID=ENV_SIVMB E=1e-08 s/c=1.74 id=56% cov=103% CTRTGNNTIKGIPIGPSQIFYGIETVIGDTRQAFC >UniRef50_Q3LWX8(43-78:143) Envelope glycoprotein (Fragment) n=1 Tax=Human immunodeficiency virus 1 RepID=Q3LWX8_9HIV1 E=7e-08 s/c=1.62 id=58% cov=103% CTRPGNNTrRKCTYRDQDKAFFETGDIIGDIRKAYC >UniRef50_O12008(293-327:854) Envelope glycoprotein gp160 n=1 Tax=Simian immunodeficiency virus RepID=O12008_SIVCZ E=1e-07 s/c=1.64 id=44% cov=103% CIRPGNRTVRNLQIGPGMTFYNVEIATGDTRKAFC >UniRef50_Q3LX80(46-81:144) Envelope glycoprotein (Fragment) n=1 Tax=Human immunodeficiency virus 1 RepID=Q3LX80_9HIV1 E=1e-07 s/c=1.60 id=53% cov=103% CTRTWQQYKNKVyRIGPGQTFYATGDIIGDIRSAYC >UniRef50_C7EC20(10-44:111) Envelope glycoprotein (Fragment) n=1 Tax=Human immunodeficiency virus RepID=C7EC20_9PLVG E=6e-07 s/c=1.58 id=47% cov=103% CTKPRISKIRSFRIGPGKPFYATESISGDRRRAYC >UniRef50_Q6GXN7(20-53:114) Envelope glycoprotein (Fragment) n=2 Tax=Human immunodeficiency virus 1 RepID=Q6GXN7_9HIV1 E=7e-09 s/c=1.81 id=51% cov=100% CTRPSNNTRTRVQIWPGQDFYRTGDILWDMGKTH- >UniRef50_Q7SSS9(21-55:115) Envelope glycoprotein (Fragment) n=128 Tax=Human immunodeficiency virus 1 RepID=Q7SSS9_9HIV1 E=1e-06 s/c=1.55 id=44% cov=103% CTRPSNNIRRRTSIGQGQVLYSNENIMGNIKKAYC # 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 * * * * C 1 * 0 * * * * * * * * * * * * * * * * * * 1 0 * * * * * * 2689 0 0 T 2 * * * 5495 * * 5487 3333 * * * * * 5763 * 4861 316 * * * 2 0 * * * * * * 2684 0 0 R 3 * * * * * * * * 3557 * * * * * 128 * * * * * 3 0 * * * * * * 2687 0 0 P 4 * * * * * * * * * * * * 159 * * * 3259 * * * 4 32 * 5506 * * * * 2687 0 0 N 5 * * 5362 * * 1966 * * * * * 1581 * * 3895 2431 4871 * 4149 4568 5 0 * * * * 0 * 2678 0 1000 N 6 * 5506 5031 * * 6026 * 4559 5836 * * 439 5487 4360 4555 * 5587 * * * 6 0 * * * * * * 2687 0 0 N 7 * * * * * * * 4557 4065 * * 470 * 5345 4881 3987 5033 * * 5388 7 34 5409 * 0 * * * 2688 1000 0 T 8 * * * * * * * 3527 4063 * * * * * * * 398 4447 * 4366 8 56 4723 * 0 * * * 2688 1000 0 R 9 * * * * * 5123 * 3019 3218 * * * * * 573 * 4877 4878 * * 9 59 4640 * 0 * * * 2692 1285 0 K 10 * * 6077 * * 3790 * * 1522 * * 4738 * 3948 2159 * 2209 * * 5491 10 0 * * * * * * 2688 0 0 S 11 * 4233 4557 5514 * 3467 * * 4810 * * 3833 * 4311 2442 1146 * * * * 11 32 5491 * 1000 1000 * * 2688 1000 0 I 12 * * * * 4561 * * 1182 * 3062 5765 * * * * * 2940 2010 * * 12 100 3898 * 1190 832 * * 2688 1452 0 H 13 * * * * * * 2384 * 5388 4882 * * 4123 2234 2037 3303 3539 * * 4330 13 0 * * * * * * 2688 0 0 I 14 * * * * 6243 * * 190 * 4312 5515 * * * 4725 * * * * * 14 77 4275 * 1000 1000 * * 2687 1105 0 G 15 5787 * 4725 * * 158 * * * * * * * * * * * * 4386 * 15 0 * * * * * * 2687 0 0 P 16 4814 * * * * * * * * 5413 * * 244 3375 * * * * * * 16 0 * * * * * * 2687 0 0 G 17 5133 * 4725 * * 152 * * * * * * * * * 4893 * * * * 17 0 * * * * * * 2687 0 0 R 18 * * * * * * * * 3313 * 2825 * * 1155 1796 5554 * * * * 18 0 * * * * * * 2687 0 0 A 19 1466 * 4386 * * * * 4893 * * * * 4115 * * * 1748 2314 * * 19 0 * * * * * * 2687 0 0 F 20 * * * * 385 * * 4180 * 2963 * * * * * * * 5515 * 5106 20 0 * * * * * * 2687 0 0 Y 21 * * * * 3606 * 4566 * * * * * * * * * * 4275 * 279 21 0 * * * * * * 2687 0 0 T 22 1556 * * 4725 * 4893 * * 4695 * * 3244 * 6419 3152 3974 1962 * * * 22 71 * 4379 * * * * 2687 0 0 T 23 * * * * * * * 2597 * 5912 * 5064 * 4775 * 6251 509 4806 * * 23 97 * 3947 * * 915 1090 2653 0 1313 G 24 * * 6943 1797 * 771 * * 5699 4605 * 6486 * * 5142 5792 * * * * 24 78 * 4245 * * 251 2649 2690 0 1498 E 25 4259 5854 1774 3534 * 4455 * 3813 2820 * * 2935 * 5563 4027 4463 4845 * * * 25 21 * 6125 * * 469 1848 2681 0 1407 I 26 4876 5862 * * * * * 478 * 4515 * * * * * * * 2419 * * 26 0 * * * * 0 * 2696 0 1277 I 27 * * 4811 * * 4717 * 1145 4872 4380 5145 * * * 5031 4562 3101 2520 * * 27 0 * * * * * * 2691 0 0 G 28 * * * * * 129 * * * * * 4720 * * * * * * 4386 * 28 0 * * * * * * 2687 0 0 D 29 * * 265 * * * * * * * 4056 3217 * * * * * * * * 29 0 * * * * * * 2687 0 0 I 30 * * * 4703 * * * 590 * * 3903 * * * 4317 * 2726 5104 * * 30 34 * 5442 * * * * 2648 0 0 R 31 * * * 4539 * 4378 * 4838 5142 * * * * * 242 * * * * * 31 0 * * * * 0 * 2687 0 1000 Q 32 * * * 5822 * * * * 1494 6116 6000 * * 1143 3352 4433 * * * * 32 0 * * * * * * 2690 0 0 A 33 137 * * * * * * * * * * * * * * * 4384 4556 * * 33 0 * * * * * * 2690 0 0 H 34 * * * * 3880 * 1361 * * * * * 5482 5587 * 4831 * * * 1106 34 0 * * * * * * 2694 0 0 C 35 * 0 * * * * * * * * * * * * * * * * * * 35 0 * * 0 * * * 2642 0 0 //