HHsearch 1.5 NAME d1e0ea_ FAM FILE d1e0ea_ COM /bmm/www/servers/phyre/brandnew/HH/hhmake -i d1e0ea_.a3m DATE Mon Mar 8 20:48:36 2010 LENG 46 match states, 46 columns in multiple alignment FILT 42 out of 46 sequences passed filter (-id 90 -cov 0 -qid 0 -qsc -20.00 -diff 100) NEFF 3.9 EVD 0.4458 1.9407 SEQ >ss_dssp CTTTHHHHHHHHHHHCCCHHHHHHHTCCCHHHHHHHHHHCHHHHCC >sa_dssp EEEEBEDADECAEEEDBECEDACEDDEBDEEBAEEBCDECDECEEE >ss_pred CCCCHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHHHHCHHCCCC >ss_conf 9232699999999956896899998199999999999846541378 >Consensus fldxixxAxxxHxxxHxnaxxLxxxfxipxxxArxIVxxCxxCqxx >d1e0ea_ FLEKIEPAQEEHEKYHSNVKELSHKFGIPNLVARQIVNSCAQCQQK >UniRef50_Q84809(796-841:1086) Pol polyprotein n=1 Tax=Puma lentivirus 14 RepID=Q84809_9RETR E=0.0001 s/c=1.03 id=40% cov=102% WMDNIEKAEDDHDKFHSDVVYLKQRFGIPRQVAEEIIRKCPLCMIK >UniRef50_A8BDN6(573-611:879) Pol protein n=3 Tax=Bos taurus RepID=A8BDN6_BOVIN E=4e-07 s/c=1.43 id=43% cov=80% -------AMDEHTNVHTNAKSLHSKYHIPLTEARHIIKSCDVC--- >UniRef50_UPI000194C19A(315-358:688) PREDICTED: similar to polymerase, partial n=3 Tax=Taeniopygia guttata RepID=UPI000194C19A E=5e-12 s/c=1.63 id=36% cov=98% --DVFQQAKLSHEHYHQNVPGLIRQFQLTRSQARAIVTNCPNCQLQ >UniRef50_UPI0001555E52(649-686:961) PREDICTED: similar to signal peptidase complex subunit 2 homolog n=1 Tax=Ornithorhynchus anatinus RepID=UPI0001555E52 E=2e-06 s/c=1.41 id=31% cov=85% -----ESAQKAHALFHLPAVSLRRLYSLTKAEARGIVRRCTRC--- >UniRef50_UPI000194DFD9(621-661:997) PREDICTED: similar to polymerase n=9 Tax=Taeniopygia guttata RepID=UPI000194DFD9 E=3e-08 s/c=1.46 id=34% cov=89% ----LQEARQLHESLHIGAKALAKRCGISTADARHVVATCPHCQ-- >UniRef50_P63135(591-629:1459) Integrase n=404 Tax=root RepID=POK12_HUMAN E=2e-07 s/c=1.47 id=40% cov=87% ------KAQELHALTHVNAAGLKNKFDVTWKQAKDIVQHCTQCQI- >UniRef50_P19560(1197-1240:1475) Integrase n=30 Tax=Bovine immunodeficiency virus RepID=POL_BIV29 E=9e-10 s/c=1.47 id=38% cov=98% FLENIPSATEDHERWHTSPDILVRQFHLPKRIAKEIVARCQECK-- >UniRef50_P31623(588-632:870) Integrase n=24 Tax=root RepID=POL_JSRV E=3e-09 s/c=1.39 id=39% cov=100% FQSAIDAARKSHDLHHQNSHSLRLQFKISREAARQIVKSCSTCPQ- # 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 * * * * F 1 * * * * 590 * * * * * * * * * * * * * 1576 * 1 0 * * * * * * 2988 0 0 L 2 * * * * * * * 3590 * 740 3788 * * 3497 * * * 2668 * * 2 0 * * * * * * 3049 0 0 E 3 * * 1069 1270 * * * * * * * * * * * 3998 4439 * * * 3 0 * * * * * * 3392 0 0 K 4 3346 * * * * 2788 * * 1748 * * 1885 * * 4344 * 3974 3727 * * 4 0 * * * * * * 3433 0 0 I 5 * * * * 3197 * * 1000 * 1773 * * * 3980 * * * 4834 * * 5 0 * * * * * * 3801 0 0 E 6 3980 * 2972 1746 * * * * * * * 5194 3736 1578 4509 * 5071 * * * 6 91 4025 * 0 * * * 3902 1000 0 P 7 3594 * * 1760 * * * * 2694 4902 * * 2872 2242 * 3539 * * * * 7 0 * * * * * * 3923 0 0 A 8 107 * * * * * * * * 3808 * * * * * * * * * * 8 0 * * * * * * 4000 0 0 Q 9 * * * 3616 5721 * * * 1552 * 5082 * * 1677 2861 * 4992 4406 * * 9 0 * * * * * * 4000 0 0 E 10 4544 * 3138 1502 * * * 3885 2832 2785 * 5586 * 3651 5914 * 5613 * * * 10 0 * * * * * * 4028 0 0 E 11 3511 * 2919 2634 4934 * * * 4421 3302 * 3768 * * * 1664 * * * 4344 11 0 * * * * * * 4028 0 0 H 12 * * * * * * 69 * * * 4429 * * * * * * * * * 12 0 * * * * * * 3997 0 0 E 13 2274 * 3406 1842 * 5358 * * 4272 * * * * 3294 * 3157 3586 * * 4429 13 0 * * * * * * 3997 0 0 K 14 5158 * * * 2781 * 5588 5619 1629 2283 * 4125 * 4743 3647 5045 5391 * * 5164 14 0 * * * * * * 3997 0 0 Y 15 * * * * 1592 * 3045 * * 2968 * * * * * * 4834 5084 3208 2020 15 0 * * * * * * 3997 0 0 H 16 * * * * * * 0 * * * * * * * * * * * * * 16 0 * * * * * * 3997 0 0 S 17 * 5500 * * * * * 4100 * 3074 * 5676 * 1371 * 2210 3513 3461 * * 17 0 * * * * * * 3997 0 0 N 18 * * 3400 * * 2968 * 5513 * * * 730 5088 * * 3447 4992 * * * 18 0 * * * * * * 3997 0 0 V 19 925 * * * * * * 4502 5164 * * * 3145 * * 5710 5362 2581 3683 * 19 0 * * * * * * 3997 0 0 K 20 3857 * 5045 4992 * * 3883 * 1804 * * * 2670 3727 2548 * 4101 4237 * * 20 0 * * * * * * 3997 0 0 E 21 1396 * 5491 3221 * 2489 * 4104 * * * * * * * 3016 3642 * * 4306 21 0 * * * * * * 3997 0 0 L 22 * * * * * * * 5120 * 209 4064 * 4429 * * * * * * * 22 0 * * * * * * 3997 0 0 S 23 2354 * * * * * 4177 3855 3515 * * * * 4110 2346 2444 5513 2919 * * 23 0 * * * * * * 3997 0 0 H 24 * * 5792 * 4720 * 2949 * 2795 3949 * 4834 * 3850 1605 3485 5216 * * 4148 24 0 * * * * * * 3997 0 0 K 25 5158 * 3858 2677 * * * * 2350 5088 5654 5167 * 1457 3550 * 5391 * * * 25 0 * * * * * * 3997 0 0 F 26 * 2968 * * 491 * * * * 5763 * * * * * * * 4743 * 3255 26 0 * * * * * * 3997 0 0 G 27 4992 * 4834 5277 * 2447 2156 * 2953 * * 2302 * 3123 * 4232 * * * * 27 0 * * * * * * 3997 0 0 I 28 * * * * * * * 918 * 1275 * * * * * * * 4125 * * 28 0 * * * * * * 3997 0 0 P 29 * * * * * * * * 4743 * * * 939 * 5521 2323 2188 * * * 29 0 * * * * * * 3997 0 0 N 30 5164 4743 * * * * 5388 * 2950 2702 4270 4024 3290 * 1527 * 5045 * 4834 * 30 0 * * * * * * 3997 0 0 L 31 3311 * 3056 2555 * * * 4427 3461 2949 * * * 4275 5045 5588 2465 4101 * * 31 0 * * * * * * 3997 0 0 V 32 3938 * 5045 2409 * * 5611 4368 * * * * * 1644 * 4793 * 1779 * * 32 0 * * * * * * 3997 0 0 A 33 125 * * * * 4743 * * * * * * * * * * * 4452 * * 33 0 * * * * * * 3997 0 0 R 34 * * * 2773 * * * * 2063 * * * * 5120 843 * 5164 * * * 34 0 * * * * * * 3997 0 0 Q 35 2434 * 3554 1778 * 4217 4064 * * 5860 * 5120 * 2102 4452 * * * * * 35 0 * * * * * * 3997 0 0 I 36 * * * * * * * 197 * 4452 * * * * * * * 3606 * * 36 0 * * * * * * 3997 0 0 V 37 * * * * 5611 * * 3389 5216 4578 5521 * * * * * 5167 385 * * 37 0 * * * * * * 3997 0 0 N 38 1863 * * 5358 * * * * 2294 * * 2910 * 2810 2564 * 4260 * * * 38 0 * * * * * * 3997 0 0 S 39 3212 * * 5167 * * 4834 * 4306 4880 * 5588 5772 3023 4066 1838 2040 * * * 39 0 * * * * * * 3997 0 0 C 40 * 0 * * * * * * * * * * * * * * * * * * 40 0 * * * * * * 3997 0 0 A 41 3585 * 3449 4319 * * * * * 3643 * 5500 1165 4018 * 3310 3955 * * * 41 0 * * * * * * 3997 0 0 Q 42 * * 4437 5045 * * 2214 5277 2882 4306 * 3537 * 2490 5088 3238 3903 5084 * * 42 0 * * * * * * 3997 0 0 C 43 * 0 * * * * * * * * * * * * * * * * * * 43 0 * * * * * * 3997 0 0 Q 44 * * * * * * 3674 * 2575 * 4505 * 4556 678 4560 * * * * * 44 0 * * * * * * 3726 0 0 Q 45 * * * * * * * 1522 * 1961 * * * 1340 * * * * * * 45 0 * * * * * * 2963 0 0 K 46 * * * 3326 * * * * 627 * * * * 2775 3230 * * * * * 46 0 * * 0 * * * 2594 0 0 //