HHsearch 1.5 NAME d1nr3a_ FAM FILE d1nr3a_ COM /bmm/www/servers/phyre/brandnew/HH/hhmake -i d1nr3a_.a3m DATE Mon Mar 8 15:27:13 2010 LENG 122 match states, 122 columns in multiple alignment FILT 15 out of 19 sequences passed filter (-id 90 -cov 0 -qid 0 -qsc -20.00 -diff 100) NEFF 3.9 EVD 0.3853 -1.6398 SEQ >ss_dssp CCCCSCSSCSTHHHHHHCCSSSCCHHHHHHTTCSSSSCHHHHHHHHCCCEEEEECCGGGHHHHHHHHHHHHHHHSCSCCCCHHHHHHHHHHHCSSSCCCC CSSSCEEEEESSSSSEEEECCC >sa_dssp EEEECCDEEECBECAEEBEEECBBABEBCEDECEEEEECCDECCEEDDEDEBCADECEBBDDABEEABDDBBEDDEECCAAACABACBCDDBBEEECBDC DEEDCCCBBCDEBDECEEDEDE >ss_pred CCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHHCCCEECCCHHHHHHHHHHHHHHHHHCC EECCCEEEEEECCCEEEEEECC >ss_conf 9624777899999944467779999999999999999999999951896899986887098889999998875598530677999999998524552033 0014437898078479998529 >Consensus lRxxGxtQxEIAxxLgTSraNIsxIEkrAxeNIekAxxTlxxxxxxxApxxixixxGtdlxxipxxixxeaDxxgIkvxxdsxxixxxixxxxxxxixxr xvxxxxxIxvxxdGxixVxxxx >d1nr3a_ MRERGWSQKKIARELKTTRQNVSAIERKAMENIEKSRNTLDFVKSLKSPVRILCRRGDTLDEIIKRLLEESNKEGIHVIHDSITLAFLIREKASHRIVHR VVKSDFEIGVTRDGEIIVDLNS >UniRef50_B0R5Y4(19-138:143) DNA-binding protein n=1 Tax=Halobacterium salinarum R1 RepID=B0R5Y4_HALS3 E=1e-32 s/c=1.17 id=28% cov=99% LREQGDTQQEIADRLGTTDANISAIERAARTNIEQARRTLRLADTLQAPIQFTVPAGERFDALVEAVYAHGDEADLKIAHCRPELYLSLYETLGDHTTKN QLEAPITVGLTADGDVSVHV-- >UniRef50_A3DPM9(19-135:163) Putative uncharacterized protein n=1 Tax=Staphylothermus marinus F1 RepID=A3DPM9_STAMF E=6e-14 s/c=0.67 id=29% cov=97% -KSRGYSYRRIAEIIGTSHQNIAVAYRRALKNIELSEKTILYYKLSTAKFIALINKGTHLAEIPKLIIEECDKRGIKLRADFTLIFKQIRFYTPQCVSGS RLAGEIIVVVDEHGFIQV---- >UniRef50_A8AC66(2-117:145) Putative uncharacterized protein n=1 Tax=Ignicoccus hospitalis KIN4/I RepID=A8AC66_IGNH4 E=2e-08 s/c=0.52 id=21% cov=96% LRSKGYGVTEIAKMLNTSKQNVTSLIKRGMKNVKKYEVTYKLLKASGAKRVVFFDEGVKLYDVASQLIKIADSLSIKLKGNINDIMSYLKFE-GDVINGA LAK-PHAVGVLEDGHLVV---- >UniRef50_A0B8F8(17-135:146) Sigma-70 region 4 domain protein n=1 Tax=Methanosaeta thermophila PT RepID=A0B8F8_METTP E=7e-34 s/c=1.21 id=34% cov=98% LRRSGMSQEEVAALLGTTRANVSILEKRAMQNIDRALETLKQWKMIHAPVAVSIPEGTDLFALPGIIFREADTRGLKLPVNSIDILAGLKEIAPHLTRRR LIERSFDIYVTEDGEIYVE--- >UniRef50_Q5V5E2(33-150:159) Putative transcriptional regulatory protein rrnAC0199 n=7 Tax=Halobacteriaceae RepID=Y199_HALMA E=8e-29 s/c=1.08 id=33% cov=98% LREHDIRQSDIGELLGTSRANISSIERNARENVEKARQTVAFANTLTAPVCVDIEAGTDIYDIPPTVYAACDEAGVEVNYGSSNLLQLIDDAVDGAIQQD TVQVPLRIDVTNDGVVHV---- >UniRef50_A2BJT4(16-132:151) Uncharacterized conserved archaeal protein n=1 Tax=Hyperthermus butylicus DSM 5456 RepID=A2BJT4_HYPBU E=5e-26 s/c=1.01 id=22% cov=97% LRDKGLGLGEIARMLGLSKQAVWSIEKRARRLLENAAKTLAAYELATAASVIVVNPDTDLAKLPSYVIREADANGVKLRLDYAGIYVFVRNESKKCTRDN GL-DNFAILIFRDGRLRV---- >UniRef50_A8THT0(1-94:108) DNA binding protein, Tfx family n=1 Tax=Methanococcus voltae A3 RepID=A8THT0_METVO E=1e-19 s/c=1.04 id=33% cov=74% -----------------------------RENVEKARNTLSIYSDIIAPSRIIIPEGTDVFEIPKIVFSKSDDDEIHVRYTSLEIMEFINQNAKKYIRNR FVKEPFIVTIMQTGEIYI---- >UniRef50_A2SQN2(2-122:123) Uncharacterized protein-like protein n=1 Tax=Methanocorpusculum labreanum Z RepID=A2SQN2_METLZ E=9e-18 s/c=0.72 id=29% cov=98% YRKDGLTQQEIADLLQTTRSNISLIEKSANENIRLAKEALAYVYSQNSTLICTLAAGSELTREAYSIYKSARQLNIKVQYDTGALINRIMLAVPEKLAGT TVKEDINIYLNSTGIIYV---- >UniRef50_Q0W420(6-137:138) Putative uncharacterized protein n=1 Tax=uncultured methanogenic archaeon RC-I RepID=Q0W420_UNCMA E=2e-36 s/c=1.12 id=34% cov=98% MKKKGMTQAEIARQLKTTRGNICIIESTALKNVEKARNTLKFFKAMEAPVWITVAPGTDLYDVPPLVYKEADRKKIKIALDSAMIVVKLKTEAQDRIQHR VTVGEIDVSVDEQGNVNI---- # 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 * * * * M 1 * * * * * * * * * 578 2647 * * * * * * * * 2551 1 0 * * * * * * 3759 0 0 R 2 * * * * * * * * 2774 * * * * * 228 * * * * * 2 0 * * * * * * 3983 0 0 E 3 3274 * 3518 2108 * * * * 1811 * * * * 4093 3911 2579 * * * * 3 0 * * * * * * 3983 0 0 R 4 4093 * 3574 * * * 3641 * 1435 * * * * 2394 2730 3911 * * * * 4 0 * * * * * * 3983 0 0 G 5 * * 3641 * * 121 * * * * * * * * * * * * * * 5 0 * * * * * * 3983 0 0 W 6 * * 3628 * * * 3836 3641 * 1585 2340 * * * * * * * 3818 2579 6 0 * * * * * * 3983 0 0 S 7 * * * * * 2516 * * 4093 * * * * * 3641 2203 1092 * * * 7 0 * * * * * * 3983 0 0 Q 8 * * * * * * * * * 3518 * * * 424 * * * 3514 * 3647 8 0 * * * * * * 3983 0 0 K 9 3913 * * 2060 * 3518 * * 3818 * * * * 2124 3647 2849 3514 * * * 9 0 * * * * * * 3983 0 0 K 10 * * 3641 505 * * * * 3818 * * * * 3952 3647 * * * * * 10 0 * * * * * * 3983 0 0 I 11 * * * * * * * 99 * * * * * * * * * 3911 * * 11 0 * * * * * * 3983 0 0 A 12 121 * * * * 3641 * * * * * * * * * * * * * * 12 0 * * * * * * 3983 0 0 R 13 3911 * 2124 2194 * * 3836 * 2775 * * * * * 1893 * * * * * 13 0 * * * * * * 3983 0 0 E 14 * * * 3818 * * * 2013 * 2116 2516 * * 3913 2842 * * 3836 * * 14 0 * * * * * * 3983 0 0 L 15 * * * * * * * 2300 * 460 3836 * * * * * * * * * 15 0 * * * * * * 3983 0 0 K 16 * * * * * 816 3952 * 2352 * * 3514 * 3574 * * * * * * 16 0 * * * * * * 3983 0 0 T 17 * * * * * * * 4483 * 3518 * * * * * * 204 * * * 17 0 * * * * * * 3983 0 0 T 18 * * * * * * * * * * * * * * * 804 1227 * * * 18 0 * * * * * * 3983 0 0 R 19 * * 3628 * * * 3647 * 2062 * * * * * 737 * * * * * 19 0 * * * * * * 3983 0 0 Q 20 1061 * * * * 3913 * * * * * * * 1619 * 2958 * * * * 20 0 * * * * * * 3983 0 0 N 21 3518 * * * * * * * * * * 204 * * * * 4483 * * * 21 0 * * * * * * 3983 0 0 V 22 * * * * * * * 825 * * * * * * * * * 1199 * * 22 0 * * * * * * 3983 0 0 S 23 3005 2932 * * * * * * * * * * * * * 812 3514 * 3518 * 23 0 * * * * * * 3983 0 0 A 24 2720 * * * * * * 2385 * 2810 3836 * * * * 1972 3952 3005 * * 24 0 * * * * * * 3983 0 0 I 25 3647 * * * * * * 649 * 2234 * * * * * * * 3836 * * 25 0 * * * * * * 3983 0 0 E 26 * * * 264 * * * 3514 * * * * * * * * * * * 3647 26 0 * * * * * * 3983 0 0 R 27 * * * * * * * * 828 * * * * * 1433 3913 * * * * 27 0 * * * * * * 3983 0 0 K 28 3628 * * * * * * * 3818 * * 3641 * * 976 2371 3913 * * * 28 0 * * * * * * 3983 0 0 A 29 132 * * * * 3514 * * * * * * * * * * * * * * 29 0 * * * * * * 3983 0 0 M 30 * * * * * * * * 4165 2042 1830 3609 * * 1564 * * * * * 30 0 * * * * * * 3999 0 0 E 31 * * * 998 * * * * 2132 * * * * 3958 2971 * 3660 * * * 31 0 * * * * * * 3999 0 0 N 32 * * * * * * * * 3320 3573 * 294 * * * * * * * * 32 0 * * * * * * 3999 0 0 I 33 * * * * * * * 625 * 3573 * * * * * * * 1902 * * 33 0 * * * * * * 3999 0 0 E 34 * * 3958 596 * * * * 3548 * * * * * 2407 * * * * * 34 0 * * * * * * 3999 0 0 K 35 * * * * * * * * 1151 2644 4520 3573 * 3660 2449 * * * * * 35 0 * * * * * * 3999 0 0 S 36 489 * * * * * * * * * * * * * * 2306 * * * 3548 36 0 * * * * * * 3999 0 0 R 37 3573 * * 2272 * * * * 1952 3958 * * * * 1373 * * * * * 37 0 * * * * * * 3999 0 0 N 38 * * * 1696 * * * * 2626 * * 1803 * 3678 3660 * * 3548 * * 38 0 * * * * * * 3999 0 0 T 39 3609 * * * * * * * * * * * * * * * 123 * * * 39 0 * * * * * * 3999 0 0 L 40 * * * * * * * 2495 * 602 * * * * * * * 3678 * 3548 40 0 * * * * * * 3999 0 0 D 41 2034 * 3870 3989 * * * * 1888 2894 * 4116 * * 3027 4667 * * * * 41 0 * * * * * * 3999 0 0 F 42 3573 * * 4165 1867 * * 3365 * 1918 * * * 3958 * * * * * 2644 42 0 * * * * * * 3999 0 0 V 43 2669 * * * 3952 * * * * 2752 * * * * * * * 2733 2501 1724 43 0 * * * * * * 3999 0 0 K 44 * * 3660 2831 * * * * 1470 * * 2384 * * 4520 4667 * * * 2786 44 0 * * * * * * 3999 0 0 S 45 2736 * 3365 * * * * * * 2282 3958 * * 4144 * 2278 2183 * * * 45 0 * * * * * * 3999 0 0 L 46 3573 * * * * * * 2198 * 1590 3952 * * 3609 * 2613 * 4165 * * 46 0 * * * * * * 3999 0 0 K 47 * * 3989 3952 * 3548 3212 2711 3870 * * 2852 * 3660 * * 2058 * * * 47 0 * * * * * * 3999 0 0 S 48 440 * * * * * * * * * * * * * * 1929 * * * * 48 0 * * * * * * 3999 0 0 P 49 2971 * * * * * * * 2184 * * * 979 * * * 2786 * * * 49 0 * * * * * * 3999 0 0 V 50 * * * * 3680 4520 3989 2882 * 3609 * * * * 3548 2466 * 1594 * * 50 0 * * * * * * 3999 0 0 R 51 3958 3678 * * * * * 2644 4116 3989 * * * 3660 2613 4144 * 2561 3952 4520 51 0 * * * * * * 3999 0 0 I 52 3680 2786 * * 3660 * * 1274 * * * * * * * * * 1813 * * 52 0 * * * * * * 3999 0 0 L 53 * * 3038 4144 3548 * * 4667 4116 2772 * * * * * 3958 1538 3573 * * 53 0 * * * * * * 3999 0 0 C 54 * 3870 * * 3548 * * 1448 * 3609 * * * * * * * 1330 * * 54 0 * * * * * * 3999 0 0 R 55 2770 * 3548 2880 * * * * 3155 * * 2626 1789 * 3870 * * * * * 55 0 * * * * * * 3999 0 0 R 56 1822 * * 2402 * * * * 2012 * * * 2750 * 3870 3989 * * * * 56 0 * * * * * * 3999 0 0 G 57 * * 3573 * * 127 * * * * * * * * * * * * * * 57 0 * * * * * * 3999 0 0 D 58 * * 3870 2882 * * * * * * * * * * * 3609 670 3548 * * 58 0 * * * * * * 3999 0 0 T 59 * * 828 3609 * * 3040 * 3548 * * * * * 3660 * 3870 * * * 59 0 * * * * * * 3999 0 0 L 60 * * * * 3660 * * 2892 * 762 4520 * * * * * * 2711 * * 60 0 * * * * * * 3999 0 0 D 61 2282 * 2761 * 1832 * * * * * 4165 * * * * * 3609 * * 2131 61 0 * * * * * * 3999 0 0 E 62 2801 * 2131 1774 * * * * 3573 * * 4116 * 4144 3609 * 4165 * * * 62 0 * * * * * * 3999 0 0 I 63 * * * 3609 * * * 1248 * 2136 * * * * * * * 1891 * * 63 0 * * * * * * 3999 0 0 I 64 2578 * * * * * * 3870 * * * * 546 * * * * 3660 * * 64 0 * * * * * * 3999 0 0 K 65 * * * 2386 * 2548 * * 2428 * * 4116 2808 * * 2561 * * * 3609 65 0 * * * * * * 3999 0 0 R 66 3660 * * * * * * 2649 4144 2810 3230 * * 3548 3870 3609 3678 4116 * 3573 66 0 * * * * * * 3999 0 0 L 67 * * * * * * * 1535 * 1977 * * * * * * * 1318 * * 67 0 * * * * * * 3999 0 0 L 68 * * * * 1571 * * 1780 * 3870 * * * * * * * * * 1719 68 0 * * * * * * 3999 0 0 E 69 1857 * * 2772 * * * * 1590 * * * * * 2753 3365 * * * * 69 0 * * * * * * 3999 0 0 E 70 3678 * * 1065 * * 3660 3548 2343 * * * * * * 3609 * * * * 70 0 * * * * * * 3999 0 0 S 71 739 2679 * * * 3660 * * * * * * * * * 2596 * * * * 71 0 * * * * * * 3999 0 0 N 72 * * 346 3989 * * * * * * * 3870 * * 3609 * * * * * 72 0 * * * * * * 3999 0 0 K 73 3573 * 4667 1666 * * * * 2255 * * * * 3609 3055 3548 3958 * * * 73 0 * * * * * * 3999 0 0 E 74 2183 * 4667 2988 * * * * 3952 1902 * 3573 * * 2812 4165 * * * * 74 0 * * * * * * 3999 0 0 G 75 * * 3660 3365 * 919 * * 2970 * * 3609 * * * 3548 * * * * 75 0 * * * * * * 3999 0 0 I 76 * * * * * * * 781 * 2801 * * * * * * * 1866 * * 76 0 * * * * * * 3999 0 0 H 77 * * * 3678 * * 2177 * 513 * * * * * * * * * * * 77 0 * * * * * * 3999 0 0 V 78 * * * * * * * 2799 * 1492 * * * * * * * 998 * * 78 0 * * * * * * 3999 0 0 I 79 2799 * * * * * * 3870 2380 * * 2880 3048 3609 1959 * * * * * 79 0 * * * * * * 3999 0 0 H 80 3680 * * * * 2954 2761 * * 2750 * * * * * * 4165 3958 * 1408 80 0 * * * * * * 3999 0 0 D 81 * 3660 891 * * 3678 * * * * * 2739 * * * 3130 4667 * * * 81 0 * * * * * * 3999 0 0 S 82 * * * * 3581 * * 3482 * * * * * * 3598 1181 2244 * * 3440 82 0 * * * * * * 3938 0 0 I 83 2193 * * * * 3547 * 1947 * 3322 * 3482 3598 * * 3631 3581 * * * 83 0 * * * * * * 3938 0 0 T 84 3547 * 2683 2451 * 2738 * * * 3581 3900 3631 * 4077 * 3920 3850 * * * 84 0 * * * * * * 3938 0 0 L 85 * * * * * * * 842 * 1178 * * * * * * * * * * 85 0 * * * * * * 3938 0 0 A 86 3850 * * * 3581 * * 1895 * 2767 2400 * * * * * * 3900 * 2517 86 0 * * * * * * 3938 0 0 F 87 2992 * * 3322 3850 * * * 3581 3598 * 2721 * 3631 * 3482 4113 2652 * * 87 0 * * * * * * 3938 0 0 L 88 * * * * 1990 3917 * * 3900 2266 * * * 3581 2721 3598 * * * 3482 88 0 * * * * * * 3938 0 0 I 89 * * * * * * * 1068 * 1215 * * * * * * * 3440 * * 89 0 * * * * * * 3938 0 0 R 90 * * 3631 * * * * * 1834 * 3547 3322 * * 1684 * * 4071 * 3598 90 0 * * * * * * 3938 0 0 E 91 * * 3631 1540 2531 * * * 4113 3547 * 3440 * 3322 * * 3900 * * * 91 0 * * * * * * 3938 0 0 K 92 2106 * * 1706 * * 4071 3917 3850 * * 3322 * * * * 3598 * * 3581 92 135 * 3482 * * * * 3938 0 0 A 93 1337 * * * * * * * 3998 3490 * * * * 3778 3276 3375 2474 * * 93 0 * * * * 0 * 3766 0 1000 S 94 * * 3631 * * 2539 * * 2380 * * * 1470 3900 * 2976 * * * * 94 89 * 4071 * * * * 3938 0 0 H 95 * * 1644 3490 * 3545 2794 * 2815 * * * * 2681 3984 * * * * * 95 0 * * * * * 0 3907 0 1000 R 96 2728 2430 * * * * 3505 * 3490 3814 * * * * 2786 3876 * 3400 * 3218 96 0 * * * * 0 * 3907 0 1000 I 97 * * * * * * * 933 * 3547 * * * * * * 2053 3581 * 3920 97 0 * * * * * * 3938 0 0 V 98 3547 * 4071 * * * * * 2996 * * 3482 * 2760 2328 2823 3598 3850 * * 98 0 * * * * * * 3938 0 0 H 99 3920 * 2721 * * 1951 2875 * 3598 * * 2664 * 3631 3917 * * * * * 99 0 * * * * * * 3938 0 0 R 100 3482 * 3631 * * * * * * * * 2517 * * 1041 3581 3547 * * * 100 0 * * * * * * 3938 0 0 V 101 * 3920 * * 4617 3440 * * * 2216 3095 * * 3598 3581 * 2589 2875 * * 101 0 * * * * * * 3938 0 0 V 102 2746 * * * * * * 2918 * 1953 * * * * * * 3900 1346 * * 102 139 * 3440 * * * * 3938 0 0 K 103 3399 3806 * 2607 * * * * 1394 * * * * 3538 * * * 2300 * * 103 155 * 3296 * * 0 * 3788 0 1000 S 104 3490 * 3276 1871 * 2557 * * * * * * * * 2305 3730 * 3527 * * 104 0 * * * * 0 * 3766 0 1000 D 105 * * 1564 2732 * * * * * * * 3440 1503 * * 3917 * * * * 105 0 * * * * * * 3938 0 0 F 106 * * * * 1168 * 3482 1650 * 3631 * * * * * * * 3920 * * 106 0 * * * * * * 3938 0 0 E 107 2461 * 2908 2976 * * * 2446 * * * 3547 * 3920 3631 * 2815 * * * 107 0 * * * * * * 3938 0 0 I 108 * * * * * * * 945 * 4071 * * * * * * * 1247 * * 108 0 * * * * * * 3938 0 0 G 109 * * 2852 * 4071 2050 * * * 3440 * * * * * 3900 3322 3581 * 2199 109 0 * * * * * * 3938 0 0 V 110 * * * * * * * 1662 * 2135 * * * * * * * 1132 * * 110 0 * * * * * * 3938 0 0 T 111 * * 2251 * 3440 * * * * 2749 4617 3547 * * * * 1242 * * * 111 0 * * * * * * 3938 0 0 R 112 3598 * 3920 1707 * * * * * * * 2852 * 3322 2178 3547 * * * * 112 0 * * * * * * 3938 0 0 D 113 * * 871 4071 * * 3581 * * * * 4077 * 3900 * 4113 2985 * * * 113 0 * * * * * * 3938 0 0 G 114 * * * * * 0 * * * * * * * * * * * * * * 114 0 * * * * * * 3907 0 0 E 115 * * 3505 1377 3510 * 3400 3490 * * * 3798 * * 3353 * * 3545 * * 115 0 * * * * * * 3907 0 0 I 116 * * * * * * * 1010 * 2377 * * * * * * * 1686 * * 116 0 * * * * * * 3907 0 0 I 117 * * * * * * 3464 3670 * * * 3697 * 3411 3301 3415 3837 3318 * 1765 117 0 * * * * * * 3853 0 0 V 118 * * * * * * * 3012 * 3837 * * * * * * * 311 * * 118 0 * * * * * * 3853 0 0 D 119 * * 1588 1616 * * 1552 * * * * * * * * * * * * * 119 0 * * * * * * 2048 0 0 L 120 * * * * * * * * * 1000 * * * * * * * 1000 * * 120 0 * * * * * * 1643 0 0 N 121 * * * * * * * * * * * 0 * * * * * * * * 121 0 * * * * * * 1000 0 0 S 122 * * * * * * * * * * * * * * * 0 * * * * 122 0 * * 0 * * * 1000 0 0 //