HHsearch 1.5 NAME d1hnra_ FAM FILE d1hnra_ COM /bmm/www/servers/phyre/brandnew/HH/hhmake -i d1hnra_.a3m DATE Wed Mar 10 16:43:31 2010 LENG 47 match states, 47 columns in multiple alignment FILT 84 out of 88 sequences passed filter (-id 90 -cov 0 -qid 0 -qsc -20.00 -diff 100) NEFF 3.9 EVD 0.4689 3.2261 SEQ >ss_dssp CCCSCCBEECCSSCCCEECCTTSSCCSHHHHHHHHTCCSGGGTBCCC >sa_dssp EEEECCCACDBEEDDEDDCEDEEEDDDDBDDCDEEECEDEDCBCEEE >ss_pred CCCCCCEEEECCCCCCCEECCCCCCCHHHHHHHHHCCCCHHHHHHCC >ss_conf 97878248755998721263779986899999985699888952149 >Consensus AxrpxKYryxxpxxxxxTWtGrGRxPxwxxxxlxxxGxsledflIkk >d1hnra_ AQRPAKYSYVDENGETKTWTGQGRTPAVIKKAMDEQGKSLDDFLIKQ >UniRef50_B9Z6W8(58-101:101) Histone family protein nucleoid-structuring protein H-NS n=5 Tax=Neisseriaceae RepID=B9Z6W8_9NEIS E=0.0006 s/c=1.03 id=33% cov=96% ARKPVEAKYCHPQNPELTWTGRGRKPLWVQELL-AAGKNLEDLAI-- >UniRef50_Q2BK75(84-130:130) DNA-binding protein Hns n=1 Tax=Neptuniibacter caesariensis RepID=Q2BK75_9GAMM E=6e-09 s/c=1.32 id=40% cov=96% APKKkvqPKYRIVDDEGNEHEWSGRGRTPLAFQAYFD-KGFTKDDCLI-- >UniRef50_C7BHB8(106-148:148) Dna-binding protein h-ns (Histone-like protein hlp-ii) (Protein h1 (Protein b1)) n=2 Tax=Photorhabdus RepID=C7BHB8_PHOAA E=5e-08 s/c=1.37 id=45% cov=94% --RKPKYQF-NENGEIKYWSGNGKKPLGLQKLLNE-GHSLNEFLITK >UniRef50_A5EX59(59-101:101) Putative uncharacterized protein n=1 Tax=Dichelobacter nodosus VCS1703A RepID=A5EX59_DICNV E=5e-07 s/c=1.29 id=34% cov=94% SKRPPK--FANPDNPEQTWSGMGRQPDWYKAYIDKGGNEKN-MLIK- >UniRef50_Q606Z8(69-111:112) Putative regulator protein n=1 Tax=Methylococcus capsulatus RepID=Q606Z8_METCA E=1e-05 s/c=1.19 id=32% cov=94% AKVPAKYQ--NPHNPAEKWSGRGVKPRWLQAFL-AQGRDIKEFEIK- >UniRef50_A3VE67(73-114:114) Histone-like nucleoid-structuring protein H-NS n=4 Tax=Rhodobacterales RepID=A3VE67_9RHOB E=2e-05 s/c=1.21 id=33% cov=91% AKVAPKYR--NPDDANMTWTGRGRKPKWVEAHL-EKGGTLEQIAI-- >UniRef50_Q136M2(81-128:139) Histone-like nucleoid-structuring protein H-NS n=1 Tax=Rhodopseudomonas palustris BisB5 RepID=Q136M2_RHOPS E=0.0002 s/c=0.98 id=41% cov=94% ARRPypkvyPKYRSL--KDPSLTWAGRGKQPLWLIDELK-SGKSIDDFLIR- >UniRef50_A9IZ20(59-95:95) Trans-acting regulatory protein n=12 Tax=Proteobacteria RepID=A9IZ20_BART1 E=0.0005 s/c=1.24 id=35% cov=79% --------YRNPNNQWELWNGRGRRPKWIKEWL-ENGYTLDELEV-- >UniRef50_B5J2H6(78-113:113) H-NS histone family n=2 Tax=Octadecabacter antarcticus RepID=B5J2H6_9RHOB E=0.0007 s/c=1.26 id=38% cov=79% --------YADSADKSKTWTGKGRQPEWFKSAI-AAGQTPESMAI-- # 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 * * * * A 1 233 * * * * * * * * * * * * * * 2746 * * * * 1 0 * * * * * * 3284 0 0 Q 2 * * * * * * 3353 * 1723 * * * 1145 5295 3041 * * * * * 2 0 * * * * * * 3490 0 0 R 3 * * * * * * * * 3292 3217 * * * * 564 * * 3135 * * 3 0 * * * * * * 3565 0 0 P 4 4927 * * 5224 * * * * 2666 * * * 541 * 5281 4469 5333 * * * 4 96 3951 * 2447 292 * * 3904 1698 0 A 5 1512 * * * * * * 4246 * * 5591 * 1166 * * 5544 * 3611 5210 * 5 0 * * * * * * 3831 0 0 K 6 * * * 4606 * * * * 203 5911 * * 6102 * 5214 * 4964 * * * 6 30 * 5594 * * * * 3838 0 0 Y 7 4130 * * * 4799 * * 5642 * 5206 * * * * * * * 4572 * 290 7 25 * 5890 * * * 0 3832 0 1000 S 8 4874 * * 3726 * * * 4803 2698 * * * * 3128 929 4965 5119 * * * 8 555 * 1648 * * 1000 1000 3977 0 1475 Y 9 * * * * 1945 * * 3432 * 4314 * 5718 * * * 5285 * * * 855 9 127 * 3571 * * 2769 229 3785 0 3053 V 10 2413 6201 * * 5645 * * 3686 3852 3794 5208 * * 4158 2568 5831 2351 3735 5700 * 10 215 * 2855 * * 63 4542 3804 0 3218 D 11 * * 1584 4577 * * 2611 * * * * 1256 * * * 5344 * 5825 * * 11 93 5230 4797 0 * 239 2711 3943 1000 2656 E 12 6797 * 5114 2593 5666 * 6652 * 6766 6565 * 6092 931 6048 * 4086 5012 3490 * 6179 12 25 * 5871 * * 0 * 3974 0 1817 N 13 2731 * 2660 2959 * 4588 3972 * 5192 6002 * 1719 * 4837 5900 5545 4738 * * * 13 20 * 6152 * * 0 * 4020 0 1000 G 14 5187 * 2480 4308 * 1333 * * * * * 1754 * 6071 * 6003 * * * 5736 14 0 * * * * 0 * 4016 0 1000 E 15 3658 * 5694 1895 * * 5623 6473 3510 * * 3654 1838 4676 5571 4997 6162 4358 * * 15 19 * 6240 * * * * 4024 0 0 T 16 3622 * 3567 2327 * 4347 5346 4270 6440 4497 4749 5143 * 5026 4650 2563 3312 5043 5836 * 16 0 * * * * * 0 4023 0 1000 K 17 * * 4713 3125 * * 3582 5565 2148 3380 4741 5216 * 2007 3969 * 4928 6494 * * 17 0 * * * * 0 * 4031 0 1000 T 18 5632 * 5584 3926 * * * * 4011 5873 * * * 4529 * * 471 6036 * 4865 18 0 * * * * * * 4033 0 0 W 19 * * * * * * * * * * * * * * * * * * 0 * 19 0 * * * * * * 4043 0 0 T 20 5821 6442 * * * 5880 * * * * * 5933 * * 6361 1329 924 * * * 20 0 * * * * * * 4043 0 0 G 21 * * * * * 0 * * * * * * * * * * * * * * 21 25 * 5880 * * * * 4043 0 0 Q 22 * * * * * * * 3960 3944 * 4789 5278 * 2513 873 * 5925 4240 * 5774 22 0 * * * * 0 * 4043 0 1000 G 23 * * * * * 0 * * * * * * * * * * * * * * 23 0 * * * * * * 4043 0 0 R 24 5880 * * * * * 6362 * 2606 * * * * * 341 * * 5884 * * 24 0 * * * * * * 4043 0 0 T 25 * * * * * * 5888 * 2028 * 2491 * 6314 2392 2698 6356 2718 4695 * * 25 0 * * * * * * 4043 0 0 P 26 * * * * * * * * 5312 * * * 37 * * * * * * * 26 0 * * * * * * 4043 0 0 A 27 3582 * 4632 5098 * 6362 3789 6176 1945 2942 * 4177 * 4779 2725 5507 4095 4821 * * 27 0 * * * * * * 4043 0 0 V 28 3254 * * * * 4719 * * * * * * 3694 5976 * 5383 * 2874 728 * 28 0 * * * * * * 4043 0 0 I 29 * * * * 2163 * * 2101 * 1599 5238 * * * * * * 2820 * 4461 29 0 * * * * * * 4043 0 0 K 30 2641 * * 3584 * * 6448 5821 1876 5472 * 5865 * 2054 4949 4734 6361 3440 * * 30 20 * 6182 * * * * 4043 0 0 K 31 1988 * 3880 1402 * 6945 5876 * 4151 4890 * 4282 * 3891 * 5078 5460 6038 * * 31 15 * 6583 * * * 0 4035 0 1000 A 32 1188 * * 3557 5001 6593 5559 * 5665 3160 * 5655 * 3985 5336 * * 6385 3399 3899 32 33 * 5463 * * 862 1152 4039 0 1317 M 33 * * * 5632 4905 * * 2413 * 736 3554 * * * * * * 3777 * * 33 838 * 1182 * * 511 1745 4031 0 1523 D 34 * * 1370 3628 * * * * 2415 * * 2834 * * 5324 2659 5550 * * * 34 1364 * 710 * * 35 5387 3793 0 3154 E 35 1109 * * 1566 * * * * 5243 5916 5575 4186 * 4085 5585 * * * * * 35 165 * 3208 * * 59 4630 3769 0 3478 Q 36 1741 * * 4709 * 4450 5578 * 2748 5772 * 2657 * 4626 4966 2626 4810 * * * 36 0 * * * * 0 * 3990 0 2386 G 37 * * * * * 0 * * * * * * * * * * * * * * 37 49 * 4906 * * * * 4044 0 0 K 38 3388 * * 5035 6065 3501 3589 * 1546 5873 4178 4785 * 6428 2741 * 4952 6385 * 5008 38 0 * * * * 0 * 4018 0 1857 S 39 5565 * 3341 5042 6289 * * * 2450 * * 4606 6085 4957 5592 1468 2443 * * * 39 0 * * * * * * 4044 0 0 L 40 6312 * * 5672 6238 * * 2787 3556 926 4556 * 3549 6255 5141 * * 5113 * * 40 0 * * * * * * 4044 0 0 D 41 4143 * 1617 1135 * * 5672 * 5879 * * 5088 * * * 3687 5764 * * * 41 24 * 5919 * * * * 4044 0 0 D 42 3859 * 904 2208 * * * * 6211 * * * * 5243 * 2833 * * * * 42 0 * * * * 0 * 4028 0 1000 F 43 * 4425 * * 858 * 6116 6153 * 2311 3103 * * * * * * 5856 * 4709 43 0 * * * * * * 4027 0 0 L 44 2690 * * 2915 * * * * 5867 814 * * * 5278 3654 * 6800 6322 * * 44 0 * * * * * * 4001 0 0 I 45 * * * * * * * 193 * 4864 * * * * * * * 3461 * * 45 0 * * * * * * 4000 0 0 K 46 * * 2862 4300 * * * * 953 * * 3795 * * 3532 4427 4525 4415 * * 46 0 * * * * * * 3569 0 0 Q 47 * * * * * * * * 389 * * * * 2814 3411 * * * * * 47 0 * * 0 * * * 2906 0 0 //