HHsearch 1.5 NAME d1dm9a_ FAM FILE d1dm9a_ COM /bmm/www/servers/phyre/brandnew/HH/hhmake -i d1dm9a_.a3m DATE Mon Mar 8 21:08:22 2010 LENG 104 match states, 104 columns in multiple alignment FILT 129 out of 758 sequences passed filter (-id 90 -cov 0 -qid 0 -qsc -20.00 -diff 100) NEFF 5.7 EVD 0.4508 1.0455 SEQ >ss_dssp CTTCCBHHHHHHHTTSSSSHHHHHHHHHTTCEEETTEECCTTCBCCTTCEEEEEETTEEEEEEECCCCSCCCCHHHHGGGEEECHHHHHHHHHHHHHHHH HHTC >sa_dssp EEEDBDABCAACAADBBEDDDDADECADDCEADBDEEECEBDCDBDEEBDACABCEEDECCACADDDCDECEDEECADEBCECCEEBCDDCDEEDEDCCE DEDE >ss_pred CCCCHHHHHHHHHCCCCCCHHHHHHHHHCCCEEECCEECCCCCEECCCCEEEEECCCCEEEEEEECCCCCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHH HHCC >ss_conf 9852027999996557469999999997796799789816998946998899971893579998014211579789988730278570236759999976 4049 >Consensus pxxxxRLDkxLxxxxxxxSRsxaxxxIxxGxVxVNgxxxkxsxxVxxgDxIxixxxxxxxxvxvlxlxxxRxxaxeAxxlYedxxxxxxxxxxxxxxxxx xxxx >d1dm9a_ PAVEVRLDKWLWAARFYKTRALAREMIEGGKVHYNGQRSKPSKIVELNATLTLRQGNDERTVIVKAITEQRRPASEAALLYEETAESVEKREKMALARKL NALT >UniRef50_B0TWR8(15-96:309) Pseudouridine synthase n=19 Tax=Francisella RepID=B0TWR8_FRAP2 E=1e-06 s/c=0.66 id=23% cov=75% ---EQRIDNFLisKFSRLPK--SLIYRWIRKGELRVNKKRVKQTTRVSAGDIVRVPPFSLEENLEIAKVSKSHLDFLEQRILYE---------------- ------ >UniRef50_Q4AAG8(2-62:240) Pseudouridine synthase n=6 Tax=Mycoplasma RepID=Q4AAG8_MYCHJ E=2e-05 s/c=0.82 id=23% cov=51% --KKIRINKFLSEMGVC-SRRQSEKLILQGRIKINNETAKIGQIISQNDVIELDQ--------------------------------------------- ---- >UniRef50_A4J2F1(177-240:255) RNA-binding S4 domain protein n=1 Tax=Desulfotomaculum reducens MI-1 RepID=A4J2F1_DESRM E=6e-05 s/c=0.76 id=22% cov=62% --ASLRLDTV-AAAGFGTSRSRIAREIQAERLNLNWHSCsDVAASVKSGDMLSIRGRGRVEIAEVKG--------------------------------- ----- >UniRef50_C7LKJ2(115-211:223) 30S ribosomal subunit protein S4 n=1 Tax=Candidatus Sulcia muelleri SMDSEM RepID=C7LKJ2_SULMS E=7e-10 s/c=0.67 id=19% cov=88% -----RLDNIVYRLKLSHTRPEARQLVSHRHITVNGKIVNiPSYNLKPGDKISLIEKYKKQ--KAILLEKKRLVGKVTTWLSWDNEnfigilKSIPRREQ IPEM------- >UniRef50_B6BTN1(20-92:346) Pseudouridine synthase n=2 Tax=Betaproteobacteria RepID=B6BTN1_9PROT E=1e-08 s/c=0.83 id=21% cov=46% ------------------SRSKIQSMIKNDLIFLNGSHVSQNYKVVGGEEIVI-NGVIEDEIDVIA---------------------------------- ---- >UniRef50_B4UM41(16-109:302) Pseudouridine synthase, RluA family n=4 Tax=Anaeromyxobacter RepID=B4UM41_ANASK E=8e-06 s/c=0.55 id=22% cov=78% ------------------SRGLARRAIEAGGVFVDGRRCKvAGRTLTPGQQVVVNLEEGGRAAPALaALGRERLLYADADLCAVDKPAGVPAQPTLTTDR ------ >UniRef50_A7H6D3(10-93:339) Pseudouridine synthase n=6 Tax=Cystobacterineae RepID=A7H6D3_ANADF E=0.0007 s/c=0.54 id=20% cov=54% ------------------------------KIRVNGGRGKAEQLVAAGDVVVIRGDEERLLARQEPEPGARAGAVTFGVLHEDAD--------------- ---- # 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 * * * * P 1 * * * * * * * * * * * * 0 * * * * * * * 1 0 * * * * * * 3224 0 0 A 2 1330 * 3868 3926 * 3383 * * 2897 * 4308 * * * * * 2417 * * * 2 0 * * * * * * 4210 0 0 V 3 2538 * 5033 1504 * 2187 * * 3445 4478 * * * * * 4888 5398 5012 * * 3 0 * * * * * * 4684 0 0 E 4 * * * 2518 * 5477 5241 * 2325 5149 * 5623 5062 * 2242 1917 * 5480 * * 4 39 5229 * 1585 585 * * 5168 1000 0 V 5 6414 * * 3980 5873 * * 2952 * 2591 1514 * * 3460 * * * 2543 * * 5 0 * * * * * * 5623 0 0 R 6 * * * * * * * * * * * * * * 0 * * * * * 6 0 * * * * * * 5931 0 0 L 7 4823 6240 * * * * * 2116 * 713 6500 * * * * * * 3328 * * 7 0 * * * * * * 5931 0 0 D 8 * * 163 5951 * 5838 6394 * * * * 5115 * 5742 * 6173 * * * * 8 0 * * * * * * 5931 0 0 K 9 4223 * * 5688 * * 4743 4859 1290 3496 * 4915 * 4360 2821 4610 5191 3919 * * 9 50 * 4868 * * * * 5931 0 0 W 10 4385 * * * 2020 * * 4658 * 3044 6221 * * * * * * 3566 2055 2277 10 13 * 6832 * * 0 * 5905 0 2037 L 11 * 6044 * * * * * 3395 * 324 4975 * * * * 6195 * 4461 * * 11 62 6768 4938 1000 1000 0 * 5929 1000 1000 W 12 2508 5108 * 6402 4183 * 4661 * 3062 6506 * * 6257 * 6674 2962 3764 2743 2629 5488 12 25 * 5861 * * 0 * 5896 0 2199 A 13 2503 6004 5084 3521 4215 5792 4941 4473 3491 4829 6970 5255 * 3867 2793 3382 3899 6993 * * 13 0 * * * * 0 * 5920 0 1000 A 14 1933 * * 4696 * 6902 6405 3255 4911 3511 5048 4839 * 3486 3669 3010 5388 4039 * 6413 14 75 7032 4535 0 * * * 5931 1000 0 R 15 5413 5316 * 6133 4746 2428 6025 5519 4842 4003 4220 3776 6394 * 1661 4908 * 4851 * 4135 15 0 * * * * 0 * 5908 0 2554 F 16 * * 7030 4209 2473 7065 5845 3103 4645 2138 6878 7147 2972 5828 * 6618 4545 3640 6065 4606 16 13 6850 * 0 * * * 5942 1000 0 Y 17 3659 4142 3547 4302 2550 2759 6618 4219 5595 5130 6724 3714 6801 5471 * 5485 4219 3982 * 4648 17 78 * 4257 * * * * 5942 0 0 K 18 6057 6991 5742 4302 4455 6436 5345 4889 1801 2859 4476 6386 5587 4421 4464 3589 7003 5071 5453 4203 18 31 6357 6782 0 * 0 * 5907 1000 2333 T 19 6602 * * * * * * * * * * 4803 5946 * 4116 728 1857 * * * 19 0 * * * * * 0 6066 0 1000 R 20 * * * * 6598 6239 * * 5382 6085 * * * 4656 177 * * 6227 * * 20 10 * 7179 * * 0 * 6066 0 1000 A 21 3213 * * 4916 * 4983 6403 * * * * 2856 6121 5078 3672 1236 2938 * * * 21 10 * 7211 * * 0 * 6061 0 1000 L 22 4430 * 6101 4380 4713 * 4210 4077 2686 2546 4928 5630 * 3082 3100 6932 4965 4275 * 4905 22 0 * * * * 0 * 6058 0 1000 A 23 936 5540 * * 6057 5937 * 2297 * 3654 * * * * * 5239 * 3359 5811 * 23 0 * * * * * * 6071 0 0 R 24 3474 6415 5595 4399 * 6778 * 6823 2589 5657 5822 6276 * 1784 2833 3856 3948 * * 5005 24 0 * * * * * * 6070 0 0 E 25 3373 * 3055 3111 * 5604 7156 6419 2408 5580 6523 4478 6646 2994 2879 4558 4573 * 7151 * 25 0 * * * * * * 6079 0 0 M 26 2407 * 6366 5928 5569 5580 5488 3301 5975 1487 3604 * * 5876 6870 * * 4672 3832 5193 26 0 * * * * * * 6087 0 0 I 27 4708 3608 * * 6585 * * 612 * 3576 6847 * * * * 6876 6087 3330 * * 27 0 * * * * * * 6090 0 0 E 28 4120 * 3531 2074 * * * * 2602 3460 5311 4341 * 3800 2885 4704 5406 5697 * * 28 0 * * * * * * 6090 0 0 G 29 2081 * 4316 3242 * 4225 4845 * 2726 5307 * 3817 * 3814 3869 3209 5356 * * * 29 0 * * * * * * 6090 0 0 G 30 6642 * 4408 5410 * 519 * * 3435 * * 4283 * 4469 5342 7008 * * * * 30 0 * * * * * * 6090 0 0 K 31 4508 5287 4884 4772 4090 4180 3529 5600 3012 3574 6726 4281 * 3610 2161 5892 6036 7127 * 5304 31 0 * * * * * * 6093 0 0 V 32 5110 * * * 5911 * * 2089 * 3941 6379 * * * * * * 639 * * 32 10 7163 * 0 * * * 6106 1000 0 H 33 7428 * * 5207 4014 * 6958 5913 2326 2588 6008 5753 * 4915 2280 3649 3709 7485 6015 3957 33 0 * * * * * * 6106 0 0 Y 34 6270 6350 * * * * * 2503 * 2655 6234 * * * 7123 6955 * 746 * 6076 34 52 4812 * 1253 785 * * 6106 2344 0 N 35 * * 2621 6660 * 4525 * * * 6638 * 438 * * 6900 6475 5931 * * * 35 20 6159 * 0 * * * 6106 1682 0 G 36 6682 * 3192 4890 6148 724 7015 * 5617 * * 4196 * 5647 6629 5016 6187 * 4422 5414 36 45 5023 * 1500 629 * * 6106 2430 0 Q 37 4041 6616 5492 2876 * 6230 5034 6053 2124 4828 5765 5520 * 3068 2835 4535 5272 3672 * * 37 35 5381 * 0 * * * 6106 1632 0 R 38 4606 * * 4553 7170 * 7003 3066 2980 4143 * 5973 2869 5268 2966 4757 3871 2568 6660 6906 38 40 5200 * 0 * * * 6106 2514 0 S 39 2442 4132 5838 6336 * 6220 * 2831 5146 5575 6296 6131 5536 6107 5701 4012 4297 1596 * * 39 269 2555 * 0 * * * 6106 4478 0 K 40 5885 * 4166 3531 * * 5450 * 1022 6747 * 4380 6093 4333 3211 4406 4960 * * 5911 40 94 3985 * 0 * * * 6106 3283 0 P 41 2481 7239 * 5873 6902 * * 6033 3760 3825 6084 4814 1408 5010 5595 3127 * 4803 * * 41 48 4931 * 0 * * * 6106 2470 0 S 42 2966 * 4379 7268 * 2694 6931 * 4137 * * 3437 7114 * 6018 1137 5143 * * * 42 8 7418 * 0 * * * 6106 1000 0 K 43 3909 7190 4486 7521 3761 * 3535 5277 3683 5479 5465 * * 3868 2938 5064 3255 4732 * 2347 43 31 5579 * 1042 959 * * 6097 1586 0 I 44 4702 * 4109 4062 7011 6980 * 5113 2143 3138 5126 4421 3429 4334 3154 4935 3836 5242 * * 44 10 7112 * 0 * * * 6097 1000 0 V 45 * * * * * * * 2730 * 1823 * * * * * * 6458 848 * * 45 0 * * * * * * 6097 0 0 E 46 3979 5483 5115 4090 6102 7027 5802 6296 1666 4828 6336 * 6628 4024 2785 4022 3848 4924 6061 6008 46 0 * * * * * * 6098 0 0 L 47 2972 6658 4340 2874 6737 3885 5668 3873 6178 3910 * 5019 2911 5353 6092 3331 4992 3486 * 6862 47 0 * * * * * * 6098 0 0 N 48 5244 7169 4189 5951 * 639 7293 6838 * * 6953 2553 * 6183 * 5502 5370 * * * 48 0 * * * * * * 6098 0 0 A 49 4275 * 446 3365 * * * * * * 8019 5619 6863 4185 * * 6672 5681 * * 49 35 6746 6090 2000 415 * * 6098 1000 0 T 50 * 6877 7024 3251 6912 6824 5176 2485 3654 4287 5236 6293 * 3914 3568 4564 4002 2185 * 6633 50 0 * * * * * 0 6090 0 1758 L 51 * * * * 5300 * * 1142 * 2010 * * * * * * * 1944 * 6229 51 17 * 6421 * * 0 * 6090 0 1758 T 52 5144 * 4804 2358 * * 5856 7210 4135 5750 * 7099 * 4097 3395 2526 1956 4629 6830 * 52 13 * 6785 * * 0 * 6097 0 1000 L 53 6080 * * * 4590 * * 1568 * 2233 5219 * * * * * * 1514 5892 * 53 63 * 4544 * * * 0 6081 0 1000 R 54 4682 5724 4281 3575 5383 * 6078 4236 4296 5527 * 6028 4509 3853 1697 5945 3373 4743 6494 4501 54 12 * 6908 * * 1416 677 6160 0 3145 Q 55 6444 6274 * 6434 3652 3182 * 2955 3602 2735 5139 4252 6551 3873 3719 * 3515 4119 * 4964 55 50 5972 5779 567 1621 696 1386 6321 1547 2915 G 56 5873 * 3397 3111 4925 2103 5320 * 4236 6371 6080 3258 2026 * 5065 6462 * * * 6592 56 0 * * * * * 0 6314 0 2278 N 57 6325 * 3572 2980 5216 2409 * * 3468 6135 * 4196 3117 3033 4085 4247 * 4952 * 5582 57 17 6426 * 0 * 1879 458 6349 1000 2278 D 58 5159 * 4698 3669 * 3465 5479 3745 4028 3561 6782 * 3438 * 1958 5036 3606 4323 * * 58 0 * * * * 1305 748 6341 0 1972 E 59 5616 * 4472 1970 5163 6463 6035 3067 3328 3493 * * 3465 6706 5726 4645 4211 3575 6625 6649 59 25 * 5837 * * * 0 6607 0 1500 R 60 * * 5944 3872 3502 * 4277 3308 3073 2708 * * 5576 4633 2949 * 6143 3508 3841 4633 60 22 * 6070 * * * 0 6346 0 1908 T 61 4358 * 3667 2770 5907 5954 6353 3551 5142 4647 * 5116 * 5369 3991 3901 2958 2212 * * 61 0 * * * * * 0 6246 0 2445 V 62 3433 * 4695 * 3885 * * 2509 * 2273 * 6076 5894 * * 5368 5793 1725 * 4570 62 0 * * * * 297 2427 6411 0 2445 I 63 6410 * 4424 1761 * * * 4664 3002 6271 * * 5010 4052 2086 4268 5202 3979 * * 63 0 * * * * * 0 6517 0 1000 V 64 3454 * 5302 4746 * * * 2256 5816 4548 * 5090 5147 4836 * * 5806 1102 * * 64 22 * 6034 * * * 0 6428 0 1000 K 65 4438 * * 2846 * 5296 * 3634 4376 1301 * * 5627 5843 4896 5719 3827 3410 * * 65 25 5876 * 0 * * 0 6412 1000 1480 A 66 1650 * 4221 5891 * 2114 5273 * 4475 5060 5986 3797 6110 4069 5131 3911 5483 * * * 66 29 * 5664 * * 798 1234 6412 0 1480 I 67 * * * 3092 3774 * * 2093 * 1435 5820 * 4096 * * 5949 4662 3767 * * 67 0 * * * * 879 1132 6426 0 1375 T 68 3562 6209 5980 4144 * 3070 * 4098 5832 4137 * 4367 1808 4782 * 2515 4962 * * * 68 0 * * * * * 0 6457 0 1000 E 69 4028 * 3275 2305 5329 4625 4124 4673 2483 4206 * 4977 4690 4838 4820 5057 5149 4683 * * 69 29 5632 * 2585 263 0 * 6452 1000 1000 Q 70 4402 5559 5743 4016 * 5729 * * 2883 4722 6039 4671 5970 3186 1795 3138 4915 4520 * * 70 185 4219 3908 948 1054 * * 6456 2053 0 R 71 * * * 4434 * * 5361 * * * 5452 3991 * 5586 444 5530 4570 5367 * * 71 52 4827 * 536 1688 495 1783 6364 1647 2105 R 72 4453 * * 5427 * 1736 * 5449 5492 2909 4064 * 4803 * 3338 5317 5875 2211 * * 72 57 4686 * 1265 776 * 0 6374 1394 1000 P 73 4645 * 5402 * * 2360 5492 5427 4275 4554 * 4737 1364 5421 5866 3442 * 5192 * 5956 73 0 * * * * * 0 6374 0 1000 A 74 1043 * * 3695 5402 5192 * * 2783 4610 * * 3567 * 5866 * * * * 3343 74 32 5489 * 1585 585 * 0 6374 1000 1000 S 75 2930 * * 3913 * 4185 * * 3232 3228 * 4166 2293 5918 4148 3730 3309 5306 * * 75 26 * 5821 * * * 0 6374 0 1000 E 76 4169 * 3468 1151 5555 * * 3386 * 3772 5610 * * * 5507 * 4533 2967 * * 76 169 * 3180 * * 841 1179 6360 0 1617 A 77 618 * * 4584 5078 3863 * 5391 * 4591 * * * 5211 * * 5035 3547 * * 77 0 * * * * 1325 735 6115 0 3214 A 78 3077 * 4311 2969 * 5129 * 5337 4756 5732 3930 * 4508 1753 3271 * 3922 5765 * * 78 55 4750 * 2107 381 928 1076 6209 1465 2321 L 79 3627 * 4652 3256 * * * 2565 3302 2568 5719 * * 4479 4813 5032 3490 3835 5122 5803 79 62 * 4564 * * 0 * 6295 0 1459 L 80 * 2691 * * 5419 * 4687 4303 * 894 3466 * * * 5526 * 5173 4831 * 5716 80 61 4584 * 1995 417 956 1045 6236 1546 1740 Y 81 4175 * * * 3960 * 5346 4111 * * * * 5663 * * 4507 4369 * * 544 81 0 * * * * 0 * 6251 0 1000 E 82 4223 * 5909 1044 * 5609 * 6165 5451 4931 5792 5410 * 5568 2501 4964 5544 4853 5193 * 82 22 * 6033 * * * * 6312 0 0 E 83 * * 944 2076 * * * 4403 4436 4579 * 3875 * * * * * 4652 * * 83 0 * * * * * 0 6293 0 1000 T 84 4115 * 2443 3603 * * 4237 3369 5177 3320 * 4170 * * 5075 3832 2753 3400 * * 84 0 * * * * * 0 6150 0 1000 A 85 4479 * 1718 2005 5453 * * 5433 * 5442 * 5353 3025 * * 4697 2763 * * * 85 59 4647 * 2585 263 * 0 6150 1000 1000 E 86 3159 * 2698 1891 * * * 5010 3938 5269 * * 2224 5189 * 4543 4114 * * * 86 99 5055 4778 1000 1000 0 * 5802 1000 1000 S 87 2941 * * 3982 * 2872 5277 * 3548 * 5090 * 2966 4880 4369 2075 4124 5368 * * 87 47 * 4957 * * * 0 5644 0 1000 V 88 4286 * * 4344 * * * 4485 5217 2762 * * 3110 4430 2185 * * 1919 * 4879 88 0 * * * * 971 1030 5608 0 1617 E 89 2087 * 5119 2997 4809 * * 2959 3854 * * * 1911 4835 5687 * * 4136 * * 89 0 * * * * * 0 5584 0 1000 K 90 2116 * 3563 2360 * * * * 2693 3606 * 4683 3445 4815 3527 * * * * * 90 0 * * * * * 0 5096 0 1000 R 91 * * * 4949 * * * * 2696 * * 4521 4825 3315 1179 4877 4781 4516 * 3679 91 0 * * * * 0 * 5096 0 1000 E 92 * * 3028 1246 * * * * 4835 3062 * * 4210 2879 4819 * 4930 * * 4546 92 61 4590 * 1000 1000 * * 5133 1000 0 K 93 3774 * 4555 1564 * * * 4355 2659 * * * 4460 2419 * 4309 4152 * * * 93 46 4997 * 1585 585 * * 4379 1000 0 M 94 3852 4655 4618 4898 * * * 3062 3679 1629 4617 * * 4290 * 4466 3511 3819 * * 94 0 * * * * * * 4379 0 0 A 95 1024 * * 4236 * * * * 4469 3504 * * 2963 5386 * * 4011 3215 * * 95 0 * * * * * * 4255 0 0 L 96 * * 3198 1472 * * * * * 2876 3348 * * 2386 * * 4011 4543 * * 96 0 * * * * * * 4255 0 0 A 97 2367 * 3979 2916 * * * * * 4422 2839 * * 2437 2423 * 4248 * * * 97 0 * * * * * * 4239 0 0 R 98 * * 3952 4274 * * * * * * * 4154 3861 * 551 3718 * * * * 98 0 * * * * * * 3718 0 0 K 99 * * * * * * * * 1978 * * * * 2520 806 * * * * * 99 0 * * * * * * 3328 0 0 L 100 2886 * * * 2098 * * 2752 * 3100 3152 * * 1979 * * * * * * 100 0 * * * * * * 2958 0 0 N 101 * * * * * * * * * * * 1674 * * * 542 * * * * 101 0 * * * * * * 2718 0 0 A 102 971 * * * * * 2035 * * * * * * * 2025 * * * * * 102 0 * * * * * * 2176 0 0 L 103 * * * * * * * 2025 * 1055 * * * * * * * 1873 * * 103 0 * * * * * * 2176 0 0 T 104 * * * * * * * * * * * * * * * * 0 * * * 104 0 * * 0 * * * 1474 0 0 //