HHsearch 1.5 NAME c4c2mK_ FAM FILE c4c2mK_ COM /bmm/www/servers/phyre2/HH/hhmake -i c4c2mK_.a3m DATE Sat Oct 26 08:23:53 2013 LENG 101 match states, 101 columns in multiple alignment FILT 101 out of 143 sequences passed filter (-id 90 -cov 0 -qid 0 -qsc -20.00 -diff 100) NEFF 5.6 EVD 0.4219 0.1293 SEQ >ss_dssp CCCSSEEECTTSCCSSSSEEEEEEESCCHHHHHHHHHHHTTSTTEEEEEEECSCTTSCEEEEEEEECSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH C >sa_dssp EEEEDDEDCEEDCDEECCBBBBCBCECDEECADDACDBADEBEBBDDBCCDCDDEEDECACACACBEDEDDADDABEDBDDDCEDDDDEEEDEEDDEEEE E >ss_pred CCCCEEEEEEEECCCCCCEEEEEEECCCCCHHHHHHHHHHHCCCEEEEEEECCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC C >ss_conf 9872799997303678965899994588516899999996199806998642488888049999977999989999999999999999999999999860 9 >Consensus pxxxxxxixxxxxxxxxxxxtfxixxEDHTLgNlLrxxLxxxpxVxfAgYxipHPlxxxixlrIqTxxxxxpxxxlxxaxxxlxxxxxxlxxxfxxxixx x >c4c2mK_ PDREKIKLLTQATSEDGTSASFQIVEEDHTLGNALRYVIMKNPDVEFCGYSIPHPSENLLNIRIQTYGETTAVDALQKGLKDLMDLCDVVESKFTEKIKS M >UniRef50_A2DQ63(17-124:124) RNA polymerase Rpb3/Rpb11 dimerisation domain containing protein n=1 Tax=Trichomonas vaginalis RepID=A2DQ63_TRIVA E=2e-12 s/c=0.68 id=27% cov=98% --EEEIPKLVTVVKEEKSdnCYTFTVQKEDHTLGNLLTDQLLTENRILFAGYRIEHPTKDLIKIRVKASQNVnhpkelidPAIEALKTKIAGLQSSFISS CQSFDKRSQN- >UniRef50_Q9YEZ1(9-93:99) DNA-directed RNA polymerase subunit L n=1 Tax=Aeropyrum pernix RepID=RPOL_AERPE E=6e-06 s/c=0.61 id=22% cov=82% ----------------ESRGSYVIqvYGEDHTLGTLLVEAIKRVSNPKLAYYEAVHPMEDIIQVYVKYEDDVDIKEVLRKASDYLLEVIGDFRRRYLEAL --- >UniRef50_P38902(13-110:120) DNA-directed RNA polymerase II subunit RPB11 n=12 Tax=Saccharomycetales RepID=RPB11_YEAST E=3e-24 s/c=1.14 id=25% cov=91% ------KLKIDPDTKAPNAVVITFEKEDHTLGNLIRAELLNDRKVLFAAYKVEHPFFARFKLRIQTTEGYDPKDALKNACNSIINKLGALKTNFETE--- - >UniRef50_A2SSW1(5-90:94) DNA-directed RNA polymerase, subunit L n=3 Tax=Methanomicrobiales RepID=A2SSW1_METLZ E=8e-07 s/c=0.64 id=23% cov=69% ----------------------TLEGEGHTIVNALVDEILADPEVDVAKYVIKYQfSDPEVFITMKPGSTKEPLTVMREAAQHMIDRCDALL-------- -- >UniRef50_Q9HIC5(4-99:111) DNA-directed RNA polymerase subunit L n=4 Tax=Thermoplasmatales RepID=RPOL_THEAC E=2e-12 s/c=0.76 id=21% cov=85% -------------SKEKNSITVEMINYDNTLLRTLVEEILKDDQVDEARYYIKHPVIDNPQIYVRVKSG-KPQSAIKRAVRKLSKLYEDLGTQFQKEFQ- - >UniRef50_A7AN34(19-87:92) Putative uncharacterized protein n=1 Tax=Babesia bovis RepID=A7AN34_BABBO E=2e-08 s/c=0.87 id=21% cov=69% ------------------------------LGQGVKKRLSKDERVAFVGYRMPHPLENKLEIRLRCKVD-SPFTVMLNAISSVRLNIGHLKKVYLSTLRE - >UniRef50_D2EFV6(4-90:92) Putative uncharacterized protein n=1 Tax=Candidatus Parvarchaeum acidiphilum ARMAN-4 RepID=D2EFV6_9EURY E=4e-08 s/c=0.68 id=17% cov=87% ---------IKVLEKEDSSIKFRVQGGTQSVLNLIKEEADSFDNVTFAGFVMEHPLEKSSIFVIKTDGKDA-----EKTLKKIIEKTESDLKEAKKELNA L >UniRef50_A8M9E3(3-89:104) DNA-directed RNA polymerase subunit L n=1 Tax=Caldivirga maquilingensis IC-167 RepID=A8M9E3_CALMQ E=8e-13 s/c=0.86 id=19% cov=87% ------RIKVKSIKLSGDYMEVTVEGEDYTVMSPLLTYILQDPEVEFATFDMDHPLLRNITLKLRTKGK-DPLKVLEDAVNRILNDIGELEGKL------ - >UniRef50_A0RXH5(5-91:94) Putative uncharacterized protein n=1 Tax=Cenarchaeum symbiosum RepID=A0RXH5_CENSY E=1e-08 s/c=0.70 id=22% cov=75% -----------------------IRESDIGILYIVQHELLKKSGIEFAGVILKHQLTSEIWMRVNTSSG-SPVKAITDAADASVSTFGDLEKLFKSKIK- - # 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 * * * * * * 3610 0 0 D 2 * * 1220 1901 * 2692 * * * * * 3757 * * * 3750 * * * * 2 0 * * * * * * 3966 0 0 R 3 * * * 1317 * 3825 * * 3011 * * 3778 * * 1595 * * * * * 3 0 * * * * * * 4101 0 0 E 4 * * * 1564 3258 4700 * * 1938 4011 * * * 3108 3647 * * * * * 4 0 * * * * * * 4329 0 0 K 5 * * * 2323 * * 4398 * 1125 * * 4138 * 4844 4393 3114 4661 * * * 5 70 * 4393 * * * * 4436 0 0 I 6 3200 * * * * * * 1333 * 2681 4353 * * 4893 * * 4139 2328 * * 6 74 * 4331 * * 0 * 4506 0 1000 K 7 * * * 2092 3956 * * * 1420 3999 * * 4418 4588 3385 * 3633 * * * 7 50 * 4862 * * * 0 4833 0 1000 L 8 * 4424 * 4040 * * * 1377 4415 1780 * * * * * * * 2561 * * 8 0 * * * * * 0 4828 0 1504 L 9 * * 4636 5291 * * * * 2623 1412 3490 4623 * * 4838 * 4444 2429 * * 9 197 4766 3457 0 * 955 1046 4836 1000 1504 T 10 * * * 2765 * * * 1845 * 3428 * * 2969 * * * 5364 1949 4896 4755 10 62 * 4565 * * 1477 642 4911 0 2063 Q 11 5030 * 3001 3314 4110 5001 * * 1637 * * * * 2659 * 4735 3501 4355 * * 11 46 * 5001 * * 603 1550 4872 0 2029 A 12 2928 * * * * 2973 * 4664 5023 4712 * 4434 5154 4943 4754 2299 * 2343 * 3494 12 47 4971 * 3000 193 955 1046 4997 1000 1654 T 13 4113 4745 2199 4221 3717 * 5115 3125 4484 3205 * 4995 5134 * 4820 4682 5540 3249 * * 13 36 5338 * 3000 193 0 * 5021 1000 1000 S 14 4096 * 3626 1777 * 3986 * * 3743 * * 4930 * * * 2175 2829 4799 * * 14 0 * * * * * * 5179 0 0 E 15 4357 * 3346 2081 * 4820 * * 1974 4660 5051 4801 5514 4435 4024 * 3451 * * * 15 41 5169 * 2322 322 * * 5196 1000 0 D 16 5724 * 1999 2090 * * * 5520 3685 5366 4371 3007 * 5127 5911 4287 5011 3794 * * 16 0 * * * * * * 5225 0 0 G 17 3520 * 4606 2956 * 2493 * * 2384 5564 * * 1906 * 5058 4697 * * * 5880 17 23 6000 * 0 * * * 5345 1000 0 T 18 5585 5850 3497 5344 5805 5967 4837 * 4734 * * 1635 * * 5514 1647 3662 * * * 18 39 5240 * 1000 1000 * * 5353 1000 0 S 19 1831 2181 * * * * * * 4381 * * 4123 * 6058 4340 2686 3357 5058 * 4452 19 0 * * * * * * 5338 0 0 A 20 2214 4040 * * 5528 2136 * 3970 4266 3597 5354 5688 * * 3609 3788 * 4173 * 5483 20 0 * * * * * * 5353 0 0 S 21 * 4981 * 3568 * * * 3915 3642 5628 6229 6245 * * * 3445 939 4090 * 5749 21 0 * * * * * * 5389 0 0 F 22 * * * * 646 * * 3427 * 4395 5767 * * * * * * 3133 * 3502 22 0 * * * * * * 5447 0 0 Q 23 5256 6287 * 4147 * * * 3361 3073 4380 6492 * * 3378 4622 4992 2080 2265 * 5920 23 0 * * * * * * 5432 0 0 I 24 * * * * 1842 * * 1420 * 2495 4622 * * * * * * 2951 * * 24 29 5670 * 1000 1000 * * 5797 1000 0 V 25 * * 6846 1848 5697 6601 3673 4708 3739 4287 5684 4225 5179 4380 3463 6302 4679 4060 5845 3776 25 0 * * * * * * 5797 0 0 E 26 * * 3032 3741 * 1658 6302 * 2391 3749 * 3037 * 6842 4273 6305 * * * 6233 26 0 * * * * * * 5797 0 0 E 27 * * 6274 230 * 5074 * * * * * * * 3849 * 5707 * * * 5973 27 0 * * * * * * 5901 0 0 D 28 * * 540 * * 3363 * * * * * 6735 * * 6372 3980 2941 * * * 28 0 * * * * * * 5901 0 0 H 29 5997 * * * * * 307 4861 * * * 4762 * 5295 6506 * * * * 3876 29 0 * * * * * * 5901 0 0 T 30 * * * * * 5043 * * * * * * * * * 4275 123 * * * 30 0 * * * * * * 5914 0 0 L 31 5772 * * * 4552 * * 2272 * 719 4176 * * * * * * 4265 * 5856 31 0 * * * * * * 5927 0 0 G 32 3761 4479 * * 5593 699 * 7105 * 3035 4057 * 5392 * * 6289 * 5748 * * 32 0 * * * * * * 5927 0 0 N 33 6231 * 5486 6022 * 6557 4951 * * 6570 * 431 * 6412 6001 4011 4878 * * 5044 33 0 * * * * * * 5927 0 0 A 34 2470 6516 * * * 6417 * 2706 * 1335 5220 * 3881 * * 3433 5001 5124 * * 34 0 * * * * * * 5932 0 0 L 35 * * * * * * * 2125 * 609 6472 * * * * * 6626 3413 * * 35 0 * * * * * * 5932 0 0 R 36 3893 * * 5829 * * 5707 * 2757 6664 * * * 4752 1021 4995 4325 2977 * * 36 22 6046 * 0 * * * 5932 1000 0 Y 37 4708 6919 3865 2954 6136 5451 3362 6479 3725 * 3464 4240 * 6376 * 3150 3454 6615 4717 2978 37 0 * * * * * * 5932 0 0 V 38 4225 4043 6381 2343 7019 * 5682 3638 3714 4473 4108 5594 * 3218 4639 * 4392 2908 * 4611 38 0 * * * * * * 5899 0 0 I 39 3650 * * * * * * 2351 * 544 * * * * * * 6036 5417 * * 39 0 * * * * * * 5899 0 0 M 40 5558 5251 6134 4748 * 6281 3867 3795 4791 1515 2757 4615 * 5419 6589 3935 6514 4727 * 5321 40 0 * * * * * * 5901 0 0 K 41 4391 5861 6883 2988 * 5577 * * 1960 5260 * 3763 * 3072 2512 3891 4441 6052 * * 41 0 * * * * * * 5906 0 0 N 42 6840 5775 1459 4777 5406 * 4458 5117 3861 6696 4555 2168 * 4820 6028 5187 6270 5912 * 5404 42 40 5185 * 896 1112 * * 5906 1673 0 P 43 5317 * 3616 3054 * * * * 2497 6930 * 4939 1167 5576 6038 3765 * * * * 43 0 * * * * * * 5906 0 0 D 44 4267 * 2822 3285 6214 2972 4536 * 3286 * * 2848 * 4116 3047 4066 5504 * * 5775 44 0 * * * * * * 5906 0 0 V 45 * 5246 * * * * * 3330 * * * 6052 5912 * * * 4734 313 * * 45 0 * * * * * * 5906 0 0 E 46 4711 * 2775 2209 5467 6884 * 3975 3342 2769 * 6374 * 6214 7117 4199 3235 4170 * 6575 46 43 * 5096 * * * * 5906 0 0 F 47 4680 * * 6060 672 * * 4314 5097 4127 5136 * * * * 6601 * 3745 * 3875 47 0 * * * * 0 * 5890 0 1972 C 48 616 2425 * * * * * * * * * * * * * 3643 * 3624 * * 48 12 6875 * 5728 27 * * 5906 1000 0 G 49 2882 * * * 6241 843 * * 5736 6329 * 6214 * 5808 4095 3878 3709 6455 * 5912 49 0 * * * * * * 5906 0 0 Y 50 * 6749 * * 4857 * * * * 6386 6531 6212 * 6568 5981 * * 4534 * 234 50 21 6086 * 0 * * * 5906 1000 0 S 51 4864 4528 3505 4981 5678 6297 * 4445 2532 * 6329 5030 * 6867 2474 2686 3584 4429 * 4847 51 7 * 7629 * * * * 5906 0 0 I 52 4513 * * * * * 6109 1598 5062 4303 3275 5776 * 3803 6374 * 5867 1697 * * 52 0 * * * * * 0 5906 0 1000 P 53 6828 6027 3457 3021 * 6565 * 5599 3512 6073 * 5478 912 * 6727 6537 4753 5911 * * 53 19 * 6258 * * * 0 5897 0 1000 H 54 * * * * 4704 * 106 * * * * * * * * * * * * 4935 54 20 * 6149 * * 621 1515 5873 0 1408 P 55 * * * * * * * * 6018 5736 * * 150 4747 * 6150 * 6209 * * 55 48 4941 * 2234 345 621 1515 5872 1662 1421 S 56 4086 * * 5114 6989 6426 * 4425 6027 1050 4951 5206 * 5136 * 2382 4231 6049 * * 56 51 4836 * 1785 495 * 0 5897 2197 1000 E 57 * * 3346 1443 5201 * 6532 3229 3930 4360 6377 5429 * 3013 6321 * 4318 4239 * * 57 0 * * * * * 0 5897 0 1000 N 58 5489 6939 2624 4817 * 4118 3501 * 6130 * 5357 2548 2335 5670 5908 2926 5398 * * 5241 58 33 5461 * 1608 573 * 0 5897 1601 1000 L 59 6483 * 4197 3052 4831 * 4896 4245 1966 5261 5192 2805 * 4799 4379 4915 4628 3961 * 5792 59 0 * * * * * 0 5897 0 1000 L 60 5039 6561 * * 3947 * * 1722 * 3123 2880 6589 2816 * * 4300 * 2865 * * 60 0 * * * * * 0 5897 0 1000 N 61 6369 * 6852 2838 3640 * 4491 3571 5040 3583 6274 2434 * 4188 5297 * 4971 3264 4618 4018 61 13 6852 * 3000 193 * 0 5897 1000 1000 I 62 * * * * 3334 * * 1679 * 1258 3624 * * * * * * 3485 * * 62 49 5738 6080 1000 1000 * 0 5897 1000 1000 R 63 * * 6541 * 6674 * 6619 5511 2268 6898 * * * * 1071 6250 3170 4269 * 3657 63 31 * 5533 * * 697 1383 5870 0 1491 I 64 6695 * * * * * * 995 * 2580 5683 * * * * * * 1728 * * 64 30 * 5618 * * * 0 5887 0 2021 Q 65 * * * 4787 * * 4523 4984 2265 6503 * 4986 * 1239 3074 4622 5273 6622 * 5722 65 14 6734 * 0 * 1966 426 5881 1000 2780 T 66 3894 5189 5727 * * * * * 6064 6263 4337 * 4991 * * 4999 635 3549 * 5897 66 74 5168 5483 1000 1000 1597 579 5883 1650 2306 Y 67 5447 6243 1781 4546 * 5624 6158 6043 2397 5957 * 3222 * * 3901 4525 3860 4118 * 5025 67 10 * 7161 * * 1770 501 5863 0 2346 G 68 4792 * 3395 3774 * 1669 * * 4030 * * 4440 4623 5507 4221 2200 5156 6376 * * 68 61 6786 4957 0 * 975 1025 5888 1000 2305 E 69 5355 * 2963 4285 6048 2392 * * 2943 * * 3882 6764 4109 6817 2636 2912 6345 * 6584 69 402 5105 2223 3248 160 602 1551 5883 1999 2784 T 70 3744 6170 4802 3985 4978 5634 4888 2362 3624 5616 5406 6417 * 6875 6206 3613 3167 2964 * 4261 70 98 4509 5536 2616 257 121 3633 5746 2085 4458 T 71 4084 * 2239 4915 * 5714 * * 3533 7070 * 3196 4041 5618 5199 2407 2498 * * * 71 72 5796 5035 5242 39 360 2181 5862 1191 2048 A 72 1969 6521 * * * 6460 * 4638 * 6059 * * 768 * * 5454 6734 4390 * * 72 0 * * * * 1018 982 5879 0 2383 V 73 5267 * 5504 3612 4710 * * 3432 3156 2477 5987 6967 6261 4995 3209 6504 3869 2659 * 4898 73 0 * * * * 1318 740 5872 0 1526 D 74 5263 * 1944 1680 * 4730 * * 2713 6070 * 5383 6084 4024 * 5339 3955 7045 * * 74 0 * * * * * 0 5871 0 1000 A 75 1297 4286 * 5295 * * * 3475 * 3699 * * 4597 * * 4662 6827 1946 * * 75 0 * * * * * 0 5871 0 1000 L 76 * * * * 3692 * * 2825 * 826 3655 * 6084 * * * * 3222 * 5946 76 0 * * * * 0 * 5871 0 1000 Q 77 5405 * 6377 2577 * 6266 * 4538 1903 2999 6548 4910 * 4104 2877 5765 4223 4716 * * 77 0 * * * * * * 5896 0 0 K 78 5397 * 2745 2424 * 5316 6548 * 2345 6277 * 3926 * 3648 3274 3767 4685 6434 5475 * 78 19 6288 * 1585 585 * * 5896 1000 0 G 79 780 5275 * * * 2605 * 5621 6167 * * 5252 * * * 3977 3832 4911 * * 79 0 * * * * * * 5896 0 0 L 80 2814 3028 * * 4931 * * 2422 * 1525 5794 6531 * * * 4586 5543 3709 * * 80 0 * * * * * * 5896 0 0 K 81 5269 * 3048 2356 * * 5994 * 2504 6543 * 3643 * 3028 3980 3842 3386 5393 * * 81 0 * * * * * * 5896 0 0 D 82 5116 4743 1882 3270 * 5113 5716 * 3044 6598 7052 3590 * 4427 3717 3378 4831 * * 4841 82 0 * * * * * * 5896 0 0 L 83 4776 * * * 5546 * * 2355 * 865 4568 * * * 6381 5036 * 3148 * * 83 0 * * * * * * 5896 0 0 M 84 3622 * 4916 3685 6703 5635 7193 2308 3646 3724 4895 5945 * 4810 3221 3678 5712 3676 * 4452 84 0 * * * * * * 5896 0 0 D 85 3532 * 2466 2930 * 4403 6608 6377 3044 5765 * 3465 * 3662 5442 3085 4551 4676 * * 85 0 * * * * * * 5896 0 0 L 86 6531 6593 3301 2616 6520 5294 * 3168 4396 2925 3909 5774 * 3929 4479 4870 3812 4006 6373 6328 86 0 * * * * * * 5896 0 0 C 87 3806 1857 * * 2722 5621 * 4374 * 2515 5266 7171 * * * 5097 3499 4499 * 4000 87 12 6861 * 2000 415 * * 5896 1000 0 D 88 3812 * 2048 2571 * 3425 6545 6125 4084 6205 * 3598 * 3855 4824 3427 5236 5534 * * 88 24 * 5931 * * * * 5891 0 0 V 89 4018 * 2997 2878 * * 2745 4006 3995 4791 * 4619 * 4161 * 3550 3511 4198 * 4553 89 0 * * * * * 0 5886 0 1080 V 90 6780 * 5147 * 2694 * * 2634 * 1288 4420 * * * * 6115 4241 3153 * 6514 90 0 * * * * * 0 5886 0 1080 E 91 4029 6115 7107 2465 7099 3859 6529 3962 2489 2345 5608 5662 * 4908 3939 5458 4809 6307 * * 91 0 * * * * * 0 5886 0 1080 S 92 4096 * 2716 3133 * 5433 6559 * 2349 * 6500 3228 * 3749 3278 3448 4099 * * * 92 0 * * * * 0 * 5848 0 1080 K 93 4309 * * 1934 6203 5524 * 6331 3071 3985 * 4027 * 3552 3844 3460 3435 4098 * * 93 0 * * * * * * 5782 0 0 F 94 5612 * * * 619 * * 5111 * 3128 * * * * * * * 4308 4793 3345 94 0 * * * * * * 5760 0 0 T 95 3943 * 2549 2215 * 5480 * 4530 2783 4418 6243 3875 * 3733 4448 5081 4083 * * * 95 13 6797 * 0 * * * 5736 1000 0 E 96 3500 * 4331 2152 * 6402 6672 * 2301 * * 4111 * 4601 2733 3196 4734 * * 5953 96 0 * * * * * * 5677 0 0 K 97 1344 * * 2229 * * * * 3018 4259 * * * 4731 5138 3178 4621 * * * 97 0 * * * * * * 5652 0 0 I 98 3846 * * * 5447 * * 2078 6278 1656 3980 * * * * 5534 * 2088 5621 * 98 0 * * * * * * 5571 0 0 K 99 5519 * 5590 2676 * 5135 5515 * 1966 * * 3377 * 2631 2881 3305 * * * * 99 0 * * * * * * 5288 0 0 S 100 1269 * * 2936 * * * * * * * 1745 * * * 2680 * * * * 100 0 * * * * * * 4849 0 0 M 101 * * * * * * * 1631 * 877 2916 * * * * * * * * * 101 0 * * 0 * * * 3382 0 0 //