Query 006464
Match_columns 644
No_of_seqs 259 out of 1667
Neff 6.9
Searched_HMMs 46136
Date Thu Mar 28 23:39:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006464.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006464hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02766 crypt_chrom_pln cryp 100.0 4E-123 9E-128 1034.6 44.0 473 7-481 1-474 (475)
2 COG0415 PhrB Deoxyribodipyrimi 100.0 2E-116 3E-121 950.4 40.8 455 5-484 3-460 (461)
3 PRK10674 deoxyribodipyrimidine 100.0 2E-112 4E-117 945.5 44.4 459 5-485 3-469 (472)
4 TIGR03556 photolyase_8HDF deox 100.0 8E-112 2E-116 940.4 44.4 458 5-483 2-470 (471)
5 TIGR02765 crypto_DASH cryptoch 100.0 7E-101 1E-105 846.6 41.5 415 4-433 1-429 (429)
6 KOG0133 Deoxyribodipyrimidine 100.0 5.2E-92 1.1E-96 765.6 23.1 480 1-489 1-498 (531)
7 TIGR00591 phr2 photolyase PhrI 100.0 3.3E-86 7.2E-91 734.3 31.2 391 4-429 23-454 (454)
8 PF03441 FAD_binding_7: FAD bi 100.0 4.5E-86 9.7E-91 687.2 15.7 272 208-484 1-276 (277)
9 COG3046 Uncharacterized protei 100.0 3.3E-34 7.2E-39 297.2 23.9 385 5-408 3-422 (505)
10 PF00875 DNA_photolyase: DNA p 100.0 1.7E-32 3.8E-37 264.2 16.3 156 6-162 1-157 (165)
11 PF04244 DPRP: Deoxyribodipyri 98.1 2.6E-05 5.6E-10 79.0 11.6 144 7-156 1-153 (224)
12 PF12546 Cryptochrome_C: Blue/ 92.5 0.055 1.2E-06 49.3 1.2 32 513-544 11-43 (121)
13 COG2102 Predicted ATPases of P 85.7 11 0.00023 38.2 11.5 99 19-127 14-117 (223)
14 TIGR00289 conserved hypothetic 83.9 18 0.00039 36.8 12.5 98 20-127 15-116 (222)
15 TIGR00290 MJ0570_dom MJ0570-re 75.6 41 0.00089 34.2 11.9 99 19-127 14-116 (223)
16 PF01902 ATP_bind_4: ATP-bindi 71.9 17 0.00038 36.8 8.2 98 20-127 15-116 (218)
17 cd01994 Alpha_ANH_like_IV This 69.9 67 0.0014 31.8 11.8 97 21-127 15-119 (194)
18 PF13167 GTP-bdg_N: GTP-bindin 61.8 66 0.0014 28.3 8.7 51 56-106 7-70 (95)
19 cd01988 Na_H_Antiporter_C The 60.2 1.1E+02 0.0025 26.8 10.6 83 20-102 14-103 (132)
20 TIGR03679 arCOG00187 arCOG0018 59.7 1.5E+02 0.0032 29.9 12.3 97 21-127 13-117 (218)
21 cd01989 STK_N The N-terminal d 57.3 1.5E+02 0.0033 26.9 11.4 85 17-101 11-111 (146)
22 PF10087 DUF2325: Uncharacteri 50.3 63 0.0014 28.0 6.9 69 59-131 12-84 (97)
23 cd01987 USP_OKCHK USP domain i 50.2 1.8E+02 0.0038 25.5 10.5 78 18-102 12-94 (124)
24 PF02571 CbiJ: Precorrin-6x re 49.6 54 0.0012 33.9 7.3 56 72-129 44-100 (249)
25 COG1139 Uncharacterized conser 47.1 59 0.0013 36.2 7.3 68 57-128 65-133 (459)
26 PRK12652 putative monovalent c 44.5 2.1E+02 0.0046 31.3 11.2 96 30-127 37-148 (357)
27 PRK08057 cobalt-precorrin-6x r 44.4 93 0.002 32.2 8.1 47 81-129 53-99 (248)
28 TIGR01088 aroQ 3-dehydroquinat 42.2 1.4E+02 0.003 28.3 7.9 77 58-139 25-108 (141)
29 COG0656 ARA1 Aldo/keto reducta 41.8 1E+02 0.0022 32.5 7.9 71 57-129 86-190 (280)
30 PF08218 Citrate_ly_lig: Citra 40.8 1.1E+02 0.0024 30.0 7.4 106 21-128 17-143 (182)
31 COG2205 KdpD Osmosensitive K+ 39.0 4.7E+02 0.01 31.8 13.4 106 18-130 260-374 (890)
32 PRK13015 3-dehydroquinate dehy 38.8 1.9E+02 0.0041 27.5 8.4 67 66-137 39-108 (146)
33 TIGR00268 conserved hypothetic 38.6 1.7E+02 0.0036 30.1 9.0 73 59-133 2-76 (252)
34 PRK10490 sensor protein KdpD; 37.9 1.6E+02 0.0034 36.3 10.0 94 29-129 279-373 (895)
35 PF06574 FAD_syn: FAD syntheta 36.5 63 0.0014 30.9 5.0 103 25-129 32-144 (157)
36 PRK14719 bifunctional RNAse/5- 36.3 79 0.0017 34.6 6.3 62 64-126 36-99 (360)
37 cd06313 PBP1_ABC_sugar_binding 35.6 2.4E+02 0.0052 28.6 9.6 74 54-131 13-89 (272)
38 TIGR00273 iron-sulfur cluster- 35.6 78 0.0017 35.5 6.3 69 55-127 49-118 (432)
39 TIGR02990 ectoine_eutA ectoine 35.4 1.7E+02 0.0037 30.1 8.3 51 81-134 107-157 (239)
40 COG3590 PepO Predicted metallo 35.2 19 0.00041 41.1 1.4 44 382-432 476-519 (654)
41 PF07476 MAAL_C: Methylasparta 35.0 4.2E+02 0.009 27.2 10.5 86 32-127 105-194 (248)
42 PLN03194 putative disease resi 31.2 3.8E+02 0.0081 26.6 9.4 79 60-142 44-127 (187)
43 PF13407 Peripla_BP_4: Peripla 31.2 2.1E+02 0.0046 28.4 8.3 74 54-131 12-89 (257)
44 TIGR00884 guaA_Cterm GMP synth 30.2 2.7E+02 0.0059 29.8 9.1 74 54-131 2-80 (311)
45 PF06415 iPGM_N: BPG-independe 29.6 3E+02 0.0064 28.1 8.7 76 57-132 14-105 (223)
46 PLN02347 GMP synthetase 29.6 2.2E+02 0.0048 32.9 8.8 77 54-131 214-293 (536)
47 TIGR02634 xylF D-xylose ABC tr 29.5 3.7E+02 0.0079 27.9 10.0 73 54-130 12-87 (302)
48 COG0299 PurN Folate-dependent 29.4 4E+02 0.0086 26.7 9.3 103 17-132 38-143 (200)
49 COG1087 GalE UDP-glucose 4-epi 29.1 37 0.0008 36.2 2.2 79 378-483 150-243 (329)
50 cd00293 USP_Like Usp: Universa 28.1 3.7E+02 0.0081 22.8 9.9 73 29-101 28-101 (130)
51 PF03392 OS-D: Insect pheromon 27.1 20 0.00043 31.5 -0.1 13 417-429 83-95 (95)
52 cd06312 PBP1_ABC_sugar_binding 26.3 4.5E+02 0.0099 26.3 9.8 73 54-130 14-90 (271)
53 cd01540 PBP1_arabinose_binding 26.2 4.1E+02 0.0089 26.8 9.5 73 54-130 13-87 (289)
54 PRK09982 universal stress prot 26.2 5E+02 0.011 23.6 12.0 114 13-128 11-137 (142)
55 cd06295 PBP1_CelR Ligand bindi 26.2 4.4E+02 0.0095 26.4 9.7 71 54-130 24-95 (275)
56 PF08471 Ribonuc_red_2_N: Clas 26.1 1.3E+02 0.0028 26.3 4.6 40 250-289 48-88 (93)
57 cd06305 PBP1_methylthioribose_ 24.8 4.3E+02 0.0094 26.3 9.3 72 54-130 13-88 (273)
58 PF01220 DHquinase_II: Dehydro 24.7 6E+02 0.013 24.0 9.4 71 65-140 37-110 (140)
59 TIGR00715 precor6x_red precorr 24.2 4.4E+02 0.0096 27.3 9.2 46 82-129 54-99 (256)
60 cd01545 PBP1_SalR Ligand-bindi 23.5 2.8E+02 0.0061 27.5 7.6 72 54-130 13-88 (270)
61 PF01171 ATP_bind_3: PP-loop f 23.3 2.3E+02 0.0051 27.2 6.6 52 78-129 8-65 (182)
62 cd01538 PBP1_ABC_xylose_bindin 23.0 5.2E+02 0.011 26.3 9.6 73 54-130 13-88 (288)
63 cd06294 PBP1_ycjW_transcriptio 22.8 4.1E+02 0.009 26.3 8.6 71 54-130 18-91 (270)
64 cd00466 DHQase_II Dehydroquina 22.7 6.6E+02 0.014 23.8 9.9 77 58-139 25-108 (140)
65 PRK05395 3-dehydroquinate dehy 22.2 6.9E+02 0.015 23.8 9.9 76 57-137 26-108 (146)
66 PF05368 NmrA: NmrA-like famil 22.2 2.7E+02 0.0059 27.5 7.1 62 63-128 37-100 (233)
67 cd06323 PBP1_ribose_binding Pe 22.2 5.4E+02 0.012 25.3 9.4 73 54-130 13-88 (268)
68 cd06309 PBP1_YtfQ_like Peripla 22.1 4.3E+02 0.0093 26.5 8.6 73 54-130 13-88 (273)
69 PRK10660 tilS tRNA(Ile)-lysidi 21.5 2.4E+02 0.0053 31.6 7.1 68 61-129 7-82 (436)
70 cd06279 PBP1_LacI_like_3 Ligan 21.4 5E+02 0.011 26.3 9.1 70 54-130 18-87 (283)
71 cd06301 PBP1_rhizopine_binding 21.0 6.5E+02 0.014 25.0 9.7 73 54-131 13-90 (272)
72 cd06324 PBP1_ABC_sugar_binding 20.7 5.7E+02 0.012 26.4 9.4 72 54-130 14-90 (305)
73 cd06320 PBP1_allose_binding Pe 20.4 6.1E+02 0.013 25.3 9.4 73 54-130 13-90 (275)
74 TIGR02432 lysidine_TilS_N tRNA 20.4 3E+02 0.0065 26.4 6.7 55 76-130 6-66 (189)
75 PRK10116 universal stress prot 20.4 6.2E+02 0.013 22.6 13.6 124 1-128 1-137 (142)
76 PRK00074 guaA GMP synthase; Re 20.3 3.9E+02 0.0084 30.7 8.5 75 54-131 201-279 (511)
No 1
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=100.00 E-value=4.1e-123 Score=1034.60 Aligned_cols=473 Identities=70% Similarity=1.272 Sum_probs=410.0
Q ss_pred EEEecCCCCCCCCHHHHHHHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHHHHH
Q 006464 7 IVWFRRDLRIEDNPALAAAARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLAALL 86 (644)
Q Consensus 7 LvWFRrDLRl~DN~AL~~A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~~~~~~L~ 86 (644)
||||||||||+||+||.+|++.++|+||||+||..++....+.++++||++||.+|+++|+++|++|+|++++++.++|.
T Consensus 1 l~WFRrDLRl~DN~aL~~A~~~~~vlpvyi~dp~~~~~~~~~~~~~~fl~~sL~~L~~~L~~~G~~L~v~~~g~~~~~l~ 80 (475)
T TIGR02766 1 IVWFRRDLRVEDNPALAAAARAGPVIPVFVWAPEEEGQYYPGRVSRWWLKQSLAHLDQSLRSLGTCLVTIRSTDTVAALL 80 (475)
T ss_pred CEecCCCCCcchHHHHHHHHhCCCEEEEEEechHHhccccccHHHHHHHHHHHHHHHHHHHHcCCceEEEeCCCHHHHHH
Confidence 69999999999999999998877999999999987655455667778999999999999999999999987567899999
Q ss_pred HHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHHHHhccCCCC-
Q 006464 87 ECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDKCLQMQMEPA- 165 (644)
Q Consensus 87 ~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~tf~~f~~~~~~~~~~p~- 165 (644)
+++++++|++|++|++|+++++.||++|+++|++.||.++.+++++|++|+++....|++|++|++|+++++..+..+.
T Consensus 81 ~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~~~gi~~~~~~~~~l~~p~~i~~~~~~~~~~ft~f~~~~~~~~~~~~~ 160 (475)
T TIGR02766 81 DCVRSTGATRLFFNHLYDPVSLVRDHRAKEVLTAQGISVQSFNADLLYEPWEVYDELGRPFTMFAAFWERCLSMPYDPES 160 (475)
T ss_pred HHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHcCCEEEEecCCEEEChhhhcccCCCCCCeecHHHHHHHhccCCCCC
Confidence 9999999999999999999999999999999999999999999999999999988888999999999999887643321
Q ss_pred CCCCCccccccCCCCCCCCcccCCCCchhhhhhhhccCCCCCCchhhHHHHHHHHHHHHhhhhhhcccCCCCCCCCCCch
Q 006464 166 SILPPWRLVQAAGTIDGCSIEDLGLEDESEKSSNALLGRGWSPGWSNADKVLTEFVEQHLLRYYKNRQKLGGNSTSLLSP 245 (644)
Q Consensus 166 ~~~~p~~~~p~~~~~~~~~le~l~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~Rd~~~~~~tS~LSP 245 (644)
+..+|..+ +.. ....++++.+++...............|+|||++|+++|++|+++++..|.++||.|+.++||+|||
T Consensus 161 ~~~~p~~~-~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~~~~Y~~~Rd~p~~~~tS~LSP 238 (475)
T TIGR02766 161 PLLPPKKI-ISG-DVSKCSADDLGFEDDSEKGSNALLARAWSPGWSNADKALTEFINGPLLEYSKNRKKADSATTSLLSP 238 (475)
T ss_pred CCCCcccc-CCC-ccccCChhhcCCCCcccccccccccccCCCccHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCc
Confidence 12222211 110 1111222333443211101111112348999999999999999999999999999999999999999
Q ss_pred hhhCCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHHHHHHHHHHhCCCCCCCccccccCCCCCCCChhhHH
Q 006464 246 YLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLREYSRYLCFNFPFTHERPLLSNLKYFPWHADLGNFK 325 (644)
Q Consensus 246 yL~fG~LS~ReV~~~v~~~~~~~~~~~~~~~~~s~~~fireL~WREf~~~l~~~~P~~~~~~~~~~~~~~~W~~d~~~f~ 325 (644)
||+|||||||+||+++..+......++.....+|++.|++||+|||||+++++++|+....++...++.++|..|++.|+
T Consensus 239 yL~~G~ISpR~v~~~~~~~~~~~~~~~~~~~~~s~~~f~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~w~~~~~~f~ 318 (475)
T TIGR02766 239 YLHFGEVSVRKVFHLVRMKQIAWANEGNSAGEESVNLFLRSIGLREYSRYISFNHPFSHEKPLLGHLKFFPWAVDENYFK 318 (475)
T ss_pred ccccCcccHHHHHHHHHhhhhhhhhcccCCCcccHHHHHHHHHHHHHHHHHHHhCCcccccchhhhhhcCCCCCCHHHHH
Confidence 99999999999999986422111112223345678899999999999999999999876667776777899999999999
Q ss_pred HHhcCCCCcHHHHHHHHHHHHhcccchHHHHHHHHHHHhhcCCCchHHHHHHHHhcccccCCCCccchhhhhCCCCCCCC
Q 006464 326 AWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWGMKYFWDTLLDADLECDILGWQYISGSLPDGHE 405 (644)
Q Consensus 326 aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G~~~F~~~LlD~D~a~N~g~Wqw~AG~g~d~~~ 405 (644)
+|++|+||||+||||||||++|||||||+||||||||||+|+||||+|++||+++|||||+|+|+|||||+||+|+|+.|
T Consensus 319 aW~~G~TG~P~VDA~MRqL~~TGwmhnR~Rm~vAsfl~k~L~idWr~G~~~F~~~LiD~D~a~N~g~Wqw~Ag~g~d~~~ 398 (475)
T TIGR02766 319 AWRQGRTGYPLVDAGMRELWATGWLHDRIRVVVSSFFVKVLQLPWRWGMKYFWDTLLDADLESDALGWQYISGSLPDGRE 398 (475)
T ss_pred HHHcCCCCCcchhHHHHHHHHHCCCcHHHHHHHHHHHHcccCCChHHHHHHHHHHccccchhcccccccccccCCCCCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCccccccccCCcchhhhhccccccCCCCCcccCCCCCChhHHHHcCCcCCCCCCcCCCChHHHHHHHHHHH
Q 006464 406 LERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHHPWDAPPNVLKAAGVELGLNYPKPIIDLDLGRERLTQAI 481 (644)
Q Consensus 406 ~~RifNP~~q~~k~Dp~G~yIrrWvPEL~~lp~~~Ih~PW~~p~~~~~~~g~~~g~~YP~PIvd~~~ar~~~~~~~ 481 (644)
|||||||++|++||||+|+|||||||||+++|+++||+||++|..+|+++||.+|.+||.|||||+.+|+++++++
T Consensus 399 ~~RifnP~~q~~~~Dp~g~yir~wvPeL~~~p~~~ih~Pw~~~~~~~~~~~~~~g~~YP~PiVd~~~~r~~~~~~~ 474 (475)
T TIGR02766 399 LDRIDNPQLEGYKFDPNGEYVRRWLPELARLPTEWIHHPWDAPESVLQAAGVELGSNYPLPIVGLDEARARLHEAL 474 (475)
T ss_pred ccccCCHHHHHhhcCCCcccHHHhChhhccCCHHHhcCcccCCHHHHHHcCCccCCCCCcccCCHHHHHHHHHHhh
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999876
No 2
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.5e-116 Score=950.44 Aligned_cols=455 Identities=34% Similarity=0.584 Sum_probs=400.4
Q ss_pred cEEEEecCCCCCCCCHHHHHHHhCC-C-eEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchH
Q 006464 5 RTIVWFRRDLRIEDNPALAAAARDG-S-VFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTL 82 (644)
Q Consensus 5 ~~LvWFRrDLRl~DN~AL~~A~~~~-~-vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~~~~ 82 (644)
.+|||||||||++||+||++|++.+ + ++.|||++|.+++ ..++.+.+||.+||++|+++|+++|++|+|..+ ++.
T Consensus 3 ~~l~WfrrDLR~~DN~aL~~A~~~~~~~~~~vfi~~~~~~~--~~~~~~~~Fl~~sL~~L~~~L~~~gi~L~v~~~-~~~ 79 (461)
T COG0415 3 TVLVWFRRDLRLTDNAALAAACQSGQPVIIAVFILDPEQLG--HASPRHAAFLLQSLQALQQSLAELGIPLLVREG-DPE 79 (461)
T ss_pred eEEEEeccccccCChHHHHHHHhcCCCceEEEEEechhhcc--ccCHHHHHHHHHHHHHHHHHHHHcCCceEEEeC-CHH
Confidence 6899999999999999999999876 3 6789999998876 335556679999999999999999999999986 568
Q ss_pred HHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHHHHhccC
Q 006464 83 AALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDKCLQMQM 162 (644)
Q Consensus 83 ~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~tf~~f~~~~~~~~~ 162 (644)
.++.+++++.+++.|++|.+|++.+..||.+|++.|.+.||.++.|++.+|++|+++.+..|++|++|++|++++.+...
T Consensus 80 ~~l~~~~~~~~~~~v~~n~~~~~~~~~rD~al~~~l~~~gi~~~~~~d~~l~~p~~~~t~~~~~y~vfT~F~k~~~~~~~ 159 (461)
T COG0415 80 QVLPELAKQLAATTVFWNRDYEEWERQRDAALAQPLTEVGIAVHSFWDALLHEPGEVRTGSGEPYKVFTPFYKAWRDRLR 159 (461)
T ss_pred HHHHHHHHHhCcceEEeeeeechhHHHHHHHHHHHHHhcCceEEEeccccccCHhhccCCCCCCccccchHHHHHHHhcc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999887633
Q ss_pred CCCCCCCCccccccCCCCCCCCcccCCCCchhhhhhhhccCCCCCCchhhHHHHHHHHHHHHhhhhhhcccCCCCCCCCC
Q 006464 163 EPASILPPWRLVQAAGTIDGCSIEDLGLEDESEKSSNALLGRGWSPGWSNADKVLTEFVEQHLLRYYKNRQKLGGNSTSL 242 (644)
Q Consensus 163 ~p~~~~~p~~~~p~~~~~~~~~le~l~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~Rd~~~~~~tS~ 242 (644)
...+.+.|..+.+..... +......+.+ ........|.|||++|+++|++|+.+++.+|...||.|+.++||+
T Consensus 160 ~~~~~~~p~~~~~~~~~~--~~~~~~~~P~-----~~~~~~~~~~~Ge~aA~~~l~~F~~~~l~~Y~~~Rd~p~~~~TS~ 232 (461)
T COG0415 160 ILRPVPAPDVLDALRDEE--PPPEEISLPD-----FSKFDVLLFTGGEKAALARLQDFLAEGLDDYERTRDFPALDGTSR 232 (461)
T ss_pred cCCCCCCcchhccccccc--cCcccccCCc-----cccccccCCCchHHHHHHHHHHHHHHHHHHHHHhcCCcccccccc
Confidence 222222222111110000 0000110110 000112358999999999999999999999999999999999999
Q ss_pred CchhhhCCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHHHHHHHHHHhCCCC-CCCccccccCCCCCCCCh
Q 006464 243 LSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLREYSRYLCFNFPFT-HERPLLSNLKYFPWHADL 321 (644)
Q Consensus 243 LSPyL~fG~LS~ReV~~~v~~~~~~~~~~~~~~~~~s~~~fireL~WREf~~~l~~~~P~~-~~~~~~~~~~~~~W~~d~ 321 (644)
|||||+||+||||+||+++++... ...+++..|++||+|||||++++.++|.. ...++......++|.+|+
T Consensus 233 LSpyL~~G~IS~r~v~~~~~~~~~--------~~~~~~~~~~~eL~WREFy~h~~~~~p~~~~~~~~~~~~~~~~w~~~~ 304 (461)
T COG0415 233 LSPYLAFGVISPREVYAALLAAES--------DAREGTAALINELIWREFYQHLLYHYPSLSRFEPFAEKTLNIPWEDNP 304 (461)
T ss_pred cCHHHHcCCcCHHHHHHHHHHhhh--------cccchHHHHHHHHHHHHHHHHHHHhCCcccccccccccccCCccccCH
Confidence 999999999999999999876431 14577889999999999999999999998 777888888899999999
Q ss_pred hhHHHHhcCCCCcHHHHHHHHHHHHhcccchHHHHHHHHHHHhhcCCCchHHHHHHHHhcccccCCCCccchhhhhCCCC
Q 006464 322 GNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWGMKYFWDTLLDADLECDILGWQYISGSLP 401 (644)
Q Consensus 322 ~~f~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G~~~F~~~LlD~D~a~N~g~Wqw~AG~g~ 401 (644)
+.|++|++|+|||||||||||||++||||||||||+|||||||+|.||||+|++||+++|||||+|+|+|||||+||+|+
T Consensus 305 ~~f~aW~~G~TGyPIVDA~MRqL~~TG~MHNR~RMivAsFL~k~L~IdWR~GE~~F~~~LiD~D~asN~ggWQW~AstG~ 384 (461)
T COG0415 305 AHFQAWQEGKTGYPIVDAAMRQLNQTGYMHNRMRMIVASFLTKDLLIDWREGEKYFMRQLIDGDPASNNGGWQWAASTGT 384 (461)
T ss_pred HHHHHHhcCCCCCccccHHHHHHHHhCCcchHHHHHHHHHHHHhcCCCHHHHHHHHHHhccCCCcccCCCCeeEEeccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccccCccccccccCCcchhhhhccccccCCCCCcccCCCCCChhHHHHcCCcCCCCCCcCCCChHHHHHHHHHHH
Q 006464 402 DGHELERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHHPWDAPPNVLKAAGVELGLNYPKPIIDLDLGRERLTQAI 481 (644)
Q Consensus 402 d~~~~~RifNP~~q~~k~Dp~G~yIrrWvPEL~~lp~~~Ih~PW~~p~~~~~~~g~~~g~~YP~PIvd~~~ar~~~~~~~ 481 (644)
|+.||||||||++|++||||+|+|||+|||||++||.++||+||++|. +.+|.+||+|||||+++|+++++++
T Consensus 385 Da~pyfRiFNp~~Q~~kfDp~g~fIr~wvPeL~~~~~~~ih~p~~~~~-------~~~~~~YP~piVd~~~~r~~a~~~y 457 (461)
T COG0415 385 DAAPYFRIFNPVTQAEKFDPDGEFIRRWVPELRNLPDKYIHEPWELSE-------VVLGVDYPKPIVDHKESREQALAAY 457 (461)
T ss_pred CCCcceeccCHHHHHhhcCCCcccHHhhCHHhhCCChhhccChhhccc-------ccccCCCCccccccHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999986 6789999999999999999999999
Q ss_pred HHh
Q 006464 482 FKM 484 (644)
Q Consensus 482 ~~~ 484 (644)
+.+
T Consensus 458 ~~~ 460 (461)
T COG0415 458 EAA 460 (461)
T ss_pred Hhc
Confidence 764
No 3
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=2.1e-112 Score=945.54 Aligned_cols=459 Identities=30% Similarity=0.518 Sum_probs=388.0
Q ss_pred cEEEEecCCCCCCCCHHHHHHHhCC--CeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC---C
Q 006464 5 RTIVWFRRDLRIEDNPALAAAARDG--SVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT---E 79 (644)
Q Consensus 5 ~~LvWFRrDLRl~DN~AL~~A~~~~--~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g---~ 79 (644)
++|||||||||++||+||.+|++.+ +|+||||+||..+.....+..+.+||++||.+|+++|+++|++|+|++| +
T Consensus 3 ~~l~WfRrDLRl~DN~aL~~A~~~~~~~vlpvyv~dp~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g~~~g 82 (472)
T PRK10674 3 THLVWFRNDLRLHDNLALAAACRDPSARVLALFIATPAQWAAHDMAPRQAAFINAQLNALQIALAEKGIPLLFHEVDDFA 82 (472)
T ss_pred ceEEEECCCCCcchHHHHHHHHhCCCCCEEEEEEECchhhccCCCCHHHHHHHHHHHHHHHHHHHHcCCceEEEecCCcC
Confidence 4699999999999999999998764 6999999999765433345666679999999999999999999999986 3
Q ss_pred chHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHHHHh
Q 006464 80 STLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDKCLQ 159 (644)
Q Consensus 80 ~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~tf~~f~~~~~~ 159 (644)
++.++|.+++++++|+.|+++++|+++++.||++|+++|. ||.++.+++++|++|+.+....|++|++|++|++++..
T Consensus 83 ~~~~vl~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~--~i~~~~~~~~~l~~~~~i~~~~~~~y~~ft~f~~~~~~ 160 (472)
T PRK10674 83 ASVEWLKQFCQQHQVTHLFYNYQYEVNERQRDAAVERALR--NVVCQGFDDSVLLPPGSVMTGNHEMYKVFTPFKNAFLK 160 (472)
T ss_pred CHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHcC--CCEEEEecCceEeCccccccCCCCCCCcccHHHHHHHH
Confidence 6788999999999999999999999999999999999996 89999999999999999988888999999999999866
Q ss_pred ccCCCCC--CCCCccccccCCCCCCCCcccCCCCchhhhhhhhccCCCCCCchhhHHHHHHHHHHHHhhhhhhcccCCCC
Q 006464 160 MQMEPAS--ILPPWRLVQAAGTIDGCSIEDLGLEDESEKSSNALLGRGWSPGWSNADKVLTEFVEQHLLRYYKNRQKLGG 237 (644)
Q Consensus 160 ~~~~p~~--~~~p~~~~p~~~~~~~~~le~l~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~Rd~~~~ 237 (644)
....+.+ ...|....+ .....+++..+++... . .....|+|||++|+++|++|+++++.+|...||.|+.
T Consensus 161 ~~~~~~p~~~~~p~~~~~--~~~~~~~~~~~~~~~~---~---~~~~~~~gGe~~A~~~L~~f~~~~l~~Y~~~r~~p~~ 232 (472)
T PRK10674 161 RLREGDPECVPAPKVRSS--GAIEPLPPIPFNYPQQ---S---FDTALFPVGEKAAIAQLRQFCQQGAGEYEQQRDFPAV 232 (472)
T ss_pred hhcccCCccCCCCccccc--cccCCCCcccccCccc---c---cccCCCCCCHHHHHHHHHHHHHHHHHHhccccCCCCc
Confidence 3222111 111111100 0000111111222110 0 0112489999999999999999999999999999998
Q ss_pred CCCCCCchhhhCCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHHHHHHHHHHhCCCCCC-CccccccCCCC
Q 006464 238 NSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLREYSRYLCFNFPFTHE-RPLLSNLKYFP 316 (644)
Q Consensus 238 ~~tS~LSPyL~fG~LS~ReV~~~v~~~~~~~~~~~~~~~~~s~~~fireL~WREf~~~l~~~~P~~~~-~~~~~~~~~~~ 316 (644)
++||+|||||+|||||||+|++++.+... ... ...+.+.|++||+|||||+++++++|.+.. .++.+..+.++
T Consensus 233 ~~tS~LSPyL~~G~iS~r~v~~~~~~~~~-----~~~-~~~~~~~fl~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~~ 306 (472)
T PRK10674 233 DGTSRLSAYLATGVLSPRQCLHRLLAEQP-----QAL-DGGAGSVWLNELIWREFYRHLMVAYPSLCKHRPFIAWTDRVQ 306 (472)
T ss_pred cCCCCcChhhccCcCCHHHHHHHHHHHhh-----hhh-ccCchhHHHHHHHHHHHHHHHHHhCCchhhccCcchhhhccC
Confidence 99999999999999999999999865321 111 112345799999999999999999998643 24445456678
Q ss_pred CCCChhhHHHHhcCCCCcHHHHHHHHHHHHhcccchHHHHHHHHHHHhhcCCCchHHHHHHHHhcccccCCCCccchhhh
Q 006464 317 WHADLGNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWGMKYFWDTLLDADLECDILGWQYI 396 (644)
Q Consensus 317 W~~d~~~f~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G~~~F~~~LlD~D~a~N~g~Wqw~ 396 (644)
|.+|++.|++|++|+|||||||||||||++|||||||+||+|||||||+|+||||+|++||+++|||||+|+|+|||||+
T Consensus 307 w~~~~~~~~~W~~G~TG~P~vDA~mrqL~~tG~mhnr~Rm~vAsfL~k~L~idWr~G~~~F~~~LlD~D~a~N~g~Wqw~ 386 (472)
T PRK10674 307 WQSNPAHLQAWQQGKTGYPIVDAAMRQLNSTGWMHNRLRMITASFLVKDLLIDWREGERYFMSQLIDGDLAANNGGWQWA 386 (472)
T ss_pred cccCHHHHHHHHcCCCCCccHHHHHHHHHHHCCccHHHHHHHHHHHHcCcccCCHhHHHHHHHHhhcCCcccchhcccee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCCCCCCCCcccccCccccccccCCcchhhhhccccccCCCCCcccCCCCCChhHHHHcCCcCCCCCCcCCCChHHHHHH
Q 006464 397 SGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHHPWDAPPNVLKAAGVELGLNYPKPIIDLDLGRER 476 (644)
Q Consensus 397 AG~g~d~~~~~RifNP~~q~~k~Dp~G~yIrrWvPEL~~lp~~~Ih~PW~~p~~~~~~~g~~~g~~YP~PIvd~~~ar~~ 476 (644)
||||+|.+||+|||||++|++||||+|+|||||||||+++|.++||+||+++. .+||. .+||+|||||+.+|++
T Consensus 387 ag~G~d~~py~R~fnP~~q~~k~Dp~g~yIr~w~PeL~~~p~~~ih~Pw~~~~----~~~~~--~~YP~PiVd~~~~r~~ 460 (472)
T PRK10674 387 ASTGTDAAPYFRIFNPTTQGERFDRDGEFIRRWLPELRDVPGKAIHQPWRWAE----KAGVT--LDYPQPIVDHKQARLA 460 (472)
T ss_pred ecCCCCCCcceeecCHHHHHHHhCCCCChHHHhChhhccCCHHhhcCccccch----hcCCC--CCCCcCCcCHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999984 33554 4899999999999999
Q ss_pred HHHHHHHhH
Q 006464 477 LTQAIFKMW 485 (644)
Q Consensus 477 ~~~~~~~~~ 485 (644)
|+++|+.++
T Consensus 461 ~~~~~~~~~ 469 (472)
T PRK10674 461 TLAAYEAAR 469 (472)
T ss_pred HHHHHHHHh
Confidence 999998764
No 4
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=100.00 E-value=8.5e-112 Score=940.41 Aligned_cols=458 Identities=31% Similarity=0.529 Sum_probs=393.6
Q ss_pred cEEEEecCCCCCCCCHHHHHHHhCC-CeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHH
Q 006464 5 RTIVWFRRDLRIEDNPALAAAARDG-SVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLA 83 (644)
Q Consensus 5 ~~LvWFRrDLRl~DN~AL~~A~~~~-~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~~~~~ 83 (644)
.+|||||||||++||+||.+|++.+ +|+||||++|..+.....+..+.+||++||.+|+++|+++|++|+|+.| ++.+
T Consensus 2 ~vl~WfRrDLRl~DN~AL~~A~~~~~~vl~vfi~dp~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G-~p~~ 80 (471)
T TIGR03556 2 LILFWHRRDLRLSDNIGLAAARQQSAKVVGLFCLDPNILQADDMAPARVAYLIGCLQELQQRYQQAGSQLLILQG-DPVQ 80 (471)
T ss_pred CEEEEeCCCCCcchHHHHHHHHhcCCCEEEEEEEchhhhccccCCHHHHHHHHHHHHHHHHHHHHCCCCeEEEEC-CHHH
Confidence 4899999999999999999999765 7999999999865543345666779999999999999999999999986 5788
Q ss_pred HHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHHHHhccCC
Q 006464 84 ALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDKCLQMQME 163 (644)
Q Consensus 84 ~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~tf~~f~~~~~~~~~~ 163 (644)
+|.+++++++|++|+++.+|++++++||++|+++|++.||.++.+.+++|++|+.+....|++|++|++|+++++..+..
T Consensus 81 vl~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~i~~~~~~~y~~ft~f~k~~~~~~~~ 160 (471)
T TIGR03556 81 LIPQLAQQLGAKAVYWNLDVEPYGRKRDRAVAAALKEAGIAVVTLWDQLLHSPDEILTGSGNPYTVYTPFWKNWSSLPKP 160 (471)
T ss_pred HHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHCCCEEEEeCCcEEECccccccCCCCCCcchhHHHHHHHhcccc
Confidence 99999999999999999999999999999999999999999999999999999999888889999999999998775422
Q ss_pred CCCCCCCccccc---cC----CCCC---CCCcccCCCCchhhhhhhhccCCCCCCchhhHHHHHHHHHHHHhhhhhhccc
Q 006464 164 PASILPPWRLVQ---AA----GTID---GCSIEDLGLEDESEKSSNALLGRGWSPGWSNADKVLTEFVEQHLLRYYKNRQ 233 (644)
Q Consensus 164 p~~~~~p~~~~p---~~----~~~~---~~~le~l~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~Rd 233 (644)
.+.++|..+.+ .. ..+. .++++.++++. . . ...|+|||.+|+++|++|+++++.+|..+||
T Consensus 161 -~~~~~p~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~-----~-~--~~~~~gGe~~A~~~L~~f~~~~l~~Y~~~r~ 231 (471)
T TIGR03556 161 -TPVATPTELEGLTEAELEAAAPLGVIALPTAKDLGFDW-----D-G--DLILEPGETAAQARLEEFCDRAIADYQEQRN 231 (471)
T ss_pred -CCCCCccccccCCccccccccccccccCCccccccccc-----c-c--ccCCCCcHHHHHHHHHHHHHHHHHHhhhccC
Confidence 12222211110 00 0000 11222222221 0 1 1148999999999999999999999999999
Q ss_pred CCCCCCCCCCchhhhCCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHHHHHHHHHHhCCCCCCCccccccC
Q 006464 234 KLGGNSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLREYSRYLCFNFPFTHERPLLSNLK 313 (644)
Q Consensus 234 ~~~~~~tS~LSPyL~fG~LS~ReV~~~v~~~~~~~~~~~~~~~~~s~~~fireL~WREf~~~l~~~~P~~~~~~~~~~~~ 313 (644)
.|+.++||+|||||+|||||||+||+++.+.... ........+++.|++||+|||||+++++++|.+...++...+.
T Consensus 232 ~p~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~---~~~~~~~~~~~~f~~eL~WRef~~~~~~~~p~~~~~~~~~~~~ 308 (471)
T TIGR03556 232 FPALDGTSQLSPALKFGVIGIRTVWQATQEAHEN---SRSEEARNSIRTWQQELAWREFYQHALYHFPELADGPYRSLFQ 308 (471)
T ss_pred CCCCCCCCCCChhhcCCcccHHHHHHHHHHHHhh---cccccccccHHHHHHHHHHHHHHHHHHHHCcchhccccchhhh
Confidence 9998999999999999999999999998754311 1111234567889999999999999999999887777777778
Q ss_pred CCCCCCChhhHHHHhcCCCCcHHHHHHHHHHHHhcccchHHHHHHHHHHHhhcCCCchHHHHHHHHhcccccCCCCccch
Q 006464 314 YFPWHADLGNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWGMKYFWDTLLDADLECDILGW 393 (644)
Q Consensus 314 ~~~W~~d~~~f~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G~~~F~~~LlD~D~a~N~g~W 393 (644)
.++|..+++.|++|++|+||||+||||||||++|||||||+||+|||||||+|+||||+|++||+++|||||+|+|+|||
T Consensus 309 ~~~w~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~vAsfl~k~L~idWr~G~~~F~~~LlD~D~a~N~g~W 388 (471)
T TIGR03556 309 NFPWENNEAHFQAWCEGRTGYPIVDAAMRQLNETGWMHNRCRMIVASFLTKDLIINWQWGEKYFMQKLIDGDLAANNGGW 388 (471)
T ss_pred cCCCcCCHHHHHHHhcCCCCCCcccHHHHHHHHhCCccHHHHHHHHHHHHcccCCCHHHHHHHHHHHhhhcChhhccccc
Confidence 88999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhCCCCCCCCcccccCccccccccCCcchhhhhccccccCCCCCcccCCCCCChhHHHHcCCcCCCCCCcCCCChHHH
Q 006464 394 QYISGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHHPWDAPPNVLKAAGVELGLNYPKPIIDLDLG 473 (644)
Q Consensus 394 qw~AG~g~d~~~~~RifNP~~q~~k~Dp~G~yIrrWvPEL~~lp~~~Ih~PW~~p~~~~~~~g~~~g~~YP~PIvd~~~a 473 (644)
||+||||+|++| ||||||++|++||||+|+|||||||||+++|+++||+||.++ .+++ ..+||+|||||+.+
T Consensus 389 qw~a~~G~d~~p-~R~fnp~~q~~k~Dp~G~yIr~w~PeL~~~p~~~ih~p~~~~-~~~~------~~~YP~Pivd~~~~ 460 (471)
T TIGR03556 389 QWSASSGMDPKP-LRIFNPASQAQKFDPEAEYIRRWLPELRSVDTKDLVTGKITP-LERR------AVGYPLPIVDHNQQ 460 (471)
T ss_pred cchhcCCCCCCC-CcccCHHHHHHHhCCCCchHHHhCHhhccCCHhhhcCcccCc-hhhh------ccCCCCCCCCHHHH
Confidence 999999999999 799999999999999999999999999999999999999877 3333 23799999999999
Q ss_pred HHHHHHHHHH
Q 006464 474 RERLTQAIFK 483 (644)
Q Consensus 474 r~~~~~~~~~ 483 (644)
|+++++++++
T Consensus 461 r~~~~~~~~~ 470 (471)
T TIGR03556 461 QQLFKQLYQQ 470 (471)
T ss_pred HHHHHHHHhh
Confidence 9999998864
No 5
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=100.00 E-value=6.6e-101 Score=846.62 Aligned_cols=415 Identities=29% Similarity=0.453 Sum_probs=342.2
Q ss_pred CcEEEEecCCCCCCCCHHHHHHHhCC-CeEEEEEeCCCccCc------cCCchhhHHHHHHHHHHHHHHHHhcCCcEEEE
Q 006464 4 NRTIVWFRRDLRIEDNPALAAAARDG-SVFPVYTWCPKEEGQ------FYPGRVSRWWLKQSLSYLGQSLKSLGAELVLF 76 (644)
Q Consensus 4 ~~~LvWFRrDLRl~DN~AL~~A~~~~-~vlpvfi~dP~~~~~------~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~ 76 (644)
+.+|||||||||++||+||.+|++.+ +|+||||+||..+.. ...+..+.+||++||.+|+++|+++|++|+|+
T Consensus 1 ~~~l~WfRrDLRl~DN~aL~~A~~~~~~vl~vfi~dp~~~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~ 80 (429)
T TIGR02765 1 KVVLYWFRNDLRVHDNPALYKASSSSDTLIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESLKDLRTSLRKLGSDLLVR 80 (429)
T ss_pred CeEEEEeCCCCccccHHHHHHHHhcCCeEEEEEEECchHhccccccccCCCCHHHHHHHHHHHHHHHHHHHHcCCCeEEE
Confidence 36899999999999999999998755 799999999986552 11355666799999999999999999999999
Q ss_pred ECCchHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHH
Q 006464 77 KTESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDK 156 (644)
Q Consensus 77 ~g~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~tf~~f~~~ 156 (644)
.| ++.++|.+++++++|++|+++++|+++++.||++|+++|++.||.++.+++++|++|++|....|.+|++|++|+++
T Consensus 81 ~G-~~~~vl~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~v~~~~~~~~~~ft~f~~~ 159 (429)
T TIGR02765 81 SG-KPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALARLGIHVEQHWGSTLYHEDDLPFDLEDLPDVFTQFRKQ 159 (429)
T ss_pred eC-CHHHHHHHHHHHhCCCEEEEeccCCHHHHHHHHHHHHHHHhcCceEEEecCCEeECHHhcCCCCCCCCCCchHHHHH
Confidence 86 57889999999999999999999999999999999999999999999999999999999988888999999999998
Q ss_pred HHhccCCCCCCCCCccccccCC---CCCCCCcccCCCCchhhhhhhhccCCCCCCchhhHHHHHHHHHH-HHhhhhhhcc
Q 006464 157 CLQMQMEPASILPPWRLVQAAG---TIDGCSIEDLGLEDESEKSSNALLGRGWSPGWSNADKVLTEFVE-QHLLRYYKNR 232 (644)
Q Consensus 157 ~~~~~~~p~~~~~p~~~~p~~~---~~~~~~le~l~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~-~~l~~Y~~~R 232 (644)
+......+.+.++|..+.+.+. .-..++++++++.... ......|+|||.+|+++|++||. +.+..|...|
T Consensus 160 ~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~~~~~~~gGe~~A~~~L~~Fl~~~~l~~Y~~~R 234 (429)
T TIGR02765 160 VEAKCSIRPPLPAPEKLPPLPSVDDPGWIPTLEDLGEESSE-----VDRGLPFVGGETAGLARLKEYFWSKDLKSYKETR 234 (429)
T ss_pred HHhhCCCCCCCCCcccCCCCcccccccCCCChhhcCCCccc-----ccccCCcCchHHHHHHHHHHHHhhccHhhhhhcc
Confidence 6542111111222221111000 0001223333322110 01122489999999999999998 4688999999
Q ss_pred cCC-CCCCCCCCchhhhCCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHHHHHHHHHHhCCC-CCC-Cccc
Q 006464 233 QKL-GGNSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLREYSRYLCFNFPF-THE-RPLL 309 (644)
Q Consensus 233 d~~-~~~~tS~LSPyL~fG~LS~ReV~~~v~~~~~~~~~~~~~~~~~s~~~fireL~WREf~~~l~~~~P~-~~~-~~~~ 309 (644)
|.+ +.++||+|||||+|||||||+|++++.+... .....++...|++||+|||||+++++++|. +.. ..+.
T Consensus 235 ~~~~~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~------~~~~~~~~~~~~~eL~WRef~~~~~~~~~~~~~~~~~~~ 308 (429)
T TIGR02765 235 NGMLGPDYSTKFSPWLALGCVSPRQIYEELQRYET------ERGANDSTYWVIFELLWRDYFRFYALKYGNRLFRFGGLR 308 (429)
T ss_pred CcccCCCCcCccCHHHhCCcccHHHHHHHHHHHHh------hcccCCCcHHHHHHHHHHHHHHHHHHHcCCcccccCCCc
Confidence 985 5688999999999999999999999865321 111123455677799999999998888874 221 2222
Q ss_pred cccCCCCCCCChhhHHHHhcCCCCcHHHHHHHHHHHHhcccchHHHHHHHHHHHhhcCCCchHHHHHHHHhcccccCCCC
Q 006464 310 SNLKYFPWHADLGNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWGMKYFWDTLLDADLECD 389 (644)
Q Consensus 310 ~~~~~~~W~~d~~~f~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G~~~F~~~LlD~D~a~N 389 (644)
. ..++|..|++.|++|++|+|||||||||||||++|||||||+||+|||||||+|+||||+|++||+++|||||+|+|
T Consensus 309 ~--~~~~w~~~~~~~~~W~~G~TG~PivDAamrqL~~TG~mhnr~Rm~vAsFl~k~L~idWr~G~~~F~~~LiD~D~a~n 386 (429)
T TIGR02765 309 G--KHPKWSFDAKRFEQWKTGTTGYPLVDANMRELNATGFMSNRGRQNVASFLVKDLGLDWRYGAEWFETQLVDYDVCSN 386 (429)
T ss_pred c--CCCCCccCHHHHHHHhCCCCCChhhhHHHHHHHHhCCCCHHHHHHHHHHHHHccCCCHHHHHHHHHHHhhccchhcC
Confidence 1 35789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchhhhhCCCCCCCCcccccCccccccccCCcchhhhhccccc
Q 006464 390 ILGWQYISGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPEL 433 (644)
Q Consensus 390 ~g~Wqw~AG~g~d~~~~~RifNP~~q~~k~Dp~G~yIrrWvPEL 433 (644)
+|||||+||+|+|+.| ||||||++|++||||+|+|||||||||
T Consensus 387 ~g~Wqw~ag~g~d~~~-~Rifnp~~q~~k~Dp~g~yir~wvPeL 429 (429)
T TIGR02765 387 WGNWQYLAGVGNDPRG-SRQFNIEKQAQDYDPDGEYVATWVPEL 429 (429)
T ss_pred cccchhhhcCcCCCCc-CccCCHHHHHHhcCCCCCcHHHhcCCC
Confidence 9999999999999999 999999999999999999999999998
No 6
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=100.00 E-value=5.2e-92 Score=765.56 Aligned_cols=480 Identities=36% Similarity=0.576 Sum_probs=414.8
Q ss_pred CCC-CcEEEEecCCCCCCCCHHHHHHH-hCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC
Q 006464 1 MGG-NRTIVWFRRDLRIEDNPALAAAA-RDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT 78 (644)
Q Consensus 1 m~~-~~~LvWFRrDLRl~DN~AL~~A~-~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g 78 (644)
|++ .++|+|||+|||+||||||.+|+ ..+++.||||+||+.++...+|+.+.+||+|+|++|+++|+++|++|+++++
T Consensus 1 ~~~~~~~v~wfr~~lR~~dnpal~~a~~~~~~~~~v~i~d~~~~~~~~~g~~~~~~l~qsL~~ld~sl~~l~~~L~v~~~ 80 (531)
T KOG0133|consen 1 MATGSKSVHWFRKGLRLHDNPALLAAAAGKEPVRPVFILDPEEAGSSNVGRNRWRFLLQSLEDLDQSLRELNSRLFVFRG 80 (531)
T ss_pred CCCccceEEecccCcccccChhhHHHhccCCCceeEEEeCHhHhhccccchhHHHHHHHHHHHHHHHHHHhCCceEEEeC
Confidence 565 68999999999999999996655 4568999999999999988899999899999999999999999999999998
Q ss_pred CchHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCCeeecCccccccc-CCcccchHHHHHHH
Q 006464 79 ESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDER-GHAFTTFDAYWDKC 157 (644)
Q Consensus 79 ~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~-g~~~~tf~~f~~~~ 157 (644)
. ++.+|..+.+.++++.|.++.+++|+.+.||..++..|.+.|+.+.+..+++++.|+.+++.+ |+++.+|..|+..+
T Consensus 81 ~-p~~vl~~~~~~~~~~~l~~~~~~~p~~~vrD~~~~~~a~~l~i~v~s~~s~~~~~~~~~i~~n~~k~pls~~~~~~~~ 159 (531)
T KOG0133|consen 81 H-PIAVLSRLLEQVGVQKLKFEYDMEPDGKVRDATIKSLATELGLSVVSPVSHTLYLPDKIIEANGGKPPLSYKTFRGVC 159 (531)
T ss_pred C-chHHHhhhhhccceeEEEEEEeccCccccccHHHHHHHHHhhhhhcccCchhhhcHHHHHHhcCCCCccccccccccc
Confidence 7 789999999999999999999999999999999999999999999999999999999999885 68999999999877
Q ss_pred HhccCCCCCCCC-CccccccCC--------CCCCCCcccCCCCchhhhhhhhccCCCCCCchhhHHHHHHHHHHHHhhhh
Q 006464 158 LQMQMEPASILP-PWRLVQAAG--------TIDGCSIEDLGLEDESEKSSNALLGRGWSPGWSNADKVLTEFVEQHLLRY 228 (644)
Q Consensus 158 ~~~~~~p~~~~~-p~~~~p~~~--------~~~~~~le~l~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y 228 (644)
..+.....|... .....+... ....++++.+++.. ++... ..|+||++.|+..|++||...+-.+
T Consensus 160 ~~~~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~-----~~~~~-~~~~~g~s~al~~l~~~l~~~~~~a 233 (531)
T KOG0133|consen 160 QSMSAPKIPALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIP-----SNYGE-VVWRGGESEALKRLDAHLKVPLWVA 233 (531)
T ss_pred cccccccccccccccccCCCChhhhhhcccccccCCchhhccCc-----ccccc-cccCCcccchhHHHHHHhhHHHHHh
Confidence 655433222111 111111100 11123444444432 22111 2389999999999999999875544
Q ss_pred hhc--ccCC---CCCCCCCCchhhhCCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHHHHHHHHHHhCCCC
Q 006464 229 YKN--RQKL---GGNSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLREYSRYLCFNFPFT 303 (644)
Q Consensus 229 ~~~--Rd~~---~~~~tS~LSPyL~fG~LS~ReV~~~v~~~~~~~~~~~~~~~~~s~~~fireL~WREf~~~l~~~~P~~ 303 (644)
... ..+. ...+++.|||||+|||||+|.+++.....+..|..+.++.+.+| .|+.||+||||+++++.++|++
T Consensus 234 n~~~~~~~~~~~~~~s~~~Ls~yL~fg~~svr~~~~~~~~k~V~~~~~~~s~~~es--~~~~qv~Wre~~y~~~~n~p~~ 311 (531)
T KOG0133|consen 234 NLELRYSNANSRVKISTTVLSPYLKFGCLSVRYFYRCVRLKQVKWKAKKNSLPPES--LFLGQVAWREFFYTAAFNTPYF 311 (531)
T ss_pred hhhccccccchhcCCCccccccceeeccceeEeehhHhHHHHHHHhhhcccCCccc--cccceeeeechhhHhhcCCccc
Confidence 433 2222 34678899999999999999999755555555555555555555 6899999999999999999999
Q ss_pred CCCccccccCCCCCCCChhhHHHHhcCCCCcHHHHHHHHHHHHhcccchHHHHHHHHHHHh-hcCCCchHHHHHHHHhcc
Q 006464 304 HERPLLSNLKYFPWHADLGNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVK-VLLLPWRWGMKYFWDTLL 382 (644)
Q Consensus 304 ~~~~~~~~~~~~~W~~d~~~f~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk-~L~idWr~G~~~F~~~Ll 382 (644)
+++.++..+.+|||+.|+..+++|.+|+||||+|||+||||++||||||+.|++||||+|| +|+|+|++|+++|+++|+
T Consensus 312 ~~m~~n~~~~~ipw~~n~~~~~aw~~G~tG~P~ida~m~~l~~~gw~h~~~R~~vasf~tr~~L~i~w~eg~~~F~~~ll 391 (531)
T KOG0133|consen 312 DDMPGNKILLQIPWDKNPPKLAAWLEGLTGYPWLDAGMRQLLASGWEHHRSRTIVASFLTRGDLLISWREGLDVFMEYLL 391 (531)
T ss_pred cccccccccccCCcccChhhhHHHHcCCCCCCchhHHHHHHHHHHHHhcccchhhHhHhhccceeeeHHHHHHHHHHHhc
Confidence 8888888899999999999999999999999999999999999999999999999999999 899999999999999999
Q ss_pred cccCCCCccchhhhhCCCCCCCCcccccCccccccccCCcchhhhhccccccCCCCCcccCCCCCChhHHHHcCCcCCCC
Q 006464 383 DADLECDILGWQYISGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHHPWDAPPNVLKAAGVELGLN 462 (644)
Q Consensus 383 D~D~a~N~g~Wqw~AG~g~d~~~~~RifNP~~q~~k~Dp~G~yIrrWvPEL~~lp~~~Ih~PW~~p~~~~~~~g~~~g~~ 462 (644)
|+|+.+|.|||||++|+..++.+|+|||||+.+++++||+|.|||+|||||++.|.+|||+||.+|..+|++++|.+|.|
T Consensus 392 D~D~~~~agnW~~~S~~s~f~~~~~~~ysp~~~~kk~dP~g~yir~~lp~l~~~p~~~i~~pW~~p~~~~~~~~~~lg~~ 471 (531)
T KOG0133|consen 392 DADSSKNAGNWMWLSSTSHFFDQFDRVYSPVALGKKLDPDGLYIRQWLPELRSGPMHFIYEPWAAPEGVQTAAGELLGVD 471 (531)
T ss_pred chhhhcCCCccceeccccccccccccccCHHHHhCcCCcchhhHHHHhHHHhcCCcceeccCCCCcHHHhhhhhhhhhcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcCCCChHHHHHHHHHHHHHhHhhHH
Q 006464 463 YPKPIIDLDLGRERLTQAIFKMWEMEA 489 (644)
Q Consensus 463 YP~PIvd~~~ar~~~~~~~~~~~~~~~ 489 (644)
||+|||+++.++++.+++++.|++..+
T Consensus 472 Yp~~iv~~~~a~k~~~e~~~~~~~~~~ 498 (531)
T KOG0133|consen 472 YPKPIVKLASAAKRNMEAMGCMWSIGA 498 (531)
T ss_pred cchhhhhhHHhhHhHHHHHHHHHhhcc
Confidence 999999999999999999999998664
No 7
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=3.3e-86 Score=734.33 Aligned_cols=391 Identities=19% Similarity=0.246 Sum_probs=315.7
Q ss_pred CcEEEEecCCCCCCCCHHHHHHHh-----CCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC
Q 006464 4 NRTIVWFRRDLRIEDNPALAAAAR-----DGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT 78 (644)
Q Consensus 4 ~~~LvWFRrDLRl~DN~AL~~A~~-----~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g 78 (644)
.++|||||||||++||+||++|++ .++|+||||+||..+. .+..+.+||++||.+|+++|+++|++|+|+.|
T Consensus 23 ~~vL~WFRrDLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~---~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g 99 (454)
T TIGR00591 23 GVVVYWMSRDQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLA---ATRRHYFFMLGGLDEVANECERLIIPFHLLDG 99 (454)
T ss_pred CeEEEEecCchhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCccc---ccHHHHHHHHHHHHHHHHHHHHcCCceEEeec
Confidence 358999999999999999999965 3379999999997653 35666779999999999999999999999986
Q ss_pred CchHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHHHH
Q 006464 79 ESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDKCL 158 (644)
Q Consensus 79 ~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~tf~~f~~~~~ 158 (644)
++..+|.+++++++|++|+++.+|++++++||++|++.|++ +|.++++++++|++|+.+.++ .+|++|++|.+...
T Consensus 100 -~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~rd~~v~~~l~~-~i~~~~~~~~~l~p~~~~~~~--~~y~~ft~~~k~~~ 175 (454)
T TIGR00591 100 -PPKELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLLPK-DVPFQQVDAHNVVPCWAASKK--LEYAARTIRGKIRK 175 (454)
T ss_pred -ChHHHHHHHHHHcCCCEEEEecccCcHHHHHHHHHHHHhcC-CCcEEEECCceEeeCcccCCc--eeeeeecHHHHHHH
Confidence 56889999999999999999999999999999999999966 999999999999999888765 46666665555321
Q ss_pred hccCCCCCCCCCccccccCCCCCCCCc------ccCCCCchhhhhhhhccCCCC-CCchhhHHHHHHHHHHHHhhhhhhc
Q 006464 159 QMQMEPASILPPWRLVQAAGTIDGCSI------EDLGLEDESEKSSNALLGRGW-SPGWSNADKVLTEFVEQHLLRYYKN 231 (644)
Q Consensus 159 ~~~~~p~~~~~p~~~~p~~~~~~~~~l------e~l~~~~~~~~~~~~~~~~~~-~gGe~~A~~~L~~Fl~~~l~~Y~~~ 231 (644)
..+. ..+..++....+.+..+...+. +.+++.. ......| +|||.+|+++|++|+++++..|..+
T Consensus 176 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~gGe~aA~~~L~~F~~~~l~~Y~~~ 247 (454)
T TIGR00591 176 LLPE-YLTEFPRVLKHPSPLDLEAGPVDWDAVRDSLAVER-------SVEEVVWAKPGTTAGLIMLESFIEKRLCFFRTR 247 (454)
T ss_pred hChh-hccccCCCccCCcccccccCcCCHHHHHHhccCcC-------CcCCcCCCCCcHHHHHHHHHHHHHHHHHHHHHh
Confidence 1110 0000000000010000000000 0111100 0111237 9999999999999999999999999
Q ss_pred ccCCCCCCCCCCchhhhCCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHH-HHHHHHHHhCCCCCCCcccc
Q 006464 232 RQKLGGNSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLR-EYSRYLCFNFPFTHERPLLS 310 (644)
Q Consensus 232 Rd~~~~~~tS~LSPyL~fG~LS~ReV~~~v~~~~~~~~~~~~~~~~~s~~~fireL~WR-Ef~~~l~~~~P~~~~~~~~~ 310 (644)
||.|+.++||+||||||||+||||+|++++.+.. . ....+++.|++||+|| ||++++++++|.+.. +.+
T Consensus 248 Rn~p~~~~tS~LSPyL~~G~IS~R~i~~~~~~~~------~--~~~~~~~~fl~EL~WR~ef~~~~~~~~p~~~~--~~~ 317 (454)
T TIGR00591 248 RNDPNNDALSMLSPWLHFGQLSAQRAARAVERAR------G--NAGESVEFFEEELVVRRELADNFCFYNPYYDS--LCG 317 (454)
T ss_pred cCCcccccccccchHHhcCcccHHHHHHHHHHhc------c--CCchHHHHHHHHHHHHHHHHhHhhhcCCCccc--ccc
Confidence 9999999999999999999999999999975421 1 1234567899999999 899999999998753 221
Q ss_pred ccCCCCCC--------CCh-h---hHHHHhcCCCCcHHHHHHHHHHHHhcccchHHHHHHHHHHHhhcCCCchHHHHHHH
Q 006464 311 NLKYFPWH--------ADL-G---NFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWGMKYFW 378 (644)
Q Consensus 311 ~~~~~~W~--------~d~-~---~f~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G~~~F~ 378 (644)
...|. .|. + .|++|++|+||||+||||||||++|||||||+||+|| |+| |||++|++||+
T Consensus 318 ---~~~w~~~~l~~~~~d~r~~~~~~~~W~~G~Tg~pivdA~MrqL~~TG~MHNr~RMi~a----K~l-i~W~~g~~~f~ 389 (454)
T TIGR00591 318 ---AYWWARTTLDDHAKDKREHLYSLEQLEKSTTHDYLWNAAQEQLVTEGKMHGFLRMYWA----KKI-LEWTHSPEEAL 389 (454)
T ss_pred ---chHHHHHHHHHHhcCCccccCCHHHHHhcCcCcHhHhHHHHHHHHhCccccceeeeee----eeh-hhcCCCHHHHH
Confidence 12365 443 3 6999999999999999999999999999999999999 888 99999999999
Q ss_pred H--------hcccccCCCCccchhhhhCCCCCCCCc-----c---cccCccccccccCCcchhhhhc
Q 006464 379 D--------TLLDADLECDILGWQYISGSLPDGHEL-----E---RLDSPEIQGSKFDPEGEYVRQW 429 (644)
Q Consensus 379 ~--------~LlD~D~a~N~g~Wqw~AG~g~d~~~~-----~---RifNP~~q~~k~Dp~G~yIrrW 429 (644)
+ +|||||+|+|+|||||+ |+|+|.+|| | |+|||++|++||||+| |||+|
T Consensus 390 ~~~~~ln~~~lvDgd~a~n~~~wqW~-~~G~d~~p~~~~~~fg~iR~~np~~q~~kfd~~~-yi~~~ 454 (454)
T TIGR00591 390 SIAIYLNDKYILDGRDPNGYVGCMWS-ICGIHDQGWAERIVFGKIRYMNYAGCRRKFNVAY-FERKY 454 (454)
T ss_pred HHHHHhhhhhhccCCCCCccceeeeE-eccccCCCCCCCccceeeeecChhhhhccCCHHH-HHhhC
Confidence 9 89999999999999999 999999999 9 9999999999999999 99998
No 8
>PF03441 FAD_binding_7: FAD binding domain of DNA photolyase from Prosite.; InterPro: IPR005101 This entry represents a multi-helical domain composed of two all-alpha subdomains that is found as the C-terminal domain in cryptochrome proteins, as well as at the N-terminal of DNA photolyase where it acts as a FAD-binding domain (the N-terminal of DNA photolyase binds a light-harvesting cofactor). Photolyases and cryptochromes are related flavoproteins that bind FAD. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes (CRY1 and CRY2) are blue light photoreceptors that mediate blue light-induced gene expression [, ]. DNA photolyases are DNA repair enzymes that repair mismatched pyrimidine dimers induced by exposure to ultra-violet light. They bind to UV-damaged DNA containing pyrimidine dimers and, upon absorbing a near-UV photon (300 to 500 nm), they catalyse dimer splitting, breaking the cyclobutane ring joining the two pyrimidines of the dimer so as to split them into the constituent monomers; this process is called photoreactivation. DNA photolyases require two choromophore-cofactors for their activity. All monomers contain a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm [, ].; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 3ZXS_A 1DNP_A 2XRZ_B 2XRY_A 2VTB_A 2J4D_B 2IJG_X 3TVS_A 2E0I_D ....
Probab=100.00 E-value=4.5e-86 Score=687.18 Aligned_cols=272 Identities=43% Similarity=0.744 Sum_probs=244.6
Q ss_pred CchhhHHHHHHHHHHHHhhhhhhcccCCCCCCCCCCchhhhCCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHH
Q 006464 208 PGWSNADKVLTEFVEQHLLRYYKNRQKLGGNSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAM 287 (644)
Q Consensus 208 gGe~~A~~~L~~Fl~~~l~~Y~~~Rd~~~~~~tS~LSPyL~fG~LS~ReV~~~v~~~~~~~~~~~~~~~~~s~~~fireL 287 (644)
|||++|+++|++||+++|..|.+.||.|..++||+|||||+|||||||+|++++.+... .......+++.|++||
T Consensus 1 GGe~~A~~~L~~Fl~~~l~~Y~~~r~~p~~~~~S~LSpyL~~G~lS~r~v~~~~~~~~~-----~~~~~~~~~~~f~~eL 75 (277)
T PF03441_consen 1 GGETAALKRLEEFLKERLADYGEQRDDPAADGTSRLSPYLNFGCLSPREVYRAVKKAQE-----ANDAHSESAEKFIREL 75 (277)
T ss_dssp SSHHHHHHHHHHHHHHCGGGHHHHTT-TTSTTS---HHHHHTTSS-HHHHHHHHHHHHH-----CHTCHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHHhhchhccCCCcCCcCcccHHHhCCCcCHHHHHHHHHHHhh-----hcccccchHHHHHHHH
Confidence 79999999999999999999999999999999999999999999999999999987541 0111236789999999
Q ss_pred HHHHHHHHHHHhCCCCC-CCccccccCCCCCC---CChhhHHHHhcCCCCcHHHHHHHHHHHHhcccchHHHHHHHHHHH
Q 006464 288 GLREYSRYLCFNFPFTH-ERPLLSNLKYFPWH---ADLGNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAV 363 (644)
Q Consensus 288 ~WREf~~~l~~~~P~~~-~~~~~~~~~~~~W~---~d~~~f~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLt 363 (644)
+||||++++++++|.+. ..++.+.++.++|. .+++.|++|++|+|||||||||||||++|||||||+|||||||||
T Consensus 76 ~WRef~~~~~~~~p~~~~~~~~~~~~~~~~w~~~~~~~~~~~~w~~G~TG~p~vDAamrqL~~tG~mHn~~R~~vasfl~ 155 (277)
T PF03441_consen 76 IWREFYRQLLYHNPNLDMFENFNPKFRQIPWEDDRENPELFEAWCEGRTGYPLVDAAMRQLRQTGWMHNRLRMIVASFLT 155 (277)
T ss_dssp HHHHHHHHHHHHSGGCTCSSTSSTTCCCSHCBTSBSTHHHHHHHHTT-SS-HHHHHHHHHHHHHS---HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCcchhhhhccHHHHhhhhcccccCHHHHHHHHcCCCCChHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence 99999999999999987 67888888888995 678899999999999999999999999999999999999999999
Q ss_pred hhcCCCchHHHHHHHHhcccccCCCCccchhhhhCCCCCCCCcccccCccccccccCCcchhhhhccccccCCCCCcccC
Q 006464 364 KVLLLPWRWGMKYFWDTLLDADLECDILGWQYISGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHH 443 (644)
Q Consensus 364 k~L~idWr~G~~~F~~~LlD~D~a~N~g~Wqw~AG~g~d~~~~~RifNP~~q~~k~Dp~G~yIrrWvPEL~~lp~~~Ih~ 443 (644)
|+|+|||++|++||+++|||||+|+|+|||||+||+|+|+.||+|+|||++|+++|||+|+|||||||||+++|.++||+
T Consensus 156 k~l~i~W~~g~~~f~~~liD~d~a~n~~~wqw~ag~g~d~~~~~r~~np~~q~~~~Dp~g~~ir~w~PeL~~~~~~~ih~ 235 (277)
T PF03441_consen 156 KDLLIDWREGAEWFAEHLIDYDPASNYGNWQWAAGTGTDAKPYFRIFNPVKQSKKFDPDGEYIRRWVPELADLPDEYIHE 235 (277)
T ss_dssp HTSHBHHHHHHHHHHHHHTT--HHHHHHHHHHHTTSSSTGCSTTTHHHHHHHHHHHSTTSHHHHHHSGGGTTSTHHHHTS
T ss_pred HhccCCccccHHHHHHHhhccCcchHHHHHHHHHhhccccCccccccCchHHHHhhCcHHHHHHHHHHHHhcCChhheeC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCChhHHHHcCCcCCCCCCcCCCChHHHHHHHHHHHHHh
Q 006464 444 PWDAPPNVLKAAGVELGLNYPKPIIDLDLGRERLTQAIFKM 484 (644)
Q Consensus 444 PW~~p~~~~~~~g~~~g~~YP~PIvd~~~ar~~~~~~~~~~ 484 (644)
||+++..+|+++||.+|.+||+|||||+++|++|+++|+++
T Consensus 236 p~~~~~~~~~~~~~~~~~~YP~pivd~~~~r~~~~~~~~~~ 276 (277)
T PF03441_consen 236 PWKAPPAVQKAAGCVLGNDYPKPIVDHKEARKRALKRYKAA 276 (277)
T ss_dssp CHGSHHHHHHHCT-CTTTSSBTSSSHHHHHHHHHHHHHHHH
T ss_pred hhccChHHHHHhCCccCCCCCcccCCHHHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999876
No 9
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=100.00 E-value=3.3e-34 Score=297.18 Aligned_cols=385 Identities=18% Similarity=0.194 Sum_probs=281.5
Q ss_pred cEEEEecCCCCCCCCHHHHHHHhCCCeEEEEEeCCCccCc-cCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCc--h
Q 006464 5 RTIVWFRRDLRIEDNPALAAAARDGSVFPVYTWCPKEEGQ-FYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTES--T 81 (644)
Q Consensus 5 ~~LvWFRrDLRl~DN~AL~~A~~~~~vlpvfi~dP~~~~~-~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~~--~ 81 (644)
.+++|.--|.-.++++||.. +..-.+|.+.+...+.. ...++....++..+|+++.+.|+..|.++.+.+.++ .
T Consensus 3 ~~~~lvLgdQL~~~~~al~~---d~~~~~vllvE~~~~a~~~r~HkqKl~lv~aAMR~Fad~LraeG~~V~Y~~~~~~~~ 79 (505)
T COG3046 3 SSVVLVLGDQLSEDHSALGD---DRSQDGVLLVESAAEARYRRHHKQKLVLVFAAMRHFADELRAEGLKVRYERADDNSF 79 (505)
T ss_pred ceEEEEeccccccccchhcc---CcccCcEEEehhHhHhhhhhcchhhhHHHHHHHHHHHHHHhhCCceeEEEEcCCccc
Confidence 47899999999999999966 21223344444433221 111222334788999999999999999999887654 3
Q ss_pred HHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCC-eeecCcccccccC-CcccchHHHHHHHHh
Q 006464 82 LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGD-LLYEPWEIYDERG-HAFTTFDAYWDKCLQ 159 (644)
Q Consensus 82 ~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~-~L~~p~~i~~~~g-~~~~tf~~f~~~~~~ 159 (644)
...|...++.++.++|++. +|........++.+.-+.||++..+.+. .|..+.++....| .....++.|++...+
T Consensus 80 ~~~l~~~l~~~~~d~~~~~---~p~~~~l~~~m~~L~~~~g~~i~~~~~~~Fl~s~a~f~~w~~~~k~~lme~FYr~mRk 156 (505)
T COG3046 80 GGELRRALEAYPGDRVQVQ---EPGDHRLEARMKSLSMALGIEITEVENPHFLCSRAEFDAWAGDRKPLLMESFYRRMRK 156 (505)
T ss_pred chHHHHHHHhcCCCeEEEe---cCcchhHHHHHHhhhhhcCceeEEecCcceecCHHHhhhhhccCcchhhHHHHHHHHH
Confidence 4457777888999999987 5777777777888777899999999886 7888888877743 343467888775322
Q ss_pred c---cC---CCCC-----------CCCCccccccCCCCCCCCc-ccC--CCCchhhhhhhhccCCCCCCchhhHHHHHHH
Q 006464 160 M---QM---EPAS-----------ILPPWRLVQAAGTIDGCSI-EDL--GLEDESEKSSNALLGRGWSPGWSNADKVLTE 219 (644)
Q Consensus 160 ~---~~---~p~~-----------~~~p~~~~p~~~~~~~~~l-e~l--~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~ 219 (644)
. .. .|.. .+||.-..|.+..++...+ .+. -++.......+.+.++.|+..+++|+..|++
T Consensus 157 r~g~LM~~dqP~GGrWnFDaeNR~~~~pdL~~P~pl~fppd~~vq~v~e~Ve~~f~~~~G~~e~F~wpvtr~~A~~~L~~ 236 (505)
T COG3046 157 RTGILMEDDQPEGGRWNFDAENRKKLPPDLLPPKPLKFPPDEIVQEVKERVERLFPDNFGQVEGFGWPVTRTQALRALKH 236 (505)
T ss_pred hhceeccCCCCCCCcCCcCcccccCCCCcCCCCCCCCCCCcchhHHHHHHHHhhCCCCCCccccCCCCCCHHHHHHHHHH
Confidence 1 00 1110 1111111111111100000 000 0000001112334456799999999999999
Q ss_pred HHHHHhhhhhhcccCCCC----CCCCCCchhhhCCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHH-HHHHHHHH
Q 006464 220 FVEQHLLRYYKNRQKLGG----NSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRA-MGLREYSR 294 (644)
Q Consensus 220 Fl~~~l~~Y~~~Rd~~~~----~~tS~LSPyL~fG~LS~ReV~~~v~~~~~~~~~~~~~~~~~s~~~fire-L~WREf~~ 294 (644)
||+.+|.+|+.+.|++.. ..+|+|||||+.|.|+|.+|..++.+++ ..+.++.+++++|+|| |+||||++
T Consensus 237 Fi~~~L~nFG~yQDam~~d~~~L~HSllS~alNigLL~PleVi~Aa~~Ay-----~~g~ipLN~VEGFvRQiiGWREfmR 311 (505)
T COG3046 237 FIADRLPNFGSYQDAMSADDPHLWHSLLSFALNIGLLTPLEVIRAALKAY-----REGDIPLNSVEGFVRQIIGWREFMR 311 (505)
T ss_pred HHHHhhhcCCcHHHHHhcCCchhHHHHHHHHhhccCCCHHHHHHHHHHhh-----ccCCCchHHHHHHHHHHhhHHHHHH
Confidence 999999999999998743 4899999999999999999999987764 2356788999999999 69999999
Q ss_pred HHHHhC-CCCCCCccccccCCCCCCCChhhHHHHhcCCCCcHHHHHHHHHHHHhcccchHHHHHHHHHHHhhcCCCchHH
Q 006464 295 YLCFNF-PFTHERPLLSNLKYFPWHADLGNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWG 373 (644)
Q Consensus 295 ~l~~~~-P~~~~~~~~~~~~~~~W~~d~~~f~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G 373 (644)
.+|+.. |.+..+|++++-..+ ....++|+|++.|++-+..+...+||.||+.|.||.+.|+..+++|...-
T Consensus 312 giY~~~~P~y~trN~f~~d~~L--------p~~yw~g~T~M~cl~~av~~v~d~gYAHHIqRLMV~gNfALl~G~dPd~v 383 (505)
T COG3046 312 GIYWLKMPDYATRNFFNADRKL--------PPFYWTGQTKMACLAIAVGRVLDHGYAHHIQRLMVTGNFALLLGVDPDAV 383 (505)
T ss_pred HhhhhcCCchhhhhhhccCCCC--------CCccccCCcCchHHHHHHHHHhhhhHHHHHHHHHHHhhHHHHhCCCHHHH
Confidence 999875 888888877665444 34566799999999999999999999999999999999999999999999
Q ss_pred HHHHHHhccc-ccC---CCCccchhhhhCCCCCCCCccc
Q 006464 374 MKYFWDTLLD-ADL---ECDILGWQYISGSLPDGHELER 408 (644)
Q Consensus 374 ~~~F~~~LlD-~D~---a~N~g~Wqw~AG~g~d~~~~~R 408 (644)
.+||+..+|| ||| ++-+|+-|+..|.....+||.-
T Consensus 384 ~~Wf~~~fiDAYdWV~~PNv~GM~qFADGG~iatKPYas 422 (505)
T COG3046 384 DRWFMEVFIDAYDWVELPNVRGMSQFADGGLIATKPYAS 422 (505)
T ss_pred HHHHHHHHhhHhhheecccccchhhcccCceeecCcccc
Confidence 9999999999 577 5666788888877655677753
No 10
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=100.00 E-value=1.7e-32 Score=264.24 Aligned_cols=156 Identities=35% Similarity=0.589 Sum_probs=131.6
Q ss_pred EEEEecCCCCCCCCHHHHHHHhCC-CeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHHH
Q 006464 6 TIVWFRRDLRIEDNPALAAAARDG-SVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLAA 84 (644)
Q Consensus 6 ~LvWFRrDLRl~DN~AL~~A~~~~-~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~~~~~~ 84 (644)
+|||||||||++||+||++|++.+ +|+||||+||........+..+.+||++||.+|+++|+++|++|+++.| ++.+.
T Consensus 1 ~l~Wfr~DLRl~DN~aL~~A~~~~~~v~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g-~~~~~ 79 (165)
T PF00875_consen 1 VLVWFRRDLRLHDNPALHAAAQNGDPVLPVFVFDPEEFHPYRIGPRRRRFLLESLADLQESLRKLGIPLLVLRG-DPEEV 79 (165)
T ss_dssp EEEEESS--SSTT-HHHHHHHHTTSEEEEEEEE-HHGGTTCSSCHHHHHHHHHHHHHHHHHHHHTTS-EEEEES-SHHHH
T ss_pred CEEEEcCCCchhhhHHHHHHHHcCCCeEEEEEecccccccccCcchHHHHHHHHHHHHHHHHHhcCcceEEEec-chHHH
Confidence 699999999999999999999874 8999999999732211346677789999999999999999999999987 57889
Q ss_pred HHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHHHHhccC
Q 006464 85 LLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDKCLQMQM 162 (644)
Q Consensus 85 L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~tf~~f~~~~~~~~~ 162 (644)
|.+++++++|++|+++.+|+++++.||++|++.|.+.||.++.+++++|++|+.+.+..|.+|++|++|++++++...
T Consensus 80 l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~L~~~~~i~~~~~~~~~vFtpf~k~~~~~~~ 157 (165)
T PF00875_consen 80 LPELAKEYGATAVYFNEEYTPYERRRDERVRKALKKHGIKVHTFDDHTLVPPDDIPKKDGEPYKVFTPFRKKWEKQLL 157 (165)
T ss_dssp HHHHHHHHTESEEEEE---SHHHHHHHHHHHHHHHHTTSEEEEE--SSSS-HHHCHSTTSSSHSSHHHHHHHHHCHCS
T ss_pred HHHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHHhcceEEEEECCcEEEeccccccCCCCCcccHHHHHHHHHhcCC
Confidence 999999999999999999999999999999999999999999999999999999988889999999999999988765
No 11
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=98.10 E-value=2.6e-05 Score=78.96 Aligned_cols=144 Identities=15% Similarity=0.171 Sum_probs=80.5
Q ss_pred EEEecCCCCCCCCHHHHHHHhCCCeEEEEEeCCCccCccCC-chhhHHHHHHHHHHHHHHHHhcCCcEEEEECC------
Q 006464 7 IVWFRRDLRIEDNPALAAAARDGSVFPVYTWCPKEEGQFYP-GRVSRWWLKQSLSYLGQSLKSLGAELVLFKTE------ 79 (644)
Q Consensus 7 LvWFRrDLRl~DN~AL~~A~~~~~vlpvfi~dP~~~~~~~~-~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~------ 79 (644)
|+|.--|.-.+++++|.. .. .-..|++++-..+....+ ++.+..+++.||++..+.|++.|..+.++..+
T Consensus 1 L~lIlgdQL~~~~~~l~~-~~--~~~~v~mvE~~~~~~~~~~HkqKl~l~~saMRhfa~~L~~~G~~V~Y~~~~~~~~~~ 77 (224)
T PF04244_consen 1 LRLILGDQLFEDHPALRD-DP--ADDRVLMVEVPEEFTYVPHHKQKLVLFFSAMRHFADELRAKGFRVHYIELDDPENTQ 77 (224)
T ss_dssp EEE--TT---TT-HHHHT--T--TT-EEEEE--HHHHHSS---HHHHHHHHHHHHHHHHHHHHTT--EEEE-TT-TT--S
T ss_pred CeEeccCCCCCccccccc-CC--CCCEEEEEEchHHhCcCcccHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCCCccccc
Confidence 567777888899999976 22 235566665443322222 34444589999999999999999999999865
Q ss_pred chHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCCe-eecCcccccc-cCCcccchHHHHHH
Q 006464 80 STLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDL-LYEPWEIYDE-RGHAFTTFDAYWDK 156 (644)
Q Consensus 80 ~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~-L~~p~~i~~~-~g~~~~tf~~f~~~ 156 (644)
...+.|.+++++++++.|.+. +|.+...++.++++|++.||++..+.+.. |.++.++.+. .|+....+..||+.
T Consensus 78 s~~~~L~~~~~~~~~~~~~~~---~P~d~~l~~~l~~~~~~~~i~~~~~~~~~Fl~s~~~f~~~~~~~k~~~Me~FYR~ 153 (224)
T PF04244_consen 78 SFEDALARALKQHGIDRLHVM---EPGDYRLEQRLESLAQQLGIPLEVLEDPHFLTSREEFAEWFEGRKRLRMEYFYRE 153 (224)
T ss_dssp SHHHHHHHHHHHH----EEEE-----S-HHHHHHHHH----SSS-EEEE--TTSSS-HHHHHHHHTT-SS--HHHHHHH
T ss_pred cHHHHHHHHHHHcCCCEEEEE---CCCCHHHHHHHHhhhcccCCceEEeCCCCccCCHHHHHHHHccCCceeHHHHHHH
Confidence 235678888999999999887 79999999999999999999999999874 5556666655 34333345555543
No 12
>PF12546 Cryptochrome_C: Blue/Ultraviolet sensing protein C terminal; InterPro: IPR020978 Cryptochromes are blue/ultraviolet-A light sensing photoreceptors involved in regulating various growth and developmental responses in plants []. This signature is found in eukaryotic proteins at the C-terminal end and are typically between 113 and 125 amino acids in length. The family is found in association with PF03441 from PFAM and PF00875 from PFAM.
Probab=92.52 E-value=0.055 Score=49.31 Aligned_cols=32 Identities=22% Similarity=0.215 Sum_probs=21.8
Q ss_pred CCCcccccccCCCC-CCCCCCCCCCCcccCCCC
Q 006464 513 PAIPQVVLREKSTC-PTISSNDQKVPSFQNGKN 544 (644)
Q Consensus 513 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 544 (644)
|++.+..++.+.|. .++++.|||||+|+++-.
T Consensus 11 MEv~repvr~n~~~~~~Rr~~DQMVPsmTsSl~ 43 (121)
T PF12546_consen 11 MEVDREPVRNNPPATITRRYEDQMVPSMTSSLI 43 (121)
T ss_pred cccccccccCCCCccccccccccccccccHHHH
Confidence 44444456555533 459999999999986654
No 13
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=85.70 E-value=11 Score=38.21 Aligned_cols=99 Identities=21% Similarity=0.226 Sum_probs=64.2
Q ss_pred CHHHHHHHhCC-CeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCc----hHHHHHHHHHHcC
Q 006464 19 NPALAAAARDG-SVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTES----TLAALLECISAIK 93 (644)
Q Consensus 19 N~AL~~A~~~~-~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~~----~~~~L~~l~~~~~ 93 (644)
+-||+.|.+.| .|..+.++-|.....+..+..+.. -....-+..|++++...... -++.|.++++..+
T Consensus 14 ~~Al~~a~~~G~eV~~Ll~~~p~~~dS~m~H~~n~~-------~~~~~Ae~~gi~l~~~~~~g~~e~eve~L~~~l~~l~ 86 (223)
T COG2102 14 FYALYLALEEGHEVVYLLTVKPENGDSYMFHTPNLE-------LAELQAEAMGIPLVTFDTSGEEEREVEELKEALRRLK 86 (223)
T ss_pred HHHHHHHHHcCCeeEEEEEEecCCCCeeeeeccchH-------HHHHHHHhcCCceEEEecCccchhhHHHHHHHHHhCc
Confidence 67889999888 688888888765432222222321 12333356799988775432 4667777888888
Q ss_pred CcEEEEecccCchhHHHHHHHHHHhhhcCcEEEE
Q 006464 94 ATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (644)
Q Consensus 94 ~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (644)
++.|+.-. .++...-..+..+|.+.|+.+..
T Consensus 87 ~d~iv~Ga---I~s~yqk~rve~lc~~lGl~~~~ 117 (223)
T COG2102 87 VDGIVAGA---IASEYQKERVERLCEELGLKVYA 117 (223)
T ss_pred ccEEEEch---hhhHHHHHHHHHHHHHhCCEEee
Confidence 88888763 33332333588889999988765
No 14
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=83.93 E-value=18 Score=36.77 Aligned_cols=98 Identities=15% Similarity=0.221 Sum_probs=62.0
Q ss_pred HHHHHHHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC----CchHHHHHHHHHHcCCc
Q 006464 20 PALAAAARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT----ESTLAALLECISAIKAT 95 (644)
Q Consensus 20 ~AL~~A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g----~~~~~~L~~l~~~~~~~ 95 (644)
-||+.|.+...|..++..-|.....+. |-...+..++..-+++|++|+.... ++....+.+.+++.+++
T Consensus 15 lAl~~~~~~~~V~~L~~~~~~~~~s~~-------~h~~~~~~~~~qA~algiPl~~~~~~~~~e~~~~~l~~~l~~~gv~ 87 (222)
T TIGR00289 15 LALYKALEEHEVISLVGVFSENEESYM-------FHSPNLHLTDLVAEAVGIPLIKLYTSGEEEKEVEDLAGQLGELDVE 87 (222)
T ss_pred HHHHHHHHcCeeEEEEEEcCCCCCccc-------cccCCHHHHHHHHHHcCCCeEEEEcCCchhHHHHHHHHHHHHcCCC
Confidence 466667655557788887775322111 2123445556677888999987653 22455666777788999
Q ss_pred EEEEecccCchhHHHHHHHHHHhhhcCcEEEE
Q 006464 96 KVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (644)
Q Consensus 96 ~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (644)
.|++-.-... .+|. .+...|.+.|+....
T Consensus 88 ~vv~GdI~s~--~qr~-~~e~vc~~~gl~~~~ 116 (222)
T TIGR00289 88 ALCIGAIESN--YQKS-RIDKVCRELGLKSIA 116 (222)
T ss_pred EEEECccccH--HHHH-HHHHHHHHcCCEEec
Confidence 9998743322 2333 477888888988764
No 15
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=75.56 E-value=41 Score=34.25 Aligned_cols=99 Identities=21% Similarity=0.298 Sum_probs=59.3
Q ss_pred CHHHHHHHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC----CchHHHHHHHHHHcCC
Q 006464 19 NPALAAAARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT----ESTLAALLECISAIKA 94 (644)
Q Consensus 19 N~AL~~A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g----~~~~~~L~~l~~~~~~ 94 (644)
+-||+.|.+.-.|..+..+-|.....+..+.. .+.-++.+-+.+|++|+.+.. ++..+.|.+++++.|+
T Consensus 14 ~~al~~a~~~~~v~~L~t~~~~~~~s~~~H~~-------~~~~~~~qA~algipl~~~~~~~~~e~~~e~l~~~l~~~gv 86 (223)
T TIGR00290 14 CLALYHALKEHEVISLVNIMPENEESYMFHGV-------NAHLTDLQAESIGIPLIKLYTEGTEEDEVEELKGILHTLDV 86 (223)
T ss_pred HHHHHHHHHhCeeEEEEEEecCCCCccccccc-------CHHHHHHHHHHcCCCeEEeecCCCccHHHHHHHHHHHHcCC
Confidence 45777887653466776666643221111111 223334455678999976442 2345667777888899
Q ss_pred cEEEEecccCchhHHHHHHHHHHhhhcCcEEEE
Q 006464 95 TKVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (644)
Q Consensus 95 ~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (644)
+.|++-.-..-+ +|. .+...|.+.|+....
T Consensus 87 ~~vv~GdI~s~~--qr~-~~e~v~~~lgl~~~~ 116 (223)
T TIGR00290 87 EAVVFGAIYSEY--QKT-RIERVCRELGLKSFA 116 (223)
T ss_pred CEEEECCcccHH--HHH-HHHHHHHhcCCEEec
Confidence 999987433222 333 467788888888754
No 16
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=71.85 E-value=17 Score=36.76 Aligned_cols=98 Identities=24% Similarity=0.310 Sum_probs=51.9
Q ss_pred HHHHHHHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC----CchHHHHHHHHHHcCCc
Q 006464 20 PALAAAARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT----ESTLAALLECISAIKAT 95 (644)
Q Consensus 20 ~AL~~A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g----~~~~~~L~~l~~~~~~~ 95 (644)
-||+.|.+.-.|..+..+-|.....+..+..+. .-+..+-+.+|++|+.... ++..+.|.+.+++.+++
T Consensus 15 lAl~~a~~~~~v~~L~t~~~~~~~s~~~H~~~~-------~~~~~qA~algipl~~~~~~g~~~~~~~~l~~~l~~~~v~ 87 (218)
T PF01902_consen 15 LALYRALRQHEVVCLLTMVPEEEDSYMFHGVNI-------ELIEAQAEALGIPLIEIPTSGDEEDYVEDLKEALKELKVE 87 (218)
T ss_dssp HHHHHHHHT-EEEEEEEEEESTTT-SSS-STTG-------TCHHHHHHHHT--EEEEEE---CCCHHHHHHHHHCTC--S
T ss_pred HHHHHHHHhCCccEEEEeccCCCCcccccccCH-------HHHHHHHHHCCCCEEEEEccCccchhhHHHHHHHHHcCCC
Confidence 477888776446666666554332211122221 1224444667999987653 23456777888888999
Q ss_pred EEEEecccCchhHHHHHHHHHHhhhcCcEEEE
Q 006464 96 KVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (644)
Q Consensus 96 ~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (644)
.|++-.-. .+..|. .+.+.|.+.|++...
T Consensus 88 ~vv~GdI~--~~~~r~-~~e~vc~~lGl~~~~ 116 (218)
T PF01902_consen 88 AVVFGDID--SEYQRN-WVERVCERLGLEAVF 116 (218)
T ss_dssp EEE--TTS---HHHHH-HHHHHHHHCT-EEE-
T ss_pred EEEECcCC--cHHHHH-HHHHHHHHcCCEEEe
Confidence 99886332 233444 478888888988764
No 17
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=69.95 E-value=67 Score=31.83 Aligned_cols=97 Identities=19% Similarity=0.311 Sum_probs=56.3
Q ss_pred HHHHHHhCC-CeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECC----chHHHHHHHHHHc---
Q 006464 21 ALAAAARDG-SVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTE----STLAALLECISAI--- 92 (644)
Q Consensus 21 AL~~A~~~~-~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~----~~~~~L~~l~~~~--- 92 (644)
+|+.|.+.| .|++|++..|...... +|-...+..++..-+++|++++++..+ +....+.+.+++.
T Consensus 15 al~~a~~~G~~v~~l~~~~~~~~~~~-------~~h~~~~e~~~~~A~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~ 87 (194)
T cd01994 15 ALYRALEEGHEVVALLNLTPEEGSSM-------MYHTVNHELLELQAEAMGIPLIRIEISGEEEDEVEDLKELLRKLKEE 87 (194)
T ss_pred HHHHHHHcCCEEEEEEEEecCCCCcc-------cccccCHHHHHHHHHHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHc
Confidence 455566666 5888888876432211 111124455566678899999987521 2233343333322
Q ss_pred CCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEE
Q 006464 93 KATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (644)
Q Consensus 93 ~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (644)
+++.|++=...+- .+|. .+.+.|.+.|+....
T Consensus 88 g~~~vv~G~i~sd--~~~~-~~e~~~~~~gl~~~~ 119 (194)
T cd01994 88 GVDAVVFGAILSE--YQRT-RVERVCERLGLEPLA 119 (194)
T ss_pred CCCEEEECccccH--HHHH-HHHHHHHHcCCEEEe
Confidence 6888877643332 3333 477788888988765
No 18
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=61.79 E-value=66 Score=28.26 Aligned_cols=51 Identities=27% Similarity=0.348 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHhcCCcEEEE---E----------CCchHHHHHHHHHHcCCcEEEEecccCch
Q 006464 56 KQSLSYLGQSLKSLGAELVLF---K----------TESTLAALLECISAIKATKVVFNHLYDPV 106 (644)
Q Consensus 56 lesL~dL~~~L~~lG~~L~v~---~----------g~~~~~~L~~l~~~~~~~~V~~~~~y~p~ 106 (644)
-++|.+|..-.+..|...+-. + |..-++.|.+++++.+++.|+++++-+|.
T Consensus 7 ~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~Lsp~ 70 (95)
T PF13167_consen 7 EESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNELSPS 70 (95)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCCCCHH
Confidence 478899998889999865421 1 22346778888999999999999887775
No 19
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=60.22 E-value=1.1e+02 Score=26.79 Aligned_cols=83 Identities=14% Similarity=0.121 Sum_probs=49.8
Q ss_pred HHHHHHHh-----CCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEE--ECCchHHHHHHHHHHc
Q 006464 20 PALAAAAR-----DGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLF--KTESTLAALLECISAI 92 (644)
Q Consensus 20 ~AL~~A~~-----~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~--~g~~~~~~L~~l~~~~ 92 (644)
.+|..|.. .+.+..++++++..............-..+.+..+.+.+++.|++.... .++++.+.|.++++++
T Consensus 14 ~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~~~a~~~ 93 (132)
T cd01988 14 DLLELAAALARAQNGEIIPLNVIEVPNHSSPSQLEVNVQRARKLLRQAERIAASLGVPVHTIIRIDHDIASGILRTAKER 93 (132)
T ss_pred HHHHHHHHHhhcCCCeEEEEEEEecCCCCCcchhHHHHHHHHHHHHHHHHHhhhcCCceEEEEEecCCHHHHHHHHHHhc
Confidence 45655532 2368888888764211000001111234466677777777888875533 3456677888999999
Q ss_pred CCcEEEEecc
Q 006464 93 KATKVVFNHL 102 (644)
Q Consensus 93 ~~~~V~~~~~ 102 (644)
+++-|++-..
T Consensus 94 ~~dlIV~G~~ 103 (132)
T cd01988 94 QADLIIMGWH 103 (132)
T ss_pred CCCEEEEecC
Confidence 9998887643
No 20
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=59.67 E-value=1.5e+02 Score=29.91 Aligned_cols=97 Identities=21% Similarity=0.242 Sum_probs=52.1
Q ss_pred HHHHHHhCC-CeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECC----chHHHHHHHH---HHc
Q 006464 21 ALAAAARDG-SVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTE----STLAALLECI---SAI 92 (644)
Q Consensus 21 AL~~A~~~~-~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~----~~~~~L~~l~---~~~ 92 (644)
+|+.|.+.| .|.+++++.+.....+..+. ..+..++..-+.+|++++++... ...+.|...+ ++.
T Consensus 13 al~~a~~~G~~v~~l~~~~~~~~~~~~~~~-------~~~~~~~~~A~~lgip~~~i~~~~~~~~~~~~l~~~l~~~~~~ 85 (218)
T TIGR03679 13 ALYKALEEGHEVRCLITVVPENEESYMFHT-------PNIELTRLQAEALGIPLVKIETSGEKEKEVEDLKGALKELKRE 85 (218)
T ss_pred HHHHHHHcCCEEEEEEEeccCCCCccccCC-------CCHHHHHHHHHHhCCCEEEEECCCCChHHHHHHHHHHHHHHHc
Confidence 455566666 46667666654211111011 13344555667789999887643 1222333322 223
Q ss_pred CCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEE
Q 006464 93 KATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (644)
Q Consensus 93 ~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (644)
|++.|++-.-.+.+ .+..+.+.|.+.|+++..
T Consensus 86 g~~~vv~G~i~sd~---~~~~~e~v~~~~gl~~~~ 117 (218)
T TIGR03679 86 GVEGIVTGAIASRY---QKSRIERICEELGLKVFA 117 (218)
T ss_pred CCCEEEECCcccHh---HHHHHHHHHHhCCCeEEe
Confidence 89988876433322 234466777777877654
No 21
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=57.26 E-value=1.5e+02 Score=26.86 Aligned_cols=85 Identities=18% Similarity=0.097 Sum_probs=48.0
Q ss_pred CCCHHHHHHHh-----CCCeEEEEEeCCCccCccCCc------hhh---HHHHHHHHHHHHHHHHhcCCc--EEEEECCc
Q 006464 17 EDNPALAAAAR-----DGSVFPVYTWCPKEEGQFYPG------RVS---RWWLKQSLSYLGQSLKSLGAE--LVLFKTES 80 (644)
Q Consensus 17 ~DN~AL~~A~~-----~~~vlpvfi~dP~~~~~~~~~------~~~---r~FLlesL~dL~~~L~~lG~~--L~v~~g~~ 80 (644)
+-..||..|++ .+++.-|+|.+|........+ ... ..-..+-|..+.+.++..|.+ ..+..+++
T Consensus 11 ~s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~g~~ 90 (146)
T cd01989 11 KSKNALKWALDNLATKGQTIVLVHVHPPITSIPSSSGKLEVASAYKQEEDKEAKELLLPYRCFCSRKGVQCEDVVLEDDD 90 (146)
T ss_pred ccHHHHHHHHHhccCCCCcEEEEEeccCcccCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCeEEEEEEeCCc
Confidence 34467776653 236888888876422111111 000 011233444445555556654 34445556
Q ss_pred hHHHHHHHHHHcCCcEEEEec
Q 006464 81 TLAALLECISAIKATKVVFNH 101 (644)
Q Consensus 81 ~~~~L~~l~~~~~~~~V~~~~ 101 (644)
+.+.|.+.+++++++.|+.-.
T Consensus 91 ~~~~I~~~a~~~~~dlIV~Gs 111 (146)
T cd01989 91 VAKAIVEYVADHGITKLVMGA 111 (146)
T ss_pred HHHHHHHHHHHcCCCEEEEec
Confidence 778899999999999888763
No 22
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=50.34 E-value=63 Score=27.99 Aligned_cols=69 Identities=19% Similarity=0.111 Sum_probs=45.2
Q ss_pred HHHHHHHHHhcCCcEEEE--ECCchHH--HHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCC
Q 006464 59 LSYLGQSLKSLGAELVLF--KTESTLA--ALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGD 131 (644)
Q Consensus 59 L~dL~~~L~~lG~~L~v~--~g~~~~~--~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~ 131 (644)
...+.+.+++.|..+.+. .++.... .|...++ .++.|++-.+ ..+..--..+++.|++.|+++....+.
T Consensus 12 ~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~--~aD~VIv~t~--~vsH~~~~~vk~~akk~~ip~~~~~~~ 84 (97)
T PF10087_consen 12 ERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIK--KADLVIVFTD--YVSHNAMWKVKKAAKKYGIPIIYSRSR 84 (97)
T ss_pred HHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcC--CCCEEEEEeC--CcChHHHHHHHHHHHHcCCcEEEECCC
Confidence 456788889999999988 2222222 2544443 4677776643 344444456899999999999877543
No 23
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=50.23 E-value=1.8e+02 Score=25.55 Aligned_cols=78 Identities=21% Similarity=0.270 Sum_probs=49.6
Q ss_pred CCHHHHHHHh-----CCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHHHHHHHHHHc
Q 006464 18 DNPALAAAAR-----DGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLAALLECISAI 92 (644)
Q Consensus 18 DN~AL~~A~~-----~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~~~~~~L~~l~~~~ 92 (644)
...+|..|+. ...+.-|+|.++.... ..... .+-|..+.+.+++.|....++.++++...|.+.++++
T Consensus 12 s~~al~~a~~la~~~~~~l~ll~v~~~~~~~--~~~~~-----~~~l~~~~~~~~~~~~~~~~~~~~~~~~~I~~~~~~~ 84 (124)
T cd01987 12 AERLIRRAARLADRLKAPWYVVYVETPRLNR--LSEAE-----RRRLAEALRLAEELGAEVVTLPGDDVAEAIVEFAREH 84 (124)
T ss_pred hHHHHHHHHHHHHHhCCCEEEEEEecCcccc--CCHHH-----HHHHHHHHHHHHHcCCEEEEEeCCcHHHHHHHHHHHc
Confidence 4456655532 3468888888764210 11111 1334555566667788776666666778899999999
Q ss_pred CCcEEEEecc
Q 006464 93 KATKVVFNHL 102 (644)
Q Consensus 93 ~~~~V~~~~~ 102 (644)
+++.|+.-..
T Consensus 85 ~~dllviG~~ 94 (124)
T cd01987 85 NVTQIVVGKS 94 (124)
T ss_pred CCCEEEeCCC
Confidence 9999887643
No 24
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=49.57 E-value=54 Score=33.92 Aligned_cols=56 Identities=18% Similarity=0.126 Sum_probs=44.0
Q ss_pred cEEEEECCc-hHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEc
Q 006464 72 ELVLFKTES-TLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (644)
Q Consensus 72 ~L~v~~g~~-~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (644)
.+.++.|.- ..+.+.+++++.+++.|+=. .-|++...-+.+.++|++.||++..|.
T Consensus 44 ~~~v~~G~lg~~~~l~~~l~~~~i~~vIDA--THPfA~~is~na~~a~~~~~ipylR~e 100 (249)
T PF02571_consen 44 GLEVRVGRLGDEEGLAEFLRENGIDAVIDA--THPFAAEISQNAIEACRELGIPYLRFE 100 (249)
T ss_pred CceEEECCCCCHHHHHHHHHhCCCcEEEEC--CCchHHHHHHHHHHHHhhcCcceEEEE
Confidence 344555543 57789999999999977622 249999999999999999999998874
No 25
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=47.06 E-value=59 Score=36.16 Aligned_cols=68 Identities=21% Similarity=0.197 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHhcCCcEEEEEC-CchHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEE
Q 006464 57 QSLSYLGQSLKSLGAELVLFKT-ESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSY 128 (644)
Q Consensus 57 esL~dL~~~L~~lG~~L~v~~g-~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (644)
+=|..+.+++.++|+.+++... .+.-..+.+++.+.+.+.|+..+....++.. +.+.|++.|+++.+-
T Consensus 65 ~~l~~~~~~v~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKSmvseEIg----ln~~Le~~G~ev~ET 133 (459)
T COG1139 65 EYLEQLEENVTRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKSMVSEEIG----LNHYLEEKGIEVWET 133 (459)
T ss_pred HHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecchhHHHhh----hHHHHHHcCCeEEEc
Confidence 4455677888899999998764 2345567888899999999999765444443 677888889999864
No 26
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=44.47 E-value=2.1e+02 Score=31.25 Aligned_cols=96 Identities=14% Similarity=0.101 Sum_probs=55.9
Q ss_pred CeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHh------cCCcEEE--EEC-------CchHHHHHHHHHHcCC
Q 006464 30 SVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKS------LGAELVL--FKT-------ESTLAALLECISAIKA 94 (644)
Q Consensus 30 ~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~------lG~~L~v--~~g-------~~~~~~L~~l~~~~~~ 94 (644)
.+.-|+|.++.... ........--.+-+..+.+.+++ .|++... ..+ +++.+.|.+.++++++
T Consensus 37 eL~lL~Vv~~~~~~--~~~~~~~~~~eelle~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~a 114 (357)
T PRK12652 37 TVHLVAAASGRAVD--PEGQDELAAAEELLERVEVWATEDLGDDASSVTIETALLGTDEYLFGPGDYAEVLIAYAEEHGI 114 (357)
T ss_pred EEEEEEEecCcccc--cchhHHHHHHHHHHHHHHHHHHHhhhcccCCCceEEEEEeccccccCCCCHHHHHHHHHHHcCC
Confidence 67888888764211 11110000111234444444443 4776443 221 4678889999999999
Q ss_pred cEEEEecccCchhH-HHHHHHHHHhhhcCcEEEE
Q 006464 95 TKVVFNHLYDPVSL-VRDHSIKEKLVELGISVQS 127 (644)
Q Consensus 95 ~~V~~~~~y~p~~~-~rD~~V~~~l~~~gV~v~~ 127 (644)
+.|+...+|.|... ..-+-+...+.+.|+.+..
T Consensus 115 DLIVm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 (357)
T PRK12652 115 DRVVLDPEYNPGGTAPMLQPLERELARAGITYEE 148 (357)
T ss_pred CEEEECCCCCCCCCCcccchHHHHHHhcCCceec
Confidence 99999999988653 2222355556667777764
No 27
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=44.42 E-value=93 Score=32.18 Aligned_cols=47 Identities=13% Similarity=0.100 Sum_probs=39.2
Q ss_pred hHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEc
Q 006464 81 TLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (644)
Q Consensus 81 ~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (644)
..+.+.+++++.+++.|+ +. .-|++..--+.+.++|++.||++..|.
T Consensus 53 ~~~~l~~~l~~~~i~~VI-DA-THPfA~~is~~a~~ac~~~~ipyiR~e 99 (248)
T PRK08057 53 GAEGLAAYLREEGIDLVI-DA-THPYAAQISANAAAACRALGIPYLRLE 99 (248)
T ss_pred CHHHHHHHHHHCCCCEEE-EC-CCccHHHHHHHHHHHHHHhCCcEEEEe
Confidence 467899999999999765 32 249999888899999999999998885
No 28
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=42.16 E-value=1.4e+02 Score=28.27 Aligned_cols=77 Identities=16% Similarity=0.245 Sum_probs=47.3
Q ss_pred HHHHHHHHH----HhcCCcEEEEECCchHHHHHHHHHHc--CCcEEEEecc-cCchhHHHHHHHHHHhhhcCcEEEEEcC
Q 006464 58 SLSYLGQSL----KSLGAELVLFKTESTLAALLECISAI--KATKVVFNHL-YDPVSLVRDHSIKEKLVELGISVQSYNG 130 (644)
Q Consensus 58 sL~dL~~~L----~~lG~~L~v~~g~~~~~~L~~l~~~~--~~~~V~~~~~-y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (644)
+|.++.+.| +++|..+.++..+ ..-.|.+.+++. .++.|+.|-- |+-++. +++++++..++++.+++-
T Consensus 25 tl~di~~~~~~~a~~~g~~v~~~QSN-~EGelId~i~~a~~~~dgiIINpga~THtSi----Al~DAl~~~~~P~vEVHi 99 (141)
T TIGR01088 25 TLEEIVEIIETFAAQLNVELEFFQSN-SEGQLIDKIHEAEGQYDGIIINPGALTHTSV----ALRDALAAVSLPVVEVHL 99 (141)
T ss_pred CHHHHHHHHHHHHHHcCCEEEEEeeC-cHHHHHHHHHhccccCCEEEEcChHHhhhHH----HHHHHHHcCCCCEEEEEc
Confidence 444444444 4468999998764 455666666553 3577888832 222222 366667778999999876
Q ss_pred CeeecCccc
Q 006464 131 DLLYEPWEI 139 (644)
Q Consensus 131 ~~L~~p~~i 139 (644)
..++..+++
T Consensus 100 SNi~aRE~f 108 (141)
T TIGR01088 100 SNVHAREEF 108 (141)
T ss_pred CCccccccc
Confidence 666654333
No 29
>COG0656 ARA1 Aldo/keto reductases, related to diketogulonate reductase [General function prediction only]
Probab=41.76 E-value=1e+02 Score=32.55 Aligned_cols=71 Identities=28% Similarity=0.295 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHhcCC---cEEEEECC---------chHHHHHHHHHHcCCcE----------------------EEEecc
Q 006464 57 QSLSYLGQSLKSLGA---ELVLFKTE---------STLAALLECISAIKATK----------------------VVFNHL 102 (644)
Q Consensus 57 esL~dL~~~L~~lG~---~L~v~~g~---------~~~~~L~~l~~~~~~~~----------------------V~~~~~ 102 (644)
+.+..++++|+++|. .|++++-. ++..+|.++.++-.+.. ++-.-+
T Consensus 86 ~~~~a~e~Sl~rLg~dyvDLyLiHwP~~~~~~~~~etw~alE~l~~~G~ir~IGVSNF~~~~L~~l~~~~~~~p~~NQIe 165 (280)
T COG0656 86 ETLKALEASLKRLGLDYVDLYLIHWPVPNKYVVIEETWKALEELVDEGLIRAIGVSNFGVEHLEELLSLAKVKPAVNQIE 165 (280)
T ss_pred hHHHHHHHHHHHhCCCceeEEEECCCCCccCccHHHHHHHHHHHHhcCCccEEEeeCCCHHHHHHHHHhcCCCCceEEEE
Confidence 566778889999996 57777643 23334444433322222 222234
Q ss_pred cCchhHHHHHHHHHHhhhcCcEEEEEc
Q 006464 103 YDPVSLVRDHSIKEKLVELGISVQSYN 129 (644)
Q Consensus 103 y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (644)
|.|+..+.+ +..+|+++||.+..+.
T Consensus 166 ~hp~~~q~e--l~~~~~~~gI~v~Ays 190 (280)
T COG0656 166 YHPYLRQPE--LLPFCQRHGIAVEAYS 190 (280)
T ss_pred eccCCCcHH--HHHHHHHcCCEEEEEC
Confidence 556655554 8889999999988874
No 30
>PF08218 Citrate_ly_lig: Citrate lyase ligase C-terminal domain; InterPro: IPR013166 [Citrate (pro-3S)-lyase] ligase (6.2.1.22 from EC), also known as citrate lyase ligase, is responsible for acetylation of the prosthetic group (2-(5''-phosphoribosyl)-3'-dephosphocoenzyme-A) of the gamma subunit of citrate lyase. It converts the inactive thiol form of the enzyme to the active form. In Clostridium sphenoides, citrate lyase ligase actively degrades citrate. In Clostridium sporosphaeroides and Lactococcus lactis, however, the enzyme is under stringent regulatory control. The enzyme's activity in anaerobic bacteria is modulated by phosphorylation and dephosphorylation []. The proteins in this entry represent the C-terminal domain of citrate lyase ligase.; GO: 0008771 [citrate (pro-3S)-lyase] ligase activity
Probab=40.83 E-value=1.1e+02 Score=30.05 Aligned_cols=106 Identities=19% Similarity=0.244 Sum_probs=64.5
Q ss_pred HHH-HHHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC---------Cch---------
Q 006464 21 ALA-AAARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT---------EST--------- 81 (644)
Q Consensus 21 AL~-~A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g---------~~~--------- 81 (644)
-|. .|++....+-|||+.... ...+-..|...+.++.+||..=.=--|++.+|-.+ ...
T Consensus 17 yLiE~Aa~~~d~l~vFVV~eD~--S~Fpf~~R~~LVk~G~~~L~NV~V~~~g~YiIS~aTFPsYFlK~~~~~~~~~~~lD 94 (182)
T PF08218_consen 17 YLIEQAAKECDWLHVFVVSEDR--SLFPFADRYELVKEGTADLPNVTVHPGGDYIISSATFPSYFLKDEDDVIKAQAELD 94 (182)
T ss_pred HHHHHHHHhCCEEEEEEEcccc--CcCCHHHHHHHHHHHhCcCCCEEEEcCCCeeeecccChhhhccchhHHHHHHHHHH
Confidence 443 466666788899986543 33455555557888988886433233444444221 000
Q ss_pred HHHHHH-HHHHcCCcEEEEecc-cCchhHHHHHHHHHHhhhcCcEEEEE
Q 006464 82 LAALLE-CISAIKATKVVFNHL-YDPVSLVRDHSIKEKLVELGISVQSY 128 (644)
Q Consensus 82 ~~~L~~-l~~~~~~~~V~~~~~-y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (644)
...+.+ ++.+.||++-+.-.+ +++....=-+.+++++...||++...
T Consensus 95 ~~iF~~~IAp~L~It~RfVG~EP~~~vT~~YN~~M~~~Lp~~gi~v~ei 143 (182)
T PF08218_consen 95 ATIFKKYIAPALGITKRFVGEEPFSPVTRIYNEAMKEILPPYGIEVVEI 143 (182)
T ss_pred HHHHHHHhhHhcCcccceeCCCCCCHHHHHHHHHHHHhccccCCEEEEE
Confidence 111222 455678887666543 45666666778999999999999876
No 31
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=38.98 E-value=4.7e+02 Score=31.80 Aligned_cols=106 Identities=21% Similarity=0.132 Sum_probs=63.6
Q ss_pred CCHHHHHH-Hh-----CCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHHHHHHHHHH
Q 006464 18 DNPALAAA-AR-----DGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLAALLECISA 91 (644)
Q Consensus 18 DN~AL~~A-~~-----~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~~~~~~L~~l~~~ 91 (644)
.|..|... ++ .++...|||-.|+... .....+.-| .....|.+ ++|....++.+++....|.+++++
T Consensus 260 ~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~---~~~~~~~~l-~~~~~Lae---~lGae~~~l~~~dv~~~i~~ya~~ 332 (890)
T COG2205 260 GSEKLIRRAARLASRLHAKWTAVYVETPELHR---LSEKEARRL-HENLRLAE---ELGAEIVTLYGGDVAKAIARYARE 332 (890)
T ss_pred chHHHHHHHHHHHHHhCCCeEEEEEecccccc---ccHHHHHHH-HHHHHHHH---HhCCeEEEEeCCcHHHHHHHHHHH
Confidence 36666543 22 4578899998886422 111222223 33334444 459999999988888899999999
Q ss_pred cCCcEEEEecccCchhHHH-HHHHH-HHh-hhcCcEEEEEcC
Q 006464 92 IKATKVVFNHLYDPVSLVR-DHSIK-EKL-VELGISVQSYNG 130 (644)
Q Consensus 92 ~~~~~V~~~~~y~p~~~~r-D~~V~-~~l-~~~gV~v~~~~~ 130 (644)
+++++|+.-+.-......+ ...+. +++ ...+|.++....
T Consensus 333 ~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~ 374 (890)
T COG2205 333 HNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVAL 374 (890)
T ss_pred cCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeC
Confidence 9999999876433222211 12233 222 235677776643
No 32
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=38.84 E-value=1.9e+02 Score=27.49 Aligned_cols=67 Identities=16% Similarity=0.210 Sum_probs=42.5
Q ss_pred HHhcCCcEEEEECCchHHHHHHHHHHc--CCcEEEEecccCchhHH-HHHHHHHHhhhcCcEEEEEcCCeeecCc
Q 006464 66 LKSLGAELVLFKTESTLAALLECISAI--KATKVVFNHLYDPVSLV-RDHSIKEKLVELGISVQSYNGDLLYEPW 137 (644)
Q Consensus 66 L~~lG~~L~v~~g~~~~~~L~~l~~~~--~~~~V~~~~~y~p~~~~-rD~~V~~~l~~~gV~v~~~~~~~L~~p~ 137 (644)
-+++|..|.++..+ ..-.|.+.+++. +++.|+.|- -++. ---+++++++..++++.+++-..++..+
T Consensus 39 a~~~g~~~~~~QSN-~EGelId~i~~a~~~~dgiIINp----ga~THtSiAl~DAl~~~~~P~VEVHiSNi~aRE 108 (146)
T PRK13015 39 AEALGLEVEFRQSN-HEGELIDWIHEARGDVAGIVINP----GAYTHTSVAIRDALAALELPVIEVHISNVHARE 108 (146)
T ss_pred HHHcCCEEEEEeeC-cHHHHHHHHHHhhhcCCEEEEcc----hHHhhhHHHHHHHHHcCCCCEEEEEcCCccccc
Confidence 34568999998763 345566666543 467888883 2221 1224666677789999998766666443
No 33
>TIGR00268 conserved hypothetical protein TIGR00268. The N-terminal region of the model shows similarity to Argininosuccinate synthase proteins using PSI-blast and using the recognize protein identification server.
Probab=38.59 E-value=1.7e+02 Score=30.12 Aligned_cols=73 Identities=14% Similarity=0.023 Sum_probs=45.2
Q ss_pred HHHHHHHHHhcCCcEEEEECCchHHHHHHHHHHcCC--cEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCCee
Q 006464 59 LSYLGQSLKSLGAELVLFKTESTLAALLECISAIKA--TKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLL 133 (644)
Q Consensus 59 L~dL~~~L~~lG~~L~v~~g~~~~~~L~~l~~~~~~--~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L 133 (644)
+..|.+-|++.+.=++.+.||-.-..++.++.+.|. ..|+++....+. .. .+.++++|+..||+.+.++-+.+
T Consensus 2 ~~~l~~~l~~~~~vlVa~SGGvDSs~ll~la~~~g~~v~av~~~~~~~~~-~e-~~~a~~~a~~lgi~~~ii~~~~~ 76 (252)
T TIGR00268 2 LENLRNFLKEFKKVLIAYSGGVDSSLLAAVCSDAGTEVLAITVVSPSISP-RE-LEDAIIIAKEIGVNHEFVKIDKM 76 (252)
T ss_pred hHHHHHHHHhcCCEEEEecCcHHHHHHHHHHHHhCCCEEEEEecCCCCCH-HH-HHHHHHHHHHcCCCEEEEEcHHH
Confidence 356777888877767767776444566677766654 344444322221 12 23577889999999888765433
No 34
>PRK10490 sensor protein KdpD; Provisional
Probab=37.88 E-value=1.6e+02 Score=36.31 Aligned_cols=94 Identities=15% Similarity=0.113 Sum_probs=57.0
Q ss_pred CCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHHHHHHHHHHcCCcEEEEecccCchhH
Q 006464 29 GSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLAALLECISAIKATKVVFNHLYDPVSL 108 (644)
Q Consensus 29 ~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~ 108 (644)
++++.|||-.|.... . ....+.-+.+.++ |. +++|..++++.+++....|.+++++.+++.||.-+.-.....
T Consensus 279 a~~~~l~V~~~~~~~--~-~~~~~~~l~~~~~-lA---~~lGa~~~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~~ 351 (895)
T PRK10490 279 SVWHAVYVETPRLHR--L-PEKKRRAILSALR-LA---QELGAETATLSDPAEEKAVLRYAREHNLGKIIIGRRASRRWW 351 (895)
T ss_pred CCEEEEEEecCCcCc--C-CHHHHHHHHHHHH-HH---HHcCCEEEEEeCCCHHHHHHHHHHHhCCCEEEECCCCCCCCc
Confidence 489999997663211 1 1112223334442 43 456999988888888889999999999999999865322111
Q ss_pred HHHHHHHHHhh-hcCcEEEEEc
Q 006464 109 VRDHSIKEKLV-ELGISVQSYN 129 (644)
Q Consensus 109 ~rD~~V~~~l~-~~gV~v~~~~ 129 (644)
.+..-+.++++ ..+|.++.+.
T Consensus 352 ~~~s~~~~l~r~~~~idi~iv~ 373 (895)
T PRK10490 352 RRESFADRLARLGPDLDLVIVA 373 (895)
T ss_pred cCCCHHHHHHHhCCCCCEEEEe
Confidence 12112233332 2467777764
No 35
>PF06574 FAD_syn: FAD synthetase; InterPro: IPR015864 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents prokaryotic-type FAD synthetase, which occurs primarily as part of a bifunctional enzyme.; GO: 0003919 FMN adenylyltransferase activity, 0009231 riboflavin biosynthetic process; PDB: 2X0K_B 3OP1_B 1T6Z_A 2I1L_A 1T6Y_B 1T6X_B 1S4M_A 1MRZ_A.
Probab=36.53 E-value=63 Score=30.92 Aligned_cols=103 Identities=20% Similarity=0.178 Sum_probs=57.6
Q ss_pred HHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC-C------chHHHHHHHHH-HcCCcE
Q 006464 25 AARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT-E------STLAALLECIS-AIKATK 96 (644)
Q Consensus 25 A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g-~------~~~~~L~~l~~-~~~~~~ 96 (644)
|.+.+-...|+.|+|.-.....+.... +++-++.+=.+.|+++|+..++... . .+.+-+..++. ..++..
T Consensus 32 a~~~~~~~~v~tF~~~P~~~~~~~~~~--~~l~s~~ek~~~l~~~Gvd~~~~~~F~~~~~~ls~~~Fi~~iL~~~l~~~~ 109 (157)
T PF06574_consen 32 AKEKGLKSVVLTFDPHPKEVLNPDKPP--KLLTSLEEKLELLESLGVDYVIVIPFTEEFANLSPEDFIEKILKEKLNVKH 109 (157)
T ss_dssp HHHCT-EEEEEEESS-CHHHHSCTCCG--GBSS-HHHHHHHHHHTTESEEEEE-CCCHHCCS-HHHHHHHHCCCHCTEEE
T ss_pred hhhcccceEEEEcccCHHHHhcCCCcc--cCCCCHHHHHHHHHHcCCCEEEEecchHHHHcCCHHHHHHHHHHhcCCccE
Confidence 334455566788887421111212222 4467888888889999998665431 1 22333444455 789999
Q ss_pred EEEecccCc--hhHHHHHHHHHHhhhcCcEEEEEc
Q 006464 97 VVFNHLYDP--VSLVRDHSIKEKLVELGISVQSYN 129 (644)
Q Consensus 97 V~~~~~y~p--~~~~rD~~V~~~l~~~gV~v~~~~ 129 (644)
|++-.++.. ....--+.+++.+++.|+.+..++
T Consensus 110 ivvG~DfrFG~~~~G~~~~L~~~~~~~g~~v~~v~ 144 (157)
T PF06574_consen 110 IVVGEDFRFGKNRSGDVELLKELGKEYGFEVEVVP 144 (157)
T ss_dssp EEEETT-EESGGGEEEHHHHHHCTTTT-SEEEEE-
T ss_pred EEEccCccCCCCCCCCHHHHHHhcccCceEEEEEC
Confidence 999877622 111112347888899999998874
No 36
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=36.26 E-value=79 Score=34.60 Aligned_cols=62 Identities=21% Similarity=0.282 Sum_probs=41.8
Q ss_pred HHHHhcCC--cEEEEECCchHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEE
Q 006464 64 QSLKSLGA--ELVLFKTESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQ 126 (644)
Q Consensus 64 ~~L~~lG~--~L~v~~g~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~ 126 (644)
.+|+++|+ ..+++...+ ...+.+.+-+.|+.+|++-.|.+|....--+++.+.++++||+|.
T Consensus 36 ~~l~~lgi~g~~i~~s~~p-~~~cad~ii~~gi~rVVi~~D~d~~G~~~~~~~~~~L~~aGi~V~ 99 (360)
T PRK14719 36 LSLKNLKINANFITVSNTP-VFQIADDLIAENISEVILLTDFDRAGRVYAKNIMEEFQSRGIKVN 99 (360)
T ss_pred HHHHHcCCCCcEEEEeCCc-hHHHHHHHHHcCCCEEEEEECCCCCCCccchHHHHHHHHCCCEEE
Confidence 57889998 355554433 334555555669999998776666444434457788999999994
No 37
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=35.65 E-value=2.4e+02 Score=28.58 Aligned_cols=74 Identities=16% Similarity=0.186 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCchHH---HHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcC
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTESTLA---ALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~~~~~---~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (644)
|..+-+..+.+.++++|..+.+........ ...+-+...+++.|++... ++ ...+..++ .+.+.||++..++.
T Consensus 13 f~~~~~~gi~~~~~~~G~~~~~~~~~~d~~~~~~~i~~~~~~~vdgiii~~~-~~--~~~~~~i~-~~~~~~iPvV~~~~ 88 (272)
T cd06313 13 WCAQGKQAADEAGKLLGVDVTWYGGALDAVKQVAAIENMASQGWDFIAVDPL-GI--GTLTEAVQ-KAIARGIPVIDMGT 88 (272)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCC-Ch--HHhHHHHH-HHHHCCCcEEEeCC
Confidence 666788888888999999999875532111 1222234568888888521 11 11222343 35667999999865
Q ss_pred C
Q 006464 131 D 131 (644)
Q Consensus 131 ~ 131 (644)
.
T Consensus 89 ~ 89 (272)
T cd06313 89 L 89 (272)
T ss_pred C
Confidence 3
No 38
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=35.60 E-value=78 Score=35.54 Aligned_cols=69 Identities=22% Similarity=0.229 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEEC-CchHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEE
Q 006464 55 LKQSLSYLGQSLKSLGAELVLFKT-ESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (644)
Q Consensus 55 LlesL~dL~~~L~~lG~~L~v~~g-~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (644)
|-+=|..+.+++++.|..+++... .+..+.+.+++++.++..|+....... .+-.+.+.+.+.|+++..
T Consensus 49 ld~~l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS~~~----eeigl~~~L~~~g~~~~e 118 (432)
T TIGR00273 49 LDFYLDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSKSMVS----EEIGLNEVLEKIGIEVWE 118 (432)
T ss_pred HHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcCchHH----HHhCCHHHHHhCCCeeee
Confidence 345556677888999999998764 345567888999999999998753222 222366777778888654
No 39
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=35.44 E-value=1.7e+02 Score=30.07 Aligned_cols=51 Identities=10% Similarity=0.178 Sum_probs=43.1
Q ss_pred hHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCCeee
Q 006464 81 TLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLY 134 (644)
Q Consensus 81 ~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~ 134 (644)
+..++.+.+++.|+++|..- +||.....+.+++.+.+.|++|..+.+..+-
T Consensus 107 ~~~A~~~AL~alg~~RIalv---TPY~~~v~~~~~~~l~~~G~eV~~~~~~~~~ 157 (239)
T TIGR02990 107 PSSAAVDGLAALGVRRISLL---TPYTPETSRPMAQYFAVRGFEIVNFTCLGLT 157 (239)
T ss_pred HHHHHHHHHHHcCCCEEEEE---CCCcHHHHHHHHHHHHhCCcEEeeeeccCCC
Confidence 45678888899999999886 7999999999999999999999988664443
No 40
>COG3590 PepO Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]
Probab=35.24 E-value=19 Score=41.12 Aligned_cols=44 Identities=32% Similarity=0.487 Sum_probs=35.1
Q ss_pred ccccCCCCccchhhhhCCCCCCCCcccccCccccccccCCcchhhhhcccc
Q 006464 382 LDADLECDILGWQYISGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPE 432 (644)
Q Consensus 382 lD~D~a~N~g~Wqw~AG~g~d~~~~~RifNP~~q~~k~Dp~G~yIrrWvPE 432 (644)
+|+|.+.||||..-+.|--. ++.| -.||.+||++|....=|.+|
T Consensus 476 ~ea~~a~NYGgIGaVIgHEI-~HgF------DdqGakfD~~GnL~dWWT~e 519 (654)
T COG3590 476 PEADSAANYGGIGAVIGHEI-GHGF------DDQGAKFDGDGNLNDWWTDE 519 (654)
T ss_pred CCcchhhcccCccceehhhh-cccc------cCCccccCCCCcHHhhcCHH
Confidence 78899999999987766422 3333 26999999999999999986
No 41
>PF07476 MAAL_C: Methylaspartate ammonia-lyase C-terminus; InterPro: IPR022662 Methylaspartate ammonia-lyase 4.3.1.2 from EC catalyses the second step of fermentation of glutamate. It is a homodimer. This domain represents the C-terminal region of methylaspartate ammonia-lyase and contains a TIM barrel fold similar to the PF01188 from PFAM. This domain represents the catalytic domain and contains a metal binding site []. ; PDB: 1KKO_B 1KKR_A 3ZVI_A 1KD0_B 1KCZ_B 3ZVH_A.
Probab=35.01 E-value=4.2e+02 Score=27.19 Aligned_cols=86 Identities=24% Similarity=0.235 Sum_probs=47.5
Q ss_pred EEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECC--chHHHHHHHHHHcCCcEEEEecccCchhHH
Q 006464 32 FPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTE--STLAALLECISAIKATKVVFNHLYDPVSLV 109 (644)
Q Consensus 32 lpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~--~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~ 109 (644)
++|+|=.|-..+ ++.--++.|..|++.|+++|+++-+...+ ++.+.+..++.+ ++.+++--+ +|.-=-
T Consensus 105 ~~L~iEgP~d~g-------~r~~QI~~l~~Lr~~L~~~g~~v~iVADEWCNT~eDI~~F~da-~A~dmVQIK--tPDLGg 174 (248)
T PF07476_consen 105 FKLRIEGPMDAG-------SREAQIEALAELREELDRRGINVEIVADEWCNTLEDIREFADA-KAADMVQIK--TPDLGG 174 (248)
T ss_dssp S-EEEE-SB--S-------SHHHHHHHHHHHHHHHHHCT--EEEEE-TT--SHHHHHHHHHT-T-SSEEEE---GGGGSS
T ss_pred CeeeeeCCcCCC-------ChHHHHHHHHHHHHHHHhcCCCCeEEeehhcCCHHHHHHHHhc-CCcCEEEec--CCCccc
Confidence 678887774322 12244599999999999999999887532 467777777665 455555444 343211
Q ss_pred HHHHHHH--HhhhcCcEEEE
Q 006464 110 RDHSIKE--KLVELGISVQS 127 (644)
Q Consensus 110 rD~~V~~--~l~~~gV~v~~ 127 (644)
....+.+ .|++.|+....
T Consensus 175 i~ntieAvlyCk~~gvgaY~ 194 (248)
T PF07476_consen 175 INNTIEAVLYCKEHGVGAYL 194 (248)
T ss_dssp THHHHHHHHHHHHTT-EEEE
T ss_pred hhhHHHHHHHHHhcCCceee
Confidence 2223333 47888887653
No 42
>PLN03194 putative disease resistance protein; Provisional
Probab=31.22 E-value=3.8e+02 Score=26.63 Aligned_cols=79 Identities=13% Similarity=0.071 Sum_probs=49.0
Q ss_pred HHHHHHHHhcCCcEEEE-----ECCchHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcCCeee
Q 006464 60 SYLGQSLKSLGAELVLF-----KTESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLY 134 (644)
Q Consensus 60 ~dL~~~L~~lG~~L~v~-----~g~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~ 134 (644)
.+|...|+..|+..++= .|+...+.|.+.+++..+.-|++...|.-...-.|+ +..+++...+-+-.| +=+
T Consensus 44 shL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdE-L~~I~e~~~~ViPIF---Y~V 119 (187)
T PLN03194 44 TLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHE-LALIMESKKRVIPIF---CDV 119 (187)
T ss_pred HHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHHHH-HHHHHHcCCEEEEEE---ecC
Confidence 67889999999988762 233334567777888888999999988654444444 444444333222223 124
Q ss_pred cCcccccc
Q 006464 135 EPWEIYDE 142 (644)
Q Consensus 135 ~p~~i~~~ 142 (644)
+|.++...
T Consensus 120 dPsdVr~q 127 (187)
T PLN03194 120 KPSQLRVV 127 (187)
T ss_pred CHHHhhcc
Confidence 57777664
No 43
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=31.19 E-value=2.1e+02 Score=28.44 Aligned_cols=74 Identities=20% Similarity=0.282 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEE-ECCchHHHHHHH---HHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEc
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLF-KTESTLAALLEC---ISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~-~g~~~~~~L~~l---~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (644)
|..+-..-+++.++++|..+.+. .+........++ +-..+++.|+.... ++.... ..+. .+.+.||+|..++
T Consensus 12 ~~~~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~-~~~~~~--~~l~-~~~~~gIpvv~~d 87 (257)
T PF13407_consen 12 FWQQVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAISQGVDGIIVSPV-DPDSLA--PFLE-KAKAAGIPVVTVD 87 (257)
T ss_dssp HHHHHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHHTTESEEEEESS-STTTTH--HHHH-HHHHTTSEEEEES
T ss_pred HHHHHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHHhcCCEEEecCC-CHHHHH--HHHH-HHhhcCceEEEEe
Confidence 66677888888899999999885 443222222222 23457998887632 232222 2343 3677899999987
Q ss_pred CC
Q 006464 130 GD 131 (644)
Q Consensus 130 ~~ 131 (644)
..
T Consensus 88 ~~ 89 (257)
T PF13407_consen 88 SD 89 (257)
T ss_dssp ST
T ss_pred cc
Confidence 66
No 44
>TIGR00884 guaA_Cterm GMP synthase (glutamine-hydrolyzing), C-terminal domain or B subunit. This protein of purine de novo biosynthesis is well-conserved. However, it appears to split into two separate polypeptide chains in most of the Archaea. This C-terminal region would be the larger subunit
Probab=30.21 E-value=2.7e+02 Score=29.76 Aligned_cols=74 Identities=9% Similarity=0.153 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHhcCCcEEE-EECCchHHHHHHHHHH-c--CCcEEEEecccCchhHHHHHHHHHHh-hhcCcEEEEE
Q 006464 54 WLKQSLSYLGQSLKSLGAELVL-FKTESTLAALLECISA-I--KATKVVFNHLYDPVSLVRDHSIKEKL-VELGISVQSY 128 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v-~~g~~~~~~L~~l~~~-~--~~~~V~~~~~y~p~~~~rD~~V~~~l-~~~gV~v~~~ 128 (644)
|+-+.++.|++.+.+ .+++| +.||-.-.+++.++.+ . ++..|++++..-+. .+. +.+.+.+ ++.||+++.+
T Consensus 2 ~~~~~~~~l~~~v~~--~kVvValSGGVDSsvla~ll~~~~G~~v~av~vd~G~~~~-~E~-e~~~~~~~~~lgi~~~vv 77 (311)
T TIGR00884 2 FIEEAVEEIREQVGD--AKVIIALSGGVDSSVAAVLAHRAIGDRLTCVFVDHGLLRK-GEA-EQVVKTFGDRLGLNLVYV 77 (311)
T ss_pred hHHHHHHHHHHHhCC--CcEEEEecCChHHHHHHHHHHHHhCCCEEEEEEeCCCCCh-HHH-HHHHHHHHHHcCCcEEEE
Confidence 677888899988865 34444 4455333445555544 3 45667777544332 233 3355544 4799999887
Q ss_pred cCC
Q 006464 129 NGD 131 (644)
Q Consensus 129 ~~~ 131 (644)
+.+
T Consensus 78 d~~ 80 (311)
T TIGR00884 78 DAK 80 (311)
T ss_pred eCc
Confidence 655
No 45
>PF06415 iPGM_N: BPG-independent PGAM N-terminus (iPGM_N); InterPro: IPR011258 This family represents the N-terminal region of the 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (or phosphoglyceromutase or BPG-independent PGAM) protein (5.4.2.1 from EC). The family is found in conjunction with Metalloenzyme (located in the C-terminal region of the protein). ; GO: 0004619 phosphoglycerate mutase activity, 0030145 manganese ion binding, 0006007 glucose catabolic process, 0005737 cytoplasm; PDB: 1EQJ_A 1EJJ_A 1O99_A 1O98_A 3IGZ_B 3IGY_B 3NVL_A 2IFY_A.
Probab=29.63 E-value=3e+02 Score=28.12 Aligned_cols=76 Identities=26% Similarity=0.246 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHhcCCcEEEEE----CC-----chHHHHHHHHHHcCCcEEEEe-----cccCchhH-HHHHHHHHHhhhc
Q 006464 57 QSLSYLGQSLKSLGAELVLFK----TE-----STLAALLECISAIKATKVVFN-----HLYDPVSL-VRDHSIKEKLVEL 121 (644)
Q Consensus 57 esL~dL~~~L~~lG~~L~v~~----g~-----~~~~~L~~l~~~~~~~~V~~~-----~~y~p~~~-~rD~~V~~~l~~~ 121 (644)
+.|.++-+.+++.|..|+++- |+ +-+..|++++++.|+..|+.+ +|+.|.+- .--+.+.+.|++.
T Consensus 14 ~~l~~~~~~~k~~~~~lHl~GLlSdGGVHSh~~Hl~al~~~a~~~gv~~V~vH~f~DGRDt~P~S~~~yl~~l~~~l~~~ 93 (223)
T PF06415_consen 14 PVLLEAIEHAKKNGGRLHLMGLLSDGGVHSHIDHLFALIKLAKKQGVKKVYVHAFTDGRDTPPKSALKYLEELEEKLAEI 93 (223)
T ss_dssp HHHHHHHHHHCCTT--EEEEEEESS-SSS--HHHHHHHHHHHHHTT-SEEEEEEEE-SSSS-TTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCeEEEEEEecCCCccccHHHHHHHHHHHHHcCCCEEEEEEecCCCCCCcchHHHHHHHHHHHHHhh
Confidence 556666677777788888762 11 235567777888888877766 44455432 3334566777766
Q ss_pred Cc-EEEEEcCCe
Q 006464 122 GI-SVQSYNGDL 132 (644)
Q Consensus 122 gV-~v~~~~~~~ 132 (644)
|+ ++-++-|..
T Consensus 94 ~~g~IAsv~GRy 105 (223)
T PF06415_consen 94 GIGRIASVSGRY 105 (223)
T ss_dssp TCTEEEEEEECC
T ss_pred CCceEEEEecee
Confidence 54 676666553
No 46
>PLN02347 GMP synthetase
Probab=29.59 E-value=2.2e+02 Score=32.93 Aligned_cols=77 Identities=6% Similarity=0.060 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCchHHHHHHHHHH-c--CCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcC
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTESTLAALLECISA-I--KATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~~~~~~L~~l~~~-~--~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (644)
|+.+.++++++.+.+.|.-++-+.||-.-.++..++.+ . ++..|+.+...-+.. +.++.++..+++.||+++.++-
T Consensus 214 ~~~~~i~~i~~~~~~~~~vvvalSGGVDSsvla~l~~~alG~~v~av~id~g~~~~~-E~~~~~~~~a~~lgi~~~vvd~ 292 (536)
T PLN02347 214 VLEEQIELIKATVGPDEHVICALSGGVDSTVAATLVHKAIGDRLHCVFVDNGLLRYK-EQERVMETFKRDLHLPVTCVDA 292 (536)
T ss_pred HHHHHHHHHHHHhccCCeEEEEecCChhHHHHHHHHHHHhCCcEEEEEEeCCCCChh-HHHHHHHHHHHHcCCcEEEEeC
Confidence 67788888888887655555556666444456666665 4 456677764433332 3444456678889999988865
Q ss_pred C
Q 006464 131 D 131 (644)
Q Consensus 131 ~ 131 (644)
.
T Consensus 293 ~ 293 (536)
T PLN02347 293 S 293 (536)
T ss_pred c
Confidence 5
No 47
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=29.52 E-value=3.7e+02 Score=27.90 Aligned_cols=73 Identities=16% Similarity=0.216 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCch---HHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcC
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTEST---LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~~~---~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (644)
|+.+...-+.+.+++.|..+++...+.. .....+.+...+++.|+... .....-+..+ +.+++.||+|..++.
T Consensus 12 ~~~~~~~~i~~~a~~~g~~v~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~---~~~~~~~~~l-~~~~~~~iPvV~~d~ 87 (302)
T TIGR02634 12 RWQKDRDIFVAAAESLGAKVFVQSANGNEAKQISQIENLIARGVDVLVIIP---QNGQVLSNAV-QEAKDEGIKVVAYDR 87 (302)
T ss_pred hHHHHHHHHHHHHHhcCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEeC---CChhHHHHHH-HHHHHCCCeEEEecC
Confidence 7778888999999999999988654311 11233445566899888762 2222223333 445778999998854
No 48
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=29.44 E-value=4e+02 Score=26.71 Aligned_cols=103 Identities=20% Similarity=0.230 Sum_probs=0.0
Q ss_pred CCCHHHHHHHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHHHHHHHHHHcCCcE
Q 006464 17 EDNPALAAAARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLAALLECISAIKATK 96 (644)
Q Consensus 17 ~DN~AL~~A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~g~~~~~~L~~l~~~~~~~~ 96 (644)
.|-++|..|.+.| +|.+++++.. ++.+...- .+|-+.|++.+..|+++.| -.--.=.++++.+.-.-
T Consensus 38 ~~A~~lerA~~~g--Ipt~~~~~k~----~~~r~~~d------~~l~~~l~~~~~dlvvLAG-yMrIL~~~fl~~~~grI 104 (200)
T COG0299 38 ADAYALERAAKAG--IPTVVLDRKE----FPSREAFD------RALVEALDEYGPDLVVLAG-YMRILGPEFLSRFEGRI 104 (200)
T ss_pred CCCHHHHHHHHcC--CCEEEecccc----CCCHHHHH------HHHHHHHHhcCCCEEEEcc-hHHHcCHHHHHHhhcce
Q ss_pred EEEecccCch---hHHHHHHHHHHhhhcCcEEEEEcCCe
Q 006464 97 VVFNHLYDPV---SLVRDHSIKEKLVELGISVQSYNGDL 132 (644)
Q Consensus 97 V~~~~~y~p~---~~~rD~~V~~~l~~~gV~v~~~~~~~ 132 (644)
|-.+-..-|. ...-.+.++.-.+..|+.||.++..+
T Consensus 105 lNIHPSLLP~f~G~h~~~~A~~aG~k~sG~TVH~V~e~v 143 (200)
T COG0299 105 LNIHPSLLPAFPGLHAHEQALEAGVKVSGCTVHFVTEGV 143 (200)
T ss_pred EecCcccccCCCCchHHHHHHHcCCCccCcEEEEEccCC
No 49
>COG1087 GalE UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]
Probab=29.15 E-value=37 Score=36.16 Aligned_cols=79 Identities=16% Similarity=0.107 Sum_probs=43.5
Q ss_pred HHhcccccCCCCccchhhhhCCCCCCCCcccccCccccccccCCcchhhhhccccccCCCCCcccCCCCCChhHHHHcCC
Q 006464 378 WDTLLDADLECDILGWQYISGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHHPWDAPPNVLKAAGV 457 (644)
Q Consensus 378 ~~~LlD~D~a~N~g~Wqw~AG~g~d~~~~~RifNP~~q~~k~Dp~G~yIrrWvPEL~~lp~~~Ih~PW~~p~~~~~~~g~ 457 (644)
++.|-|+.-+.+ |++++ +|+|||..- ||+|..=-.--|| . ...|...|-+.|-
T Consensus 150 E~iL~d~~~a~~---~~~v~---------LRYFN~aGA----~~~G~iGe~~~~~-t----------hLip~~~q~A~G~ 202 (329)
T COG1087 150 EEILRDAAKANP---FKVVI---------LRYFNVAGA----CPDGTLGQRYPGA-T----------LLIPVAAEAALGK 202 (329)
T ss_pred HHHHHHHHHhCC---CcEEE---------EEecccccC----CCCCccCCCCCCc-c----------hHHHHHHHHHhcC
Confidence 445555544433 77665 799999865 3444322222222 1 1223344444443
Q ss_pred -----cCCCCCCcC----------CCChHHHHHHHHHHHHH
Q 006464 458 -----ELGLNYPKP----------IIDLDLGRERLTQAIFK 483 (644)
Q Consensus 458 -----~~g~~YP~P----------Ivd~~~ar~~~~~~~~~ 483 (644)
+.|.|||.| ++|+..|--.|++.+++
T Consensus 203 r~~l~ifG~DY~T~DGT~iRDYIHV~DLA~aH~~Al~~L~~ 243 (329)
T COG1087 203 RDKLFIFGDDYDTKDGTCIRDYIHVDDLADAHVLALKYLKE 243 (329)
T ss_pred CceeEEeCCCCCCCCCCeeeeeeehhHHHHHHHHHHHHHHh
Confidence 258999988 36888887766665533
No 50
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=28.07 E-value=3.7e+02 Score=22.77 Aligned_cols=73 Identities=14% Similarity=0.103 Sum_probs=43.4
Q ss_pred CCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEE-CCchHHHHHHHHHHcCCcEEEEec
Q 006464 29 GSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFK-TESTLAALLECISAIKATKVVFNH 101 (644)
Q Consensus 29 ~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~-g~~~~~~L~~l~~~~~~~~V~~~~ 101 (644)
.++..|+|.++..............-..+.|..+...+...|.++.... .+.....|.+.+++.+++.|+.-.
T Consensus 28 ~~i~~l~v~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~ 101 (130)
T cd00293 28 AELVLLHVVDPPPSSAAELAELLEEEARALLEALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVMGS 101 (130)
T ss_pred CEEEEEEEecCCCCcchhHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcC
Confidence 3688888876642110000001112344666676666667788764432 234467888999999999888763
No 51
>PF03392 OS-D: Insect pheromone-binding family, A10/OS-D; InterPro: IPR005055 A class of small (14-20 Kd) water-soluble proteins, called odorant binding proteins (OBPs), first discovered in the insect sensillar lymph but also in the mucus of vertebrates, is postulated to mediate the solubilisation of hydrophobic odorant molecules, and thereby to facilitate their transport to the receptor neurons. The product of a gene expressed in the olfactory system of Drosophila melanogaster (Fruit fly), OS-D, shares features common to vertebrate odorant-binding proteins, but has a primary structure unlike odorant-binding proteins []. OS-D derivatives have subsequently been found in chemosensory organs of phylogenetically distinct insects, including cockroaches, phasmids and moths, suggesting that OS-D-like proteins seem to be conserved in the insect phylum.; PDB: 1KX9_A 1N8U_A 1KX8_A 1K19_A 1N8V_A 2GVS_A 2JNT_A.
Probab=27.08 E-value=20 Score=31.46 Aligned_cols=13 Identities=46% Similarity=1.183 Sum_probs=6.8
Q ss_pred cccCCcchhhhhc
Q 006464 417 SKFDPEGEYVRQW 429 (644)
Q Consensus 417 ~k~Dp~G~yIrrW 429 (644)
.||||+|.|.++|
T Consensus 83 ~KyDp~~~y~~ky 95 (95)
T PF03392_consen 83 KKYDPEGKYRKKY 95 (95)
T ss_dssp HHHTTT-TTHHHH
T ss_pred HHHCCCcchhhcC
Confidence 4566666665553
No 52
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=26.33 E-value=4.5e+02 Score=26.28 Aligned_cols=73 Identities=29% Similarity=0.341 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCc-hHHH---HHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEc
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTES-TLAA---LLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~~-~~~~---L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (644)
|..+-+..+.+.+++.|..+.+...+. .... +.+-+...+++.|+.... ++ ..-...++. +.+.||++..++
T Consensus 14 ~~~~~~~g~~~~~~~~g~~v~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~-~~--~~~~~~l~~-~~~~~ipvV~~~ 89 (271)
T cd06312 14 FWTVVKNGAEDAAKDLGVDVEYRGPETFDVADMARLIEAAIAAKPDGIVVTIP-DP--DALDPAIKR-AVAAGIPVISFN 89 (271)
T ss_pred HHHHHHHHHHHHHHHhCCEEEEECCCCCCHHHHHHHHHHHHHhCCCEEEEeCC-Ch--HHhHHHHHH-HHHCCCeEEEeC
Confidence 666788888888899999998875432 1221 222233458888887531 11 111223433 567899999886
Q ss_pred C
Q 006464 130 G 130 (644)
Q Consensus 130 ~ 130 (644)
.
T Consensus 90 ~ 90 (271)
T cd06312 90 A 90 (271)
T ss_pred C
Confidence 4
No 53
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=26.24 E-value=4.1e+02 Score=26.80 Aligned_cols=73 Identities=15% Similarity=0.222 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCchHH--HHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcC
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTESTLA--ALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~~~~~--~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (644)
|..+-++.+.+.+++.|..+.+....+... ...+-+...+++.|+... .....-+ .+.+.+.+.||++..++.
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~---~~~~~~~-~~~~~~~~~~iPvV~~~~ 87 (289)
T cd01540 13 WFQTEWKFAKKAAKEKGFTVVKIDVPDGEKVLSAIDNLGAQGAKGFVICV---PDVKLGP-AIVAKAKAYNMKVVAVDD 87 (289)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEccCCCHHHHHHHHHHHHHcCCCEEEEcc---CchhhhH-HHHHHHHhCCCeEEEecC
Confidence 555777788889999999988865432211 122223456888888752 1111112 233446778999998753
No 54
>PRK09982 universal stress protein UspD; Provisional
Probab=26.21 E-value=5e+02 Score=23.61 Aligned_cols=114 Identities=12% Similarity=0.072 Sum_probs=59.6
Q ss_pred CCCCCCCHHHHHHHh-----CCCeEEEEEeCCCccC---ccCCc--hhhH---HHHHHHHHHHHHHHHhcCCcEEEEECC
Q 006464 13 DLRIEDNPALAAAAR-----DGSVFPVYTWCPKEEG---QFYPG--RVSR---WWLKQSLSYLGQSLKSLGAELVLFKTE 79 (644)
Q Consensus 13 DLRl~DN~AL~~A~~-----~~~vlpvfi~dP~~~~---~~~~~--~~~r---~FLlesL~dL~~~L~~lG~~L~v~~g~ 79 (644)
|.=-.-..||..|+. .+.+.-++|.++.... ...+. .... ....+.|.++.+.+...+....+..|
T Consensus 11 D~S~~s~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~G- 89 (142)
T PRK09982 11 SGNEEDALLVNKALELARHNDAHLTLIHIDDGLSELYPGIYFPATEDILQLLKNKSDNKLYKLTKNIQWPKTKLRIERG- 89 (142)
T ss_pred cCCcchHHHHHHHHHHHHHhCCeEEEEEEccCcchhchhhhccchHHHHHHHHHHHHHHHHHHHHhcCCCcceEEEEec-
Confidence 433333567766642 3368888888753210 00011 0000 12223344444444333455566555
Q ss_pred chHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEE
Q 006464 80 STLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSY 128 (644)
Q Consensus 80 ~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (644)
++.+.|.+.+++.+++-|+.-+.-....... -.-.+.++...|+|..+
T Consensus 90 ~p~~~I~~~A~~~~aDLIVmG~~~~~~~~~~-~va~~V~~~s~~pVLvv 137 (142)
T PRK09982 90 EMPETLLEIMQKEQCDLLVCGHHHSFINRLM-PAYRGMINKMSADLLIV 137 (142)
T ss_pred CHHHHHHHHHHHcCCCEEEEeCChhHHHHHH-HHHHHHHhcCCCCEEEe
Confidence 5678899999999999988765322222222 12344555666777654
No 55
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=26.21 E-value=4.4e+02 Score=26.36 Aligned_cols=71 Identities=21% Similarity=0.240 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCc-hHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcC
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTES-TLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~~-~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (644)
|..+-++.+.+.+++.|..+.++..+. ....+.+.+.+.+++.|+..-.... +..+ +.+.+.||++..++.
T Consensus 24 ~~~~~~~gi~~~~~~~g~~~~v~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~-----~~~~-~~~~~~~ipvV~~~~ 95 (275)
T cd06295 24 FFLSLLGGIADALAERGYDLLLSFVSSPDRDWLARYLASGRADGVILIGQHDQ-----DPLP-ERLAETGLPFVVWGR 95 (275)
T ss_pred hHHHHHHHHHHHHHHcCCEEEEEeCCchhHHHHHHHHHhCCCCEEEEeCCCCC-----hHHH-HHHHhCCCCEEEECC
Confidence 555666677888999999988875432 2334555566678888876421111 1223 345678999998753
No 56
>PF08471 Ribonuc_red_2_N: Class II vitamin B12-dependent ribonucleotide reductase; InterPro: IPR013678 This domain is found to the N terminus of the ribonucleotide reductase barrel domain (IPR000788 from INTERPRO). It occurs in bacterial class II ribonucleotide reductase proteins which depend upon coenzyme B12 (deoxyadenosylcobalamine) []. ; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0050897 cobalt ion binding, 0055114 oxidation-reduction process
Probab=26.07 E-value=1.3e+02 Score=26.31 Aligned_cols=40 Identities=30% Similarity=0.426 Sum_probs=28.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHhh-hccCCcchHHHHHHHHHH
Q 006464 250 GELSVRKVFQCLWMKQILWAKE-ENFEGKESVTFFLRAMGL 289 (644)
Q Consensus 250 G~LS~ReV~~~v~~~~~~~~~~-~~~~~~~s~~~fireL~W 289 (644)
|.-|+|+|++++......|..+ +.....+....|..||.|
T Consensus 48 ~E~S~rQv~~Rla~tw~~wG~~~GYF~t~eDA~~FydEl~~ 88 (93)
T PF08471_consen 48 GETSVRQVFDRLAGTWTYWGWKGGYFATEEDAEAFYDELTY 88 (93)
T ss_pred ccchHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence 4789999999997766555433 334455667788888765
No 57
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=24.78 E-value=4.3e+02 Score=26.26 Aligned_cols=72 Identities=17% Similarity=0.272 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECC-ch---HHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEc
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTE-ST---LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~-~~---~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (644)
|..+-+..+.+.++++|..+.+.... ++ ...+..++ ..+++.|+.... ++ ..-+ .+.+.+++.||++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~l~~~~-~~~vdgii~~~~-~~--~~~~-~~i~~~~~~~ipvV~~~ 87 (273)
T cd06305 13 FDQAYLAGTKAEAEALGGDLRVYDAGGDDAKQADQIDQAI-AQKVDAIIIQHG-RA--EVLK-PWVKRALDAGIPVVAFD 87 (273)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHH-HcCCCEEEEecC-Ch--hhhH-HHHHHHHHcCCCEEEec
Confidence 55577778888999999998886442 22 12233333 458998888521 11 1112 22334567899998885
Q ss_pred C
Q 006464 130 G 130 (644)
Q Consensus 130 ~ 130 (644)
.
T Consensus 88 ~ 88 (273)
T cd06305 88 V 88 (273)
T ss_pred C
Confidence 4
No 58
>PF01220 DHquinase_II: Dehydroquinase class II; InterPro: IPR001874 3-dehydroquinate dehydratase (4.2.1.10 from EC), or dehydroquinase, catalyzes the conversion of 3-dehydroquinate into 3-dehydroshikimate. It is the third step in the shikimate pathway for the biosynthesis of aromatic amino acids from chorismate. Two classes of dehydroquinases exist, known as types I and II. Class-II enzymes are homododecameric enzymes of about 17 kDa. They are found in some bacteria such as actinomycetales [, ] and some fungi where they act in a catabolic pathway that allows the use of quinic acid as a carbon source.; GO: 0003855 3-dehydroquinate dehydratase activity; PDB: 3N8K_J 3N7A_I 3N87_F 3N8N_H 3N86_N 1H0S_A 3N59_J 1H05_A 1H0R_A 2Y71_A ....
Probab=24.66 E-value=6e+02 Score=24.01 Aligned_cols=71 Identities=20% Similarity=0.312 Sum_probs=43.2
Q ss_pred HHHhcCCcEEEEECCchHHHHHHHHHHc--CCcEEEEecc-cCchhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccc
Q 006464 65 SLKSLGAELVLFKTESTLAALLECISAI--KATKVVFNHL-YDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIY 140 (644)
Q Consensus 65 ~L~~lG~~L~v~~g~~~~~~L~~l~~~~--~~~~V~~~~~-y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~ 140 (644)
.-+++|..+.++..+ ....|.+.+++. .++.|+.|-- |+-++. +++.+++..++++.+++-..++.++++.
T Consensus 37 ~a~~~g~~v~~~QSN-~EGelid~I~~a~~~~dgiIINpga~thtS~----Ai~DAl~~~~~P~vEVHiSNi~~RE~fR 110 (140)
T PF01220_consen 37 TAAELGVEVEFFQSN-HEGELIDWIHEARDDVDGIIINPGAYTHTSI----AIRDALKAISIPVVEVHISNIHAREEFR 110 (140)
T ss_dssp HHHHTTEEEEEEE-S-SHHHHHHHHHHHTCTTSEEEEE-GGGGHT-H----HHHHHHHCCTS-EEEEESS-GGGS-GGG
T ss_pred HHHHCCCeEEEEecC-CHHHHHHHHHHHHhhCCEEEEccchhccccH----HHHHHHHcCCCCEEEEEcCCcccccccc
Confidence 334578899988864 455666666653 4788999842 222222 4666777789999999877776654443
No 59
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=24.20 E-value=4.4e+02 Score=27.31 Aligned_cols=46 Identities=17% Similarity=0.138 Sum_probs=37.2
Q ss_pred HHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEc
Q 006464 82 LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (644)
Q Consensus 82 ~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (644)
...+.+++++.+++.|+-. ..|++..--+.+.++|++.||++..|.
T Consensus 54 ~~~l~~~l~~~~i~~VIDA--tHPfA~~is~~a~~a~~~~~ipylR~e 99 (256)
T TIGR00715 54 PQELREFLKRHSIDILVDA--THPFAAQITTNATAVCKELGIPYVRFE 99 (256)
T ss_pred HHHHHHHHHhcCCCEEEEc--CCHHHHHHHHHHHHHHHHhCCcEEEEE
Confidence 3457788899899876543 368988888899999999999999884
No 60
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=23.50 E-value=2.8e+02 Score=27.55 Aligned_cols=72 Identities=11% Similarity=0.067 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCc----hHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEc
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTES----TLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~~----~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (644)
|..+-+..+.+.+++.|..+.+...+. ....+.+.+...+++.|++... ... . ..+.+.+.+.|+++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~-~~~--~--~~~~~~~~~~~ipvv~i~ 87 (270)
T cd01545 13 YVSEIQLGALDACRDTGYQLVIEPCDSGSPDLAERVRALLQRSRVDGVILTPP-LSD--N--PELLDLLDEAGVPYVRIA 87 (270)
T ss_pred cHHHHHHHHHHHHHhCCCeEEEEeCCCCchHHHHHHHHHHHHCCCCEEEEeCC-CCC--c--cHHHHHHHhcCCCEEEEe
Confidence 555667777788889999988875431 2334566666788998887622 111 1 123344567899998875
Q ss_pred C
Q 006464 130 G 130 (644)
Q Consensus 130 ~ 130 (644)
.
T Consensus 88 ~ 88 (270)
T cd01545 88 P 88 (270)
T ss_pred c
Confidence 4
No 61
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=23.27 E-value=2.3e+02 Score=27.23 Aligned_cols=52 Identities=21% Similarity=0.160 Sum_probs=30.0
Q ss_pred CCchHHHHHHHHHHc------CCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEc
Q 006464 78 TESTLAALLECISAI------KATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (644)
Q Consensus 78 g~~~~~~L~~l~~~~------~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (644)
||..--+|+.++.++ .+..|.+++...+.+..-.+.|++.|++.||++....
T Consensus 8 GG~DS~~Ll~~l~~~~~~~~~~~~~~~vdh~~~~~s~~~~~~v~~~~~~~~i~~~~~~ 65 (182)
T PF01171_consen 8 GGKDSMALLHLLKELRRRNGIKLIAVHVDHGLREESDEEAEFVEEICEQLGIPLYIVR 65 (182)
T ss_dssp SSHHHHHHHHHHHHHHTTTTTEEEEEEEE-STSCCHHHHHHHHHHHHHHTT-EEEEEE
T ss_pred CCHHHHHHHHHHHHHHHhcCCCeEEEEEecCCCcccchhHHHHHHHHHhcCCceEEEE
Confidence 443333454544433 3556677776665544444568888888888887764
No 62
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=22.96 E-value=5.2e+02 Score=26.31 Aligned_cols=73 Identities=22% Similarity=0.306 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCc-h--HHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcC
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTES-T--LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~~-~--~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (644)
|..+-+..+.+.++++|..+.+..+.. . ...+.+-+.+.+++.|++... ++. .-...+ +.+.+.|+++..++.
T Consensus 13 ~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~-~~~--~~~~~l-~~l~~~~ipvV~~~~ 88 (288)
T cd01538 13 RWIRDRPNFEAALKELGAEVIVQNANGDPAKQISQIENMIAKGVDVLVIAPV-DGE--ALASAV-EKAADAGIPVIAYDR 88 (288)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecC-Chh--hHHHHH-HHHHHCCCCEEEECC
Confidence 555777778888999999999876532 1 112223234568888877521 111 111223 335678999998854
No 63
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=22.78 E-value=4.1e+02 Score=26.31 Aligned_cols=71 Identities=13% Similarity=0.130 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCch---HHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcC
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTEST---LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~~~---~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (644)
|..+-+..+.+.+++.|..+.+....+. ...+.+++...+++.|+......+ + .+.+.+.+.||++..++.
T Consensus 18 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-----~-~~~~~~~~~~ipvV~~~~ 91 (270)
T cd06294 18 FFIEVLRGISAVANENGYDISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED-----D-PIIDYLKEEKFPFVVIGK 91 (270)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC-----c-HHHHHHHhcCCCEEEECC
Confidence 5556677778888889999987654322 234455556667888777532111 1 233446778999998854
No 64
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=22.65 E-value=6.6e+02 Score=23.75 Aligned_cols=77 Identities=19% Similarity=0.315 Sum_probs=48.0
Q ss_pred HHHHHHHHH----HhcCCcEEEEECCchHHHHHHHHHHc--CCcEEEEecccCchhHH-HHHHHHHHhhhcCcEEEEEcC
Q 006464 58 SLSYLGQSL----KSLGAELVLFKTESTLAALLECISAI--KATKVVFNHLYDPVSLV-RDHSIKEKLVELGISVQSYNG 130 (644)
Q Consensus 58 sL~dL~~~L----~~lG~~L~v~~g~~~~~~L~~l~~~~--~~~~V~~~~~y~p~~~~-rD~~V~~~l~~~gV~v~~~~~ 130 (644)
+|.++.+.| +++|..+.++..+ ..-.|.+.+++. +++.|+.| |-++. ---+++.+++..++++.+++-
T Consensus 25 tl~~i~~~l~~~a~~~g~~v~~~QSN-~Egelid~I~~a~~~~dgiIIN----pga~THtSvAi~DAl~~~~~P~VEVHi 99 (140)
T cd00466 25 TLADIEALLRELAAELGVEVEFFQSN-HEGELIDWIHEARDGADGIIIN----PGAYTHTSIALRDALAAVSIPVIEVHI 99 (140)
T ss_pred CHHHHHHHHHHHHHHcCCEEEEEeeC-cHHHHHHHHHHhhccCcEEEEc----chHHHHHHHHHHHHHHcCCCCEEEEec
Confidence 344444444 4468999998763 345566666543 46788988 33321 222466777778999999976
Q ss_pred CeeecCccc
Q 006464 131 DLLYEPWEI 139 (644)
Q Consensus 131 ~~L~~p~~i 139 (644)
..++..+++
T Consensus 100 SNi~aRE~f 108 (140)
T cd00466 100 SNIHAREEF 108 (140)
T ss_pred CCccccccc
Confidence 666654333
No 65
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=22.23 E-value=6.9e+02 Score=23.81 Aligned_cols=76 Identities=20% Similarity=0.305 Sum_probs=48.0
Q ss_pred HHHHHHHHHH----HhcCCcEEEEECCchHHHHHHHHHHc--CCcEEEEecccCchhHH-HHHHHHHHhhhcCcEEEEEc
Q 006464 57 QSLSYLGQSL----KSLGAELVLFKTESTLAALLECISAI--KATKVVFNHLYDPVSLV-RDHSIKEKLVELGISVQSYN 129 (644)
Q Consensus 57 esL~dL~~~L----~~lG~~L~v~~g~~~~~~L~~l~~~~--~~~~V~~~~~y~p~~~~-rD~~V~~~l~~~gV~v~~~~ 129 (644)
.+|.++.+.| +++|..+.++..+ ..-.|.+.+++. +++.|+.| |-++. ---+++++++..++++.+++
T Consensus 26 ~tl~~i~~~~~~~a~~~g~~v~~~QSN-~EGelId~I~~a~~~~dgiiIN----pga~THtSiAl~DAl~~~~~P~VEVH 100 (146)
T PRK05395 26 TTLADIEALLEEEAAELGVELEFFQSN-HEGELIDRIHEARDGADGIIIN----PGAYTHTSVALRDALAAVSIPVIEVH 100 (146)
T ss_pred CCHHHHHHHHHHHHHHcCCEEEEEeeC-cHHHHHHHHHhcccCCcEEEEC----chHHHHHHHHHHHHHHcCCCCEEEEe
Confidence 3444444444 4568999998764 455666666543 57889998 33321 12246667777899999997
Q ss_pred CCeeecCc
Q 006464 130 GDLLYEPW 137 (644)
Q Consensus 130 ~~~L~~p~ 137 (644)
-..++.++
T Consensus 101 iSNi~aRE 108 (146)
T PRK05395 101 LSNIHARE 108 (146)
T ss_pred cCCccccc
Confidence 66666543
No 66
>PF05368 NmrA: NmrA-like family; InterPro: IPR008030 NmrA is a negative transcriptional regulator involved in the post-translational modification of the transcription factor AreA. NmrA is part of a system controlling nitrogen metabolite repression in fungi []. This family only contains a few sequences as iteration results in significant matches to other Rossmann fold families.; PDB: 2ZCV_A 2ZCU_A 2R6J_B 3C3X_A 2QZZ_B 2QYS_A 2QX7_A 2QW8_A 2R2G_B 3E5M_B ....
Probab=22.22 E-value=2.7e+02 Score=27.55 Aligned_cols=62 Identities=19% Similarity=0.268 Sum_probs=40.4
Q ss_pred HHHHHhcCCcEEEEECC-chHHHHHHHHHHcCCcEEEEecccC-chhHHHHHHHHHHhhhcCcEEEEE
Q 006464 63 GQSLKSLGAELVLFKTE-STLAALLECISAIKATKVVFNHLYD-PVSLVRDHSIKEKLVELGISVQSY 128 (644)
Q Consensus 63 ~~~L~~lG~~L~v~~g~-~~~~~L~~l~~~~~~~~V~~~~~y~-p~~~~rD~~V~~~l~~~gV~v~~~ 128 (644)
-..|++.|..++ .++ +..+.|.+.++ |++.|++.-... +.+...-..+.+++++.||+...+
T Consensus 37 ~~~l~~~g~~vv--~~d~~~~~~l~~al~--g~d~v~~~~~~~~~~~~~~~~~li~Aa~~agVk~~v~ 100 (233)
T PF05368_consen 37 AQQLQALGAEVV--EADYDDPESLVAALK--GVDAVFSVTPPSHPSELEQQKNLIDAAKAAGVKHFVP 100 (233)
T ss_dssp HHHHHHTTTEEE--ES-TT-HHHHHHHHT--TCSEEEEESSCSCCCHHHHHHHHHHHHHHHT-SEEEE
T ss_pred hhhhhcccceEe--ecccCCHHHHHHHHc--CCceEEeecCcchhhhhhhhhhHHHhhhccccceEEE
Confidence 456777898765 342 23445555554 888888775533 556677777888999999877654
No 67
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=22.17 E-value=5.4e+02 Score=25.34 Aligned_cols=73 Identities=18% Similarity=0.162 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECC-chH--HHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcC
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTE-STL--AALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~-~~~--~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (644)
|..+-+..+.+.+++.|..+++...+ +.. ..+.+.+...+++.|++.. .........+. .+.+.||++..++.
T Consensus 13 ~~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~---~~~~~~~~~l~-~l~~~~ipvv~~~~ 88 (268)
T cd06323 13 FFVTLKDGAQKEAKELGYELTVLDAQNDAAKQLNDIEDLITRGVDAIIINP---TDSDAVVPAVK-AANEAGIPVFTIDR 88 (268)
T ss_pred HHHHHHHHHHHHHHHcCceEEecCCCCCHHHHHHHHHHHHHcCCCEEEEcC---CChHHHHHHHH-HHHHCCCcEEEEcc
Confidence 66678888889999999999876542 221 1222333456788877742 11111111233 34667999988854
No 68
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=22.06 E-value=4.3e+02 Score=26.46 Aligned_cols=73 Identities=12% Similarity=0.171 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCc-h--HHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcC
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTES-T--LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~~-~--~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (644)
|..+-+..+.+.++++|..+++..... . ...+.+.+...+++.|++... .+. .-+..+. .+.+.||++..++.
T Consensus 13 ~~~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~-~~~--~~~~~i~-~~~~~~iPvV~~~~ 88 (273)
T cd06309 13 WRTAETKSIKDAAEKRGFDLKFADAQQKQENQISAIRSFIAQGVDVIILAPV-VET--GWDPVLK-EAKAAGIPVILVDR 88 (273)
T ss_pred HHHHHHHHHHHHHHhcCCEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEcCC-ccc--cchHHHH-HHHHCCCCEEEEec
Confidence 667888899999999999999875421 1 112233344568888877521 111 1122233 35678999998864
No 69
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=21.47 E-value=2.4e+02 Score=31.59 Aligned_cols=68 Identities=9% Similarity=0.070 Sum_probs=41.1
Q ss_pred HHHHHHHhcCCcEEEEE-CCchHHHHHHHHHH-------cCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEc
Q 006464 61 YLGQSLKSLGAELVLFK-TESTLAALLECISA-------IKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (644)
Q Consensus 61 dL~~~L~~lG~~L~v~~-g~~~~~~L~~l~~~-------~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (644)
.|...|+. |.+++|.. ||..-.+|+.++.+ +.+..+++||...+.+..-.+.+++.|++.||+++...
T Consensus 7 ~l~~~l~~-~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~~~l~a~hvnhglr~~s~~~~~~~~~~~~~l~i~~~~~~ 82 (436)
T PRK10660 7 TLNRQLLT-SRQILVAFSGGLDSTVLLHLLVQWRTENPGVTLRAIHVHHGLSPNADSWVKHCEQVCQQWQVPLVVER 82 (436)
T ss_pred HHHHhcCC-CCeEEEEecCCHHHHHHHHHHHHHHHhcCCCeEEEEEEeCCCCcchHHHHHHHHHHHHHcCCcEEEEE
Confidence 34455554 56666544 44333345555532 24566777876655554444668999999999988753
No 70
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=21.44 E-value=5e+02 Score=26.26 Aligned_cols=70 Identities=16% Similarity=0.160 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCchHHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcC
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (644)
|..+-+..+.+.+++.|..+.+..... .....+.+...+++.|+..-. ... +. +.+.+++.|+++..++.
T Consensus 18 ~~~~~~~gi~~~a~~~g~~~~~~~~~~-~~~~~~~~~~~~~dgiii~~~-~~~----~~-~~~~~~~~~ipvV~~~~ 87 (283)
T cd06279 18 VASQFLAGVAEVLDAAGVNLLLLPASS-EDSDSALVVSALVDGFIVYGV-PRD----DP-LVAALLRRGLPVVVVDQ 87 (283)
T ss_pred cHHHHHHHHHHHHHHCCCEEEEecCcc-HHHHHHHHHhcCCCEEEEeCC-CCC----hH-HHHHHHHcCCCEEEEec
Confidence 556777788899999999998876543 223444556778998887632 111 12 23345778999988854
No 71
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=21.01 E-value=6.5e+02 Score=25.01 Aligned_cols=73 Identities=16% Similarity=0.144 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHh-cCCcEEEEECC-ch---HHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEE
Q 006464 54 WLKQSLSYLGQSLKS-LGAELVLFKTE-ST---LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSY 128 (644)
Q Consensus 54 FLlesL~dL~~~L~~-lG~~L~v~~g~-~~---~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (644)
|..+-+..+.+.+++ .|..+++..+. +. ...+.. +...+++.|+... ........+.+.+.+.||++..+
T Consensus 13 ~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~-l~~~~vdgiii~~----~~~~~~~~~~~~l~~~~iPvv~~ 87 (272)
T cd06301 13 FLTLLRNAMKEHAKVLGGVELQFEDAKNDVATQLSQVEN-FIAQGVDAIIVVP----VDTAATAPIVKAANAAGIPLVYV 87 (272)
T ss_pred HHHHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHH-HHHcCCCEEEEec----CchhhhHHHHHHHHHCCCeEEEe
Confidence 555666677777888 89999986542 21 122323 3456888887652 11122223444567889999988
Q ss_pred cCC
Q 006464 129 NGD 131 (644)
Q Consensus 129 ~~~ 131 (644)
+.+
T Consensus 88 ~~~ 90 (272)
T cd06301 88 NRR 90 (272)
T ss_pred cCC
Confidence 643
No 72
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=20.72 E-value=5.7e+02 Score=26.38 Aligned_cols=72 Identities=15% Similarity=0.206 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCchH---HHHHHHHHHc--CCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEE
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKTESTL---AALLECISAI--KATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSY 128 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g~~~~---~~L~~l~~~~--~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (644)
|..+-+..+++.++++|..+++...+... ..+.+-+... +++.|++... ++ .-+ .+.+.+.+.||++..+
T Consensus 14 ~~~~~~~gi~~~~~~~g~~v~~~~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~-~~---~~~-~~~~~~~~~giPvV~~ 88 (305)
T cd06324 14 FWNSVARFMQAAADDLGIELEVLYAERDRFLMLQQARTILQRPDKPDALIFTNE-KS---VAP-ELLRLAEGAGVKLFLV 88 (305)
T ss_pred HHHHHHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHHHHhccCCCEEEEcCC-cc---chH-HHHHHHHhCCCeEEEE
Confidence 55677788888899999998876543211 1222334456 8998887521 11 112 2334466789999988
Q ss_pred cC
Q 006464 129 NG 130 (644)
Q Consensus 129 ~~ 130 (644)
+.
T Consensus 89 ~~ 90 (305)
T cd06324 89 NS 90 (305)
T ss_pred ec
Confidence 53
No 73
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=20.44 E-value=6.1e+02 Score=25.31 Aligned_cols=73 Identities=14% Similarity=0.147 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEEC---Cch--HHHHHHHHHHcCCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEE
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLFKT---EST--LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSY 128 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~g---~~~--~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (644)
|+.+-+..+.+.++++|..+.+... .+. ...+.+-+...+++.|++.. .+. ..-+..+ +.+.+.||++..+
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~-~~~--~~~~~~~-~~~~~~~iPvV~~ 88 (275)
T cd06320 13 FWRSLKEGYENEAKKLGVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSP-ISD--VNLVPAV-ERAKKKGIPVVNV 88 (275)
T ss_pred HHHHHHHHHHHHHHHhCCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECC-CCh--HHhHHHH-HHHHHCCCeEEEE
Confidence 5556667788888889999988642 122 11223334456899877652 111 1112233 3456789999987
Q ss_pred cC
Q 006464 129 NG 130 (644)
Q Consensus 129 ~~ 130 (644)
+.
T Consensus 89 ~~ 90 (275)
T cd06320 89 ND 90 (275)
T ss_pred CC
Confidence 54
No 74
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=20.44 E-value=3e+02 Score=26.45 Aligned_cols=55 Identities=15% Similarity=0.097 Sum_probs=31.4
Q ss_pred EECCchHHHHHHHHHH----c--CCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEcC
Q 006464 76 FKTESTLAALLECISA----I--KATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (644)
Q Consensus 76 ~~g~~~~~~L~~l~~~----~--~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (644)
+.||..-.+++.++++ . .+..|++++...+....--+.++++|+..||+++.+.-
T Consensus 6 ~SGG~DS~~ll~ll~~~~~~~~~~v~~v~vd~g~~~~~~~~~~~~~~~~~~~gi~~~~~~~ 66 (189)
T TIGR02432 6 VSGGVDSMALLHLLLKLQPKLKIRLIAAHVDHGLRPESDEEAEFVQQFCKKLNIPLEIKKV 66 (189)
T ss_pred eCCCHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCChhHHHHHHHHHHHHHHcCCCEEEEEe
Confidence 3444333345555543 2 34556666554443332334688899999999987753
No 75
>PRK10116 universal stress protein UspC; Provisional
Probab=20.39 E-value=6.2e+02 Score=22.56 Aligned_cols=124 Identities=12% Similarity=0.052 Sum_probs=62.7
Q ss_pred CCCCcEEEEecCCCCCCCCHHHHHHHh----CC-CeEEEEEeCCCccCccCCch----hhHHHHHHHHHHHHHHHHhcCC
Q 006464 1 MGGNRTIVWFRRDLRIEDNPALAAAAR----DG-SVFPVYTWCPKEEGQFYPGR----VSRWWLKQSLSYLGQSLKSLGA 71 (644)
Q Consensus 1 m~~~~~LvWFRrDLRl~DN~AL~~A~~----~~-~vlpvfi~dP~~~~~~~~~~----~~r~FLlesL~dL~~~L~~lG~ 71 (644)
|..++.|+=. |.--+...+|..|+. .+ .+.-++++++.......... .......+..+.|++.....|+
T Consensus 1 ~~~~~ILv~~--D~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 78 (142)
T PRK10116 1 MSYSNILVAV--AVTPESQQLLAKAVSIARPVNGKISLITLASDPEMYNQFAAPMLEDLRSVMQEETQSFLDKLIQDADY 78 (142)
T ss_pred CCCceEEEEc--cCCcchHHHHHHHHHHHHHhCCEEEEEEEccCcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 5444444443 343455788888753 23 56667776542110000000 1111111222334333445565
Q ss_pred c---EEEEECCchHHHHHHHHHHcCCcEEEEecccCchhHHHHHHH-HHHhhhcCcEEEEE
Q 006464 72 E---LVLFKTESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSI-KEKLVELGISVQSY 128 (644)
Q Consensus 72 ~---L~v~~g~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V-~~~l~~~gV~v~~~ 128 (644)
+ .++.. +++.+.+.+.+++.+++-|+..... .....+--.+ .+.+...+++|..+
T Consensus 79 ~~~~~~~~~-G~~~~~I~~~a~~~~~DLiV~g~~~-~~~~~~~~s~a~~v~~~~~~pVLvv 137 (142)
T PRK10116 79 PIEKTFIAY-GELSEHILEVCRKHHFDLVICGNHN-HSFFSRASCSAKRVIASSEVDVLLV 137 (142)
T ss_pred CeEEEEEec-CCHHHHHHHHHHHhCCCEEEEcCCc-chHHHHHHHHHHHHHhcCCCCEEEE
Confidence 4 33333 4667888899999999998885432 2222222123 45566677877665
No 76
>PRK00074 guaA GMP synthase; Reviewed
Probab=20.26 E-value=3.9e+02 Score=30.67 Aligned_cols=75 Identities=7% Similarity=0.095 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEE-ECCchHHHHHHHHHHc---CCcEEEEecccCchhHHHHHHHHHHhhhcCcEEEEEc
Q 006464 54 WLKQSLSYLGQSLKSLGAELVLF-KTESTLAALLECISAI---KATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (644)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~-~g~~~~~~L~~l~~~~---~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (644)
|+.+.++.|++.++. .+++|. .||-.-.+++.++.+. ++..|++++...+ ..+.++.++.+|++.||+++.++
T Consensus 201 ~~~~~~~~l~~~v~~--~~vlva~SGGvDS~vll~ll~~~lg~~v~av~vd~g~~~-~~e~~~~~~~~a~~lgi~~~vvd 277 (511)
T PRK00074 201 FIEEAIEEIREQVGD--KKVILGLSGGVDSSVAAVLLHKAIGDQLTCVFVDHGLLR-KNEAEQVMEMFREHFGLNLIHVD 277 (511)
T ss_pred HHHHHHHHHHHhcCC--CcEEEEeCCCccHHHHHHHHHHHhCCceEEEEEeCCCCC-HHHHHHHHHHHHHHcCCcEEEEc
Confidence 666777778777764 344443 4543334555555443 4666777754433 22344444456789999998876
Q ss_pred CC
Q 006464 130 GD 131 (644)
Q Consensus 130 ~~ 131 (644)
-.
T Consensus 278 ~~ 279 (511)
T PRK00074 278 AS 279 (511)
T ss_pred cH
Confidence 44
Done!