Query 006521
Match_columns 642
No_of_seqs 265 out of 1683
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 00:29:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006521.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006521hhsearch_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 2E-123 4E-128 1037.2 43.6 473 7-481 1-474 (475)
2 COG0415 PhrB Deoxyribodipyrimi 100.0 5E-117 1E-121 953.3 40.9 456 4-484 2-460 (461)
3 PRK10674 deoxyribodipyrimidine 100.0 9E-113 2E-117 948.0 44.6 459 5-485 3-469 (472)
4 TIGR03556 photolyase_8HDF deox 100.0 4E-112 9E-117 942.1 44.3 458 5-483 2-470 (471)
5 TIGR02765 crypto_DASH cryptoch 100.0 4E-101 9E-106 848.0 41.6 415 4-433 1-429 (429)
6 KOG0133 Deoxyribodipyrimidine 100.0 2.4E-91 5.3E-96 759.4 22.9 481 1-490 1-499 (531)
7 TIGR00591 phr2 photolyase PhrI 100.0 2.2E-86 4.7E-91 735.4 31.5 391 4-429 23-454 (454)
8 PF03441 FAD_binding_7: FAD bi 100.0 2.2E-86 4.8E-91 688.9 15.5 273 208-485 1-277 (277)
9 COG3046 Uncharacterized protei 100.0 7.9E-36 1.7E-40 308.7 25.9 384 5-407 3-421 (505)
10 PF00875 DNA_photolyase: DNA p 100.0 1.7E-32 3.7E-37 264.1 16.2 156 6-162 1-157 (165)
11 PF04244 DPRP: Deoxyribodipyri 98.3 6.4E-06 1.4E-10 83.3 11.2 144 7-156 1-153 (224)
12 PF12546 Cryptochrome_C: Blue/ 92.1 0.067 1.5E-06 48.6 1.2 32 513-544 11-43 (121)
13 COG2102 Predicted ATPases of P 84.0 15 0.00032 37.2 11.6 99 19-127 14-117 (223)
14 TIGR00289 conserved hypothetic 83.9 19 0.0004 36.6 12.6 98 20-127 15-116 (222)
15 TIGR00290 MJ0570_dom MJ0570-re 76.9 37 0.0008 34.5 12.0 99 19-127 14-116 (223)
16 cd01994 Alpha_ANH_like_IV This 72.7 32 0.00069 34.1 10.2 97 21-127 15-119 (194)
17 PF01902 ATP_bind_4: ATP-bindi 71.8 18 0.0004 36.6 8.4 98 20-127 15-116 (218)
18 TIGR03679 arCOG00187 arCOG0018 65.3 1E+02 0.0022 31.1 12.2 97 21-127 13-117 (218)
19 PF13167 GTP-bdg_N: GTP-bindin 62.4 68 0.0015 28.1 8.9 66 55-126 6-84 (95)
20 cd01988 Na_H_Antiporter_C The 61.8 1E+02 0.0023 27.0 10.7 83 20-102 14-103 (132)
21 cd01989 STK_N The N-terminal d 60.5 1.3E+02 0.0029 27.2 11.4 85 17-101 11-111 (146)
22 cd01987 USP_OKCHK USP domain i 59.4 1E+02 0.0022 27.1 10.0 78 18-102 12-94 (124)
23 PF10087 DUF2325: Uncharacteri 52.2 55 0.0012 28.3 6.8 69 59-131 12-84 (97)
24 PRK10490 sensor protein KdpD; 50.1 97 0.0021 38.1 10.8 94 29-129 279-373 (895)
25 PF08218 Citrate_ly_lig: Citra 48.3 76 0.0016 31.1 7.5 108 20-129 16-144 (182)
26 COG1087 GalE UDP-glucose 4-epi 47.1 12 0.00026 39.6 2.0 79 378-483 150-243 (329)
27 TIGR01088 aroQ 3-dehydroquinat 45.5 1.1E+02 0.0025 28.7 7.9 69 66-139 37-108 (141)
28 PRK12652 putative monovalent c 44.2 2.2E+02 0.0047 31.1 11.2 107 19-127 19-148 (357)
29 COG1139 Uncharacterized conser 41.6 84 0.0018 35.0 7.4 69 56-128 64-133 (459)
30 PF06574 FAD_syn: FAD syntheta 41.1 46 0.001 31.8 4.9 101 27-129 34-144 (157)
31 PF07476 MAAL_C: Methylasparta 38.5 3E+02 0.0064 28.2 10.1 86 32-127 105-194 (248)
32 TIGR02990 ectoine_eutA ectoine 37.6 1.5E+02 0.0032 30.5 8.2 50 81-133 107-156 (239)
33 cd06313 PBP1_ABC_sugar_binding 37.2 2.2E+02 0.0047 28.9 9.6 73 54-131 13-89 (272)
34 PF02571 CbiJ: Precorrin-6x re 37.2 1.4E+02 0.0029 30.9 7.9 56 72-129 44-100 (249)
35 PRK08057 cobalt-precorrin-6x r 35.8 1.9E+02 0.0041 29.9 8.7 47 81-129 53-99 (248)
36 COG2205 KdpD Osmosensitive K+ 35.4 6E+02 0.013 30.9 13.4 106 18-130 260-374 (890)
37 PRK14719 bifunctional RNAse/5- 35.2 83 0.0018 34.4 6.3 62 64-126 36-99 (360)
38 PLN03194 putative disease resi 34.6 3E+02 0.0065 27.3 9.3 79 60-142 44-127 (187)
39 PRK09982 universal stress prot 34.2 3.6E+02 0.0079 24.5 12.0 114 13-128 11-137 (142)
40 cd00293 USP_Like Usp: Universa 34.1 2.9E+02 0.0064 23.4 9.9 73 29-101 28-101 (130)
41 COG3590 PepO Predicted metallo 33.9 21 0.00046 40.7 1.5 44 382-432 476-519 (654)
42 TIGR00268 conserved hypothetic 32.9 2.3E+02 0.005 29.1 8.9 72 60-133 3-76 (252)
43 PF13407 Peripla_BP_4: Peripla 32.5 1.8E+02 0.0039 28.9 8.0 73 54-131 12-89 (257)
44 PF01220 DHquinase_II: Dehydro 30.1 4.4E+02 0.0095 24.9 9.2 73 63-140 35-110 (140)
45 PRK05395 3-dehydroquinate dehy 29.6 5E+02 0.011 24.7 10.0 69 66-139 39-110 (146)
46 cd06295 PBP1_CelR Ligand bindi 29.3 3.5E+02 0.0076 27.1 9.6 71 54-130 24-95 (275)
47 TIGR02634 xylF D-xylose ABC tr 28.8 3.8E+02 0.0082 27.8 9.9 73 54-130 12-87 (302)
48 TIGR00715 precor6x_red precorr 28.7 3.4E+02 0.0074 28.1 9.3 46 82-129 54-99 (256)
49 PRK13015 3-dehydroquinate dehy 28.6 5.2E+02 0.011 24.6 9.8 71 64-139 37-110 (146)
50 TIGR00273 iron-sulfur cluster- 28.3 1.5E+02 0.0033 33.2 7.1 69 55-127 49-118 (432)
51 cd01540 PBP1_arabinose_binding 28.2 3.6E+02 0.0078 27.2 9.5 73 54-130 13-87 (289)
52 PF08471 Ribonuc_red_2_N: Clas 28.2 1.2E+02 0.0025 26.6 4.7 40 250-289 48-88 (93)
53 PRK10116 universal stress prot 28.0 4.4E+02 0.0095 23.6 13.7 126 1-129 1-138 (142)
54 PF06415 iPGM_N: BPG-independe 27.7 3.4E+02 0.0073 27.7 8.7 75 57-131 14-104 (223)
55 cd06312 PBP1_ABC_sugar_binding 27.2 4.2E+02 0.0091 26.5 9.7 73 54-131 14-91 (271)
56 cd06294 PBP1_ycjW_transcriptio 26.3 3.2E+02 0.0069 27.1 8.6 71 54-130 18-91 (270)
57 cd06305 PBP1_methylthioribose_ 26.1 3.9E+02 0.0085 26.6 9.2 73 54-131 13-89 (273)
58 COG0299 PurN Folate-dependent 26.1 5E+02 0.011 26.0 9.2 103 17-132 38-143 (200)
59 PF03392 OS-D: Insect pheromon 26.0 21 0.00045 31.3 -0.2 11 418-428 84-94 (95)
60 COG3053 CitC Citrate lyase syn 25.7 4.2E+02 0.0091 28.3 9.0 104 23-128 166-294 (352)
61 cd01545 PBP1_SalR Ligand-bindi 25.7 2.4E+02 0.0051 28.1 7.5 73 54-131 13-89 (270)
62 TIGR00884 guaA_Cterm GMP synth 25.0 3.7E+02 0.008 28.7 9.0 74 54-131 2-80 (311)
63 PF05368 NmrA: NmrA-like famil 24.9 2.2E+02 0.0047 28.2 7.0 62 63-128 37-100 (233)
64 PLN02347 GMP synthetase 24.7 3E+02 0.0065 31.8 8.7 77 54-131 214-293 (536)
65 cd06323 PBP1_ribose_binding Pe 24.4 4.6E+02 0.01 25.8 9.4 72 54-130 13-88 (268)
66 cd06279 PBP1_LacI_like_3 Ligan 24.3 4E+02 0.0088 26.9 9.0 71 54-131 18-88 (283)
67 cd01538 PBP1_ABC_xylose_bindin 24.3 4.7E+02 0.01 26.6 9.5 73 54-130 13-88 (288)
68 cd06309 PBP1_YtfQ_like Peripla 23.4 3.9E+02 0.0084 26.8 8.6 72 54-130 13-88 (273)
69 cd06301 PBP1_rhizopine_binding 22.3 5.8E+02 0.012 25.4 9.6 73 54-131 13-90 (272)
70 cd06324 PBP1_ABC_sugar_binding 22.2 5E+02 0.011 26.7 9.4 72 54-130 14-90 (305)
71 cd06297 PBP1_LacI_like_12 Liga 22.0 3.5E+02 0.0075 27.2 7.9 71 54-130 13-86 (269)
72 cd00466 DHQase_II Dehydroquina 21.9 6.8E+02 0.015 23.6 10.1 71 64-139 35-108 (140)
73 COG0191 Fba Fructose/tagatose 21.7 7E+02 0.015 26.4 9.9 70 57-127 61-134 (286)
74 cd06322 PBP1_ABC_sugar_binding 21.5 5.7E+02 0.012 25.3 9.4 72 54-130 13-88 (267)
75 COG1412 Uncharacterized protei 21.1 2.3E+02 0.005 26.6 5.6 47 78-134 83-129 (136)
76 PF11994 DUF3489: Protein of u 20.7 81 0.0018 26.2 2.3 37 326-369 20-56 (72)
77 PF13727 CoA_binding_3: CoA-bi 20.5 1.7E+02 0.0036 27.3 4.8 45 82-128 130-174 (175)
78 cd06320 PBP1_allose_binding Pe 20.4 6.1E+02 0.013 25.3 9.4 73 54-130 13-90 (275)
79 COG3473 Maleate cis-trans isom 20.0 4.2E+02 0.0091 26.9 7.4 71 61-139 89-160 (238)
80 PRK10653 D-ribose transporter 20.0 6.1E+02 0.013 25.9 9.4 73 54-130 40-115 (295)
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=1.6e-123 Score=1037.20 Aligned_cols=473 Identities=70% Similarity=1.273 Sum_probs=409.5
Q ss_pred EEEecCCCCCCCCHHHHHHHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHHHHH
Q 006521 7 IVWFRRDLRIEDNPALAAAARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLAALL 86 (642)
Q Consensus 7 lvWFRrDLRl~DN~AL~~A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~~~~~~L~ 86 (642)
||||||||||+||+||.+|++.++|+||||+||.+++....++++++||++||.+|+++|+++|++|+|+.+++++++|.
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 69999999999999999999877999999999987654445667778999999999999999999999987667899999
Q ss_pred HHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHHHHhccCCC-C
Q 006521 87 ECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDKCLQMQMEP-A 165 (642)
Q Consensus 87 ~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~~f~~f~~~~~~~~~~p-~ 165 (642)
+++++++|++|++|++|++++++||++|+++|++.||+++.|++++|++|+++.+..|++|++|++|+++++..+..+ .
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 999999999999999999999999999999999999999999999999999999888899999999999988754322 1
Q ss_pred CCCCCcccccCCCCCCCCCcccCCCCcchhhhhhhccCCCCCcchhhHHHHHHHHHHHHhhhhhhcccCCCCCCCCCCch
Q 006521 166 SILPPWRLVQAAGTIDGCSIEDLGLEDESEKSSNALLGRGWSPGWSNADKVLTEFVEQHLLRYYKNRQKLGGNSTSLLSP 245 (642)
Q Consensus 166 ~~~~p~~~~p~~~~~~~~~le~l~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~Rd~~~~~~tS~LSP 245 (642)
+..+|..+ +.. ....++++.+++...............|+|||.+|+++|++||++++.+|.++||.|+.++||+|||
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 1111122333432211000111112248999999999999999999999999999999999999999
Q ss_pred hhhcCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHHHHHHHHHHhCCCCCCCccccccCCCCCCCChhhHH
Q 006521 246 YLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLREYSRYLCFNFPFTHERPLLSNLKYFPWHADLGNFK 325 (642)
Q Consensus 246 yL~fG~LSpReV~~~~~~~~~~~~~~~~~~~~~s~~~fireL~WREf~~~l~~~~P~~~~~~~~~~~~~~pW~~d~~~~~ 325 (642)
||+|||||||+|++++..+......++.....+|++.|++||+|||||+++++++|.+...++...++.++|..|++.|+
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 99999999999999986322111112223345678899999999999999999999876667776777899999999999
Q ss_pred HHhcCCCCcHHHHHHHHHHHHhCccchHHHHHHHHHHHhhcCCCchHHHHHHHHhcccccCCCCccchhhhhCCCCCCCC
Q 006521 326 AWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWGMKYFWDTLLDADLECDILGWQYISGSLPDGHE 405 (642)
Q Consensus 326 aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G~~~F~~~LiD~D~a~N~g~Wqw~AG~g~d~~p 405 (642)
+|++|+|||||||||||||++|||||||+||||||||||+|+||||+|++||+++|||||+|+|+|||||+||||+|+.|
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 006521 406 LERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHHPWDAPPNVLKAAGVELGLNYPKPIIDLDLGRERLTQAI 481 (642)
Q Consensus 406 y~RifNP~~q~~k~Dp~G~YIrrWvPEL~~lp~~~Ih~PW~~p~~~~~~~g~~~g~~YP~PIvd~~~ar~~~~~~~ 481 (642)
|||||||++|++||||+|+|||||||||+++|+++||+||++|..+|+++||.+|.+||.|||||+++|+++++++
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 9999999999999999999999999999999999999999999999999999999999999999999999999886
No 2
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=100.00 E-value=4.7e-117 Score=953.30 Aligned_cols=456 Identities=34% Similarity=0.583 Sum_probs=400.8
Q ss_pred CcEEEEecCCCCCCCCHHHHHHHhCC-C-eEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCch
Q 006521 4 NRTIVWFRRDLRIEDNPALAAAARDG-S-VFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTEST 81 (642)
Q Consensus 4 ~~~lvWFRrDLRl~DN~AL~~A~~~~-~-vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~~~ 81 (642)
+.+|||||||||++||+||++|++.+ + ++.|||++|.+++ ..++.+.+||.+||++|+++|+++|++|+|..+ ++
T Consensus 2 ~~~l~WfrrDLR~~DN~aL~~A~~~~~~~~~~vfi~~~~~~~--~~~~~~~~Fl~~sL~~L~~~L~~~gi~L~v~~~-~~ 78 (461)
T COG0415 2 STVLVWFRRDLRLTDNAALAAACQSGQPVIIAVFILDPEQLG--HASPRHAAFLLQSLQALQQSLAELGIPLLVREG-DP 78 (461)
T ss_pred CeEEEEeccccccCChHHHHHHHhcCCCceEEEEEechhhcc--ccCHHHHHHHHHHHHHHHHHHHHcCCceEEEeC-CH
Confidence 36899999999999999999999876 3 6789999998876 345566779999999999999999999999986 56
Q ss_pred HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHHHHhcc
Q 006521 82 LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDKCLQMQ 161 (642)
Q Consensus 82 ~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~~f~~f~~~~~~~~ 161 (642)
..+|.+++++.+++.|++|.+|++.+..||.+|+..|.+.||.++.|++.+|++|+++.+..|++|++|++|+++|.+..
T Consensus 79 ~~~l~~~~~~~~~~~v~~n~~~~~~~~~rD~al~~~l~~~gi~~~~~~d~~l~~p~~~~t~~~~~y~vfT~F~k~~~~~~ 158 (461)
T COG0415 79 EQVLPELAKQLAATTVFWNRDYEEWERQRDAALAQPLTEVGIAVHSFWDALLHEPGEVRTGSGEPYKVFTPFYKAWRDRL 158 (461)
T ss_pred HHHHHHHHHHhCcceEEeeeeechhHHHHHHHHHHHHHhcCceEEEeccccccCHhhccCCCCCCccccchHHHHHHHhc
Confidence 88999999999999999999999999999999999999999999999999999999999999999999999999988763
Q ss_pred CCCCCCCCCcccccCCCCCCCCCcccCCCCcchhhhhhhccCCCCCcchhhHHHHHHHHHHHHhhhhhhcccCCCCCCCC
Q 006521 162 MEPASILPPWRLVQAAGTIDGCSIEDLGLEDESEKSSNALLGRGWSPGWSNADKVLTEFVEQHLLRYYKNRQKLGGNSTS 241 (642)
Q Consensus 162 ~~p~~~~~p~~~~p~~~~~~~~~le~l~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~Rd~~~~~~tS 241 (642)
..+.+...|..+.+..... +......+.+ ........|.|||.+|+++|++|+.+++.+|...||.|+.++||
T Consensus 159 ~~~~~~~~p~~~~~~~~~~--~~~~~~~~P~-----~~~~~~~~~~~Ge~aA~~~l~~F~~~~l~~Y~~~Rd~p~~~~TS 231 (461)
T COG0415 159 RILRPVPAPDVLDALRDEE--PPPEEISLPD-----FSKFDVLLFTGGEKAALARLQDFLAEGLDDYERTRDFPALDGTS 231 (461)
T ss_pred ccCCCCCCcchhccccccc--cCcccccCCc-----cccccccCCCchHHHHHHHHHHHHHHHHHHHHHhcCCccccccc
Confidence 3222222222111110000 0000110110 00011235899999999999999999999999999999999999
Q ss_pred CCchhhhcCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHHHHHHHHHHhCCCC-CCCccccccCCCCCCCC
Q 006521 242 LLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLREYSRYLCFNFPFT-HERPLLSNLKYFPWHAD 320 (642)
Q Consensus 242 ~LSPyL~fG~LSpReV~~~~~~~~~~~~~~~~~~~~~s~~~fireL~WREf~~~l~~~~P~~-~~~~~~~~~~~~pW~~d 320 (642)
+|||||+||+||||+||+++++... ...+++..|++||+|||||++++.++|.. ...++......++|.+|
T Consensus 232 ~LSpyL~~G~IS~r~v~~~~~~~~~--------~~~~~~~~~~~eL~WREFy~h~~~~~p~~~~~~~~~~~~~~~~w~~~ 303 (461)
T COG0415 232 RLSPYLAFGVISPREVYAALLAAES--------DAREGTAALINELIWREFYQHLLYHYPSLSRFEPFAEKTLNIPWEDN 303 (461)
T ss_pred ccCHHHHcCCcCHHHHHHHHHHhhh--------cccchHHHHHHHHHHHHHHHHHHHhCCcccccccccccccCCccccC
Confidence 9999999999999999999876431 14567889999999999999999999998 77788888889999999
Q ss_pred hhhHHHHhcCCCCcHHHHHHHHHHHHhCccchHHHHHHHHHHHhhcCCCchHHHHHHHHhcccccCCCCccchhhhhCCC
Q 006521 321 LGNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWGMKYFWDTLLDADLECDILGWQYISGSL 400 (642)
Q Consensus 321 ~~~~~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G~~~F~~~LiD~D~a~N~g~Wqw~AG~g 400 (642)
+..|++|++|+|||||||||||||++||||||||||+|||||||+|.||||+|++||+++|||||+|+|+|||||+||||
T Consensus 304 ~~~f~aW~~G~TGyPIVDA~MRqL~~TG~MHNR~RMivAsFL~k~L~IdWR~GE~~F~~~LiD~D~asN~ggWQW~AstG 383 (461)
T COG0415 304 PAHFQAWQEGKTGYPIVDAAMRQLNQTGYMHNRMRMIVASFLTKDLLIDWREGEKYFMRQLIDGDPASNNGGWQWAASTG 383 (461)
T ss_pred HHHHHHHhcCCCCCccccHHHHHHHHhCCcchHHHHHHHHHHHHhcCCCHHHHHHHHHHhccCCCcccCCCCeeEEeccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcccccCccccccccCCcchhhhhccccccCCCCCcccCCCCCChhHHHHcCCcCCCCCCcCCCChHHHHHHHHHH
Q 006521 401 PDGHELERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHHPWDAPPNVLKAAGVELGLNYPKPIIDLDLGRERLTQA 480 (642)
Q Consensus 401 ~d~~py~RifNP~~q~~k~Dp~G~YIrrWvPEL~~lp~~~Ih~PW~~p~~~~~~~g~~~g~~YP~PIvd~~~ar~~~~~~ 480 (642)
+|+.||||||||++|++||||+|.|||+|||||++||+++||+||+++. +.+|.+||+|||||+++|++++++
T Consensus 384 ~Da~pyfRiFNp~~Q~~kfDp~g~fIr~wvPeL~~~~~~~ih~p~~~~~-------~~~~~~YP~piVd~~~~r~~a~~~ 456 (461)
T COG0415 384 TDAAPYFRIFNPVTQAEKFDPDGEFIRRWVPELRNLPDKYIHEPWELSE-------VVLGVDYPKPIVDHKESREQALAA 456 (461)
T ss_pred CCCCcceeccCHHHHHhhcCCCcccHHhhCHHhhCCChhhccChhhccc-------ccccCCCCccccccHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999986 678999999999999999999999
Q ss_pred HHHh
Q 006521 481 IFKM 484 (642)
Q Consensus 481 ~~~~ 484 (642)
++.+
T Consensus 457 y~~~ 460 (461)
T COG0415 457 YEAA 460 (461)
T ss_pred HHhc
Confidence 9764
No 3
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=8.5e-113 Score=947.96 Aligned_cols=459 Identities=30% Similarity=0.518 Sum_probs=388.1
Q ss_pred cEEEEecCCCCCCCCHHHHHHHhCC--CeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC---C
Q 006521 5 RTIVWFRRDLRIEDNPALAAAARDG--SVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT---E 79 (642)
Q Consensus 5 ~~lvWFRrDLRl~DN~AL~~A~~~~--~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~---~ 79 (642)
.+|||||||||++||+||.+|++.+ +|+||||+||........+..+.+||++||.+|+++|+++|++|+|+.| +
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 4699999999999999999998754 6999999999765433345666679999999999999999999999986 3
Q ss_pred chHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHHHHh
Q 006521 80 STLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDKCLQ 159 (642)
Q Consensus 80 ~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~~f~~f~~~~~~ 159 (642)
++.++|.+++++++|+.|+++++|++++++||++|+++|. ||.++.|++++|++|+.+....|.+|++|++|++++..
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 6789999999999999999999999999999999999996 89999999999999999988888999999999999866
Q ss_pred ccCCCCC--CCCCcccccCCCCCCCCCcccCCCCcchhhhhhhccCCCCCcchhhHHHHHHHHHHHHhhhhhhcccCCCC
Q 006521 160 MQMEPAS--ILPPWRLVQAAGTIDGCSIEDLGLEDESEKSSNALLGRGWSPGWSNADKVLTEFVEQHLLRYYKNRQKLGG 237 (642)
Q Consensus 160 ~~~~p~~--~~~p~~~~p~~~~~~~~~le~l~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~Rd~~~~ 237 (642)
....+.+ ...|....+ .....+++..+++.. .. .....|+|||.+|+++|++|+++++.+|...||.|+.
T Consensus 161 ~~~~~~p~~~~~p~~~~~--~~~~~~~~~~~~~~~---~~---~~~~~~~gGe~~A~~~L~~f~~~~l~~Y~~~r~~p~~ 232 (472)
T PRK10674 161 RLREGDPECVPAPKVRSS--GAIEPLPPIPFNYPQ---QS---FDTALFPVGEKAAIAQLRQFCQQGAGEYEQQRDFPAV 232 (472)
T ss_pred hhcccCCccCCCCccccc--cccCCCCcccccCcc---cc---cccCCCCCCHHHHHHHHHHHHHHHHHHhccccCCCCc
Confidence 3222111 111111100 000011111122211 00 0112489999999999999999999999999999998
Q ss_pred CCCCCCchhhhcCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHHHHHHHHHHhCCCCCC-CccccccCCCC
Q 006521 238 NSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLREYSRYLCFNFPFTHE-RPLLSNLKYFP 316 (642)
Q Consensus 238 ~~tS~LSPyL~fG~LSpReV~~~~~~~~~~~~~~~~~~~~~s~~~fireL~WREf~~~l~~~~P~~~~-~~~~~~~~~~p 316 (642)
++||+|||||+|||||||+|++++.+... ... ...+.+.|++||+|||||+++++++|.+.. .++.+..+.++
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 112345699999999999999999998644 24555556678
Q ss_pred CCCChhhHHHHhcCCCCcHHHHHHHHHHHHhCccchHHHHHHHHHHHhhcCCCchHHHHHHHHhcccccCCCCccchhhh
Q 006521 317 WHADLGNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWGMKYFWDTLLDADLECDILGWQYI 396 (642)
Q Consensus 317 W~~d~~~~~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G~~~F~~~LiD~D~a~N~g~Wqw~ 396 (642)
|.+|++.|++|++|+|||||||||||||++|||||||+||+|||||||+|+||||+|++||+++|||||+|+|+|||||+
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 006521 397 SGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHHPWDAPPNVLKAAGVELGLNYPKPIIDLDLGRER 476 (642)
Q Consensus 397 AG~g~d~~py~RifNP~~q~~k~Dp~G~YIrrWvPEL~~lp~~~Ih~PW~~p~~~~~~~g~~~g~~YP~PIvd~~~ar~~ 476 (642)
||||+|.+||+|||||++|++||||+|+|||||||||++||.++||+||+++. ++||. .+||+|||||+.+|++
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 006521 477 LTQAIFKMW 485 (642)
Q Consensus 477 ~~~~~~~~~ 485 (642)
|+++|+.++
T Consensus 461 ~~~~~~~~~ 469 (472)
T PRK10674 461 TLAAYEAAR 469 (472)
T ss_pred HHHHHHHHh
Confidence 999998864
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=4.3e-112 Score=942.09 Aligned_cols=458 Identities=31% Similarity=0.529 Sum_probs=393.7
Q ss_pred cEEEEecCCCCCCCCHHHHHHHhCC-CeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHH
Q 006521 5 RTIVWFRRDLRIEDNPALAAAARDG-SVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLA 83 (642)
Q Consensus 5 ~~lvWFRrDLRl~DN~AL~~A~~~~-~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~~~~~ 83 (642)
.+|||||||||++||+||.+|++.+ +|+||||++|..+.....+..+.+||++||.+|+++|+++|++|+|+.| ++.+
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 5899999999999999999999765 7999999999865443345666779999999999999999999999986 6788
Q ss_pred HHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHHHHhccCC
Q 006521 84 ALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDKCLQMQME 163 (642)
Q Consensus 84 ~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~~f~~f~~~~~~~~~~ 163 (642)
+|.+++++++|++|+++.+|++++++||++|+++|+..||.|+.+.+++|++|+.+....|.+|++|++|+++++..+..
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 99999999999999999999999999999999999999999999999999999999888889999999999998765322
Q ss_pred CCCCCCCccccc---CC----CCCC---CCCcccCCCCcchhhhhhhccCCCCCcchhhHHHHHHHHHHHHhhhhhhccc
Q 006521 164 PASILPPWRLVQ---AA----GTID---GCSIEDLGLEDESEKSSNALLGRGWSPGWSNADKVLTEFVEQHLLRYYKNRQ 233 (642)
Q Consensus 164 p~~~~~p~~~~p---~~----~~~~---~~~le~l~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~Rd 233 (642)
.+..+|..+.+ .. ..+. .++++.+++.. .. ...|+|||.+|+++|++|+++++.+|..+||
T Consensus 161 -~~~~~p~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~-----~~---~~~~~gGe~~A~~~L~~f~~~~l~~Y~~~r~ 231 (471)
T TIGR03556 161 -TPVATPTELEGLTEAELEAAAPLGVIALPTAKDLGFDW-----DG---DLILEPGETAAQARLEEFCDRAIADYQEQRN 231 (471)
T ss_pred -CCCCCccccccCCccccccccccccccCCccccccccc-----cc---ccCCCCcHHHHHHHHHHHHHHHHHHhhhccC
Confidence 12222211110 00 0000 11222222221 01 1248999999999999999999999999999
Q ss_pred CCCCCCCCCCchhhhcCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHHHHHHHHHHhCCCCCCCccccccC
Q 006521 234 KLGGNSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLREYSRYLCFNFPFTHERPLLSNLK 313 (642)
Q Consensus 234 ~~~~~~tS~LSPyL~fG~LSpReV~~~~~~~~~~~~~~~~~~~~~s~~~fireL~WREf~~~l~~~~P~~~~~~~~~~~~ 313 (642)
.|+.++||+|||||+|||||||+|++++.+.... ........+++.|++||+|||||+++++++|.+...++...+.
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 1112234567889999999999999999999987777777778
Q ss_pred CCCCCCChhhHHHHhcCCCCcHHHHHHHHHHHHhCccchHHHHHHHHHHHhhcCCCchHHHHHHHHhcccccCCCCccch
Q 006521 314 YFPWHADLGNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWGMKYFWDTLLDADLECDILGW 393 (642)
Q Consensus 314 ~~pW~~d~~~~~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G~~~F~~~LiD~D~a~N~g~W 393 (642)
.++|..+++.|++|++|+|||||||||||||++|||||||+||+|||||||+|+||||+|++||+++|||||+|+|+|||
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 006521 394 QYISGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHHPWDAPPNVLKAAGVELGLNYPKPIIDLDLG 473 (642)
Q Consensus 394 qw~AG~g~d~~py~RifNP~~q~~k~Dp~G~YIrrWvPEL~~lp~~~Ih~PW~~p~~~~~~~g~~~g~~YP~PIvd~~~a 473 (642)
||+||||+|++| ||||||++|++||||+|+|||||||||++||+++||+||.++. .++ +.+||+|||||+.+
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-LRIFNPASQAQKFDPEAEYIRRWLPELRSVDTKDLVTGKITPL-ERR------AVGYPLPIVDHNQQ 460 (471)
T ss_pred cchhcCCCCCCC-CcccCHHHHHHHhCCCCchHHHhCHhhccCCHhhhcCcccCch-hhh------ccCCCCCCCCHHHH
Confidence 999999999999 7999999999999999999999999999999999999998773 333 23799999999999
Q ss_pred HHHHHHHHHH
Q 006521 474 RERLTQAIFK 483 (642)
Q Consensus 474 r~~~~~~~~~ 483 (642)
|+++++++++
T Consensus 461 r~~~~~~~~~ 470 (471)
T TIGR03556 461 QQLFKQLYQQ 470 (471)
T ss_pred HHHHHHHHhh
Confidence 9999999864
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=3.9e-101 Score=847.97 Aligned_cols=415 Identities=29% Similarity=0.453 Sum_probs=342.2
Q ss_pred CcEEEEecCCCCCCCCHHHHHHHhCC-CeEEEEEeCCCccCc------cCCchhhHHHHHHHHHHHHHHHHhcCCcEEEE
Q 006521 4 NRTIVWFRRDLRIEDNPALAAAARDG-SVFPVYTWCPKEEGQ------FYPGRVSRWWLKQSLSYLGQSLKSLGAELVLF 76 (642)
Q Consensus 4 ~~~lvWFRrDLRl~DN~AL~~A~~~~-~vlpvfi~dP~~~~~------~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~ 76 (642)
+.+|||||||||++||+||.+|++.+ +|+||||+||..+.. ...+..+.+||++||.+|+++|+++|++|+++
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 799999999986542 12355566799999999999999999999999
Q ss_pred ECCchHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHH
Q 006521 77 KTESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDK 156 (642)
Q Consensus 77 ~~~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~~f~~f~~~ 156 (642)
.| ++.++|.+++++++|++|+++++|++++++||++|+++|++.||.++.+++++|++|++|....|.+|++|++|+++
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 67889999999999999999999999999999999999999999999999999999999988888999999999999
Q ss_pred HHhccCCCCCCCCCcccccCCC---CCCCCCcccCCCCcchhhhhhhccCCCCCcchhhHHHHHHHHHH-HHhhhhhhcc
Q 006521 157 CLQMQMEPASILPPWRLVQAAG---TIDGCSIEDLGLEDESEKSSNALLGRGWSPGWSNADKVLTEFVE-QHLLRYYKNR 232 (642)
Q Consensus 157 ~~~~~~~p~~~~~p~~~~p~~~---~~~~~~le~l~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~-~~l~~Y~~~R 232 (642)
+......+.+.++|..+.+.+. ....++++++++.... ......|+|||.+|+++|++||. +.+..|...|
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 6542111111222221111010 0001223333322100 01122489999999999999998 4688999999
Q ss_pred cCC-CCCCCCCCchhhhcCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHHHHHHHHHHhCCC-CCC-Cccc
Q 006521 233 QKL-GGNSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLREYSRYLCFNFPF-THE-RPLL 309 (642)
Q Consensus 233 d~~-~~~~tS~LSPyL~fG~LSpReV~~~~~~~~~~~~~~~~~~~~~s~~~fireL~WREf~~~l~~~~P~-~~~-~~~~ 309 (642)
|.+ +.++||+|||||+|||||||+|++++.+... .....++...|++||+|||||+++++++|. +.. ..+.
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 5678999999999999999999999865320 111123445577799999999998888874 221 2222
Q ss_pred cccCCCCCCCChhhHHHHhcCCCCcHHHHHHHHHHHHhCccchHHHHHHHHHHHhhcCCCchHHHHHHHHhcccccCCCC
Q 006521 310 SNLKYFPWHADLGNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWGMKYFWDTLLDADLECD 389 (642)
Q Consensus 310 ~~~~~~pW~~d~~~~~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G~~~F~~~LiD~D~a~N 389 (642)
. ..++|..|++.|++|++|+|||||||||||||++|||||||+||+|||||||+|+||||+|++||+++|||||+|+|
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 006521 390 ILGWQYISGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPEL 433 (642)
Q Consensus 390 ~g~Wqw~AG~g~d~~py~RifNP~~q~~k~Dp~G~YIrrWvPEL 433 (642)
+|||||+||||+|+.| ||||||++|++||||+|+|||||||||
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=2.4e-91 Score=759.37 Aligned_cols=481 Identities=36% Similarity=0.576 Sum_probs=413.6
Q ss_pred CCC-CcEEEEecCCCCCCCCHHHHHHHh-CCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC
Q 006521 1 MGG-NRTIVWFRRDLRIEDNPALAAAAR-DGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT 78 (642)
Q Consensus 1 m~~-~~~lvWFRrDLRl~DN~AL~~A~~-~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~ 78 (642)
|++ .++|+|||+|||+||||||.+|++ .++|.||||+||+.++...+|+.+.+||+|+|++|+++|+++|++|+++++
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 689999999999999999966654 568999999999998888899999999999999999999999999999998
Q ss_pred CchHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCeeecCccccccc-CCcccchHHHHHHH
Q 006521 79 ESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDER-GHAFTTFDAYWDKC 157 (642)
Q Consensus 79 ~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~-g~~~~~f~~f~~~~ 157 (642)
. ++.+|..+.+.++++.|.++.+++|+.+.||..++..|.+.|+.+....+++++.|+.+...+ |+++.+|..|+..+
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 6 789999999999999999999999999999999999999999999999999999999998886 68888999999876
Q ss_pred HhccCCCCCCCC-CcccccCCC--------CCCCCCcccCCCCcchhhhhhhccCCCCCcchhhHHHHHHHHHHHHhhhh
Q 006521 158 LQMQMEPASILP-PWRLVQAAG--------TIDGCSIEDLGLEDESEKSSNALLGRGWSPGWSNADKVLTEFVEQHLLRY 228 (642)
Q Consensus 158 ~~~~~~p~~~~~-p~~~~p~~~--------~~~~~~le~l~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y 228 (642)
..+.....|... .....+... ....++++.+++.. ++.. ...|+||++.|+.+|++||...+-.+
T Consensus 160 ~~~~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~-----~~~~-~~~~~~g~s~al~~l~~~l~~~~~~a 233 (531)
T KOG0133|consen 160 QSMSAPKIPALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIP-----SNYG-EVVWRGGESEALKRLDAHLKVPLWVA 233 (531)
T ss_pred cccccccccccccccccCCCChhhhhhcccccccCCchhhccCc-----cccc-ccccCCcccchhHHHHHHhhHHHHHh
Confidence 655332221111 111111100 01123445554433 1211 12389999999999999998874443
Q ss_pred hhc--ccCC---CCCCCCCCchhhhcCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHHHHHHHHHHhCCCC
Q 006521 229 YKN--RQKL---GGNSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLREYSRYLCFNFPFT 303 (642)
Q Consensus 229 ~~~--Rd~~---~~~~tS~LSPyL~fG~LSpReV~~~~~~~~~~~~~~~~~~~~~s~~~fireL~WREf~~~l~~~~P~~ 303 (642)
... ..+. ...+++.|||||+|||||+|.+++.....+..+..+.++.+.+| .|+.||+||||+++++.+.|.+
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 333 3332 24678899999999999999999755444445554555555555 6899999999999999999998
Q ss_pred CCCccccccCCCCCCCChhhHHHHhcCCCCcHHHHHHHHHHHHhCccchHHHHHHHHHHHh-hcCCCchHHHHHHHHhcc
Q 006521 304 HERPLLSNLKYFPWHADLGNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVK-VLLLPWRWGMKYFWDTLL 382 (642)
Q Consensus 304 ~~~~~~~~~~~~pW~~d~~~~~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk-~L~idWr~G~~~F~~~Li 382 (642)
+.+.+...+.+|||+.|+..+++|.+|+||||+|||+||||+++|||||+.|++||||+|| +|+|+|++|+++|+++|+
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 8888888889999999999999999999999999999999999999999999999999999 899999999999999999
Q ss_pred cccCCCCccchhhhhCCCCCCCCcccccCccccccccCCcchhhhhccccccCCCCCcccCCCCCChhHHHHcCCcCCCC
Q 006521 383 DADLECDILGWQYISGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHHPWDAPPNVLKAAGVELGLN 462 (642)
Q Consensus 383 D~D~a~N~g~Wqw~AG~g~d~~py~RifNP~~q~~k~Dp~G~YIrrWvPEL~~lp~~~Ih~PW~~p~~~~~~~g~~~g~~ 462 (642)
|+|+.+|.|||||++|+..++.+|+|||||+.+++++||+|.|||+|+|||++.|.+|||+||.+|..+|++++|.+|.|
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 CCcCCCChHHHHHHHHHHHHHhHhhHHh
Q 006521 463 YPKPIIDLDLGRERLTQAIFKMWEMEAA 490 (642)
Q Consensus 463 YP~PIvd~~~ar~~~~~~~~~~~~~~~~ 490 (642)
||+|||+++.++++.+++++.|++..+.
T Consensus 472 Yp~~iv~~~~a~k~~~e~~~~~~~~~~~ 499 (531)
T KOG0133|consen 472 YPKPIVKLASAAKRNMEAMGCMWSIGAV 499 (531)
T ss_pred cchhhhhhHHhhHhHHHHHHHHHhhccc
Confidence 9999999999999999999999987633
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=2.2e-86 Score=735.40 Aligned_cols=391 Identities=19% Similarity=0.252 Sum_probs=316.6
Q ss_pred CcEEEEecCCCCCCCCHHHHHHHh-----CCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC
Q 006521 4 NRTIVWFRRDLRIEDNPALAAAAR-----DGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT 78 (642)
Q Consensus 4 ~~~lvWFRrDLRl~DN~AL~~A~~-----~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~ 78 (642)
..+|||||||||++||+||.+|++ .++|+||||+||..+. .+..+.+||++||.+|+++|+++|++|+|+.|
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 458999999999999999999965 3379999999997653 35666779999999999999999999999976
Q ss_pred CchHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHHHH
Q 006521 79 ESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDKCL 158 (642)
Q Consensus 79 ~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~~f~~f~~~~~ 158 (642)
++..+|.+++++++|++|+++.++++++++||+.|++.|++ +|.++.|++++|++|+.+.++ .+|++|++|.+..
T Consensus 100 -~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~rd~~v~~~l~~-~i~~~~~~~~~l~p~~~~~~~--~~y~~ft~~~k~~- 174 (454)
T TIGR00591 100 -PPKELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLLPK-DVPFQQVDAHNVVPCWAASKK--LEYAARTIRGKIR- 174 (454)
T ss_pred -ChHHHHHHHHHHcCCCEEEEecccCcHHHHHHHHHHHHhcC-CCcEEEECCceEeeCcccCCc--eeeeeecHHHHHH-
Confidence 56889999999999999999999999999999999999965 999999999999999888765 5777777666542
Q ss_pred hccCCCCCCCCCcccccCCCCCCCCCc------ccCCCCcchhhhhhhccCCCC-CcchhhHHHHHHHHHHHHhhhhhhc
Q 006521 159 QMQMEPASILPPWRLVQAAGTIDGCSI------EDLGLEDESEKSSNALLGRGW-SPGWSNADKVLTEFVEQHLLRYYKN 231 (642)
Q Consensus 159 ~~~~~p~~~~~p~~~~p~~~~~~~~~l------e~l~~~~~~~~~~~~~~~~~~-~gGe~~A~~~L~~Fl~~~l~~Y~~~ 231 (642)
.......+..++....+.+......+. +.+++.. ......| +|||.+|+++|++|+++++.+|..+
T Consensus 175 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~gGe~aA~~~L~~F~~~~l~~Y~~~ 247 (454)
T TIGR00591 175 KLLPEYLTEFPRVLKHPSPLDLEAGPVDWDAVRDSLAVER-------SVEEVVWAKPGTTAGLIMLESFIEKRLCFFRTR 247 (454)
T ss_pred HhChhhccccCCCccCCcccccccCcCCHHHHHHhccCcC-------CcCCcCCCCCcHHHHHHHHHHHHHHHHHHHHHh
Confidence 111000000000000010000000000 0111100 0111237 9999999999999999999999999
Q ss_pred ccCCCCCCCCCCchhhhcCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHH-HHHHHHHHhCCCCCCCcccc
Q 006521 232 RQKLGGNSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAMGLR-EYSRYLCFNFPFTHERPLLS 310 (642)
Q Consensus 232 Rd~~~~~~tS~LSPyL~fG~LSpReV~~~~~~~~~~~~~~~~~~~~~s~~~fireL~WR-Ef~~~l~~~~P~~~~~~~~~ 310 (642)
||.|+.++||+||||||||+||||+|++++.+.. . ....+++.|++||+|| ||++++++++|.+.. +..
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 9999999999999999999999999999975321 1 1234567899999999 899999999998753 221
Q ss_pred ccCCCCCC--------CCh-h---hHHHHhcCCCCcHHHHHHHHHHHHhCccchHHHHHHHHHHHhhcCCCchHHHHHHH
Q 006521 311 NLKYFPWH--------ADL-G---NFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWGMKYFW 378 (642)
Q Consensus 311 ~~~~~pW~--------~d~-~---~~~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G~~~F~ 378 (642)
...|. .|. + .|++|++|+||||+||||||||++|||||||+||+|| |+| |||+.|++||+
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 006521 379 D--------TLLDADLECDILGWQYISGSLPDGHEL-----E---RLDSPEIQGSKFDPEGEYVRQW 429 (642)
Q Consensus 379 ~--------~LiD~D~a~N~g~Wqw~AG~g~d~~py-----~---RifNP~~q~~k~Dp~G~YIrrW 429 (642)
+ +|||||+|+|+|||||+ |||+|..|| | |+|||++|++||||+| |||||
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=2.2e-86 Score=688.92 Aligned_cols=273 Identities=42% Similarity=0.747 Sum_probs=244.5
Q ss_pred cchhhHHHHHHHHHHHHhhhhhhcccCCCCCCCCCCchhhhcCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHHH
Q 006521 208 PGWSNADKVLTEFVEQHLLRYYKNRQKLGGNSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRAM 287 (642)
Q Consensus 208 gGe~~A~~~L~~Fl~~~l~~Y~~~Rd~~~~~~tS~LSPyL~fG~LSpReV~~~~~~~~~~~~~~~~~~~~~s~~~fireL 287 (642)
|||++|+++|+.||+++|..|.+.||.|+.++||+|||||+|||||||+|++++.+... ......++++.|++||
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 79999999999999999999999999999999999999999999999999999986541 0111236789999999
Q ss_pred HHHHHHHHHHHhCCCCC-CCccccccCCCCCC---CChhhHHHHhcCCCCcHHHHHHHHHHHHhCccchHHHHHHHHHHH
Q 006521 288 GLREYSRYLCFNFPFTH-ERPLLSNLKYFPWH---ADLGNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAV 363 (642)
Q Consensus 288 ~WREf~~~l~~~~P~~~-~~~~~~~~~~~pW~---~d~~~~~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLt 363 (642)
+||||++++++++|.+. ..++.+.++.++|. .+++.|++|++|+|||||||||||||++|||||||+|||||||||
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 677899999999999999999999999999999999999999999
Q ss_pred hhcCCCchHHHHHHHHhcccccCCCCccchhhhhCCCCCCCCcccccCccccccccCCcchhhhhccccccCCCCCcccC
Q 006521 364 KVLLLPWRWGMKYFWDTLLDADLECDILGWQYISGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHH 443 (642)
Q Consensus 364 k~L~idWr~G~~~F~~~LiD~D~a~N~g~Wqw~AG~g~d~~py~RifNP~~q~~k~Dp~G~YIrrWvPEL~~lp~~~Ih~ 443 (642)
|+|+|||+.|++||+++|||||+|+|+|||||+||+|+|+.||+|||||++|+++|||+|+|||||||||++||+++||+
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 CCCCChhHHHHcCCcCCCCCCcCCCChHHHHHHHHHHHHHhH
Q 006521 444 PWDAPPNVLKAAGVELGLNYPKPIIDLDLGRERLTQAIFKMW 485 (642)
Q Consensus 444 PW~~p~~~~~~~g~~~g~~YP~PIvd~~~ar~~~~~~~~~~~ 485 (642)
||+++..+|+++||.+|.+||+|||||+++|++++++|++++
T Consensus 236 p~~~~~~~~~~~~~~~~~~YP~pivd~~~~r~~~~~~~~~~~ 277 (277)
T PF03441_consen 236 PWKAPPAVQKAAGCVLGNDYPKPIVDHKEARKRALKRYKAAY 277 (277)
T ss_dssp CHGSHHHHHHHCT-CTTTSSBTSSSHHHHHHHHHHHHHHHH-
T ss_pred hhccChHHHHHhCCccCCCCCcccCCHHHHHHHHHHHHHhcC
Confidence 999999999999999999999999999999999999998863
No 9
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=100.00 E-value=7.9e-36 Score=308.70 Aligned_cols=384 Identities=18% Similarity=0.201 Sum_probs=285.2
Q ss_pred cEEEEecCCCCCCCCHHHHHHHhCCCeEEEEEeCCCccC-ccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCc--h
Q 006521 5 RTIVWFRRDLRIEDNPALAAAARDGSVFPVYTWCPKEEG-QFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTES--T 81 (642)
Q Consensus 5 ~~lvWFRrDLRl~DN~AL~~A~~~~~vlpvfi~dP~~~~-~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~~--~ 81 (642)
.+++|.--|.-.++++||.. ...-.+|.+.+..... ....+.....++..+|+++.+.|+..|.++.+.+.++ .
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 47999999999999999965 1112233344433221 1111222334788999999999999999998887644 4
Q ss_pred HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCC-eeecCcccccccC-CcccchHHHHHHHHh
Q 006521 82 LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGD-LLYEPWEIYDERG-HAFTTFDAYWDKCLQ 159 (642)
Q Consensus 82 ~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~-~L~~p~~i~~~~g-~~~~~f~~f~~~~~~ 159 (642)
...|...++.++.++|++. .|.+......++++.-..||++..+++. .|.++.++..+.| ...-.++.||++.-+
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 4567788899999999988 5777777777888777889999999886 7888888877753 343477888876322
Q ss_pred c------cCCCCC-----------CCCCcccccCCCCCCCCC-cccC-C-CCcchhhhhhhccCCCCCcchhhHHHHHHH
Q 006521 160 M------QMEPAS-----------ILPPWRLVQAAGTIDGCS-IEDL-G-LEDESEKSSNALLGRGWSPGWSNADKVLTE 219 (642)
Q Consensus 160 ~------~~~p~~-----------~~~p~~~~p~~~~~~~~~-le~l-~-~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~ 219 (642)
. ...|.. .++|.-..|.+..+.... ..+. . ++.......+.+.++.|+.++++|...|+.
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 011110 111111112111111000 0000 0 000011123445567899999999999999
Q ss_pred HHHHHhhhhhhcccCCCC----CCCCCCchhhhcCCCCHHHHHHHHHHHHHHHHhhhccCCcchHHHHHHH-HHHHHHHH
Q 006521 220 FVEQHLLRYYKNRQKLGG----NSTSLLSPYLHFGELSVRKVFQCLWMKQILWAKEENFEGKESVTFFLRA-MGLREYSR 294 (642)
Q Consensus 220 Fl~~~l~~Y~~~Rd~~~~----~~tS~LSPyL~fG~LSpReV~~~~~~~~~~~~~~~~~~~~~s~~~fire-L~WREf~~ 294 (642)
||+.+|.+|+.++|++.. ..+|+|||||+.|.|+|+||+.++.+++ ..+..+.+++++|||| ||||||+|
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 5799999999999999999999987764 3356788999999999 79999999
Q ss_pred HHHHhC-CCCCCCccccccCCCCCCCChhhHHHHhcCCCCcHHHHHHHHHHHHhCccchHHHHHHHHHHHhhcCCCchHH
Q 006521 295 YLCFNF-PFTHERPLLSNLKYFPWHADLGNFKAWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLPWRWG 373 (642)
Q Consensus 295 ~l~~~~-P~~~~~~~~~~~~~~pW~~d~~~~~aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~idWr~G 373 (642)
.+++.. |.+..+|++++-..+| ...++|+|++.|++-+..+...+||.||+.|.||.++|...+++|+..-
T Consensus 312 giY~~~~P~y~trN~f~~d~~Lp--------~~yw~g~T~M~cl~~av~~v~d~gYAHHIqRLMV~gNfALl~G~dPd~v 383 (505)
T COG3046 312 GIYWLKMPDYATRNFFNADRKLP--------PFYWTGQTKMACLAIAVGRVLDHGYAHHIQRLMVTGNFALLLGVDPDAV 383 (505)
T ss_pred HhhhhcCCchhhhhhhccCCCCC--------CccccCCcCchHHHHHHHHHhhhhHHHHHHHHHHHhhHHHHhCCCHHHH
Confidence 999875 8888888877655543 3456899999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcccc-cC---CCCccchhhhhCCCCCCCCcc
Q 006521 374 MKYFWDTLLDA-DL---ECDILGWQYISGSLPDGHELE 407 (642)
Q Consensus 374 ~~~F~~~LiD~-D~---a~N~g~Wqw~AG~g~d~~py~ 407 (642)
.+||+..+||+ || ++-+|+-|++.|.....+||.
T Consensus 384 ~~Wf~~~fiDAYdWV~~PNv~GM~qFADGG~iatKPYa 421 (505)
T COG3046 384 DRWFMEVFIDAYDWVELPNVRGMSQFADGGLIATKPYA 421 (505)
T ss_pred HHHHHHHHhhHhhheecccccchhhcccCceeecCccc
Confidence 99999999995 66 677899999998866677874
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=264.13 Aligned_cols=156 Identities=35% Similarity=0.589 Sum_probs=131.4
Q ss_pred EEEEecCCCCCCCCHHHHHHHhCC-CeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHHH
Q 006521 6 TIVWFRRDLRIEDNPALAAAARDG-SVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLAA 84 (642)
Q Consensus 6 ~lvWFRrDLRl~DN~AL~~A~~~~-~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~~~~~~ 84 (642)
+|||||||||++||+||++|++.+ +|+||||+||........+..+.+||++||.+|+++|+++|++|+++.| ++.+.
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 699999999999999999999875 8999999999722111346677789999999999999999999999986 57889
Q ss_pred HHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCeeecCcccccccCCcccchHHHHHHHHhccC
Q 006521 85 LLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEIYDERGHAFTTFDAYWDKCLQMQM 162 (642)
Q Consensus 85 L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i~~~~g~~~~~f~~f~~~~~~~~~ 162 (642)
|.+++++++|++|+++.+|++++++||++|++.|.+.||.++.+++++|++|+.+.+..|.+|++|++|+++|.+...
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 999999999999999999999999999999999999999999999999999999988889999999999999988654
No 11
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=98.26 E-value=6.4e-06 Score=83.26 Aligned_cols=144 Identities=15% Similarity=0.143 Sum_probs=81.0
Q ss_pred EEEecCCCCCCCCHHHHHHHhCCCeEEEEEeCCCccCccC-CchhhHHHHHHHHHHHHHHHHhcCCcEEEEECC------
Q 006521 7 IVWFRRDLRIEDNPALAAAARDGSVFPVYTWCPKEEGQFY-PGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTE------ 79 (642)
Q Consensus 7 lvWFRrDLRl~DN~AL~~A~~~~~vlpvfi~dP~~~~~~~-~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~------ 79 (642)
|+|.--|.-.+++++|.. .. .-..|++.+-....... .++.+..+++.||++..+.|++.|..+.++..+
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 567778888899999976 22 23455555543322212 234444589999999999999999999999864
Q ss_pred chHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCe-eecCccccccc-CCcccchHHHHHH
Q 006521 80 STLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDL-LYEPWEIYDER-GHAFTTFDAYWDK 156 (642)
Q Consensus 80 ~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~-L~~p~~i~~~~-g~~~~~f~~f~~~ 156 (642)
...+.|.+++++++++.|.+. +|.+...++.++++|++.||++..+++.. |.++.++.... |+....+..||+.
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 335778899999999999887 79999999999999999999999999874 55666676653 4333355566554
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=92.10 E-value=0.067 Score=48.63 Aligned_cols=32 Identities=22% Similarity=0.215 Sum_probs=21.7
Q ss_pred CCCcccccccCCCC-CCCCCCCCCCCcccCCCC
Q 006521 513 PAIPQVVLREKSTC-PTISSNDQKVPSFQNGKN 544 (642)
Q Consensus 513 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 544 (642)
|++.+..++.+.|. .++++.|||||+|+++-.
T Consensus 11 MEv~repvr~n~~~~~~Rr~~DQMVPsmTsSl~ 43 (121)
T PF12546_consen 11 MEVDREPVRNNPPATITRRYEDQMVPSMTSSLI 43 (121)
T ss_pred cccccccccCCCCccccccccccccccccHHHH
Confidence 44444456555533 459999999999986544
No 13
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=84.03 E-value=15 Score=37.20 Aligned_cols=99 Identities=20% Similarity=0.240 Sum_probs=63.6
Q ss_pred CHHHHHHHhCC-CeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCc----hHHHHHHHHHHcC
Q 006521 19 NPALAAAARDG-SVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTES----TLAALLECISAIK 93 (642)
Q Consensus 19 N~AL~~A~~~~-~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~~----~~~~L~~l~~~~~ 93 (642)
+-||+.|.+.| .|..+.++-|.....+..+..+. .-....-+..|++++...... -.+.|.++++..+
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 FYALYLALEEGHEVVYLLTVKPENGDSYMFHTPNL-------ELAELQAEAMGIPLVTFDTSGEEEREVEELKEALRRLK 86 (223)
T ss_pred HHHHHHHHHcCCeeEEEEEEecCCCCeeeeeccch-------HHHHHHHHhcCCceEEEecCccchhhHHHHHHHHHhCc
Confidence 67888899887 68888888876432222222222 112223356799988775422 3566778888888
Q ss_pred CcEEEEecccChhhHHHHHHHHHHhhhcCcEEEE
Q 006521 94 ATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (642)
Q Consensus 94 ~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (642)
++.|+.-.-+.-+.+ ..++.+|.+.|+.+..
T Consensus 87 ~d~iv~GaI~s~yqk---~rve~lc~~lGl~~~~ 117 (223)
T COG2102 87 VDGIVAGAIASEYQK---ERVERLCEELGLKVYA 117 (223)
T ss_pred ccEEEEchhhhHHHH---HHHHHHHHHhCCEEee
Confidence 888888744333322 3578888899988765
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=83.91 E-value=19 Score=36.63 Aligned_cols=98 Identities=14% Similarity=0.203 Sum_probs=61.8
Q ss_pred HHHHHHHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECC----chHHHHHHHHHHcCCc
Q 006521 20 PALAAAARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTE----STLAALLECISAIKAT 95 (642)
Q Consensus 20 ~AL~~A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~----~~~~~L~~l~~~~~~~ 95 (642)
-||+.|.+...|..++..-|...... +|-...+..++..-+.+|++|+..... ...+.|.+.+++.+++
T Consensus 15 lAl~~~~~~~~V~~L~~~~~~~~~s~-------~~h~~~~~~~~~qA~algiPl~~~~~~~~~e~~~~~l~~~l~~~gv~ 87 (222)
T TIGR00289 15 LALYKALEEHEVISLVGVFSENEESY-------MFHSPNLHLTDLVAEAVGIPLIKLYTSGEEEKEVEDLAGQLGELDVE 87 (222)
T ss_pred HHHHHHHHcCeeEEEEEEcCCCCCcc-------ccccCCHHHHHHHHHHcCCCeEEEEcCCchhHHHHHHHHHHHHcCCC
Confidence 35666665555778888777532211 121234455566778889999876531 2345566667788999
Q ss_pred EEEEecccChhhHHHHHHHHHHhhhcCcEEEE
Q 006521 96 KVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (642)
Q Consensus 96 ~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (642)
.|++-.-...+ +|. .+.+.|.+.|+....
T Consensus 88 ~vv~GdI~s~~--qr~-~~e~vc~~~gl~~~~ 116 (222)
T TIGR00289 88 ALCIGAIESNY--QKS-RIDKVCRELGLKSIA 116 (222)
T ss_pred EEEECccccHH--HHH-HHHHHHHHcCCEEec
Confidence 99987543333 333 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=76.89 E-value=37 Score=34.52 Aligned_cols=99 Identities=21% Similarity=0.298 Sum_probs=59.0
Q ss_pred CHHHHHHHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC----CchHHHHHHHHHHcCC
Q 006521 19 NPALAAAARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT----ESTLAALLECISAIKA 94 (642)
Q Consensus 19 N~AL~~A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~----~~~~~~L~~l~~~~~~ 94 (642)
+-||+.|.+.-.|+.+...-|.....+..+.. .+.-++.+-+.+|++|+.+.. ++..+.|.+++++.|+
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 35777777654466676666643211111111 223334455678999976542 1245667777888899
Q ss_pred cEEEEecccChhhHHHHHHHHHHhhhcCcEEEE
Q 006521 95 TKVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (642)
Q Consensus 95 ~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (642)
+.|++-.-...+ +|. .+++.|.+.|++...
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 999987543333 333 467788888887664
No 16
>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=72.72 E-value=32 Score=34.07 Aligned_cols=97 Identities=19% Similarity=0.296 Sum_probs=56.5
Q ss_pred HHHHHHhCC-CeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECC----chHHHHHHHHHHc---
Q 006521 21 ALAAAARDG-SVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTE----STLAALLECISAI--- 92 (642)
Q Consensus 21 AL~~A~~~~-~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~----~~~~~L~~l~~~~--- 92 (642)
+|+.|.+.| .|++|++..|..... .+|-...+..++...+.+|++++++..+ .....|.+.+++.
T Consensus 15 al~~a~~~G~~v~~l~~~~~~~~~~-------~~~h~~~~e~~~~~A~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~ 87 (194)
T cd01994 15 ALYRALEEGHEVVALLNLTPEEGSS-------MMYHTVNHELLELQAEAMGIPLIRIEISGEEEDEVEDLKELLRKLKEE 87 (194)
T ss_pred HHHHHHHcCCEEEEEEEEecCCCCc-------ccccccCHHHHHHHHHHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHc
Confidence 455566666 588888876643211 1111124555666678889999887521 1223333333322
Q ss_pred CCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEE
Q 006521 93 KATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (642)
Q Consensus 93 ~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (642)
+++.|++-...+-+ +|. .+.+.|.+.|+....
T Consensus 88 g~~~vv~G~i~sd~--~~~-~~e~~~~~~gl~~~~ 119 (194)
T cd01994 88 GVDAVVFGAILSEY--QRT-RVERVCERLGLEPLA 119 (194)
T ss_pred CCCEEEECccccHH--HHH-HHHHHHHHcCCEEEe
Confidence 68888876443333 333 477888888988765
No 17
>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=71.84 E-value=18 Score=36.56 Aligned_cols=98 Identities=24% Similarity=0.315 Sum_probs=51.3
Q ss_pred HHHHHHHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC----CchHHHHHHHHHHcCCc
Q 006521 20 PALAAAARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT----ESTLAALLECISAIKAT 95 (642)
Q Consensus 20 ~AL~~A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~----~~~~~~L~~l~~~~~~~ 95 (642)
-||+.|.+.-.|..+..+-|.....+..+..+. .-+..+-+.+|+||+.... +...+.|.+.+++.+++
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 467778766456666666554322211122221 1223344667999987653 23456777888889999
Q ss_pred EEEEecccChhhHHHHHHHHHHhhhcCcEEEE
Q 006521 96 KVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (642)
Q Consensus 96 ~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (642)
.|++-.-.. +..|. .+++.|.+.|+++..
T Consensus 88 ~vv~GdI~~--~~~r~-~~e~vc~~lGl~~~~ 116 (218)
T PF01902_consen 88 AVVFGDIDS--EYQRN-WVERVCERLGLEAVF 116 (218)
T ss_dssp EEE--TTS---HHHHH-HHHHHHHHCT-EEE-
T ss_pred EEEECcCCc--HHHHH-HHHHHHHHcCCEEEe
Confidence 998874322 33444 477888888888764
No 18
>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=65.25 E-value=1e+02 Score=31.06 Aligned_cols=97 Identities=21% Similarity=0.238 Sum_probs=52.0
Q ss_pred HHHHHHhCC-CeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECC----chHHHHHHHH---HHc
Q 006521 21 ALAAAARDG-SVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTE----STLAALLECI---SAI 92 (642)
Q Consensus 21 AL~~A~~~~-~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~----~~~~~L~~l~---~~~ 92 (642)
+|+.|.+.| .|++++++.+........+. ..+..++...+.+|+++.++... ...+.|...+ ++.
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 46667666654211100011 13344555667789999887642 1222233222 223
Q ss_pred CCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEE
Q 006521 93 KATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (642)
Q Consensus 93 ~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (642)
|++.|++-.-.+.+. +..+.+.|...|+++..
T Consensus 86 g~~~vv~G~i~sd~~---~~~~e~v~~~~gl~~~~ 117 (218)
T TIGR03679 86 GVEGIVTGAIASRYQ---KSRIERICEELGLKVFA 117 (218)
T ss_pred CCCEEEECCcccHhH---HHHHHHHHHhCCCeEEe
Confidence 899988864444332 33466777777877654
No 19
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=62.36 E-value=68 Score=28.11 Aligned_cols=66 Identities=24% Similarity=0.356 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEE-------------CCchHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhc
Q 006521 55 LKQSLSYLGQSLKSLGAELVLFK-------------TESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVEL 121 (642)
Q Consensus 55 LlesL~dL~~~L~~lG~~L~v~~-------------~~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~ 121 (642)
+-++|.+|..-.+..|...+-.. |..-++.|.+++++.+++.|+++++-+|.-. +.+.+. .
T Consensus 6 ~~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~Lsp~Q~---rNLe~~---~ 79 (95)
T PF13167_consen 6 FEESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNELSPSQQ---RNLEKA---L 79 (95)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCCCCHHHH---HHHHHH---H
Confidence 34788889888888897654211 2224677888899999999999988777522 234444 3
Q ss_pred CcEEE
Q 006521 122 GISVQ 126 (642)
Q Consensus 122 gV~v~ 126 (642)
|++|.
T Consensus 80 ~~~V~ 84 (95)
T PF13167_consen 80 GVKVI 84 (95)
T ss_pred CCeee
Confidence 66653
No 20
>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=61.83 E-value=1e+02 Score=27.03 Aligned_cols=83 Identities=14% Similarity=0.121 Sum_probs=50.1
Q ss_pred HHHHHHHh-----CCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEE--ECCchHHHHHHHHHHc
Q 006521 20 PALAAAAR-----DGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLF--KTESTLAALLECISAI 92 (642)
Q Consensus 20 ~AL~~A~~-----~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~--~~~~~~~~L~~l~~~~ 92 (642)
.+|..|.. ...+..++++++..............-..+.+..+.+.+++.|++.... .++++.+.|.++++++
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 2368888888864211000000111134466677777777888875533 3456677888899999
Q ss_pred CCcEEEEecc
Q 006521 93 KATKVVFNHL 102 (642)
Q Consensus 93 ~~~~V~~~~~ 102 (642)
+++-|++-..
T Consensus 94 ~~dlIV~G~~ 103 (132)
T cd01988 94 QADLIIMGWH 103 (132)
T ss_pred CCCEEEEecC
Confidence 9998888754
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=60.51 E-value=1.3e+02 Score=27.22 Aligned_cols=85 Identities=19% Similarity=0.123 Sum_probs=48.5
Q ss_pred CCCHHHHHHHh-----CCCeEEEEEeCCCccCccCCch---hh------HHHHHHHHHHHHHHHHhcCCc--EEEEECCc
Q 006521 17 EDNPALAAAAR-----DGSVFPVYTWCPKEEGQFYPGR---VS------RWWLKQSLSYLGQSLKSLGAE--LVLFKTES 80 (642)
Q Consensus 17 ~DN~AL~~A~~-----~~~vlpvfi~dP~~~~~~~~~~---~~------r~FLlesL~dL~~~L~~lG~~--L~v~~~~~ 80 (642)
.-..||..|++ ...+..|++.+|........+. .. ..-..+-|..+.+.+++.|.+ ..+..+++
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 34467766653 2368888998764221111110 00 011233444455555556654 34445556
Q ss_pred hHHHHHHHHHHcCCcEEEEec
Q 006521 81 TLAALLECISAIKATKVVFNH 101 (642)
Q Consensus 81 ~~~~L~~l~~~~~~~~V~~~~ 101 (642)
+.+.|.+.+++++++.|+.-.
T Consensus 91 ~~~~I~~~a~~~~~dlIV~Gs 111 (146)
T cd01989 91 VAKAIVEYVADHGITKLVMGA 111 (146)
T ss_pred HHHHHHHHHHHcCCCEEEEec
Confidence 778888999999999988774
No 22
>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=59.42 E-value=1e+02 Score=27.14 Aligned_cols=78 Identities=21% Similarity=0.270 Sum_probs=50.1
Q ss_pred CCHHHHHHHh-----CCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHHHHHHHHHHc
Q 006521 18 DNPALAAAAR-----DGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLAALLECISAI 92 (642)
Q Consensus 18 DN~AL~~A~~-----~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~~~~~~L~~l~~~~ 92 (642)
...+|..|+. ...+.-|+|.++.... ..... .+-|..+.+.+++.|....++.++++.+.|.+.++++
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 3456665542 3378888888764210 11111 1334555566667788776666667778899999999
Q ss_pred CCcEEEEecc
Q 006521 93 KATKVVFNHL 102 (642)
Q Consensus 93 ~~~~V~~~~~ 102 (642)
+++.|+.-..
T Consensus 85 ~~dllviG~~ 94 (124)
T cd01987 85 NVTQIVVGKS 94 (124)
T ss_pred CCCEEEeCCC
Confidence 9999888754
No 23
>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=52.17 E-value=55 Score=28.30 Aligned_cols=69 Identities=20% Similarity=0.164 Sum_probs=44.9
Q ss_pred HHHHHHHHHhcCCcEEEE--ECCchHH--HHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCC
Q 006521 59 LSYLGQSLKSLGAELVLF--KTESTLA--ALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGD 131 (642)
Q Consensus 59 L~dL~~~L~~lG~~L~v~--~~~~~~~--~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~ 131 (642)
...+.+.+++.|..+.+. .++.... .|...++ .++.|++-.++ ..-.--..+++.|++.|+++....+.
T Consensus 12 ~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~--~aD~VIv~t~~--vsH~~~~~vk~~akk~~ip~~~~~~~ 84 (97)
T PF10087_consen 12 ERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIK--KADLVIVFTDY--VSHNAMWKVKKAAKKYGIPIIYSRSR 84 (97)
T ss_pred HHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcC--CCCEEEEEeCC--cChHHHHHHHHHHHHcCCcEEEECCC
Confidence 456678889999999988 2222222 2555444 36777766433 33333446889999999999887643
No 24
>PRK10490 sensor protein KdpD; Provisional
Probab=50.10 E-value=97 Score=38.09 Aligned_cols=94 Identities=15% Similarity=0.104 Sum_probs=57.8
Q ss_pred CCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHHHHHHHHHHcCCcEEEEecccChhhH
Q 006521 29 GSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLAALLECISAIKATKVVFNHLYDPVSL 108 (642)
Q Consensus 29 ~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~ 108 (642)
++++.|||-.|.... .....+.-+.+.++ |. +++|..++.+.+++....|.+++++.+++.|+.-+.-.....
T Consensus 279 a~~~~l~V~~~~~~~---~~~~~~~~l~~~~~-lA---~~lGa~~~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~~ 351 (895)
T PRK10490 279 SVWHAVYVETPRLHR---LPEKKRRAILSALR-LA---QELGAETATLSDPAEEKAVLRYAREHNLGKIIIGRRASRRWW 351 (895)
T ss_pred CCEEEEEEecCCcCc---CCHHHHHHHHHHHH-HH---HHcCCEEEEEeCCCHHHHHHHHHHHhCCCEEEECCCCCCCCc
Confidence 489999997763211 11122223444442 43 446999988888888889999999999999999875432211
Q ss_pred HHHHHHHHHhh-hcCcEEEEEc
Q 006521 109 VRDHSIKEKLV-ELGISVQSYN 129 (642)
Q Consensus 109 ~rD~~V~~~l~-~~gV~v~~~~ 129 (642)
.+..-+.++++ ..+|.++.+.
T Consensus 352 ~~~s~~~~l~r~~~~idi~iv~ 373 (895)
T PRK10490 352 RRESFADRLARLGPDLDLVIVA 373 (895)
T ss_pred cCCCHHHHHHHhCCCCCEEEEe
Confidence 12112233332 2468887774
No 25
>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=48.31 E-value=76 Score=31.12 Aligned_cols=108 Identities=19% Similarity=0.237 Sum_probs=66.9
Q ss_pred HHH-HHHHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC---------Cch--------
Q 006521 20 PAL-AAAARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT---------EST-------- 81 (642)
Q Consensus 20 ~AL-~~A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~---------~~~-------- 81 (642)
.-| ..|++....+-|||..... ...+-..|...+.++.+||..=.---|++.+|-.. ...
T Consensus 16 ~yLiE~Aa~~~d~l~vFVV~eD~--S~Fpf~~R~~LVk~G~~~L~NV~V~~~g~YiIS~aTFPsYFlK~~~~~~~~~~~l 93 (182)
T PF08218_consen 16 RYLIEQAAKECDWLHVFVVSEDR--SLFPFADRYELVKEGTADLPNVTVHPGGDYIISSATFPSYFLKDEDDVIKAQAEL 93 (182)
T ss_pred HHHHHHHHHhCCEEEEEEEcccc--CcCCHHHHHHHHHHHhCcCCCEEEEcCCCeeeecccChhhhccchhHHHHHHHHH
Confidence 344 3466666788899987543 23444455557889988886543334455444321 000
Q ss_pred -HHHHHH-HHHHcCCcEEEEecc-cChhhHHHHHHHHHHhhhcCcEEEEEc
Q 006521 82 -LAALLE-CISAIKATKVVFNHL-YDPVSLVRDHSIKEKLVELGISVQSYN 129 (642)
Q Consensus 82 -~~~L~~-l~~~~~~~~V~~~~~-y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (642)
...+.+ ++...||++-|.-.+ +++....=-+.+++++...||++...+
T Consensus 94 D~~iF~~~IAp~L~It~RfVG~EP~~~vT~~YN~~M~~~Lp~~gi~v~ei~ 144 (182)
T PF08218_consen 94 DATIFKKYIAPALGITKRFVGEEPFSPVTRIYNEAMKEILPPYGIEVVEIP 144 (182)
T ss_pred HHHHHHHHhhHhcCcccceeCCCCCCHHHHHHHHHHHHhccccCCEEEEEe
Confidence 112222 456788988776654 456666667789999999999998873
No 26
>COG1087 GalE UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]
Probab=47.12 E-value=12 Score=39.63 Aligned_cols=79 Identities=16% Similarity=0.120 Sum_probs=45.8
Q ss_pred HHhcccccCCCCccchhhhhCCCCCCCCcccccCccccccccCCcchhhhhccccccCCCCCcccCCCCCChhHHHHcCC
Q 006521 378 WDTLLDADLECDILGWQYISGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPELARMPTEWIHHPWDAPPNVLKAAGV 457 (642)
Q Consensus 378 ~~~LiD~D~a~N~g~Wqw~AG~g~d~~py~RifNP~~q~~k~Dp~G~YIrrWvPEL~~lp~~~Ih~PW~~p~~~~~~~g~ 457 (642)
++.|-|+.-+.+ |++++ +|+|||..- ||+|..=..--|| . ..+|...|-+.|-
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 344555444433 77665 799999865 4444322111222 1 1234444555554
Q ss_pred c-----CCCCCCcC----------CCChHHHHHHHHHHHHH
Q 006521 458 E-----LGLNYPKP----------IIDLDLGRERLTQAIFK 483 (642)
Q Consensus 458 ~-----~g~~YP~P----------Ivd~~~ar~~~~~~~~~ 483 (642)
. .|.|||.| ++|+..|.-.|++.+++
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 3 58999988 47888888777766644
No 27
>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=45.53 E-value=1.1e+02 Score=28.72 Aligned_cols=69 Identities=16% Similarity=0.242 Sum_probs=44.2
Q ss_pred HHhcCCcEEEEECCchHHHHHHHHHHc--CCcEEEEecc-cChhhHHHHHHHHHHhhhcCcEEEEEcCCeeecCccc
Q 006521 66 LKSLGAELVLFKTESTLAALLECISAI--KATKVVFNHL-YDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEI 139 (642)
Q Consensus 66 L~~lG~~L~v~~~~~~~~~L~~l~~~~--~~~~V~~~~~-y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i 139 (642)
-+++|..+.++..+ .+-.|...+++. .++.|+.|-- |+-++. +++++++..++++.+++-..++.++++
T Consensus 37 a~~~g~~v~~~QSN-~EGelId~i~~a~~~~dgiIINpga~THtSi----Al~DAl~~~~~P~vEVHiSNi~aRE~f 108 (141)
T TIGR01088 37 AAQLNVELEFFQSN-SEGQLIDKIHEAEGQYDGIIINPGALTHTSV----ALRDALAAVSLPVVEVHLSNVHAREEF 108 (141)
T ss_pred HHHcCCEEEEEeeC-cHHHHHHHHHhccccCCEEEEcChHHhhhHH----HHHHHHHcCCCCEEEEEcCCccccccc
Confidence 34568999988754 455566666553 3678888832 222222 466667778999999986666654433
No 28
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=44.25 E-value=2.2e+02 Score=31.12 Aligned_cols=107 Identities=14% Similarity=0.098 Sum_probs=61.1
Q ss_pred CHHHHHHHh---C----CCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHh------cCCcEEEE--EC-----
Q 006521 19 NPALAAAAR---D----GSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKS------LGAELVLF--KT----- 78 (642)
Q Consensus 19 N~AL~~A~~---~----~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~------lG~~L~v~--~~----- 78 (642)
..||.+|++ . ..|..|+|.++.... ........--.+-|..+.+.+++ .|++.... .+
T Consensus 19 ~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~--~~~~~~~~~~eelle~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~ 96 (357)
T PRK12652 19 RQTVAYAVESAEEAAETPTVHLVAAASGRAVD--PEGQDELAAAEELLERVEVWATEDLGDDASSVTIETALLGTDEYLF 96 (357)
T ss_pred HHHHHHHHHHHHhcCCCCEEEEEEEecCcccc--cchhHHHHHHHHHHHHHHHHHHHhhhcccCCCceEEEEEecccccc
Confidence 346666642 2 268888888764211 11110000111234444444443 47664332 21
Q ss_pred --CchHHHHHHHHHHcCCcEEEEecccChhhH-HHHHHHHHHhhhcCcEEEE
Q 006521 79 --ESTLAALLECISAIKATKVVFNHLYDPVSL-VRDHSIKEKLVELGISVQS 127 (642)
Q Consensus 79 --~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~-~rD~~V~~~l~~~gV~v~~ 127 (642)
|++.+.|.+.+++++++.|+...+|.|... ..-+-+...+.+.|+.+..
T Consensus 97 ~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 (357)
T PRK12652 97 GPGDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAPMLQPLERELARAGITYEE 148 (357)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEECCCCCCCCCCcccchHHHHHHhcCCceec
Confidence 467888999999999999999999988643 2222355556667777664
No 29
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=41.61 E-value=84 Score=34.96 Aligned_cols=69 Identities=19% Similarity=0.197 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHHhcCCcEEEEECC-chHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEE
Q 006521 56 KQSLSYLGQSLKSLGAELVLFKTE-STLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSY 128 (642)
Q Consensus 56 lesL~dL~~~L~~lG~~L~v~~~~-~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (642)
-+=|..+.++++++|+.+++.... +..+.+.+++.+.+.+.|+..+....++. .+.+.|++.|++|.+-
T Consensus 64 d~~l~~~~~~v~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKSmvseEI----gln~~Le~~G~ev~ET 133 (459)
T COG1139 64 DEYLEQLEENVTRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKSMVSEEI----GLNHYLEEKGIEVWET 133 (459)
T ss_pred HHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecchhHHHh----hhHHHHHHcCCeEEEc
Confidence 344566778888999999987542 33456788888899999999986555544 3667788889998875
No 30
>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=41.11 E-value=46 Score=31.79 Aligned_cols=101 Identities=20% Similarity=0.175 Sum_probs=57.1
Q ss_pred hCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEEC-C------chHHHHHHHHH-HcCCcEEE
Q 006521 27 RDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKT-E------STLAALLECIS-AIKATKVV 98 (642)
Q Consensus 27 ~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~-~------~~~~~L~~l~~-~~~~~~V~ 98 (642)
+.+-...|+.|+|.-.....+.... +++-++.+=.+.|+++|+..+++.. . .+.+-+..++. ..++..|+
T Consensus 34 ~~~~~~~v~tF~~~P~~~~~~~~~~--~~l~s~~ek~~~l~~~Gvd~~~~~~F~~~~~~ls~~~Fi~~iL~~~l~~~~iv 111 (157)
T PF06574_consen 34 EKGLKSVVLTFDPHPKEVLNPDKPP--KLLTSLEEKLELLESLGVDYVIVIPFTEEFANLSPEDFIEKILKEKLNVKHIV 111 (157)
T ss_dssp HCT-EEEEEEESS-CHHHHSCTCCG--GBSS-HHHHHHHHHHTTESEEEEE-CCCHHCCS-HHHHHHHHCCCHCTEEEEE
T ss_pred hcccceEEEEcccCHHHHhcCCCcc--cCCCCHHHHHHHHHHcCCCEEEEecchHHHHcCCHHHHHHHHHHhcCCccEEE
Confidence 3454566788887421111212222 4467777878889999998655431 1 23333444455 78999999
Q ss_pred EecccCh--hhHHHHHHHHHHhhhcCcEEEEEc
Q 006521 99 FNHLYDP--VSLVRDHSIKEKLVELGISVQSYN 129 (642)
Q Consensus 99 ~~~~y~p--~~~~rD~~V~~~l~~~gV~v~~~~ 129 (642)
+-.++.- -...=-+.+++.+++.|+.+..++
T Consensus 112 vG~DfrFG~~~~G~~~~L~~~~~~~g~~v~~v~ 144 (157)
T PF06574_consen 112 VGEDFRFGKNRSGDVELLKELGKEYGFEVEVVP 144 (157)
T ss_dssp EETT-EESGGGEEEHHHHHHCTTTT-SEEEEE-
T ss_pred EccCccCCCCCCCCHHHHHHhcccCceEEEEEC
Confidence 9887621 111111247888889999998875
No 31
>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=38.54 E-value=3e+02 Score=28.16 Aligned_cols=86 Identities=23% Similarity=0.214 Sum_probs=47.5
Q ss_pred EEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECC--chHHHHHHHHHHcCCcEEEEecccChhhHH
Q 006521 32 FPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTE--STLAALLECISAIKATKVVFNHLYDPVSLV 109 (642)
Q Consensus 32 lpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~--~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~ 109 (642)
++|+|=.|-..+ ++.--++.|..|++.|+.+|+++-++... ++.+.+..++.+- +.+++--+ +|.-=-
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-------SREAQIEALAELREELDRRGINVEIVADEWCNTLEDIREFADAK-AADMVQIK--TPDLGG 174 (248)
T ss_dssp S-EEEE-SB--S-------SHHHHHHHHHHHHHHHHHCT--EEEEE-TT--SHHHHHHHHHTT--SSEEEE---GGGGSS
T ss_pred CeeeeeCCcCCC-------ChHHHHHHHHHHHHHHHhcCCCCeEEeehhcCCHHHHHHHHhcC-CcCEEEec--CCCccc
Confidence 678887774322 13344699999999999999999887532 4677777777654 44444333 343211
Q ss_pred HHHHHHH--HhhhcCcEEEE
Q 006521 110 RDHSIKE--KLVELGISVQS 127 (642)
Q Consensus 110 rD~~V~~--~l~~~gV~v~~ 127 (642)
....+++ .|++.||....
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 47888887654
No 32
>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=37.62 E-value=1.5e+02 Score=30.48 Aligned_cols=50 Identities=10% Similarity=0.194 Sum_probs=42.6
Q ss_pred hHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCee
Q 006521 81 TLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLL 133 (642)
Q Consensus 81 ~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L 133 (642)
+..++.+.+++.|+++|..- +||.....+.+++.+.+.|++|..+.+..+
T Consensus 107 ~~~A~~~AL~alg~~RIalv---TPY~~~v~~~~~~~l~~~G~eV~~~~~~~~ 156 (239)
T TIGR02990 107 PSSAAVDGLAALGVRRISLL---TPYTPETSRPMAQYFAVRGFEIVNFTCLGL 156 (239)
T ss_pred HHHHHHHHHHHcCCCEEEEE---CCCcHHHHHHHHHHHHhCCcEEeeeeccCC
Confidence 45677888899999999886 799999999999999999999998866444
No 33
>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=37.23 E-value=2.2e+02 Score=28.87 Aligned_cols=73 Identities=16% Similarity=0.205 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCc-h---HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEc
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTES-T---LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~~-~---~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (642)
|..+-+..+.+.++++|..+.+..... . .+.+.. +...+++.|++... ++ ...+..+ +.+.+.||++..++
T Consensus 13 f~~~~~~gi~~~~~~~G~~~~~~~~~~d~~~~~~~i~~-~~~~~vdgiii~~~-~~--~~~~~~i-~~~~~~~iPvV~~~ 87 (272)
T cd06313 13 WCAQGKQAADEAGKLLGVDVTWYGGALDAVKQVAAIEN-MASQGWDFIAVDPL-GI--GTLTEAV-QKAIARGIPVIDMG 87 (272)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEecCCCCHHHHHHHHHH-HHHcCCCEEEEcCC-Ch--HHhHHHH-HHHHHCCCcEEEeC
Confidence 666788888888999999999875432 1 122333 34568998888521 11 1122234 34566799999986
Q ss_pred CC
Q 006521 130 GD 131 (642)
Q Consensus 130 ~~ 131 (642)
..
T Consensus 88 ~~ 89 (272)
T cd06313 88 TL 89 (272)
T ss_pred CC
Confidence 53
No 34
>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=37.15 E-value=1.4e+02 Score=30.94 Aligned_cols=56 Identities=18% Similarity=0.126 Sum_probs=44.2
Q ss_pred cEEEEECCc-hHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEc
Q 006521 72 ELVLFKTES-TLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (642)
Q Consensus 72 ~L~v~~~~~-~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (642)
.+.++.|+- ..+.+.+++++.+++.|+=. .-|++...-+.+.++|++.||++.-|.
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 57789999999999987532 259999999999999999999998875
No 35
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=35.82 E-value=1.9e+02 Score=29.85 Aligned_cols=47 Identities=13% Similarity=0.056 Sum_probs=39.4
Q ss_pred hHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEc
Q 006521 81 TLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (642)
Q Consensus 81 ~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (642)
..+.+.+++++.+++.|+=. .-|++...-+.+.++|++.||++.-|.
T Consensus 53 ~~~~l~~~l~~~~i~~VIDA--THPfA~~is~~a~~ac~~~~ipyiR~e 99 (248)
T PRK08057 53 GAEGLAAYLREEGIDLVIDA--THPYAAQISANAAAACRALGIPYLRLE 99 (248)
T ss_pred CHHHHHHHHHHCCCCEEEEC--CCccHHHHHHHHHHHHHHhCCcEEEEe
Confidence 46789999999999976522 359999988999999999999998875
No 36
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=35.45 E-value=6e+02 Score=30.94 Aligned_cols=106 Identities=22% Similarity=0.171 Sum_probs=64.0
Q ss_pred CCHHHHHH-H----h-CCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHHHHHHHHHH
Q 006521 18 DNPALAAA-A----R-DGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLAALLECISA 91 (642)
Q Consensus 18 DN~AL~~A-~----~-~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~~~~~~L~~l~~~ 91 (642)
.|..|... + + .++...|||-.|.... .....+.-| .....|.++ +|..+.++.+++....|.+++++
T Consensus 260 ~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~---~~~~~~~~l-~~~~~Lae~---lGae~~~l~~~dv~~~i~~ya~~ 332 (890)
T COG2205 260 GSEKLIRRAARLASRLHAKWTAVYVETPELHR---LSEKEARRL-HENLRLAEE---LGAEIVTLYGGDVAKAIARYARE 332 (890)
T ss_pred chHHHHHHHHHHHHHhCCCeEEEEEecccccc---ccHHHHHHH-HHHHHHHHH---hCCeEEEEeCCcHHHHHHHHHHH
Confidence 36666442 2 1 3578899998886322 221222223 333344444 59999999988888899999999
Q ss_pred cCCcEEEEecccChhhHHH-HHHHHHHh--hhcCcEEEEEcC
Q 006521 92 IKATKVVFNHLYDPVSLVR-DHSIKEKL--VELGISVQSYNG 130 (642)
Q Consensus 92 ~~~~~V~~~~~y~p~~~~r-D~~V~~~l--~~~gV~v~~~~~ 130 (642)
+++++|+.-+......+.+ ...+.+.+ ...+|.++.+..
T Consensus 333 ~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~ 374 (890)
T COG2205 333 HNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVAL 374 (890)
T ss_pred cCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeC
Confidence 9999999986443322211 22233222 235677776643
No 37
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=35.24 E-value=83 Score=34.39 Aligned_cols=62 Identities=21% Similarity=0.282 Sum_probs=41.5
Q ss_pred HHHHhcCCc--EEEEECCchHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEE
Q 006521 64 QSLKSLGAE--LVLFKTESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQ 126 (642)
Q Consensus 64 ~~L~~lG~~--L~v~~~~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~ 126 (642)
.+|+++|++ .+++...+ ...+.+.+-+.|+.+|++-.|.+|.....-+++.+.++++||+|.
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 468889983 55554433 333445555669999988877666444334457788999999994
No 38
>PLN03194 putative disease resistance protein; Provisional
Probab=34.59 E-value=3e+02 Score=27.26 Aligned_cols=79 Identities=13% Similarity=0.071 Sum_probs=50.0
Q ss_pred HHHHHHHHhcCCcEEEE-----ECCchHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCeee
Q 006521 60 SYLGQSLKSLGAELVLF-----KTESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLY 134 (642)
Q Consensus 60 ~dL~~~L~~lG~~L~v~-----~~~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~ 134 (642)
.+|...|+..|+..++= .|+...+.|.+.+++..+.-|++...|.....-.|+ +..+++...+-+-.| +=+
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 67888999999988752 133334567777888889999999988655455554 445444333222222 124
Q ss_pred cCcccccc
Q 006521 135 EPWEIYDE 142 (642)
Q Consensus 135 ~p~~i~~~ 142 (642)
+|.++...
T Consensus 120 dPsdVr~q 127 (187)
T PLN03194 120 KPSQLRVV 127 (187)
T ss_pred CHHHhhcc
Confidence 57777664
No 39
>PRK09982 universal stress protein UspD; Provisional
Probab=34.20 E-value=3.6e+02 Score=24.52 Aligned_cols=114 Identities=12% Similarity=0.073 Sum_probs=60.1
Q ss_pred CCCCCCCHHHHHHHh-----CCCeEEEEEeCCCccC---ccCCc--hhhH---HHHHHHHHHHHHHHHhcCCcEEEEECC
Q 006521 13 DLRIEDNPALAAAAR-----DGSVFPVYTWCPKEEG---QFYPG--RVSR---WWLKQSLSYLGQSLKSLGAELVLFKTE 79 (642)
Q Consensus 13 DLRl~DN~AL~~A~~-----~~~vlpvfi~dP~~~~---~~~~~--~~~r---~FLlesL~dL~~~L~~lG~~L~v~~~~ 79 (642)
|.=-.-..||..|++ ...+..++|.++.... ...+. .... ....+.|.++.+.+...+....+..|
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 433333567776652 2368888888753210 00011 0000 12223344444444333455555554
Q ss_pred chHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEE
Q 006521 80 STLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSY 128 (642)
Q Consensus 80 ~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (642)
.+.+.|.+.+++.+++-|+.-+.-........ .-.+.++...|+|..+
T Consensus 90 ~p~~~I~~~A~~~~aDLIVmG~~~~~~~~~~~-va~~V~~~s~~pVLvv 137 (142)
T PRK09982 90 EMPETLLEIMQKEQCDLLVCGHHHSFINRLMP-AYRGMINKMSADLLIV 137 (142)
T ss_pred CHHHHHHHHHHHcCCCEEEEeCChhHHHHHHH-HHHHHHhcCCCCEEEe
Confidence 67788889999999999998754222222221 3344556666777654
No 40
>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=34.12 E-value=2.9e+02 Score=23.44 Aligned_cols=73 Identities=14% Similarity=0.103 Sum_probs=43.9
Q ss_pred CCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEE-CCchHHHHHHHHHHcCCcEEEEec
Q 006521 29 GSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFK-TESTLAALLECISAIKATKVVFNH 101 (642)
Q Consensus 29 ~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~-~~~~~~~L~~l~~~~~~~~V~~~~ 101 (642)
..+..++|.++..............-..+.|..+...+...|+++.... .+.....|.+.+++.+++.|+...
T Consensus 28 ~~i~~l~v~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~ 101 (130)
T cd00293 28 AELVLLHVVDPPPSSAAELAELLEEEARALLEALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVMGS 101 (130)
T ss_pred CEEEEEEEecCCCCcchhHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcC
Confidence 3688888877642110000011112344666676666666788764432 234467888999999999988864
No 41
>COG3590 PepO Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]
Probab=33.91 E-value=21 Score=40.70 Aligned_cols=44 Identities=32% Similarity=0.487 Sum_probs=35.0
Q ss_pred ccccCCCCccchhhhhCCCCCCCCcccccCccccccccCCcchhhhhcccc
Q 006521 382 LDADLECDILGWQYISGSLPDGHELERLDSPEIQGSKFDPEGEYVRQWLPE 432 (642)
Q Consensus 382 iD~D~a~N~g~Wqw~AG~g~d~~py~RifNP~~q~~k~Dp~G~YIrrWvPE 432 (642)
+|+|.+.||||.--+.|--. ++.| -.||.+||++|....=|.+|
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 78999999999887766422 2333 36899999999999999886
No 42
>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=32.94 E-value=2.3e+02 Score=29.06 Aligned_cols=72 Identities=13% Similarity=0.013 Sum_probs=44.0
Q ss_pred HHHHHHHHhcCCcEEEEECCchHHHHHHHHHHcCC--cEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCee
Q 006521 60 SYLGQSLKSLGAELVLFKTESTLAALLECISAIKA--TKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLL 133 (642)
Q Consensus 60 ~dL~~~L~~lG~~L~v~~~~~~~~~L~~l~~~~~~--~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L 133 (642)
..|.+-|++.+.=++.+.||-.-..+..++.+.|. ..|+++....+. ... +.++++|+..||+.+.++-+.+
T Consensus 3 ~~l~~~l~~~~~vlVa~SGGvDSs~ll~la~~~g~~v~av~~~~~~~~~-~e~-~~a~~~a~~lgi~~~ii~~~~~ 76 (252)
T TIGR00268 3 ENLRNFLKEFKKVLIAYSGGVDSSLLAAVCSDAGTEVLAITVVSPSISP-REL-EDAIIIAKEIGVNHEFVKIDKM 76 (252)
T ss_pred HHHHHHHHhcCCEEEEecCcHHHHHHHHHHHHhCCCEEEEEecCCCCCH-HHH-HHHHHHHHHcCCCEEEEEcHHH
Confidence 56677788877666666666434456667766654 445554322221 122 3577889999999888765433
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=32.48 E-value=1.8e+02 Score=28.91 Aligned_cols=73 Identities=22% Similarity=0.348 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEE-ECCch----HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEE
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLF-KTEST----LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSY 128 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~-~~~~~----~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (642)
|..+-..-+++.++++|..+.++ .+... ...+.+++ ..+++.|+...- ++.... ..+ +.|.+.||+|..+
T Consensus 12 ~~~~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i-~~~~d~Iiv~~~-~~~~~~--~~l-~~~~~~gIpvv~~ 86 (257)
T PF13407_consen 12 FWQQVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAI-SQGVDGIIVSPV-DPDSLA--PFL-EKAKAAGIPVVTV 86 (257)
T ss_dssp HHHHHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHH-HTTESEEEEESS-STTTTH--HHH-HHHHHTTSEEEEE
T ss_pred HHHHHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHH-HhcCCEEEecCC-CHHHHH--HHH-HHHhhcCceEEEE
Confidence 66677788888899999999885 44322 22333333 447998887632 232222 234 3467889999998
Q ss_pred cCC
Q 006521 129 NGD 131 (642)
Q Consensus 129 ~~~ 131 (642)
+..
T Consensus 87 d~~ 89 (257)
T PF13407_consen 87 DSD 89 (257)
T ss_dssp SST
T ss_pred ecc
Confidence 766
No 44
>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=30.12 E-value=4.4e+02 Score=24.89 Aligned_cols=73 Identities=19% Similarity=0.307 Sum_probs=44.4
Q ss_pred HHHHHhcCCcEEEEECCchHHHHHHHHHHc--CCcEEEEecc-cChhhHHHHHHHHHHhhhcCcEEEEEcCCeeecCccc
Q 006521 63 GQSLKSLGAELVLFKTESTLAALLECISAI--KATKVVFNHL-YDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEI 139 (642)
Q Consensus 63 ~~~L~~lG~~L~v~~~~~~~~~L~~l~~~~--~~~~V~~~~~-y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i 139 (642)
++...++|..+.++..+ .+..|.+.+++. .++.|+.|-- |+-.+. +++++++..++++.+++-..++.++++
T Consensus 35 ~~~a~~~g~~v~~~QSN-~EGelid~I~~a~~~~dgiIINpga~thtS~----Ai~DAl~~~~~P~vEVHiSNi~~RE~f 109 (140)
T PF01220_consen 35 KETAAELGVEVEFFQSN-HEGELIDWIHEARDDVDGIIINPGAYTHTSI----AIRDALKAISIPVVEVHISNIHAREEF 109 (140)
T ss_dssp HHHHHHTTEEEEEEE-S-SHHHHHHHHHHHTCTTSEEEEE-GGGGHT-H----HHHHHHHCCTS-EEEEESS-GGGS-GG
T ss_pred HHHHHHCCCeEEEEecC-CHHHHHHHHHHHHhhCCEEEEccchhccccH----HHHHHHHcCCCCEEEEEcCCccccccc
Confidence 33344568899988764 355666666543 4788999942 222233 466677788999999987777765544
Q ss_pred c
Q 006521 140 Y 140 (642)
Q Consensus 140 ~ 140 (642)
.
T Consensus 110 R 110 (140)
T PF01220_consen 110 R 110 (140)
T ss_dssp G
T ss_pred c
Confidence 3
No 45
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=29.55 E-value=5e+02 Score=24.69 Aligned_cols=69 Identities=19% Similarity=0.274 Sum_probs=44.8
Q ss_pred HHhcCCcEEEEECCchHHHHHHHHHHc--CCcEEEEecccChhhHH-HHHHHHHHhhhcCcEEEEEcCCeeecCccc
Q 006521 66 LKSLGAELVLFKTESTLAALLECISAI--KATKVVFNHLYDPVSLV-RDHSIKEKLVELGISVQSYNGDLLYEPWEI 139 (642)
Q Consensus 66 L~~lG~~L~v~~~~~~~~~L~~l~~~~--~~~~V~~~~~y~p~~~~-rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i 139 (642)
-+++|..+.++..+ .+-.|...+++. +++.|+.|- .++- ---+++++++..++++.+++-..++.++++
T Consensus 39 a~~~g~~v~~~QSN-~EGelId~I~~a~~~~dgiiINp----ga~THtSiAl~DAl~~~~~P~VEVHiSNi~aRE~f 110 (146)
T PRK05395 39 AAELGVELEFFQSN-HEGELIDRIHEARDGADGIIINP----GAYTHTSVALRDALAAVSIPVIEVHLSNIHAREEF 110 (146)
T ss_pred HHHcCCEEEEEeeC-cHHHHHHHHHhcccCCcEEEECc----hHHHHHHHHHHHHHHcCCCCEEEEecCCccccccc
Confidence 34568999988754 455566666543 578899983 3221 122466777778999999986666654333
No 46
>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=29.34 E-value=3.5e+02 Score=27.06 Aligned_cols=71 Identities=21% Similarity=0.240 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCc-hHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcC
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTES-TLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~~-~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (642)
|..+-++.+.+.+++.|..+.++..+. ....+.+.+...+++.|+..-.... +..+ +.+.+.||++..++.
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 555666667888999999988875432 2334555566678998876421111 1223 345678999998854
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=28.77 E-value=3.8e+02 Score=27.77 Aligned_cols=73 Identities=16% Similarity=0.213 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCc-h--HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcC
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTES-T--LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~~-~--~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (642)
|+.+...-+.+.+++.|..+++...+. . .....+.+...+++.|+... ......+..+ +.+++.||+|..++.
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 777888899999999999998865431 1 11233335556899888763 1112223333 446778999998864
No 48
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=28.67 E-value=3.4e+02 Score=28.09 Aligned_cols=46 Identities=17% Similarity=0.138 Sum_probs=37.7
Q ss_pred HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEc
Q 006521 82 LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (642)
Q Consensus 82 ~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (642)
...+.+++++.+++.|+-. ..|++...-+.+.++|++.||++.-|.
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 3457788999999976644 369998888899999999999998884
No 49
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=28.62 E-value=5.2e+02 Score=24.58 Aligned_cols=71 Identities=18% Similarity=0.255 Sum_probs=44.5
Q ss_pred HHHHhcCCcEEEEECCchHHHHHHHHHHc--CCcEEEEecc-cChhhHHHHHHHHHHhhhcCcEEEEEcCCeeecCccc
Q 006521 64 QSLKSLGAELVLFKTESTLAALLECISAI--KATKVVFNHL-YDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEI 139 (642)
Q Consensus 64 ~~L~~lG~~L~v~~~~~~~~~L~~l~~~~--~~~~V~~~~~-y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i 139 (642)
+..+++|..|.++..+ .+-.|...+++. +++.|+.|-- |+-++. +++++++..++++.+++-..++.++++
T Consensus 37 ~~a~~~g~~~~~~QSN-~EGelId~i~~a~~~~dgiIINpga~THtSi----Al~DAl~~~~~P~VEVHiSNi~aRE~f 110 (146)
T PRK13015 37 AAAEALGLEVEFRQSN-HEGELIDWIHEARGDVAGIVINPGAYTHTSV----AIRDALAALELPVIEVHISNVHAREAF 110 (146)
T ss_pred HHHHHcCCEEEEEeeC-cHHHHHHHHHHhhhcCCEEEEcchHHhhhHH----HHHHHHHcCCCCEEEEEcCCccccccc
Confidence 3334568999988753 345565665542 4678988832 222222 466677778999999976666654333
No 50
>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=28.33 E-value=1.5e+02 Score=33.18 Aligned_cols=69 Identities=22% Similarity=0.218 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEEC-CchHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEE
Q 006521 55 LKQSLSYLGQSLKSLGAELVLFKT-ESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQS 127 (642)
Q Consensus 55 LlesL~dL~~~L~~lG~~L~v~~~-~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~ 127 (642)
|-+=|..+.+++++.|..+++... .+..+.+.+++++.++..|+........ +-.+.+.+.+.|+++..
T Consensus 49 ld~~l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS~~~e----eigl~~~L~~~g~~~~e 118 (432)
T TIGR00273 49 LDFYLDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSKSMVSE----EIGLNEVLEKIGIEVWE 118 (432)
T ss_pred HHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcCchHHH----HhCCHHHHHhCCCeeee
Confidence 445556677888899999998764 3345668889999999999988543222 22366777778888654
No 51
>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=28.25 E-value=3.6e+02 Score=27.22 Aligned_cols=73 Identities=15% Similarity=0.207 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCchHHH--HHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcC
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTESTLAA--LLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~~~~~~--L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (642)
|..+-+..+.+.+++.|..+++....+.... ..+-+...+++.|++... + ...-+ .+.+.+.+.||++..++.
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~-~--~~~~~-~~~~~~~~~~iPvV~~~~ 87 (289)
T cd01540 13 WFQTEWKFAKKAAKEKGFTVVKIDVPDGEKVLSAIDNLGAQGAKGFVICVP-D--VKLGP-AIVAKAKAYNMKVVAVDD 87 (289)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEccCCCHHHHHHHHHHHHHcCCCEEEEccC-c--hhhhH-HHHHHHHhCCCeEEEecC
Confidence 5557777888889999999888754322211 222234568888887621 1 11112 234446778999998864
No 52
>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=28.23 E-value=1.2e+02 Score=26.56 Aligned_cols=40 Identities=30% Similarity=0.426 Sum_probs=28.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHhh-hccCCcchHHHHHHHHHH
Q 006521 250 GELSVRKVFQCLWMKQILWAKE-ENFEGKESVTFFLRAMGL 289 (642)
Q Consensus 250 G~LSpReV~~~~~~~~~~~~~~-~~~~~~~s~~~fireL~W 289 (642)
|.-|+|+|++++......|..+ +.....+..+.|..||.|
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 4789999999998776666533 233455666778888765
No 53
>PRK10116 universal stress protein UspC; Provisional
Probab=28.05 E-value=4.4e+02 Score=23.55 Aligned_cols=126 Identities=13% Similarity=0.061 Sum_probs=63.6
Q ss_pred CCCCcEEEEecCCCCCCCCHHHHHHHh----CC-CeEEEEEeCCCccCccCCch----hhHHHHHHHHHHHHHHHHhcCC
Q 006521 1 MGGNRTIVWFRRDLRIEDNPALAAAAR----DG-SVFPVYTWCPKEEGQFYPGR----VSRWWLKQSLSYLGQSLKSLGA 71 (642)
Q Consensus 1 m~~~~~lvWFRrDLRl~DN~AL~~A~~----~~-~vlpvfi~dP~~~~~~~~~~----~~r~FLlesL~dL~~~L~~lG~ 71 (642)
|..++.|+=. |.--+...+|..|+. .+ .+..++++++.......... .......+..+.|++.....|+
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 5444445443 333455688888753 23 56677776543110000010 0111111222333333445565
Q ss_pred cE--EEEECCchHHHHHHHHHHcCCcEEEEeccc-ChhhHHHHHHHHHHhhhcCcEEEEEc
Q 006521 72 EL--VLFKTESTLAALLECISAIKATKVVFNHLY-DPVSLVRDHSIKEKLVELGISVQSYN 129 (642)
Q Consensus 72 ~L--~v~~~~~~~~~L~~l~~~~~~~~V~~~~~y-~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (642)
+. .++..|.+.+.+.+.+++.+++-|+..... +...... ..-.+.+...+++|..+.
T Consensus 79 ~~~~~~~~~G~~~~~I~~~a~~~~~DLiV~g~~~~~~~~~~~-s~a~~v~~~~~~pVLvv~ 138 (142)
T PRK10116 79 PIEKTFIAYGELSEHILEVCRKHHFDLVICGNHNHSFFSRAS-CSAKRVIASSEVDVLLVP 138 (142)
T ss_pred CeEEEEEecCCHHHHHHHHHHHhCCCEEEEcCCcchHHHHHH-HHHHHHHhcCCCCEEEEe
Confidence 42 222335667888899999999999885432 2222222 122455667777776653
No 54
>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=27.71 E-value=3.4e+02 Score=27.68 Aligned_cols=75 Identities=28% Similarity=0.272 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHhcCCcEEEEE----CC-----chHHHHHHHHHHcCCcEEEEe-----cccChhh-HHHHHHHHHHhhhc
Q 006521 57 QSLSYLGQSLKSLGAELVLFK----TE-----STLAALLECISAIKATKVVFN-----HLYDPVS-LVRDHSIKEKLVEL 121 (642)
Q Consensus 57 esL~dL~~~L~~lG~~L~v~~----~~-----~~~~~L~~l~~~~~~~~V~~~-----~~y~p~~-~~rD~~V~~~l~~~ 121 (642)
+.|.++-+.+++.|..|+++- || +-+..|.+++++.|+..|+.+ +|+.|.+ ..-=+++.+.|++.
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 566666777777788887762 11 234566777788888877766 4444543 23333566677766
Q ss_pred Cc-EEEEEcCC
Q 006521 122 GI-SVQSYNGD 131 (642)
Q Consensus 122 gV-~v~~~~~~ 131 (642)
|+ ++-++-|.
T Consensus 94 ~~g~IAsv~GR 104 (223)
T PF06415_consen 94 GIGRIASVSGR 104 (223)
T ss_dssp TCTEEEEEEEC
T ss_pred CCceEEEEece
Confidence 54 66666554
No 55
>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=27.24 E-value=4.2e+02 Score=26.53 Aligned_cols=73 Identities=25% Similarity=0.267 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCc--hH---HHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEE
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTES--TL---AALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSY 128 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~~--~~---~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (642)
|..+-+..+.+.+++.|..+.+...+. .. ..+..+ ...+++.|+.... ++ ......++. +++.||++..+
T Consensus 14 ~~~~~~~g~~~~~~~~g~~v~~~~~~~~~~~~~~~~i~~l-~~~~vdgiii~~~-~~--~~~~~~l~~-~~~~~ipvV~~ 88 (271)
T cd06312 14 FWTVVKNGAEDAAKDLGVDVEYRGPETFDVADMARLIEAA-IAAKPDGIVVTIP-DP--DALDPAIKR-AVAAGIPVISF 88 (271)
T ss_pred HHHHHHHHHHHHHHHhCCEEEEECCCCCCHHHHHHHHHHH-HHhCCCEEEEeCC-Ch--HHhHHHHHH-HHHCCCeEEEe
Confidence 666778888888889999998875432 21 222333 3458998887631 11 111223433 56789999988
Q ss_pred cCC
Q 006521 129 NGD 131 (642)
Q Consensus 129 ~~~ 131 (642)
+..
T Consensus 89 ~~~ 91 (271)
T cd06312 89 NAG 91 (271)
T ss_pred CCC
Confidence 643
No 56
>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=26.32 E-value=3.2e+02 Score=27.11 Aligned_cols=71 Identities=13% Similarity=0.130 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCch---HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcC
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTEST---LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~~~---~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (642)
|..+-+..+.+.+++.|..+.+...... ...+..++...+++.|+......+ + .+.+.+.+.||++..++.
T Consensus 18 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-----~-~~~~~~~~~~ipvV~~~~ 91 (270)
T cd06294 18 FFIEVLRGISAVANENGYDISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED-----D-PIIDYLKEEKFPFVVIGK 91 (270)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC-----c-HHHHHHHhcCCCEEEECC
Confidence 5556677778888889999887654322 234555566667888887532111 1 233446778999998864
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=26.12 E-value=3.9e+02 Score=26.59 Aligned_cols=73 Identities=18% Similarity=0.293 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECC-ch---HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEc
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTE-ST---LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~-~~---~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (642)
|..+-+..+.+.++++|..+.+...+ ++ ...+..++ ..+++.|+.... ++. .-+ .+.+.+++.||++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~l~~~~-~~~vdgii~~~~-~~~--~~~-~~i~~~~~~~ipvV~~~ 87 (273)
T cd06305 13 FDQAYLAGTKAEAEALGGDLRVYDAGGDDAKQADQIDQAI-AQKVDAIIIQHG-RAE--VLK-PWVKRALDAGIPVVAFD 87 (273)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHH-HcCCCEEEEecC-Chh--hhH-HHHHHHHHcCCCEEEec
Confidence 55577778888899999998886432 22 22333333 458999888631 111 112 22334677899998886
Q ss_pred CC
Q 006521 130 GD 131 (642)
Q Consensus 130 ~~ 131 (642)
..
T Consensus 88 ~~ 89 (273)
T cd06305 88 VD 89 (273)
T ss_pred CC
Confidence 43
No 58
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=26.06 E-value=5e+02 Score=25.99 Aligned_cols=103 Identities=20% Similarity=0.230 Sum_probs=0.0
Q ss_pred CCCHHHHHHHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCchHHHHHHHHHHcCCcE
Q 006521 17 EDNPALAAAARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTESTLAALLECISAIKATK 96 (642)
Q Consensus 17 ~DN~AL~~A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~~~~~~L~~l~~~~~~~~ 96 (642)
.|-.+|..|.+.| +|.+++++.. ++.+...- .+|.+.|++.+..|+++.| -..-.=..+++.+.-.-
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 EEEecccChh---hHHHHHHHHHHhhhcCcEEEEEcCCe
Q 006521 97 VVFNHLYDPV---SLVRDHSIKEKLVELGISVQSYNGDL 132 (642)
Q Consensus 97 V~~~~~y~p~---~~~rD~~V~~~l~~~gV~v~~~~~~~ 132 (642)
|=.+-..-|. ...-.+.++.-.+..|+.|+.++..+
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 59
>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=26.01 E-value=21 Score=31.27 Aligned_cols=11 Identities=55% Similarity=1.271 Sum_probs=4.6
Q ss_pred ccCCcchhhhh
Q 006521 418 KFDPEGEYVRQ 428 (642)
Q Consensus 418 k~Dp~G~YIrr 428 (642)
||||+|.|.++
T Consensus 84 KyDp~~~y~~k 94 (95)
T PF03392_consen 84 KYDPEGKYRKK 94 (95)
T ss_dssp HHTTT-TTHHH
T ss_pred HHCCCcchhhc
Confidence 44444444443
No 60
>COG3053 CitC Citrate lyase synthetase [Energy production and conversion]
Probab=25.73 E-value=4.2e+02 Score=28.25 Aligned_cols=104 Identities=13% Similarity=0.124 Sum_probs=63.4
Q ss_pred HHHHhCCCeEEEEEeCCCccCccCCchhhHHHHHHHHHHHHHHHHhcCCcEEEEECCc------------------hHHH
Q 006521 23 AAAARDGSVFPVYTWCPKEEGQFYPGRVSRWWLKQSLSYLGQSLKSLGAELVLFKTES------------------TLAA 84 (642)
Q Consensus 23 ~~A~~~~~vlpvfi~dP~~~~~~~~~~~~r~FLlesL~dL~~~L~~lG~~L~v~~~~~------------------~~~~ 84 (642)
..|++....+-+||..... ...+...|...+.+++.+|..----.|++.++-++.- ....
T Consensus 166 EqAaaqcDwlHLFvV~eD~--S~f~y~~R~~Lv~~G~~~l~Nvt~HsgsdYiISrATFP~YFiKeq~vv~~s~t~iDl~i 243 (352)
T COG3053 166 EQAAAQCDWLHLFVVKEDS--SLFPYEDRLDLVKKGTADLPNVTVHSGSDYIISRATFPAYFIKEQSVVNDSQTEIDLKI 243 (352)
T ss_pred HHHHhhCCEEEEEEEeccc--ccCCHHHHHHHHHHhhccCCceEEecCCCeEEEecccchhhhhhHHHHHHHHHHHHHHH
Confidence 4566666788899985432 2234444444789999999876666688877765310 1223
Q ss_pred HHH-HHHHcCCcEEEEecc-cChhhHHHHHHHHHHhhhcC-----cEEEEE
Q 006521 85 LLE-CISAIKATKVVFNHL-YDPVSLVRDHSIKEKLVELG-----ISVQSY 128 (642)
Q Consensus 85 L~~-l~~~~~~~~V~~~~~-y~p~~~~rD~~V~~~l~~~g-----V~v~~~ 128 (642)
+.+ ++...||++-|.-.+ ..+....--+.++.|+.+.+ |+|.+.
T Consensus 244 Fr~~iA~aLgIThRfVG~EP~c~vT~~YNq~M~~~L~~~~~~~p~I~vvei 294 (352)
T COG3053 244 FRKYIAPALGITHRFVGTEPFCRVTAIYNQQMRYWLEDPTISAPPIEVVEI 294 (352)
T ss_pred HHHHHHHHhCcceeeecCCCCcHHHHHHHHHHHHHHhccCCCCCceEEEEe
Confidence 333 456678887766643 23444444566788887776 555543
No 61
>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=25.67 E-value=2.4e+02 Score=28.08 Aligned_cols=73 Identities=11% Similarity=0.109 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCc----hHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEc
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTES----TLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~~----~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (642)
|..+-+..+.+.++++|..+.+...+. ....+.+.+...+++.|++...... . ..+.+.+.+.||++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~----~~~~~~~~~~~ipvv~i~ 87 (270)
T cd01545 13 YVSEIQLGALDACRDTGYQLVIEPCDSGSPDLAERVRALLQRSRVDGVILTPPLSD-N----PELLDLLDEAGVPYVRIA 87 (270)
T ss_pred cHHHHHHHHHHHHHhCCCeEEEEeCCCCchHHHHHHHHHHHHCCCCEEEEeCCCCC-c----cHHHHHHHhcCCCEEEEe
Confidence 555667777778889999988875431 2334566666788999887632111 1 123344667899998886
Q ss_pred CC
Q 006521 130 GD 131 (642)
Q Consensus 130 ~~ 131 (642)
..
T Consensus 88 ~~ 89 (270)
T cd01545 88 PG 89 (270)
T ss_pred cC
Confidence 43
No 62
>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=24.96 E-value=3.7e+02 Score=28.70 Aligned_cols=74 Identities=9% Similarity=0.163 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHhcCCcEEE-EECCchHHHHHHHHHH-c--CCcEEEEecccChhhHHHHHHHHHHh-hhcCcEEEEE
Q 006521 54 WLKQSLSYLGQSLKSLGAELVL-FKTESTLAALLECISA-I--KATKVVFNHLYDPVSLVRDHSIKEKL-VELGISVQSY 128 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v-~~~~~~~~~L~~l~~~-~--~~~~V~~~~~y~p~~~~rD~~V~~~l-~~~gV~v~~~ 128 (642)
|+-+.++.|++.+.+ .++++ +.||-.-.++..++.+ . ++..|++++...+. .+.+ .+++.+ +..||+++.+
T Consensus 2 ~~~~~~~~l~~~v~~--~kVvValSGGVDSsvla~ll~~~~G~~v~av~vd~G~~~~-~E~e-~~~~~~~~~lgi~~~vv 77 (311)
T TIGR00884 2 FIEEAVEEIREQVGD--AKVIIALSGGVDSSVAAVLAHRAIGDRLTCVFVDHGLLRK-GEAE-QVVKTFGDRLGLNLVYV 77 (311)
T ss_pred hHHHHHHHHHHHhCC--CcEEEEecCChHHHHHHHHHHHHhCCCEEEEEEeCCCCCh-HHHH-HHHHHHHHHcCCcEEEE
Confidence 677888899988865 44444 4454322345555544 3 45667777544332 2333 355544 4799999887
Q ss_pred cCC
Q 006521 129 NGD 131 (642)
Q Consensus 129 ~~~ 131 (642)
+.+
T Consensus 78 d~~ 80 (311)
T TIGR00884 78 DAK 80 (311)
T ss_pred eCc
Confidence 654
No 63
>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=24.94 E-value=2.2e+02 Score=28.20 Aligned_cols=62 Identities=19% Similarity=0.268 Sum_probs=40.6
Q ss_pred HHHHHhcCCcEEEEECC-chHHHHHHHHHHcCCcEEEEecccC-hhhHHHHHHHHHHhhhcCcEEEEE
Q 006521 63 GQSLKSLGAELVLFKTE-STLAALLECISAIKATKVVFNHLYD-PVSLVRDHSIKEKLVELGISVQSY 128 (642)
Q Consensus 63 ~~~L~~lG~~L~v~~~~-~~~~~L~~l~~~~~~~~V~~~~~y~-p~~~~rD~~V~~~l~~~gV~v~~~ 128 (642)
.++|++.|..++ .++ ...+.|.+.++ |++.|++.-... +.+......+.+++++.||+...+
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 456777888765 332 23455555554 889888875433 556677778899999999877654
No 64
>PLN02347 GMP synthetase
Probab=24.67 E-value=3e+02 Score=31.80 Aligned_cols=77 Identities=6% Similarity=0.060 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCchHHHHHHHHHH-c--CCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcC
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTESTLAALLECISA-I--KATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~~~~~~L~~l~~~-~--~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (642)
|+.+.++++++.+.+.|.=++-+.||-.-.++..++.+ . ++..|+.+...-+.. +.++.++..++..||+++.++-
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 67788888888877555445555565333455666665 4 456677774433332 3444456677889999988875
Q ss_pred C
Q 006521 131 D 131 (642)
Q Consensus 131 ~ 131 (642)
.
T Consensus 293 ~ 293 (536)
T PLN02347 293 S 293 (536)
T ss_pred c
Confidence 5
No 65
>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=24.38 E-value=4.6e+02 Score=25.85 Aligned_cols=72 Identities=17% Similarity=0.171 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECC-ch---HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEc
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTE-ST---LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~-~~---~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (642)
|..+-+..+.+.++++|..+++...+ +. ...+.+ +...+++.|++... .. .....+.+.+.+.||++..++
T Consensus 13 ~~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~~~-~~~~~~dgii~~~~---~~-~~~~~~l~~l~~~~ipvv~~~ 87 (268)
T cd06323 13 FFVTLKDGAQKEAKELGYELTVLDAQNDAAKQLNDIED-LITRGVDAIIINPT---DS-DAVVPAVKAANEAGIPVFTID 87 (268)
T ss_pred HHHHHHHHHHHHHHHcCceEEecCCCCCHHHHHHHHHH-HHHcCCCEEEEcCC---Ch-HHHHHHHHHHHHCCCcEEEEc
Confidence 66688888889999999999876432 22 122333 34567898777521 11 111122233567899998885
Q ss_pred C
Q 006521 130 G 130 (642)
Q Consensus 130 ~ 130 (642)
.
T Consensus 88 ~ 88 (268)
T cd06323 88 R 88 (268)
T ss_pred c
Confidence 4
No 66
>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=24.33 E-value=4e+02 Score=26.94 Aligned_cols=71 Identities=15% Similarity=0.154 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCchHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCC
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGD 131 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~ 131 (642)
|..+-+..+.+.+++.|..+.+..... .....+.+...+++.|+..-. ... +. +.+.+++.||++..++..
T Consensus 18 ~~~~~~~gi~~~a~~~g~~~~~~~~~~-~~~~~~~~~~~~~dgiii~~~-~~~----~~-~~~~~~~~~ipvV~~~~~ 88 (283)
T cd06279 18 VASQFLAGVAEVLDAAGVNLLLLPASS-EDSDSALVVSALVDGFIVYGV-PRD----DP-LVAALLRRGLPVVVVDQP 88 (283)
T ss_pred cHHHHHHHHHHHHHHCCCEEEEecCcc-HHHHHHHHHhcCCCEEEEeCC-CCC----hH-HHHHHHHcCCCEEEEecC
Confidence 566777788899999999998876543 223444556778998887632 111 12 333457789999988643
No 67
>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=24.27 E-value=4.7e+02 Score=26.64 Aligned_cols=73 Identities=22% Similarity=0.302 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCc-hH--HHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcC
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTES-TL--AALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~~-~~--~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (642)
|..+-+..+.+.++++|..+.+..++. .. ..+.+-+...+++.|++... ++. . -...+ +.+.+.|+++..++.
T Consensus 13 ~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~-~~~-~-~~~~l-~~l~~~~ipvV~~~~ 88 (288)
T cd01538 13 RWIRDRPNFEAALKELGAEVIVQNANGDPAKQISQIENMIAKGVDVLVIAPV-DGE-A-LASAV-EKAADAGIPVIAYDR 88 (288)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecC-Chh-h-HHHHH-HHHHHCCCCEEEECC
Confidence 555777778888999999999876532 11 12222233568898887521 111 1 11223 335678999998864
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=23.36 E-value=3.9e+02 Score=26.77 Aligned_cols=72 Identities=13% Similarity=0.172 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECC-ch--H-HHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEc
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTE-ST--L-AALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~-~~--~-~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (642)
|..+-+..+.+.++++|..+++.... +. . ..+.. +...+++.|++... .+. .-+..+ +.+.+.||++..++
T Consensus 13 ~~~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~-l~~~~vdgiIi~~~-~~~--~~~~~i-~~~~~~~iPvV~~~ 87 (273)
T cd06309 13 WRTAETKSIKDAAEKRGFDLKFADAQQKQENQISAIRS-FIAQGVDVIILAPV-VET--GWDPVL-KEAKAAGIPVILVD 87 (273)
T ss_pred HHHHHHHHHHHHHHhcCCEEEEeCCCCCHHHHHHHHHH-HHHcCCCEEEEcCC-ccc--cchHHH-HHHHHCCCCEEEEe
Confidence 67788889999999999999987542 11 1 22333 44568898887521 111 112223 34567899999887
Q ss_pred C
Q 006521 130 G 130 (642)
Q Consensus 130 ~ 130 (642)
.
T Consensus 88 ~ 88 (273)
T cd06309 88 R 88 (273)
T ss_pred c
Confidence 4
No 69
>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=22.27 E-value=5.8e+02 Score=25.35 Aligned_cols=73 Identities=16% Similarity=0.156 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHh-cCCcEEEEECC-ch---HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEE
Q 006521 54 WLKQSLSYLGQSLKS-LGAELVLFKTE-ST---LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSY 128 (642)
Q Consensus 54 FLlesL~dL~~~L~~-lG~~L~v~~~~-~~---~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (642)
|..+-+..+.+.+++ .|..+++..+. +. ...+.. +...+++.|++... + ......+.+.+.+.||++..+
T Consensus 13 ~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~-l~~~~vdgiii~~~-~---~~~~~~~~~~l~~~~iPvv~~ 87 (272)
T cd06301 13 FLTLLRNAMKEHAKVLGGVELQFEDAKNDVATQLSQVEN-FIAQGVDAIIVVPV-D---TAATAPIVKAANAAGIPLVYV 87 (272)
T ss_pred HHHHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHH-HHHcCCCEEEEecC-c---hhhhHHHHHHHHHCCCeEEEe
Confidence 555666667777888 89999986542 21 222333 34558998876521 1 112223445567889999988
Q ss_pred cCC
Q 006521 129 NGD 131 (642)
Q Consensus 129 ~~~ 131 (642)
+.+
T Consensus 88 ~~~ 90 (272)
T cd06301 88 NRR 90 (272)
T ss_pred cCC
Confidence 653
No 70
>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=22.24 E-value=5e+02 Score=26.75 Aligned_cols=72 Identities=15% Similarity=0.206 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCchH---HHHHHHHHHc--CCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEE
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTESTL---AALLECISAI--KATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSY 128 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~~~~---~~L~~l~~~~--~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (642)
|..+-+..+++.++++|..+++...+... ..+.+-+... +++.|++... ++ .-+ .+.+.+.+.||++..+
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 55677788888899999998877543211 1222234455 8998887521 11 112 2334466789999988
Q ss_pred cC
Q 006521 129 NG 130 (642)
Q Consensus 129 ~~ 130 (642)
+.
T Consensus 89 ~~ 90 (305)
T cd06324 89 NS 90 (305)
T ss_pred ec
Confidence 63
No 71
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the 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.
Probab=21.98 E-value=3.5e+02 Score=27.20 Aligned_cols=71 Identities=15% Similarity=0.128 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECCch---HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcC
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTEST---LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~~~---~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (642)
|..+-+..+.+.++++|..+++...+.. ...+...+...+++.|++... ++. + .+.+.+++.|+++..++.
T Consensus 13 ~~~~~~~~i~~~~~~~gy~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~-~~~----~-~~~~~l~~~~iPvv~~~~ 86 (269)
T cd06297 13 FYRRLLEGIEGALLEQRYDLALFPLLSLARLKRYLESTTLAYLTDGLLLASY-DLT----E-RLAERRLPTERPVVLVDA 86 (269)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEEeCCCcHHHHHHHHHHHHhcCCCEEEEecC-ccC----h-HHHHHHhhcCCCEEEEcc
Confidence 5557778888889999999998764322 223334456778998888732 111 1 233446678999988864
No 72
>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=21.90 E-value=6.8e+02 Score=23.62 Aligned_cols=71 Identities=17% Similarity=0.258 Sum_probs=45.4
Q ss_pred HHHHhcCCcEEEEECCchHHHHHHHHHHc--CCcEEEEecccChhhHH-HHHHHHHHhhhcCcEEEEEcCCeeecCccc
Q 006521 64 QSLKSLGAELVLFKTESTLAALLECISAI--KATKVVFNHLYDPVSLV-RDHSIKEKLVELGISVQSYNGDLLYEPWEI 139 (642)
Q Consensus 64 ~~L~~lG~~L~v~~~~~~~~~L~~l~~~~--~~~~V~~~~~y~p~~~~-rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i 139 (642)
+.-+++|+.+.++..+ .+..|.+.+++. +++.|+.|- .++- ---+++++++..++++.+++-..++.++++
T Consensus 35 ~~a~~~g~~v~~~QSN-~Egelid~I~~a~~~~dgiIINp----ga~THtSvAi~DAl~~~~~P~VEVHiSNi~aRE~f 108 (140)
T cd00466 35 ELAAELGVEVEFFQSN-HEGELIDWIHEARDGADGIIINP----GAYTHTSIALRDALAAVSIPVIEVHISNIHAREEF 108 (140)
T ss_pred HHHHHcCCEEEEEeeC-cHHHHHHHHHHhhccCcEEEEcc----hHHHHHHHHHHHHHHcCCCCEEEEecCCccccccc
Confidence 3334568999988754 355566666543 477899983 3221 222467777788999999987666655444
No 73
>COG0191 Fba Fructose/tagatose bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=21.68 E-value=7e+02 Score=26.43 Aligned_cols=70 Identities=17% Similarity=0.216 Sum_probs=47.2
Q ss_pred HHHHHHHHHH-HhcCCcEEEEEC-CchHHHHHHHHHHcCCcEEEEecccChhhH--HHHHHHHHHhhhcCcEEEE
Q 006521 57 QSLSYLGQSL-KSLGAELVLFKT-ESTLAALLECISAIKATKVVFNHLYDPVSL--VRDHSIKEKLVELGISVQS 127 (642)
Q Consensus 57 esL~dL~~~L-~~lG~~L~v~~~-~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~--~rD~~V~~~l~~~gV~v~~ 127 (642)
+.+.++-..+ ++.++|+.+... +...+.+.+.+ +.|.+.|-++-...|++. ..-++|.+.|...||.|..
T Consensus 61 ~~~~~~v~~~a~~~~vPV~lHlDHg~~~~~~~~ai-~~GFsSvMiDgS~~~~eENi~~tkevv~~ah~~gvsVEa 134 (286)
T COG0191 61 DSLAHMVKALAEKYGVPVALHLDHGASFEDCKQAI-RAGFSSVMIDGSHLPFEENIAITKEVVEFAHAYGVSVEA 134 (286)
T ss_pred HHHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHH-hcCCceEEecCCcCCHHHHHHHHHHHHHHHHHcCCcEEE
Confidence 5666655555 457899887532 33445554433 458999998876667654 4556788899999998875
No 74
>cd06322 PBP1_ABC_sugar_binding_like_12 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 consist 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=21.53 E-value=5.7e+02 Score=25.33 Aligned_cols=72 Identities=14% Similarity=0.161 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECC-ch---HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEc
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTE-ST---LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYN 129 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~-~~---~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~ 129 (642)
|..+-+..+.+.+++.|..+.+.... +. .+.+.. +...+++.|++.-. ++ ..-+..+.. +++.||++..++
T Consensus 13 ~~~~~~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~-~~~~~vdgiii~~~-~~--~~~~~~~~~-~~~~~ipvV~~~ 87 (267)
T cd06322 13 FYIELANAMKEEAKKQKVNLIVSIANQDLNKQLSDVED-FITKKVDAIVLSPV-DS--KGIRAAIAK-AKKAGIPVITVD 87 (267)
T ss_pred HHHHHHHHHHHHHHhcCCEEEEecCCCCHHHHHHHHHH-HHHcCCCEEEEcCC-Ch--hhhHHHHHH-HHHCCCCEEEEc
Confidence 66688888888999999999886542 11 222333 34568998888521 11 111223444 567899999886
Q ss_pred C
Q 006521 130 G 130 (642)
Q Consensus 130 ~ 130 (642)
.
T Consensus 88 ~ 88 (267)
T cd06322 88 I 88 (267)
T ss_pred c
Confidence 3
No 75
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=21.10 E-value=2.3e+02 Score=26.59 Aligned_cols=47 Identities=28% Similarity=0.233 Sum_probs=34.5
Q ss_pred CCchHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCeee
Q 006521 78 TESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLY 134 (642)
Q Consensus 78 ~~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~ 134 (642)
++...+.|.+.+.+++..-|.+| |+.+++.+.+.||++..+.+..++
T Consensus 83 ~~~aDe~i~~~a~~~~~~iVaTn----------D~eLk~rlr~~GIPvi~lr~r~~~ 129 (136)
T COG1412 83 GRYADECLLEAALKHGRYIVATN----------DKELKRRLRENGIPVITLRQRKLL 129 (136)
T ss_pred CCChHHHHHHHHHHcCCEEEEeC----------CHHHHHHHHHcCCCEEEEeCCeEE
Confidence 44556788888989885445555 557888888889999999865433
No 76
>PF11994 DUF3489: Protein of unknown function (DUF3489); InterPro: IPR021880 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 84 to 211 amino acids in length. This protein has a single completely conserved residue W that may be functionally important.
Probab=20.73 E-value=81 Score=26.24 Aligned_cols=37 Identities=30% Similarity=0.329 Sum_probs=27.6
Q ss_pred HHhcCCCCcHHHHHHHHHHHHhCccchHHHHHHHHHHHhhcCCC
Q 006521 326 AWRQGRTGYPLVDAGMRELWATGWIHNRIRVIVSSFAVKVLLLP 369 (642)
Q Consensus 326 aW~~G~TG~PlVDAaMRqL~~TGwmHnr~Rm~VAsFLtk~L~id 369 (642)
...+|-| |++.| .+|||..|-+|-.++..|-|.|++.
T Consensus 20 ~rp~GAT----i~ei~---~atGWq~HTvRgalsg~~kKklGl~ 56 (72)
T PF11994_consen 20 RRPEGAT----IAEIC---EATGWQPHTVRGALSGLLKKKLGLT 56 (72)
T ss_pred cCCCCCC----HHHHH---HhhCCchhhHHHHHHHHHHHhcCcE
Confidence 3455654 34433 4799999999999999998888764
No 77
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=20.50 E-value=1.7e+02 Score=27.26 Aligned_cols=45 Identities=20% Similarity=0.147 Sum_probs=29.3
Q ss_pred HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEE
Q 006521 82 LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSY 128 (642)
Q Consensus 82 ~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (642)
.+.+.+++++.+++.|+..-. ..+..+-+++.+.|++.||+++..
T Consensus 130 ~~~l~~~~~~~~id~v~ial~--~~~~~~i~~ii~~~~~~~v~v~~v 174 (175)
T PF13727_consen 130 LDDLPELVREHDIDEVIIALP--WSEEEQIKRIIEELENHGVRVRVV 174 (175)
T ss_dssp GGGHHHHHHHHT--EEEE--T--TS-HHHHHHHHHHHHTTT-EEEE-
T ss_pred HHHHHHHHHhCCCCEEEEEcC--ccCHHHHHHHHHHHHhCCCEEEEe
Confidence 466888999999999998842 233445566888899999999864
No 78
>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=20.37 E-value=6.1e+02 Score=25.27 Aligned_cols=73 Identities=14% Similarity=0.147 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEEC---CchH--HHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEE
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKT---ESTL--AALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSY 128 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~---~~~~--~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~ 128 (642)
|+.+-+..+.+.++++|..+.+... ++.. ..+.+-+...+++.|++.. .+. ...+..+ +.+.+.||++..+
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 5556667778888889999988642 1221 1222334455899887752 111 1112233 3456789999987
Q ss_pred cC
Q 006521 129 NG 130 (642)
Q Consensus 129 ~~ 130 (642)
+.
T Consensus 89 ~~ 90 (275)
T cd06320 89 ND 90 (275)
T ss_pred CC
Confidence 64
No 79
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=20.04 E-value=4.2e+02 Score=26.87 Aligned_cols=71 Identities=21% Similarity=0.279 Sum_probs=49.8
Q ss_pred HHHHHHHhc-CCcEEEEECCchHHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcCCeeecCccc
Q 006521 61 YLGQSLKSL-GAELVLFKTESTLAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNGDLLYEPWEI 139 (642)
Q Consensus 61 dL~~~L~~l-G~~L~v~~~~~~~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~~~L~~p~~i 139 (642)
++.+.+++. |++.+ .. ..++.+-++..++.+|..- +||-...-+..++.+..+|+++..|-+-.+.+--++
T Consensus 89 ei~~~ie~~~~v~vv--Tt---s~Avv~aL~al~a~ri~vl---TPY~~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~ei 160 (238)
T COG3473 89 EIAQRIEEAKGVPVV--TT---STAVVEALNALGAQRISVL---TPYIDEVNQREIEFLEANGFEIVDFKGLGITDNLEI 160 (238)
T ss_pred HHHHHHHhccCCcee--ec---hHHHHHHHHhhCcceEEEe---ccchhhhhhHHHHHHHhCCeEEEEeeccCCcccchh
Confidence 445555554 44444 21 2245566788899999876 688877778889999999999999987777653333
No 80
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=20.02 E-value=6.1e+02 Score=25.85 Aligned_cols=73 Identities=12% Similarity=0.124 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEECC-ch--HHHHHHHHHHcCCcEEEEecccChhhHHHHHHHHHHhhhcCcEEEEEcC
Q 006521 54 WLKQSLSYLGQSLKSLGAELVLFKTE-ST--LAALLECISAIKATKVVFNHLYDPVSLVRDHSIKEKLVELGISVQSYNG 130 (642)
Q Consensus 54 FLlesL~dL~~~L~~lG~~L~v~~~~-~~--~~~L~~l~~~~~~~~V~~~~~y~p~~~~rD~~V~~~l~~~gV~v~~~~~ 130 (642)
|..+-+..+.+.++++|..+++...+ +. ...+.+.+...+++.|+.... +.. .... ..+.+++.||++..++.
T Consensus 40 f~~~~~~~i~~~~~~~G~~~~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~-~~~--~~~~-~l~~~~~~~ipvV~~~~ 115 (295)
T PRK10653 40 FFVSLKDGAQKEADKLGYNLVVLDSQNNPAKELANVQDLTVRGTKILLINPT-DSD--AVGN-AVKMANQANIPVITLDR 115 (295)
T ss_pred HHHHHHHHHHHHHHHcCCeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCC-ChH--HHHH-HHHHHHHCCCCEEEEcc
Confidence 66678888899999999999886432 22 112233344567887776521 111 1112 23445678999998864
Done!