Query 011155
Match_columns 492
No_of_seqs 140 out of 1278
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 08:44:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011155.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011155hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00591 phr2 photolyase PhrI 100.0 1E-103 2E-108 834.0 39.5 449 11-467 3-454 (454)
2 COG0415 PhrB Deoxyribodipyrimi 100.0 7E-101 2E-105 787.2 32.6 415 29-485 2-430 (461)
3 TIGR02766 crypt_chrom_pln cryp 100.0 8.4E-97 2E-101 784.8 31.8 410 32-485 1-440 (475)
4 PRK10674 deoxyribodipyrimidine 100.0 1.2E-94 2.6E-99 765.2 36.6 413 30-484 3-436 (472)
5 TIGR03556 photolyase_8HDF deox 100.0 2.9E-94 6.4E-99 762.0 33.6 410 30-483 2-439 (471)
6 TIGR02765 crypto_DASH cryptoch 100.0 2.8E-93 6.1E-98 749.7 34.1 398 29-471 1-429 (429)
7 PF03441 FAD_binding_7: FAD bi 100.0 1.4E-66 3E-71 514.9 2.0 223 232-485 1-239 (277)
8 KOG0133 Deoxyribodipyrimidine 100.0 9.6E-65 2.1E-69 524.6 14.6 418 27-487 3-458 (531)
9 PF00875 DNA_photolyase: DNA p 100.0 2E-31 4.3E-36 244.7 14.0 150 31-185 1-157 (165)
10 COG3046 Uncharacterized protei 100.0 3.7E-30 8.1E-35 253.5 23.4 376 30-444 3-422 (505)
11 KOG0133 Deoxyribodipyrimidine 98.9 4.6E-12 1E-16 132.8 -13.8 436 11-460 78-527 (531)
12 PF04244 DPRP: Deoxyribodipyri 97.8 8.9E-05 1.9E-09 71.1 9.4 149 32-189 1-163 (224)
13 PRK09982 universal stress prot 92.1 1 2.3E-05 39.6 9.0 83 44-127 17-110 (142)
14 PRK15005 universal stress prot 90.2 2.5 5.5E-05 36.8 9.5 82 45-127 19-114 (144)
15 PRK12652 putative monovalent c 89.8 3.1 6.6E-05 43.0 10.9 108 44-153 19-148 (357)
16 cd01988 Na_H_Antiporter_C The 89.8 4.3 9.2E-05 34.5 10.5 82 44-126 13-100 (132)
17 cd00293 USP_Like Usp: Universa 89.3 5.2 0.00011 33.2 10.5 84 43-127 12-100 (130)
18 cd01989 STK_N The N-terminal d 89.0 5.4 0.00012 34.8 10.7 85 42-127 11-110 (146)
19 cd01987 USP_OKCHK USP domain i 88.6 5.1 0.00011 33.8 10.0 80 43-127 12-92 (124)
20 PRK10116 universal stress prot 86.9 7.2 0.00016 33.8 10.2 85 42-127 15-109 (142)
21 PRK15456 universal stress prot 84.4 8.4 0.00018 33.5 9.3 81 44-126 18-111 (142)
22 PF00582 Usp: Universal stress 81.9 11 0.00023 31.6 8.8 84 44-127 16-109 (140)
23 cd01994 Alpha_ANH_like_IV This 80.1 14 0.0003 34.6 9.5 89 56-153 21-119 (194)
24 TIGR00289 conserved hypothetic 78.1 17 0.00037 34.9 9.5 95 46-153 16-116 (222)
25 PRK15118 universal stress glob 77.6 23 0.0005 30.7 9.7 84 43-127 16-110 (144)
26 TIGR00290 MJ0570_dom MJ0570-re 72.1 34 0.00075 32.8 9.9 96 45-153 15-116 (223)
27 PRK10490 sensor protein KdpD; 71.9 24 0.00052 41.1 10.5 107 43-155 262-373 (895)
28 PRK11175 universal stress prot 67.0 45 0.00099 33.0 10.1 81 45-126 174-267 (305)
29 PRK11175 universal stress prot 62.6 72 0.0016 31.5 10.6 89 38-127 11-114 (305)
30 TIGR03679 arCOG00187 arCOG0018 57.9 92 0.002 29.7 9.9 65 56-126 19-92 (218)
31 COG2205 KdpD Osmosensitive K+ 53.4 2.1E+02 0.0045 32.9 12.7 109 43-156 260-374 (890)
32 PF08218 Citrate_ly_lig: Citra 50.9 97 0.0021 28.7 8.2 96 59-155 26-144 (182)
33 COG0589 UspA Universal stress 50.5 1.6E+02 0.0034 25.0 9.9 78 48-126 24-119 (154)
34 COG2102 Predicted ATPases of P 50.0 1.2E+02 0.0027 29.0 9.1 99 44-153 14-117 (223)
35 COG2217 ZntA Cation transport 49.4 34 0.00075 38.7 6.2 41 91-132 547-587 (713)
36 PF01902 ATP_bind_4: ATP-bindi 49.1 33 0.00072 32.8 5.2 95 46-153 16-116 (218)
37 PF10087 DUF2325: Uncharacteri 48.8 82 0.0018 25.7 7.0 64 86-156 12-83 (97)
38 COG3590 PepO Predicted metallo 48.2 11 0.00024 40.6 2.0 47 412-472 474-521 (654)
39 PF00702 Hydrolase: haloacid d 44.3 44 0.00095 30.8 5.3 49 83-132 129-181 (215)
40 TIGR01497 kdpB K+-transporting 39.0 1.2E+02 0.0026 34.2 8.3 60 84-148 449-508 (675)
41 cd00128 XPG Xeroderma pigmento 38.3 67 0.0014 32.4 5.8 19 109-127 130-148 (316)
42 PRK01122 potassium-transportin 38.0 67 0.0014 36.2 6.2 48 84-132 448-495 (679)
43 PRK09856 fructoselysine 3-epim 37.1 1.9E+02 0.0041 28.1 8.8 75 49-124 94-176 (275)
44 PF01261 AP_endonuc_2: Xylose 35.8 2.1E+02 0.0045 25.9 8.5 80 46-126 72-161 (213)
45 PRK14010 potassium-transportin 35.4 77 0.0017 35.7 6.2 48 84-132 444-491 (673)
46 PRK03980 flap endonuclease-1; 34.0 1.1E+02 0.0025 30.6 6.6 21 108-128 84-104 (292)
47 COG1139 Uncharacterized conser 34.0 1E+02 0.0022 32.5 6.3 67 84-155 65-134 (459)
48 COG2179 Predicted hydrolase of 33.6 1.7E+02 0.0036 26.9 6.8 54 88-144 53-106 (175)
49 TIGR03674 fen_arch flap struct 32.3 1.3E+02 0.0028 30.8 6.8 20 109-128 132-151 (338)
50 TIGR01490 HAD-SF-IB-hyp1 HAD-s 31.2 93 0.002 28.5 5.2 45 82-127 88-132 (202)
51 TIGR01088 aroQ 3-dehydroquinat 31.1 2.3E+02 0.0049 25.2 7.1 65 95-162 38-105 (141)
52 cd06279 PBP1_LacI_like_3 Ligan 30.9 2.4E+02 0.0053 27.1 8.4 71 80-156 17-87 (283)
53 COG0796 MurI Glutamate racemas 30.4 2.2E+02 0.0048 28.2 7.7 64 63-127 33-98 (269)
54 PRK13015 3-dehydroquinate dehy 29.9 2.9E+02 0.0062 24.7 7.6 65 95-162 40-107 (146)
55 PRK13210 putative L-xylulose 5 29.5 3.6E+02 0.0078 26.1 9.4 79 47-126 96-179 (284)
56 TIGR03234 OH-pyruv-isom hydrox 29.2 4.1E+02 0.009 25.3 9.6 81 46-128 85-176 (254)
57 TIGR00067 glut_race glutamate 29.0 2E+02 0.0043 28.0 7.3 63 63-126 26-91 (251)
58 KOG0207 Cation transport ATPas 29.0 1.5E+02 0.0033 34.2 7.0 41 91-132 733-773 (951)
59 TIGR01525 ATPase-IB_hvy heavy 27.6 2.2E+02 0.0049 31.1 8.2 49 82-131 385-434 (556)
60 TIGR01512 ATPase-IB2_Cd heavy 27.4 1.7E+02 0.0038 31.9 7.2 50 82-132 363-413 (536)
61 COG0191 Fba Fructose/tagatose 27.3 6.4E+02 0.014 25.2 10.6 69 84-153 61-134 (286)
62 TIGR01491 HAD-SF-IB-PSPlk HAD- 27.1 90 0.002 28.4 4.4 28 95-122 93-120 (201)
63 TIGR01488 HAD-SF-IB Haloacid D 26.8 66 0.0014 28.7 3.3 40 85-125 77-116 (177)
64 KOG3167 Box H/ACA snoRNP compo 26.3 87 0.0019 27.6 3.6 46 81-127 59-109 (153)
65 PF13727 CoA_binding_3: CoA-bi 26.2 1.7E+02 0.0036 25.8 5.9 44 109-154 130-174 (175)
66 PF06574 FAD_syn: FAD syntheta 25.9 41 0.00088 30.4 1.7 107 48-156 26-145 (157)
67 cd06811 PLPDE_III_yhfX_like Ty 25.4 3.5E+02 0.0077 28.1 8.8 75 41-127 7-84 (382)
68 PRK07084 fructose-bisphosphate 25.2 5E+02 0.011 26.4 9.4 99 50-153 40-144 (321)
69 COG0113 HemB Delta-aminolevuli 24.7 3.9E+02 0.0085 27.0 8.2 105 33-145 5-114 (330)
70 TIGR00542 hxl6Piso_put hexulos 24.3 5E+02 0.011 25.2 9.3 79 47-126 96-179 (279)
71 cd06277 PBP1_LacI_like_1 Ligan 24.2 4.2E+02 0.0092 25.0 8.7 69 81-156 16-88 (268)
72 cd06294 PBP1_ycjW_transcriptio 24.2 3E+02 0.0066 25.9 7.7 71 80-156 17-91 (270)
73 cd02970 PRX_like2 Peroxiredoxi 24.1 4.1E+02 0.0088 22.5 7.8 60 58-123 23-82 (149)
74 COG0196 RibF FAD synthase [Coe 23.6 3E+02 0.0065 27.8 7.4 108 45-155 33-152 (304)
75 PF10111 Glyco_tranf_2_2: Glyc 23.6 4.9E+02 0.011 25.5 9.1 78 84-164 21-105 (281)
76 PF13911 AhpC-TSA_2: AhpC/TSA 22.8 1.5E+02 0.0032 24.7 4.5 40 86-128 2-44 (115)
77 PRK10671 copA copper exporting 22.2 3.1E+02 0.0067 31.8 8.3 43 89-132 658-700 (834)
78 cd06297 PBP1_LacI_like_12 Liga 21.6 5.1E+02 0.011 24.6 8.7 71 80-156 12-86 (269)
79 COG0220 Predicted S-adenosylme 21.6 2.4E+02 0.0053 27.1 6.2 48 84-132 83-132 (227)
80 PRK09997 hydroxypyruvate isome 21.2 5.9E+02 0.013 24.4 9.0 78 47-126 87-175 (258)
81 cd06295 PBP1_CelR Ligand bindi 21.0 5.7E+02 0.012 24.2 8.9 70 81-156 24-95 (275)
82 COG0560 SerB Phosphoserine pho 20.8 1.1E+02 0.0023 29.1 3.5 41 86-127 82-122 (212)
83 TIGR02432 lysidine_TilS_N tRNA 20.7 6.3E+02 0.014 22.8 8.9 75 43-126 11-105 (189)
84 PF13778 DUF4174: Domain of un 20.5 2.7E+02 0.0059 23.6 5.7 44 64-111 13-56 (118)
85 PF01591 6PF2K: 6-phosphofruct 20.4 4.4E+02 0.0094 25.3 7.6 78 66-145 64-146 (222)
86 cd06547 GH85_ENGase Endo-beta- 20.3 4.8E+02 0.01 26.7 8.4 104 32-158 37-151 (339)
87 TIGR01544 HAD-SF-IE haloacid d 20.3 1.4E+02 0.003 29.7 4.3 36 85-121 125-160 (277)
88 cd06313 PBP1_ABC_sugar_binding 20.3 6.3E+02 0.014 24.1 9.1 73 80-157 12-89 (272)
89 PRK00865 glutamate racemase; P 20.2 3.6E+02 0.0078 26.3 7.3 62 63-125 33-96 (261)
90 COG0529 CysC Adenylylsulfate k 20.1 5.4E+02 0.012 24.1 7.6 61 88-153 42-124 (197)
No 1
>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=9.7e-104 Score=833.96 Aligned_cols=449 Identities=53% Similarity=0.906 Sum_probs=378.6
Q ss_pred cccccccccccCc-CCCCC-CcEEEEEeCCCCccCCHHHHHHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHH
Q 011155 11 VQPGRIRVLKQGS-LDKKR-GPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRL 88 (492)
Q Consensus 11 ~~~~r~~~~~~~~-~~~~~-~~~l~WfRrDLRl~DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~ 88 (492)
+++.||+-+++.+ +...+ ..+|||||||||++||+||++|++.|.+.+.+|+||||+||.+...+.+|.+||++||.+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~vL~WFRrDLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~~~~~r~~Fl~esL~~ 82 (454)
T TIGR00591 3 FAKKRRRLLSETEKPDLRSSGVVVYWMSRDQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLAATRRHYFFMLGGLDE 82 (454)
T ss_pred CCchheeeccCCCCccCCCCCeEEEEecCchhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCcccccHHHHHHHHHHHHH
Confidence 7899999999965 54444 449999999999999999999998666667799999999999887899999999999999
Q ss_pred HHHHHHhhcCCcEEEEeCChhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhcCCCeEEEEeCceeEeCcccccC
Q 011155 89 LQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEK 168 (492)
Q Consensus 89 L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~~~v~~~~~~~~~l~~~~~~~~~ 168 (492)
|+++| +++|++|+|+.|++.++|.+|+++++|++||++.++...++++|+.|++.|+.+|.++++++++|++++.+.++
T Consensus 83 L~~~L-~~~g~~L~v~~g~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~rd~~v~~~l~~~i~~~~~~~~~l~p~~~~~~~ 161 (454)
T TIGR00591 83 VANEC-ERLIIPFHLLDGPPKELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLLPKDVPFQQVDAHNVVPCWAASKK 161 (454)
T ss_pred HHHHH-HHcCCceEEeecChHHHHHHHHHHcCCCEEEEecccCcHHHHHHHHHHHHhcCCCcEEEECCceEeeCcccCCc
Confidence 99999 99999999999999999999999999999999888877789999999999966899999999999999877667
Q ss_pred CCCccccchHHHHhhCCccccCCCCCcCCCCcCCCCCCCCChhHHHHHHhhcCCCCCCcCcC-CCcHHHHHHHHccchhH
Q 011155 169 LEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWC-ESGEDAAMEVLKGSKDG 247 (492)
Q Consensus 169 ~~~~~~t~~~~~~~~~~~~~~~~~~~~p~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~gGe~~A~~~L~~~~~~ 247 (492)
.+|++|||+++..+.++..+.+.+...+.+.|....+...++..++..+ .+..++.. ..+ +|||++|+++| ++
T Consensus 162 ~~y~~ft~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~-~~~~~gGe~aA~~~L----~~ 235 (454)
T TIGR00591 162 LEYAARTIRGKIRKLLPEYLTEFPRVLKHPSPLDLEAGPVDWDAVRDSL-AVERSVEE-VVWAKPGTTAGLIML----ES 235 (454)
T ss_pred eeeeeecHHHHHHHhChhhccccCCCccCCcccccccCcCCHHHHHHhc-cCcCCcCC-cCCCCCcHHHHHHHH----HH
Confidence 8999999998776554332222222100011110001112222211111 11112211 125 99999999999 99
Q ss_pred HHHhhhcCCCCCCCCCCCCCCCCcccccccCCCCCHHHHHHHHHHHhhhCCccHHHHHHHhHhHHHHHHHHHHhCCCCcc
Q 011155 248 FLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDS 327 (492)
Q Consensus 248 Fl~~~l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~fi~eL~wRrEf~~~~~~~~p~~~~ 327 (492)
|+++++.+|.++||.|+. ++||+|||||+||+||||+|++++.+......++.+.|++||+||||||+++++++|++.+
T Consensus 236 F~~~~l~~Y~~~Rn~p~~-~~tS~LSPyL~~G~IS~R~i~~~~~~~~~~~~~~~~~fl~EL~WR~ef~~~~~~~~p~~~~ 314 (454)
T TIGR00591 236 FIEKRLCFFRTRRNDPNN-DALSMLSPWLHFGQLSAQRAARAVERARGNAGESVEFFEEELVVRRELADNFCFYNPYYDS 314 (454)
T ss_pred HHHHHHHHHHHhcCCccc-ccccccchHHhcCcccHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHHhHhhhcCCCccc
Confidence 999999999999999999 9999999999999999999999986544322345678999999998999999999999988
Q ss_pred cccchhHHHHhhhhhccChhhhhhhHHHHHhCCCCchHHHHHHHHHHHhCccchHHHHHHhcCccCCCccHHHHHHHHHH
Q 011155 328 LKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIY 407 (492)
Q Consensus 328 ~~~~~~w~~~~l~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~vak~LidW~~G~~~a~~~~~~ 407 (492)
+.....|..+++.+|+.|.+++.+.|++|++|+|||||||||||||++|||||||+||+|||+||||+.|+++|+..++|
T Consensus 315 ~~~~~~w~~~~l~~~~~d~r~~~~~~~~W~~G~Tg~pivdA~MrqL~~TG~MHNr~RMi~aK~li~W~~g~~~f~~~~~~ 394 (454)
T TIGR00591 315 LCGAYWWARTTLDDHAKDKREHLYSLEQLEKSTTHDYLWNAAQEQLVTEGKMHGFLRMYWAKKILEWTHSPEEALSIAIY 394 (454)
T ss_pred cccchHHHHHHHHHHhcCCccccCCHHHHHhcCcCcHhHhHHHHHHHHhCccccceeeeeeeehhhcCCCHHHHHHHHHH
Confidence 66667799889988877765555579999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhccccCCCCCCCcCceEeecccCCCCCCCCCCcCcccccCcchhhhcCCchhHHHhh
Q 011155 408 LNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYV 467 (492)
Q Consensus 408 f~~~yliD~d~a~n~~~wqw~a~G~~~~g~~~~pyfg~~R~~np~~q~~k~Dp~~yir~w 467 (492)
++++||||||+|||+|||||++||+|+++|.++|+||+||+|||.+|++||||++|||+|
T Consensus 395 ln~~~lvDgd~a~n~~~wqW~~~G~d~~p~~~~~~fg~iR~~np~~q~~kfd~~~yi~~~ 454 (454)
T TIGR00591 395 LNDKYILDGRDPNGYVGCMWSICGIHDQGWAERIVFGKIRYMNYAGCRRKFNVAYFERKY 454 (454)
T ss_pred hhhhhhccCCCCCccceeeeEeccccCCCCCCCccceeeeecChhhhhccCCHHHHHhhC
Confidence 999999999999999999999559999999999999999999999999999999999998
No 2
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=100.00 E-value=7.1e-101 Score=787.23 Aligned_cols=415 Identities=23% Similarity=0.323 Sum_probs=343.3
Q ss_pred CcEEEEEeCCCCccCCHHHHHHHHHhhhCCCC-EEEEEEecCCcc-ccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeC
Q 011155 29 GPVVYWMFRDQRVRDNWALIHAVDQANKNNVP-VAVAFNLFDQFL-GAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG 106 (492)
Q Consensus 29 ~~~l~WfRrDLRl~DN~aL~~A~~~a~~~~~~-v~~vfi~dp~~~-~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G 106 (492)
+++|||||||||++||+||++|++ .+.+ +++|||+||.+. ..++++.+||.+||++|+++| +++||+|+|..|
T Consensus 2 ~~~l~WfrrDLR~~DN~aL~~A~~----~~~~~~~~vfi~~~~~~~~~~~~~~~Fl~~sL~~L~~~L-~~~gi~L~v~~~ 76 (461)
T COG0415 2 STVLVWFRRDLRLTDNAALAAACQ----SGQPVIIAVFILDPEQLGHASPRHAAFLLQSLQALQQSL-AELGIPLLVREG 76 (461)
T ss_pred CeEEEEeccccccCChHHHHHHHh----cCCCceEEEEEechhhccccCHHHHHHHHHHHHHHHHHH-HHcCCceEEEeC
Confidence 578999999999999999999998 3555 579999999987 489999999999999999999 999999999999
Q ss_pred ChhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHh-cCCCeEEEEeCceeEeCcccc--cCCCCccccchH-HHHh
Q 011155 107 EAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVAS--EKLEYSAKTLRG-KINK 182 (492)
Q Consensus 107 ~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l-~~~v~~~~~~~~~l~~~~~~~--~~~~~~~~t~~~-~~~~ 182 (492)
++.++|++++++.+++.|++++++...++.||.+|++.| +.||.++.|+++++++|+.+. .+++|++||+|+ +|..
T Consensus 77 ~~~~~l~~~~~~~~~~~v~~n~~~~~~~~~rD~al~~~l~~~gi~~~~~~d~~l~~p~~~~t~~~~~y~vfT~F~k~~~~ 156 (461)
T COG0415 77 DPEQVLPELAKQLAATTVFWNRDYEEWERQRDAALAQPLTEVGIAVHSFWDALLHEPGEVRTGSGEPYKVFTPFYKAWRD 156 (461)
T ss_pred CHHHHHHHHHHHhCcceEEeeeeechhHHHHHHHHHHHHHhcCceEEEeccccccCHhhccCCCCCCccccchHHHHHHH
Confidence 999999999999999999998777667789999999999 589999999999999997643 478899999775 4554
Q ss_pred hCCccccCCCCCcCCCCcCCCCCCCCChhHHHHHHhhcCC-CCCCcCcCCCcHHHHHHHHccchhHHHHhhhcCCCCCCC
Q 011155 183 LLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGA-EVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRN 261 (492)
Q Consensus 183 ~~~~~~~~~~~~~p~~~p~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~gGe~~A~~~L~~~~~~Fl~~~l~~Y~~~Rd 261 (492)
.+. ..++.+. | ..... ...... ++.....+. .......+.|||.+|+++| ++|+..++.+|++.||
T Consensus 157 ~~~-~~~~~~~--p--~~~~~-~~~~~~---~~~~~~~P~~~~~~~~~~~~Ge~aA~~~l----~~F~~~~l~~Y~~~Rd 223 (461)
T COG0415 157 RLR-ILRPVPA--P--DVLDA-LRDEEP---PPEEISLPDFSKFDVLLFTGGEKAALARL----QDFLAEGLDDYERTRD 223 (461)
T ss_pred hcc-cCCCCCC--c--chhcc-cccccc---CcccccCCccccccccCCCchHHHHHHHH----HHHHHHHHHHHHHhcC
Confidence 432 1122221 1 00000 000000 000001110 1111235799999999999 9999999999999999
Q ss_pred CCCCCCCCCcccccccCCCCCHHHHHHHHHHHhhhCCccHHHHHHHhHhHHHHHHHHHHhCCCCcccccchhHHHHhhhh
Q 011155 262 NPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKD 341 (492)
Q Consensus 262 ~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~fi~eL~wRrEf~~~~~~~~p~~~~~~~~~~w~~~~l~~ 341 (492)
+|.. ++||+|||||++|+||||+||+++.++.....++.+.|++||+|| |||+|+++++|+..... +|..++...
T Consensus 224 ~p~~-~~TS~LSpyL~~G~IS~r~v~~~~~~~~~~~~~~~~~~~~eL~WR-EFy~h~~~~~p~~~~~~---~~~~~~~~~ 298 (461)
T COG0415 224 FPAL-DGTSRLSPYLAFGVISPREVYAALLAAESDAREGTAALINELIWR-EFYQHLLYHYPSLSRFE---PFAEKTLNI 298 (461)
T ss_pred Cccc-ccccccCHHHHcCCcCHHHHHHHHHHhhhcccchHHHHHHHHHHH-HHHHHHHHhCCcccccc---cccccccCC
Confidence 9999 999999999999999999999999987765567788999999999 99999999999874322 132222222
Q ss_pred hccChhhhhhhHHHHHhCCCCchHHHHHHHHHHHhCccchHHHHHHh----cCc-cCCCccHHHHHHHHHHHhhhccccC
Q 011155 342 HASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWA----KKI-LEWTTGPEEALAIAIYLNDKYEIDG 416 (492)
Q Consensus 342 ~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~va----k~L-idW~~G~~~a~~~~~~f~~~yliD~ 416 (492)
+..+.+ +.|++||+|+|||||||||||||++|||||||+||+|| |+| ||||.||. ||+++ ||||
T Consensus 299 ~w~~~~---~~f~aW~~G~TGyPIVDA~MRqL~~TG~MHNR~RMivAsFL~k~L~IdWR~GE~-------~F~~~-LiD~ 367 (461)
T COG0415 299 PWEDNP---AHFQAWQEGKTGYPIVDAAMRQLNQTGYMHNRMRMIVASFLTKDLLIDWREGEK-------YFMRQ-LIDG 367 (461)
T ss_pred ccccCH---HHHHHHhcCCCCCccccHHHHHHHHhCCcchHHHHHHHHHHHHhcCCCHHHHHH-------HHHHh-ccCC
Confidence 211222 36999999999999999999999999999999999999 899 99999999 99999 9999
Q ss_pred CCCCCCcCceEeec-ccCCCCCCCCCCcCcccccCcchhhhcCCchh-HHHhhhhhhcCCCcccccccccC
Q 011155 417 RDPNGYVGCMWSIC-GVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAYVKRIVGGTKKRRADSLVSG 485 (492)
Q Consensus 417 d~a~n~~~wqw~a~-G~~~~g~~~~pyfg~~R~~np~~q~~k~Dp~~-yir~wvPeL~~~~~~~~~~~~~~ 485 (492)
|+|||+|||||+|| |+|+ +||| |||||++|++||||+| |||+|||||++||.+.+|.||+-
T Consensus 368 D~asN~ggWQW~AstG~Da-----~pyf---RiFNp~~Q~~kfDp~g~fIr~wvPeL~~~~~~~ih~p~~~ 430 (461)
T COG0415 368 DPASNNGGWQWAASTGTDA-----APYF---RIFNPVTQAEKFDPDGEFIRRWVPELRNLPDKYIHEPWEL 430 (461)
T ss_pred CcccCCCCeeEEeccCCCC-----Ccce---eccCHHHHHhhcCCCcccHHhhCHHhhCCChhhccChhhc
Confidence 99999999999995 7775 5999 9999999999999998 99999999999999999999853
No 3
>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=8.4e-97 Score=784.81 Aligned_cols=410 Identities=19% Similarity=0.213 Sum_probs=328.5
Q ss_pred EEEEeCCCCccCCHHHHHHHHHhhhCCCCEEEEEEecCCccc---cchhHHHHHHHHHHHHHHHHHhhcCCcEEEEe-CC
Q 011155 32 VYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLG---AKARQLGFMLRGLRLLQRNIEETFQILFFLFQ-GE 107 (492)
Q Consensus 32 l~WfRrDLRl~DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~~---~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~-G~ 107 (492)
||||||||||+||+||.+|++ .+ +|+||||+||.++. .+.++.+||++||.+|+++| +++|++|+|+. |+
T Consensus 1 l~WFRrDLRl~DN~aL~~A~~----~~-~vlpvyi~dp~~~~~~~~~~~~~~fl~~sL~~L~~~L-~~~G~~L~v~~~g~ 74 (475)
T TIGR02766 1 IVWFRRDLRVEDNPALAAAAR----AG-PVIPVFVWAPEEEGQYYPGRVSRWWLKQSLAHLDQSL-RSLGTCLVTIRSTD 74 (475)
T ss_pred CEecCCCCCcchHHHHHHHHh----CC-CEEEEEEechHHhccccccHHHHHHHHHHHHHHHHHH-HHcCCceEEEeCCC
Confidence 699999999999999999985 34 89999999997653 46788889999999999999 99999999984 89
Q ss_pred hhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhc-CCCeEEEEeCceeEeCcccc--cCCCCccccch-HHHHhh
Q 011155 108 AEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVS-DSVTIHEVDAHNVVPVWVAS--EKLEYSAKTLR-GKINKL 183 (492)
Q Consensus 108 ~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~-~~v~~~~~~~~~l~~~~~~~--~~~~~~~~t~~-~~~~~~ 183 (492)
+.++|.+|+++++|++||++.++...++.||++|+++|. .||.++.+++++|++|+.+. .+++|++||.| +++.+.
T Consensus 75 ~~~~l~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~~~gi~~~~~~~~~l~~p~~i~~~~~~~~~~ft~f~~~~~~~ 154 (475)
T TIGR02766 75 TVAALLDCVRSTGATRLFFNHLYDPVSLVRDHRAKEVLTAQGISVQSFNADLLYEPWEVYDELGRPFTMFAAFWERCLSM 154 (475)
T ss_pred HHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHcCCEEEEecCCEEEChhhhcccCCCCCCeecHHHHHHHhc
Confidence 999999999999999999988887777999999999994 89999999999999998543 46789999765 454432
Q ss_pred CCccccCCCCCcCCCCcCCCCCCCCChhH--HHHHHhhcCCCCCCcCcCCCcHHHHHHHHccchhHHHHhhhcCCCCCCC
Q 011155 184 LPEYLIDYPMLEQPIEKWTGTRQSIDWDS--IIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRN 261 (492)
Q Consensus 184 ~~~~~~~~~~~~p~~~p~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~~~~~Fl~~~l~~Y~~~Rd 261 (492)
......+.+. |...+..... ...... +.+.. ...........++|||++|+++| ++|+++++.+|+.+||
T Consensus 155 ~~~~~~~~~~--p~~~~~~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~~gGe~~A~~~L----~~Fl~~~~~~Y~~~Rd 226 (475)
T TIGR02766 155 PYDPESPLLP--PKKIISGDVS-KCSADDLGFEDDS-EKGSNALLARAWSPGWSNADKAL----TEFINGPLLEYSKNRK 226 (475)
T ss_pred cCCCCCCCCC--ccccCCCccc-cCChhhcCCCCcc-cccccccccccCCCccHHHHHHH----HHHHHHHHHHHhhcCC
Confidence 1111000110 1111100000 000000 00000 00000000123799999999999 9999999999999999
Q ss_pred CCCCCCCCCcccccccCCCCCHHHHHHHHHHHh-----hh---CCccHHHHHHHhHhHHHHHHHHHHhCCCCcccc----
Q 011155 262 NPLKPRALSGLSPYLHFGQISAQRCALEARKAR-----KL---CPEAIDTFLEELIVRRELADNFCFYQPNYDSLK---- 329 (492)
Q Consensus 262 ~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~-----~~---~~~~~~~fi~eL~wRrEf~~~~~~~~p~~~~~~---- 329 (492)
.|+. ++||+|||||++||||||+|++++.... .+ ..++.++|++||+|| |||+++++++|.+.+..
T Consensus 227 ~p~~-~~tS~LSPyL~~G~ISpR~v~~~~~~~~~~~~~~~~~~~~~s~~~f~~eL~WR-ef~~~~~~~~p~~~~~~~~~~ 304 (475)
T TIGR02766 227 KADS-ATTSLLSPYLHFGEVSVRKVFHLVRMKQIAWANEGNSAGEESVNLFLRSIGLR-EYSRYISFNHPFSHEKPLLGH 304 (475)
T ss_pred CCCC-CCCCCCCcccccCcccHHHHHHHHHhhhhhhhhcccCCCcccHHHHHHHHHHH-HHHHHHHHhCCcccccchhhh
Confidence 9998 9999999999999999999999985211 11 234678899999998 99999999998764321
Q ss_pred -cchhHHHHhhhhhccChhhhhhhHHHHHhCCCCchHHHHHHHHHHHhCccchHHHHHHh----cCc-cCCCccHHHHHH
Q 011155 330 -GAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWA----KKI-LEWTTGPEEALA 403 (492)
Q Consensus 330 -~~~~w~~~~l~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~va----k~L-idW~~G~~~a~~ 403 (492)
..++|. .++ ..|++|++|+|||||||||||||++|||||||+||||| |+| ||||.|++
T Consensus 305 ~~~~~w~--------~~~----~~f~aW~~G~TG~P~VDA~MRqL~~TGwmhnR~Rm~vAsfl~k~L~idWr~G~~---- 368 (475)
T TIGR02766 305 LKFFPWA--------VDE----NYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVVVSSFFVKVLQLPWRWGMK---- 368 (475)
T ss_pred hhcCCCC--------CCH----HHHHHHHcCCCCCcchhHHHHHHHHHCCCcHHHHHHHHHHHHcccCCChHHHHH----
Confidence 012332 222 25999999999999999999999999999999999999 899 99999999
Q ss_pred HHHHHhhhccccCCCCCCCcCceEeec-ccCCCCCCCCCCcCcccccCcchhhhcCCchh-HHHhhhhhhcCCCcccccc
Q 011155 404 IAIYLNDKYEIDGRDPNGYVGCMWSIC-GVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAYVKRIVGGTKKRRADS 481 (492)
Q Consensus 404 ~~~~f~~~yliD~d~a~n~~~wqw~a~-G~~~~g~~~~pyfg~~R~~np~~q~~k~Dp~~-yir~wvPeL~~~~~~~~~~ 481 (492)
||+++ |||||+|+|+|||||+|| |+|+ +||| |||||++|++||||+| |||+|||||+++|+++||.
T Consensus 369 ---~F~~~-LiD~D~a~N~g~Wqw~Ag~g~d~-----~~~~---RifnP~~q~~~~Dp~g~yir~wvPeL~~~p~~~ih~ 436 (475)
T TIGR02766 369 ---YFWDT-LLDADLESDALGWQYISGSLPDG-----RELD---RIDNPQLEGYKFDPNGEYVRRWLPELARLPTEWIHH 436 (475)
T ss_pred ---HHHHH-ccccchhcccccccccccCCCCC-----Cccc---ccCCHHHHHhhcCCCcccHHHhChhhccCCHHHhcC
Confidence 99999 999999999999999995 7776 5999 9999999999999998 9999999999999999999
Q ss_pred cccC
Q 011155 482 LVSG 485 (492)
Q Consensus 482 ~~~~ 485 (492)
||.-
T Consensus 437 Pw~~ 440 (475)
T TIGR02766 437 PWDA 440 (475)
T ss_pred cccC
Confidence 9943
No 4
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=1.2e-94 Score=765.25 Aligned_cols=413 Identities=21% Similarity=0.258 Sum_probs=336.3
Q ss_pred cEEEEEeCCCCccCCHHHHHHHHHhhhCCCCEEEEEEecCCcc---ccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeC
Q 011155 30 PVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFL---GAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG 106 (492)
Q Consensus 30 ~~l~WfRrDLRl~DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~---~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G 106 (492)
++||||||||||+||+||.+|++. .+.+|+||||+||.+. ..|.+|++||+|||.+|+++| +++|++|+|+.|
T Consensus 3 ~~l~WfRrDLRl~DN~aL~~A~~~---~~~~vlpvyv~dp~~~~~~~~~~~r~~Fl~esL~~L~~~L-~~~g~~L~v~~g 78 (472)
T PRK10674 3 THLVWFRNDLRLHDNLALAAACRD---PSARVLALFIATPAQWAAHDMAPRQAAFINAQLNALQIAL-AEKGIPLLFHEV 78 (472)
T ss_pred ceEEEECCCCCcchHHHHHHHHhC---CCCCEEEEEEECchhhccCCCCHHHHHHHHHHHHHHHHHH-HHcCCceEEEec
Confidence 369999999999999999999863 1247999999999754 368999999999999999999 999999999975
Q ss_pred ----ChhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhcCCCeEEEEeCceeEeCccc--ccCCCCccccch-HH
Q 011155 107 ----EAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVA--SEKLEYSAKTLR-GK 179 (492)
Q Consensus 107 ----~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~~~v~~~~~~~~~l~~~~~~--~~~~~~~~~t~~-~~ 179 (492)
++.++|++|+++++|+.||++.++...++.||++|++.|. +|.++.+++++|++++.+ ..+++|++||+| ++
T Consensus 79 ~~~g~~~~vl~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~-~i~~~~~~~~~l~~~~~i~~~~~~~y~~ft~f~~~ 157 (472)
T PRK10674 79 DDFAASVEWLKQFCQQHQVTHLFYNYQYEVNERQRDAAVERALR-NVVCQGFDDSVLLPPGSVMTGNHEMYKVFTPFKNA 157 (472)
T ss_pred CCcCCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHcC-CCEEEEecCceEeCccccccCCCCCCCcccHHHHH
Confidence 6999999999999999999998888888999999999996 899999999999999864 456789999966 56
Q ss_pred HHhhCCccccCCCCCcCCCCcCCCCCCCCChhHHHHHHhhcCCCCC--CcCcCCCcHHHHHHHHccchhHHHHhhhcCCC
Q 011155 180 INKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVP--EIGWCESGEDAAMEVLKGSKDGFLTKRLKNYP 257 (492)
Q Consensus 180 ~~~~~~~~~~~~~~~~p~~~p~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~gGe~~A~~~L~~~~~~Fl~~~l~~Y~ 257 (492)
|.+.+.... |.. ...|....+..... +.+..++..+. ....++|||++|+++| ++|+++++.+|+
T Consensus 158 ~~~~~~~~~---p~~--~~~p~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~gGe~~A~~~L----~~f~~~~l~~Y~ 224 (472)
T PRK10674 158 FLKRLREGD---PEC--VPAPKVRSSGAIEP----LPPIPFNYPQQSFDTALFPVGEKAAIAQL----RQFCQQGAGEYE 224 (472)
T ss_pred HHHhhcccC---Ccc--CCCCccccccccCC----CCcccccCcccccccCCCCCCHHHHHHHH----HHHHHHHHHHhc
Confidence 665443211 110 00110000000000 00001111111 1124799999999999 999999999999
Q ss_pred CCCCCCCCCCCCCcccccccCCCCCHHHHHHHHHHHhhh--CCccHHHHHHHhHhHHHHHHHHHHhCCCCcccccchhHH
Q 011155 258 TDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKL--CPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWA 335 (492)
Q Consensus 258 ~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~--~~~~~~~fi~eL~wRrEf~~~~~~~~p~~~~~~~~~~w~ 335 (492)
.+||.|+. ++||+|||||+|||||||+|++.+.+..+. ...+.+.|++||+|| |||+++++++|++....+...|.
T Consensus 225 ~~r~~p~~-~~tS~LSPyL~~G~iS~r~v~~~~~~~~~~~~~~~~~~~fl~eL~WR-ef~~~~~~~~p~~~~~~~~~~~~ 302 (472)
T PRK10674 225 QQRDFPAV-DGTSRLSAYLATGVLSPRQCLHRLLAEQPQALDGGAGSVWLNELIWR-EFYRHLMVAYPSLCKHRPFIAWT 302 (472)
T ss_pred cccCCCCc-cCCCCcChhhccCcCCHHHHHHHHHHHhhhhhccCchhHHHHHHHHH-HHHHHHHHhCCchhhccCcchhh
Confidence 99999988 899999999999999999999999764322 123456899999988 99999999999876543433444
Q ss_pred HHhhhhhccChhhhhhhHHHHHhCCCCchHHHHHHHHHHHhCccchHHHHHHh----cCc-cCCCccHHHHHHHHHHHhh
Q 011155 336 RKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWA----KKI-LEWTTGPEEALAIAIYLND 410 (492)
Q Consensus 336 ~~~l~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~va----k~L-idW~~G~~~a~~~~~~f~~ 410 (492)
.....+ .+. +.|++|++|+|||||||||||||++|||||||+||+|| |+| |||+.|++ ||++
T Consensus 303 ~~~~w~--~~~----~~~~~W~~G~TG~P~vDA~mrqL~~tG~mhnr~Rm~vAsfL~k~L~idWr~G~~-------~F~~ 369 (472)
T PRK10674 303 DRVQWQ--SNP----AHLQAWQQGKTGYPIVDAAMRQLNSTGWMHNRLRMITASFLVKDLLIDWREGER-------YFMS 369 (472)
T ss_pred hccCcc--cCH----HHHHHHHcCCCCCccHHHHHHHHHHHCCccHHHHHHHHHHHHcCcccCCHhHHH-------HHHH
Confidence 322211 232 35999999999999999999999999999999999999 999 99999999 9999
Q ss_pred hccccCCCCCCCcCceEeec-ccCCCCCCCCCCcCcccccCcchhhhcCCchh-HHHhhhhhhcCCCccccccccc
Q 011155 411 KYEIDGRDPNGYVGCMWSIC-GVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAYVKRIVGGTKKRRADSLVS 484 (492)
Q Consensus 411 ~yliD~d~a~n~~~wqw~a~-G~~~~g~~~~pyfg~~R~~np~~q~~k~Dp~~-yir~wvPeL~~~~~~~~~~~~~ 484 (492)
+ |||||+|||+|||||+|| |+|+ +||| |+|||++|++||||+| |||+|+|||++||.+++|.||.
T Consensus 370 ~-LlD~D~a~N~g~Wqw~ag~G~d~-----~py~---R~fnP~~q~~k~Dp~g~yIr~w~PeL~~~p~~~ih~Pw~ 436 (472)
T PRK10674 370 Q-LIDGDLAANNGGWQWAASTGTDA-----APYF---RIFNPTTQGERFDRDGEFIRRWLPELRDVPGKAIHQPWR 436 (472)
T ss_pred H-hhcCCcccchhccceeecCCCCC-----Ccce---eecCHHHHHHHhCCCCChHHHhChhhccCCHHhhcCccc
Confidence 9 999999999999999995 8886 5999 9999999999999998 9999999999999999999994
No 5
>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=2.9e-94 Score=762.03 Aligned_cols=410 Identities=21% Similarity=0.275 Sum_probs=333.4
Q ss_pred cEEEEEeCCCCccCCHHHHHHHHHhhhCCCCEEEEEEecCCccc---cchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeC
Q 011155 30 PVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLG---AKARQLGFMLRGLRLLQRNIEETFQILFFLFQG 106 (492)
Q Consensus 30 ~~l~WfRrDLRl~DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~~---~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G 106 (492)
.+|||||||||++||+||.+|++ .+.+|+||||+||.+.. .+.+|.+||++||.+|+++| +++|++|+++.|
T Consensus 2 ~vl~WfRrDLRl~DN~AL~~A~~----~~~~vl~vfi~dp~~~~~~~~~~~r~~Fl~esL~~L~~~L-~~~G~~L~v~~G 76 (471)
T TIGR03556 2 LILFWHRRDLRLSDNIGLAAARQ----QSAKVVGLFCLDPNILQADDMAPARVAYLIGCLQELQQRY-QQAGSQLLILQG 76 (471)
T ss_pred CEEEEeCCCCCcchHHHHHHHHh----cCCCEEEEEEEchhhhccccCCHHHHHHHHHHHHHHHHHH-HHCCCCeEEEEC
Confidence 58999999999999999999986 46789999999998653 57899999999999999999 999999999999
Q ss_pred ChhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhc-CCCeEEEEeCceeEeCccc--ccCCCCccccchHHHHhh
Q 011155 107 EAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVS-DSVTIHEVDAHNVVPVWVA--SEKLEYSAKTLRGKINKL 183 (492)
Q Consensus 107 ~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~-~~v~~~~~~~~~l~~~~~~--~~~~~~~~~t~~~~~~~~ 183 (492)
++.++|.+|+++++|++|+++.++...++.||++|++.|. .||.++.+.+++|++|+.+ ..+.+|++||+|.+....
T Consensus 77 ~p~~vl~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~i~~~~~~~y~~ft~f~k~~~~ 156 (471)
T TIGR03556 77 DPVQLIPQLAQQLGAKAVYWNLDVEPYGRKRDRAVAAALKEAGIAVVTLWDQLLHSPDEILTGSGNPYTVYTPFWKNWSS 156 (471)
T ss_pred CHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHCCCEEEEeCCcEEECccccccCCCCCCcchhHHHHHHHh
Confidence 9999999999999999999987777777899999999994 8999999999999998854 356789999988543322
Q ss_pred CCccccCCCCCcCCCCc-CCC-CC---CCCChhHHHHHHhhcCCCCCCcCcCCCcHHHHHHHHccchhHHHHhhhcCCCC
Q 011155 184 LPEYLIDYPMLEQPIEK-WTG-TR---QSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPT 258 (492)
Q Consensus 184 ~~~~~~~~~~~~p~~~p-~~~-~~---~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~~~~~Fl~~~l~~Y~~ 258 (492)
.... .+++. |...+ .+. .. ..++... +|.+..++........++|||++|+++| ++|+++++.+|..
T Consensus 157 ~~~~-~~~~~--p~~~~~~~~~~~~~~~~~~~~~-~p~~~~~~~~~~~~~~~~gGe~~A~~~L----~~f~~~~l~~Y~~ 228 (471)
T TIGR03556 157 LPKP-TPVAT--PTELEGLTEAELEAAAPLGVIA-LPTAKDLGFDWDGDLILEPGETAAQARL----EEFCDRAIADYQE 228 (471)
T ss_pred cccc-CCCCC--ccccccCCcccccccccccccc-CCcccccccccccccCCCCcHHHHHHHH----HHHHHHHHHHhhh
Confidence 2210 11111 11000 000 00 0011000 0111111111111113789999999999 9999999999999
Q ss_pred CCCCCCCCCCCCcccccccCCCCCHHHHHHHHHHHhhh-----CCccHHHHHHHhHhHHHHHHHHHHhCCCCccccc---
Q 011155 259 DRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKL-----CPEAIDTFLEELIVRRELADNFCFYQPNYDSLKG--- 330 (492)
Q Consensus 259 ~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~-----~~~~~~~fi~eL~wRrEf~~~~~~~~p~~~~~~~--- 330 (492)
+||.|.. ++||+|||||+|||||+|+|++++.++... ...++++|++||+|| |||+++++++|++....-
T Consensus 229 ~r~~p~~-~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~~~~~~~~~~~~f~~eL~WR-ef~~~~~~~~p~~~~~~~~~~ 306 (471)
T TIGR03556 229 QRNFPAL-DGTSQLSPALKFGVIGIRTVWQATQEAHENSRSEEARNSIRTWQQELAWR-EFYQHALYHFPELADGPYRSL 306 (471)
T ss_pred ccCCCCC-CCCCCCChhhcCCcccHHHHHHHHHHHHhhcccccccccHHHHHHHHHHH-HHHHHHHHHCcchhccccchh
Confidence 9999988 899999999999999999999999764421 234578899999998 999999998898654210
Q ss_pred --chhHHHHhhhhhccChhhhhhhHHHHHhCCCCchHHHHHHHHHHHhCccchHHHHHHh----cCc-cCCCccHHHHHH
Q 011155 331 --AWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWA----KKI-LEWTTGPEEALA 403 (492)
Q Consensus 331 --~~~w~~~~l~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~va----k~L-idW~~G~~~a~~ 403 (492)
.++|. .++ +.|++|++|+||||+||||||||++|||||||+||+|| |+| |||+.|++
T Consensus 307 ~~~~~w~--------~~~----~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~vAsfl~k~L~idWr~G~~---- 370 (471)
T TIGR03556 307 FQNFPWE--------NNE----AHFQAWCEGRTGYPIVDAAMRQLNETGWMHNRCRMIVASFLTKDLIINWQWGEK---- 370 (471)
T ss_pred hhcCCCc--------CCH----HHHHHHhcCCCCCCcccHHHHHHHHhCCccHHHHHHHHHHHHcccCCCHHHHHH----
Confidence 12342 232 25999999999999999999999999999999999999 788 99999999
Q ss_pred HHHHHhhhccccCCCCCCCcCceEeec-ccCCCCCCCCCCcCcccccCcchhhhcCCchh-HHHhhhhhhcCCCcccccc
Q 011155 404 IAIYLNDKYEIDGRDPNGYVGCMWSIC-GVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAYVKRIVGGTKKRRADS 481 (492)
Q Consensus 404 ~~~~f~~~yliD~d~a~n~~~wqw~a~-G~~~~g~~~~pyfg~~R~~np~~q~~k~Dp~~-yir~wvPeL~~~~~~~~~~ 481 (492)
||+++ |||||+|||+|||||+|| |+|++ | | |+|||++|++||||+| |||+|+|||+++|+++||.
T Consensus 371 ---~F~~~-LlD~D~a~N~g~Wqw~a~~G~d~~-----p-~---R~fnp~~q~~k~Dp~G~yIr~w~PeL~~~p~~~ih~ 437 (471)
T TIGR03556 371 ---YFMQK-LIDGDLAANNGGWQWSASSGMDPK-----P-L---RIFNPASQAQKFDPEAEYIRRWLPELRSVDTKDLVT 437 (471)
T ss_pred ---HHHHH-hhhcChhhccccccchhcCCCCCC-----C-C---cccCHHHHHHHhCCCCchHHHhCHhhccCCHhhhcC
Confidence 99999 999999999999999995 88864 6 7 9999999999999998 9999999999999999999
Q ss_pred cc
Q 011155 482 LV 483 (492)
Q Consensus 482 ~~ 483 (492)
|+
T Consensus 438 p~ 439 (471)
T TIGR03556 438 GK 439 (471)
T ss_pred cc
Confidence 87
No 6
>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=2.8e-93 Score=749.67 Aligned_cols=398 Identities=20% Similarity=0.211 Sum_probs=317.1
Q ss_pred CcEEEEEeCCCCccCCHHHHHHHHHhhhCCCCEEEEEEecCCccc---------cchhHHHHHHHHHHHHHHHHHhhcCC
Q 011155 29 GPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLG---------AKARQLGFMLRGLRLLQRNIEETFQI 99 (492)
Q Consensus 29 ~~~l~WfRrDLRl~DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~~---------~~~~r~~Fl~esL~~L~~~L~~~lG~ 99 (492)
+.+|||||||||++||+||.+|++ .+.+|+||||+||.++. .|++|.+||++||++|+++| +++|+
T Consensus 1 ~~~l~WfRrDLRl~DN~aL~~A~~----~~~~vl~vfi~dp~~~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L-~~~g~ 75 (429)
T TIGR02765 1 KVVLYWFRNDLRVHDNPALYKASS----SSDTLIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESLKDLRTSL-RKLGS 75 (429)
T ss_pred CeEEEEeCCCCccccHHHHHHHHh----cCCeEEEEEEECchHhccccccccCCCCHHHHHHHHHHHHHHHHHH-HHcCC
Confidence 468999999999999999999987 35689999999998654 58999999999999999999 99999
Q ss_pred cEEEEeCChhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHh-cCCCeEEEEeCceeEeCcccc--cCCCCccccc
Q 011155 100 LFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVAS--EKLEYSAKTL 176 (492)
Q Consensus 100 ~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l-~~~v~~~~~~~~~l~~~~~~~--~~~~~~~~t~ 176 (492)
+|+++.|++.++|.+|+++++|++||++.++...++.||+.|++.| +.||.++.+++++|++|+.+. .+++|++||.
T Consensus 76 ~L~v~~G~~~~vl~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~v~~~~~~~~~~ft~ 155 (429)
T TIGR02765 76 DLLVRSGKPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALARLGIHVEQHWGSTLYHEDDLPFDLEDLPDVFTQ 155 (429)
T ss_pred CeEEEeCCHHHHHHHHHHHhCCCEEEEeccCCHHHHHHHHHHHHHHHhcCceEEEecCCEeECHHhcCCCCCCCCCCchH
Confidence 9999999999999999999999999999888888899999999999 489999999999999988643 3678889986
Q ss_pred hH-HHHhhCCccccCCCCCcCCCCcCCCCCCCCChhHHHHHHhhcCCC---CCCcCcCCCcHHHHHHHHccchhHHHH-h
Q 011155 177 RG-KINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAE---VPEIGWCESGEDAAMEVLKGSKDGFLT-K 251 (492)
Q Consensus 177 ~~-~~~~~~~~~~~~~~~~~p~~~p~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~gGe~~A~~~L~~~~~~Fl~-~ 251 (492)
|+ ++.+.+. ...+++. |...+.. +...+.. ..|.+..++.. ......++|||++|+++| ++|+. +
T Consensus 156 f~~~~~~~~~-~~~~~~~--p~~~~~~--~~~~~~~-~~~~l~~~~~~~~~~~~~~~~~gGe~~A~~~L----~~Fl~~~ 225 (429)
T TIGR02765 156 FRKQVEAKCS-IRPPLPA--PEKLPPL--PSVDDPG-WIPTLEDLGEESSEVDRGLPFVGGETAGLARL----KEYFWSK 225 (429)
T ss_pred HHHHHHhhCC-CCCCCCC--cccCCCC--ccccccc-CCCChhhcCCCcccccccCCcCchHHHHHHHH----HHHHhhc
Confidence 64 4443222 1222221 1111100 0000000 01112112211 111123789999999999 99997 4
Q ss_pred hhcCCCCCCCCCCCCCCCCcccccccCCCCCHHHHHHHHHHHhhhC--CccHHHHHHHhHhHHHHHHHHHHhCC-CCccc
Q 011155 252 RLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLC--PEAIDTFLEELIVRRELADNFCFYQP-NYDSL 328 (492)
Q Consensus 252 ~l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~--~~~~~~fi~eL~wRrEf~~~~~~~~p-~~~~~ 328 (492)
.+..|+..||.|...++||+|||||+||+||||+|++++.+..... .++.+.|+.||+|| |||+++++++| .+...
T Consensus 226 ~l~~Y~~~R~~~~~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~~~~~~~~~~~~eL~WR-ef~~~~~~~~~~~~~~~ 304 (429)
T TIGR02765 226 DLKSYKETRNGMLGPDYSTKFSPWLALGCVSPRQIYEELQRYETERGANDSTYWVIFELLWR-DYFRFYALKYGNRLFRF 304 (429)
T ss_pred cHhhhhhccCcccCCCCcCccCHHHhCCcccHHHHHHHHHHHHhhcccCCCcHHHHHHHHHH-HHHHHHHHHcCCccccc
Confidence 6999999999865327899999999999999999999987643211 22344567799998 99998876765 34433
Q ss_pred ccc----hhHHHHhhhhhccChhhhhhhHHHHHhCCCCchHHHHHHHHHHHhCccchHHHHHHh----cCc-cCCCccHH
Q 011155 329 KGA----WEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWA----KKI-LEWTTGPE 399 (492)
Q Consensus 329 ~~~----~~w~~~~l~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~va----k~L-idW~~G~~ 399 (492)
.+. ++|. .++ +.|++|++|+|||||||||||||++|||||||+||+|| |+| ||||+|++
T Consensus 305 ~~~~~~~~~w~--------~~~----~~~~~W~~G~TG~PivDAamrqL~~TG~mhnr~Rm~vAsFl~k~L~idWr~G~~ 372 (429)
T TIGR02765 305 GGLRGKHPKWS--------FDA----KRFEQWKTGTTGYPLVDANMRELNATGFMSNRGRQNVASFLVKDLGLDWRYGAE 372 (429)
T ss_pred CCCccCCCCCc--------cCH----HHHHHHhCCCCCChhhhHHHHHHHHhCCCCHHHHHHHHHHHHHccCCCHHHHHH
Confidence 222 3564 232 36999999999999999999999999999999999998 889 99999999
Q ss_pred HHHHHHHHHhhhccccCCCCCCCcCceEeec-ccCCCCCCCCCCcCcccccCcchhhhcCCchh-HHHhhhhhh
Q 011155 400 EALAIAIYLNDKYEIDGRDPNGYVGCMWSIC-GVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAYVKRIV 471 (492)
Q Consensus 400 ~a~~~~~~f~~~yliD~d~a~n~~~wqw~a~-G~~~~g~~~~pyfg~~R~~np~~q~~k~Dp~~-yir~wvPeL 471 (492)
||+++ |||||+|+|+|||||+|| |+|+ +| | |||||++|++||||+| |||+|||||
T Consensus 373 -------~F~~~-LiD~D~a~n~g~Wqw~ag~g~d~-----~~-~---Rifnp~~q~~k~Dp~g~yir~wvPeL 429 (429)
T TIGR02765 373 -------WFETQ-LVDYDVCSNWGNWQYLAGVGNDP-----RG-S---RQFNIEKQAQDYDPDGEYVATWVPEL 429 (429)
T ss_pred -------HHHHH-hhccchhcCcccchhhhcCcCCC-----Cc-C---ccCCHHHHHHhcCCCCCcHHHhcCCC
Confidence 99999 999999999999999995 7775 47 8 9999999999999998 999999997
No 7
>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=1.4e-66 Score=514.92 Aligned_cols=223 Identities=30% Similarity=0.493 Sum_probs=185.4
Q ss_pred CcHHHHHHHHccchhHHHHhhhcCCCCCCCCCCCCCCCCcccccccCCCCCHHHHHHHHHHHhh-hC--CccHHHHHHHh
Q 011155 232 SGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARK-LC--PEAIDTFLEEL 308 (492)
Q Consensus 232 gGe~~A~~~L~~~~~~Fl~~~l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~-~~--~~~~~~fi~eL 308 (492)
|||++|+++| ++|+++++..|+..||.|+. ++||+|||||+|||||||+|++++.++.. .. .++.++|++||
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 GGETAALKRL----EEFLKERLADYGEQRDDPAA-DGTSRLSPYLNFGCLSPREVYRAVKKAQEANDAHSESAEKFIREL 75 (277)
T ss_dssp SSHHHHHHHH----HHHHHHCGGGHHHHTT-TTS-TTS---HHHHHTTSS-HHHHHHHHHHHHHCHTCHHHHHHHHHHHH
T ss_pred CcHHHHHHHH----HHHHHHHHHhhchhccCCCc-CCcCcccHHHhCCCcCHHHHHHHHHHHhhhcccccchHHHHHHHH
Confidence 8999999999 99999999999999999987 89999999999999999999999988765 11 25689999999
Q ss_pred HhHHHHHHHHHHhCCCCc-cccc-----chhHHHHhhhhhccChhhhhhhHHHHHhCCCCchHHHHHHHHHHHhCccchH
Q 011155 309 IVRRELADNFCFYQPNYD-SLKG-----AWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGF 382 (492)
Q Consensus 309 ~wRrEf~~~~~~~~p~~~-~~~~-----~~~w~~~~l~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr 382 (492)
+|| ||++++++++|++. .... .++|.. + +...+.|++|++|+||+||||||||||++|||||||
T Consensus 76 ~WR-ef~~~~~~~~p~~~~~~~~~~~~~~~~w~~--------~-~~~~~~~~~w~~G~TG~p~vDAamrqL~~tG~mHn~ 145 (277)
T PF03441_consen 76 IWR-EFYRQLLYHNPNLDMFENFNPKFRQIPWED--------D-RENPELFEAWCEGRTGYPLVDAAMRQLRQTGWMHNR 145 (277)
T ss_dssp HHH-HHHHHHHHHSGGCTCSSTSSTTCCCSHCBT--------S-BSTHHHHHHHHTT-SS-HHHHHHHHHHHHHS---HH
T ss_pred HHH-HHHHHHHHhCCcchhhhhccHHHHhhhhcc--------c-ccCHHHHHHHHcCCCCChHHHHHHHHHHHhCcccHH
Confidence 998 99999999999876 3222 224431 1 111246999999999999999999999999999999
Q ss_pred HHHHHh----cCc-cCCCccHHHHHHHHHHHhhhccccCCCCCCCcCceEeec-ccCCCCCCCCCCcCcccccCcchhhh
Q 011155 383 MRMYWA----KKI-LEWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSIC-GVHDQGWKERPVFGKIRYMNYSGCKR 456 (492)
Q Consensus 383 ~Rm~va----k~L-idW~~G~~~a~~~~~~f~~~yliD~d~a~n~~~wqw~a~-G~~~~g~~~~pyfg~~R~~np~~q~~ 456 (492)
+||||| |+| |||+.|++ ||+++ |||||+|+|++||||+|| |++ ++||| |+|||++|++
T Consensus 146 ~R~~vasfl~k~l~i~W~~g~~-------~f~~~-liD~d~a~n~~~wqw~ag~g~d-----~~~~~---r~~np~~q~~ 209 (277)
T PF03441_consen 146 LRMIVASFLTKDLLIDWREGAE-------WFAEH-LIDYDPASNYGNWQWAAGTGTD-----AKPYF---RIFNPVKQSK 209 (277)
T ss_dssp HHHHHHHHHHHTSHBHHHHHHH-------HHHHH-HTT--HHHHHHHHHHHTTSSST-----GCSTT---THHHHHHHHH
T ss_pred HHHHHHHHHHHhccCCccccHH-------HHHHH-hhccCcchHHHHHHHHHhhccc-----cCccc---cccCchHHHH
Confidence 999987 888 99999999 99998 899999999999999995 555 46999 9999999999
Q ss_pred cCCchh-HHHhhhhhhcCCCcccccccccC
Q 011155 457 KFDVDG-YIAYVKRIVGGTKKRRADSLVSG 485 (492)
Q Consensus 457 k~Dp~~-yir~wvPeL~~~~~~~~~~~~~~ 485 (492)
+|||+| |||+|||||++||+++||.||..
T Consensus 210 ~~Dp~g~~ir~w~PeL~~~~~~~ih~p~~~ 239 (277)
T PF03441_consen 210 KFDPDGEYIRRWVPELADLPDEYIHEPWKA 239 (277)
T ss_dssp HHSTTSHHHHHHSGGGTTSTHHHHTSCHGS
T ss_pred hhCcHHHHHHHHHHHHhcCChhheeChhcc
Confidence 999998 99999999999999999999953
No 8
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=100.00 E-value=9.6e-65 Score=524.55 Aligned_cols=418 Identities=18% Similarity=0.197 Sum_probs=313.9
Q ss_pred CCCcEEEEEeCCCCccCCHHHHHHHHHhhhCCCCEEEEEEecCCcc---ccchhHHHHHHHHHHHHHHHHHhhcCCcEEE
Q 011155 27 KRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFL---GAKARQLGFMLRGLRLLQRNIEETFQILFFL 103 (492)
Q Consensus 27 ~~~~~l~WfRrDLRl~DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~---~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v 103 (492)
.+.++|+|||+|||+||||||.+|+. ...+++||||+||... ..|..+++||.|+|++|+++| +++|++|++
T Consensus 3 ~~~~~v~wfr~~lR~~dnpal~~a~~----~~~~~~~v~i~d~~~~~~~~~g~~~~~~l~qsL~~ld~sl-~~l~~~L~v 77 (531)
T KOG0133|consen 3 TGSKSVHWFRKGLRLHDNPALLAAAA----GKEPVRPVFILDPEEAGSSNVGRNRWRFLLQSLEDLDQSL-RELNSRLFV 77 (531)
T ss_pred CccceEEecccCcccccChhhHHHhc----cCCCceeEEEeCHhHhhccccchhHHHHHHHHHHHHHHHH-HHhCCceEE
Confidence 45678999999999999999986664 4569999999999864 578999999999999999999 999999999
Q ss_pred EeCChhchHHHHHHHhCCCEEEEc--CCcChHHHHHHHHHHHHh-cCCCeEEEEeCceeEeCcccc---cCCCCccccch
Q 011155 104 FQGEAEDNIPNFVRECGASLLVTD--FSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVAS---EKLEYSAKTLR 177 (492)
Q Consensus 104 ~~G~~~~~l~~l~~~~~~~~V~~~--~~p~~~~~~~d~~v~~~l-~~~v~~~~~~~~~l~~~~~~~---~~~~~~~~t~~ 177 (492)
++|.|.++|..+.+..+++.|.++ .+|.. +.+|..++..+ ..|+.+.+..+++++.++.+. .+.++-+++.+
T Consensus 78 ~~~~p~~vl~~~~~~~~~~~l~~~~~~~p~~--~vrD~~~~~~a~~l~i~v~s~~s~~~~~~~~~i~~n~~k~pls~~~~ 155 (531)
T KOG0133|consen 78 FRGHPIAVLSRLLEQVGVQKLKFEYDMEPDG--KVRDATIKSLATELGLSVVSPVSHTLYLPDKIIEANGGKPPLSYKTF 155 (531)
T ss_pred EeCCchHHHhhhhhccceeEEEEEEeccCcc--ccccHHHHHHHHHhhhhhcccCchhhhcHHHHHHhcCCCCccccccc
Confidence 999999999999999999999975 45555 67789999988 489999999999999887532 24444444444
Q ss_pred HHHHhhCCccccCCCCCcCCCCcCCCCCC---CCChhHHHHHHhhcCC--CCCCcCcCCCcHHHHHHHHccchhHHHHhh
Q 011155 178 GKINKLLPEYLIDYPMLEQPIEKWTGTRQ---SIDWDSIIAAVLRKGA--EVPEIGWCESGEDAAMEVLKGSKDGFLTKR 252 (492)
Q Consensus 178 ~~~~~~~~~~~~~~~~~~p~~~p~~~~~~---~~~~~~~~~~~~~~~~--~~~~~~~~~gGe~~A~~~L~~~~~~Fl~~~ 252 (492)
+........... |............+. ..+.....|.++.+.. .......|++|++.|+.+| +.|+...
T Consensus 156 ~~~~~~~~~~~~--p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~~~~~~~~~~g~s~al~~l----~~~l~~~ 229 (531)
T KOG0133|consen 156 RGVCQSMSAPKI--PALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPSNYGEVVWRGGESEALKRL----DAHLKVP 229 (531)
T ss_pred cccccccccccc--cccccccccCCCChhhhhhcccccccCCchhhccCcccccccccCCcccchhHHH----HHHhhHH
Confidence 333222211111 110000000000000 0000011122211111 1111123789999999999 9999876
Q ss_pred h--cCCCCCCCCC---CCCCCCCcccccccCCCCCHHHHHHHH-----HHHhhhCCccHH-HHHHHhHhHHHHHHHHHHh
Q 011155 253 L--KNYPTDRNNP---LKPRALSGLSPYLHFGQISAQRCALEA-----RKARKLCPEAID-TFLEELIVRRELADNFCFY 321 (492)
Q Consensus 253 l--~~Y~~~Rd~p---~~~~~tS~LSpyL~~G~IS~R~v~~~~-----~~~~~~~~~~~~-~fi~eL~wRrEf~~~~~~~ 321 (492)
+ .++......+ .. .+++.|||||+|||+|+|.+++.. ...........+ .|+.||+|| ||+++.+.+
T Consensus 230 ~~~an~~~~~~~~~~~~~-~s~~~Ls~yL~fg~~svr~~~~~~~~k~V~~~~~~~s~~~es~~~~qv~Wr-e~~y~~~~n 307 (531)
T KOG0133|consen 230 LWVANLELRYSNANSRVK-ISTTVLSPYLKFGCLSVRYFYRCVRLKQVKWKAKKNSLPPESLFLGQVAWR-EFFYTAAFN 307 (531)
T ss_pred HHHhhhhccccccchhcC-CCccccccceeeccceeEeehhHhHHHHHHHhhhcccCCccccccceeeee-chhhHhhcC
Confidence 3 3333333333 23 677799999999999999999622 111112233345 499999999 999999998
Q ss_pred CCCCccccc-----chhHHHHhhhhhccChhhhhhhHHHHHhCCCCchHHHHHHHHHHHhCccchHHHHHHh----c-Cc
Q 011155 322 QPNYDSLKG-----AWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWA----K-KI 391 (492)
Q Consensus 322 ~p~~~~~~~-----~~~w~~~~l~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~va----k-~L 391 (492)
+|.++.+.+ .++|+. +. ..+.+|.+|+||||+|||+||||.+||||||+.|+++| + +|
T Consensus 308 ~p~~~~m~~n~~~~~ipw~~--------n~----~~~~aw~~G~tG~P~ida~m~~l~~~gw~h~~~R~~vasf~tr~~L 375 (531)
T KOG0133|consen 308 TPYFDDMPGNKILLQIPWDK--------NP----PKLAAWLEGLTGYPWLDAGMRQLLASGWEHHRSRTIVASFLTRGDL 375 (531)
T ss_pred CccccccccccccccCCccc--------Ch----hhhHHHHcCCCCCCchhHHHHHHHHHHHHhcccchhhHhHhhccce
Confidence 898766543 356652 22 25899999999999999999999999999999999998 5 78
Q ss_pred -cCCCccHHHHHHHHHHHhhhccccCCCCCCCcCceEee-cccCCCCCCCCCCcCcccccCcchhhhcCCchh-HHHhhh
Q 011155 392 -LEWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSI-CGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAYVK 468 (492)
Q Consensus 392 -idW~~G~~~a~~~~~~f~~~yliD~d~a~n~~~wqw~a-~G~~~~g~~~~pyfg~~R~~np~~q~~k~Dp~~-yir~wv 468 (492)
|+|++|.+ +|++. |+|+|...|.|||||.+ ++.+. .+++ |+|||+.+++++||++ |||+|+
T Consensus 376 ~i~w~eg~~-------~F~~~-llD~D~~~~agnW~~~S~~s~f~-----~~~~---~~ysp~~~~kk~dP~g~yir~~l 439 (531)
T KOG0133|consen 376 LISWREGLD-------VFMEY-LLDADSSKNAGNWMWLSSTSHFF-----DQFD---RVYSPVALGKKLDPDGLYIRQWL 439 (531)
T ss_pred eeeHHHHHH-------HHHHH-hcchhhhcCCCccceeccccccc-----cccc---cccCHHHHhCcCCcchhhHHHHh
Confidence 99999999 99997 99999999999999998 45554 4778 9999999999999998 999999
Q ss_pred hhhcCCCcccccccccCCc
Q 011155 469 RIVGGTKKRRADSLVSGKE 487 (492)
Q Consensus 469 PeL~~~~~~~~~~~~~~~~ 487 (492)
|||++.|.++++.+|.+.+
T Consensus 440 p~l~~~p~~~i~~pW~~p~ 458 (531)
T KOG0133|consen 440 PELRSGPMHFIYEPWAAPE 458 (531)
T ss_pred HHHhcCCcceeccCCCCcH
Confidence 9999999999999997665
No 9
>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=99.97 E-value=2e-31 Score=244.65 Aligned_cols=150 Identities=26% Similarity=0.360 Sum_probs=124.6
Q ss_pred EEEEEeCCCCccCCHHHHHHHHHhhhCCCCEEEEEEecCCc-cc--cchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCC
Q 011155 31 VVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQF-LG--AKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE 107 (492)
Q Consensus 31 ~l~WfRrDLRl~DN~aL~~A~~~a~~~~~~v~~vfi~dp~~-~~--~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~ 107 (492)
+|||||||||++||+||++|++ .+.+|+||||+||.. .. .|++|.+||++||.+|+++| +++|++|+++.|+
T Consensus 1 ~l~Wfr~DLRl~DN~aL~~A~~----~~~~v~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L-~~~g~~L~v~~g~ 75 (165)
T PF00875_consen 1 VLVWFRRDLRLHDNPALHAAAQ----NGDPVLPVFVFDPEEFHPYRIGPRRRRFLLESLADLQESL-RKLGIPLLVLRGD 75 (165)
T ss_dssp EEEEESS--SSTT-HHHHHHHH----TTSEEEEEEEE-HHGGTTCSSCHHHHHHHHHHHHHHHHHH-HHTTS-EEEEESS
T ss_pred CEEEEcCCCchhhhHHHHHHHH----cCCCeEEEEEecccccccccCcchHHHHHHHHHHHHHHHH-HhcCcceEEEecc
Confidence 6999999999999999999987 578999999999983 22 48999999999999999999 9999999999999
Q ss_pred hhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhc-CCCeEEEEeCceeEeCccc--ccCCCCccccch-HHHHhh
Q 011155 108 AEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVS-DSVTIHEVDAHNVVPVWVA--SEKLEYSAKTLR-GKINKL 183 (492)
Q Consensus 108 ~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~-~~v~~~~~~~~~l~~~~~~--~~~~~~~~~t~~-~~~~~~ 183 (492)
+.++|.+|+++++|++||++.++...++++|++|++.|+ .||.++.+++++|++++.+ ..+++|++||+| ++|.+.
T Consensus 76 ~~~~l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~L~~~~~i~~~~~~~~~vFtpf~k~~~~~ 155 (165)
T PF00875_consen 76 PEEVLPELAKEYGATAVYFNEEYTPYERRRDERVRKALKKHGIKVHTFDDHTLVPPDDIPKKDGEPYKVFTPFRKKWEKQ 155 (165)
T ss_dssp HHHHHHHHHHHHTESEEEEE---SHHHHHHHHHHHHHHHHTTSEEEEE--SSSS-HHHCHSTTSSSHSSHHHHHHHHHCH
T ss_pred hHHHHHHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHHhcceEEEEECCcEEEeccccccCCCCCcccHHHHHHHHHhc
Confidence 999999999999999999988887788999999999995 8999999999999999865 347789999877 566665
Q ss_pred CC
Q 011155 184 LP 185 (492)
Q Consensus 184 ~~ 185 (492)
+.
T Consensus 156 ~~ 157 (165)
T PF00875_consen 156 LL 157 (165)
T ss_dssp CS
T ss_pred CC
Confidence 43
No 10
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=99.97 E-value=3.7e-30 Score=253.49 Aligned_cols=376 Identities=15% Similarity=0.137 Sum_probs=268.4
Q ss_pred cEEEEEeCCCCccCCHHHHHHHHHhhhCCCCEEEEEEecCC-ccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCCh
Q 011155 30 PVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQ-FLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEA 108 (492)
Q Consensus 30 ~~l~WfRrDLRl~DN~aL~~A~~~a~~~~~~v~~vfi~dp~-~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~~ 108 (492)
.+++|.-.|.-.++++||-.-. ....|+.|..-... +...+.+++.++..+|+++.+.| +..|..+....-++
T Consensus 3 ~~~~lvLgdQL~~~~~al~~d~-----~~~~vllvE~~~~a~~~r~HkqKl~lv~aAMR~Fad~L-raeG~~V~Y~~~~~ 76 (505)
T COG3046 3 SSVVLVLGDQLSEDHSALGDDR-----SQDGVLLVESAAEARYRRHHKQKLVLVFAAMRHFADEL-RAEGLKVRYERADD 76 (505)
T ss_pred ceEEEEeccccccccchhccCc-----ccCcEEEehhHhHhhhhhcchhhhHHHHHHHHHHHHHH-hhCCceeEEEEcCC
Confidence 5789999999999998876511 22344443332211 23467899999999999999999 99999888776554
Q ss_pred ---hchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHh-cCCCeEEEEeCc-eeEeCcccc----cCCCCccccchHH
Q 011155 109 ---EDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAH-NVVPVWVAS----EKLEYSAKTLRGK 179 (492)
Q Consensus 109 ---~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l-~~~v~~~~~~~~-~l~~~~~~~----~~~~~~~~t~~~~ 179 (492)
...|.+.++.++.+.|++.. |.. ......++++. ..||++..+++. .|.+...+. ++++..+..||+.
T Consensus 77 ~~~~~~l~~~l~~~~~d~~~~~~-p~~--~~l~~~m~~L~~~~g~~i~~~~~~~Fl~s~a~f~~w~~~~k~~lme~FYr~ 153 (505)
T COG3046 77 NSFGGELRRALEAYPGDRVQVQE-PGD--HRLEARMKSLSMALGIEITEVENPHFLCSRAEFDAWAGDRKPLLMESFYRR 153 (505)
T ss_pred cccchHHHHHHHhcCCCeEEEec-Ccc--hhHHHHHHhhhhhcCceeEEecCcceecCHHHhhhhhccCcchhhHHHHHH
Confidence 34577888999999999964 433 22234555543 269999999875 677776543 3555777789999
Q ss_pred HHhhCCccccCCCCC--------------cCC-CCcCCC--CCCCCChhHHHHHHh-----hcCCCCCCcCcCCCcHHHH
Q 011155 180 INKLLPEYLIDYPML--------------EQP-IEKWTG--TRQSIDWDSIIAAVL-----RKGAEVPEIGWCESGEDAA 237 (492)
Q Consensus 180 ~~~~~~~~~~~~~~~--------------~p~-~~p~~~--~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~gGe~~A 237 (492)
++++++..|..-.+. .|. ..|.+. .+..+ .+++...++ .+| .+ +.+.|+..+++|
T Consensus 154 mRkr~g~LM~~dqP~GGrWnFDaeNR~~~~pdL~~P~pl~fppd~~-vq~v~e~Ve~~f~~~~G-~~-e~F~wpvtr~~A 230 (505)
T COG3046 154 MRKRTGILMEDDQPEGGRWNFDAENRKKLPPDLLPPKPLKFPPDEI-VQEVKERVERLFPDNFG-QV-EGFGWPVTRTQA 230 (505)
T ss_pred HHHhhceeccCCCCCCCcCCcCcccccCCCCcCCCCCCCCCCCcch-hHHHHHHHHhhCCCCCC-cc-ccCCCCCCHHHH
Confidence 999887665421110 000 001100 01111 112222221 122 22 335689999999
Q ss_pred HHHHccchhHHHHhhhcCCCCCCCCCCCC---CCCCcccccccCCCCCHHHHHHHHHHHhhh---CCccHHHHHHHhHhH
Q 011155 238 MEVLKGSKDGFLTKRLKNYPTDRNNPLKP---RALSGLSPYLHFGQISAQRCALEARKARKL---CPEAIDTFLEELIVR 311 (492)
Q Consensus 238 ~~~L~~~~~~Fl~~~l~~Y~~~Rd~p~~~---~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~---~~~~~~~fi~eL~wR 311 (492)
...| ++||..+|.+|+..+|.+... -.+|.|||||+.|.|+|.+|+.++.+++.. +.+++|+|||||+.|
T Consensus 231 ~~~L----~~Fi~~~L~nFG~yQDam~~d~~~L~HSllS~alNigLL~PleVi~Aa~~Ay~~g~ipLN~VEGFvRQiiGW 306 (505)
T COG3046 231 LRAL----KHFIADRLPNFGSYQDAMSADDPHLWHSLLSFALNIGLLTPLEVIRAALKAYREGDIPLNSVEGFVRQIIGW 306 (505)
T ss_pred HHHH----HHHHHHhhhcCCcHHHHHhcCCchhHHHHHHHHhhccCCCHHHHHHHHHHhhccCCCchHHHHHHHHHHhhH
Confidence 9999 999999999999999876431 289999999999999999999999988764 456789999999999
Q ss_pred HHHHHHHHHh-CCCCcccccchhHHHHhhhhhccChhhhhhhHHHHHhCCCCchHHHHHHHHHHHhCccchHHHHHHhcC
Q 011155 312 RELADNFCFY-QPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKK 390 (492)
Q Consensus 312 rEf~~~~~~~-~p~~~~~~~~~~w~~~~l~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~vak~ 390 (492)
|||++.++.. .|+|.+-+ |- . .| ++ .-.....|+|++.|++-+..+...+||.||+.|.||..|
T Consensus 307 REfmRgiY~~~~P~y~trN----~f----~---~d-~~---Lp~~yw~g~T~M~cl~~av~~v~d~gYAHHIqRLMV~gN 371 (505)
T COG3046 307 REFMRGIYWLKMPDYATRN----FF----N---AD-RK---LPPFYWTGQTKMACLAIAVGRVLDHGYAHHIQRLMVTGN 371 (505)
T ss_pred HHHHHHhhhhcCCchhhhh----hh----c---cC-CC---CCCccccCCcCchHHHHHHHHHhhhhHHHHHHHHHHHhh
Confidence 9999998765 48886543 22 1 11 11 123467789999999999999999999999999999988
Q ss_pred c-cCCCccHHHHHHHHHHHhhhccccCC----CCCCCcCceEeecccCCCCCCCCCCcC
Q 011155 391 I-LEWTTGPEEALAIAIYLNDKYEIDGR----DPNGYVGCMWSICGVHDQGWKERPVFG 444 (492)
Q Consensus 391 L-idW~~G~~~a~~~~~~f~~~yliD~d----~a~n~~~wqw~a~G~~~~g~~~~pyfg 444 (492)
+ +---..+. +...||+.. +||+. .||.+|+-|++.||+.+ +|||..
T Consensus 372 fALl~G~dPd---~v~~Wf~~~-fiDAYdWV~~PNv~GM~qFADGG~ia----tKPYas 422 (505)
T COG3046 372 FALLLGVDPD---AVDRWFMEV-FIDAYDWVELPNVRGMSQFADGGLIA----TKPYAS 422 (505)
T ss_pred HHHHhCCCHH---HHHHHHHHH-HhhHhhheecccccchhhcccCceee----cCcccc
Confidence 6 44444444 445699999 59996 49999999999888876 689864
No 11
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=98.87 E-value=4.6e-12 Score=132.77 Aligned_cols=436 Identities=28% Similarity=0.325 Sum_probs=258.1
Q ss_pred cccccccccccCcCCCCC--CcEEEEEeCCCCccCCHHHHHHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHH
Q 011155 11 VQPGRIRVLKQGSLDKKR--GPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRL 88 (492)
Q Consensus 11 ~~~~r~~~~~~~~~~~~~--~~~l~WfRrDLRl~DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~ 88 (492)
+..++|+++...-..... -+..+|+-+|=++.||.++..|.+.+.+--.++--+++.-..++..+..+--+++++.+.
T Consensus 78 ~~~~p~~vl~~~~~~~~~~~l~~~~~~~p~~~vrD~~~~~~a~~l~i~v~s~~s~~~~~~~~~i~~n~~k~pls~~~~~~ 157 (531)
T KOG0133|consen 78 FRGHPIAVLSRLLEQVGVQKLKFEYDMEPDGKVRDATIKSLATELGLSVVSPVSHTLYLPDKIIEANGGKPPLSYKTFRG 157 (531)
T ss_pred EeCCchHHHhhhhhccceeEEEEEEeccCccccccHHHHHHHHHhhhhhcccCchhhhcHHHHHHhcCCCCccccccccc
Confidence 566677777664332222 235699999999999999999987544433333222222222334556777788999999
Q ss_pred HHHHHHhhcCCcEEEEeCChhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhc-CCCeEEEEeCceeEeCccccc
Q 011155 89 LQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVS-DSVTIHEVDAHNVVPVWVASE 167 (492)
Q Consensus 89 L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~-~~v~~~~~~~~~l~~~~~~~~ 167 (492)
...+. .-.-++.++..+...+..+.++...+..+++...++..+....-..+. +.. ........+.+...+.+..+.
T Consensus 158 ~~~~~-~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~~~~~~~-~~~g~s~al~~l~~~l~~~~~~an~ 235 (531)
T KOG0133|consen 158 VCQSM-SAPKIPALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPSNYGEVV-WRGGESEALKRLDAHLKVPLWVANL 235 (531)
T ss_pred ccccc-ccccccccccccccCCCChhhhhhcccccccCCchhhccCcccccccc-cCCcccchhHHHHHHhhHHHHHhhh
Confidence 99988 877788888889999999999988888888776554332111100110 110 111112222121112111111
Q ss_pred CCCCccccchHH-HHhhCCccccCCCCCcCCCCcCCCCCCCCChhHHHHHH--hhcC-C--CCCCcCcCCCcHHHHHHHH
Q 011155 168 KLEYSAKTLRGK-INKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAV--LRKG-A--EVPEIGWCESGEDAAMEVL 241 (492)
Q Consensus 168 ~~~~~~~t~~~~-~~~~~~~~~~~~~~~~p~~~p~~~~~~~~~~~~~~~~~--~~~~-~--~~~~~~~~~gGe~~A~~~L 241 (492)
..+|...+-+.+ -.+.+.+++.-.+.. ...+.. ......+.... .+.+ . .+....+-..+++.|-...
T Consensus 236 ~~~~~~~~~~~~~s~~~Ls~yL~fg~~s--vr~~~~----~~~~k~V~~~~~~~s~~~es~~~~qv~Wre~~y~~~~n~p 309 (531)
T KOG0133|consen 236 ELRYSNANSRVKISTTVLSPYLKFGCLS--VRYFYR----CVRLKQVKWKAKKNSLPPESLFLGQVAWREFFYTAAFNTP 309 (531)
T ss_pred hccccccchhcCCCccccccceeeccce--eEeehh----HhHHHHHHHhhhcccCCccccccceeeeechhhHhhcCCc
Confidence 111111110000 000011111100000 000000 00011110000 0000 0 1122233356677777766
Q ss_pred ccchhHHHHhhhcCCCCCCCCCCCCCCCCccc--ccccCCCCCHHHHHHHHHHHhhhCCccHHHHHH---HhHhHHHHHH
Q 011155 242 KGSKDGFLTKRLKNYPTDRNNPLKPRALSGLS--PYLHFGQISAQRCALEARKARKLCPEAIDTFLE---ELIVRRELAD 316 (492)
Q Consensus 242 ~~~~~~Fl~~~l~~Y~~~Rd~p~~~~~tS~LS--pyL~~G~IS~R~v~~~~~~~~~~~~~~~~~fi~---eL~wRrEf~~ 316 (492)
+ ..+-+....+..+...+|.+......++++ |+|.+|+++.++.-....... .....|.. .++-|||-..
T Consensus 310 ~-~~~m~~n~~~~~ipw~~n~~~~~aw~~G~tG~P~ida~m~~l~~~gw~h~~~R----~~vasf~tr~~L~i~w~eg~~ 384 (531)
T KOG0133|consen 310 Y-FDDMPGNKILLQIPWDKNPPKLAAWLEGLTGYPWLDAGMRQLLASGWEHHRSR----TIVASFLTRGDLLISWREGLD 384 (531)
T ss_pred c-ccccccccccccCCcccChhhhHHHHcCCCCCCchhHHHHHHHHHHHHhcccc----hhhHhHhhccceeeeHHHHHH
Confidence 2 222444556788888887776436888999 999999999988866654322 22344443 3444459999
Q ss_pred HHHHhCCCCcccccchhHHHHhhhhhccChhhhhhhHHHHHhCCCCchHHHHHHHHHHHhCccchHHHHHHhcCccCCCc
Q 011155 317 NFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTT 396 (492)
Q Consensus 317 ~~~~~~p~~~~~~~~~~w~~~~l~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~vak~LidW~~ 396 (492)
+++.+..+++...+.-.|...+...+..++....+.......+-|-...+++..-+....|=|| .++|.|++.+..|+.
T Consensus 385 ~F~~~llD~D~~~~agnW~~~S~~s~f~~~~~~~ysp~~~~kk~dP~g~yir~~lp~l~~~p~~-~i~~pW~~p~~~~~~ 463 (531)
T KOG0133|consen 385 VFMEYLLDADSSKNAGNWMWLSSTSHFFDQFDRVYSPVALGKKLDPDGLYIRQWLPELRSGPMH-FIYEPWAAPEGVQTA 463 (531)
T ss_pred HHHHHhcchhhhcCCCccceeccccccccccccccCHHHHhCcCCcchhhHHHHhHHHhcCCcc-eeccCCCCcHHHhhh
Confidence 9999988877544444566555333322333334567888889999999999999999999999 999999988855666
Q ss_pred cHHHHHHHHHHHhhhccccCCCCCCCcCceEeecccCCCCCCCCCCcCcccccCcchhhhcCCc
Q 011155 397 GPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDV 460 (492)
Q Consensus 397 G~~~a~~~~~~f~~~yliD~d~a~n~~~wqw~a~G~~~~g~~~~pyfg~~R~~np~~q~~k~Dp 460 (492)
+.+++..-+..+...|-+|+..++-+++.+|+.++..+.||.+.|.|+++|.+|+...-++++.
T Consensus 464 ~~~~lg~~Yp~~iv~~~~a~k~~~e~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 527 (531)
T KOG0133|consen 464 AGELLGVDYPKPIVKLASAAKRNMEAMGCMWSIGAVHDMGWKEEPSFRKGRYMNYSGCRRKFNV 527 (531)
T ss_pred hhhhhhcccchhhhhhHHhhHhHHHHHHHHHhhccccccccccccchhhhhhhchhhcccccCC
Confidence 6655554444555555667778999999999998888889988899999999999887666654
No 12
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=97.83 E-value=8.9e-05 Score=71.12 Aligned_cols=149 Identities=10% Similarity=0.085 Sum_probs=84.5
Q ss_pred EEEEeCCCCccCCHHHHHHHHHhhhCCCCEEEEEEecCC-ccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCC---
Q 011155 32 VYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQ-FLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE--- 107 (492)
Q Consensus 32 l~WfRrDLRl~DN~aL~~A~~~a~~~~~~v~~vfi~dp~-~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~--- 107 (492)
|+|.--|.-.+++++|.. .. .+..|+-+-+.... +...+..|+.+++.||++..+.| ++.|..+.++.-+
T Consensus 1 L~lIlgdQL~~~~~~l~~-~~----~~~~v~mvE~~~~~~~~~~HkqKl~l~~saMRhfa~~L-~~~G~~V~Y~~~~~~~ 74 (224)
T PF04244_consen 1 LRLILGDQLFEDHPALRD-DP----ADDRVLMVEVPEEFTYVPHHKQKLVLFFSAMRHFADEL-RAKGFRVHYIELDDPE 74 (224)
T ss_dssp EEE--TT---TT-HHHHT--T----TT-EEEEE--HHHHHSS---HHHHHHHHHHHHHHHHHH-HHTT--EEEE-TT-TT
T ss_pred CeEeccCCCCCccccccc-CC----CCCEEEEEEchHHhCcCcccHHHHHHHHHHHHHHHHHH-HhCCCEEEEEeCCCcc
Confidence 456666777788887765 21 23344333332211 22468899999999999999999 9999999988743
Q ss_pred ----hhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhc-CCCeEEEEeCceeE-eCccc----ccCCCCccccch
Q 011155 108 ----AEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVS-DSVTIHEVDAHNVV-PVWVA----SEKLEYSAKTLR 177 (492)
Q Consensus 108 ----~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~-~~v~~~~~~~~~l~-~~~~~----~~~~~~~~~t~~ 177 (492)
..+.|.+++++++++.|.+.. |.. ....+.|+++++ .||++..+++..++ ++..+ ..++.+.+..||
T Consensus 75 ~~~s~~~~L~~~~~~~~~~~~~~~~-P~d--~~l~~~l~~~~~~~~i~~~~~~~~~Fl~s~~~f~~~~~~~k~~~Me~FY 151 (224)
T PF04244_consen 75 NTQSFEDALARALKQHGIDRLHVME-PGD--YRLEQRLESLAQQLGIPLEVLEDPHFLTSREEFAEWFEGRKRLRMEYFY 151 (224)
T ss_dssp --SSHHHHHHHHHHHH----EEEE---S---HHHHHHHHH----SSS-EEEE--TTSSS-HHHHHHHHTT-SS--HHHHH
T ss_pred ccccHHHHHHHHHHHcCCCEEEEEC-CCC--HHHHHHHHhhhcccCCceEEeCCCCccCCHHHHHHHHccCCceeHHHHH
Confidence 256788888999999999863 544 445688888884 89999999886554 55543 234667888899
Q ss_pred HHHHhhCCcccc
Q 011155 178 GKINKLLPEYLI 189 (492)
Q Consensus 178 ~~~~~~~~~~~~ 189 (492)
+.+++++...|.
T Consensus 152 R~mRkr~~ILmd 163 (224)
T PF04244_consen 152 REMRKRFGILMD 163 (224)
T ss_dssp HHHHHHHTTTE-
T ss_pred HHHHHHcCcccc
Confidence 999999888774
No 13
>PRK09982 universal stress protein UspD; Provisional
Probab=92.11 E-value=1 Score=39.61 Aligned_cols=83 Identities=16% Similarity=0.082 Sum_probs=58.0
Q ss_pred CHHHHHHHHHhhhCCCCEEEEEEecCCcc---cc---c--h---hHHHHHHHHHHHHHHHHHhhcCCcEEEEeCChhchH
Q 011155 44 NWALIHAVDQANKNNVPVAVAFNLFDQFL---GA---K--A---RQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNI 112 (492)
Q Consensus 44 N~aL~~A~~~a~~~~~~v~~vfi~dp~~~---~~---~--~---~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~~~~~l 112 (492)
..+|..|++.|++.+..|..+++.++... .. . . .......+.|+++.+++ ...++...+..|+|.+.|
T Consensus 17 ~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~v~~G~p~~~I 95 (142)
T PRK09982 17 ALLVNKALELARHNDAHLTLIHIDDGLSELYPGIYFPATEDILQLLKNKSDNKLYKLTKNI-QWPKTKLRIERGEMPETL 95 (142)
T ss_pred HHHHHHHHHHHHHhCCeEEEEEEccCcchhchhhhccchHHHHHHHHHHHHHHHHHHHHhc-CCCcceEEEEecCHHHHH
Confidence 57888899988888888999999875311 00 0 0 11122223355555555 444567788889999999
Q ss_pred HHHHHHhCCCEEEEc
Q 011155 113 PNFVRECGASLLVTD 127 (492)
Q Consensus 113 ~~l~~~~~~~~V~~~ 127 (492)
.+.+++.+++-|++-
T Consensus 96 ~~~A~~~~aDLIVmG 110 (142)
T PRK09982 96 LEIMQKEQCDLLVCG 110 (142)
T ss_pred HHHHHHcCCCEEEEe
Confidence 999999999999984
No 14
>PRK15005 universal stress protein F; Provisional
Probab=90.23 E-value=2.5 Score=36.79 Aligned_cols=82 Identities=12% Similarity=0.127 Sum_probs=54.0
Q ss_pred HHHHHHHHHhhhCCCCEEEEEEecCCcc----c----c-chh---HHHHHHHHHHHHHHHHHhhcC--CcEEEEeCChhc
Q 011155 45 WALIHAVDQANKNNVPVAVAFNLFDQFL----G----A-KAR---QLGFMLRGLRLLQRNIEETFQ--ILFFLFQGEAED 110 (492)
Q Consensus 45 ~aL~~A~~~a~~~~~~v~~vfi~dp~~~----~----~-~~~---r~~Fl~esL~~L~~~L~~~lG--~~L~v~~G~~~~ 110 (492)
.+|..|++.|+..+.+|..+++.++... . . ... ...-..+.|+.+.+++ ...| +...+..|++.+
T Consensus 19 ~a~~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~~v~~G~p~~ 97 (144)
T PRK15005 19 RVISHVEAEAKIDDAEVHFLTVIPSLPYYASLGLAYSAELPAMDDLKAEAKSQLEEIIKKF-KLPTDRVHVHVEEGSPKD 97 (144)
T ss_pred HHHHHHHHHHhccCCeEEEEEEEccCcccccccccccccchHHHHHHHHHHHHHHHHHHHh-CCCCCceEEEEeCCCHHH
Confidence 5777788888777888999999985311 0 0 011 1111223444444444 4334 356778899999
Q ss_pred hHHHHHHHhCCCEEEEc
Q 011155 111 NIPNFVRECGASLLVTD 127 (492)
Q Consensus 111 ~l~~l~~~~~~~~V~~~ 127 (492)
.|.+.+++.+++-|++-
T Consensus 98 ~I~~~a~~~~~DLIV~G 114 (144)
T PRK15005 98 RILELAKKIPADMIIIA 114 (144)
T ss_pred HHHHHHHHcCCCEEEEe
Confidence 99999999999999983
No 15
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=89.82 E-value=3.1 Score=42.97 Aligned_cols=108 Identities=13% Similarity=0.126 Sum_probs=65.5
Q ss_pred CHHHHHHHHHhhhC--CCCEEEEEEecCCccccchhH-HHHHHHHHHHHHHHHHhh------cCCcEEEEe---------
Q 011155 44 NWALIHAVDQANKN--NVPVAVAFNLFDQFLGAKARQ-LGFMLRGLRLLQRNIEET------FQILFFLFQ--------- 105 (492)
Q Consensus 44 N~aL~~A~~~a~~~--~~~v~~vfi~dp~~~~~~~~r-~~Fl~esL~~L~~~L~~~------lG~~L~v~~--------- 105 (492)
..|+.+|++.|++. +..|..|++.++......... ..---+-++...+.+ ++ .|++.....
T Consensus 19 ~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~~~~~~~~~~eelle~~~~~~-~~~l~~~~~gV~ve~~vv~~~~~~~~ 97 (357)
T PRK12652 19 RQTVAYAVESAEEAAETPTVHLVAAASGRAVDPEGQDELAAAEELLERVEVWA-TEDLGDDASSVTIETALLGTDEYLFG 97 (357)
T ss_pred HHHHHHHHHHHHhcCCCCEEEEEEEecCcccccchhHHHHHHHHHHHHHHHHH-HHhhhcccCCCceEEEEEeccccccC
Confidence 35788999988774 468999999986432111100 011113344555554 33 477654433
Q ss_pred -CChhchHHHHHHHhCCCEEEEc--CCcChHHHHHHHHHHHHh-cCCCeEEE
Q 011155 106 -GEAEDNIPNFVRECGASLLVTD--FSPLREIRRCKDKICNRV-SDSVTIHE 153 (492)
Q Consensus 106 -G~~~~~l~~l~~~~~~~~V~~~--~~p~~~~~~~d~~v~~~l-~~~v~~~~ 153 (492)
|++.+.|-+.+++++++.|+++ |.|... -.+-+-+...+ ..|+.+.+
T Consensus 98 ~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 148 (357)
T PRK12652 98 PGDYAEVLIAYAEEHGIDRVVLDPEYNPGGT-APMLQPLERELARAGITYEE 148 (357)
T ss_pred CCCHHHHHHHHHHHcCCCEEEECCCCCCCCC-CcccchHHHHHHhcCCceec
Confidence 8999999999999999999995 555332 12233444444 35666655
No 16
>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=89.79 E-value=4.3 Score=34.45 Aligned_cols=82 Identities=13% Similarity=0.007 Sum_probs=58.0
Q ss_pred CHHHHHHHHHhhhCCCCEEEEEEecCCccc-c--chhHHHHHHHHHHHHHHHHHhhcCCcEEEE---eCChhchHHHHHH
Q 011155 44 NWALIHAVDQANKNNVPVAVAFNLFDQFLG-A--KARQLGFMLRGLRLLQRNIEETFQILFFLF---QGEAEDNIPNFVR 117 (492)
Q Consensus 44 N~aL~~A~~~a~~~~~~v~~vfi~dp~~~~-~--~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~---~G~~~~~l~~l~~ 117 (492)
..+|..|...|...+.+|+.+++.++.... . ......-..+.+..+.+.+ ++.|++.... .|++.+.|.++++
T Consensus 13 ~~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~g~~~~~~~~~~~~~~~~I~~~a~ 91 (132)
T cd01988 13 RDLLELAAALARAQNGEIIPLNVIEVPNHSSPSQLEVNVQRARKLLRQAERIA-ASLGVPVHTIIRIDHDIASGILRTAK 91 (132)
T ss_pred HHHHHHHHHHhhcCCCeEEEEEEEecCCCCCcchhHHHHHHHHHHHHHHHHHh-hhcCCceEEEEEecCCHHHHHHHHHH
Confidence 346777887777777789999999864211 0 1122334556677777777 7788775533 3788888999999
Q ss_pred HhCCCEEEE
Q 011155 118 ECGASLLVT 126 (492)
Q Consensus 118 ~~~~~~V~~ 126 (492)
+++++-|++
T Consensus 92 ~~~~dlIV~ 100 (132)
T cd01988 92 ERQADLIIM 100 (132)
T ss_pred hcCCCEEEE
Confidence 999999998
No 17
>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=89.30 E-value=5.2 Score=33.24 Aligned_cols=84 Identities=17% Similarity=0.117 Sum_probs=59.3
Q ss_pred CCHHHHHHHHHhhhCCCCEEEEEEecCCcccc---chhHHHHHHHHHHHHHHHHHhhcCCcE--EEEeCChhchHHHHHH
Q 011155 43 DNWALIHAVDQANKNNVPVAVAFNLFDQFLGA---KARQLGFMLRGLRLLQRNIEETFQILF--FLFQGEAEDNIPNFVR 117 (492)
Q Consensus 43 DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~~~---~~~r~~Fl~esL~~L~~~L~~~lG~~L--~v~~G~~~~~l~~l~~ 117 (492)
...++..|...|+..+.+|..+++.++..... ......-..+.|..+...+ ...|+++ .+..|.+.+.|.+.++
T Consensus 12 ~~~~l~~a~~~a~~~~~~i~~l~v~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~i~~~~~ 90 (130)
T cd00293 12 SERALRWAARLARRLGAELVLLHVVDPPPSSAAELAELLEEEARALLEALREAL-AEAGVKVETVVLEGDPAEAILEAAE 90 (130)
T ss_pred HHHHHHHHHHHHHhcCCEEEEEEEecCCCCcchhHHHHHHHHHHHHHHHHHHHH-hcCCCceEEEEecCCCHHHHHHHHH
Confidence 34567778888888888999999987643211 1122333456677777766 6678776 4446788888999999
Q ss_pred HhCCCEEEEc
Q 011155 118 ECGASLLVTD 127 (492)
Q Consensus 118 ~~~~~~V~~~ 127 (492)
+.+++.|+..
T Consensus 91 ~~~~dlvvig 100 (130)
T cd00293 91 ELGADLIVMG 100 (130)
T ss_pred HcCCCEEEEc
Confidence 9999999984
No 18
>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=88.97 E-value=5.4 Score=34.77 Aligned_cols=85 Identities=12% Similarity=0.021 Sum_probs=55.2
Q ss_pred cCCHHHHHHHHHhhhCCCCEEEEEEecCCcccc---c-----h----hHHHHHHHHHHHHHHHHHhhcCCc--EEEEeC-
Q 011155 42 RDNWALIHAVDQANKNNVPVAVAFNLFDQFLGA---K-----A----RQLGFMLRGLRLLQRNIEETFQIL--FFLFQG- 106 (492)
Q Consensus 42 ~DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~~~---~-----~----~r~~Fl~esL~~L~~~L~~~lG~~--L~v~~G- 106 (492)
.-..+|..|++.|...+.+|..+++.++..... + . ....-..+.|+...+.+ ++.|+. ..+..|
T Consensus 11 ~s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~~~~~g~ 89 (146)
T cd01989 11 KSKNALKWALDNLATKGQTIVLVHVHPPITSIPSSSGKLEVASAYKQEEDKEAKELLLPYRCFC-SRKGVQCEDVVLEDD 89 (146)
T ss_pred ccHHHHHHHHHhccCCCCcEEEEEeccCcccCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHH-hhcCCeEEEEEEeCC
Confidence 334688888888877788999999988642211 0 0 00112233444455555 555653 345555
Q ss_pred ChhchHHHHHHHhCCCEEEEc
Q 011155 107 EAEDNIPNFVRECGASLLVTD 127 (492)
Q Consensus 107 ~~~~~l~~l~~~~~~~~V~~~ 127 (492)
++.+.|-+.+++++++.|++-
T Consensus 90 ~~~~~I~~~a~~~~~dlIV~G 110 (146)
T cd01989 90 DVAKAIVEYVADHGITKLVMG 110 (146)
T ss_pred cHHHHHHHHHHHcCCCEEEEe
Confidence 788889999999999999983
No 19
>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=88.59 E-value=5.1 Score=33.83 Aligned_cols=80 Identities=16% Similarity=0.148 Sum_probs=57.3
Q ss_pred CCHHHHHHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEE-eCChhchHHHHHHHhCC
Q 011155 43 DNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLF-QGEAEDNIPNFVRECGA 121 (492)
Q Consensus 43 DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~-~G~~~~~l~~l~~~~~~ 121 (492)
...+|..|+..|.+.+.+|..|++.++..... .... .+-|+.+.+.. ++.|++..+. .|++.+.|.+.++++++
T Consensus 12 s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~-~~~~---~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~I~~~~~~~~~ 86 (124)
T cd01987 12 AERLIRRAARLADRLKAPWYVVYVETPRLNRL-SEAE---RRRLAEALRLA-EELGAEVVTLPGDDVAEAIVEFAREHNV 86 (124)
T ss_pred hHHHHHHHHHHHHHhCCCEEEEEEecCccccC-CHHH---HHHHHHHHHHH-HHcCCEEEEEeCCcHHHHHHHHHHHcCC
Confidence 45678888888887788999999998653211 1111 23455666666 7778766554 45788899999999999
Q ss_pred CEEEEc
Q 011155 122 SLLVTD 127 (492)
Q Consensus 122 ~~V~~~ 127 (492)
+.|++-
T Consensus 87 dllviG 92 (124)
T cd01987 87 TQIVVG 92 (124)
T ss_pred CEEEeC
Confidence 999984
No 20
>PRK10116 universal stress protein UspC; Provisional
Probab=86.87 E-value=7.2 Score=33.78 Aligned_cols=85 Identities=16% Similarity=0.116 Sum_probs=55.1
Q ss_pred cCCHHHHHHHHHhhhCCCCEEEEEEecCCcc--cc-----chhHHHHHHHHHHHHHHHHHhhcCCc---EEEEeCChhch
Q 011155 42 RDNWALIHAVDQANKNNVPVAVAFNLFDQFL--GA-----KARQLGFMLRGLRLLQRNIEETFQIL---FFLFQGEAEDN 111 (492)
Q Consensus 42 ~DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~--~~-----~~~r~~Fl~esL~~L~~~L~~~lG~~---L~v~~G~~~~~ 111 (492)
....+|..|+..|.+.+.+|..+++.++... .. ...+....-+..+.|++.. ...|++ ..+..|++.+.
T Consensus 15 ~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~~G~~~~~ 93 (142)
T PRK10116 15 ESQQLLAKAVSIARPVNGKISLITLASDPEMYNQFAAPMLEDLRSVMQEETQSFLDKLI-QDADYPIEKTFIAYGELSEH 93 (142)
T ss_pred chHHHHHHHHHHHHHhCCEEEEEEEccCcccchhhhHHHHHHHHHHHHHHHHHHHHHHH-HhcCCCeEEEEEecCCHHHH
Confidence 4468999999988877778888888865311 11 1111112212223343333 455643 46667999999
Q ss_pred HHHHHHHhCCCEEEEc
Q 011155 112 IPNFVRECGASLLVTD 127 (492)
Q Consensus 112 l~~l~~~~~~~~V~~~ 127 (492)
|.+.+++.+++-|+..
T Consensus 94 I~~~a~~~~~DLiV~g 109 (142)
T PRK10116 94 ILEVCRKHHFDLVICG 109 (142)
T ss_pred HHHHHHHhCCCEEEEc
Confidence 9999999999999984
No 21
>PRK15456 universal stress protein UspG; Provisional
Probab=84.36 E-value=8.4 Score=33.53 Aligned_cols=81 Identities=16% Similarity=0.064 Sum_probs=53.4
Q ss_pred CHHHHHHHHHhhhCCCCEEEEEEecCCccc------c--c---hhHHHHHHHHHHHHHHHHHhhcCC--cEEEEeCChhc
Q 011155 44 NWALIHAVDQANKNNVPVAVAFNLFDQFLG------A--K---ARQLGFMLRGLRLLQRNIEETFQI--LFFLFQGEAED 110 (492)
Q Consensus 44 N~aL~~A~~~a~~~~~~v~~vfi~dp~~~~------~--~---~~r~~Fl~esL~~L~~~L~~~lG~--~L~v~~G~~~~ 110 (492)
..+|.+|++.|... ..|..++++++.... . . .....-..+.|+.+.+.+ ...|. ..++..|++.+
T Consensus 18 ~~al~~A~~la~~~-~~l~llhv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~v~~~v~~G~~~~ 95 (142)
T PRK15456 18 DKAVRHAEFLAQDD-GVIHLLHVLPGSASLSLHRFAADVRRFEEHLQHEAEERLQTMVSHF-TIDPSRIKQHVRFGSVRD 95 (142)
T ss_pred HHHHHHHHHHHhcC-CeEEEEEEecCcccccccccccchhhHHHHHHHHHHHHHHHHHHHh-CCCCcceEEEEcCCChHH
Confidence 35777788877664 478899998864210 0 0 111222334455555555 44443 55677899999
Q ss_pred hHHHHHHHhCCCEEEE
Q 011155 111 NIPNFVRECGASLLVT 126 (492)
Q Consensus 111 ~l~~l~~~~~~~~V~~ 126 (492)
.|.+.+++++++-|++
T Consensus 96 ~I~~~a~~~~~DLIVm 111 (142)
T PRK15456 96 EVNELAEELGADVVVI 111 (142)
T ss_pred HHHHHHhhcCCCEEEE
Confidence 9999999999999998
No 22
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA 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 UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=81.88 E-value=11 Score=31.63 Aligned_cols=84 Identities=17% Similarity=0.094 Sum_probs=50.6
Q ss_pred CHHHHHHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHH---------HHHH-HhhcCCcEEEEeCChhchHH
Q 011155 44 NWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLL---------QRNI-EETFQILFFLFQGEAEDNIP 113 (492)
Q Consensus 44 N~aL~~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L---------~~~L-~~~lG~~L~v~~G~~~~~l~ 113 (492)
..+|..|+..|...+.+|..++++++...................- .... .........+..|++.+.+.
T Consensus 16 ~~al~~a~~la~~~~~~i~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ 95 (140)
T PF00582_consen 16 RRALRFALELAKRSGAEITLLHVIPPPPQYSFSAAEDEESEEEAEEEEQARQAEAEEAEAEGGIVIEVVIESGDVADAII 95 (140)
T ss_dssp HHHHHHHHHHHHHHTCEEEEEEEEESCHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEEEESSHHHHHH
T ss_pred HHHHHHHHHHHHhhCCeEEEEEeeccccccccccccccccccccchhhhhhhHHHHHHhhhccceeEEEEEeeccchhhh
Confidence 4677778888877788999999999764311110000000000000 1111 01223455666789999999
Q ss_pred HHHHHhCCCEEEEc
Q 011155 114 NFVRECGASLLVTD 127 (492)
Q Consensus 114 ~l~~~~~~~~V~~~ 127 (492)
+++++.+++.|++-
T Consensus 96 ~~~~~~~~dliv~G 109 (140)
T PF00582_consen 96 EFAEEHNADLIVMG 109 (140)
T ss_dssp HHHHHTTCSEEEEE
T ss_pred hccccccceeEEEe
Confidence 99999999999983
No 23
>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=80.07 E-value=14 Score=34.64 Aligned_cols=89 Identities=17% Similarity=0.227 Sum_probs=51.2
Q ss_pred hCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeC--Chh---ch----HHHHHHHhCCCEEEE
Q 011155 56 KNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG--EAE---DN----IPNFVRECGASLLVT 126 (492)
Q Consensus 56 ~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G--~~~---~~----l~~l~~~~~~~~V~~ 126 (492)
++|..|+++++.-+... .+..|-...++.++.+- +.+|+++++..- +.+ +. |.++.++ +++.|++
T Consensus 21 ~~G~~v~~l~~~~~~~~----~~~~~h~~~~e~~~~~A-~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~-g~~~vv~ 94 (194)
T cd01994 21 EEGHEVVALLNLTPEEG----SSMMYHTVNHELLELQA-EAMGIPLIRIEISGEEEDEVEDLKELLRKLKEE-GVDAVVF 94 (194)
T ss_pred HcCCEEEEEEEEecCCC----CcccccccCHHHHHHHH-HHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHc-CCCEEEE
Confidence 36778999998765421 11112223566677777 889999998862 211 22 3333344 6898888
Q ss_pred -cCCcChHHHHHHHHHHHHhcCCCeEEE
Q 011155 127 -DFSPLREIRRCKDKICNRVSDSVTIHE 153 (492)
Q Consensus 127 -~~~p~~~~~~~d~~v~~~l~~~v~~~~ 153 (492)
+. .....+.|.+++.+.+ |+....
T Consensus 95 G~i-~sd~~~~~~e~~~~~~--gl~~~~ 119 (194)
T cd01994 95 GAI-LSEYQRTRVERVCERL--GLEPLA 119 (194)
T ss_pred Ccc-ccHHHHHHHHHHHHHc--CCEEEe
Confidence 32 2223355666665544 775544
No 24
>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=78.07 E-value=17 Score=34.88 Aligned_cols=95 Identities=18% Similarity=0.199 Sum_probs=56.5
Q ss_pred HHHHHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeC--Chhch---HHHHHHHhC
Q 011155 46 ALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG--EAEDN---IPNFVRECG 120 (492)
Q Consensus 46 aL~~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G--~~~~~---l~~l~~~~~ 120 (492)
||+.|.+ + ..|..++..-+... .+..|-...+..++.+- +.+|+||+.... ..++. |.+.+++.+
T Consensus 16 Al~~~~~----~-~~V~~L~~~~~~~~----~s~~~h~~~~~~~~~qA-~algiPl~~~~~~~~~e~~~~~l~~~l~~~g 85 (222)
T TIGR00289 16 ALYKALE----E-HEVISLVGVFSENE----ESYMFHSPNLHLTDLVA-EAVGIPLIKLYTSGEEEKEVEDLAGQLGELD 85 (222)
T ss_pred HHHHHHH----c-CeeEEEEEEcCCCC----CccccccCCHHHHHHHH-HHcCCCeEEEEcCCchhHHHHHHHHHHHHcC
Confidence 4555554 4 46777777666421 23344444667777777 889999987753 22333 444456679
Q ss_pred CCEEEE-cCCcChHHHHHHHHHHHHhcCCCeEEE
Q 011155 121 ASLLVT-DFSPLREIRRCKDKICNRVSDSVTIHE 153 (492)
Q Consensus 121 ~~~V~~-~~~p~~~~~~~d~~v~~~l~~~v~~~~ 153 (492)
++.|++ +. -....+.|.+++.+.+ |+....
T Consensus 86 v~~vv~GdI-~s~~qr~~~e~vc~~~--gl~~~~ 116 (222)
T TIGR00289 86 VEALCIGAI-ESNYQKSRIDKVCREL--GLKSIA 116 (222)
T ss_pred CCEEEECcc-ccHHHHHHHHHHHHHc--CCEEec
Confidence 999999 43 2233355666665544 775544
No 25
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=77.56 E-value=23 Score=30.72 Aligned_cols=84 Identities=13% Similarity=0.019 Sum_probs=52.0
Q ss_pred CCHHHHHHHHHhhhCCCCEEEEEEecCC-cccc-------chhHHHHHHHHHHHHHHHHHhhcCCcE---EEEeCChhch
Q 011155 43 DNWALIHAVDQANKNNVPVAVAFNLFDQ-FLGA-------KARQLGFMLRGLRLLQRNIEETFQILF---FLFQGEAEDN 111 (492)
Q Consensus 43 DN~aL~~A~~~a~~~~~~v~~vfi~dp~-~~~~-------~~~r~~Fl~esL~~L~~~L~~~lG~~L---~v~~G~~~~~ 111 (492)
...||..|+..|...+..|..+++..+. .... ...+-...-+..+.|++-+ ++.|+.. ++..|++.+.
T Consensus 16 s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~~G~p~~~ 94 (144)
T PRK15118 16 SKVLVEKAVSMARPYNAKVSLIHVDVNYSDLYTGLIDVNLGDMQKRISEETHHALTELS-TNAGYPITETLSGSGDLGQV 94 (144)
T ss_pred HHHHHHHHHHHHHhhCCEEEEEEEccChhhhhhhhhhcchHHHHHHHHHHHHHHHHHHH-HhCCCCceEEEEEecCHHHH
Confidence 4578888888887777788888883221 1100 0111111222223444444 5556653 3457999999
Q ss_pred HHHHHHHhCCCEEEEc
Q 011155 112 IPNFVRECGASLLVTD 127 (492)
Q Consensus 112 l~~l~~~~~~~~V~~~ 127 (492)
|.+.+++.+++-|+.-
T Consensus 95 I~~~a~~~~~DLIV~G 110 (144)
T PRK15118 95 LVDAIKKYDMDLVVCG 110 (144)
T ss_pred HHHHHHHhCCCEEEEe
Confidence 9999999999999983
No 26
>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=72.12 E-value=34 Score=32.84 Aligned_cols=96 Identities=15% Similarity=0.197 Sum_probs=52.9
Q ss_pred HHHHHHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEe--CChh---chHHHHHHHh
Q 011155 45 WALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--GEAE---DNIPNFVREC 119 (492)
Q Consensus 45 ~aL~~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~--G~~~---~~l~~l~~~~ 119 (492)
-||+.|.+ + ..|..+..+-|... .+..|-.-.+.-++.+- +.+|+||+... +... +.|.+++++.
T Consensus 15 ~al~~a~~----~-~~v~~L~t~~~~~~----~s~~~H~~~~~~~~~qA-~algipl~~~~~~~~~e~~~e~l~~~l~~~ 84 (223)
T TIGR00290 15 LALYHALK----E-HEVISLVNIMPENE----ESYMFHGVNAHLTDLQA-ESIGIPLIKLYTEGTEEDEVEELKGILHTL 84 (223)
T ss_pred HHHHHHHH----h-CeeEEEEEEecCCC----CcccccccCHHHHHHHH-HHcCCCeEEeecCCCccHHHHHHHHHHHHc
Confidence 35666665 4 45555555544311 22222222444555555 77999997643 3333 3455556677
Q ss_pred CCCEEEE-cCCcChHHHHHHHHHHHHhcCCCeEEE
Q 011155 120 GASLLVT-DFSPLREIRRCKDKICNRVSDSVTIHE 153 (492)
Q Consensus 120 ~~~~V~~-~~~p~~~~~~~d~~v~~~l~~~v~~~~ 153 (492)
+++.|++ +. -....+.|.+++.+.+ |+....
T Consensus 85 gv~~vv~GdI-~s~~qr~~~e~v~~~l--gl~~~~ 116 (223)
T TIGR00290 85 DVEAVVFGAI-YSEYQKTRIERVCREL--GLKSFA 116 (223)
T ss_pred CCCEEEECCc-ccHHHHHHHHHHHHhc--CCEEec
Confidence 9999999 43 2233355556665544 765544
No 27
>PRK10490 sensor protein KdpD; Provisional
Probab=71.91 E-value=24 Score=41.14 Aligned_cols=107 Identities=13% Similarity=0.109 Sum_probs=66.9
Q ss_pred CCHHH-HHHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeC-ChhchHHHHHHHhC
Q 011155 43 DNWAL-IHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG-EAEDNIPNFVRECG 120 (492)
Q Consensus 43 DN~aL-~~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G-~~~~~l~~l~~~~~ 120 (492)
.+..| -.|...|.+.+.+++.|||-.+...........-+.+.++ |.++ +|.......| +..+.|-+++++.+
T Consensus 262 ~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~~~~~~~~~~l~~~~~-lA~~----lGa~~~~~~~~dva~~i~~~A~~~~ 336 (895)
T PRK10490 262 GSEKLVRTAARLAARLGSVWHAVYVETPRLHRLPEKKRRAILSALR-LAQE----LGAETATLSDPAEEKAVLRYAREHN 336 (895)
T ss_pred chHHHHHHHHHHHHhcCCCEEEEEEecCCcCcCCHHHHHHHHHHHH-HHHH----cCCEEEEEeCCCHHHHHHHHHHHhC
Confidence 44445 4456778788889999999877533333333334555553 5444 5999887777 47788999999999
Q ss_pred CCEEEEcCCcChHH--H-HHHHHHHHHhcCCCeEEEEe
Q 011155 121 ASLLVTDFSPLREI--R-RCKDKICNRVSDSVTIHEVD 155 (492)
Q Consensus 121 ~~~V~~~~~p~~~~--~-~~d~~v~~~l~~~v~~~~~~ 155 (492)
|++|++-.+..... + ...++|.+.. .+|.++.+.
T Consensus 337 vt~IViG~s~~~~~~~~~s~~~~l~r~~-~~idi~iv~ 373 (895)
T PRK10490 337 LGKIIIGRRASRRWWRRESFADRLARLG-PDLDLVIVA 373 (895)
T ss_pred CCEEEECCCCCCCCccCCCHHHHHHHhC-CCCCEEEEe
Confidence 99999943321110 1 1123333322 577777774
No 28
>PRK11175 universal stress protein UspE; Provisional
Probab=66.95 E-value=45 Score=32.95 Aligned_cols=81 Identities=16% Similarity=0.119 Sum_probs=51.5
Q ss_pred HHHHHHHHHhhhC-CCCEEEEEEecCCccc---------cchhHHHHHHHHHHHHHHHHHhhcCCc---EEEEeCChhch
Q 011155 45 WALIHAVDQANKN-NVPVAVAFNLFDQFLG---------AKARQLGFMLRGLRLLQRNIEETFQIL---FFLFQGEAEDN 111 (492)
Q Consensus 45 ~aL~~A~~~a~~~-~~~v~~vfi~dp~~~~---------~~~~r~~Fl~esL~~L~~~L~~~lG~~---L~v~~G~~~~~ 111 (492)
.+|..|...|... +..|..|+++++.... .....-..-.+..+.|++-+ ++.|++ .++..|++.+.
T Consensus 174 ~al~~a~~la~~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~v~~G~~~~~ 252 (305)
T PRK11175 174 KLVEEAIDLAEQLNHAEVHLVNAYPVTPINIAIELPEFDPSVYNDAIRGQHLLAMKALR-QKFGIDEEQTHVEEGLPEEV 252 (305)
T ss_pred HHHHHHHHHHhhCcCCceEEEEEecCcchhccccccccchhhHHHHHHHHHHHHHHHHH-HHhCCChhheeeccCCHHHH
Confidence 4677787777666 6788888887643211 01111111112333444444 555653 56778999999
Q ss_pred HHHHHHHhCCCEEEE
Q 011155 112 IPNFVRECGASLLVT 126 (492)
Q Consensus 112 l~~l~~~~~~~~V~~ 126 (492)
|.+.+++.+++-|++
T Consensus 253 I~~~a~~~~~DLIVm 267 (305)
T PRK11175 253 IPDLAEHLDAELVIL 267 (305)
T ss_pred HHHHHHHhCCCEEEE
Confidence 999999999999998
No 29
>PRK11175 universal stress protein UspE; Provisional
Probab=62.58 E-value=72 Score=31.52 Aligned_cols=89 Identities=20% Similarity=0.150 Sum_probs=56.9
Q ss_pred CCCccCCHHHHHHHHHhhhCCCCEEEEEEecCCcc------ccchh---HHHH---HHHHHHHHHHHHHhhcCCcEE--E
Q 011155 38 DQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFL------GAKAR---QLGF---MLRGLRLLQRNIEETFQILFF--L 103 (492)
Q Consensus 38 DLRl~DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~------~~~~~---r~~F---l~esL~~L~~~L~~~lG~~L~--v 103 (492)
|+=-....||..|+..|++.+..|..+++.++... ..... +... ..+.|+.....+ +..|++.. +
T Consensus 11 D~s~~~~~al~~a~~lA~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~~v 89 (305)
T PRK11175 11 DPNQDDQPALRRAVYLAQRNGGKITAFLPIYDFSYEMTTLLSPDEREAMRQGVISQRTAWIREQAKPY-LDAGIPIEIKV 89 (305)
T ss_pred CCCccccHHHHHHHHHHHhcCCCEEEEEeccCchhhhhcccchhHHHHHHHHHHHHHHHHHHHHHHHH-hhcCCceEEEE
Confidence 33345678999999999888888888877643211 01110 1111 223344444455 55676654 3
Q ss_pred E-eCChhchHHHHHHHhCCCEEEEc
Q 011155 104 F-QGEAEDNIPNFVRECGASLLVTD 127 (492)
Q Consensus 104 ~-~G~~~~~l~~l~~~~~~~~V~~~ 127 (492)
. .|.+.+.|.+.+++.+++-|++-
T Consensus 90 ~~~g~~~~~i~~~a~~~~~DLiV~G 114 (305)
T PRK11175 90 VWHNRPFEAIIQEVIAGGHDLVVKM 114 (305)
T ss_pred ecCCCcHHHHHHHHHhcCCCEEEEe
Confidence 3 58899999999999999999994
No 30
>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=57.95 E-value=92 Score=29.67 Aligned_cols=65 Identities=15% Similarity=0.205 Sum_probs=36.4
Q ss_pred hCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCC-----hhchH----HHHHHHhCCCEEEE
Q 011155 56 KNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE-----AEDNI----PNFVRECGASLLVT 126 (492)
Q Consensus 56 ~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~-----~~~~l----~~l~~~~~~~~V~~ 126 (492)
++|..|++++.+.+.... +.-+-...+..++..- +.+|+++.+..-+ -.+.| .++.++ |++.|++
T Consensus 19 ~~G~~v~~l~~~~~~~~~----~~~~~~~~~~~~~~~A-~~lgip~~~i~~~~~~~~~~~~l~~~l~~~~~~-g~~~vv~ 92 (218)
T TIGR03679 19 EEGHEVRCLITVVPENEE----SYMFHTPNIELTRLQA-EALGIPLVKIETSGEKEKEVEDLKGALKELKRE-GVEGIVT 92 (218)
T ss_pred HcCCEEEEEEEeccCCCC----ccccCCCCHHHHHHHH-HHhCCCEEEEECCCCChHHHHHHHHHHHHHHHc-CCCEEEE
Confidence 367777767666553211 1111112455566666 7889999888643 11223 333333 8999998
No 31
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=53.38 E-value=2.1e+02 Score=32.92 Aligned_cols=109 Identities=17% Similarity=0.188 Sum_probs=71.4
Q ss_pred CCHHHHH-HHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCC-hhchHHHHHHHhC
Q 011155 43 DNWALIH-AVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE-AEDNIPNFVRECG 120 (492)
Q Consensus 43 DN~aL~~-A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~-~~~~l~~l~~~~~ 120 (492)
.|..|+. |...|.+...+...|||-.|+....+.....-+.+ ...|.++| |..+....|. ..+.|.+.++.++
T Consensus 260 ~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~~~~~~~~~l~~-~~~Lae~l----Gae~~~l~~~dv~~~i~~ya~~~~ 334 (890)
T COG2205 260 GSEKLIRRAARLASRLHAKWTAVYVETPELHRLSEKEARRLHE-NLRLAEEL----GAEIVTLYGGDVAKAIARYAREHN 334 (890)
T ss_pred chHHHHHHHHHHHHHhCCCeEEEEEeccccccccHHHHHHHHH-HHHHHHHh----CCeEEEEeCCcHHHHHHHHHHHcC
Confidence 3666654 56677777889999999888765444343433433 34455555 9999888864 5677999999999
Q ss_pred CCEEEEcCCcChHHHH-HHHHHHHHh--c-CCCeEEEEeC
Q 011155 121 ASLLVTDFSPLREIRR-CKDKICNRV--S-DSVTIHEVDA 156 (492)
Q Consensus 121 ~~~V~~~~~p~~~~~~-~d~~v~~~l--~-~~v~~~~~~~ 156 (492)
+++|+.-.+.....+. ....+...+ . .+|.++.+..
T Consensus 335 ~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~ 374 (890)
T COG2205 335 ATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVAL 374 (890)
T ss_pred CeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeC
Confidence 9999996544332222 224444443 2 5787777654
No 32
>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=50.89 E-value=97 Score=28.66 Aligned_cols=96 Identities=8% Similarity=0.033 Sum_probs=62.4
Q ss_pred CCEEEEEEecCCcc-ccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeC--------Chh-----------chHHH-HHH
Q 011155 59 VPVAVAFNLFDQFL-GAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG--------EAE-----------DNIPN-FVR 117 (492)
Q Consensus 59 ~~v~~vfi~dp~~~-~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G--------~~~-----------~~l~~-l~~ 117 (492)
...+-||+...+.- -.-.-|...+.++.+||.+=. ---|++.+|-.. +.. .++.+ ++.
T Consensus 26 ~d~l~vFVV~eD~S~Fpf~~R~~LVk~G~~~L~NV~-V~~~g~YiIS~aTFPsYFlK~~~~~~~~~~~lD~~iF~~~IAp 104 (182)
T PF08218_consen 26 CDWLHVFVVSEDRSLFPFADRYELVKEGTADLPNVT-VHPGGDYIISSATFPSYFLKDEDDVIKAQAELDATIFKKYIAP 104 (182)
T ss_pred CCEEEEEEEccccCcCCHHHHHHHHHHHhCcCCCEE-EEcCCCeeeecccChhhhccchhHHHHHHHHHHHHHHHHHhhH
Confidence 45667888886532 223678999999999997644 444666655431 111 12333 667
Q ss_pred HhCCCEEEEcCCcChH-HHHHHHHHHHHhc-CCCeEEEEe
Q 011155 118 ECGASLLVTDFSPLRE-IRRCKDKICNRVS-DSVTIHEVD 155 (492)
Q Consensus 118 ~~~~~~V~~~~~p~~~-~~~~d~~v~~~l~-~~v~~~~~~ 155 (492)
..+|+.=|+-.||... .+.=-+.+++.|+ .||++.++.
T Consensus 105 ~L~It~RfVG~EP~~~vT~~YN~~M~~~Lp~~gi~v~ei~ 144 (182)
T PF08218_consen 105 ALGITKRFVGEEPFSPVTRIYNEAMKEILPPYGIEVVEIP 144 (182)
T ss_pred hcCcccceeCCCCCCHHHHHHHHHHHHhccccCCEEEEEe
Confidence 7899999997677443 3334567777885 889998863
No 33
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=50.46 E-value=1.6e+02 Score=25.01 Aligned_cols=78 Identities=17% Similarity=0.054 Sum_probs=51.9
Q ss_pred HHHHHHhhhCCCCEEEEEEecCCcccc--c----h--------hHHHHHHHHHHHHHHHHHhhcCCc---EEEEeCCh-h
Q 011155 48 IHAVDQANKNNVPVAVAFNLFDQFLGA--K----A--------RQLGFMLRGLRLLQRNIEETFQIL---FFLFQGEA-E 109 (492)
Q Consensus 48 ~~A~~~a~~~~~~v~~vfi~dp~~~~~--~----~--------~r~~Fl~esL~~L~~~L~~~lG~~---L~v~~G~~-~ 109 (492)
..|...+...+.++..+++.++..... . . .-..-..+.+..+++.+ .+.|+. ..+..|++ .
T Consensus 24 ~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~g~~~~ 102 (154)
T COG0589 24 EEAVALAKRLGAPLILLVVIDPLEPTALVSVALADAPIPLSEEELEEEAEELLAEAKALA-EAAGVPVVETEVVEGSPSA 102 (154)
T ss_pred HHHHHHHHhcCCeEEEEEEecccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHH-HHcCCCeeEEEEecCCCcH
Confidence 334444444566787788887653211 0 0 01233467777888888 777865 56677998 6
Q ss_pred chHHHHHHHhCCCEEEE
Q 011155 110 DNIPNFVRECGASLLVT 126 (492)
Q Consensus 110 ~~l~~l~~~~~~~~V~~ 126 (492)
+.+...+.+.+++.|++
T Consensus 103 ~~i~~~a~~~~adliV~ 119 (154)
T COG0589 103 EEILELAEEEDADLIVV 119 (154)
T ss_pred HHHHHHHHHhCCCEEEE
Confidence 88998999999999998
No 34
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=49.99 E-value=1.2e+02 Score=28.95 Aligned_cols=99 Identities=13% Similarity=0.181 Sum_probs=58.0
Q ss_pred CHHHHHHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCCh-----hchHHHHHHH
Q 011155 44 NWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEA-----EDNIPNFVRE 118 (492)
Q Consensus 44 N~aL~~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~~-----~~~l~~l~~~ 118 (492)
+-||+.|.+ .|-.|..+.++-|..-+ .+-|-.-++.-...+- +..|++++.....- .+.|..+++.
T Consensus 14 ~~Al~~a~~----~G~eV~~Ll~~~p~~~d----S~m~H~~n~~~~~~~A-e~~gi~l~~~~~~g~~e~eve~L~~~l~~ 84 (223)
T COG2102 14 FYALYLALE----EGHEVVYLLTVKPENGD----SYMFHTPNLELAELQA-EAMGIPLVTFDTSGEEEREVEELKEALRR 84 (223)
T ss_pred HHHHHHHHH----cCCeeEEEEEEecCCCC----eeeeeccchHHHHHHH-HhcCCceEEEecCccchhhHHHHHHHHHh
Confidence 456677765 57888888887775321 1112223333334444 56899988775332 3456667788
Q ss_pred hCCCEEEEcCCcChHHHHHHHHHHHHhcCCCeEEE
Q 011155 119 CGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHE 153 (492)
Q Consensus 119 ~~~~~V~~~~~p~~~~~~~d~~v~~~l~~~v~~~~ 153 (492)
.+++.|++-.-...+.+.|.++|++.+ |+.+..
T Consensus 85 l~~d~iv~GaI~s~yqk~rve~lc~~l--Gl~~~~ 117 (223)
T COG2102 85 LKVDGIVAGAIASEYQKERVERLCEEL--GLKVYA 117 (223)
T ss_pred CcccEEEEchhhhHHHHHHHHHHHHHh--CCEEee
Confidence 899999983223333355555665544 776554
No 35
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=49.37 E-value=34 Score=38.66 Aligned_cols=41 Identities=12% Similarity=0.298 Sum_probs=37.5
Q ss_pred HHHHhhcCCcEEEEeCChhchHHHHHHHhCCCEEEEcCCcCh
Q 011155 91 RNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (492)
Q Consensus 91 ~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~p~~ 132 (492)
++| +++|+.++++.|+....-..++++.||++++.+-.|..
T Consensus 547 ~~L-~~~Gi~~~mLTGDn~~~A~~iA~~lGId~v~AellPed 587 (713)
T COG2217 547 AAL-KALGIKVVMLTGDNRRTAEAIAKELGIDEVRAELLPED 587 (713)
T ss_pred HHH-HHCCCeEEEEcCCCHHHHHHHHHHcChHhheccCCcHH
Confidence 455 88999999999999999999999999999999988866
No 36
>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=49.06 E-value=33 Score=32.83 Aligned_cols=95 Identities=18% Similarity=0.263 Sum_probs=44.6
Q ss_pred HHHHHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEe--CChhc---hHHHHHHHhC
Q 011155 46 ALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--GEAED---NIPNFVRECG 120 (492)
Q Consensus 46 aL~~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~--G~~~~---~l~~l~~~~~ 120 (492)
||+.|.+ + .+|..+..+-|.. ..+..|-.-.+.-++.+- +.+|+||+... |...+ .|.+.+++.+
T Consensus 16 Al~~a~~----~-~~v~~L~t~~~~~----~~s~~~H~~~~~~~~~qA-~algipl~~~~~~g~~~~~~~~l~~~l~~~~ 85 (218)
T PF01902_consen 16 ALYRALR----Q-HEVVCLLTMVPEE----EDSYMFHGVNIELIEAQA-EALGIPLIEIPTSGDEEDYVEDLKEALKELK 85 (218)
T ss_dssp HHHHHHH----T--EEEEEEEEEEST----TT-SSS-STTGTCHHHHH-HHHT--EEEEEE---CCCHHHHHHHHHCTC-
T ss_pred HHHHHHH----h-CCccEEEEeccCC----CCcccccccCHHHHHHHH-HHCCCCEEEEEccCccchhhHHHHHHHHHcC
Confidence 5666665 4 5565555544432 111112111234445555 77899998875 33333 4555667789
Q ss_pred CCEEEE-cCCcChHHHHHHHHHHHHhcCCCeEEE
Q 011155 121 ASLLVT-DFSPLREIRRCKDKICNRVSDSVTIHE 153 (492)
Q Consensus 121 ~~~V~~-~~~p~~~~~~~d~~v~~~l~~~v~~~~ 153 (492)
|+.|++ +. .....+.|.+++.+. .|+++..
T Consensus 86 v~~vv~GdI-~~~~~r~~~e~vc~~--lGl~~~~ 116 (218)
T PF01902_consen 86 VEAVVFGDI-DSEYQRNWVERVCER--LGLEAVF 116 (218)
T ss_dssp -SEEE--TT-S-HHHHHHHHHHHHH--CT-EEE-
T ss_pred CCEEEECcC-CcHHHHHHHHHHHHH--cCCEEEe
Confidence 999999 54 233345555666554 4776554
No 37
>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=48.77 E-value=82 Score=25.65 Aligned_cols=64 Identities=16% Similarity=0.258 Sum_probs=41.5
Q ss_pred HHHHHHHHHhhcCCcEEEE--e-CChhch--HHHHHHHhCCCEEEE--cCCcChHHHHHHHHHHHHhc-CCCeEEEEeC
Q 011155 86 LRLLQRNIEETFQILFFLF--Q-GEAEDN--IPNFVRECGASLLVT--DFSPLREIRRCKDKICNRVS-DSVTIHEVDA 156 (492)
Q Consensus 86 L~~L~~~L~~~lG~~L~v~--~-G~~~~~--l~~l~~~~~~~~V~~--~~~p~~~~~~~d~~v~~~l~-~~v~~~~~~~ 156 (492)
...+++.+ ++.|..+.++ . |..... |++.++ +++.|++ ++--. .....+++.|+ .++++....+
T Consensus 12 ~~~~~~~~-~~~G~~~~~hg~~~~~~~~~~~l~~~i~--~aD~VIv~t~~vsH----~~~~~vk~~akk~~ip~~~~~~ 83 (97)
T PF10087_consen 12 ERRYKRIL-EKYGGKLIHHGRDGGDEKKASRLPSKIK--KADLVIVFTDYVSH----NAMWKVKKAAKKYGIPIIYSRS 83 (97)
T ss_pred HHHHHHHH-HHcCCEEEEEecCCCCccchhHHHHhcC--CCCEEEEEeCCcCh----HHHHHHHHHHHHcCCcEEEECC
Confidence 46778888 8999999999 2 332233 666665 4565655 54222 23467777774 7899888764
No 38
>COG3590 PepO Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]
Probab=48.16 E-value=11 Score=40.63 Aligned_cols=47 Identities=21% Similarity=0.249 Sum_probs=33.9
Q ss_pred ccccCCCCCCCcCceEeecccCCCCCCCCCCcCcccccCcchhhhcCCchh-HHHhhhhhhc
Q 011155 412 YEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAYVKRIVG 472 (492)
Q Consensus 412 yliD~d~a~n~~~wqw~a~G~~~~g~~~~pyfg~~R~~np~~q~~k~Dp~~-yir~wvPeL~ 472 (492)
|-.|+|.++||||+.=+.+--..-| | ..|+.+||.+| ....|.+|=+
T Consensus 474 fd~ea~~a~NYGgIGaVIgHEI~Hg------F--------DdqGakfD~~GnL~dWWT~eD~ 521 (654)
T COG3590 474 FDPEADSAANYGGIGAVIGHEIGHG------F--------DDQGAKFDGDGNLNDWWTDEDA 521 (654)
T ss_pred CCCCcchhhcccCccceehhhhccc------c--------cCCccccCCCCcHHhhcCHHHH
Confidence 3688999999999987653111101 2 46889999999 9999988743
No 39
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=44.34 E-value=44 Score=30.75 Aligned_cols=49 Identities=12% Similarity=0.200 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHhhcCCcEEEEeCChhchHHHHHHHhCCCE--EEEcC--CcCh
Q 011155 83 LRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASL--LVTDF--SPLR 132 (492)
Q Consensus 83 ~esL~~L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~--V~~~~--~p~~ 132 (492)
...+.++=++| ++.|+++.++.|+.......+++..|+.. |+... .|..
T Consensus 129 ~~~~~~~l~~L-~~~Gi~~~i~TGD~~~~a~~~~~~lgi~~~~v~a~~~~kP~~ 181 (215)
T PF00702_consen 129 RPGAKEALQEL-KEAGIKVAILTGDNESTASAIAKQLGIFDSIVFARVIGKPEP 181 (215)
T ss_dssp HTTHHHHHHHH-HHTTEEEEEEESSEHHHHHHHHHHTTSCSEEEEESHETTTHH
T ss_pred hhhhhhhhhhh-hccCcceeeeeccccccccccccccccccccccccccccccc
Confidence 34456666777 88999999999999999999999999965 55566 6755
No 40
>TIGR01497 kdpB K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR.
Probab=39.02 E-value=1.2e+02 Score=34.25 Aligned_cols=60 Identities=12% Similarity=0.220 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHhhcCCcEEEEeCChhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhcCC
Q 011155 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDS 148 (492)
Q Consensus 84 esL~~L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~~~ 148 (492)
....+.=++| ++.|+...+..|+.......++++.|++.++.+..|... .+.|+++.+.|
T Consensus 449 p~a~eaI~~l-~~~Gi~v~miTGD~~~ta~~iA~~lGI~~v~a~~~PedK----~~~v~~lq~~g 508 (675)
T TIGR01497 449 GGIKERFAQL-RKMGIKTIMITGDNRLTAAAIAAEAGVDDFIAEATPEDK----IALIRQEQAEG 508 (675)
T ss_pred hHHHHHHHHH-HHCCCEEEEEcCCCHHHHHHHHHHcCCCEEEcCCCHHHH----HHHHHHHHHcC
Confidence 4455555666 889999999999999999999999999999998877652 24455544333
No 41
>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases. XPG is a eukaryotic enzyme that functions in nucleotide-excision repair and transcription-coupled repair of oxidative DNA damage. Functionally/structurally related to FEN-1; divalent metal ion-dependent exo- and endonuclease, and bacterial and bacteriophage 5'3' exonucleases.
Probab=38.25 E-value=67 Score=32.41 Aligned_cols=19 Identities=16% Similarity=0.308 Sum_probs=13.5
Q ss_pred hchHHHHHHHhCCCEEEEc
Q 011155 109 EDNIPNFVRECGASLLVTD 127 (492)
Q Consensus 109 ~~~l~~l~~~~~~~~V~~~ 127 (492)
.+.+.++++..|+..|..-
T Consensus 130 ~~~~~~lL~~~gi~~i~ap 148 (316)
T cd00128 130 IEEAKELLRLMGIPYIVAP 148 (316)
T ss_pred HHHHHHHHHHcCCCEEECC
Confidence 4556777888888888653
No 42
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=38.01 E-value=67 Score=36.24 Aligned_cols=48 Identities=13% Similarity=0.239 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHhhcCCcEEEEeCChhchHHHHHHHhCCCEEEEcCCcCh
Q 011155 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (492)
Q Consensus 84 esL~~L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~p~~ 132 (492)
+...+.=++| ++.|+...+..|+....-..++++.|++.++.+..|..
T Consensus 448 ~~~~eai~~L-r~~GI~vvMiTGDn~~TA~aIA~elGId~v~A~~~Ped 495 (679)
T PRK01122 448 PGIKERFAEL-RKMGIKTVMITGDNPLTAAAIAAEAGVDDFLAEATPED 495 (679)
T ss_pred hhHHHHHHHH-HHCCCeEEEECCCCHHHHHHHHHHcCCcEEEccCCHHH
Confidence 3344444566 88999999999999999999999999999999888866
No 43
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=37.11 E-value=1.9e+02 Score=28.08 Aligned_cols=75 Identities=15% Similarity=0.088 Sum_probs=48.5
Q ss_pred HHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCC--------hhchHHHHHHHhC
Q 011155 49 HAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE--------AEDNIPNFVRECG 120 (492)
Q Consensus 49 ~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~--------~~~~l~~l~~~~~ 120 (492)
.+++.|..-|.+.+.+..............++.+.++|+.|.+-. ++.|+.|.+.... ..+.+.+++++.+
T Consensus 94 ~~i~~a~~lGa~~i~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~a-~~~gv~l~iE~~~~~~~~~~~t~~~~~~l~~~~~ 172 (275)
T PRK09856 94 LAMDMAKEMNAGYTLISAAHAGYLTPPNVIWGRLAENLSELCEYA-ENIGMDLILEPLTPYESNVVCNANDVLHALALVP 172 (275)
T ss_pred HHHHHHHHhCCCEEEEcCCCCCCCCCHHHHHHHHHHHHHHHHHHH-HHcCCEEEEecCCCCcccccCCHHHHHHHHHHcC
Confidence 345566667888765543332222334556788999999999999 9999999887522 2345566677655
Q ss_pred CCEE
Q 011155 121 ASLL 124 (492)
Q Consensus 121 ~~~V 124 (492)
-..|
T Consensus 173 ~~~v 176 (275)
T PRK09856 173 SPRL 176 (275)
T ss_pred CCcc
Confidence 4333
No 44
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=35.80 E-value=2.1e+02 Score=25.93 Aligned_cols=80 Identities=15% Similarity=0.083 Sum_probs=56.1
Q ss_pred HHHHHHHHhhhCCCCEEEEEEe--cCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCC-----hh---chHHHH
Q 011155 46 ALIHAVDQANKNNVPVAVAFNL--FDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE-----AE---DNIPNF 115 (492)
Q Consensus 46 aL~~A~~~a~~~~~~v~~vfi~--dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~-----~~---~~l~~l 115 (492)
-+..+++.|+..|.+.+.+... +..........+..+.++|+.|.+.+ ++.|+.+.+.... .. +.+..+
T Consensus 72 ~~~~~i~~a~~lg~~~i~~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~a-~~~gv~i~lE~~~~~~~~~~~~~~~~~~~ 150 (213)
T PF01261_consen 72 YLKKAIDLAKRLGAKYIVVHSGRYPSGPEDDTEENWERLAENLRELAEIA-EEYGVRIALENHPGPFSETPFSVEEIYRL 150 (213)
T ss_dssp HHHHHHHHHHHHTBSEEEEECTTESSSTTSSHHHHHHHHHHHHHHHHHHH-HHHTSEEEEE-SSSSSSSEESSHHHHHHH
T ss_pred HHHHHHHHHHHhCCCceeecCcccccccCCCHHHHHHHHHHHHHHHHhhh-hhhcceEEEecccCccccchhhHHHHHHH
Confidence 4566677777788887655543 12112234577889999999999999 9999999887522 22 677888
Q ss_pred HHHhCCCEEEE
Q 011155 116 VRECGASLLVT 126 (492)
Q Consensus 116 ~~~~~~~~V~~ 126 (492)
+++.+-..|.+
T Consensus 151 l~~~~~~~~~i 161 (213)
T PF01261_consen 151 LEEVDSPNVGI 161 (213)
T ss_dssp HHHHTTTTEEE
T ss_pred HhhcCCCcceE
Confidence 99888765555
No 45
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=35.43 E-value=77 Score=35.70 Aligned_cols=48 Identities=21% Similarity=0.318 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHhhcCCcEEEEeCChhchHHHHHHHhCCCEEEEcCCcCh
Q 011155 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (492)
Q Consensus 84 esL~~L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~p~~ 132 (492)
+...+.=++| ++.|++..+..|+....-..++++.|++.++....|..
T Consensus 444 ~~a~e~I~~L-r~~GI~vvMiTGDn~~TA~aIA~elGI~~v~A~~~Ped 491 (673)
T PRK14010 444 DGLVERFREL-REMGIETVMCTGDNELTAATIAKEAGVDRFVAECKPED 491 (673)
T ss_pred HHHHHHHHHH-HHCCCeEEEECCCCHHHHHHHHHHcCCceEEcCCCHHH
Confidence 3344444566 88999999999999999999999999999999887866
No 46
>PRK03980 flap endonuclease-1; Provisional
Probab=33.98 E-value=1.1e+02 Score=30.55 Aligned_cols=21 Identities=5% Similarity=0.066 Sum_probs=13.1
Q ss_pred hhchHHHHHHHhCCCEEEEcC
Q 011155 108 AEDNIPNFVRECGASLLVTDF 128 (492)
Q Consensus 108 ~~~~l~~l~~~~~~~~V~~~~ 128 (492)
..+.+.++++..||..|..-+
T Consensus 84 ~~~~~k~lL~~~GIp~i~AP~ 104 (292)
T PRK03980 84 IVEDSKKLLDLMGIPYVQAPS 104 (292)
T ss_pred HHHHHHHHHHHCCCCEEecCc
Confidence 344466667777777776644
No 47
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=33.97 E-value=1e+02 Score=32.47 Aligned_cols=67 Identities=18% Similarity=0.190 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHhhcCCcEEEEeC--ChhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhc-CCCeEEEEe
Q 011155 84 RGLRLLQRNIEETFQILFFLFQG--EAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVS-DSVTIHEVD 155 (492)
Q Consensus 84 esL~~L~~~L~~~lG~~L~v~~G--~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~-~~v~~~~~~ 155 (492)
+=|..+.+++ .++|+.+++... ++.+++.+++.+.+++.|+-.-+-..++. .+.+.|+ .|+++.+-|
T Consensus 65 ~~l~~~~~~v-~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKSmvseEI----gln~~Le~~G~ev~ETD 134 (459)
T COG1139 65 EYLEQLEENV-TRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKSMVSEEI----GLNHYLEEKGIEVWETD 134 (459)
T ss_pred HHHHHHHHHH-HHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecchhHHHh----hhHHHHHHcCCeEEEcc
Confidence 3455667778 889999999874 46678999999999999999766555433 5555563 688887765
No 48
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=33.61 E-value=1.7e+02 Score=26.90 Aligned_cols=54 Identities=9% Similarity=0.179 Sum_probs=43.7
Q ss_pred HHHHHHHhhcCCcEEEEeCChhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHH
Q 011155 88 LLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNR 144 (492)
Q Consensus 88 ~L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~ 144 (492)
+.-.++ ++.|+.++|...+.+..+...++..++.-|+-.--|.. +..++++++.
T Consensus 53 ~W~~e~-k~~gi~v~vvSNn~e~RV~~~~~~l~v~fi~~A~KP~~--~~fr~Al~~m 106 (175)
T COG2179 53 AWLAEL-KEAGIKVVVVSNNKESRVARAAEKLGVPFIYRAKKPFG--RAFRRALKEM 106 (175)
T ss_pred HHHHHH-HhcCCEEEEEeCCCHHHHHhhhhhcCCceeecccCccH--HHHHHHHHHc
Confidence 333567 88999999999999999999999999999998777877 5556666654
No 49
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=32.27 E-value=1.3e+02 Score=30.84 Aligned_cols=20 Identities=5% Similarity=0.061 Sum_probs=12.9
Q ss_pred hchHHHHHHHhCCCEEEEcC
Q 011155 109 EDNIPNFVRECGASLLVTDF 128 (492)
Q Consensus 109 ~~~l~~l~~~~~~~~V~~~~ 128 (492)
.+.+.++++..|+..|.+-+
T Consensus 132 ~~~~k~lL~~~Gip~i~AP~ 151 (338)
T TIGR03674 132 VESSKKLLDLMGIPYVQAPS 151 (338)
T ss_pred HHHHHHHHHHcCCeEEECCc
Confidence 44566677777777776644
No 50
>TIGR01490 HAD-SF-IB-hyp1 HAD-superfamily subfamily IB hydrolase, TIGR01490. A subset of these sequences, including the Caulobacter crescentus CicA protein, cluster together and may represent a separate equivalog.
Probab=31.16 E-value=93 Score=28.54 Aligned_cols=45 Identities=13% Similarity=0.012 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHhhcCCcEEEEeCChhchHHHHHHHhCCCEEEEc
Q 011155 82 MLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTD 127 (492)
Q Consensus 82 l~esL~~L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~V~~~ 127 (492)
+...+.++-+.+ ++.|.++.|..+.+...+..+++..+++.++..
T Consensus 88 ~~~~~~~~l~~l-~~~g~~v~ivS~s~~~~v~~~~~~lg~~~~~~~ 132 (202)
T TIGR01490 88 LYPEARDLIRWH-KAEGHTIVLVSASLTILVKPLARILGIDNAIGT 132 (202)
T ss_pred ccHHHHHHHHHH-HHCCCEEEEEeCCcHHHHHHHHHHcCCcceEec
Confidence 344556666667 778888888888887778888887888776543
No 51
>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=31.09 E-value=2.3e+02 Score=25.20 Aligned_cols=65 Identities=15% Similarity=0.214 Sum_probs=41.6
Q ss_pred hhcCCcEEEEeCChhchHHHHHHHh--CCCEEEEcCCcChHHHHHHHHHHHHhc-CCCeEEEEeCceeEeC
Q 011155 95 ETFQILFFLFQGEAEDNIPNFVREC--GASLLVTDFSPLREIRRCKDKICNRVS-DSVTIHEVDAHNVVPV 162 (492)
Q Consensus 95 ~~lG~~L~v~~G~~~~~l~~l~~~~--~~~~V~~~~~p~~~~~~~d~~v~~~l~-~~v~~~~~~~~~l~~~ 162 (492)
+++|+.+.+++.+.+..|-..+++. +++.|+.|---+. .-.-+++.++. -++++.+++-..++..
T Consensus 38 ~~~g~~v~~~QSN~EGelId~i~~a~~~~dgiIINpga~T---HtSiAl~DAl~~~~~P~vEVHiSNi~aR 105 (141)
T TIGR01088 38 AQLNVELEFFQSNSEGQLIDKIHEAEGQYDGIIINPGALT---HTSVALRDALAAVSLPVVEVHLSNVHAR 105 (141)
T ss_pred HHcCCEEEEEeeCcHHHHHHHHHhccccCCEEEEcChHHh---hhHHHHHHHHHcCCCCEEEEEcCCcccc
Confidence 3559999999988887666555443 4678888732111 11235556663 6899999875555543
No 52
>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=30.85 E-value=2.4e+02 Score=27.14 Aligned_cols=71 Identities=11% Similarity=0.084 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHHhhcCCcEEEEeCChhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhcCCCeEEEEeC
Q 011155 80 GFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDA 156 (492)
Q Consensus 80 ~Fl~esL~~L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~~~v~~~~~~~ 156 (492)
-|..+-+..+.+.+ ++.|..+.+......+...+.....+++.|+..-.+.. +..+..+...|+++..++.
T Consensus 17 ~~~~~~~~gi~~~a-~~~g~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-----~~~~~~~~~~~ipvV~~~~ 87 (283)
T cd06279 17 PVASQFLAGVAEVL-DAAGVNLLLLPASSEDSDSALVVSALVDGFIVYGVPRD-----DPLVAALLRRGLPVVVVDQ 87 (283)
T ss_pred ccHHHHHHHHHHHH-HHCCCEEEEecCccHHHHHHHHHhcCCCEEEEeCCCCC-----hHHHHHHHHcCCCEEEEec
Confidence 36666677778888 88898888876554222223345568888887422211 1223333246888888864
No 53
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=30.40 E-value=2.2e+02 Score=28.20 Aligned_cols=64 Identities=2% Similarity=-0.130 Sum_probs=54.4
Q ss_pred EEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCChh--chHHHHHHHhCCCEEEEc
Q 011155 63 VAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAE--DNIPNFVRECGASLLVTD 127 (492)
Q Consensus 63 ~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~~~--~~l~~l~~~~~~~~V~~~ 127 (492)
-+|+.|..-..+|.+--.++.+-..++-+.| .+.|+.++|+-.+.. ..|..|-+++++..|-+-
T Consensus 33 ~iY~~D~a~~PYG~ks~e~I~~~~~~i~~~l-~~~~ik~lVIACNTASa~al~~LR~~~~iPVvGvi 98 (269)
T COG0796 33 IIYVGDTARFPYGEKSEEEIRERTLEIVDFL-LERGIKALVIACNTASAVALEDLREKFDIPVVGVI 98 (269)
T ss_pred EEEEecCCCCCCCCCCHHHHHHHHHHHHHHH-HHcCCCEEEEecchHHHHHHHHHHHhCCCCEEEec
Confidence 5899998877889888899999999999999 999999999987754 457888888988777765
No 54
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=29.90 E-value=2.9e+02 Score=24.73 Aligned_cols=65 Identities=15% Similarity=0.183 Sum_probs=41.1
Q ss_pred hhcCCcEEEEeCChhchHHHHHHHh--CCCEEEEcCCcChHHHHHHHHHHHHhc-CCCeEEEEeCceeEeC
Q 011155 95 ETFQILFFLFQGEAEDNIPNFVREC--GASLLVTDFSPLREIRRCKDKICNRVS-DSVTIHEVDAHNVVPV 162 (492)
Q Consensus 95 ~~lG~~L~v~~G~~~~~l~~l~~~~--~~~~V~~~~~p~~~~~~~d~~v~~~l~-~~v~~~~~~~~~l~~~ 162 (492)
+++|+.+.+++.+.+..|-..+++. +++.|+.|---+. .-.-+++.++. -++++.+++-..++..
T Consensus 40 ~~~g~~~~~~QSN~EGelId~i~~a~~~~dgiIINpga~T---HtSiAl~DAl~~~~~P~VEVHiSNi~aR 107 (146)
T PRK13015 40 EALGLEVEFRQSNHEGELIDWIHEARGDVAGIVINPGAYT---HTSVAIRDALAALELPVIEVHISNVHAR 107 (146)
T ss_pred HHcCCEEEEEeeCcHHHHHHHHHHhhhcCCEEEEcchHHh---hhHHHHHHHHHcCCCCEEEEEcCCcccc
Confidence 4569999999988876665555432 5678888732221 11235555553 6899999875555543
No 55
>PRK13210 putative L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=29.49 E-value=3.6e+02 Score=26.12 Aligned_cols=79 Identities=9% Similarity=0.042 Sum_probs=50.0
Q ss_pred HHHHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeC-----ChhchHHHHHHHhCC
Q 011155 47 LIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG-----EAEDNIPNFVRECGA 121 (492)
Q Consensus 47 L~~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G-----~~~~~l~~l~~~~~~ 121 (492)
+..+++.|..-|.+.+-+.-.+..........+..+.++|+.+.+-. ++.|+.|.+..- ...+.+..|++..+-
T Consensus 96 ~~~~i~~a~~lG~~~v~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~a-~~~gv~l~lE~~~~~~~~~~~~~~~l~~~v~~ 174 (284)
T PRK13210 96 MKKAIRLAQDLGIRTIQLAGYDVYYEEKSEETRQRFIEGLAWAVEQA-AAAQVMLAVEIMDTPFMNSISKWKKWDKEIDS 174 (284)
T ss_pred HHHHHHHHHHhCCCEEEECCcccccccccHHHHHHHHHHHHHHHHHH-HHhCCEEEEEecCccccCCHHHHHHHHHHcCC
Confidence 45666667777888775432221111223456778889999999999 999999988652 122345567776655
Q ss_pred CEEEE
Q 011155 122 SLLVT 126 (492)
Q Consensus 122 ~~V~~ 126 (492)
..|-+
T Consensus 175 ~~~~~ 179 (284)
T PRK13210 175 PWLTV 179 (284)
T ss_pred CceeE
Confidence 55544
No 56
>TIGR03234 OH-pyruv-isom hydroxypyruvate isomerase. This enzyme interconverts tartronate semi-aldehyde (TSA, aka 2-hydroxy 3-oxopropionate) and hydroxypyruvate. The E. coli enzyme has been characterized and found to be specific for TSA, contain no cofactors, and have a rather high Km for hydroxypyruvate of 12.5 mM. The gene is ofter found in association with glyoxalate carboligase (which produces TSA), but has been shown to have no effect on growth on glyoxalate when knocked out. This is consistent with the fact that the gene for tartronate semialdehyde reductase (glxR) is also associated and may have primary responsibility for the catabolism of TSA.
Probab=29.23 E-value=4.1e+02 Score=25.32 Aligned_cols=81 Identities=9% Similarity=0.093 Sum_probs=51.0
Q ss_pred HHHHHHHHhhhCCCCEEEEEEe-cCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeC----------ChhchHHH
Q 011155 46 ALIHAVDQANKNNVPVAVAFNL-FDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG----------EAEDNIPN 114 (492)
Q Consensus 46 aL~~A~~~a~~~~~~v~~vfi~-dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G----------~~~~~l~~ 114 (492)
.+..+++.|.+-|.+.+.+..- .+.. .....-..-+.++|+.+.+-. ++.|+.+.+... ...+.+.+
T Consensus 85 ~~~~~i~~a~~lg~~~i~~~~g~~~~~-~~~~~~~~~~~~~l~~l~~~A-~~~gi~l~lE~~~~~~~~~~~l~t~~~~~~ 162 (254)
T TIGR03234 85 GVALAIAYARALGCPQVNCLAGKRPAG-VSPEEARATLVENLRYAADAL-DRIGLTLLIEPINSFDMPGFFLTTTEQALA 162 (254)
T ss_pred HHHHHHHHHHHhCCCEEEECcCCCCCC-CCHHHHHHHHHHHHHHHHHHH-HhcCCEEEEEECCcccCCCChhcCHHHHHH
Confidence 3445666777778776643321 1111 112334556789999999888 899999998742 23455667
Q ss_pred HHHHhCCCEEEEcC
Q 011155 115 FVRECGASLLVTDF 128 (492)
Q Consensus 115 l~~~~~~~~V~~~~ 128 (492)
++++.+-..|-+.+
T Consensus 163 li~~v~~~~~~i~~ 176 (254)
T TIGR03234 163 VIDDVGRENLKLQY 176 (254)
T ss_pred HHHHhCCCCEeEee
Confidence 88877666665543
No 57
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=29.01 E-value=2e+02 Score=28.01 Aligned_cols=63 Identities=8% Similarity=0.072 Sum_probs=52.3
Q ss_pred EEEEecCCccccchhHHHHHHHHHHHHHHHHHh-hcCCcEEEEeCChhc--hHHHHHHHhCCCEEEE
Q 011155 63 VAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEE-TFQILFFLFQGEAED--NIPNFVRECGASLLVT 126 (492)
Q Consensus 63 ~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~-~lG~~L~v~~G~~~~--~l~~l~~~~~~~~V~~ 126 (492)
.+|+.|......|.+-...+.+-+.+.-+.| . +.|..++++-.+... .+.+|.+.+++.-|-+
T Consensus 26 ~iy~~D~~~~PYG~ks~~~i~~~~~~~~~~L-~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~i 91 (251)
T TIGR00067 26 YIYVGDTKRFPYGEKSPEFILEYVLELLTFL-KERHNIKLLVVACNTASALALEDLQRNFDFPVVGV 91 (251)
T ss_pred EEEEecCCCCCCCCCCHHHHHHHHHHHHHHH-HHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEee
Confidence 4899998888889888899999999999999 8 999999999888765 3777877777765553
No 58
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=29.00 E-value=1.5e+02 Score=34.21 Aligned_cols=41 Identities=10% Similarity=0.315 Sum_probs=37.1
Q ss_pred HHHHhhcCCcEEEEeCChhchHHHHHHHhCCCEEEEcCCcCh
Q 011155 91 RNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (492)
Q Consensus 91 ~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~p~~ 132 (492)
..| ++.|++++++.|+....-...+++.|++.||++-.|..
T Consensus 733 ~~L-k~~Gi~v~mLTGDn~~aA~svA~~VGi~~V~aev~P~~ 773 (951)
T KOG0207|consen 733 AEL-KSMGIKVVMLTGDNDAAARSVAQQVGIDNVYAEVLPEQ 773 (951)
T ss_pred HHH-HhcCceEEEEcCCCHHHHHHHHHhhCcceEEeccCchh
Confidence 345 88899999999999999999999999999999988876
No 59
>TIGR01525 ATPase-IB_hvy heavy metal translocating P-type ATPase. This alignment encompasses two equivalog models for the copper and cadmium-type heavy metal transporting P-type ATPases (TIGR01511 and TIGR01512) as well as those species which score ambiguously between both models. For more comments and references, see the files on TIGR01511 and 01512.
Probab=27.59 E-value=2.2e+02 Score=31.13 Aligned_cols=49 Identities=10% Similarity=0.165 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHhhcC-CcEEEEeCChhchHHHHHHHhCCCEEEEcCCcC
Q 011155 82 MLRGLRLLQRNIEETFQ-ILFFLFQGEAEDNIPNFVRECGASLLVTDFSPL 131 (492)
Q Consensus 82 l~esL~~L~~~L~~~lG-~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~p~ 131 (492)
+.....++=+.| ++.| +++.+..|++......++++.|++.++....|.
T Consensus 385 ~~~g~~e~l~~L-~~~g~i~v~ivTgd~~~~a~~i~~~lgi~~~f~~~~p~ 434 (556)
T TIGR01525 385 LRPEAKEAIAAL-KRAGGIKLVMLTGDNRSAAEAVAAELGIDEVHAELLPE 434 (556)
T ss_pred chHhHHHHHHHH-HHcCCCeEEEEeCCCHHHHHHHHHHhCCCeeeccCCHH
Confidence 556777777778 8899 999999999999999999999999998876553
No 60
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=27.43 E-value=1.7e+02 Score=31.86 Aligned_cols=50 Identities=12% Similarity=0.157 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHhhcCC-cEEEEeCChhchHHHHHHHhCCCEEEEcCCcCh
Q 011155 82 MLRGLRLLQRNIEETFQI-LFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (492)
Q Consensus 82 l~esL~~L~~~L~~~lG~-~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~p~~ 132 (492)
+.+...++=++| ++.|+ ++.+..|++......++++.|++.++.+..|..
T Consensus 363 l~~~~~e~i~~L-~~~Gi~~v~vvTgd~~~~a~~i~~~lgi~~~f~~~~p~~ 413 (536)
T TIGR01512 363 PRPDAAEAIAEL-KALGIEKVVMLTGDRRAVAERVARELGIDEVHAELLPED 413 (536)
T ss_pred chHHHHHHHHHH-HHcCCCcEEEEcCCCHHHHHHHHHHcCChhhhhccCcHH
Confidence 556777777788 89999 999999999999999999999999887766643
No 61
>COG0191 Fba Fructose/tagatose bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=27.28 E-value=6.4e+02 Score=25.21 Aligned_cols=69 Identities=14% Similarity=0.215 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHhhcCCcEEEEe--CChhchHHHHHHHhCCCEEEEcC--CcChHHHHHHHHHHHHh-cCCCeEEE
Q 011155 84 RGLRLLQRNIEETFQILFFLFQ--GEAEDNIPNFVRECGASLLVTDF--SPLREIRRCKDKICNRV-SDSVTIHE 153 (492)
Q Consensus 84 esL~~L~~~L~~~lG~~L~v~~--G~~~~~l~~l~~~~~~~~V~~~~--~p~~~~~~~d~~v~~~l-~~~v~~~~ 153 (492)
+++..+-..+-++.++|+.+.. |...+.+.+ +-+.|.+.|-+|- .|+++-....+.+.+.| ..||.++-
T Consensus 61 ~~~~~~v~~~a~~~~vPV~lHlDHg~~~~~~~~-ai~~GFsSvMiDgS~~~~eENi~~tkevv~~ah~~gvsVEa 134 (286)
T COG0191 61 DSLAHMVKALAEKYGVPVALHLDHGASFEDCKQ-AIRAGFSSVMIDGSHLPFEENIAITKEVVEFAHAYGVSVEA 134 (286)
T ss_pred HHHHHHHHHHHHHCCCCEEEECCCCCCHHHHHH-HHhcCCceEEecCCcCCHHHHHHHHHHHHHHHHHcCCcEEE
Confidence 6666666666345689988874 644443333 2256999999974 35555455677787877 47876654
No 62
>TIGR01491 HAD-SF-IB-PSPlk HAD-superfamily, subfamily-IB PSPase-like hydrolase, archaeal. This hypothetical equivalog is a member of the IB subfamily (TIGR01488) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this alignment are all from archaeal species. The phylogenetically closest group of sequences to these are phosphoserine phosphatases (TIGR00338). There are no known archaeal phosphoserine phosphatases, and no archaea fall within TIGR00338. It is likely, then, that This model represents the archaeal branch of the PSPase equivalog.
Probab=27.13 E-value=90 Score=28.42 Aligned_cols=28 Identities=4% Similarity=-0.071 Sum_probs=11.4
Q ss_pred hhcCCcEEEEeCChhchHHHHHHHhCCC
Q 011155 95 ETFQILFFLFQGEAEDNIPNFVRECGAS 122 (492)
Q Consensus 95 ~~lG~~L~v~~G~~~~~l~~l~~~~~~~ 122 (492)
++.|+++.|+.+.....+..+++.+|+.
T Consensus 93 ~~~g~~~~IvS~~~~~~~~~~l~~~g~~ 120 (201)
T TIGR01491 93 KEKGLKTAIVSGGIMCLAKKVAEKLNPD 120 (201)
T ss_pred HHCCCEEEEEeCCcHHHHHHHHHHhCCC
Confidence 3344444444444333344444444433
No 63
>TIGR01488 HAD-SF-IB Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like. Subfamily IA includes the enzyme phosphoserine phosphatase (TIGR00338) as well as three hypothetical equivalogs. Many members of these hypothetical equivalogs have been annotated as PSPase-like or PSPase-family proteins. In particular, the hypothetical equivalog which appears to be most closely related to PSPase contains only Archaea (while TIGR00338 contains only eukaryotes and bacteria) of which some are annotated as PSPases. Although this is a reasonable conjecture, none of these sequences has sufficient evidence for this assignment. If such should be found, this model should be retired while the PSPase model should be broadened to include these sequences.
Probab=26.85 E-value=66 Score=28.72 Aligned_cols=40 Identities=15% Similarity=0.095 Sum_probs=20.7
Q ss_pred HHHHHHHHHHhhcCCcEEEEeCChhchHHHHHHHhCCCEEE
Q 011155 85 GLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLV 125 (492)
Q Consensus 85 sL~~L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~V~ 125 (492)
.+.++-+.+ ++.|.++.|..+.....+..+++.+++..++
T Consensus 77 g~~~~l~~l-~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~ 116 (177)
T TIGR01488 77 GARELISWL-KERGIDTVIVSGGFDFFVEPVAEKLGIDDVF 116 (177)
T ss_pred CHHHHHHHH-HHCCCEEEEECCCcHHHHHHHHHHcCCchhe
Confidence 344444445 5555555555555555555555555555443
No 64
>KOG3167 consensus Box H/ACA snoRNP component, involved in ribosomal RNA pseudouridinylation [RNA processing and modification]
Probab=26.28 E-value=87 Score=27.56 Aligned_cols=46 Identities=17% Similarity=0.337 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHhhcCCcEEEEeCC--hhch---HHHHHHHhCCCEEEEc
Q 011155 81 FMLRGLRLLQRNIEETFQILFFLFQGE--AEDN---IPNFVRECGASLLVTD 127 (492)
Q Consensus 81 Fl~esL~~L~~~L~~~lG~~L~v~~G~--~~~~---l~~l~~~~~~~~V~~~ 127 (492)
=|..++.+.++.+ ++=--.|.|+.|+ |.++ |+.||++.++..||+-
T Consensus 59 ~lrrGvKevqK~v-rkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~vPYvy~p 109 (153)
T KOG3167|consen 59 GLRRGVKEVQKRV-RKGEKGLCVLAGDTSPIDVITHLPALCEDRGVPYVYTP 109 (153)
T ss_pred hHHHHHHHHHHHH-hcCCcceEEEecCCccHHHHhccchhhhccCCCccccc
Confidence 3899999999999 7655568888886 5555 5789999999888763
No 65
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=26.19 E-value=1.7e+02 Score=25.78 Aligned_cols=44 Identities=18% Similarity=0.305 Sum_probs=26.0
Q ss_pred hchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHh-cCCCeEEEE
Q 011155 109 EDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEV 154 (492)
Q Consensus 109 ~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l-~~~v~~~~~ 154 (492)
.+.+.+++++++++.|+......+ ....+++.+.| +.+|+++.+
T Consensus 130 ~~~l~~~~~~~~id~v~ial~~~~--~~~i~~ii~~~~~~~v~v~~v 174 (175)
T PF13727_consen 130 LDDLPELVREHDIDEVIIALPWSE--EEQIKRIIEELENHGVRVRVV 174 (175)
T ss_dssp GGGHHHHHHHHT--EEEE--TTS---HHHHHHHHHHHHTTT-EEEE-
T ss_pred HHHHHHHHHhCCCCEEEEEcCccC--HHHHHHHHHHHHhCCCEEEEe
Confidence 356888899999999998753333 23356666667 478888754
No 66
>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=25.94 E-value=41 Score=30.36 Aligned_cols=107 Identities=12% Similarity=0.077 Sum_probs=58.7
Q ss_pred HHHHHHhhhCCCCEEEEEEecCCcc-ccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEe--------CChhchHHHHHH-
Q 011155 48 IHAVDQANKNNVPVAVAFNLFDQFL-GAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--------GEAEDNIPNFVR- 117 (492)
Q Consensus 48 ~~A~~~a~~~~~~v~~vfi~dp~~~-~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~--------G~~~~~l~~l~~- 117 (492)
..|++.|.+.+.+ ..|+.|+|.-. -..+....+.+-++.+=.+.| +++|+..++.. -++++-+..++.
T Consensus 26 ~~~~~~a~~~~~~-~~v~tF~~~P~~~~~~~~~~~~l~s~~ek~~~l-~~~Gvd~~~~~~F~~~~~~ls~~~Fi~~iL~~ 103 (157)
T PF06574_consen 26 KKAVEIAKEKGLK-SVVLTFDPHPKEVLNPDKPPKLLTSLEEKLELL-ESLGVDYVIVIPFTEEFANLSPEDFIEKILKE 103 (157)
T ss_dssp HHHHHHHHHCT-E-EEEEEESS-CHHHHSCTCCGGBSS-HHHHHHHH-HHTTESEEEEE-CCCHHCCS-HHHHHHHHCCC
T ss_pred HHHhhhhhhcccc-eEEEEcccCHHHHhcCCCcccCCCCHHHHHHHH-HHcCCCEEEEecchHHHHcCCHHHHHHHHHHh
Confidence 4566666666543 34777776411 011122233467777778888 99999876653 235566777554
Q ss_pred HhCCCEEEEcCCc-ChHHHH-HHHHHHHHhc-CCCeEEEEeC
Q 011155 118 ECGASLLVTDFSP-LREIRR-CKDKICNRVS-DSVTIHEVDA 156 (492)
Q Consensus 118 ~~~~~~V~~~~~p-~~~~~~-~d~~v~~~l~-~~v~~~~~~~ 156 (492)
..++..|++-++. +...+. =.+.+++.+. .|+.+..++.
T Consensus 104 ~l~~~~ivvG~DfrFG~~~~G~~~~L~~~~~~~g~~v~~v~~ 145 (157)
T PF06574_consen 104 KLNVKHIVVGEDFRFGKNRSGDVELLKELGKEYGFEVEVVPP 145 (157)
T ss_dssp HCTEEEEEEETT-EESGGGEEEHHHHHHCTTTT-SEEEEE--
T ss_pred cCCccEEEEccCccCCCCCCCCHHHHHHhcccCceEEEEECC
Confidence 8899999993221 111011 1345666664 6888888753
No 67
>cd06811 PLPDE_III_yhfX_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX. This subfamily is composed of the uncharacterized protein yhfX from Escherichia coli K-12 and similar bacterial proteins. These proteins are homologous to bacterial alanine racemases (AR), which are fold type III PLP-dependent enzymes containing an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. It catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. Members of this subfamily may act as PLP-dependent enzymes.
Probab=25.43 E-value=3.5e+02 Score=28.06 Aligned_cols=75 Identities=19% Similarity=0.177 Sum_probs=47.8
Q ss_pred ccCCHHHHHHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEe-CC--hhchHHHHHH
Q 011155 41 VRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ-GE--AEDNIPNFVR 117 (492)
Q Consensus 41 l~DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~-G~--~~~~l~~l~~ 117 (492)
.+-||+|+.|+-.-.++|.=.-.+|++| ..-+.+.++.|++.+ .+.|+.|.... .+ ..+ +.+++.
T Consensus 7 ~~~n~~~~~~a~~~~~~g~~~~~~yvID----------l~~I~~N~~~l~~~~-~~~~~~l~~vvKAna~~~~-ia~~l~ 74 (382)
T cd06811 7 LKRNPALIEAALTLHQSGAIPPDTYVID----------LDQIEENARLLAETA-EKYGIELYFMTKQFGRNPF-LARALL 74 (382)
T ss_pred hhhCHHHHHHHHHHHHcCCCCCCEEEec----------HHHHHHHHHHHHHHH-hhCCCEEEEEEccCCCCHH-HHHHHH
Confidence 4569999988654334453233577777 345677888888888 87788776653 33 333 444556
Q ss_pred HhCCCEEEEc
Q 011155 118 ECGASLLVTD 127 (492)
Q Consensus 118 ~~~~~~V~~~ 127 (492)
+.|++.+.+.
T Consensus 75 ~~G~~g~~va 84 (382)
T cd06811 75 EAGIPGAVAV 84 (382)
T ss_pred HcCCCeEeEe
Confidence 6788765553
No 68
>PRK07084 fructose-bisphosphate aldolase; Provisional
Probab=25.24 E-value=5e+02 Score=26.45 Aligned_cols=99 Identities=19% Similarity=0.229 Sum_probs=51.8
Q ss_pred HHHHhhhCCCCEEEEEEecCCccc-cchhHHHHHHHHHHHHHHHHHhhcCCcEEEE--eCChhchHHHHHHHhCCCEEEE
Q 011155 50 AVDQANKNNVPVAVAFNLFDQFLG-AKARQLGFMLRGLRLLQRNIEETFQILFFLF--QGEAEDNIPNFVRECGASLLVT 126 (492)
Q Consensus 50 A~~~a~~~~~~v~~vfi~dp~~~~-~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~--~G~~~~~l~~l~~~~~~~~V~~ 126 (492)
.++.|++.+.|||. -+. +.... .+..-...+...+..+.++. . ..+|+.+. +|...+.+.+-+ +.|++.|-+
T Consensus 40 vi~AAee~~sPvIl-q~s-~~~~~~~g~~~~~~~~~~~~~~a~~a-~-~~VPV~lHLDHg~~~e~i~~ai-~~GftSVMi 114 (321)
T PRK07084 40 IIQACVETKSPVIL-QVS-KGARKYANATLLRYMAQGAVEYAKEL-G-CPIPIVLHLDHGDSFELCKDCI-DSGFSSVMI 114 (321)
T ss_pred HHHHHHHhCCCEEE-Eec-hhHHhhCCchHHHHHHHHHHHHHHHc-C-CCCcEEEECCCCCCHHHHHHHH-HcCCCEEEe
Confidence 34555556677653 222 22111 22222334444444444432 1 14565554 455444444322 459999999
Q ss_pred cCC--cChHHHHHHHHHHHHh-cCCCeEEE
Q 011155 127 DFS--PLREIRRCKDKICNRV-SDSVTIHE 153 (492)
Q Consensus 127 ~~~--p~~~~~~~d~~v~~~l-~~~v~~~~ 153 (492)
|-+ |+++-....+.|.+.+ ..||.++-
T Consensus 115 D~S~lp~eeNI~~T~evv~~Ah~~GvsVEa 144 (321)
T PRK07084 115 DGSHLPYEENVALTKKVVEYAHQFDVTVEG 144 (321)
T ss_pred eCCCCCHHHHHHHHHHHHHHHHHcCCeEEE
Confidence 754 5554455677788877 47887663
No 69
>COG0113 HemB Delta-aminolevulinic acid dehydratase [Coenzyme metabolism]
Probab=24.70 E-value=3.9e+02 Score=26.96 Aligned_cols=105 Identities=16% Similarity=0.160 Sum_probs=63.6
Q ss_pred EEEeCCCCccCCHHHHHHHHH-hhhCCCCEEEEEEecCCc----cccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCC
Q 011155 33 YWMFRDQRVRDNWALIHAVDQ-ANKNNVPVAVAFNLFDQF----LGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE 107 (492)
Q Consensus 33 ~WfRrDLRl~DN~aL~~A~~~-a~~~~~~v~~vfi~dp~~----~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~ 107 (492)
+-++|=-|+.-|+.+-.-++. ....+.=|+|+||.+-.- ...=+-..++=++.|.+-.+++ .++|++-+++.|-
T Consensus 5 ~~~~R~RRlRk~~~~R~lv~Et~L~~~dLI~PiFV~eg~~~~~~I~SMPgv~r~s~d~l~~~~~~~-~~lGi~av~LFgv 83 (330)
T COG0113 5 FPFRRPRRLRKSPALRRLVRETRLTPNDLIYPIFVVEGENIKEEIPSMPGVYRYSLDRLVEEAEEL-VDLGIPAVILFGV 83 (330)
T ss_pred chhhhhhhccCCHHHHHHHHhcCCCHHHeeEeEEEecCCCCccccCCCCCceeccHHHHHHHHHHH-HhcCCCEEEEeCC
Confidence 345666778888877766642 111122388999998531 1111333444577888888888 9999999999998
Q ss_pred hhchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHh
Q 011155 108 AEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV 145 (492)
Q Consensus 108 ~~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l 145 (492)
+.+..+..+ |-. .+.|.....+-.+.|++..
T Consensus 84 p~~~~Kd~~---gs~----A~~~~givqravr~ik~~~ 114 (330)
T COG0113 84 PDDSKKDET---GSE----AYDPDGIVQRAVRAIKEAF 114 (330)
T ss_pred CcccccCcc---ccc----ccCCCChHHHHHHHHHHhC
Confidence 765444322 111 2345454444556777665
No 70
>TIGR00542 hxl6Piso_put hexulose-6-phosphate isomerase, putative. This family is conserved at better than 40 % identity among the four known examples from three species: Escherichia coli (SgbU and SgaU), Haemophilus influenzae, and Mycoplasma pneumoniae. The rarity of the family, high level of conservation, and proposed catabolic role suggests lateral transfer may be a part of the evolutionary history of this protein.
Probab=24.33 E-value=5e+02 Score=25.25 Aligned_cols=79 Identities=6% Similarity=-0.072 Sum_probs=48.3
Q ss_pred HHHHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeC--C---hhchHHHHHHHhCC
Q 011155 47 LIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG--E---AEDNIPNFVRECGA 121 (492)
Q Consensus 47 L~~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G--~---~~~~l~~l~~~~~~ 121 (492)
+..+++.|..-|.+++.+.-.+...-......+..+.++|+.+.+-. ++.|+.|.+..- . ..+...++++..+-
T Consensus 96 ~~~~i~~a~~lG~~~v~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~A-~~~Gv~l~lE~~~~~~~~t~~~~~~li~~v~~ 174 (279)
T TIGR00542 96 MEKAIQLARDLGIRTIQLAGYDVYYEEHDEETRRRFREGLKEAVELA-ARAQVTLAVEIMDTPFMSSISKWLKWDHYLNS 174 (279)
T ss_pred HHHHHHHHHHhCCCEEEecCcccccCcCCHHHHHHHHHHHHHHHHHH-HHcCCEEEEeeCCCchhcCHHHHHHHHHHcCC
Confidence 44556667777888765432211111123455777889999999999 999999988741 1 22233456666655
Q ss_pred CEEEE
Q 011155 122 SLLVT 126 (492)
Q Consensus 122 ~~V~~ 126 (492)
..|-+
T Consensus 175 ~~v~~ 179 (279)
T TIGR00542 175 PWFTL 179 (279)
T ss_pred CceEE
Confidence 55544
No 71
>cd06277 PBP1_LacI_like_1 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=24.22 E-value=4.2e+02 Score=24.97 Aligned_cols=69 Identities=14% Similarity=0.132 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHhhcCCcEEEEeCChhc-h---HHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhcCCCeEEEEeC
Q 011155 81 FMLRGLRLLQRNIEETFQILFFLFQGEAED-N---IPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDA 156 (492)
Q Consensus 81 Fl~esL~~L~~~L~~~lG~~L~v~~G~~~~-~---l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~~~v~~~~~~~ 156 (492)
|..+-+..+++.+ +++|..+.+...+..+ . +.+.+.+.+++.|++...... ..+..+.+.|+++..++.
T Consensus 16 ~~~~~~~~i~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~------~~~~~l~~~~ipvV~~~~ 88 (268)
T cd06277 16 FYSEIYRAIEEEA-KKYGYNLILKFVSDEDEEEFELPSFLEDGKVDGIILLGGIST------EYIKEIKELGIPFVLVDH 88 (268)
T ss_pred cHHHHHHHHHHHH-HHcCCEEEEEeCCCChHHHHHHHHHHHHCCCCEEEEeCCCCh------HHHHHHhhcCCCEEEEcc
Confidence 6667777788889 9999998887644222 1 222234568999988432111 123333356899888864
No 72
>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=24.19 E-value=3e+02 Score=25.91 Aligned_cols=71 Identities=11% Similarity=0.097 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHHhhcCCcEEEEeCCh-h---chHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhcCCCeEEEEe
Q 011155 80 GFMLRGLRLLQRNIEETFQILFFLFQGEA-E---DNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVD 155 (492)
Q Consensus 80 ~Fl~esL~~L~~~L~~~lG~~L~v~~G~~-~---~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~~~v~~~~~~ 155 (492)
.|..+-+..+++.+ ++.|..+.+..++. . +.+..++...+++.|+..-.... +..+..+.+.||++..++
T Consensus 17 ~~~~~~~~~~~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-----~~~~~~~~~~~ipvV~~~ 90 (270)
T cd06294 17 PFFIEVLRGISAVA-NENGYDISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED-----DPIIDYLKEEKFPFVVIG 90 (270)
T ss_pred CCHHHHHHHHHHHH-HHCCCEEEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC-----cHHHHHHHhcCCCEEEEC
Confidence 46666777788888 88898888765432 2 23444455567888877421111 112222224688888886
Q ss_pred C
Q 011155 156 A 156 (492)
Q Consensus 156 ~ 156 (492)
.
T Consensus 91 ~ 91 (270)
T cd06294 91 K 91 (270)
T ss_pred C
Confidence 4
No 73
>cd02970 PRX_like2 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these proteins do not contain the other two residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. TRXs alter the redox state of target proteins by catalyzing the reduction of their disulfide bonds via the CXXC motif using reducing equivalents derived from either NADPH or ferredoxins.
Probab=24.13 E-value=4.1e+02 Score=22.54 Aligned_cols=60 Identities=18% Similarity=0.213 Sum_probs=39.8
Q ss_pred CCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCChhchHHHHHHHhCCCE
Q 011155 58 NVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASL 123 (492)
Q Consensus 58 ~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~ 123 (492)
+.+++.+|+... .|..- ..- +..|..+.+++ ++.|+.++.+..+..+...+++++++..-
T Consensus 23 ~~~~vl~f~~~~---~Cp~C-~~~-~~~l~~~~~~~-~~~~v~vv~V~~~~~~~~~~~~~~~~~~~ 82 (149)
T cd02970 23 EGPVVVVFYRGF---GCPFC-REY-LRALSKLLPEL-DALGVELVAVGPESPEKLEAFDKGKFLPF 82 (149)
T ss_pred CCCEEEEEECCC---CChhH-HHH-HHHHHHHHHHH-HhcCeEEEEEeCCCHHHHHHHHHhcCCCC
Confidence 456766666433 23222 222 47789999999 88999988887666666667777777653
No 74
>COG0196 RibF FAD synthase [Coenzyme metabolism]
Probab=23.65 E-value=3e+02 Score=27.81 Aligned_cols=108 Identities=19% Similarity=0.160 Sum_probs=62.3
Q ss_pred HHHHHHHHHhhhCCCCEEEEEEecCCccc-cchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeC--------ChhchHHHH
Q 011155 45 WALIHAVDQANKNNVPVAVAFNLFDQFLG-AKARQLGFMLRGLRLLQRNIEETFQILFFLFQG--------EAEDNIPNF 115 (492)
Q Consensus 45 ~aL~~A~~~a~~~~~~v~~vfi~dp~~~~-~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G--------~~~~~l~~l 115 (492)
..|..|.+.|.+.+.++ .|+.|+|.-.. ..+.+.-..+-.+++=-+.| +.+|+..++..- .+.+-+..+
T Consensus 33 ~ll~~a~~~a~~~~~~~-~VitF~p~P~~~~~~~~~~~~Lt~~~~k~~~l-~~~gvd~~~v~~F~~~fa~ls~~~Fv~~l 110 (304)
T COG0196 33 KLLAQALEAAEKRGLPV-VVITFEPHPRELLKPDKPPTRLTPLREKIRLL-AGYGVDALVVLDFDLEFANLSAEEFVELL 110 (304)
T ss_pred HHHHHHHHHHHHhCCce-EEEEecCCCHHHcCCCCCccccCCHHHHHHHH-HhcCCcEEEEEeCCHhHhhCCHHHHHHHH
Confidence 34566777777777766 47777764211 11111233444556666668 899987777642 344556667
Q ss_pred HHHhCCCEEEE--cCCcChHHHHH-HHHHHHHhcCCCeEEEEe
Q 011155 116 VRECGASLLVT--DFSPLREIRRC-KDKICNRVSDSVTIHEVD 155 (492)
Q Consensus 116 ~~~~~~~~V~~--~~~p~~~~~~~-d~~v~~~l~~~v~~~~~~ 155 (492)
++..+++.|++ |..-.. .+.= .+.++..++.|+.+..+.
T Consensus 111 v~~l~~k~ivvG~DF~FGk-~~~g~~~~L~~~~~~gf~v~~v~ 152 (304)
T COG0196 111 VEKLNVKHIVVGFDFRFGK-GRQGNAELLRELGQKGFEVTIVP 152 (304)
T ss_pred HhccCCcEEEEecccccCC-CCCCCHHHHHHhccCCceEEEec
Confidence 88899998888 432111 1111 234445453378777764
No 75
>PF10111 Glyco_tranf_2_2: Glycosyltransferase like family 2; InterPro: IPR019290 This conserved domain is found in a set of prokaryotic proteins including putative glucosyltransferases, which are involved in bacterial capsule biosynthesis [, ].
Probab=23.57 E-value=4.9e+02 Score=25.46 Aligned_cols=78 Identities=8% Similarity=0.020 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHhhcCCcEEEEeCChh----chHHHHHHHhCCCEEEEcC---CcChHHHHHHHHHHHHhcCCCeEEEEeC
Q 011155 84 RGLRLLQRNIEETFQILFFLFQGEAE----DNIPNFVRECGASLLVTDF---SPLREIRRCKDKICNRVSDSVTIHEVDA 156 (492)
Q Consensus 84 esL~~L~~~L~~~lG~~L~v~~G~~~----~~l~~l~~~~~~~~V~~~~---~p~~~~~~~d~~v~~~l~~~v~~~~~~~ 156 (492)
.+|..|++.. ..-.+.++|..+... +.|.+++++.++..++... .+....+.|-..++.+ .+=-+...|.
T Consensus 21 ~~l~~l~~~~-~~~~~eiIvvd~~s~~~~~~~l~~~~~~~~~~~~i~~~~~~~~f~~a~arN~g~~~A--~~d~l~flD~ 97 (281)
T PF10111_consen 21 NCLESLSQFQ-SDPDFEIIVVDDGSSDEFDEELKKLCEKNGFIRYIRHEDNGEPFSRAKARNIGAKYA--RGDYLIFLDA 97 (281)
T ss_pred HHHHHHHhcC-CCCCEEEEEEECCCchhHHHHHHHHHhccCceEEEEcCCCCCCcCHHHHHHHHHHHc--CCCEEEEEcC
Confidence 3444444433 345778888876543 4577888877777444432 2345444443444332 2333455567
Q ss_pred ceeEeCcc
Q 011155 157 HNVVPVWV 164 (492)
Q Consensus 157 ~~l~~~~~ 164 (492)
.++++++.
T Consensus 98 D~i~~~~~ 105 (281)
T PF10111_consen 98 DCIPSPDF 105 (281)
T ss_pred CeeeCHHH
Confidence 78887764
No 76
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=22.83 E-value=1.5e+02 Score=24.70 Aligned_cols=40 Identities=20% Similarity=0.241 Sum_probs=29.3
Q ss_pred HHHHHHHHHhhcCCcEEEEe-CChhchHHHHHHH--hCCCEEEEcC
Q 011155 86 LRLLQRNIEETFQILFFLFQ-GEAEDNIPNFVRE--CGASLLVTDF 128 (492)
Q Consensus 86 L~~L~~~L~~~lG~~L~v~~-G~~~~~l~~l~~~--~~~~~V~~~~ 128 (492)
|.....+| ++.|+.|+++- |+++. +.++++. +... ||+|.
T Consensus 2 L~~~~~~l-~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~-ly~D~ 44 (115)
T PF13911_consen 2 LSRRKPEL-EAAGVKLVVIGCGSPEG-IEKFCELTGFPFP-LYVDP 44 (115)
T ss_pred hhHhHHHH-HHcCCeEEEEEcCCHHH-HHHHHhccCCCCc-EEEeC
Confidence 66778889 99999998875 45444 8888854 4555 77774
No 77
>PRK10671 copA copper exporting ATPase; Provisional
Probab=22.21 E-value=3.1e+02 Score=31.79 Aligned_cols=43 Identities=9% Similarity=0.216 Sum_probs=36.7
Q ss_pred HHHHHHhhcCCcEEEEeCChhchHHHHHHHhCCCEEEEcCCcCh
Q 011155 89 LQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (492)
Q Consensus 89 L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~p~~ 132 (492)
.=+.| ++.|+.+.+..|+.......++++.|++.++.+..|..
T Consensus 658 ~i~~L-~~~gi~v~~~Tgd~~~~a~~ia~~lgi~~~~~~~~p~~ 700 (834)
T PRK10671 658 ALQRL-HKAGYRLVMLTGDNPTTANAIAKEAGIDEVIAGVLPDG 700 (834)
T ss_pred HHHHH-HHCCCeEEEEcCCCHHHHHHHHHHcCCCEEEeCCCHHH
Confidence 33667 88899999999999999999999999999998766643
No 78
>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=21.61 E-value=5.1e+02 Score=24.61 Aligned_cols=71 Identities=15% Similarity=0.020 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHhhcCCcEEEEeCChh----chHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhcCCCeEEEEe
Q 011155 80 GFMLRGLRLLQRNIEETFQILFFLFQGEAE----DNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVD 155 (492)
Q Consensus 80 ~Fl~esL~~L~~~L~~~lG~~L~v~~G~~~----~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~~~v~~~~~~ 155 (492)
.|..+-+..+.+.+ +++|..+++...+.. +.+..++...+++.|++.-.... +..+..+.+.|+++..++
T Consensus 12 ~~~~~~~~~i~~~~-~~~gy~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~-----~~~~~~l~~~~iPvv~~~ 85 (269)
T cd06297 12 EFYRRLLEGIEGAL-LEQRYDLALFPLLSLARLKRYLESTTLAYLTDGLLLASYDLT-----ERLAERRLPTERPVVLVD 85 (269)
T ss_pred hhHHHHHHHHHHHH-HHCCCEEEEEeCCCcHHHHHHHHHHHHhcCCCEEEEecCccC-----hHHHHHHhhcCCCEEEEc
Confidence 46677788888889 999999988765422 23334445678998888522111 122223224689998887
Q ss_pred C
Q 011155 156 A 156 (492)
Q Consensus 156 ~ 156 (492)
.
T Consensus 86 ~ 86 (269)
T cd06297 86 A 86 (269)
T ss_pred c
Confidence 4
No 79
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=21.60 E-value=2.4e+02 Score=27.08 Aligned_cols=48 Identities=15% Similarity=0.308 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHhhcCC-cEEEEeCChhchHHHHHHHhCCCEEEEcC-CcCh
Q 011155 84 RGLRLLQRNIEETFQI-LFFLFQGEAEDNIPNFVRECGASLLVTDF-SPLR 132 (492)
Q Consensus 84 esL~~L~~~L~~~lG~-~L~v~~G~~~~~l~~l~~~~~~~~V~~~~-~p~~ 132 (492)
.++..+-+.. .+.|+ .|.+..++..++|..+...-.++.|+.++ +|..
T Consensus 83 ~~v~~~l~k~-~~~~l~Nlri~~~DA~~~l~~~~~~~sl~~I~i~FPDPWp 132 (227)
T COG0220 83 PGVAKALKKI-KELGLKNLRLLCGDAVEVLDYLIPDGSLDKIYINFPDPWP 132 (227)
T ss_pred HHHHHHHHHH-HHcCCCcEEEEcCCHHHHHHhcCCCCCeeEEEEECCCCCC
Confidence 4566666777 88899 99999999999999998887899999975 3544
No 80
>PRK09997 hydroxypyruvate isomerase; Provisional
Probab=21.16 E-value=5.9e+02 Score=24.40 Aligned_cols=78 Identities=10% Similarity=0.038 Sum_probs=48.7
Q ss_pred HHHHHHHhhhCCCCEEEEEEec-CCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeC----------ChhchHHHH
Q 011155 47 LIHAVDQANKNNVPVAVAFNLF-DQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG----------EAEDNIPNF 115 (492)
Q Consensus 47 L~~A~~~a~~~~~~v~~vfi~d-p~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G----------~~~~~l~~l 115 (492)
+..+++.|..-|.+.+-++.-. +.-. .....+..+.++|..+.+.. ++.|+.|.+..- +..+...++
T Consensus 87 ~~~~i~~a~~lga~~i~~~~g~~~~~~-~~~~~~~~~~~~l~~l~~~a-~~~Gv~l~lE~~n~~~~~~~~~~~~~~~~~l 164 (258)
T PRK09997 87 VAAAIRYARALGNKKINCLVGKTPAGF-SSEQIHATLVENLRYAANML-MKEDILLLIEPINHFDIPGFHLTGTRQALKL 164 (258)
T ss_pred HHHHHHHHHHhCCCEEEECCCCCCCCC-CHHHHHHHHHHHHHHHHHHH-HHcCCEEEEEeCCCcCCCCCccCCHHHHHHH
Confidence 4556667777888876554321 1111 11233567789999999999 999999988741 123345567
Q ss_pred HHHhCCCEEEE
Q 011155 116 VRECGASLLVT 126 (492)
Q Consensus 116 ~~~~~~~~V~~ 126 (492)
+++.+-..|-+
T Consensus 165 l~~v~~~~v~l 175 (258)
T PRK09997 165 IDDVGCCNLKI 175 (258)
T ss_pred HHHhCCCCEEE
Confidence 77766555544
No 81
>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=20.97 E-value=5.7e+02 Score=24.19 Aligned_cols=70 Identities=9% Similarity=-0.055 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHhhcCCcEEEEeCCh--hchHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhcCCCeEEEEeC
Q 011155 81 FMLRGLRLLQRNIEETFQILFFLFQGEA--EDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDA 156 (492)
Q Consensus 81 Fl~esL~~L~~~L~~~lG~~L~v~~G~~--~~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~~~v~~~~~~~ 156 (492)
|..+-++.+.+.+ ++.|..+.+...+. .+.+.+.+...+++.|++.-.... +..+.++.+.||++..++.
T Consensus 24 ~~~~~~~gi~~~~-~~~g~~~~v~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~-----~~~~~~~~~~~ipvV~~~~ 95 (275)
T cd06295 24 FFLSLLGGIADAL-AERGYDLLLSFVSSPDRDWLARYLASGRADGVILIGQHDQ-----DPLPERLAETGLPFVVWGR 95 (275)
T ss_pred hHHHHHHHHHHHH-HHcCCEEEEEeCCchhHHHHHHHHHhCCCCEEEEeCCCCC-----hHHHHHHHhCCCCEEEECC
Confidence 5556666667888 88898888775432 233444455678888876321111 1224333356899888764
No 82
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=20.78 E-value=1.1e+02 Score=29.14 Aligned_cols=41 Identities=10% Similarity=0.107 Sum_probs=32.8
Q ss_pred HHHHHHHHHhhcCCcEEEEeCChhchHHHHHHHhCCCEEEEc
Q 011155 86 LRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTD 127 (492)
Q Consensus 86 L~~L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~~~V~~~ 127 (492)
..+|-+.+ ++.|....++.|.+......+++..|++.++.+
T Consensus 82 a~elv~~l-k~~G~~v~iiSgg~~~lv~~ia~~lg~d~~~an 122 (212)
T COG0560 82 AEELVAAL-KAAGAKVVIISGGFTFLVEPIAERLGIDYVVAN 122 (212)
T ss_pred HHHHHHHH-HHCCCEEEEEcCChHHHHHHHHHHhCCchheee
Confidence 67777888 888888888888888788888888888877664
No 83
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=20.72 E-value=6.3e+02 Score=22.77 Aligned_cols=75 Identities=16% Similarity=0.159 Sum_probs=41.3
Q ss_pred CCHHHHHHHHHh-hhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCChh------------
Q 011155 43 DNWALIHAVDQA-NKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAE------------ 109 (492)
Q Consensus 43 DN~aL~~A~~~a-~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~~~------------ 109 (492)
|...|.+.+... ...+.++.+|++ |..+.. .--+.+..+++-. +++|+++.+..-+..
T Consensus 11 DS~~ll~ll~~~~~~~~~~v~~v~v-d~g~~~-------~~~~~~~~~~~~~-~~~gi~~~~~~~~~~~~~~~~~~~~~~ 81 (189)
T TIGR02432 11 DSMALLHLLLKLQPKLKIRLIAAHV-DHGLRP-------ESDEEAEFVQQFC-KKLNIPLEIKKVDVKALAKGKKKNLEE 81 (189)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEEEe-CCCCCh-------hHHHHHHHHHHHH-HHcCCCEEEEEecchhhccccCCCHHH
Confidence 555555544322 223456777776 332211 1123456666667 778999988764321
Q ss_pred -------chHHHHHHHhCCCEEEE
Q 011155 110 -------DNIPNFVRECGASLLVT 126 (492)
Q Consensus 110 -------~~l~~l~~~~~~~~V~~ 126 (492)
..|.++++++|++.|.+
T Consensus 82 ~~r~~R~~~l~~~a~~~g~~~i~~ 105 (189)
T TIGR02432 82 AAREARYDFFEEIAKKHGADYILT 105 (189)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEE
Confidence 23445566667776666
No 84
>PF13778 DUF4174: Domain of unknown function (DUF4174)
Probab=20.48 E-value=2.7e+02 Score=23.64 Aligned_cols=44 Identities=11% Similarity=0.159 Sum_probs=33.4
Q ss_pred EEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCChhch
Q 011155 64 AFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDN 111 (492)
Q Consensus 64 vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~~~~~ 111 (492)
|.|+.| ...+.++...++.|.+-+..| .++.+-+++..|.....
T Consensus 13 lvv~ap---s~~d~~~~~q~~~L~~~~~~l-~eRdi~v~~i~~~~~~~ 56 (118)
T PF13778_consen 13 LVVFAP---SADDPRYQQQLEELQNNRCGL-DERDIVVIVITGDGARS 56 (118)
T ss_pred EEEECC---CCCCHHHHHHHHHHHhhhhcc-ccCceEEEEEeCCcccc
Confidence 444445 335677889999999999999 99999998888765433
No 85
>PF01591 6PF2K: 6-phosphofructo-2-kinase; InterPro: IPR013079 6-Phosphofructo-2-kinase (2.7.1.105 from EC, 3.1.3.46 from EC) is a bifunctional enzyme that catalyses both the synthesis and the degradation of fructose-2, 6-bisphosphate. The fructose-2,6-bisphosphatase reaction involves a phosphohistidine intermediate. The catalytic pathway is: ATP + D-fructose 6-phosphate = ADP + D-fructose 2,6-bisphosphate D-fructose 2,6-bisphosphate + H2O = 6-fructose 6-phosphate + Pi The enzyme is important in the regulation of hepatic carbohydrate metabolism and is found in greatest quantities in the liver, kidney and heart. In mammals, several genes often encode different isoforms, each of which differs in its tissue distribution and enzymatic activity []. The family described here bears a resemblance to the ATP-driven phospho-fructokinases, however, they share little sequence similarity, although a few residues seem key to their interaction with fructose 6-phosphate []. This domain forms the N-terminal region of this enzyme, while IPR013078 from INTERPRO forms the C-terminal domain.; GO: 0003873 6-phosphofructo-2-kinase activity, 0005524 ATP binding, 0006000 fructose metabolic process; PDB: 2DWO_A 3QPW_A 3QPV_A 3QPU_A 2I1V_B 2DWP_A 2AXN_A 1K6M_B 3BIF_A 2BIF_A ....
Probab=20.40 E-value=4.4e+02 Score=25.26 Aligned_cols=78 Identities=12% Similarity=0.004 Sum_probs=47.0
Q ss_pred EecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCChh-----chHHHHHHHhCCCEEEEcCCcChHHHHHHHH
Q 011155 66 NLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAE-----DNIPNFVRECGASLLVTDFSPLREIRRCKDK 140 (492)
Q Consensus 66 i~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~~~-----~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~ 140 (492)
+|||.-......|..+...+|+++-.-| .+-|+.+-|+.+... ..|.+.+++.++..+|.+- .+....-....
T Consensus 64 ff~p~n~~~~~~R~~~a~~~l~dl~~~l-~~~~G~VAI~DATN~T~~RR~~l~~~~~~~~~~vlFIEs-ic~D~~ii~~N 141 (222)
T PF01591_consen 64 FFDPDNEEAKKLREQIAKEALEDLIEWL-QEEGGQVAIFDATNSTRERRKMLVERFKEHGIKVLFIES-ICDDPEIIERN 141 (222)
T ss_dssp GGSTT-HHHHHHHHHHHHHHHHHHHHHH-HTS--SEEEEES---SHHHHHHHHHHHHHTT-EEEEEEE-E---HHHHHHH
T ss_pred cCCCCChHHHHHHHHHHHHHHHHHHHHH-hcCCCeEEEEeCCCCCHHHHHHHHHHHHHcCCcEEEEEE-EeCCHHHHHHH
Confidence 3555433345678899999999999999 988999999987543 2466677888877666652 22222223455
Q ss_pred HHHHh
Q 011155 141 ICNRV 145 (492)
Q Consensus 141 v~~~l 145 (492)
|....
T Consensus 142 I~~~~ 146 (222)
T PF01591_consen 142 IREKK 146 (222)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 55543
No 86
>cd06547 GH85_ENGase Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with the protein and N-acetylglucosamine 2 forms the reducing end of the released glycan. ENGase is a key enzyme in the processing of free oligosaccharides in the cytosol of eukaryotes. Oligosaccharides formed in the lumen of the endoplasmic reticulum are transported into the cytosol where they are catabolized by cytosolic ENGases and other enzymes, possibly to maximize the reutilization of the component sugars. ENGases have an eight-stranded alpha/beta barrel topology and are classified as a family 85 glycosyl hydrolase (GH85) domain. The GH85 ENGases are sequence-similar to the family 18 glycosyl hydrolases, also known as GH18 chitinases. An ENGase-like protein is also found in bacteria and is included in this alignment mod
Probab=20.35 E-value=4.8e+02 Score=26.71 Aligned_cols=104 Identities=13% Similarity=0.081 Sum_probs=55.0
Q ss_pred EEEEeCCCCccCCHHHHHHHHHhhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhh-cCCcEEEEeCChhc
Q 011155 32 VYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEET-FQILFFLFQGEAED 110 (492)
Q Consensus 32 l~WfRrDLRl~DN~aL~~A~~~a~~~~~~v~~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~-lG~~L~v~~G~~~~ 110 (492)
++|=..-.++-.- ..+.|+ .++|.+|++.++++.. +.. . .++.=| ++ -... -..++
T Consensus 37 vywsh~~~~iPp~-~~idaA---HknGV~Vlgti~~e~~----~~~--~-------~~~~lL-~~~~~~~-----~~~a~ 93 (339)
T cd06547 37 VYFSHSAVTIPPA-DWINAA---HRNGVPVLGTFIFEWT----GQV--E-------WLEDFL-KKDEDGS-----FPVAD 93 (339)
T ss_pred ecccCccccCCCc-HHHHHH---HhcCCeEEEEEEecCC----Cch--H-------HHHHHh-ccCcccc-----hHHHH
Confidence 4444444454433 333332 3489999999998753 111 1 122222 21 1111 12345
Q ss_pred hHHHHHHHhCCCEEEEcCCcCh---HHH----HHHHHHHHHhc---CCCeEEEEeCce
Q 011155 111 NIPNFVRECGASLLVTDFSPLR---EIR----RCKDKICNRVS---DSVTIHEVDAHN 158 (492)
Q Consensus 111 ~l~~l~~~~~~~~V~~~~~p~~---~~~----~~d~~v~~~l~---~~v~~~~~~~~~ 158 (492)
.|-++++.+|.+-+.+|.|-.. ..+ ...+.+.+.+. .+..+.-+|+.+
T Consensus 94 kLv~lak~yGfDGw~iN~E~~~~~~~~~~~l~~F~~~L~~~~~~~~~~~~v~WYDs~t 151 (339)
T cd06547 94 KLVEVAKYYGFDGWLINIETELGDAEKAKRLIAFLRYLKAKLHENVPGSLVIWYDSMT 151 (339)
T ss_pred HHHHHHHHhCCCceEeeeeccCCcHHHHHHHHHHHHHHHHHHhhcCCCcEEEEEecCC
Confidence 7888999999999999754321 111 23344455442 266777776543
No 87
>TIGR01544 HAD-SF-IE haloacid dehalogenase superfamily, subfamily IE hydrolase, TIGR01544. This group of sequences was found during searches for members of the haloacid dehalogenase (HAD) superfamily. All of the conserved catalytic motifs are found. The placement of the variable domain between motifs 1 and 2 indicates membership in subfamily I of the superfamily, but these sequences are sufficiently different from any of the branches (IA, TIGR01493, TIGR01509, TIGR01549; IB, TIGR01488; IC, TIGR01494; ID, TIGR01658; IF TIGR01545) of that subfamily as to constitute a separate branch to now be called IE. Considering that the closest identifiable hit outside of the noise range is to a phosphoserine phosphatase, this group may be considered to be most closely allied to subfamily IB.
Probab=20.33 E-value=1.4e+02 Score=29.71 Aligned_cols=36 Identities=17% Similarity=0.409 Sum_probs=17.4
Q ss_pred HHHHHHHHHHhhcCCcEEEEeCChhchHHHHHHHhCC
Q 011155 85 GLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGA 121 (492)
Q Consensus 85 sL~~L~~~L~~~lG~~L~v~~G~~~~~l~~l~~~~~~ 121 (492)
+..+|=+.| ++.|+++.|+.|.....+..+++..++
T Consensus 125 G~~efl~~L-~~~GIpv~IvS~G~~~~Ie~vL~~lgl 160 (277)
T TIGR01544 125 GYENFFDKL-QQHSIPVFIFSAGIGNVLEEVLRQAGV 160 (277)
T ss_pred CHHHHHHHH-HHCCCcEEEEeCCcHHHHHHHHHHcCC
Confidence 334444455 555555555555444444444444333
No 88
>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=20.33 E-value=6.3e+02 Score=24.08 Aligned_cols=73 Identities=10% Similarity=0.135 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHHHHhhcCCcEEEEeCC--hh---chHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHhcCCCeEEEE
Q 011155 80 GFMLRGLRLLQRNIEETFQILFFLFQGE--AE---DNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEV 154 (492)
Q Consensus 80 ~Fl~esL~~L~~~L~~~lG~~L~v~~G~--~~---~~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l~~~v~~~~~ 154 (492)
-|..+-+..+.+.+ ++.|..+.+...+ +. +.+..+. ..+++.|++... .. ......+.++.+.||++..+
T Consensus 12 ~f~~~~~~gi~~~~-~~~G~~~~~~~~~~d~~~~~~~i~~~~-~~~vdgiii~~~-~~--~~~~~~i~~~~~~~iPvV~~ 86 (272)
T cd06313 12 TWCAQGKQAADEAG-KLLGVDVTWYGGALDAVKQVAAIENMA-SQGWDFIAVDPL-GI--GTLTEAVQKAIARGIPVIDM 86 (272)
T ss_pred hHHHHHHHHHHHHH-HHcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC-Ch--HHhHHHHHHHHHCCCcEEEe
Confidence 47778888899999 9999999988653 22 2344433 468999988421 11 11133444444579999998
Q ss_pred eCc
Q 011155 155 DAH 157 (492)
Q Consensus 155 ~~~ 157 (492)
+..
T Consensus 87 ~~~ 89 (272)
T cd06313 87 GTL 89 (272)
T ss_pred CCC
Confidence 753
No 89
>PRK00865 glutamate racemase; Provisional
Probab=20.23 E-value=3.6e+02 Score=26.31 Aligned_cols=62 Identities=2% Similarity=0.009 Sum_probs=50.7
Q ss_pred EEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCcEEEEeCChhc--hHHHHHHHhCCCEEE
Q 011155 63 VAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAED--NIPNFVRECGASLLV 125 (492)
Q Consensus 63 ~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~lG~~L~v~~G~~~~--~l~~l~~~~~~~~V~ 125 (492)
-+|+.|.....+|.+-...+.+-+.++-+.| .+.|...+++-.+... .+.+|.+.+++.-|-
T Consensus 33 ~iY~~D~~~~PYG~ks~~~i~~~~~~~~~~L-~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 33 IIYVGDTARFPYGEKSEEEIRERTLEIVEFL-LEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred EEEEecCCCCCCCCCCHHHHHHHHHHHHHHH-HhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 5899998877888888889999999999999 8899999999888654 567777777766554
No 90
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=20.11 E-value=5.4e+02 Score=24.09 Aligned_cols=61 Identities=18% Similarity=0.328 Sum_probs=36.9
Q ss_pred HHHHHHHhhcCCcEEEEeCChhc----------------------hHHHHHHHhCCCEEEEcCCcChHHHHHHHHHHHHh
Q 011155 88 LLQRNIEETFQILFFLFQGEAED----------------------NIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV 145 (492)
Q Consensus 88 ~L~~~L~~~lG~~L~v~~G~~~~----------------------~l~~l~~~~~~~~V~~~~~p~~~~~~~d~~v~~~l 145 (492)
.|.+.| .+.|...+++.|+..- .+.+|..+.|+-.|+.-.+|+..+|+ .+++.+
T Consensus 42 ale~~L-~~~G~~~y~LDGDnvR~gL~~dLgFs~edR~eniRRvaevAkll~daG~iviva~ISP~r~~R~---~aR~~~ 117 (197)
T COG0529 42 ALEEKL-FAKGYHVYLLDGDNVRHGLNRDLGFSREDRIENIRRVAEVAKLLADAGLIVIVAFISPYREDRQ---MARELL 117 (197)
T ss_pred HHHHHH-HHcCCeEEEecChhHhhcccCCCCCChHHHHHHHHHHHHHHHHHHHCCeEEEEEeeCccHHHHH---HHHHHh
Confidence 356667 7777777777765321 23445556677777777889886653 455555
Q ss_pred cCCCeEEE
Q 011155 146 SDSVTIHE 153 (492)
Q Consensus 146 ~~~v~~~~ 153 (492)
..| +|.+
T Consensus 118 ~~~-~FiE 124 (197)
T COG0529 118 GEG-EFIE 124 (197)
T ss_pred CcC-ceEE
Confidence 444 3443
Done!