Query 010783
Match_columns 501
No_of_seqs 142 out of 1281
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 04:30:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010783.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010783hhsearch_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 5E-104 1E-108 839.8 39.7 450 11-476 3-454 (454)
2 COG0415 PhrB Deoxyribodipyrimi 100.0 6E-102 1E-106 799.2 32.6 413 29-491 2-427 (461)
3 TIGR02766 crypt_chrom_pln cryp 100.0 1.4E-96 3E-101 786.6 32.1 412 32-490 1-436 (475)
4 TIGR03556 photolyase_8HDF deox 100.0 9.3E-95 2E-99 769.3 33.5 416 29-490 1-437 (471)
5 TIGR02765 crypto_DASH cryptoch 100.0 3.2E-94 7E-99 760.0 33.8 401 29-480 1-429 (429)
6 PRK10674 deoxyribodipyrimidine 100.0 4.5E-94 9.7E-99 764.2 35.1 411 30-490 3-433 (472)
7 PF03441 FAD_binding_7: FAD bi 100.0 5.7E-66 1.2E-70 512.8 3.2 223 232-491 1-236 (277)
8 KOG0133 Deoxyribodipyrimidine 100.0 8.6E-64 1.9E-68 520.0 14.5 424 27-495 3-457 (531)
9 PF00875 DNA_photolyase: DNA p 100.0 1.1E-31 2.4E-36 247.4 13.8 147 31-182 1-153 (165)
10 COG3046 Uncharacterized protei 100.0 1E-29 2.2E-34 251.7 25.6 381 29-454 2-423 (505)
11 KOG0133 Deoxyribodipyrimidine 98.9 3.4E-12 7.3E-17 134.4 -13.0 441 11-469 78-527 (531)
12 PF04244 DPRP: Deoxyribodipyri 97.9 5.4E-05 1.2E-09 73.0 9.3 149 32-189 1-163 (224)
13 PRK09982 universal stress prot 92.3 1.1 2.3E-05 39.7 9.4 108 44-154 17-137 (142)
14 PRK12652 putative monovalent c 91.3 2.1 4.5E-05 44.4 11.3 108 44-153 19-148 (357)
15 PRK15005 universal stress prot 91.2 2.1 4.5E-05 37.5 10.0 82 45-127 19-114 (144)
16 PRK10116 universal stress prot 91.2 7.3 0.00016 33.9 13.5 111 42-155 15-138 (142)
17 cd01989 STK_N The N-terminal d 90.4 4 8.6E-05 35.8 11.1 85 42-127 11-110 (146)
18 cd01988 Na_H_Antiporter_C The 89.5 4.9 0.00011 34.2 10.7 82 44-126 13-100 (132)
19 cd01987 USP_OKCHK USP domain i 89.5 4.6 9.9E-05 34.3 10.4 80 43-127 12-92 (124)
20 cd00293 USP_Like Usp: Universa 89.0 6.1 0.00013 32.9 10.8 84 43-127 12-100 (130)
21 TIGR00289 conserved hypothetic 87.0 4.6 0.0001 38.9 9.5 95 46-153 16-116 (222)
22 PRK15456 universal stress prot 86.0 7 0.00015 34.2 9.6 81 44-126 18-111 (142)
23 TIGR00290 MJ0570_dom MJ0570-re 85.0 7.9 0.00017 37.4 10.0 96 45-153 15-116 (223)
24 PF00582 Usp: Universal stress 84.5 8.9 0.00019 32.3 9.4 84 44-127 16-109 (140)
25 cd01994 Alpha_ANH_like_IV This 82.8 11 0.00023 35.6 9.7 88 57-153 22-119 (194)
26 PRK10490 sensor protein KdpD; 81.6 11 0.00023 44.2 11.3 109 42-156 261-374 (895)
27 PRK15118 universal stress glob 81.4 17 0.00036 31.8 10.1 109 43-154 16-137 (144)
28 PRK11175 universal stress prot 71.5 78 0.0017 31.4 13.0 118 38-156 11-146 (305)
29 PF01902 ATP_bind_4: ATP-bindi 70.1 7.7 0.00017 37.3 5.0 96 45-153 15-116 (218)
30 COG2102 Predicted ATPases of P 69.7 38 0.00082 32.6 9.4 98 44-153 14-117 (223)
31 PRK11175 universal stress prot 68.1 47 0.001 33.0 10.5 81 45-126 174-267 (305)
32 COG2205 KdpD Osmosensitive K+ 66.9 80 0.0017 36.2 12.5 110 43-157 260-375 (890)
33 TIGR03679 arCOG00187 arCOG0018 64.1 63 0.0014 30.9 10.0 65 56-126 19-92 (218)
34 COG0589 UspA Universal stress 56.5 1.3E+02 0.0027 25.7 10.3 78 48-126 24-119 (154)
35 COG2217 ZntA Cation transport 55.6 24 0.00053 40.0 6.3 46 87-133 543-588 (713)
36 PF08218 Citrate_ly_lig: Citra 53.6 72 0.0016 29.6 7.9 95 60-155 27-144 (182)
37 COG3590 PepO Predicted metallo 51.4 9.5 0.00021 41.4 2.1 46 421-480 474-520 (654)
38 TIGR01088 aroQ 3-dehydroquinat 49.0 82 0.0018 28.1 7.2 72 85-162 25-105 (141)
39 PRK01122 potassium-transportin 47.7 42 0.00091 38.0 6.6 48 84-132 448-495 (679)
40 TIGR01497 kdpB K+-transporting 46.7 79 0.0017 35.8 8.5 48 84-132 449-496 (675)
41 PF00702 Hydrolase: haloacid d 46.5 45 0.00097 30.8 5.8 48 84-132 130-181 (215)
42 PRK14010 potassium-transportin 44.9 49 0.0011 37.4 6.5 49 84-133 444-492 (673)
43 COG0191 Fba Fructose/tagatose 44.2 2.5E+02 0.0055 28.1 10.6 69 84-153 61-134 (286)
44 PRK13015 3-dehydroquinate dehy 42.9 1.4E+02 0.0029 26.9 7.7 62 95-162 40-107 (146)
45 KOG0207 Cation transport ATPas 41.0 80 0.0017 36.5 7.3 61 89-154 731-791 (951)
46 cd06279 PBP1_LacI_like_3 Ligan 38.5 1.6E+02 0.0035 28.6 8.6 72 79-156 16-87 (283)
47 PF01116 F_bP_aldolase: Fructo 37.8 4.3E+02 0.0094 26.5 12.2 70 83-153 58-132 (287)
48 cd00128 XPG Xeroderma pigmento 36.6 69 0.0015 32.4 5.7 19 109-127 130-148 (316)
49 COG1139 Uncharacterized conser 36.4 99 0.0022 32.8 6.7 66 85-155 66-134 (459)
50 PF10087 DUF2325: Uncharacteri 36.1 1.6E+02 0.0035 24.0 6.8 64 86-156 12-83 (97)
51 PRK05395 3-dehydroquinate dehy 35.9 2.6E+02 0.0055 25.2 8.3 75 85-162 27-107 (146)
52 PRK03980 flap endonuclease-1; 35.6 97 0.0021 31.2 6.4 11 60-70 25-35 (292)
53 PF06574 FAD_syn: FAD syntheta 34.2 23 0.0005 32.1 1.6 106 48-156 26-145 (157)
54 PF13727 CoA_binding_3: CoA-bi 33.9 1E+02 0.0023 27.3 5.9 44 109-154 130-174 (175)
55 TIGR01525 ATPase-IB_hvy heavy 32.0 1.8E+02 0.0039 32.0 8.4 49 82-131 385-434 (556)
56 TIGR01490 HAD-SF-IB-hyp1 HAD-s 31.8 1E+02 0.0022 28.4 5.6 45 82-127 88-132 (202)
57 PF01261 AP_endonuc_2: Xylose 31.0 3.1E+02 0.0068 24.8 8.9 81 46-127 72-162 (213)
58 TIGR03674 fen_arch flap struct 31.0 1.4E+02 0.003 30.8 6.8 11 231-241 243-253 (338)
59 PRK07084 fructose-bisphosphate 30.8 3.8E+02 0.0082 27.5 9.7 55 98-153 85-144 (321)
60 PRK09856 fructoselysine 3-epim 30.5 3E+02 0.0065 26.8 9.0 75 49-124 94-176 (275)
61 TIGR01512 ATPase-IB2_Cd heavy 30.5 1.4E+02 0.0031 32.6 7.3 50 82-132 363-413 (536)
62 cd02970 PRX_like2 Peroxiredoxi 30.2 2.7E+02 0.0059 23.8 7.9 59 58-122 23-81 (149)
63 TIGR00067 glut_race glutamate 29.2 2E+02 0.0044 28.1 7.4 60 64-124 27-89 (251)
64 PF01220 DHquinase_II: Dehydro 29.1 3.1E+02 0.0068 24.5 7.7 63 95-163 39-107 (140)
65 TIGR01491 HAD-SF-IB-PSPlk HAD- 27.7 1E+02 0.0022 28.2 4.8 39 86-125 85-123 (201)
66 PTZ00217 flap endonuclease-1; 27.3 1.5E+02 0.0032 31.3 6.3 11 231-241 242-252 (393)
67 TIGR01488 HAD-SF-IB Haloacid D 27.2 73 0.0016 28.5 3.7 41 85-126 77-117 (177)
68 TIGR01521 FruBisAldo_II_B fruc 27.0 4.4E+02 0.0095 27.3 9.5 97 51-153 33-139 (347)
69 cd06313 PBP1_ABC_sugar_binding 26.8 4.2E+02 0.0091 25.5 9.3 72 80-156 12-88 (272)
70 cd06294 PBP1_ycjW_transcriptio 26.7 2.7E+02 0.0058 26.4 7.8 72 79-156 16-91 (270)
71 cd06295 PBP1_CelR Ligand bindi 26.3 4E+02 0.0087 25.4 9.0 71 80-156 23-95 (275)
72 cd03013 PRX5_like Peroxiredoxi 25.9 4.5E+02 0.0098 23.4 8.6 38 83-121 50-88 (155)
73 PRK10671 copA copper exporting 25.5 2.6E+02 0.0057 32.5 8.6 44 88-132 657-700 (834)
74 cd06277 PBP1_LacI_like_1 Ligan 25.3 4.1E+02 0.0088 25.2 8.8 71 79-156 14-88 (268)
75 cd06297 PBP1_LacI_like_12 Liga 25.1 4.3E+02 0.0093 25.2 9.0 71 80-156 12-86 (269)
76 PF13911 AhpC-TSA_2: AhpC/TSA 24.8 1.2E+02 0.0027 25.3 4.5 41 86-128 2-44 (115)
77 COG0796 MurI Glutamate racemas 23.8 3.5E+02 0.0076 26.9 7.8 63 64-127 34-98 (269)
78 TIGR01544 HAD-SF-IE haloacid d 23.4 1.2E+02 0.0026 30.3 4.6 36 85-121 125-160 (277)
79 cd06272 PBP1_hexuronate_repres 23.4 4.9E+02 0.011 24.5 9.0 71 79-156 11-82 (261)
80 COG0560 SerB Phosphoserine pho 23.3 1E+02 0.0022 29.4 3.9 41 86-127 82-122 (212)
81 PRK13210 putative L-xylulose 5 23.2 6E+02 0.013 24.6 9.7 79 47-126 96-179 (284)
82 COG0196 RibF FAD synthase [Coe 22.9 3.2E+02 0.007 27.7 7.6 109 45-156 33-153 (304)
83 PRK10517 magnesium-transportin 22.8 2.8E+02 0.0061 32.7 8.1 39 83-122 552-590 (902)
84 PRK09196 fructose-1,6-bisphosp 22.8 5.4E+02 0.012 26.7 9.2 54 99-153 76-141 (347)
85 PF13407 Peripla_BP_4: Peripla 22.7 4.4E+02 0.0095 24.8 8.4 71 81-157 12-89 (257)
86 PF12710 HAD: haloacid dehalog 22.7 1.7E+02 0.0037 26.4 5.3 39 88-127 96-136 (192)
87 COG2179 Predicted hydrolase of 22.5 3.7E+02 0.008 24.9 7.0 56 86-144 51-106 (175)
88 COG3053 CitC Citrate lyase syn 22.4 7.1E+02 0.015 25.3 9.5 102 38-145 156-279 (352)
89 TIGR01511 ATPase-IB1_Cu copper 22.0 3.1E+02 0.0067 30.3 8.0 46 84-131 408-453 (562)
90 COG0529 CysC Adenylylsulfate k 21.9 4.6E+02 0.0099 24.7 7.6 58 87-148 41-120 (197)
91 TIGR03234 OH-pyruv-isom hydrox 21.8 7.1E+02 0.015 23.8 9.9 83 46-130 85-178 (254)
92 CHL00200 trpA tryptophan synth 21.7 6.1E+02 0.013 25.1 9.2 53 97-153 90-149 (263)
93 TIGR00273 iron-sulfur cluster- 21.7 1.9E+02 0.0042 30.8 6.0 68 82-154 49-119 (432)
94 cd03012 TlpA_like_DipZ_like Tl 21.5 3.6E+02 0.0079 22.7 6.8 57 60-122 24-86 (126)
95 PRK15122 magnesium-transportin 21.5 2.9E+02 0.0063 32.6 7.9 38 84-122 553-590 (903)
96 PF00578 AhpC-TSA: AhpC/TSA fa 21.4 2.1E+02 0.0045 23.7 5.2 46 82-128 44-90 (124)
97 cd01018 ZntC Metal binding pro 21.2 4.2E+02 0.0092 25.9 8.1 71 77-155 145-224 (266)
98 PRK14719 bifunctional RNAse/5- 21.2 1.8E+02 0.004 30.2 5.6 60 92-152 37-99 (360)
99 cd06293 PBP1_LacI_like_11 Liga 21.0 4.4E+02 0.0095 25.0 8.1 71 80-156 12-86 (269)
100 cd01545 PBP1_SalR Ligand-bindi 20.7 4.6E+02 0.01 24.7 8.2 72 79-156 11-88 (270)
101 cd06811 PLPDE_III_yhfX_like Ty 20.7 5.1E+02 0.011 27.0 8.9 77 40-127 6-84 (382)
102 cd06299 PBP1_LacI_like_13 Liga 20.6 6.2E+02 0.013 23.8 9.1 70 81-156 13-86 (265)
103 cd06312 PBP1_ABC_sugar_binding 20.6 7.3E+02 0.016 23.5 9.6 73 79-156 12-90 (271)
104 TIGR00338 serB phosphoserine p 20.6 1.3E+02 0.0027 28.2 4.0 38 86-124 90-127 (219)
105 TIGR01647 ATPase-IIIA_H plasma 20.4 3E+02 0.0064 31.7 7.6 39 84-123 445-483 (755)
106 cd06271 PBP1_AglR_RafR_like Li 20.2 4.1E+02 0.009 25.0 7.7 71 80-156 16-90 (268)
107 TIGR01524 ATPase-IIIB_Mg magne 20.1 3.4E+02 0.0073 31.9 8.1 38 84-122 518-555 (867)
108 cd01017 AdcA Metal binding pro 20.1 5.6E+02 0.012 25.3 8.7 68 80-155 149-227 (282)
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=4.9e-104 Score=839.82 Aligned_cols=450 Identities=53% Similarity=0.916 Sum_probs=378.3
Q ss_pred cccccccccccCc-cCCCC-CcEEEEEeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEecCCccccchhHHHHHHHHHHH
Q 010783 11 VQPGRIRVLKQGS-LDKKR-GPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRL 88 (501)
Q Consensus 11 ~~~~r~~~~~~~~-~~~~~-~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~ 88 (501)
+++.||+-+|+.| +.+.+ .++|||||||||++||+||++|++.|.+.+.+|+||||+||.++..+++|.+||++||.+
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 6789999999976 54555 459999999999999999999987665557799999999998887899999999999999
Q ss_pred HHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEEEEecceEEeCcccccC
Q 010783 89 LQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEK 168 (501)
Q Consensus 89 L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~~~~~~~l~~p~~~~~~ 168 (501)
|+++| +++|++|+++.|++.++|.+|+++++|++|+++.++...++++|++|++.|+++|.++++++++|++++.+.++
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 99999999999999999999999999999999988888888999999999966899999999999999876666
Q ss_pred CCCccchhhHHHHhhCCCcCCCCCCCCCCCCccCCCCCCCChHHHHHHHhhcCCCCCccccCCCcHHHHHHHHhcchhHH
Q 010783 169 LEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGF 248 (501)
Q Consensus 169 ~~y~~ft~~~~~~~~~~~~~~~~p~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~~~~~F 248 (501)
.+|++||+|++..+.++..+.+.+...+...|....+...++..+...+ .....+....+++|||++|+++| ++|
T Consensus 162 ~~y~~ft~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~gGe~aA~~~L----~~F 236 (454)
T TIGR00591 162 LEYAARTIRGKIRKLLPEYLTEFPRVLKHPSPLDLEAGPVDWDAVRDSL-AVERSVEEVVWAKPGTTAGLIML----ESF 236 (454)
T ss_pred eeeeeecHHHHHHHhChhhccccCCCccCCcccccccCcCCHHHHHHhc-cCcCCcCCcCCCCCcHHHHHHHH----HHH
Confidence 8999999998876544332222222100010000001112222221111 11112222223389999999999 999
Q ss_pred HhhhccCCCCCCCCCCCCCCCCCCccccccCcccHHHHHHHHHHHhhhCCcccccccccccHHHHHHHhHhHHHHHHHHH
Q 010783 249 LTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFC 328 (501)
Q Consensus 249 l~~~l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~~~~~~fi~eL~wRrEf~~~~~ 328 (501)
+++++.+|.++||.|+. ++||+|||||+||+||||+|++++.+..... .++.+.|++||+||||||+|++
T Consensus 237 ~~~~l~~Y~~~Rn~p~~-~~tS~LSPyL~~G~IS~R~i~~~~~~~~~~~---------~~~~~~fl~EL~WR~ef~~~~~ 306 (454)
T TIGR00591 237 IEKRLCFFRTRRNDPNN-DALSMLSPWLHFGQLSAQRAARAVERARGNA---------GESVEFFEEELVVRRELADNFC 306 (454)
T ss_pred HHHHHHHHHHhcCCccc-ccccccchHHhcCcccHHHHHHHHHHhccCC---------chHHHHHHHHHHHHHHHHhHhh
Confidence 99999999999999999 9999999999999999999999986533211 1456789999999989999999
Q ss_pred HhCCCCcccccchhhhHhhhhhhccCchhhhhhHHHHHhCCCCchHHhHHHHHHHHhccchhhhHHHHhcccccCCCCHH
Q 010783 329 FYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPE 408 (501)
Q Consensus 329 ~~~p~~~~~~~~~~w~~~~~~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~vak~LidWr~G~~ 408 (501)
+++|++..+.....|..+++.+|..|.+++.+.|++|++|+|||||||||||||++|||||||+||+|||+||||+.|++
T Consensus 307 ~~~p~~~~~~~~~~w~~~~l~~~~~d~r~~~~~~~~W~~G~Tg~pivdA~MrqL~~TG~MHNr~RMi~aK~li~W~~g~~ 386 (454)
T TIGR00591 307 FYNPYYDSLCGAYWWARTTLDDHAKDKREHLYSLEQLEKSTTHDYLWNAAQEQLVTEGKMHGFLRMYWAKKILEWTHSPE 386 (454)
T ss_pred hcCCCccccccchHHHHHHHHHHhcCCccccCCHHHHHhcCcCcHhHhHHHHHHHHhCccccceeeeeeeehhhcCCCHH
Confidence 99999987666667998888888776655556799999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhccccCCCCCCCcCcEEeecccCCCCCCCCCCcCcccccccchhhhcCCccchHHhh
Q 010783 409 EALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYV 476 (501)
Q Consensus 409 ~a~~~~~~f~~~yliD~d~a~n~g~wqw~a~G~~~~~~~~~pyfg~~R~fnp~~q~~k~Dp~gyIr~w 476 (501)
+|+..++|++++||||||+|+|+|||||++||+|+++|+++|+||+||+|||++|++||||+||||+|
T Consensus 387 ~f~~~~~~ln~~~lvDgd~a~n~~~wqW~~~G~d~~p~~~~~~fg~iR~~np~~q~~kfd~~~yi~~~ 454 (454)
T TIGR00591 387 EALSIAIYLNDKYILDGRDPNGYVGCMWSICGIHDQGWAERIVFGKIRYMNYAGCRRKFNVAYFERKY 454 (454)
T ss_pred HHHHHHHHhhhhhhccCCCCCccceeeeEeccccCCCCCCCccceeeeecChhhhhccCCHHHHHhhC
Confidence 99999999999999999999999999999669999999999999999999999999999999999998
No 2
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=100.00 E-value=5.8e-102 Score=799.18 Aligned_cols=413 Identities=23% Similarity=0.325 Sum_probs=342.3
Q ss_pred CcEEEEEeCCCCccCCHHHHHHHHHHhhCCCC-EEEEEEecCCcc-ccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEec
Q 010783 29 GPVVYWMFRDQRVRDNWALIHAVDQANKNNVP-VAVAFNLFDQFL-GAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG 106 (501)
Q Consensus 29 ~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~-vl~vfi~dp~~~-~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G 106 (501)
+++|||||||||+.||+||.+|++ .+.+ +++|||+||.++ ..++++.+||.+||++|+++| +++||+|+|..|
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 679999999999999999999998 4555 679999999887 489999999999999999999 999999999999
Q ss_pred ChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh-CCCceEEEEecceEEeCccc--ccCCCCccchhhHHHHhh
Q 010783 107 EAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVA--SEKLEYSAKTLRGKINKL 183 (501)
Q Consensus 107 ~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l-~~gi~~~~~~~~~l~~p~~~--~~~~~y~~ft~~~~~~~~ 183 (501)
++.++++++++++++++|++++++...++.||.+|++.| +.||.++.|++++|++|+.+ ..+++|++||+|++.+..
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 999999999999999999999888777789999999999 58999999999999999754 457899999999887754
Q ss_pred CCCcCCCCCCCCCCCCccCCCCCCCChHHHHHHHhhcCC-CCCccccCCCcHHHHHHHHhcchhHHHhhhccCCCCCCCC
Q 010783 184 LPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGA-EVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNN 262 (501)
Q Consensus 184 ~~~~~~~~p~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~gGe~~A~~~L~~~~~~Fl~~~l~~Y~~~Rd~ 262 (501)
......+.+.+.. ..... .... .+.....+. .......+.|||++|+++| ++|+.+++..|++.||+
T Consensus 157 ~~~~~~~~~~p~~-~~~~~----~~~~---~~~~~~~P~~~~~~~~~~~~Ge~aA~~~l----~~F~~~~l~~Y~~~Rd~ 224 (461)
T COG0415 157 RLRILRPVPAPDV-LDALR----DEEP---PPEEISLPDFSKFDVLLFTGGEKAALARL----QDFLAEGLDDYERTRDF 224 (461)
T ss_pred hcccCCCCCCcch-hcccc----cccc---CcccccCCccccccccCCCchHHHHHHHH----HHHHHHHHHHHHHhcCC
Confidence 3222222222100 00000 0000 000001110 0011234789999999999 99999999999999999
Q ss_pred CCCCCCCCCCccccccCcccHHHHHHHHHHHhhhCCcccccccccccHHHHHHHhHhHHHHHHHHHHhCCCCcccccchh
Q 010783 263 PLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWE 342 (501)
Q Consensus 263 p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~~~~~~fi~eL~wRrEf~~~~~~~~p~~~~~~~~~~ 342 (501)
|+. ++||+|||||+||+||||+||+++.+..... .++++.|++||+|| |||+|+++++|+..... +
T Consensus 225 p~~-~~TS~LSpyL~~G~IS~r~v~~~~~~~~~~~---------~~~~~~~~~eL~WR-EFy~h~~~~~p~~~~~~---~ 290 (461)
T COG0415 225 PAL-DGTSRLSPYLAFGVISPREVYAALLAAESDA---------REGTAALINELIWR-EFYQHLLYHYPSLSRFE---P 290 (461)
T ss_pred ccc-ccccccCHHHHcCCcCHHHHHHHHHHhhhcc---------cchHHHHHHHHHHH-HHHHHHHHhCCcccccc---c
Confidence 999 9999999999999999999999998876532 26889999999999 99999999999863221 1
Q ss_pred hhHhhhhhhccCchhhhhhHHHHHhCCCCchHHhHHHHHHHHhccchhhhHHHHh----ccc-ccCCCCHHHHHHHHHHH
Q 010783 343 WARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWA----KKI-LEWTTGPEEALAIAIYL 417 (501)
Q Consensus 343 w~~~~~~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~va----k~L-idWr~G~~~a~~~~~~f 417 (501)
|..++...+..+++ +.|++||+|+|||||||||||||++||||||||||||| |+| ||||.|++ ||
T Consensus 291 ~~~~~~~~~w~~~~---~~f~aW~~G~TGyPIVDA~MRqL~~TG~MHNR~RMivAsFL~k~L~IdWR~GE~-------~F 360 (461)
T COG0415 291 FAEKTLNIPWEDNP---AHFQAWQEGKTGYPIVDAAMRQLNQTGYMHNRMRMIVASFLTKDLLIDWREGEK-------YF 360 (461)
T ss_pred ccccccCCccccCH---HHHHHHhcCCCCCccccHHHHHHHHhCCcchHHHHHHHHHHHHhcCCCHHHHHH-------HH
Confidence 22221111111222 36999999999999999999999999999999999999 899 99999999 99
Q ss_pred hhhccccCCCCCCCcCcEEee-cccCCCCCCCCCCcCcccccccchhhhcCCccc-hHHhhhhhhcCCCccccccc
Q 010783 418 NDKYEIDGRDPNGYVGCMWSI-CGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAYVKRIVGGTKKRRADSL 491 (501)
Q Consensus 418 ~~~yliD~d~a~n~g~wqw~a-~G~~~~~~~~~pyfg~~R~fnp~~q~~k~Dp~g-yIr~wvPeL~~~~~~~~~~~ 491 (501)
+++ |||||+|+|+|||||+| +|+|++ ||| |||||++|++||||+| |||+|||||++||++.||.-
T Consensus 361 ~~~-LiD~D~asN~ggWQW~AstG~Da~-----pyf---RiFNp~~Q~~kfDp~g~fIr~wvPeL~~~~~~~ih~p 427 (461)
T COG0415 361 MRQ-LIDGDPASNNGGWQWAASTGTDAA-----PYF---RIFNPVTQAEKFDPDGEFIRRWVPELRNLPDKYIHEP 427 (461)
T ss_pred HHh-ccCCCcccCCCCeeEEeccCCCCC-----cce---eccCHHHHHhhcCCCcccHHhhCHHhhCCChhhccCh
Confidence 999 99999999999999999 589886 999 9999999999999999 99999999999999999953
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=1.4e-96 Score=786.58 Aligned_cols=412 Identities=19% Similarity=0.209 Sum_probs=328.6
Q ss_pred EEEEeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEecCCccc---cchhHHHHHHHHHHHHHHHHHhhcCCeEEEEe-cC
Q 010783 32 VYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLG---AKARQLGFMLRGLRLLQRNIEETFQILFFLFQ-GE 107 (501)
Q Consensus 32 l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~---~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~-G~ 107 (501)
||||||||||+||+||.+|++ .+ +|+||||+||.++. .+.++.+||++||.+|+++| +++|++|+|+. |+
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 hhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh-CCCceEEEEecceEEeCccc-c-cCCCCccchhhHHHHhhC
Q 010783 108 AEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVA-S-EKLEYSAKTLRGKINKLL 184 (501)
Q Consensus 108 ~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l-~~gi~~~~~~~~~l~~p~~~-~-~~~~y~~ft~~~~~~~~~ 184 (501)
++++|.+|+++++|++|+++.++...++.||++|+++| +.||.++.+++++|++|+.+ . .+++|++||+|++.+...
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 99999999999999999999888888899999999999 48999999999999999854 3 568899999987654322
Q ss_pred CC-cCCCCCCCCCCCCccCCCCCCCChHHH-H-HHHhhcCCCCCccccCCCcHHHHHHHHhcchhHHHhhhccCCCCCCC
Q 010783 185 PE-YLIDYPMLEQPIEKWTGTRQSIDWDSI-I-AAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRN 261 (501)
Q Consensus 185 ~~-~~~~~p~~~~~~~p~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~gGe~~A~~~L~~~~~~Fl~~~l~~Y~~~Rd 261 (501)
.. ...+.+. |...+..... ......+ + +.. ...........++|||++|+++| +.|+++++.+|+.+||
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 11 0011111 1000000000 0000000 0 000 00000000113689999999999 9999999999999999
Q ss_pred CCCCCCCCCCCccccccCcccHHHHHHHHHHHhh--hCCcccccccccccHHHHHHHhHhHHHHHHHHHHhCCCCccc--
Q 010783 262 NPLKPRALSGLSPYLHFGQISAQRCALEARKARK--LCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDSL-- 337 (501)
Q Consensus 262 ~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~--~~~~~~~~~~~~~~~~~fi~eL~wRrEf~~~~~~~~p~~~~~-- 337 (501)
.|+. .+||+|||||+|||||||+|++++..... ... .....+++.++|++||+|| |||+++++++|.+...
T Consensus 227 ~p~~-~~tS~LSPyL~~G~ISpR~v~~~~~~~~~~~~~~---~~~~~~~s~~~f~~eL~WR-ef~~~~~~~~p~~~~~~~ 301 (475)
T TIGR02766 227 KADS-ATTSLLSPYLHFGEVSVRKVFHLVRMKQIAWANE---GNSAGEESVNLFLRSIGLR-EYSRYISFNHPFSHEKPL 301 (475)
T ss_pred CCCC-CCCCCCCcccccCcccHHHHHHHHHhhhhhhhhc---ccCCCcccHHHHHHHHHHH-HHHHHHHHhCCcccccch
Confidence 9998 99999999999999999999999863110 000 0011246778999999999 9999999999865321
Q ss_pred c---cchhhhHhhhhhhccCchhhhhhHHHHHhCCCCchHHhHHHHHHHHhccchhhhHHHHh----ccc-ccCCCCHHH
Q 010783 338 K---GAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWA----KKI-LEWTTGPEE 409 (501)
Q Consensus 338 ~---~~~~w~~~~~~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~va----k~L-idWr~G~~~ 409 (501)
. ..++|.. +. ..|++|++|+|||||||||||||++|||||||+||||| |+| ||||.|++
T Consensus 302 ~~~~~~~~w~~--------~~----~~f~aW~~G~TG~P~VDA~MRqL~~TGwmhnR~Rm~vAsfl~k~L~idWr~G~~- 368 (475)
T TIGR02766 302 LGHLKFFPWAV--------DE----NYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVVVSSFFVKVLQLPWRWGMK- 368 (475)
T ss_pred hhhhhcCCCCC--------CH----HHHHHHHcCCCCCcchhHHHHHHHHHCCCcHHHHHHHHHHHHcccCCChHHHHH-
Confidence 1 0123421 22 25999999999999999999999999999999999998 899 99999999
Q ss_pred HHHHHHHHhhhccccCCCCCCCcCcEEee-cccCCCCCCCCCCcCcccccccchhhhcCCccc-hHHhhhhhhcCCCccc
Q 010783 410 ALAIAIYLNDKYEIDGRDPNGYVGCMWSI-CGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAYVKRIVGGTKKRR 487 (501)
Q Consensus 410 a~~~~~~f~~~yliD~d~a~n~g~wqw~a-~G~~~~~~~~~pyfg~~R~fnp~~q~~k~Dp~g-yIr~wvPeL~~~~~~~ 487 (501)
||+++ |||||+|+|+|||||+| +|+|++ ||| |||||++|++||||+| |||+|||||+++|++.
T Consensus 369 ------~F~~~-LiD~D~a~N~g~Wqw~Ag~g~d~~-----~~~---RifnP~~q~~~~Dp~g~yir~wvPeL~~~p~~~ 433 (475)
T TIGR02766 369 ------YFWDT-LLDADLESDALGWQYISGSLPDGR-----ELD---RIDNPQLEGYKFDPNGEYVRRWLPELARLPTEW 433 (475)
T ss_pred ------HHHHH-ccccchhcccccccccccCCCCCC-----ccc---ccCCHHHHHhhcCCCcccHHHhChhhccCCHHH
Confidence 99999 99999999999999999 588886 999 9999999999999999 9999999999999999
Q ss_pred ccc
Q 010783 488 ADS 490 (501)
Q Consensus 488 ~~~ 490 (501)
||.
T Consensus 434 ih~ 436 (475)
T TIGR02766 434 IHH 436 (475)
T ss_pred hcC
Confidence 996
No 4
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=100.00 E-value=9.3e-95 Score=769.27 Aligned_cols=416 Identities=20% Similarity=0.269 Sum_probs=335.8
Q ss_pred CcEEEEEeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEecCCccc---cchhHHHHHHHHHHHHHHHHHhhcCCeEEEEe
Q 010783 29 GPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLG---AKARQLGFMLRGLRLLQRNIEETFQILFFLFQ 105 (501)
Q Consensus 29 ~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~---~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~ 105 (501)
+.+|||||||||++||+||.+|++ .+.+|+||||+||.++. .+++|.+||++||.+|+++| +++|++|+++.
T Consensus 1 ~~vl~WfRrDLRl~DN~AL~~A~~----~~~~vl~vfi~dp~~~~~~~~~~~r~~Fl~esL~~L~~~L-~~~G~~L~v~~ 75 (471)
T TIGR03556 1 ALILFWHRRDLRLSDNIGLAAARQ----QSAKVVGLFCLDPNILQADDMAPARVAYLIGCLQELQQRY-QQAGSQLLILQ 75 (471)
T ss_pred CCEEEEeCCCCCcchHHHHHHHHh----cCCCEEEEEEEchhhhccccCCHHHHHHHHHHHHHHHHHH-HHCCCCeEEEE
Confidence 368999999999999999999986 45689999999998653 58899999999999999999 99999999999
Q ss_pred cChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhC-CCceEEEEecceEEeCccc--ccCCCCccchhhHHHHh
Q 010783 106 GEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVS-DSVTIHEVDAHNVVPVWVA--SEKLEYSAKTLRGKINK 182 (501)
Q Consensus 106 G~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~-~gi~~~~~~~~~l~~p~~~--~~~~~y~~ft~~~~~~~ 182 (501)
|++.++|++|+++++|++|+++.++...+++||++|++.|+ .||.++.+.+++|++|+.+ ..+++|++||+|++.+.
T Consensus 76 G~p~~vl~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~i~~~~~~~y~~ft~f~k~~~ 155 (471)
T TIGR03556 76 GDPVQLIPQLAQQLGAKAVYWNLDVEPYGRKRDRAVAAALKEAGIAVVTLWDQLLHSPDEILTGSGNPYTVYTPFWKNWS 155 (471)
T ss_pred CCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHCCCEEEEeCCcEEECccccccCCCCCCcchhHHHHHHH
Confidence 99999999999999999999998887788899999999994 8999999999999999854 35779999999988765
Q ss_pred hCCCcCCCCCCCCCCCC--ccCCC-CCCCChHHHHHHHhhcCCCCCccccCCCcHHHHHHHHhcchhHHHhhhccCCCCC
Q 010783 183 LLPEYLIDYPMLEQPIE--KWTGT-RQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTD 259 (501)
Q Consensus 183 ~~~~~~~~~p~~~~~~~--p~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~~~~~Fl~~~l~~Y~~~ 259 (501)
..... .+.+.+..... +.... ...++... ++.+..++........++|||++|+++| +.|+++++.+|..+
T Consensus 156 ~~~~~-~~~~~p~~~~~~~~~~~~~~~~~~~~~-~p~~~~~~~~~~~~~~~~gGe~~A~~~L----~~f~~~~l~~Y~~~ 229 (471)
T TIGR03556 156 SLPKP-TPVATPTELEGLTEAELEAAAPLGVIA-LPTAKDLGFDWDGDLILEPGETAAQARL----EEFCDRAIADYQEQ 229 (471)
T ss_pred hcccc-CCCCCccccccCCcccccccccccccc-CCcccccccccccccCCCCcHHHHHHHH----HHHHHHHHHHhhhc
Confidence 43211 11111100000 00000 00111000 0111111111011113689999999999 99999999999999
Q ss_pred CCCCCCCCCCCCCccccccCcccHHHHHHHHHHHhhhCCcccccccccccHHHHHHHhHhHHHHHHHHHHhCCCCcccc-
Q 010783 260 RNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLK- 338 (501)
Q Consensus 260 Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~~~~~~fi~eL~wRrEf~~~~~~~~p~~~~~~- 338 (501)
||.|.. ++||+|||||+|||||||+|++++.+...... .....++.++|++||+|| |||+++++++|.+....
T Consensus 230 r~~p~~-~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~~----~~~~~~~~~~f~~eL~WR-ef~~~~~~~~p~~~~~~~ 303 (471)
T TIGR03556 230 RNFPAL-DGTSQLSPALKFGVIGIRTVWQATQEAHENSR----SEEARNSIRTWQQELAWR-EFYQHALYHFPELADGPY 303 (471)
T ss_pred cCCCCC-CCCCCCChhhcCCcccHHHHHHHHHHHHhhcc----cccccccHHHHHHHHHHH-HHHHHHHHHCcchhcccc
Confidence 999988 89999999999999999999999976543211 011225678899999999 99999998888764321
Q ss_pred -c---chhhhHhhhhhhccCchhhhhhHHHHHhCCCCchHHhHHHHHHHHhccchhhhHHHHh----ccc-ccCCCCHHH
Q 010783 339 -G---AWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWA----KKI-LEWTTGPEE 409 (501)
Q Consensus 339 -~---~~~w~~~~~~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~va----k~L-idWr~G~~~ 409 (501)
. .++|+. ++ ..|++|++|+|||||||||||||++|||||||+||+|| |+| |||+.|++
T Consensus 304 ~~~~~~~~w~~--------~~----~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~vAsfl~k~L~idWr~G~~- 370 (471)
T TIGR03556 304 RSLFQNFPWEN--------NE----AHFQAWCEGRTGYPIVDAAMRQLNETGWMHNRCRMIVASFLTKDLIINWQWGEK- 370 (471)
T ss_pred chhhhcCCCcC--------CH----HHHHHHhcCCCCCCcccHHHHHHHHhCCccHHHHHHHHHHHHcccCCCHHHHHH-
Confidence 0 123431 22 25999999999999999999999999999999999999 789 99999999
Q ss_pred HHHHHHHHhhhccccCCCCCCCcCcEEee-cccCCCCCCCCCCcCcccccccchhhhcCCccc-hHHhhhhhhcCCCccc
Q 010783 410 ALAIAIYLNDKYEIDGRDPNGYVGCMWSI-CGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAYVKRIVGGTKKRR 487 (501)
Q Consensus 410 a~~~~~~f~~~yliD~d~a~n~g~wqw~a-~G~~~~~~~~~pyfg~~R~fnp~~q~~k~Dp~g-yIr~wvPeL~~~~~~~ 487 (501)
||+++ |||||+|+|+|||||+| +|+|++ | | |+|||++|++||||+| |||+|+|||+++|++.
T Consensus 371 ------~F~~~-LlD~D~a~N~g~Wqw~a~~G~d~~-----p-~---R~fnp~~q~~k~Dp~G~yIr~w~PeL~~~p~~~ 434 (471)
T TIGR03556 371 ------YFMQK-LIDGDLAANNGGWQWSASSGMDPK-----P-L---RIFNPASQAQKFDPEAEYIRRWLPELRSVDTKD 434 (471)
T ss_pred ------HHHHH-hhhcChhhccccccchhcCCCCCC-----C-C---cccCHHHHHHHhCCCCchHHHhCHhhccCCHhh
Confidence 99999 99999999999999999 599986 7 6 9999999999999999 9999999999999999
Q ss_pred ccc
Q 010783 488 ADS 490 (501)
Q Consensus 488 ~~~ 490 (501)
||.
T Consensus 435 ih~ 437 (471)
T TIGR03556 435 LVT 437 (471)
T ss_pred hcC
Confidence 995
No 5
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=100.00 E-value=3.2e-94 Score=760.04 Aligned_cols=401 Identities=20% Similarity=0.219 Sum_probs=320.4
Q ss_pred CcEEEEEeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEecCCccc---------cchhHHHHHHHHHHHHHHHHHhhcCC
Q 010783 29 GPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLG---------AKARQLGFMLRGLRLLQRNIEETFQI 99 (501)
Q Consensus 29 ~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~---------~~~~r~~Fl~esL~~L~~~L~~~~G~ 99 (501)
+.+|||||||||++||+||.+|++ .+.+|+||||+||.++. .|++|++||++||.+|+++| +++|+
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 368999999999999999999987 35689999999998654 58999999999999999999 99999
Q ss_pred eEEEEecChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh-CCCceEEEEecceEEeCcccc--cCCCCccchh
Q 010783 100 LFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVAS--EKLEYSAKTL 176 (501)
Q Consensus 100 ~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l-~~gi~~~~~~~~~l~~p~~~~--~~~~y~~ft~ 176 (501)
+|+++.|++.++|.+|+++++|++|+++.+|...+++||++|++.| +.||.++.+++++|++|+.+. .+.+|++||+
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 589999999999999998543 3788999999
Q ss_pred hHHHHhhCCCcCCCCCCCCCCCCccCCCCCCCChHHHHHHHhhcC--CC-CCccccCCCcHHHHHHHHhcchhHHHh-hh
Q 010783 177 RGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKG--AE-VPEIGWCESGEDAAMEVLKGSKDGFLT-KR 252 (501)
Q Consensus 177 ~~~~~~~~~~~~~~~p~~~~~~~p~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~~~gGe~~A~~~L~~~~~~Fl~-~~ 252 (501)
|++.+........+++.+.... +.+. ...... ++++..++ .. ......++|||++|+++| ++|+. +.
T Consensus 156 f~~~~~~~~~~~~~~~~p~~~~-~~~~-~~~~~~---~~~l~~~~~~~~~~~~~~~~~gGe~~A~~~L----~~Fl~~~~ 226 (429)
T TIGR02765 156 FRKQVEAKCSIRPPLPAPEKLP-PLPS-VDDPGW---IPTLEDLGEESSEVDRGLPFVGGETAGLARL----KEYFWSKD 226 (429)
T ss_pred HHHHHHhhCCCCCCCCCcccCC-CCcc-cccccC---CCChhhcCCCcccccccCCcCchHHHHHHHH----HHHHhhcc
Confidence 9776543111122222210010 0000 000000 01111111 11 111123689999999999 99997 46
Q ss_pred ccCCCCCCCCCCCCCCCCCCccccccCcccHHHHHHHHHHHhhhCCcccccccccccHHHHHHHhHhHHHHHHHHHHhCC
Q 010783 253 LKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQP 332 (501)
Q Consensus 253 l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~~~~~~fi~eL~wRrEf~~~~~~~~p 332 (501)
+..|...||.|...++||+|||||+|||||||+|++++.+...... ..++.+.|+.||+|| |||++++.++|
T Consensus 227 l~~Y~~~R~~~~~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~~-------~~~~~~~~~~eL~WR-ef~~~~~~~~~ 298 (429)
T TIGR02765 227 LKSYKETRNGMLGPDYSTKFSPWLALGCVSPRQIYEELQRYETERG-------ANDSTYWVIFELLWR-DYFRFYALKYG 298 (429)
T ss_pred HhhhhhccCcccCCCCcCccCHHHhCCcccHHHHHHHHHHHHhhcc-------cCCCcHHHHHHHHHH-HHHHHHHHHcC
Confidence 9999999999653278999999999999999999999876432111 113445677799999 99998776665
Q ss_pred -CCccccc----chhhhHhhhhhhccCchhhhhhHHHHHhCCCCchHHhHHHHHHHHhccchhhhHHHHh----ccc-cc
Q 010783 333 -NYDSLKG----AWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWA----KKI-LE 402 (501)
Q Consensus 333 -~~~~~~~----~~~w~~~~~~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~va----k~L-id 402 (501)
.+..+.+ .++|+. +. +.|++|++|+|||||||||||||++|||||||+||+|| |+| ||
T Consensus 299 ~~~~~~~~~~~~~~~w~~--------~~----~~~~~W~~G~TG~PivDAamrqL~~TG~mhnr~Rm~vAsFl~k~L~id 366 (429)
T TIGR02765 299 NRLFRFGGLRGKHPKWSF--------DA----KRFEQWKTGTTGYPLVDANMRELNATGFMSNRGRQNVASFLVKDLGLD 366 (429)
T ss_pred CcccccCCCccCCCCCcc--------CH----HHHHHHhCCCCCChhhhHHHHHHHHhCCCCHHHHHHHHHHHHHccCCC
Confidence 3333222 235642 22 36999999999999999999999999999999999998 889 99
Q ss_pred CCCCHHHHHHHHHHHhhhccccCCCCCCCcCcEEee-cccCCCCCCCCCCcCcccccccchhhhcCCccc-hHHhhhhhh
Q 010783 403 WTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSI-CGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAYVKRIV 480 (501)
Q Consensus 403 Wr~G~~~a~~~~~~f~~~yliD~d~a~n~g~wqw~a-~G~~~~~~~~~pyfg~~R~fnp~~q~~k~Dp~g-yIr~wvPeL 480 (501)
||+|++ ||+++ |||||+|+|+|||||+| +|+|+. | | |||||++|++||||+| |||+|||||
T Consensus 367 Wr~G~~-------~F~~~-LiD~D~a~n~g~Wqw~ag~g~d~~-----~-~---Rifnp~~q~~k~Dp~g~yir~wvPeL 429 (429)
T TIGR02765 367 WRYGAE-------WFETQ-LVDYDVCSNWGNWQYLAGVGNDPR-----G-S---RQFNIEKQAQDYDPDGEYVATWVPEL 429 (429)
T ss_pred HHHHHH-------HHHHH-hhccchhcCcccchhhhcCcCCCC-----c-C---ccCCHHHHHHhcCCCCCcHHHhcCCC
Confidence 999999 99999 99999999999999999 588875 8 8 9999999999999999 999999997
No 6
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=4.5e-94 Score=764.21 Aligned_cols=411 Identities=21% Similarity=0.263 Sum_probs=332.4
Q ss_pred cEEEEEeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEecCCcc---ccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEec
Q 010783 30 PVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFL---GAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG 106 (501)
Q Consensus 30 ~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~---~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G 106 (501)
++|||||||||++||+||.+|++. .+.+|+||||+||..+ ..|.+|++||++||.+|+++| +++|++|+|+.|
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 ----ChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEEEEecceEEeCccc--ccCCCCccchhhHHH
Q 010783 107 ----EAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVA--SEKLEYSAKTLRGKI 180 (501)
Q Consensus 107 ----~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~~~~~~~l~~p~~~--~~~~~y~~ft~~~~~ 180 (501)
++.++|++|+++++|+.|+++.++...++.||++|++.|. ||.++.+++++|++|+.+ ..+++|++||+|++.
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 6999999999999999999999888888999999999997 899999999999999863 457889999998765
Q ss_pred H-hhCCCcC-CCCCCCCCCCCccCCCCCCCChHHHHHHHhhcCCCCC--ccccCCCcHHHHHHHHhcchhHHHhhhccCC
Q 010783 181 N-KLLPEYL-IDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVP--EIGWCESGEDAAMEVLKGSKDGFLTKRLKNY 256 (501)
Q Consensus 181 ~-~~~~~~~-~~~p~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~gGe~~A~~~L~~~~~~Fl~~~l~~Y 256 (501)
+ +.+.... .+.+. |...+. ..... +.+...+.... ....++|||++|+++| ++|+++++.+|
T Consensus 158 ~~~~~~~~~p~~~~~--p~~~~~----~~~~~----~~~~~~~~~~~~~~~~~~~gGe~~A~~~L----~~f~~~~l~~Y 223 (472)
T PRK10674 158 FLKRLREGDPECVPA--PKVRSS----GAIEP----LPPIPFNYPQQSFDTALFPVGEKAAIAQL----RQFCQQGAGEY 223 (472)
T ss_pred HHHhhcccCCccCCC--Cccccc----cccCC----CCcccccCcccccccCCCCCCHHHHHHHH----HHHHHHHHHHh
Confidence 4 3332211 11111 000000 00000 00000111110 1123689999999999 99999999999
Q ss_pred CCCCCCCCCCCCCCCCccccccCcccHHHHHHHHHHHhhhCCcccccccccccHHHHHHHhHhHHHHHHHHHHhCCCCcc
Q 010783 257 PTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDS 336 (501)
Q Consensus 257 ~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~~~~~~fi~eL~wRrEf~~~~~~~~p~~~~ 336 (501)
..+||.|+. ++||+|||||+|||||||+|++++.+...... ...+.+.|++||+|| |||+++++++|++..
T Consensus 224 ~~~r~~p~~-~~tS~LSPyL~~G~iS~r~v~~~~~~~~~~~~-------~~~~~~~fl~eL~WR-ef~~~~~~~~p~~~~ 294 (472)
T PRK10674 224 EQQRDFPAV-DGTSRLSAYLATGVLSPRQCLHRLLAEQPQAL-------DGGAGSVWLNELIWR-EFYRHLMVAYPSLCK 294 (472)
T ss_pred ccccCCCCc-cCCCCcChhhccCcCCHHHHHHHHHHHhhhhh-------ccCchhHHHHHHHHH-HHHHHHHHhCCchhh
Confidence 999999998 89999999999999999999999976432211 012346799999999 999999999998754
Q ss_pred cccchhhhHhhhhhhccCchhhhhhHHHHHhCCCCchHHhHHHHHHHHhccchhhhHHHHh----ccc-ccCCCCHHHHH
Q 010783 337 LKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWA----KKI-LEWTTGPEEAL 411 (501)
Q Consensus 337 ~~~~~~w~~~~~~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~va----k~L-idWr~G~~~a~ 411 (501)
.....+|.....-+ .++ +.|++|++|+|||||||||||||++|||||||+||+|| |+| |||+.|++
T Consensus 295 ~~~~~~~~~~~~w~--~~~----~~~~~W~~G~TG~P~vDA~mrqL~~tG~mhnr~Rm~vAsfL~k~L~idWr~G~~--- 365 (472)
T PRK10674 295 HRPFIAWTDRVQWQ--SNP----AHLQAWQQGKTGYPIVDAAMRQLNSTGWMHNRLRMITASFLVKDLLIDWREGER--- 365 (472)
T ss_pred ccCcchhhhccCcc--cCH----HHHHHHHcCCCCCccHHHHHHHHHHHCCccHHHHHHHHHHHHcCcccCCHhHHH---
Confidence 32222333211100 122 36999999999999999999999999999999999999 999 99999999
Q ss_pred HHHHHHhhhccccCCCCCCCcCcEEee-cccCCCCCCCCCCcCcccccccchhhhcCCccc-hHHhhhhhhcCCCccccc
Q 010783 412 AIAIYLNDKYEIDGRDPNGYVGCMWSI-CGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAYVKRIVGGTKKRRAD 489 (501)
Q Consensus 412 ~~~~~f~~~yliD~d~a~n~g~wqw~a-~G~~~~~~~~~pyfg~~R~fnp~~q~~k~Dp~g-yIr~wvPeL~~~~~~~~~ 489 (501)
||+++ |||||+|+|+|||||+| +|+|++ ||| |+|||++|++||||+| |||+|+|||++||++.||
T Consensus 366 ----~F~~~-LlD~D~a~N~g~Wqw~ag~G~d~~-----py~---R~fnP~~q~~k~Dp~g~yIr~w~PeL~~~p~~~ih 432 (472)
T PRK10674 366 ----YFMSQ-LIDGDLAANNGGWQWAASTGTDAA-----PYF---RIFNPTTQGERFDRDGEFIRRWLPELRDVPGKAIH 432 (472)
T ss_pred ----HHHHH-hhcCCcccchhccceeecCCCCCC-----cce---eecCHHHHHHHhCCCCChHHHhChhhccCCHHhhc
Confidence 99999 99999999999999999 599886 999 9999999999999999 999999999999999999
Q ss_pred c
Q 010783 490 S 490 (501)
Q Consensus 490 ~ 490 (501)
.
T Consensus 433 ~ 433 (472)
T PRK10674 433 Q 433 (472)
T ss_pred C
Confidence 6
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=5.7e-66 Score=512.85 Aligned_cols=223 Identities=30% Similarity=0.493 Sum_probs=183.7
Q ss_pred CcHHHHHHHHhcchhHHHhhhccCCCCCCCCCCCCCCCCCCccccccCcccHHHHHHHHHHHhhhCCcccccccccccHH
Q 010783 232 SGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAID 311 (501)
Q Consensus 232 gGe~~A~~~L~~~~~~Fl~~~l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~~~~~ 311 (501)
|||++|+++| ++|+++++..|+..||.|+. ++||+|||||+|||||||+|++++.+... .. ....++.+
T Consensus 1 GGe~~A~~~L----~~Fl~~~l~~Y~~~r~~p~~-~~~S~LSpyL~~G~lS~r~v~~~~~~~~~-~~-----~~~~~~~~ 69 (277)
T PF03441_consen 1 GGETAALKRL----EEFLKERLADYGEQRDDPAA-DGTSRLSPYLNFGCLSPREVYRAVKKAQE-AN-----DAHSESAE 69 (277)
T ss_dssp SSHHHHHHHH----HHHHHHCGGGHHHHTT-TTS-TTS---HHHHHTTSS-HHHHHHHHHHHHH-CH-----TCHHHHHH
T ss_pred CcHHHHHHHH----HHHHHHHHHhhchhccCCCc-CCcCcccHHHhCCCcCHHHHHHHHHHHhh-hc-----ccccchHH
Confidence 8999999999 99999999999999999987 89999999999999999999999998765 21 01126789
Q ss_pred HHHHHhHhHHHHHHHHHHhCCCCc-cccc-----chhhhHhhhhhhccCchhhhhhHHHHHhCCCCchHHhHHHHHHHHh
Q 010783 312 TFLEELIVRRELADNFCFYQPNYD-SLKG-----AWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYN 385 (501)
Q Consensus 312 ~fi~eL~wRrEf~~~~~~~~p~~~-~~~~-----~~~w~~~~~~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~t 385 (501)
+|++||+|| ||++++++++|++. .... .++|+.+ +...+.+++|++|+||+||||||||||++|
T Consensus 70 ~f~~eL~WR-ef~~~~~~~~p~~~~~~~~~~~~~~~~w~~~---------~~~~~~~~~w~~G~TG~p~vDAamrqL~~t 139 (277)
T PF03441_consen 70 KFIRELIWR-EFYRQLLYHNPNLDMFENFNPKFRQIPWEDD---------RENPELFEAWCEGRTGYPLVDAAMRQLRQT 139 (277)
T ss_dssp HHHHHHHHH-HHHHHHHHHSGGCTCSSTSSTTCCCSHCBTS---------BSTHHHHHHHHTT-SS-HHHHHHHHHHHHH
T ss_pred HHHHHHHHH-HHHHHHHHhCCcchhhhhccHHHHhhhhccc---------ccCHHHHHHHHcCCCCChHHHHHHHHHHHh
Confidence 999999999 99999999999875 3222 2345310 111146999999999999999999999999
Q ss_pred ccchhhhHHHHh----ccc-ccCCCCHHHHHHHHHHHhhhccccCCCCCCCcCcEEee-cccCCCCCCCCCCcCcccccc
Q 010783 386 GKMHGFMRMYWA----KKI-LEWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSI-CGVHDQGWKERPVFGKIRYMN 459 (501)
Q Consensus 386 G~mhnr~Rm~va----k~L-idWr~G~~~a~~~~~~f~~~yliD~d~a~n~g~wqw~a-~G~~~~~~~~~pyfg~~R~fn 459 (501)
||||||+||||| |+| |||+.|++ ||+++ |||||+|+|+|||||+| +|+|++ ||| |+||
T Consensus 140 G~mHn~~R~~vasfl~k~l~i~W~~g~~-------~f~~~-liD~d~a~n~~~wqw~ag~g~d~~-----~~~---r~~n 203 (277)
T PF03441_consen 140 GWMHNRLRMIVASFLTKDLLIDWREGAE-------WFAEH-LIDYDPASNYGNWQWAAGTGTDAK-----PYF---RIFN 203 (277)
T ss_dssp S---HHHHHHHHHHHHHTSHBHHHHHHH-------HHHHH-HTT--HHHHHHHHHHHTTSSSTGC-----STT---THHH
T ss_pred CcccHHHHHHHHHHHHHhccCCccccHH-------HHHHH-hhccCcchHHHHHHHHHhhccccC-----ccc---cccC
Confidence 999999999987 888 99999999 99999 89999999999999999 477764 999 9999
Q ss_pred cchhhhcCCccc-hHHhhhhhhcCCCccccccc
Q 010783 460 YSGCKRKFDVDG-YIAYVKRIVGGTKKRRADSL 491 (501)
Q Consensus 460 p~~q~~k~Dp~g-yIr~wvPeL~~~~~~~~~~~ 491 (501)
|++|+++|||+| |||+|||||++||++.||.-
T Consensus 204 p~~q~~~~Dp~g~~ir~w~PeL~~~~~~~ih~p 236 (277)
T PF03441_consen 204 PVKQSKKFDPDGEYIRRWVPELADLPDEYIHEP 236 (277)
T ss_dssp HHHHHHHHSTTSHHHHHHSGGGTTSTHHHHTSC
T ss_pred chHHHHhhCcHHHHHHHHHHHHhcCChhheeCh
Confidence 999999999999 99999999999999999874
No 8
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=100.00 E-value=8.6e-64 Score=520.00 Aligned_cols=424 Identities=17% Similarity=0.192 Sum_probs=315.2
Q ss_pred CCCcEEEEEeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEecCCcc---ccchhHHHHHHHHHHHHHHHHHhhcCCeEEE
Q 010783 27 KRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFL---GAKARQLGFMLRGLRLLQRNIEETFQILFFL 103 (501)
Q Consensus 27 ~~~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~---~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v 103 (501)
.+.++|+|||+|||++|||||.+|+. ...+|+||||+||+.. ..|..+++||.++|++|+++| +++|++|++
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 46789999999999999999987765 4569999999999864 578999999999999999999 999999999
Q ss_pred EecChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh-CCCceEEEEecceEEeCccc---ccCCCCccchhhHH
Q 010783 104 FQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVA---SEKLEYSAKTLRGK 179 (501)
Q Consensus 104 ~~G~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l-~~gi~~~~~~~~~l~~p~~~---~~~~~y~~ft~~~~ 179 (501)
.+|.|+++|..+.++.+++.|.+++......+.+|..++..+ ..|+.+.+...++++.++.+ +.++++.++..|+.
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 999999999999999999999975433333367789999888 48999999999999999853 23566666666665
Q ss_pred HHhhCCCcCCCCCCCCCCCCccCC-CCCCCChHHHHHHHhhcC---CCCCccccCCCcHHHHHHHHhcchhHHHhhhc--
Q 010783 180 INKLLPEYLIDYPMLEQPIEKWTG-TRQSIDWDSIIAAVLRKG---AEVPEIGWCESGEDAAMEVLKGSKDGFLTKRL-- 253 (501)
Q Consensus 180 ~~~~~~~~~~~~p~~~~~~~p~~~-~~~~~~~~~~~~~~~~~~---~~~~~~~~~~gGe~~A~~~L~~~~~~Fl~~~l-- 253 (501)
....+.....|.-.......+... .....+.....+.++.+. ...... .+.+|++.|+.+| +.|+...+
T Consensus 158 ~~~~~~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~~~~~~-~~~~g~s~al~~l----~~~l~~~~~~ 232 (531)
T KOG0133|consen 158 VCQSMSAPKIPALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPSNYGEV-VWRGGESEALKRL----DAHLKVPLWV 232 (531)
T ss_pred cccccccccccccccccccCCCChhhhhhcccccccCCchhhccCccccccc-ccCCcccchhHHH----HHHhhHHHHH
Confidence 544332211110000000000000 000000000011111111 111122 2689999999999 99998763
Q ss_pred cCCCCCCCCCCC--CCCCCCCccccccCcccHHHHHHH--HHHHhhhCCcccccccccccHH-HHHHHhHhHHHHHHHHH
Q 010783 254 KNYPTDRNNPLK--PRALSGLSPYLHFGQISAQRCALE--ARKARKLCPELLYLPATLKAID-TFLEELIVRRELADNFC 328 (501)
Q Consensus 254 ~~Y~~~Rd~p~~--~~~tS~LSpyL~~G~IS~R~v~~~--~~~~~~~~~~~~~~~~~~~~~~-~fi~eL~wRrEf~~~~~ 328 (501)
.++......+.. ..+++.|||||+|||+|+|.+++. ..+...... ....+.+ .|+.||+|| ||+|+.+
T Consensus 233 an~~~~~~~~~~~~~~s~~~Ls~yL~fg~~svr~~~~~~~~k~V~~~~~------~~s~~~es~~~~qv~Wr-e~~y~~~ 305 (531)
T KOG0133|consen 233 ANLELRYSNANSRVKISTTVLSPYLKFGCLSVRYFYRCVRLKQVKWKAK------KNSLPPESLFLGQVAWR-EFFYTAA 305 (531)
T ss_pred hhhhccccccchhcCCCccccccceeeccceeEeehhHhHHHHHHHhhh------cccCCccccccceeeee-chhhHhh
Confidence 444443333322 156779999999999999999962 222221111 0112234 599999999 9999999
Q ss_pred HhCCCCccccc-----chhhhHhhhhhhccCchhhhhhHHHHHhCCCCchHHhHHHHHHHHhccchhhhHHHHh----c-
Q 010783 329 FYQPNYDSLKG-----AWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWA----K- 398 (501)
Q Consensus 329 ~~~p~~~~~~~-----~~~w~~~~~~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~va----k- 398 (501)
..+|.++.+.+ .++|.+ +. ..+.+|++|+||||+|||+||||.+||||||+.|+++| +
T Consensus 306 ~n~p~~~~m~~n~~~~~ipw~~--------n~----~~~~aw~~G~tG~P~ida~m~~l~~~gw~h~~~R~~vasf~tr~ 373 (531)
T KOG0133|consen 306 FNTPYFDDMPGNKILLQIPWDK--------NP----PKLAAWLEGLTGYPWLDAGMRQLLASGWEHHRSRTIVASFLTRG 373 (531)
T ss_pred cCCccccccccccccccCCccc--------Ch----hhhHHHHcCCCCCCchhHHHHHHHHHHHHhcccchhhHhHhhcc
Confidence 98898765543 356753 12 25899999999999999999999999999999999998 5
Q ss_pred cc-ccCCCCHHHHHHHHHHHhhhccccCCCCCCCcCcEEee-cccCCCCCCCCCCcCcccccccchhhhcCCccc-hHHh
Q 010783 399 KI-LEWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSI-CGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAY 475 (501)
Q Consensus 399 ~L-idWr~G~~~a~~~~~~f~~~yliD~d~a~n~g~wqw~a-~G~~~~~~~~~pyfg~~R~fnp~~q~~k~Dp~g-yIr~ 475 (501)
+| |+|++|.+ +|++. |+|+|...|.|||||.+ ++.+.+ +++ |+|||+.+++++||+| |||+
T Consensus 374 ~L~i~w~eg~~-------~F~~~-llD~D~~~~agnW~~~S~~s~f~~-----~~~---~~ysp~~~~kk~dP~g~yir~ 437 (531)
T KOG0133|consen 374 DLLISWREGLD-------VFMEY-LLDADSSKNAGNWMWLSSTSHFFD-----QFD---RVYSPVALGKKLDPDGLYIRQ 437 (531)
T ss_pred ceeeeHHHHHH-------HHHHH-hcchhhhcCCCccceecccccccc-----ccc---cccCHHHHhCcCCcchhhHHH
Confidence 78 99999999 99997 99999999999999998 566664 778 9999999999999999 9999
Q ss_pred hhhhhcCCCcccccccccCC
Q 010783 476 VKRIVGGTKKRRADSLVSGK 495 (501)
Q Consensus 476 wvPeL~~~~~~~~~~~~~~~ 495 (501)
|+|||++.|...|+.--.++
T Consensus 438 ~lp~l~~~p~~~i~~pW~~p 457 (531)
T KOG0133|consen 438 WLPELRSGPMHFIYEPWAAP 457 (531)
T ss_pred HhHHHhcCCcceeccCCCCc
Confidence 99999999999776544333
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=1.1e-31 Score=247.38 Aligned_cols=147 Identities=25% Similarity=0.353 Sum_probs=124.2
Q ss_pred EEEEEeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEecCCc-c--ccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEecC
Q 010783 31 VVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQF-L--GAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE 107 (501)
Q Consensus 31 ~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~-~--~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G~ 107 (501)
+|+|||||||++||+||++|++ .+.+|+||||+||.. . ..|++|.+|+++||.+|+++| +++|++|+++.|+
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 578999999999973 2 249999999999999999999 9999999999999
Q ss_pred hhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhC-CCceEEEEecceEEeCccc--ccCCCCccchhhHHHHh
Q 010783 108 AEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVS-DSVTIHEVDAHNVVPVWVA--SEKLEYSAKTLRGKINK 182 (501)
Q Consensus 108 ~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~-~gi~~~~~~~~~l~~p~~~--~~~~~y~~ft~~~~~~~ 182 (501)
+.++|.+|+++++|++|+++.++...++++|++|++.|+ .||.++.+++++|++|+.+ ..+.+|++||+|++.+.
T Consensus 76 ~~~~l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~L~~~~~i~~~~~~~~~vFtpf~k~~~ 153 (165)
T PF00875_consen 76 PEEVLPELAKEYGATAVYFNEEYTPYERRRDERVRKALKKHGIKVHTFDDHTLVPPDDIPKKDGEPYKVFTPFRKKWE 153 (165)
T ss_dssp HHHHHHHHHHHHTESEEEEE---SHHHHHHHHHHHHHHHHTTSEEEEE--SSSS-HHHCHSTTSSSHSSHHHHHHHHH
T ss_pred hHHHHHHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHHhcceEEEEECCcEEEeccccccCCCCCcccHHHHHHHHH
Confidence 999999999999999999998888888999999999995 8999999999999999864 35788999999987654
No 10
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=99.97 E-value=1e-29 Score=251.72 Aligned_cols=381 Identities=16% Similarity=0.169 Sum_probs=271.5
Q ss_pred CcEEEEEeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEecC-CccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEecC
Q 010783 29 GPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFD-QFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE 107 (501)
Q Consensus 29 ~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp-~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G~ 107 (501)
..+++|.-.|.-.++++||.. . ++...|+.|-.-.. .+...+..++.++..+++++.++| +..|..+....-+
T Consensus 2 ~~~~~lvLgdQL~~~~~al~~--d---~~~~~vllvE~~~~a~~~r~HkqKl~lv~aAMR~Fad~L-raeG~~V~Y~~~~ 75 (505)
T COG3046 2 MSSVVLVLGDQLSEDHSALGD--D---RSQDGVLLVESAAEARYRRHHKQKLVLVFAAMRHFADEL-RAEGLKVRYERAD 75 (505)
T ss_pred CceEEEEeccccccccchhcc--C---cccCcEEEehhHhHhhhhhcchhhhHHHHHHHHHHHHHH-hhCCceeEEEEcC
Confidence 467899999999999988765 1 12334544433221 123567899999999999999999 9999998777654
Q ss_pred h---hhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh-CCCceEEEEec-ceEEeCccc----ccCCCCccchhhH
Q 010783 108 A---EDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDA-HNVVPVWVA----SEKLEYSAKTLRG 178 (501)
Q Consensus 108 ~---~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l-~~gi~~~~~~~-~~l~~p~~~----~~~~~y~~ft~~~ 178 (501)
+ ...|...++.++.+.|++.. |... .....+++.- ..||++..+++ |.|.++..+ .+.++.....||+
T Consensus 76 ~~~~~~~l~~~l~~~~~d~~~~~~-p~~~--~l~~~m~~L~~~~g~~i~~~~~~~Fl~s~a~f~~w~~~~k~~lme~FYr 152 (505)
T COG3046 76 DNSFGGELRRALEAYPGDRVQVQE-PGDH--RLEARMKSLSMALGIEITEVENPHFLCSRAEFDAWAGDRKPLLMESFYR 152 (505)
T ss_pred CcccchHHHHHHHhcCCCeEEEec-Ccch--hHHHHHHhhhhhcCceeEEecCcceecCHHHhhhhhccCcchhhHHHHH
Confidence 4 56678888999999999965 3321 2223343332 24999999977 577777653 3456677778888
Q ss_pred HHHhhCCCcCCCC-CCC-------------CC---CCCccCCCCCCCChHHHHHHHh----h-cCCCCCccccCCCcHHH
Q 010783 179 KINKLLPEYLIDY-PML-------------EQ---PIEKWTGTRQSIDWDSIIAAVL----R-KGAEVPEIGWCESGEDA 236 (501)
Q Consensus 179 ~~~~~~~~~~~~~-p~~-------------~~---~~~p~~~~~~~~~~~~~~~~~~----~-~~~~~~~~~~~~gGe~~ 236 (501)
++++.++..|..- |.- .| .+.|....++.+ .+++...++ + +| ++ +.+.|+.+.++
T Consensus 153 ~mRkr~g~LM~~dqP~GGrWnFDaeNR~~~~pdL~~P~pl~fppd~~-vq~v~e~Ve~~f~~~~G-~~-e~F~wpvtr~~ 229 (505)
T COG3046 153 RMRKRTGILMEDDQPEGGRWNFDAENRKKLPPDLLPPKPLKFPPDEI-VQEVKERVERLFPDNFG-QV-EGFGWPVTRTQ 229 (505)
T ss_pred HHHHhhceeccCCCCCCCcCCcCcccccCCCCcCCCCCCCCCCCcch-hHHHHHHHHhhCCCCCC-cc-ccCCCCCCHHH
Confidence 8888765444311 100 00 011111111111 112211111 1 22 33 33457999999
Q ss_pred HHHHHhcchhHHHhhhccCCCCCCCCCCC---CCCCCCCccccccCcccHHHHHHHHHHHhhhCCcccccccccccHHHH
Q 010783 237 AMEVLKGSKDGFLTKRLKNYPTDRNNPLK---PRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTF 313 (501)
Q Consensus 237 A~~~L~~~~~~Fl~~~l~~Y~~~Rd~p~~---~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~~~~~~f 313 (501)
|...| ++|+..+|.+|+..+|.+.. .-.+|.||+||+.|.|+|.+|+.++.+++.... .+.+++|+|
T Consensus 230 A~~~L----~~Fi~~~L~nFG~yQDam~~d~~~L~HSllS~alNigLL~PleVi~Aa~~Ay~~g~------ipLN~VEGF 299 (505)
T COG3046 230 ALRAL----KHFIADRLPNFGSYQDAMSADDPHLWHSLLSFALNIGLLTPLEVIRAALKAYREGD------IPLNSVEGF 299 (505)
T ss_pred HHHHH----HHHHHHhhhcCCcHHHHHhcCCchhHHHHHHHHhhccCCCHHHHHHHHHHhhccCC------CchHHHHHH
Confidence 99999 99999999999999998743 127999999999999999999999998887543 466889999
Q ss_pred HHHhHhHHHHHHHHHHhC-CCCcccccchhhhHhhhhhhccCchhhhhhHHHHHhCCCCchHHhHHHHHHHHhccchhhh
Q 010783 314 LEELIVRRELADNFCFYQ-PNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFM 392 (501)
Q Consensus 314 i~eL~wRrEf~~~~~~~~-p~~~~~~~~~~w~~~~~~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~ 392 (501)
+|||+.||||.++++... |.|.+-+ |- +. .++ .-....+|+|++.|++-+.++...+||-||+.
T Consensus 300 vRQiiGWREfmRgiY~~~~P~y~trN----~f----~~----d~~---Lp~~yw~g~T~M~cl~~av~~v~d~gYAHHIq 364 (505)
T COG3046 300 VRQIIGWREFMRGIYWLKMPDYATRN----FF----NA----DRK---LPPFYWTGQTKMACLAIAVGRVLDHGYAHHIQ 364 (505)
T ss_pred HHHHhhHHHHHHHhhhhcCCchhhhh----hh----cc----CCC---CCCccccCCcCchHHHHHHHHHhhhhHHHHHH
Confidence 999999999999998764 8876432 21 10 111 11224488999999999999999999999999
Q ss_pred HHHHhccc-ccCCCCHHHHHHHHHHHhhhccccCC----CCCCCcCcEEeecccCCCCCCCCCCcCc
Q 010783 393 RMYWAKKI-LEWTTGPEEALAIAIYLNDKYEIDGR----DPNGYVGCMWSICGVHDQGWKERPVFGK 454 (501)
Q Consensus 393 Rm~vak~L-idWr~G~~~a~~~~~~f~~~yliD~d----~a~n~g~wqw~a~G~~~~~~~~~pyfg~ 454 (501)
|.||..|+ +--...++ +...||+..| ||+. .||.+|+-|++.+|.-++ |||..+
T Consensus 365 RLMV~gNfALl~G~dPd---~v~~Wf~~~f-iDAYdWV~~PNv~GM~qFADGG~iat----KPYasS 423 (505)
T COG3046 365 RLMVTGNFALLLGVDPD---AVDRWFMEVF-IDAYDWVELPNVRGMSQFADGGLIAT----KPYASS 423 (505)
T ss_pred HHHHHhhHHHHhCCCHH---HHHHHHHHHH-hhHhhheecccccchhhcccCceeec----Cccccc
Confidence 99999987 65566666 5577999994 9987 599999999998888876 898743
No 11
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=98.92 E-value=3.4e-12 Score=134.43 Aligned_cols=441 Identities=27% Similarity=0.321 Sum_probs=262.6
Q ss_pred cccccccccccCccCCCCC--cEEEEEeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEecCC-ccccchhHHHHHHHHHH
Q 010783 11 VQPGRIRVLKQGSLDKKRG--PVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQ-FLGAKARQLGFMLRGLR 87 (501)
Q Consensus 11 ~~~~r~~~~~~~~~~~~~~--~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~-~~~~~~~r~~Fl~esL~ 87 (501)
+..++|.++...-...... ...+|.-++-++.||.++..|...+.+--.++-.+++ ++. .+..+..+--+++.+.+
T Consensus 78 ~~~~p~~vl~~~~~~~~~~~l~~~~~~~p~~~vrD~~~~~~a~~l~i~v~s~~s~~~~-~~~~~i~~n~~k~pls~~~~~ 156 (531)
T KOG0133|consen 78 FRGHPIAVLSRLLEQVGVQKLKFEYDMEPDGKVRDATIKSLATELGLSVVSPVSHTLY-LPDKIIEANGGKPPLSYKTFR 156 (531)
T ss_pred EeCCchHHHhhhhhccceeEEEEEEeccCccccccHHHHHHHHHhhhhhcccCchhhh-cHHHHHHhcCCCCcccccccc
Confidence 4555777666533311222 3568999999999999999998754332222222222 332 34566777888888888
Q ss_pred HHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh-CCCceEEEEecceEEeCcccc
Q 010783 88 LLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVAS 166 (501)
Q Consensus 88 ~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l-~~gi~~~~~~~~~l~~p~~~~ 166 (501)
....+. ...-++.++..+...+..+.++...+..+++...++.......-..+. +. ......+..+.+...+-+..+
T Consensus 157 ~~~~~~-~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~~~~~~~-~~~g~s~al~~l~~~l~~~~~~an 234 (531)
T KOG0133|consen 157 GVCQSM-SAPKIPALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPSNYGEVV-WRGGESEALKRLDAHLKVPLWVAN 234 (531)
T ss_pred cccccc-ccccccccccccccCCCChhhhhhcccccccCCchhhccCcccccccc-cCCcccchhHHHHHHhhHHHHHhh
Confidence 888888 777788888899999999999998888888876554332111000010 11 011222222222222222212
Q ss_pred cCCCCccchhhHHHHhhCCCcCCCCCCCCC--CCCccC-CCCCCCChHHHHHHHhhcCCCCCccccCCCcHHHHHHHHhc
Q 010783 167 EKLEYSAKTLRGKINKLLPEYLIDYPMLEQ--PIEKWT-GTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKG 243 (501)
Q Consensus 167 ~~~~y~~ft~~~~~~~~~~~~~~~~p~~~~--~~~p~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~ 243 (501)
...+|..-+...+.- +..+.|+-..-. ...+.. .....+++.....+....+..+....|-..+++.|-...+
T Consensus 235 ~~~~~~~~~~~~~~s---~~~Ls~yL~fg~~svr~~~~~~~~k~V~~~~~~~s~~~es~~~~qv~Wre~~y~~~~n~p~- 310 (531)
T KOG0133|consen 235 LELRYSNANSRVKIS---TTVLSPYLKFGCLSVRYFYRCVRLKQVKWKAKKNSLPPESLFLGQVAWREFFYTAAFNTPY- 310 (531)
T ss_pred hhccccccchhcCCC---ccccccceeeccceeEeehhHhHHHHHHHhhhcccCCccccccceeeeechhhHhhcCCcc-
Confidence 222222221110000 001111111000 000000 0000111111000000001112334455677888877772
Q ss_pred chhHHHhhhccCCCCCCCCCCCCCCCCCCc--cccccCcccHHHHHHHHHHHhhhCCcccccccccccHHHHHHHhHhHH
Q 010783 244 SKDGFLTKRLKNYPTDRNNPLKPRALSGLS--PYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRR 321 (501)
Q Consensus 244 ~~~~Fl~~~l~~Y~~~Rd~p~~~~~tS~LS--pyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~~~~~~fi~eL~wRr 321 (501)
..+-+....+..+...+|.+......++++ |+|.+|+++.++.-....... ... .+...+-..++-||
T Consensus 311 ~~~m~~n~~~~~ipw~~n~~~~~aw~~G~tG~P~ida~m~~l~~~gw~h~~~R-~~v---------asf~tr~~L~i~w~ 380 (531)
T KOG0133|consen 311 FDDMPGNKILLQIPWDKNPPKLAAWLEGLTGYPWLDAGMRQLLASGWEHHRSR-TIV---------ASFLTRGDLLISWR 380 (531)
T ss_pred ccccccccccccCCcccChhhhHHHHcCCCCCCchhHHHHHHHHHHHHhcccc-hhh---------HhHhhccceeeeHH
Confidence 222445556778888887776436788999 999999999998877754322 111 12222322344344
Q ss_pred HHHHHHHHhCCCCcccccchhhhHhhhhhhccCchhhhhhHHHHHhCCCCchHHhHHHHHHHHhccchhhhHHHHhcccc
Q 010783 322 ELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKIL 401 (501)
Q Consensus 322 Ef~~~~~~~~p~~~~~~~~~~w~~~~~~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~vak~Li 401 (501)
|=..+++.+..++|...+.-.|...++..+..++.+..+.......+-|-.++.++..-+....|=|| .++|.|++.+.
T Consensus 381 eg~~~F~~~llD~D~~~~agnW~~~S~~s~f~~~~~~~ysp~~~~kk~dP~g~yir~~lp~l~~~p~~-~i~~pW~~p~~ 459 (531)
T KOG0133|consen 381 EGLDVFMEYLLDADSSKNAGNWMWLSSTSHFFDQFDRVYSPVALGKKLDPDGLYIRQWLPELRSGPMH-FIYEPWAAPEG 459 (531)
T ss_pred HHHHHHHHHhcchhhhcCCCccceeccccccccccccccCHHHHhCcCCcchhhHHHHhHHHhcCCcc-eeccCCCCcHH
Confidence 99999999888887554444566555333323444434567788888999999999999999999999 99999998886
Q ss_pred cCCCCHHHHHHHHHHHhhhccccCCCCCCCcCcEEeecccCCCCCCCCCCcCcccccccchhhhcCCc
Q 010783 402 EWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDV 469 (501)
Q Consensus 402 dWr~G~~~a~~~~~~f~~~yliD~d~a~n~g~wqw~a~G~~~~~~~~~pyfg~~R~fnp~~q~~k~Dp 469 (501)
.|+.+.+++..-+..+...+-+|+..++-+++.+|+.+++.++||.+.|.|+++|.+|+....++++.
T Consensus 460 ~~~~~~~~lg~~Yp~~iv~~~~a~k~~~e~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~ 527 (531)
T KOG0133|consen 460 VQTAAGELLGVDYPKPIVKLASAAKRNMEAMGCMWSIGAVHDMGWKEEPSFRKGRYMNYSGCRRKFNV 527 (531)
T ss_pred HhhhhhhhhhcccchhhhhhHHhhHhHHHHHHHHHhhccccccccccccchhhhhhhchhhcccccCC
Confidence 66666665655555555555566778899999999998888889999999999999999887666654
No 12
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=97.90 E-value=5.4e-05 Score=72.99 Aligned_cols=149 Identities=10% Similarity=0.075 Sum_probs=85.1
Q ss_pred EEEEeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEecCC-ccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEecC---
Q 010783 32 VYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQ-FLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE--- 107 (501)
Q Consensus 32 l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~-~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G~--- 107 (501)
|+|.--|.-..++++|.. .. .+..|+-+-+.... +...+..++.+++.|++++.++| ++.|..+.+..-+
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 567777888889988866 22 23344434332211 23578899999999999999999 9999999888743
Q ss_pred ----hhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhC-CCceEEEEecc-eEEeCccc----ccCCCCccchhh
Q 010783 108 ----AEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVS-DSVTIHEVDAH-NVVPVWVA----SEKLEYSAKTLR 177 (501)
Q Consensus 108 ----~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~-~gi~~~~~~~~-~l~~p~~~----~~~~~y~~ft~~ 177 (501)
-.+.|.+++++++++.|.+.. |.. ....+.++++++ .||+++.+++. .|.++... .+++.+.+..||
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 357888999999999999866 444 345678888884 89999999875 44555542 345678888888
Q ss_pred HHHHhhCCCcCC
Q 010783 178 GKINKLLPEYLI 189 (501)
Q Consensus 178 ~~~~~~~~~~~~ 189 (501)
+.+++..+.+|.
T Consensus 152 R~mRkr~~ILmd 163 (224)
T PF04244_consen 152 REMRKRFGILMD 163 (224)
T ss_dssp HHHHHHHTTTE-
T ss_pred HHHHHHcCcccc
Confidence 888888776663
No 13
>PRK09982 universal stress protein UspD; Provisional
Probab=92.35 E-value=1.1 Score=39.74 Aligned_cols=108 Identities=15% Similarity=0.043 Sum_probs=66.6
Q ss_pred CHHHHHHHHHHhhCCCCEEEEEEecCCcc---cc--c---h---hHHHHHHHHHHHHHHHHHhhcCCeEEEEecChhhHH
Q 010783 44 NWALIHAVDQANKNNVPVAVAFNLFDQFL---GA--K---A---RQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNI 112 (501)
Q Consensus 44 N~aL~~A~~~a~~~~~~vl~vfi~dp~~~---~~--~---~---~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G~~~~~l 112 (501)
..||.+|++.|++.+..|..+++.++... .. . . .......+.|+.+.+++ ...++...+..|+|.+.|
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 57888899888777778998999875311 00 0 0 11112223344555555 444577788889999999
Q ss_pred HHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh-C-CCceEEEE
Q 010783 113 PNFVRECGASLLVTDFSPLREIRRCKDKICNRV-S-DSVTIHEV 154 (501)
Q Consensus 113 ~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l-~-~gi~~~~~ 154 (501)
.+.+++.+++-|+.-..-... ...- .+.+.. . ..++|..+
T Consensus 96 ~~~A~~~~aDLIVmG~~~~~~-~~~~-~va~~V~~~s~~pVLvv 137 (142)
T PRK09982 96 LEIMQKEQCDLLVCGHHHSFI-NRLM-PAYRGMINKMSADLLIV 137 (142)
T ss_pred HHHHHHcCCCEEEEeCChhHH-HHHH-HHHHHHHhcCCCCEEEe
Confidence 999999999999994222121 1112 244443 3 46666554
No 14
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=91.30 E-value=2.1 Score=44.41 Aligned_cols=108 Identities=13% Similarity=0.128 Sum_probs=66.7
Q ss_pred CHHHHHHHHHHhhC--CCCEEEEEEecCCccccchhH-HHHHHHHHHHHHHHHHhh------cCCeEEEE--e-------
Q 010783 44 NWALIHAVDQANKN--NVPVAVAFNLFDQFLGAKARQ-LGFMLRGLRLLQRNIEET------FQILFFLF--Q------- 105 (501)
Q Consensus 44 N~aL~~A~~~a~~~--~~~vl~vfi~dp~~~~~~~~r-~~Fl~esL~~L~~~L~~~------~G~~L~v~--~------- 105 (501)
..|+.+|++.|++. +..|..|++.++......... ..---+-++...+.+ ++ .|+..... .
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 35788899888764 468888999886432111100 011122344555554 33 47664333 2
Q ss_pred -cChhhHHHHHHHHhCCCEEEEc--CCcchHHHHHHHHHHHHh-CCCceEEE
Q 010783 106 -GEAEDNIPNFVRECGASLLVTD--FSPLREIRRCKDKICNRV-SDSVTIHE 153 (501)
Q Consensus 106 -G~~~~~l~~L~~~~~i~~V~~~--~~p~~~~~~rd~~v~~~l-~~gi~~~~ 153 (501)
|++.+.|.+.+++++++.|+.+ |.|... -.+-+-++..| ..|+.+++
T Consensus 98 ~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 148 (357)
T PRK12652 98 PGDYAEVLIAYAEEHGIDRVVLDPEYNPGGT-APMLQPLERELARAGITYEE 148 (357)
T ss_pred CCCHHHHHHHHHHHcCCCEEEECCCCCCCCC-CcccchHHHHHHhcCCceec
Confidence 8999999999999999999995 555432 22345555556 36776665
No 15
>PRK15005 universal stress protein F; Provisional
Probab=91.24 E-value=2.1 Score=37.51 Aligned_cols=82 Identities=11% Similarity=0.115 Sum_probs=53.6
Q ss_pred HHHHHHHHHHhhCCCCEEEEEEecCCcc----cc-----chhH---HHHHHHHHHHHHHHHHhhcC--CeEEEEecChhh
Q 010783 45 WALIHAVDQANKNNVPVAVAFNLFDQFL----GA-----KARQ---LGFMLRGLRLLQRNIEETFQ--ILFFLFQGEAED 110 (501)
Q Consensus 45 ~aL~~A~~~a~~~~~~vl~vfi~dp~~~----~~-----~~~r---~~Fl~esL~~L~~~L~~~~G--~~L~v~~G~~~~ 110 (501)
.||..|...|.+.+.+|..++++++... .. .... ..-..+.|..+.+++ ...| +...+..|+|.+
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 5777788777777778888999875311 00 0011 111223444444444 4334 356788899999
Q ss_pred HHHHHHHHhCCCEEEEc
Q 010783 111 NIPNFVRECGASLLVTD 127 (501)
Q Consensus 111 ~l~~L~~~~~i~~V~~~ 127 (501)
.|.+.+++.+++-|+.-
T Consensus 98 ~I~~~a~~~~~DLIV~G 114 (144)
T PRK15005 98 RILELAKKIPADMIIIA 114 (144)
T ss_pred HHHHHHHHcCCCEEEEe
Confidence 99999999999999983
No 16
>PRK10116 universal stress protein UspC; Provisional
Probab=91.23 E-value=7.3 Score=33.92 Aligned_cols=111 Identities=17% Similarity=0.103 Sum_probs=66.2
Q ss_pred cCCHHHHHHHHHHhhCCCCEEEEEEecCCcc--cc-----chhHHHHHHHHHHHHHHHHHhhcCCe---EEEEecChhhH
Q 010783 42 RDNWALIHAVDQANKNNVPVAVAFNLFDQFL--GA-----KARQLGFMLRGLRLLQRNIEETFQIL---FFLFQGEAEDN 111 (501)
Q Consensus 42 ~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~--~~-----~~~r~~Fl~esL~~L~~~L~~~~G~~---L~v~~G~~~~~ 111 (501)
....+|..|+..|.+.+.++..++++++... .. ...+....-+..+.|++.. ++.|++ ..+..|++.+.
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 3468999999888777778887888764211 11 1111122222223344434 455653 46667999999
Q ss_pred HHHHHHHhCCCEEEEc-CCcchHHHHHHHHHHHHh-C-CCceEEEEe
Q 010783 112 IPNFVRECGASLLVTD-FSPLREIRRCKDKICNRV-S-DSVTIHEVD 155 (501)
Q Consensus 112 l~~L~~~~~i~~V~~~-~~p~~~~~~rd~~v~~~l-~-~gi~~~~~~ 155 (501)
|.+.+++.+++-|+.. .......+. -.+.+.+ . .++++-.+.
T Consensus 94 I~~~a~~~~~DLiV~g~~~~~~~~~~--~s~a~~v~~~~~~pVLvv~ 138 (142)
T PRK10116 94 ILEVCRKHHFDLVICGNHNHSFFSRA--SCSAKRVIASSEVDVLLVP 138 (142)
T ss_pred HHHHHHHhCCCEEEEcCCcchHHHHH--HHHHHHHHhcCCCCEEEEe
Confidence 9999999999999993 323222222 2344444 3 577776653
No 17
>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=90.42 E-value=4 Score=35.83 Aligned_cols=85 Identities=12% Similarity=0.016 Sum_probs=55.3
Q ss_pred cCCHHHHHHHHHHhhCCCCEEEEEEecCCcccc---c---------hhHHHHHHHHHHHHHHHHHhhcCCe--EEEEec-
Q 010783 42 RDNWALIHAVDQANKNNVPVAVAFNLFDQFLGA---K---------ARQLGFMLRGLRLLQRNIEETFQIL--FFLFQG- 106 (501)
Q Consensus 42 ~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~---~---------~~r~~Fl~esL~~L~~~L~~~~G~~--L~v~~G- 106 (501)
.-..||..|++.|.+.+.++..+++.++..... + .....-..+.|+.+.+.+ ++.|+. ..+..|
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 334688888888877778899999987632211 0 000112233444455555 555654 455565
Q ss_pred ChhhHHHHHHHHhCCCEEEEc
Q 010783 107 EAEDNIPNFVRECGASLLVTD 127 (501)
Q Consensus 107 ~~~~~l~~L~~~~~i~~V~~~ 127 (501)
++.+.|.+.+++++++.|+.-
T Consensus 90 ~~~~~I~~~a~~~~~dlIV~G 110 (146)
T cd01989 90 DVAKAIVEYVADHGITKLVMG 110 (146)
T ss_pred cHHHHHHHHHHHcCCCEEEEe
Confidence 889999999999999999993
No 18
>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=89.55 E-value=4.9 Score=34.23 Aligned_cols=82 Identities=13% Similarity=0.007 Sum_probs=57.4
Q ss_pred CHHHHHHHHHHhhCCCCEEEEEEecCCccc-c--chhHHHHHHHHHHHHHHHHHhhcCCeEEEE---ecChhhHHHHHHH
Q 010783 44 NWALIHAVDQANKNNVPVAVAFNLFDQFLG-A--KARQLGFMLRGLRLLQRNIEETFQILFFLF---QGEAEDNIPNFVR 117 (501)
Q Consensus 44 N~aL~~A~~~a~~~~~~vl~vfi~dp~~~~-~--~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~---~G~~~~~l~~L~~ 117 (501)
..+|..|...|...+.+|..++++++.... . ......-..+.+..+.+.+ ++.|++.... .|++.+.|.++++
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 356777877776666789999998863211 0 1122334456667777777 7788775432 4788899999999
Q ss_pred HhCCCEEEE
Q 010783 118 ECGASLLVT 126 (501)
Q Consensus 118 ~~~i~~V~~ 126 (501)
+++++-|++
T Consensus 92 ~~~~dlIV~ 100 (132)
T cd01988 92 ERQADLIIM 100 (132)
T ss_pred hcCCCEEEE
Confidence 999999999
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=89.48 E-value=4.6 Score=34.30 Aligned_cols=80 Identities=16% Similarity=0.143 Sum_probs=57.5
Q ss_pred CCHHHHHHHHHHhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEE-ecChhhHHHHHHHHhCC
Q 010783 43 DNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLF-QGEAEDNIPNFVRECGA 121 (501)
Q Consensus 43 DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~-~G~~~~~l~~L~~~~~i 121 (501)
...+|..|+..|.+.+.++..|++.++....... .. .+.|..+.+.+ ++.+++..+. .|++.+.|.+.++++++
T Consensus 12 s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~-~~---~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~I~~~~~~~~~ 86 (124)
T cd01987 12 AERLIRRAARLADRLKAPWYVVYVETPRLNRLSE-AE---RRRLAEALRLA-EELGAEVVTLPGDDVAEAIVEFAREHNV 86 (124)
T ss_pred hHHHHHHHHHHHHHhCCCEEEEEEecCccccCCH-HH---HHHHHHHHHHH-HHcCCEEEEEeCCcHHHHHHHHHHHcCC
Confidence 4567888888887777899999998864321111 11 23456666667 7778876554 45788999999999999
Q ss_pred CEEEEc
Q 010783 122 SLLVTD 127 (501)
Q Consensus 122 ~~V~~~ 127 (501)
+.|+.-
T Consensus 87 dllviG 92 (124)
T cd01987 87 TQIVVG 92 (124)
T ss_pred CEEEeC
Confidence 999994
No 20
>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=88.99 E-value=6.1 Score=32.92 Aligned_cols=84 Identities=17% Similarity=0.117 Sum_probs=58.8
Q ss_pred CCHHHHHHHHHHhhCCCCEEEEEEecCCcccc---chhHHHHHHHHHHHHHHHHHhhcCCeE--EEEecChhhHHHHHHH
Q 010783 43 DNWALIHAVDQANKNNVPVAVAFNLFDQFLGA---KARQLGFMLRGLRLLQRNIEETFQILF--FLFQGEAEDNIPNFVR 117 (501)
Q Consensus 43 DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~---~~~r~~Fl~esL~~L~~~L~~~~G~~L--~v~~G~~~~~l~~L~~ 117 (501)
...++..|...|++.+.++..+++.++..... ......-..+.|..+...+ ...|+++ .+..|++.+.|.+.++
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 34567777777877778999999987642211 1122233446667777666 6678776 4556888899999999
Q ss_pred HhCCCEEEEc
Q 010783 118 ECGASLLVTD 127 (501)
Q Consensus 118 ~~~i~~V~~~ 127 (501)
+.+++.|+..
T Consensus 91 ~~~~dlvvig 100 (130)
T cd00293 91 ELGADLIVMG 100 (130)
T ss_pred HcCCCEEEEc
Confidence 9999999994
No 21
>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=87.00 E-value=4.6 Score=38.95 Aligned_cols=95 Identities=18% Similarity=0.221 Sum_probs=57.5
Q ss_pred HHHHHHHHHhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEe--cC---hhhHHHHHHHHhC
Q 010783 46 ALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--GE---AEDNIPNFVRECG 120 (501)
Q Consensus 46 aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~--G~---~~~~l~~L~~~~~ 120 (501)
||+.|.+ . ..|..++..-|... .+..|-...+..++.+- +.+|+||+... |. -.+.+.+.+++.+
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 5555554 3 46777777665421 23344444666777777 88999998775 22 2344555567779
Q ss_pred CCEEEE-cCCcchHHHHHHHHHHHHhCCCceEEE
Q 010783 121 ASLLVT-DFSPLREIRRCKDKICNRVSDSVTIHE 153 (501)
Q Consensus 121 i~~V~~-~~~p~~~~~~rd~~v~~~l~~gi~~~~ 153 (501)
++.|++ +.. ..+.+.|.+++++.+ |+....
T Consensus 86 v~~vv~GdI~-s~~qr~~~e~vc~~~--gl~~~~ 116 (222)
T TIGR00289 86 VEALCIGAIE-SNYQKSRIDKVCREL--GLKSIA 116 (222)
T ss_pred CCEEEECccc-cHHHHHHHHHHHHHc--CCEEec
Confidence 999999 542 223355666666655 775443
No 22
>PRK15456 universal stress protein UspG; Provisional
Probab=86.01 E-value=7 Score=34.24 Aligned_cols=81 Identities=16% Similarity=0.084 Sum_probs=52.8
Q ss_pred CHHHHHHHHHHhhCCCCEEEEEEecCCcc-c-----c--c---hhHHHHHHHHHHHHHHHHHhhcCC--eEEEEecChhh
Q 010783 44 NWALIHAVDQANKNNVPVAVAFNLFDQFL-G-----A--K---ARQLGFMLRGLRLLQRNIEETFQI--LFFLFQGEAED 110 (501)
Q Consensus 44 N~aL~~A~~~a~~~~~~vl~vfi~dp~~~-~-----~--~---~~r~~Fl~esL~~L~~~L~~~~G~--~L~v~~G~~~~ 110 (501)
..||.+|.+.|... ..+..++++++... . . . .....-..+.|..+.+.+ ...|. ..++..|++.+
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 35777788777654 47888888876321 0 0 0 111222334455555555 44443 56677899999
Q ss_pred HHHHHHHHhCCCEEEE
Q 010783 111 NIPNFVRECGASLLVT 126 (501)
Q Consensus 111 ~l~~L~~~~~i~~V~~ 126 (501)
.|.+.+++++++-|++
T Consensus 96 ~I~~~a~~~~~DLIVm 111 (142)
T PRK15456 96 EVNELAEELGADVVVI 111 (142)
T ss_pred HHHHHHhhcCCCEEEE
Confidence 9999999999999999
No 23
>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=84.98 E-value=7.9 Score=37.39 Aligned_cols=96 Identities=14% Similarity=0.191 Sum_probs=54.9
Q ss_pred HHHHHHHHHHhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEe--cC---hhhHHHHHHHHh
Q 010783 45 WALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--GE---AEDNIPNFVREC 119 (501)
Q Consensus 45 ~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~--G~---~~~~l~~L~~~~ 119 (501)
-||+.|.+ + ..|.++..+-|.. ..+..|..-.+.-++.+- +.+|+||+... +. -.+.|.+++++.
T Consensus 15 ~al~~a~~----~-~~v~~L~t~~~~~----~~s~~~H~~~~~~~~~qA-~algipl~~~~~~~~~e~~~e~l~~~l~~~ 84 (223)
T TIGR00290 15 LALYHALK----E-HEVISLVNIMPEN----EESYMFHGVNAHLTDLQA-ESIGIPLIKLYTEGTEEDEVEELKGILHTL 84 (223)
T ss_pred HHHHHHHH----h-CeeEEEEEEecCC----CCcccccccCHHHHHHHH-HHcCCCeEEeecCCCccHHHHHHHHHHHHc
Confidence 45666665 4 4566666554432 122333222445555555 77999997743 22 345566667777
Q ss_pred CCCEEEE-cCCcchHHHHHHHHHHHHhCCCceEEE
Q 010783 120 GASLLVT-DFSPLREIRRCKDKICNRVSDSVTIHE 153 (501)
Q Consensus 120 ~i~~V~~-~~~p~~~~~~rd~~v~~~l~~gi~~~~ 153 (501)
+++.|++ +.. ..+.+.|.+++++.+ |+....
T Consensus 85 gv~~vv~GdI~-s~~qr~~~e~v~~~l--gl~~~~ 116 (223)
T TIGR00290 85 DVEAVVFGAIY-SEYQKTRIERVCREL--GLKSFA 116 (223)
T ss_pred CCCEEEECCcc-cHHHHHHHHHHHHhc--CCEEec
Confidence 9999999 542 223355556666554 775443
No 24
>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=84.48 E-value=8.9 Score=32.26 Aligned_cols=84 Identities=17% Similarity=0.108 Sum_probs=50.6
Q ss_pred CHHHHHHHHHHhhCCCCEEEEEEecCCccccchhHHHH----HHHHHH-----HHHHHH-HhhcCCeEEEEecChhhHHH
Q 010783 44 NWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGF----MLRGLR-----LLQRNI-EETFQILFFLFQGEAEDNIP 113 (501)
Q Consensus 44 N~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~F----l~esL~-----~L~~~L-~~~~G~~L~v~~G~~~~~l~ 113 (501)
..++..|...|.+.+.+|..++++++............ ..+... ...... .........+..|++.+.+.
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 46777787777777789999999987533111000000 000000 001111 01223455666799999999
Q ss_pred HHHHHhCCCEEEEc
Q 010783 114 NFVRECGASLLVTD 127 (501)
Q Consensus 114 ~L~~~~~i~~V~~~ 127 (501)
+++++.+++.|+.-
T Consensus 96 ~~~~~~~~dliv~G 109 (140)
T PF00582_consen 96 EFAEEHNADLIVMG 109 (140)
T ss_dssp HHHHHTTCSEEEEE
T ss_pred hccccccceeEEEe
Confidence 99999999999993
No 25
>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=82.80 E-value=11 Score=35.65 Aligned_cols=88 Identities=17% Similarity=0.246 Sum_probs=50.7
Q ss_pred CCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEe--cCh---hhH----HHHHHHHhCCCEEEE-
Q 010783 57 NNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--GEA---EDN----IPNFVRECGASLLVT- 126 (501)
Q Consensus 57 ~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~--G~~---~~~----l~~L~~~~~i~~V~~- 126 (501)
.|..|+++++.-|... .+..|-...+..++... +++|+++++.. ++. .+. |.++.++ +++.|++
T Consensus 22 ~G~~v~~l~~~~~~~~----~~~~~h~~~~e~~~~~A-~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~-g~~~vv~G 95 (194)
T cd01994 22 EGHEVVALLNLTPEEG----SSMMYHTVNHELLELQA-EAMGIPLIRIEISGEEEDEVEDLKELLRKLKEE-GVDAVVFG 95 (194)
T ss_pred cCCEEEEEEEEecCCC----CcccccccCHHHHHHHH-HHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHc-CCCEEEEC
Confidence 5778998988765321 11122223566677777 88999998886 221 122 3333444 6999988
Q ss_pred cCCcchHHHHHHHHHHHHhCCCceEEE
Q 010783 127 DFSPLREIRRCKDKICNRVSDSVTIHE 153 (501)
Q Consensus 127 ~~~p~~~~~~rd~~v~~~l~~gi~~~~ 153 (501)
+. .....+.|.+++++.+ |++...
T Consensus 96 ~i-~sd~~~~~~e~~~~~~--gl~~~~ 119 (194)
T cd01994 96 AI-LSEYQRTRVERVCERL--GLEPLA 119 (194)
T ss_pred cc-ccHHHHHHHHHHHHHc--CCEEEe
Confidence 32 1223355566666654 775543
No 26
>PRK10490 sensor protein KdpD; Provisional
Probab=81.62 E-value=11 Score=44.19 Aligned_cols=109 Identities=12% Similarity=0.112 Sum_probs=69.0
Q ss_pred cCCHHH-HHHHHHHhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEec-ChhhHHHHHHHHh
Q 010783 42 RDNWAL-IHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG-EAEDNIPNFVREC 119 (501)
Q Consensus 42 ~DN~aL-~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G-~~~~~l~~L~~~~ 119 (501)
..+..| -.|...|.+.+.++..|||-.+.....+.....-+.+.++ |.++ +|.......| +..+.|.+++++.
T Consensus 261 ~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~~~~~~~~~~l~~~~~-lA~~----lGa~~~~~~~~dva~~i~~~A~~~ 335 (895)
T PRK10490 261 TGSEKLVRTAARLAARLGSVWHAVYVETPRLHRLPEKKRRAILSALR-LAQE----LGAETATLSDPAEEKAVLRYAREH 335 (895)
T ss_pred cchHHHHHHHHHHHHhcCCCEEEEEEecCCcCcCCHHHHHHHHHHHH-HHHH----cCCEEEEEeCCCHHHHHHHHHHHh
Confidence 344555 4456777777789999999877433333334444555553 5544 4999877776 5889999999999
Q ss_pred CCCEEEEcCCcchHHHHHHHHHHHHh-C--CCceEEEEec
Q 010783 120 GASLLVTDFSPLREIRRCKDKICNRV-S--DSVTIHEVDA 156 (501)
Q Consensus 120 ~i~~V~~~~~p~~~~~~rd~~v~~~l-~--~gi~~~~~~~ 156 (501)
+|+.|+.-.+..... -+...+.+.+ + .+|.++.+.+
T Consensus 336 ~vt~IViG~s~~~~~-~~~~s~~~~l~r~~~~idi~iv~~ 374 (895)
T PRK10490 336 NLGKIIIGRRASRRW-WRRESFADRLARLGPDLDLVIVAL 374 (895)
T ss_pred CCCEEEECCCCCCCC-ccCCCHHHHHHHhCCCCCEEEEeC
Confidence 999999944321111 0112333332 2 5788888853
No 27
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=81.45 E-value=17 Score=31.78 Aligned_cols=109 Identities=12% Similarity=-0.031 Sum_probs=62.1
Q ss_pred CCHHHHHHHHHHhhCCCCEEEEEEecCC-cccc-------chhHHHHHHHHHHHHHHHHHhhcCCeE---EEEecChhhH
Q 010783 43 DNWALIHAVDQANKNNVPVAVAFNLFDQ-FLGA-------KARQLGFMLRGLRLLQRNIEETFQILF---FLFQGEAEDN 111 (501)
Q Consensus 43 DN~aL~~A~~~a~~~~~~vl~vfi~dp~-~~~~-------~~~r~~Fl~esL~~L~~~L~~~~G~~L---~v~~G~~~~~ 111 (501)
...||..|...|.+.+..|..+++..+. .... ...+.....+..+.|++-+ ++.|++. ++..|+|.+.
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 3578888888887667677777773221 1100 0111111222233444444 5556653 4457999999
Q ss_pred HHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh-C-CCceEEEE
Q 010783 112 IPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-S-DSVTIHEV 154 (501)
Q Consensus 112 l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l-~-~gi~~~~~ 154 (501)
|.+.+++.+++-|+.-...... .+--++.+.+ . ..+++-.+
T Consensus 95 I~~~a~~~~~DLIV~Gs~~~~~--~~lgSva~~v~~~a~~pVLvv 137 (144)
T PRK15118 95 LVDAIKKYDMDLVVCGHHQDFW--SKLMSSARQLINTVHVDMLIV 137 (144)
T ss_pred HHHHHHHhCCCEEEEeCcccHH--HHHHHHHHHHHhhCCCCEEEe
Confidence 9999999999999993322221 2223555554 3 46666554
No 28
>PRK11175 universal stress protein UspE; Provisional
Probab=71.47 E-value=78 Score=31.38 Aligned_cols=118 Identities=15% Similarity=0.024 Sum_probs=68.1
Q ss_pred CCCccCCHHHHHHHHHHhhCCCCEEEEEEecCCcc------ccch---hHHHH---HHHHHHHHHHHHHhhcCCeEE--E
Q 010783 38 DQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFL------GAKA---RQLGF---MLRGLRLLQRNIEETFQILFF--L 103 (501)
Q Consensus 38 DLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~------~~~~---~r~~F---l~esL~~L~~~L~~~~G~~L~--v 103 (501)
|+=-....||..|+..|++.+..+..+++.++... .... .+... ..+.|..+.+.+ +..|++.. +
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 33345678999999988887778877777643211 0111 11111 223344444455 55676653 3
Q ss_pred E-ecChhhHHHHHHHHhCCCEEEEcCC-cchHHHHHHHHHHH-HhC-CCceEEEEec
Q 010783 104 F-QGEAEDNIPNFVRECGASLLVTDFS-PLREIRRCKDKICN-RVS-DSVTIHEVDA 156 (501)
Q Consensus 104 ~-~G~~~~~l~~L~~~~~i~~V~~~~~-p~~~~~~rd~~v~~-~l~-~gi~~~~~~~ 156 (501)
. .|++.+.|.+.+++.+++-|++-.. ........-..+.. .+. ..+++-.+..
T Consensus 90 ~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~~ 146 (305)
T PRK11175 90 VWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVKD 146 (305)
T ss_pred ecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEecc
Confidence 3 5899999999999999999999432 22211111112222 232 4788877765
No 29
>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=70.08 E-value=7.7 Score=37.32 Aligned_cols=96 Identities=16% Similarity=0.246 Sum_probs=46.2
Q ss_pred HHHHHHHHHHhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEe--cCh---hhHHHHHHHHh
Q 010783 45 WALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--GEA---EDNIPNFVREC 119 (501)
Q Consensus 45 ~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~--G~~---~~~l~~L~~~~ 119 (501)
-||+.|.+ . .+|..+..+-|... .+..|-.-.+.-+..+- +.+|+||+... |+. .+.+.+++++.
T Consensus 15 lAl~~a~~----~-~~v~~L~t~~~~~~----~s~~~H~~~~~~~~~qA-~algipl~~~~~~g~~~~~~~~l~~~l~~~ 84 (218)
T PF01902_consen 15 LALYRALR----Q-HEVVCLLTMVPEEE----DSYMFHGVNIELIEAQA-EALGIPLIEIPTSGDEEDYVEDLKEALKEL 84 (218)
T ss_dssp HHHHHHHH----T--EEEEEEEEEESTT----T-SSS-STTGTCHHHHH-HHHT--EEEEEE---CCCHHHHHHHHHCTC
T ss_pred HHHHHHHH----h-CCccEEEEeccCCC----CcccccccCHHHHHHHH-HHCCCCEEEEEccCccchhhHHHHHHHHHc
Confidence 35666665 4 56666665544321 11112111234445555 67899998875 323 34566667788
Q ss_pred CCCEEEE-cCCcchHHHHHHHHHHHHhCCCceEEE
Q 010783 120 GASLLVT-DFSPLREIRRCKDKICNRVSDSVTIHE 153 (501)
Q Consensus 120 ~i~~V~~-~~~p~~~~~~rd~~v~~~l~~gi~~~~ 153 (501)
+|+.|++ +.. ..+.+.|.+++++.+ |+++..
T Consensus 85 ~v~~vv~GdI~-~~~~r~~~e~vc~~l--Gl~~~~ 116 (218)
T PF01902_consen 85 KVEAVVFGDID-SEYQRNWVERVCERL--GLEAVF 116 (218)
T ss_dssp --SEEE--TTS--HHHHHHHHHHHHHC--T-EEE-
T ss_pred CCCEEEECcCC-cHHHHHHHHHHHHHc--CCEEEe
Confidence 9999999 552 233355556665544 775543
No 30
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=69.70 E-value=38 Score=32.60 Aligned_cols=98 Identities=13% Similarity=0.196 Sum_probs=59.8
Q ss_pred CHHHHHHHHHHhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEecC-----hhhHHHHHHHH
Q 010783 44 NWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE-----AEDNIPNFVRE 118 (501)
Q Consensus 44 N~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G~-----~~~~l~~L~~~ 118 (501)
+-||+.|.+ .|..|..+.++-|..- -...|..-++.-....- +.+|++++..... -.+.|.++++.
T Consensus 14 ~~Al~~a~~----~G~eV~~Ll~~~p~~~----dS~m~H~~n~~~~~~~A-e~~gi~l~~~~~~g~~e~eve~L~~~l~~ 84 (223)
T COG2102 14 FYALYLALE----EGHEVVYLLTVKPENG----DSYMFHTPNLELAELQA-EAMGIPLVTFDTSGEEEREVEELKEALRR 84 (223)
T ss_pred HHHHHHHHH----cCCeeEEEEEEecCCC----CeeeeeccchHHHHHHH-HhcCCceEEEecCccchhhHHHHHHHHHh
Confidence 456777765 5788888888776432 11222223344444444 6689998877532 34667777888
Q ss_pred hCCCEEEE-cCCcchHHHHHHHHHHHHhCCCceEEE
Q 010783 119 CGASLLVT-DFSPLREIRRCKDKICNRVSDSVTIHE 153 (501)
Q Consensus 119 ~~i~~V~~-~~~p~~~~~~rd~~v~~~l~~gi~~~~ 153 (501)
.+++.|++ +. ...+.+.|.++|++.+ |+.+..
T Consensus 85 l~~d~iv~GaI-~s~yqk~rve~lc~~l--Gl~~~~ 117 (223)
T COG2102 85 LKVDGIVAGAI-ASEYQKERVERLCEEL--GLKVYA 117 (223)
T ss_pred CcccEEEEchh-hhHHHHHHHHHHHHHh--CCEEee
Confidence 89999999 43 2233345556666655 775544
No 31
>PRK11175 universal stress protein UspE; Provisional
Probab=68.08 E-value=47 Score=33.00 Aligned_cols=81 Identities=16% Similarity=0.119 Sum_probs=51.0
Q ss_pred HHHHHHHHHHhhC-CCCEEEEEEecCCccc---------cchhHHHHHHHHHHHHHHHHHhhcCCe---EEEEecChhhH
Q 010783 45 WALIHAVDQANKN-NVPVAVAFNLFDQFLG---------AKARQLGFMLRGLRLLQRNIEETFQIL---FFLFQGEAEDN 111 (501)
Q Consensus 45 ~aL~~A~~~a~~~-~~~vl~vfi~dp~~~~---------~~~~r~~Fl~esL~~L~~~L~~~~G~~---L~v~~G~~~~~ 111 (501)
.+|..|...|... +..+..|+++++.... ........-.+....|++-+ ++.|++ .++..|++.+.
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 4677777777665 6678878887642210 01111111112333444444 555654 56778999999
Q ss_pred HHHHHHHhCCCEEEE
Q 010783 112 IPNFVRECGASLLVT 126 (501)
Q Consensus 112 l~~L~~~~~i~~V~~ 126 (501)
|.+.+++.+++-|++
T Consensus 253 I~~~a~~~~~DLIVm 267 (305)
T PRK11175 253 IPDLAEHLDAELVIL 267 (305)
T ss_pred HHHHHHHhCCCEEEE
Confidence 999999999999998
No 32
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=66.94 E-value=80 Score=36.19 Aligned_cols=110 Identities=16% Similarity=0.194 Sum_probs=74.3
Q ss_pred CCHHHHH-HHHHHhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEec-ChhhHHHHHHHHhC
Q 010783 43 DNWALIH-AVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG-EAEDNIPNFVRECG 120 (501)
Q Consensus 43 DN~aL~~-A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G-~~~~~l~~L~~~~~ 120 (501)
.|+.|.. |...|.+...+...|||-.|+....+.....-+. ....|.++| |.....+.| +..+.|.+.+++++
T Consensus 260 ~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~~~~~~~~~l~-~~~~Lae~l----Gae~~~l~~~dv~~~i~~ya~~~~ 334 (890)
T COG2205 260 GSEKLIRRAARLASRLHAKWTAVYVETPELHRLSEKEARRLH-ENLRLAEEL----GAEIVTLYGGDVAKAIARYAREHN 334 (890)
T ss_pred chHHHHHHHHHHHHHhCCCeEEEEEeccccccccHHHHHHHH-HHHHHHHHh----CCeEEEEeCCcHHHHHHHHHHHcC
Confidence 4666654 5566777777999999988876544434344343 344565555 999988885 56788999999999
Q ss_pred CCEEEEcCCcchHHHH-HHHHHHHHh-C--CCceEEEEecc
Q 010783 121 ASLLVTDFSPLREIRR-CKDKICNRV-S--DSVTIHEVDAH 157 (501)
Q Consensus 121 i~~V~~~~~p~~~~~~-rd~~v~~~l-~--~gi~~~~~~~~ 157 (501)
++.|+.-.+....++. ....+.+.+ . .+|.++.+...
T Consensus 335 ~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~~ 375 (890)
T COG2205 335 ATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVALD 375 (890)
T ss_pred CeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeCC
Confidence 9999996544333322 234555554 2 68888887653
No 33
>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=64.06 E-value=63 Score=30.95 Aligned_cols=65 Identities=15% Similarity=0.205 Sum_probs=36.4
Q ss_pred hCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEecC-----hhhHH----HHHHHHhCCCEEEE
Q 010783 56 KNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE-----AEDNI----PNFVRECGASLLVT 126 (501)
Q Consensus 56 ~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G~-----~~~~l----~~L~~~~~i~~V~~ 126 (501)
+.|..|.+++.+.+.... +..+-...+..++... +.+|+++.+..-+ ..+.+ .++.++ +++.|++
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 367677666666553210 1111112455566666 7889999887643 12223 333333 9999998
No 34
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=56.53 E-value=1.3e+02 Score=25.74 Aligned_cols=78 Identities=17% Similarity=0.055 Sum_probs=51.9
Q ss_pred HHHHHHHhhCCCCEEEEEEecCCcccc--c------------hhHHHHHHHHHHHHHHHHHhhcCCe---EEEEecCh-h
Q 010783 48 IHAVDQANKNNVPVAVAFNLFDQFLGA--K------------ARQLGFMLRGLRLLQRNIEETFQIL---FFLFQGEA-E 109 (501)
Q Consensus 48 ~~A~~~a~~~~~~vl~vfi~dp~~~~~--~------------~~r~~Fl~esL~~L~~~L~~~~G~~---L~v~~G~~-~ 109 (501)
..|...+...+.++..+++.++..... . ..-..-..+.+..+.+.+ ++.|+. ..+..|++ .
T Consensus 24 ~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~g~~~~ 102 (154)
T COG0589 24 EEAVALAKRLGAPLILLVVIDPLEPTALVSVALADAPIPLSEEELEEEAEELLAEAKALA-EAAGVPVVETEVVEGSPSA 102 (154)
T ss_pred HHHHHHHHhcCCeEEEEEEecccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHH-HHcCCCeeEEEEecCCCcH
Confidence 334444444556777788877643211 0 011333466777778888 777865 56777999 6
Q ss_pred hHHHHHHHHhCCCEEEE
Q 010783 110 DNIPNFVRECGASLLVT 126 (501)
Q Consensus 110 ~~l~~L~~~~~i~~V~~ 126 (501)
+.+...+.+.+++.|+.
T Consensus 103 ~~i~~~a~~~~adliV~ 119 (154)
T COG0589 103 EEILELAEEEDADLIVV 119 (154)
T ss_pred HHHHHHHHHhCCCEEEE
Confidence 99999999999999999
No 35
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=55.62 E-value=24 Score=40.00 Aligned_cols=46 Identities=11% Similarity=0.252 Sum_probs=40.1
Q ss_pred HHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCCcchH
Q 010783 87 RLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLRE 133 (501)
Q Consensus 87 ~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~~ 133 (501)
.+.-++| +++|+.++++.||....-..++++.||++|+.+-.|+..
T Consensus 543 ~~aI~~L-~~~Gi~~~mLTGDn~~~A~~iA~~lGId~v~AellPedK 588 (713)
T COG2217 543 KEAIAAL-KALGIKVVMLTGDNRRTAEAIAKELGIDEVRAELLPEDK 588 (713)
T ss_pred HHHHHHH-HHCCCeEEEEcCCCHHHHHHHHHHcChHhheccCCcHHH
Confidence 3444556 889999999999999999999999999999999988763
No 36
>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=53.65 E-value=72 Score=29.63 Aligned_cols=95 Identities=9% Similarity=0.028 Sum_probs=63.1
Q ss_pred CEEEEEEecCCc-cccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEecC--------h-----------hhHHHH-HHHH
Q 010783 60 PVAVAFNLFDQF-LGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE--------A-----------EDNIPN-FVRE 118 (501)
Q Consensus 60 ~vl~vfi~dp~~-~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G~--------~-----------~~~l~~-L~~~ 118 (501)
..+-||+...+. .-.-.-|...+.++.+||..=. ---|++.+|-... . ..++.+ ++..
T Consensus 27 d~l~vFVV~eD~S~Fpf~~R~~LVk~G~~~L~NV~-V~~~g~YiIS~aTFPsYFlK~~~~~~~~~~~lD~~iF~~~IAp~ 105 (182)
T PF08218_consen 27 DWLHVFVVSEDRSLFPFADRYELVKEGTADLPNVT-VHPGGDYIISSATFPSYFLKDEDDVIKAQAELDATIFKKYIAPA 105 (182)
T ss_pred CEEEEEEEccccCcCCHHHHHHHHHHHhCcCCCEE-EEcCCCeeeecccChhhhccchhHHHHHHHHHHHHHHHHHhhHh
Confidence 566799987653 2233677999999999986543 3346666654321 0 122333 6678
Q ss_pred hCCCEEEEcCCcc-hHHHHHHHHHHHHhC-CCceEEEEe
Q 010783 119 CGASLLVTDFSPL-REIRRCKDKICNRVS-DSVTIHEVD 155 (501)
Q Consensus 119 ~~i~~V~~~~~p~-~~~~~rd~~v~~~l~-~gi~~~~~~ 155 (501)
.+|+.=|.-.||. ..++.--+.+++.|+ .||+++++.
T Consensus 106 L~It~RfVG~EP~~~vT~~YN~~M~~~Lp~~gi~v~ei~ 144 (182)
T PF08218_consen 106 LGITKRFVGEEPFSPVTRIYNEAMKEILPPYGIEVVEIP 144 (182)
T ss_pred cCcccceeCCCCCCHHHHHHHHHHHHhccccCCEEEEEe
Confidence 8999999977774 444455678888884 899998865
No 37
>COG3590 PepO Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]
Probab=51.44 E-value=9.5 Score=41.36 Aligned_cols=46 Identities=22% Similarity=0.250 Sum_probs=34.1
Q ss_pred ccccCCCCCCCcCcEEeecccCCCCCCCCCCcCcccccccchhhhcCCccc-hHHhhhhhh
Q 010783 421 YEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG-YIAYVKRIV 480 (501)
Q Consensus 421 yliD~d~a~n~g~wqw~a~G~~~~~~~~~pyfg~~R~fnp~~q~~k~Dp~g-yIr~wvPeL 480 (501)
|-.|.|.++||||..=+.+--...| | ..|+.+||++| ....|.+|=
T Consensus 474 fd~ea~~a~NYGgIGaVIgHEI~Hg------F--------DdqGakfD~~GnL~dWWT~eD 520 (654)
T COG3590 474 FDPEADSAANYGGIGAVIGHEIGHG------F--------DDQGAKFDGDGNLNDWWTDED 520 (654)
T ss_pred CCCCcchhhcccCccceehhhhccc------c--------cCCccccCCCCcHHhhcCHHH
Confidence 3579999999999987763111111 2 46889999999 999999873
No 38
>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=49.01 E-value=82 Score=28.10 Aligned_cols=72 Identities=17% Similarity=0.226 Sum_probs=46.7
Q ss_pred HHHHHHHHHH---hhcCCeEEEEecChhhHHHHHHHHh--CCCEEEEc---CCcchHHHHHHHHHHHHhC-CCceEEEEe
Q 010783 85 GLRLLQRNIE---ETFQILFFLFQGEAEDNIPNFVREC--GASLLVTD---FSPLREIRRCKDKICNRVS-DSVTIHEVD 155 (501)
Q Consensus 85 sL~~L~~~L~---~~~G~~L~v~~G~~~~~l~~L~~~~--~i~~V~~~---~~p~~~~~~rd~~v~~~l~-~gi~~~~~~ 155 (501)
+|.++.+.++ +++|+.+.+++.+.+..|-..+.+. +++.|+.| ++... -++.+++. -++++.+++
T Consensus 25 tl~di~~~~~~~a~~~g~~v~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtS------iAl~DAl~~~~~P~vEVH 98 (141)
T TIGR01088 25 TLEEIVEIIETFAAQLNVELEFFQSNSEGQLIDKIHEAEGQYDGIIINPGALTHTS------VALRDALAAVSLPVVEVH 98 (141)
T ss_pred CHHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhccccCCEEEEcChHHhhhH------HHHHHHHHcCCCCEEEEE
Confidence 4444444440 3459999999988877766666543 46788886 33222 35666663 589999998
Q ss_pred cceEEeC
Q 010783 156 AHNVVPV 162 (501)
Q Consensus 156 ~~~l~~p 162 (501)
-..++..
T Consensus 99 iSNi~aR 105 (141)
T TIGR01088 99 LSNVHAR 105 (141)
T ss_pred cCCcccc
Confidence 7666654
No 39
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=47.73 E-value=42 Score=37.98 Aligned_cols=48 Identities=13% Similarity=0.239 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCCcch
Q 010783 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (501)
Q Consensus 84 esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~ 132 (501)
....+.-++| ++.|+...+..||....-..++++.|++.++....|+.
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 3455556677 99999999999999999999999999999999888876
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=46.74 E-value=79 Score=35.78 Aligned_cols=48 Identities=13% Similarity=0.259 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCCcch
Q 010783 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (501)
Q Consensus 84 esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~ 132 (501)
....+.=++| ++.|+...++.|+.......++++.|++.++....|..
T Consensus 449 p~a~eaI~~l-~~~Gi~v~miTGD~~~ta~~iA~~lGI~~v~a~~~Ped 496 (675)
T TIGR01497 449 GGIKERFAQL-RKMGIKTIMITGDNRLTAAAIAAEAGVDDFIAEATPED 496 (675)
T ss_pred hHHHHHHHHH-HHCCCEEEEEcCCCHHHHHHHHHHcCCCEEEcCCCHHH
Confidence 4566666777 89999999999999999999999999999999888865
No 41
>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=46.52 E-value=45 Score=30.83 Aligned_cols=48 Identities=13% Similarity=0.219 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCE--EEEcC--Ccch
Q 010783 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASL--LVTDF--SPLR 132 (501)
Q Consensus 84 esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~--V~~~~--~p~~ 132 (501)
..+.++-++| ++.|+++.++.|+.......++++.++.. |+... .|..
T Consensus 130 ~~~~~~l~~L-~~~Gi~~~i~TGD~~~~a~~~~~~lgi~~~~v~a~~~~kP~~ 181 (215)
T PF00702_consen 130 PGAKEALQEL-KEAGIKVAILTGDNESTASAIAKQLGIFDSIVFARVIGKPEP 181 (215)
T ss_dssp TTHHHHHHHH-HHTTEEEEEEESSEHHHHHHHHHHTTSCSEEEEESHETTTHH
T ss_pred hhhhhhhhhh-hccCcceeeeeccccccccccccccccccccccccccccccc
Confidence 3466666778 99999999999999999999999999966 55566 6755
No 42
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=44.88 E-value=49 Score=37.40 Aligned_cols=49 Identities=20% Similarity=0.320 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCCcchH
Q 010783 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLRE 133 (501)
Q Consensus 84 esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~~ 133 (501)
+...+.=++| ++.|+..++..||....-..++++.|++.++....|+..
T Consensus 444 ~~a~e~I~~L-r~~GI~vvMiTGDn~~TA~aIA~elGI~~v~A~~~PedK 492 (673)
T PRK14010 444 DGLVERFREL-REMGIETVMCTGDNELTAATIAKEAGVDRFVAECKPEDK 492 (673)
T ss_pred HHHHHHHHHH-HHCCCeEEEECCCCHHHHHHHHHHcCCceEEcCCCHHHH
Confidence 3555566677 889999999999999999999999999999998888663
No 43
>COG0191 Fba Fructose/tagatose bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=44.16 E-value=2.5e+02 Score=28.13 Aligned_cols=69 Identities=14% Similarity=0.217 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHhhcCCeEEEE--ecChhhHHHHHHHHhCCCEEEEcC--CcchHHHHHHHHHHHHh-CCCceEEE
Q 010783 84 RGLRLLQRNIEETFQILFFLF--QGEAEDNIPNFVRECGASLLVTDF--SPLREIRRCKDKICNRV-SDSVTIHE 153 (501)
Q Consensus 84 esL~~L~~~L~~~~G~~L~v~--~G~~~~~l~~L~~~~~i~~V~~~~--~p~~~~~~rd~~v~~~l-~~gi~~~~ 153 (501)
.++..+-..+-++.++|+.+. +|...+.+.+- -+.+.+.|-+|- .|.++-....+++.+.+ ..||.|+-
T Consensus 61 ~~~~~~v~~~a~~~~vPV~lHlDHg~~~~~~~~a-i~~GFsSvMiDgS~~~~eENi~~tkevv~~ah~~gvsVEa 134 (286)
T COG0191 61 DSLAHMVKALAEKYGVPVALHLDHGASFEDCKQA-IRAGFSSVMIDGSHLPFEENIAITKEVVEFAHAYGVSVEA 134 (286)
T ss_pred HHHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHH-HhcCCceEEecCCcCCHHHHHHHHHHHHHHHHHcCCcEEE
Confidence 566666666645668888776 46444433322 256999999974 45555556778888888 47887665
No 44
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=42.89 E-value=1.4e+02 Score=26.91 Aligned_cols=62 Identities=16% Similarity=0.230 Sum_probs=41.8
Q ss_pred hhcCCeEEEEecChhhHHHHHHHHh--CCCEEEEc---CCcchHHHHHHHHHHHHhC-CCceEEEEecceEEeC
Q 010783 95 ETFQILFFLFQGEAEDNIPNFVREC--GASLLVTD---FSPLREIRRCKDKICNRVS-DSVTIHEVDAHNVVPV 162 (501)
Q Consensus 95 ~~~G~~L~v~~G~~~~~l~~L~~~~--~i~~V~~~---~~p~~~~~~rd~~v~~~l~-~gi~~~~~~~~~l~~p 162 (501)
+++|+.+.+++.+.+..|...+.+. +++.|+.| ++... -++.++++ -++++.+++-..++..
T Consensus 40 ~~~g~~~~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtS------iAl~DAl~~~~~P~VEVHiSNi~aR 107 (146)
T PRK13015 40 EALGLEVEFRQSNHEGELIDWIHEARGDVAGIVINPGAYTHTS------VAIRDALAALELPVIEVHISNVHAR 107 (146)
T ss_pred HHcCCEEEEEeeCcHHHHHHHHHHhhhcCCEEEEcchHHhhhH------HHHHHHHHcCCCCEEEEEcCCcccc
Confidence 3459999999988776666655443 56788886 33222 35556663 5899999987666654
No 45
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=40.97 E-value=80 Score=36.53 Aligned_cols=61 Identities=11% Similarity=0.242 Sum_probs=45.8
Q ss_pred HHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEEEE
Q 010783 89 LQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEV 154 (501)
Q Consensus 89 L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~~~ 154 (501)
--.+| +++|+..+++.||....-...+++.|++.||.+.-|... .+.|++.-+++-.+-.+
T Consensus 731 av~~L-k~~Gi~v~mLTGDn~~aA~svA~~VGi~~V~aev~P~~K----~~~Ik~lq~~~~~VaMV 791 (951)
T KOG0207|consen 731 AVAEL-KSMGIKVVMLTGDNDAAARSVAQQVGIDNVYAEVLPEQK----AEKIKEIQKNGGPVAMV 791 (951)
T ss_pred HHHHH-HhcCceEEEEcCCCHHHHHHHHHhhCcceEEeccCchhh----HHHHHHHHhcCCcEEEE
Confidence 34566 889999999999999999999999999999999888763 23455543344333333
No 46
>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=38.49 E-value=1.6e+02 Score=28.56 Aligned_cols=72 Identities=11% Similarity=0.064 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEEEEec
Q 010783 79 LGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDA 156 (501)
Q Consensus 79 ~~Fl~esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~~~~~ 156 (501)
--|..+-+..+.+.+ ++.|..+.+...+..+...+.+...+++.|+..-.+.. +..+......||++..++.
T Consensus 16 ~~~~~~~~~gi~~~a-~~~g~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-----~~~~~~~~~~~ipvV~~~~ 87 (283)
T cd06279 16 DPVASQFLAGVAEVL-DAAGVNLLLLPASSEDSDSALVVSALVDGFIVYGVPRD-----DPLVAALLRRGLPVVVVDQ 87 (283)
T ss_pred CccHHHHHHHHHHHH-HHCCCEEEEecCccHHHHHHHHHhcCCCEEEEeCCCCC-----hHHHHHHHHcCCCEEEEec
Confidence 346666777788888 88999998877654333334455678999888432211 1223332246899988864
No 47
>PF01116 F_bP_aldolase: Fructose-bisphosphate aldolase class-II; InterPro: IPR000771 Fructose-bisphosphate aldolase [, ] is a glycolytic enzyme that catalyses the reversible aldol cleavage or condensation of fructose-1,6-bisphosphate into dihydroxyacetone-phosphate and glyceraldehyde 3-phosphate. There are two classes of fructose-bisphosphate aldolases with different catalytic mechanisms. Class-II aldolases [], mainly found in prokaryotes and fungi, are homodimeric enzymes, which require a divalent metal ion, generally zinc, for their activity. This family also includes the Escherichia coli galactitol operon protein, gatY, which catalyses the transformation of tagatose 1,6-bisphosphate into glycerone phosphate and D-glyceraldehyde 3-phosphate; and E. coli N-acetyl galactosamine operon protein, agaY, which catalyses the same reaction. There are two histidine residues in the first half of the sequence of these enzymes that have been shown to be involved in binding a zinc ion [].; GO: 0008270 zinc ion binding, 0016832 aldehyde-lyase activity, 0005975 carbohydrate metabolic process; PDB: 3Q94_A 1RVG_B 1RV8_C 3C4U_A 3C56_B 3C52_A 2FJK_A 3N9R_P 3N9S_A 1GVF_B ....
Probab=37.81 E-value=4.3e+02 Score=26.48 Aligned_cols=70 Identities=16% Similarity=0.229 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHhhcCCeEEEE--ecChhhHHHHHHHHhCCCEEEEcC--CcchHHHHHHHHHHHHh-CCCceEEE
Q 010783 83 LRGLRLLQRNIEETFQILFFLF--QGEAEDNIPNFVRECGASLLVTDF--SPLREIRRCKDKICNRV-SDSVTIHE 153 (501)
Q Consensus 83 ~esL~~L~~~L~~~~G~~L~v~--~G~~~~~l~~L~~~~~i~~V~~~~--~p~~~~~~rd~~v~~~l-~~gi~~~~ 153 (501)
.+.+..+-..+.++.++|+.+. +|...+.+.+-+ +.|.+.|-+|- .|.++-....+++.+.+ ..||.|+-
T Consensus 58 ~~~~~~~~~~~a~~~~vPValHLDH~~~~e~i~~ai-~~GftSVM~DgS~l~~eeNi~~T~~vv~~ah~~gv~VEa 132 (287)
T PF01116_consen 58 LEYLAAMVKAAAEEASVPVALHLDHGKDFEDIKRAI-DAGFTSVMIDGSALPFEENIAITREVVEYAHAYGVSVEA 132 (287)
T ss_dssp HHHHHHHHHHHHHHSTSEEEEEEEEE-SHHHHHHHH-HHTSSEEEEE-TTS-HHHHHHHHHHHHHHHHHTT-EEEE
T ss_pred HHHHHHHHHHHHHHcCCCEEeecccCCCHHHHHHHH-HhCcccccccCCcCCHHHHHHHHHHHHHhhhhhCCEEEE
Confidence 3444444444423447776554 465555555443 45999999974 35555456677888887 47887765
No 48
>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=36.62 E-value=69 Score=32.43 Aligned_cols=19 Identities=16% Similarity=0.308 Sum_probs=13.0
Q ss_pred hhHHHHHHHHhCCCEEEEc
Q 010783 109 EDNIPNFVRECGASLLVTD 127 (501)
Q Consensus 109 ~~~l~~L~~~~~i~~V~~~ 127 (501)
.+.+.++++..|+.-|..-
T Consensus 130 ~~~~~~lL~~~gi~~i~ap 148 (316)
T cd00128 130 IEEAKELLRLMGIPYIVAP 148 (316)
T ss_pred HHHHHHHHHHcCCCEEECC
Confidence 4556777777788777643
No 49
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=36.42 E-value=99 Score=32.76 Aligned_cols=66 Identities=18% Similarity=0.191 Sum_probs=48.9
Q ss_pred HHHHHHHHHHhhcCCeEEEEec--ChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh-CCCceEEEEe
Q 010783 85 GLRLLQRNIEETFQILFFLFQG--EAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVD 155 (501)
Q Consensus 85 sL~~L~~~L~~~~G~~L~v~~G--~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l-~~gi~~~~~~ 155 (501)
=|..+.+++ .+.|+.+++... ++.+++.+++++.+++.|+-..+=..++. .+.+.| +.|+++.+-|
T Consensus 66 ~l~~~~~~v-~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKSmvseEI----gln~~Le~~G~ev~ETD 134 (459)
T COG1139 66 YLEQLEENV-TRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKSMVSEEI----GLNHYLEEKGIEVWETD 134 (459)
T ss_pred HHHHHHHHH-HHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecchhHHHh----hhHHHHHHcCCeEEEcc
Confidence 345566777 788999999874 56788999999999999999765444433 455666 4688877654
No 50
>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=36.08 E-value=1.6e+02 Score=24.02 Aligned_cols=64 Identities=16% Similarity=0.262 Sum_probs=41.4
Q ss_pred HHHHHHHHHhhcCCeEEEE--e-cChhh--HHHHHHHHhCCCEEEE--cCCcchHHHHHHHHHHHHhC-CCceEEEEec
Q 010783 86 LRLLQRNIEETFQILFFLF--Q-GEAED--NIPNFVRECGASLLVT--DFSPLREIRRCKDKICNRVS-DSVTIHEVDA 156 (501)
Q Consensus 86 L~~L~~~L~~~~G~~L~v~--~-G~~~~--~l~~L~~~~~i~~V~~--~~~p~~~~~~rd~~v~~~l~-~gi~~~~~~~ 156 (501)
...+++.+ ++.|..++.. . |.... .|+..++ +++.|++ ++--+ .....+++.++ .++++.....
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 56778888 8899999998 2 32222 3666655 5676766 44222 22456777774 7999888764
No 51
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=35.89 E-value=2.6e+02 Score=25.19 Aligned_cols=75 Identities=16% Similarity=0.236 Sum_probs=47.2
Q ss_pred HHHHHHHHHH---hhcCCeEEEEecChhhHHHHHHHHh--CCCEEEEcCCcchHHHHHHHHHHHHhC-CCceEEEEecce
Q 010783 85 GLRLLQRNIE---ETFQILFFLFQGEAEDNIPNFVREC--GASLLVTDFSPLREIRRCKDKICNRVS-DSVTIHEVDAHN 158 (501)
Q Consensus 85 sL~~L~~~L~---~~~G~~L~v~~G~~~~~l~~L~~~~--~i~~V~~~~~p~~~~~~rd~~v~~~l~-~gi~~~~~~~~~ 158 (501)
+|.++.+.|+ +++|+.+.+++.+.+..|...+.+. +++.|+.|-.-+. .-.-++.++++ -++++.+++-..
T Consensus 27 tl~~i~~~~~~~a~~~g~~v~~~QSN~EGelId~I~~a~~~~dgiiINpga~T---HtSiAl~DAl~~~~~P~VEVHiSN 103 (146)
T PRK05395 27 TLADIEALLEEEAAELGVELEFFQSNHEGELIDRIHEARDGADGIIINPGAYT---HTSVALRDALAAVSIPVIEVHLSN 103 (146)
T ss_pred CHHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhcccCCcEEEECchHHH---HHHHHHHHHHHcCCCCEEEEecCC
Confidence 4444444441 3559999999988876666655543 5788888732111 11235666663 589999998766
Q ss_pred EEeC
Q 010783 159 VVPV 162 (501)
Q Consensus 159 l~~p 162 (501)
++..
T Consensus 104 i~aR 107 (146)
T PRK05395 104 IHAR 107 (146)
T ss_pred cccc
Confidence 6654
No 52
>PRK03980 flap endonuclease-1; Provisional
Probab=35.65 E-value=97 Score=31.20 Aligned_cols=11 Identities=0% Similarity=0.045 Sum_probs=8.8
Q ss_pred CEEEEEEecCC
Q 010783 60 PVAVAFNLFDQ 70 (501)
Q Consensus 60 ~vl~vfi~dp~ 70 (501)
.+-||||||-.
T Consensus 25 gi~PvfVFDG~ 35 (292)
T PRK03980 25 GIKPVYVFDGK 35 (292)
T ss_pred CCEEEEEECCC
Confidence 47889999964
No 53
>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=34.16 E-value=23 Score=32.13 Aligned_cols=106 Identities=13% Similarity=0.116 Sum_probs=56.7
Q ss_pred HHHHHHHhhCCCCEEEEEEecCCcc-ccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEec--------ChhhHHHHHHH-
Q 010783 48 IHAVDQANKNNVPVAVAFNLFDQFL-GAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG--------EAEDNIPNFVR- 117 (501)
Q Consensus 48 ~~A~~~a~~~~~~vl~vfi~dp~~~-~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G--------~~~~~l~~L~~- 117 (501)
..|++.|.+.+.+.+ |+.|+|.-. -..+......+-++.+=.+.| +++|++.++... ++.+=+..++.
T Consensus 26 ~~~~~~a~~~~~~~~-v~tF~~~P~~~~~~~~~~~~l~s~~ek~~~l-~~~Gvd~~~~~~F~~~~~~ls~~~Fi~~iL~~ 103 (157)
T PF06574_consen 26 KKAVEIAKEKGLKSV-VLTFDPHPKEVLNPDKPPKLLTSLEEKLELL-ESLGVDYVIVIPFTEEFANLSPEDFIEKILKE 103 (157)
T ss_dssp HHHHHHHHHCT-EEE-EEEESS-CHHHHSCTCCGGBSS-HHHHHHHH-HHTTESEEEEE-CCCHHCCS-HHHHHHHHCCC
T ss_pred HHHhhhhhhcccceE-EEEcccCHHHHhcCCCcccCCCCHHHHHHHH-HHcCCCEEEEecchHHHHcCCHHHHHHHHHHh
Confidence 456666666654433 667776311 111122233356777777888 999998766532 34455566455
Q ss_pred HhCCCEEEE--cCCcchHHHH-HHHHHHHHhC-CCceEEEEec
Q 010783 118 ECGASLLVT--DFSPLREIRR-CKDKICNRVS-DSVTIHEVDA 156 (501)
Q Consensus 118 ~~~i~~V~~--~~~p~~~~~~-rd~~v~~~l~-~gi~~~~~~~ 156 (501)
..++..|++ |...... +. =.+.+++.++ .|+.+..++.
T Consensus 104 ~l~~~~ivvG~DfrFG~~-~~G~~~~L~~~~~~~g~~v~~v~~ 145 (157)
T PF06574_consen 104 KLNVKHIVVGEDFRFGKN-RSGDVELLKELGKEYGFEVEVVPP 145 (157)
T ss_dssp HCTEEEEEEETT-EESGG-GEEEHHHHHHCTTTT-SEEEEE--
T ss_pred cCCccEEEEccCccCCCC-CCCCHHHHHHhcccCceEEEEECC
Confidence 899999999 4322110 11 0245556564 6898888764
No 54
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=33.88 E-value=1e+02 Score=27.28 Aligned_cols=44 Identities=18% Similarity=0.305 Sum_probs=27.5
Q ss_pred hhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh-CCCceEEEE
Q 010783 109 EDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEV 154 (501)
Q Consensus 109 ~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l-~~gi~~~~~ 154 (501)
.+.+.++++++++++|+......+ ....+++.+.| +.||.++.+
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 477889999999999999763333 23456777777 589988764
No 55
>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=31.96 E-value=1.8e+02 Score=32.02 Aligned_cols=49 Identities=10% Similarity=0.165 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHHhhcC-CeEEEEecChhhHHHHHHHHhCCCEEEEcCCcc
Q 010783 82 MLRGLRLLQRNIEETFQ-ILFFLFQGEAEDNIPNFVRECGASLLVTDFSPL 131 (501)
Q Consensus 82 l~esL~~L~~~L~~~~G-~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~ 131 (501)
+.....++=+.| ++.| +++.+..|++......++++.+++.++....|.
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 456777777888 9999 999999999999999999999999998876553
No 56
>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=31.75 E-value=1e+02 Score=28.44 Aligned_cols=45 Identities=13% Similarity=0.012 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEc
Q 010783 82 MLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTD 127 (501)
Q Consensus 82 l~esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~ 127 (501)
+...+.++-+.+ ++.|.++.|..+.+...+..+++..+++.++.+
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 445666666677 888889988888888888888888888877653
No 57
>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=31.01 E-value=3.1e+02 Score=24.83 Aligned_cols=81 Identities=15% Similarity=0.069 Sum_probs=56.3
Q ss_pred HHHHHHHHHhhCCCCEEEEEEe--cCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEecC-----hh---hHHHHH
Q 010783 46 ALIHAVDQANKNNVPVAVAFNL--FDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE-----AE---DNIPNF 115 (501)
Q Consensus 46 aL~~A~~~a~~~~~~vl~vfi~--dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G~-----~~---~~l~~L 115 (501)
-+..+++.|..-|.+.+.+... ...........+..+.++|..|.+.+ ++.|+.+.+-... .. +.+.++
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 4555666777777777655533 11111233577889999999999999 9999999887522 22 788899
Q ss_pred HHHhCCCEEEEc
Q 010783 116 VRECGASLLVTD 127 (501)
Q Consensus 116 ~~~~~i~~V~~~ 127 (501)
+++.+-..|.+.
T Consensus 151 l~~~~~~~~~i~ 162 (213)
T PF01261_consen 151 LEEVDSPNVGIC 162 (213)
T ss_dssp HHHHTTTTEEEE
T ss_pred HhhcCCCcceEE
Confidence 999988666553
No 58
>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=30.98 E-value=1.4e+02 Score=30.78 Aligned_cols=11 Identities=18% Similarity=0.474 Sum_probs=8.8
Q ss_pred CCcHHHHHHHH
Q 010783 231 ESGEDAAMEVL 241 (501)
Q Consensus 231 ~gGe~~A~~~L 241 (501)
-.|...|.+.+
T Consensus 243 GIG~ktA~kli 253 (338)
T TIGR03674 243 GIGPKTALKLI 253 (338)
T ss_pred CccHHHHHHHH
Confidence 45888888888
No 59
>PRK07084 fructose-bisphosphate aldolase; Provisional
Probab=30.85 E-value=3.8e+02 Score=27.46 Aligned_cols=55 Identities=22% Similarity=0.242 Sum_probs=34.5
Q ss_pred CCeEEE--EecChhhHHHHHHHHhCCCEEEEcCC--cchHHHHHHHHHHHHh-CCCceEEE
Q 010783 98 QILFFL--FQGEAEDNIPNFVRECGASLLVTDFS--PLREIRRCKDKICNRV-SDSVTIHE 153 (501)
Q Consensus 98 G~~L~v--~~G~~~~~l~~L~~~~~i~~V~~~~~--p~~~~~~rd~~v~~~l-~~gi~~~~ 153 (501)
.+|+.+ =+|...+.+.+-+ +.|.+.|-.|-+ |.++-....+++.+.+ ..||.|+-
T Consensus 85 ~VPV~lHLDHg~~~e~i~~ai-~~GftSVMiD~S~lp~eeNI~~T~evv~~Ah~~GvsVEa 144 (321)
T PRK07084 85 PIPIVLHLDHGDSFELCKDCI-DSGFSSVMIDGSHLPYEENVALTKKVVEYAHQFDVTVEG 144 (321)
T ss_pred CCcEEEECCCCCCHHHHHHHH-HcCCCEEEeeCCCCCHHHHHHHHHHHHHHHHHcCCeEEE
Confidence 355444 3565555444333 459999999744 5555456677888887 47887764
No 60
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=30.55 E-value=3e+02 Score=26.76 Aligned_cols=75 Identities=15% Similarity=0.088 Sum_probs=48.8
Q ss_pred HHHHHHhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEecC--------hhhHHHHHHHHhC
Q 010783 49 HAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE--------AEDNIPNFVRECG 120 (501)
Q Consensus 49 ~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G~--------~~~~l~~L~~~~~ 120 (501)
.+++.|..-|.+.+.+....+.........+..+.++|+.|.+.. ++.|+.|.+-... ..+.+.+++++.+
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 344555566777764443222222234556788899999999999 9999999887522 2456667777765
Q ss_pred CCEE
Q 010783 121 ASLL 124 (501)
Q Consensus 121 i~~V 124 (501)
-..|
T Consensus 173 ~~~v 176 (275)
T PRK09856 173 SPRL 176 (275)
T ss_pred CCcc
Confidence 4433
No 61
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=30.45 E-value=1.4e+02 Score=32.64 Aligned_cols=50 Identities=12% Similarity=0.157 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHhhcCC-eEEEEecChhhHHHHHHHHhCCCEEEEcCCcch
Q 010783 82 MLRGLRLLQRNIEETFQI-LFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (501)
Q Consensus 82 l~esL~~L~~~L~~~~G~-~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~ 132 (501)
+...+.++=++| ++.|+ ++.+..|++......++++.|++.++.+..|..
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 456777778888 99999 999999999999999999999999888766643
No 62
>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=30.19 E-value=2.7e+02 Score=23.79 Aligned_cols=59 Identities=19% Similarity=0.164 Sum_probs=40.1
Q ss_pred CCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCC
Q 010783 58 NVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGAS 122 (501)
Q Consensus 58 ~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~ 122 (501)
+.+++.+|+... .+...+.. +..|..+.+++ ++.|+.++.+..+..+....+++++++.
T Consensus 23 ~~~~vl~f~~~~---~Cp~C~~~--~~~l~~~~~~~-~~~~v~vv~V~~~~~~~~~~~~~~~~~~ 81 (149)
T cd02970 23 EGPVVVVFYRGF---GCPFCREY--LRALSKLLPEL-DALGVELVAVGPESPEKLEAFDKGKFLP 81 (149)
T ss_pred CCCEEEEEECCC---CChhHHHH--HHHHHHHHHHH-HhcCeEEEEEeCCCHHHHHHHHHhcCCC
Confidence 456776666332 33333322 46789999999 8899999888766666666788877765
No 63
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=29.19 E-value=2e+02 Score=28.11 Aligned_cols=60 Identities=8% Similarity=0.099 Sum_probs=50.3
Q ss_pred EEEecCCccccchhHHHHHHHHHHHHHHHHHh-hcCCeEEEEecChhh--HHHHHHHHhCCCEE
Q 010783 64 AFNLFDQFLGAKARQLGFMLRGLRLLQRNIEE-TFQILFFLFQGEAED--NIPNFVRECGASLL 124 (501)
Q Consensus 64 vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~-~~G~~L~v~~G~~~~--~l~~L~~~~~i~~V 124 (501)
+|+-|......|.+-...+.+-+.+.-+.| + +.|..+++.-.++.. .+.+|.+++++.-|
T Consensus 27 iy~~D~~~~PYG~ks~~~i~~~~~~~~~~L-~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii 89 (251)
T TIGR00067 27 IYVGDTKRFPYGEKSPEFILEYVLELLTFL-KERHNIKLLVVACNTASALALEDLQRNFDFPVV 89 (251)
T ss_pred EEEecCCCCCCCCCCHHHHHHHHHHHHHHH-HHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEE
Confidence 899998888899999999999999999999 8 999999999988766 37777777666433
No 64
>PF01220 DHquinase_II: Dehydroquinase class II; InterPro: IPR001874 3-dehydroquinate dehydratase (4.2.1.10 from EC), or dehydroquinase, catalyzes the conversion of 3-dehydroquinate into 3-dehydroshikimate. It is the third step in the shikimate pathway for the biosynthesis of aromatic amino acids from chorismate. Two classes of dehydroquinases exist, known as types I and II. Class-II enzymes are homododecameric enzymes of about 17 kDa. They are found in some bacteria such as actinomycetales [, ] and some fungi where they act in a catabolic pathway that allows the use of quinic acid as a carbon source.; GO: 0003855 3-dehydroquinate dehydratase activity; PDB: 3N8K_J 3N7A_I 3N87_F 3N8N_H 3N86_N 1H0S_A 3N59_J 1H05_A 1H0R_A 2Y71_A ....
Probab=29.07 E-value=3.1e+02 Score=24.46 Aligned_cols=63 Identities=14% Similarity=0.239 Sum_probs=40.7
Q ss_pred hhcCCeEEEEecChhhHHHHHHHHh--CCCEEEEc---CCcchHHHHHHHHHHHHhC-CCceEEEEecceEEeCc
Q 010783 95 ETFQILFFLFQGEAEDNIPNFVREC--GASLLVTD---FSPLREIRRCKDKICNRVS-DSVTIHEVDAHNVVPVW 163 (501)
Q Consensus 95 ~~~G~~L~v~~G~~~~~l~~L~~~~--~i~~V~~~---~~p~~~~~~rd~~v~~~l~-~gi~~~~~~~~~l~~p~ 163 (501)
+++|+.+.+++.+.+..|...+.+. .++.|+.| ++... -++.++++ -++++.+++-..++..+
T Consensus 39 ~~~g~~v~~~QSN~EGelid~I~~a~~~~dgiIINpga~thtS------~Ai~DAl~~~~~P~vEVHiSNi~~RE 107 (140)
T PF01220_consen 39 AELGVEVEFFQSNHEGELIDWIHEARDDVDGIIINPGAYTHTS------IAIRDALKAISIPVVEVHISNIHARE 107 (140)
T ss_dssp HHTTEEEEEEE-SSHHHHHHHHHHHTCTTSEEEEE-GGGGHT-------HHHHHHHHCCTS-EEEEESS-GGGS-
T ss_pred HHCCCeEEEEecCCHHHHHHHHHHHHhhCCEEEEccchhcccc------HHHHHHHHcCCCCEEEEEcCCccccc
Confidence 4569999999988887777666554 57888886 33333 24555663 58999999876666553
No 65
>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=27.68 E-value=1e+02 Score=28.24 Aligned_cols=39 Identities=8% Similarity=-0.020 Sum_probs=18.9
Q ss_pred HHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEE
Q 010783 86 LRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLV 125 (501)
Q Consensus 86 L~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~ 125 (501)
+.++-+.| ++.|+++.|+.+.....+..+++.+++..++
T Consensus 85 ~~e~l~~l-~~~g~~~~IvS~~~~~~~~~~l~~~g~~~~~ 123 (201)
T TIGR01491 85 AEELVRWL-KEKGLKTAIVSGGIMCLAKKVAEKLNPDYVY 123 (201)
T ss_pred HHHHHHHH-HHCCCEEEEEeCCcHHHHHHHHHHhCCCeEE
Confidence 34444444 4455555555555444455555555544443
No 66
>PTZ00217 flap endonuclease-1; Provisional
Probab=27.27 E-value=1.5e+02 Score=31.29 Aligned_cols=11 Identities=18% Similarity=0.383 Sum_probs=8.3
Q ss_pred CCcHHHHHHHH
Q 010783 231 ESGEDAAMEVL 241 (501)
Q Consensus 231 ~gGe~~A~~~L 241 (501)
-.|...|++.+
T Consensus 242 GIG~ktA~~Li 252 (393)
T PTZ00217 242 GIGPKTAYKLI 252 (393)
T ss_pred CccHHHHHHHH
Confidence 45788888877
No 67
>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=27.15 E-value=73 Score=28.53 Aligned_cols=41 Identities=15% Similarity=0.097 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEE
Q 010783 85 GLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVT 126 (501)
Q Consensus 85 sL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~ 126 (501)
.+.++-+.| ++.|.++.|..+.....+..+++.+++..++.
T Consensus 77 g~~~~l~~l-~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~~ 117 (177)
T TIGR01488 77 GARELISWL-KERGIDTVIVSGGFDFFVEPVAEKLGIDDVFA 117 (177)
T ss_pred CHHHHHHHH-HHCCCEEEEECCCcHHHHHHHHHHcCCchhee
Confidence 444455555 55566666666555555555555555554443
No 68
>TIGR01521 FruBisAldo_II_B fructose-bisphosphate aldolase, class II, Calvin cycle subtype. Members of this family are class II examples of the enzyme fructose-bisphosphate aldolase, an enzyme both of glycolysis and (in the opposite direction) of the Calvin cycle of CO2 fixation. A deep split separates the tightly conserved yeast/E. coli/Mycobacterium subtype (all species lacking the Calvin cycle) represented by model TIGR01520 from a broader group of aldolases that includes both tagatose- and fructose-bisphosphate aldolases. This model represents a distinct, elongated, very well conserved subtype within the latter group. Most species with this aldolase subtype have the Calvin cycle.
Probab=27.04 E-value=4.4e+02 Score=27.31 Aligned_cols=97 Identities=10% Similarity=0.093 Sum_probs=51.3
Q ss_pred HHHHhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCC-
Q 010783 51 VDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFS- 129 (501)
Q Consensus 51 ~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~- 129 (501)
++.|.+.+.||+. -+ .+..... ....++...+..+.++. ...-+-|++=+|...+.+.+-+ +.|.+.|-+|-+
T Consensus 33 i~AAEe~~sPvIl-q~-s~~~~~~--~g~~~~~~~~~~~ae~~-~~VPValHLDHg~~~e~i~~Ai-~~GFtSVMiDgS~ 106 (347)
T TIGR01521 33 MEAADKTDSPVIL-QA-SRGARSY--AGAPFLRHLILAAIEEY-PHIPVVMHQDHGNSPATCQRAI-QLGFTSVMMDGSL 106 (347)
T ss_pred HHHHHHhCCCEEE-EC-Ccchhhh--CCHHHHHHHHHHHHHhC-CCCcEEEECCCCCCHHHHHHHH-HcCCCEEeecCcC
Confidence 3444455667762 22 1221111 11344444444444333 1122333333565555554433 459999999754
Q ss_pred --------cchHHHHHHHHHHHHh-CCCceEEE
Q 010783 130 --------PLREIRRCKDKICNRV-SDSVTIHE 153 (501)
Q Consensus 130 --------p~~~~~~rd~~v~~~l-~~gi~~~~ 153 (501)
|.++-.+..++|.+.+ ..||.|+-
T Consensus 107 l~~~~~~~p~eENI~~Tkevve~Ah~~GvsVEa 139 (347)
T TIGR01521 107 REDAKTPADYDYNVRVTAEVVAFAHAVGASVEG 139 (347)
T ss_pred CcccCCCCCHHHHHHHHHHHHHHHHHcCCeEEE
Confidence 6666566788888887 47887655
No 69
>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=26.83 E-value=4.2e+02 Score=25.46 Aligned_cols=72 Identities=10% Similarity=0.147 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHHHHhhcCCeEEEEecC--hh---hHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEEEE
Q 010783 80 GFMLRGLRLLQRNIEETFQILFFLFQGE--AE---DNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEV 154 (501)
Q Consensus 80 ~Fl~esL~~L~~~L~~~~G~~L~v~~G~--~~---~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~~~ 154 (501)
-|..+-+..+.+.+ ++.|..+++...+ +. +.+..+. ..+++.|+..-. ... ..+..+.+..+.||++..+
T Consensus 12 ~f~~~~~~gi~~~~-~~~G~~~~~~~~~~d~~~~~~~i~~~~-~~~vdgiii~~~-~~~--~~~~~i~~~~~~~iPvV~~ 86 (272)
T cd06313 12 TWCAQGKQAADEAG-KLLGVDVTWYGGALDAVKQVAAIENMA-SQGWDFIAVDPL-GIG--TLTEAVQKAIARGIPVIDM 86 (272)
T ss_pred hHHHHHHHHHHHHH-HHcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC-ChH--HhHHHHHHHHHCCCcEEEe
Confidence 47778888899999 9999999988653 22 3344443 578999988421 110 1123344433579999998
Q ss_pred ec
Q 010783 155 DA 156 (501)
Q Consensus 155 ~~ 156 (501)
+.
T Consensus 87 ~~ 88 (272)
T cd06313 87 GT 88 (272)
T ss_pred CC
Confidence 75
No 70
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=26.73 E-value=2.7e+02 Score=26.39 Aligned_cols=72 Identities=10% Similarity=0.054 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHHHhhcCCeEEEEecC-h---hhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEEEE
Q 010783 79 LGFMLRGLRLLQRNIEETFQILFFLFQGE-A---EDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEV 154 (501)
Q Consensus 79 ~~Fl~esL~~L~~~L~~~~G~~L~v~~G~-~---~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~~~ 154 (501)
..|..+-+..+++.+ ++.|..+.+..++ . .+.+..++...+++.|+..-.... +..++...+.||++..+
T Consensus 16 ~~~~~~~~~~~~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-----~~~~~~~~~~~ipvV~~ 89 (270)
T cd06294 16 NPFFIEVLRGISAVA-NENGYDISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED-----DPIIDYLKEEKFPFVVI 89 (270)
T ss_pred CCCHHHHHHHHHHHH-HHCCCEEEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC-----cHHHHHHHhcCCCEEEE
Confidence 345666777888888 8889998876543 2 234445555667898887421111 11222222468999888
Q ss_pred ec
Q 010783 155 DA 156 (501)
Q Consensus 155 ~~ 156 (501)
+.
T Consensus 90 ~~ 91 (270)
T cd06294 90 GK 91 (270)
T ss_pred CC
Confidence 64
No 71
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=26.27 E-value=4e+02 Score=25.38 Aligned_cols=71 Identities=8% Similarity=-0.062 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHHHhhcCCeEEEEecCh--hhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEEEEec
Q 010783 80 GFMLRGLRLLQRNIEETFQILFFLFQGEA--EDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDA 156 (501)
Q Consensus 80 ~Fl~esL~~L~~~L~~~~G~~L~v~~G~~--~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~~~~~ 156 (501)
.|..+-++.+.+.+ ++.|..+.+...+. .+.+.+.+.+.+++.|+..-.... +..+..+.+.||++..++.
T Consensus 23 ~~~~~~~~gi~~~~-~~~g~~~~v~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~-----~~~~~~~~~~~ipvV~~~~ 95 (275)
T cd06295 23 PFFLSLLGGIADAL-AERGYDLLLSFVSSPDRDWLARYLASGRADGVILIGQHDQ-----DPLPERLAETGLPFVVWGR 95 (275)
T ss_pred chHHHHHHHHHHHH-HHcCCEEEEEeCCchhHHHHHHHHHhCCCCEEEEeCCCCC-----hHHHHHHHhCCCCEEEECC
Confidence 45556666678888 88999988875432 334455555678999887321111 1224333356999998864
No 72
>cd03013 PRX5_like Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5 suggests that it may have an important antioxidant role in organelles that are major sources of reactive oxygen species (ROS), as well as a role in the control of signal transduction. PRX5 has been shown to reduce hydrogen peroxide, alkyl hydroperoxides and peroxynitrite. As with all other PRXs, the N-terminal peroxidatic cysteine of PRX5 is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Human PRX5 is able to resolve this intermediate by forming an intramolecular disulfide bond with its C-terminal cysteine (the resolving cysteine), which can then be reduced by TRX, just like an atypical 2-cys PRX. This resolving cysteine, however, is not conserved in other members of the subfamily. In such cases
Probab=25.89 E-value=4.5e+02 Score=23.36 Aligned_cols=38 Identities=11% Similarity=0.046 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHhhcCC-eEEEEecChhhHHHHHHHHhCC
Q 010783 83 LRGLRLLQRNIEETFQI-LFFLFQGEAEDNIPNFVRECGA 121 (501)
Q Consensus 83 ~esL~~L~~~L~~~~G~-~L~v~~G~~~~~l~~L~~~~~i 121 (501)
+.++++..+++ +++|. .++....++.....++++++++
T Consensus 50 ~~~~~~~~~~f-~~~g~~~V~~iS~D~~~~~~~~~~~~~~ 88 (155)
T cd03013 50 LPGYVENADEL-KAKGVDEVICVSVNDPFVMKAWGKALGA 88 (155)
T ss_pred HHHHHHhHHHH-HHCCCCEEEEEECCCHHHHHHHHHhhCC
Confidence 45678888999 99999 4888888888999999999987
No 73
>PRK10671 copA copper exporting ATPase; Provisional
Probab=25.54 E-value=2.6e+02 Score=32.52 Aligned_cols=44 Identities=9% Similarity=0.202 Sum_probs=37.8
Q ss_pred HHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCCcch
Q 010783 88 LLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (501)
Q Consensus 88 ~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~ 132 (501)
+.-++| ++.|+.+.+..|+.......++++.+++.++....|..
T Consensus 657 ~~i~~L-~~~gi~v~~~Tgd~~~~a~~ia~~lgi~~~~~~~~p~~ 700 (834)
T PRK10671 657 AALQRL-HKAGYRLVMLTGDNPTTANAIAKEAGIDEVIAGVLPDG 700 (834)
T ss_pred HHHHHH-HHCCCeEEEEcCCCHHHHHHHHHHcCCCEEEeCCCHHH
Confidence 344677 88899999999999999999999999999998876654
No 74
>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=25.29 E-value=4.1e+02 Score=25.22 Aligned_cols=71 Identities=14% Similarity=0.120 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHHHhhcCCeEEEEecChhh----HHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEEEE
Q 010783 79 LGFMLRGLRLLQRNIEETFQILFFLFQGEAED----NIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEV 154 (501)
Q Consensus 79 ~~Fl~esL~~L~~~L~~~~G~~L~v~~G~~~~----~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~~~ 154 (501)
-.|..+-+..+++.+ +++|..+.+...+..+ .+.+.+.+.+++.|+....... ..+....+.||++..+
T Consensus 14 ~~~~~~~~~~i~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~------~~~~~l~~~~ipvV~~ 86 (268)
T cd06277 14 PAFYSEIYRAIEEEA-KKYGYNLILKFVSDEDEEEFELPSFLEDGKVDGIILLGGIST------EYIKEIKELGIPFVLV 86 (268)
T ss_pred CCcHHHHHHHHHHHH-HHcCCEEEEEeCCCChHHHHHHHHHHHHCCCCEEEEeCCCCh------HHHHHHhhcCCCEEEE
Confidence 345566777889999 9999999887644221 2223344678999998532211 1233333468999887
Q ss_pred ec
Q 010783 155 DA 156 (501)
Q Consensus 155 ~~ 156 (501)
+.
T Consensus 87 ~~ 88 (268)
T cd06277 87 DH 88 (268)
T ss_pred cc
Confidence 64
No 75
>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=25.10 E-value=4.3e+02 Score=25.24 Aligned_cols=71 Identities=15% Similarity=0.020 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHhhcCCeEEEEecChh----hHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEEEEe
Q 010783 80 GFMLRGLRLLQRNIEETFQILFFLFQGEAE----DNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVD 155 (501)
Q Consensus 80 ~Fl~esL~~L~~~L~~~~G~~L~v~~G~~~----~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~~~~ 155 (501)
.|..+-+..+.+.+ +++|..+++...+.. +.+..++...+++.|+..-.... +..+....+.|+++..++
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 56677788889999 999999988765322 33444455678999988532111 112222224689999886
Q ss_pred c
Q 010783 156 A 156 (501)
Q Consensus 156 ~ 156 (501)
.
T Consensus 86 ~ 86 (269)
T cd06297 86 A 86 (269)
T ss_pred c
Confidence 5
No 76
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=24.85 E-value=1.2e+02 Score=25.26 Aligned_cols=41 Identities=15% Similarity=0.157 Sum_probs=29.3
Q ss_pred HHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHh--CCCEEEEcC
Q 010783 86 LRLLQRNIEETFQILFFLFQGEAEDNIPNFVREC--GASLLVTDF 128 (501)
Q Consensus 86 L~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~--~i~~V~~~~ 128 (501)
|.....+| ++.|+.|+++--...+.+.++++.. ... ||+|.
T Consensus 2 L~~~~~~l-~~~gv~lv~I~~g~~~~~~~f~~~~~~p~~-ly~D~ 44 (115)
T PF13911_consen 2 LSRRKPEL-EAAGVKLVVIGCGSPEGIEKFCELTGFPFP-LYVDP 44 (115)
T ss_pred hhHhHHHH-HHcCCeEEEEEcCCHHHHHHHHhccCCCCc-EEEeC
Confidence 66778899 9999999887644443388888653 444 77765
No 77
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=23.79 E-value=3.5e+02 Score=26.94 Aligned_cols=63 Identities=2% Similarity=-0.149 Sum_probs=52.9
Q ss_pred EEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEecChh--hHHHHHHHHhCCCEEEEc
Q 010783 64 AFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAE--DNIPNFVRECGASLLVTD 127 (501)
Q Consensus 64 vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G~~~--~~l~~L~~~~~i~~V~~~ 127 (501)
+|+.|......|.+-..++.+-..++-+.| .+.++.++|.-.++. -+|..|-+++++--|-+-
T Consensus 34 iY~~D~a~~PYG~ks~e~I~~~~~~i~~~l-~~~~ik~lVIACNTASa~al~~LR~~~~iPVvGvi 98 (269)
T COG0796 34 IYVGDTARFPYGEKSEEEIRERTLEIVDFL-LERGIKALVIACNTASAVALEDLREKFDIPVVGVI 98 (269)
T ss_pred EEEecCCCCCCCCCCHHHHHHHHHHHHHHH-HHcCCCEEEEecchHHHHHHHHHHHhCCCCEEEec
Confidence 899998888899999999999999999999 999999999988754 557788888877666553
No 78
>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=23.42 E-value=1.2e+02 Score=30.34 Aligned_cols=36 Identities=17% Similarity=0.409 Sum_probs=18.2
Q ss_pred HHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCC
Q 010783 85 GLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGA 121 (501)
Q Consensus 85 sL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i 121 (501)
+..+|-+.| ++.|+++.|..|.....+..++++.++
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 344455555 555555555555555555555544443
No 79
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. 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
Probab=23.36 E-value=4.9e+02 Score=24.49 Aligned_cols=71 Identities=4% Similarity=-0.104 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcC-CcchHHHHHHHHHHHHhCCCceEEEEec
Q 010783 79 LGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDF-SPLREIRRCKDKICNRVSDSVTIHEVDA 156 (501)
Q Consensus 79 ~~Fl~esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~-~p~~~~~~rd~~v~~~l~~gi~~~~~~~ 156 (501)
-.|..+-+..+.+.+ ++.|..+.+......+...+.....+++.|+..- .... ..+......|+++..++.
T Consensus 11 ~~~~~~~~~gi~~~~-~~~g~~~~~~~~~~~~~~~~~l~~~~vdgii~~~~~~~~------~~~~~~~~~~ipvV~~~~ 82 (261)
T cd06272 11 RVALTELVTGINQAI-SKNGYNMNVSITPSLAEAEDLFKENRFDGVIIFGESASD------VEYLYKIKLAIPVVSYGV 82 (261)
T ss_pred chhHHHHHHHHHHHH-HHcCCEEEEEecccHHHHHHHHHHcCcCEEEEeCCCCCh------HHHHHHHHcCCCEEEEcc
Confidence 457777888888888 8889888887543223333445566899888732 2111 123332246888888864
No 80
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=23.31 E-value=1e+02 Score=29.42 Aligned_cols=41 Identities=10% Similarity=0.107 Sum_probs=35.6
Q ss_pred HHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEc
Q 010783 86 LRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTD 127 (501)
Q Consensus 86 L~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~ 127 (501)
..+|-+.+ ++.|....|..|.+...+..+++..+++.++.+
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 77788888 899999999999998888889999998887774
No 81
>PRK13210 putative L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=23.18 E-value=6e+02 Score=24.64 Aligned_cols=79 Identities=9% Similarity=0.042 Sum_probs=50.0
Q ss_pred HHHHHHHHhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEec-----ChhhHHHHHHHHhCC
Q 010783 47 LIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG-----EAEDNIPNFVRECGA 121 (501)
Q Consensus 47 L~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G-----~~~~~l~~L~~~~~i 121 (501)
+..++..|..-|.+.+.+.-.+..........+..+.++|+.+.+.. ++.|+.|.+-.. +..+.+..|+++.+-
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 45566666667777764432221111223456778889999999999 999999988652 223456677887665
Q ss_pred CEEEE
Q 010783 122 SLLVT 126 (501)
Q Consensus 122 ~~V~~ 126 (501)
..|-.
T Consensus 175 ~~~~~ 179 (284)
T PRK13210 175 PWLTV 179 (284)
T ss_pred CceeE
Confidence 55544
No 82
>COG0196 RibF FAD synthase [Coenzyme metabolism]
Probab=22.85 E-value=3.2e+02 Score=27.69 Aligned_cols=109 Identities=17% Similarity=0.148 Sum_probs=60.4
Q ss_pred HHHHHHHHHHhhCCCCEEEEEEecCCcc-ccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEec--------ChhhHHHHH
Q 010783 45 WALIHAVDQANKNNVPVAVAFNLFDQFL-GAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG--------EAEDNIPNF 115 (501)
Q Consensus 45 ~aL~~A~~~a~~~~~~vl~vfi~dp~~~-~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G--------~~~~~l~~L 115 (501)
.-|.+|.+.|.+.+.+++ |+.|+|.-. -..+.+.-..+-.+.+=-+.| +.+|++.++..- ++.+-+..+
T Consensus 33 ~ll~~a~~~a~~~~~~~~-VitF~p~P~~~~~~~~~~~~Lt~~~~k~~~l-~~~gvd~~~v~~F~~~fa~ls~~~Fv~~l 110 (304)
T COG0196 33 KLLAQALEAAEKRGLPVV-VITFEPHPRELLKPDKPPTRLTPLREKIRLL-AGYGVDALVVLDFDLEFANLSAEEFVELL 110 (304)
T ss_pred HHHHHHHHHHHHhCCceE-EEEecCCCHHHcCCCCCccccCCHHHHHHHH-HhcCCcEEEEEeCCHhHhhCCHHHHHHHH
Confidence 345567777777776666 777776411 111111223333455555568 889988777642 233445557
Q ss_pred HHHhCCCEEEE--cCCcchHHHHH-HHHHHHHhCCCceEEEEec
Q 010783 116 VRECGASLLVT--DFSPLREIRRC-KDKICNRVSDSVTIHEVDA 156 (501)
Q Consensus 116 ~~~~~i~~V~~--~~~p~~~~~~r-d~~v~~~l~~gi~~~~~~~ 156 (501)
++..+++.|++ |...... +.= ..-++..++.|+.+..+..
T Consensus 111 v~~l~~k~ivvG~DF~FGk~-~~g~~~~L~~~~~~gf~v~~v~~ 153 (304)
T COG0196 111 VEKLNVKHIVVGFDFRFGKG-RQGNAELLRELGQKGFEVTIVPK 153 (304)
T ss_pred HhccCCcEEEEecccccCCC-CCCCHHHHHHhccCCceEEEecc
Confidence 78899999988 4432211 111 1234444433787777654
No 83
>PRK10517 magnesium-transporting ATPase MgtA; Provisional
Probab=22.82 E-value=2.8e+02 Score=32.67 Aligned_cols=39 Identities=10% Similarity=0.131 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCC
Q 010783 83 LRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGAS 122 (501)
Q Consensus 83 ~esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~ 122 (501)
.+...+.-++| ++.|+...+..||....-..++++.|+.
T Consensus 552 R~~a~~aI~~l-~~aGI~v~miTGD~~~tA~~IA~~lGI~ 590 (902)
T PRK10517 552 KETTAPALKAL-KASGVTVKILTGDSELVAAKVCHEVGLD 590 (902)
T ss_pred hhhHHHHHHHH-HHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 35666677778 8999999999999999999999999997
No 84
>PRK09196 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=22.78 E-value=5.4e+02 Score=26.67 Aligned_cols=54 Identities=13% Similarity=0.139 Sum_probs=35.9
Q ss_pred CeEEE--EecChhhHHHHHHHHhCCCEEEEcCC---------cchHHHHHHHHHHHHh-CCCceEEE
Q 010783 99 ILFFL--FQGEAEDNIPNFVRECGASLLVTDFS---------PLREIRRCKDKICNRV-SDSVTIHE 153 (501)
Q Consensus 99 ~~L~v--~~G~~~~~l~~L~~~~~i~~V~~~~~---------p~~~~~~rd~~v~~~l-~~gi~~~~ 153 (501)
+|+.+ =+|...+.+.+-+ +.|.+.|-+|-+ |.++-.+..+++.+.+ ..||.|+-
T Consensus 76 VPValHLDHg~~~e~i~~ai-~~GftSVMiDgS~l~~~~~~~p~eENI~~Tkevve~Ah~~Gv~VEa 141 (347)
T PRK09196 76 IPVVMHQDHGNSPATCQRAI-QLGFTSVMMDGSLKADGKTPASYEYNVDVTRKVVEMAHACGVSVEG 141 (347)
T ss_pred CcEEEECCCCCCHHHHHHHH-HcCCCEEEecCCCCcccCCCCCHHHHHHHHHHHHHHHHHcCCeEEE
Confidence 45444 3566656555433 469999999754 5565566778888887 47887764
No 85
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=22.72 E-value=4.4e+02 Score=24.85 Aligned_cols=71 Identities=10% Similarity=0.159 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHhhcCCeEEEE-ec--Chh---hHHHHHHHHhCCCEEEEc-CCcchHHHHHHHHHHHHhCCCceEEE
Q 010783 81 FMLRGLRLLQRNIEETFQILFFLF-QG--EAE---DNIPNFVRECGASLLVTD-FSPLREIRRCKDKICNRVSDSVTIHE 153 (501)
Q Consensus 81 Fl~esL~~L~~~L~~~~G~~L~v~-~G--~~~---~~l~~L~~~~~i~~V~~~-~~p~~~~~~rd~~v~~~l~~gi~~~~ 153 (501)
|..+-..-+++.+ +++|..+.+. .+ ++. +.+.+++ ..+++.|++. .++... ...+.+..++||++..
T Consensus 12 ~~~~~~~g~~~~a-~~~g~~~~~~~~~~~d~~~q~~~i~~~i-~~~~d~Iiv~~~~~~~~----~~~l~~~~~~gIpvv~ 85 (257)
T PF13407_consen 12 FWQQVIKGAKAAA-KELGYEVEIVFDAQNDPEEQIEQIEQAI-SQGVDGIIVSPVDPDSL----APFLEKAKAAGIPVVT 85 (257)
T ss_dssp HHHHHHHHHHHHH-HHHTCEEEEEEESTTTHHHHHHHHHHHH-HTTESEEEEESSSTTTT----HHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHHHH-HHcCCEEEEeCCCCCCHHHHHHHHHHHH-HhcCCEEEecCCCHHHH----HHHHHHHhhcCceEEE
Confidence 7777788888888 8899999885 43 332 2233333 3479999985 333321 2344444457999999
Q ss_pred Eecc
Q 010783 154 VDAH 157 (501)
Q Consensus 154 ~~~~ 157 (501)
++..
T Consensus 86 ~d~~ 89 (257)
T PF13407_consen 86 VDSD 89 (257)
T ss_dssp ESST
T ss_pred Eecc
Confidence 8765
No 86
>PF12710 HAD: haloacid dehalogenase-like hydrolase; PDB: 3P96_A 3N28_A 3FVV_A 1RKU_A 1RKV_A 1Y8A_A 2FEA_B 3KD3_B.
Probab=22.66 E-value=1.7e+02 Score=26.36 Aligned_cols=39 Identities=15% Similarity=0.267 Sum_probs=32.2
Q ss_pred HHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCE--EEEc
Q 010783 88 LLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASL--LVTD 127 (501)
Q Consensus 88 ~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~--V~~~ 127 (501)
++-+.+ ++.|.+++|+.|.+...+..+++..++.. |+.+
T Consensus 96 e~i~~~-~~~~~~v~IvS~~~~~~i~~~~~~~~i~~~~v~~~ 136 (192)
T PF12710_consen 96 ELIREL-KDNGIKVVIVSGSPDEIIEPIAERLGIDDDNVIGN 136 (192)
T ss_dssp HHHHHH-HHTTSEEEEEEEEEHHHHHHHHHHTTSSEGGEEEE
T ss_pred HHHHHH-HHCCCEEEEECCCcHHHHHHHHHHcCCCceEEEEE
Confidence 555667 78899999999999999999999999887 6664
No 87
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=22.48 E-value=3.7e+02 Score=24.87 Aligned_cols=56 Identities=13% Similarity=0.224 Sum_probs=44.6
Q ss_pred HHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHH
Q 010783 86 LRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNR 144 (501)
Q Consensus 86 L~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~ 144 (501)
+.+.-.++ ++.|+.++|..-+.+.-+..+++..++.-|+...-|.. +...+++++.
T Consensus 51 ~~~W~~e~-k~~gi~v~vvSNn~e~RV~~~~~~l~v~fi~~A~KP~~--~~fr~Al~~m 106 (175)
T COG2179 51 LRAWLAEL-KEAGIKVVVVSNNKESRVARAAEKLGVPFIYRAKKPFG--RAFRRALKEM 106 (175)
T ss_pred HHHHHHHH-HhcCCEEEEEeCCCHHHHHhhhhhcCCceeecccCccH--HHHHHHHHHc
Confidence 44444677 88999999999888899999999999999999877876 3555666654
No 88
>COG3053 CitC Citrate lyase synthetase [Energy production and conversion]
Probab=22.42 E-value=7.1e+02 Score=25.26 Aligned_cols=102 Identities=9% Similarity=0.040 Sum_probs=65.7
Q ss_pred CCCccCCHHHHHHHHHHhhCCCCEEEEEEecCCc-cccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEecC---------
Q 010783 38 DQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQF-LGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE--------- 107 (501)
Q Consensus 38 DLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~-~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G~--------- 107 (501)
=+=+-.--...+|++ ....+.+|+...+. .-.-.-|+..+.+++.+|..=- --.|++.+|-+..
T Consensus 156 PFTLGH~YLVEqAaa-----qcDwlHLFvV~eD~S~f~y~~R~~Lv~~G~~~l~Nvt-~HsgsdYiISrATFP~YFiKeq 229 (352)
T COG3053 156 PFTLGHRYLVEQAAA-----QCDWLHLFVVKEDSSLFPYEDRLDLVKKGTADLPNVT-VHSGSDYIISRATFPAYFIKEQ 229 (352)
T ss_pred CccchhHHHHHHHHh-----hCCEEEEEEEecccccCCHHHHHHHHHHhhccCCceE-EecCCCeEEEecccchhhhhhH
Confidence 343433333344543 24688899885542 2223567999999999997766 5668888876532
Q ss_pred ----------hhhHHHH-HHHHhCCCEEEEcCCcc-hHHHHHHHHHHHHh
Q 010783 108 ----------AEDNIPN-FVRECGASLLVTDFSPL-REIRRCKDKICNRV 145 (501)
Q Consensus 108 ----------~~~~l~~-L~~~~~i~~V~~~~~p~-~~~~~rd~~v~~~l 145 (501)
...++.+ +++..||++=|+-.||. ..+..-.+.+..+|
T Consensus 230 ~vv~~s~t~iDl~iFr~~iA~aLgIThRfVG~EP~c~vT~~YNq~M~~~L 279 (352)
T COG3053 230 SVVNDSQTEIDLKIFRKYIAPALGITHRFVGTEPFCRVTAIYNQQMRYWL 279 (352)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCcceeeecCCCCcHHHHHHHHHHHHHH
Confidence 1234555 77888999999977773 33344456788888
No 89
>TIGR01511 ATPase-IB1_Cu copper-(or silver)-translocating P-type ATPase. One member from Halobacterium is annotated as "molybdenum-binding protein" although no evidence can be found for this classification.
Probab=21.97 E-value=3.1e+02 Score=30.28 Aligned_cols=46 Identities=11% Similarity=0.184 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCCcc
Q 010783 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPL 131 (501)
Q Consensus 84 esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~ 131 (501)
....++=++| ++.|+.+.+..|+.......++++++++ ++.+..|.
T Consensus 408 ~~a~e~i~~L-k~~Gi~v~ilSgd~~~~a~~ia~~lgi~-~~~~~~p~ 453 (562)
T TIGR01511 408 PEAKEVIQAL-KRRGIEPVMLTGDNRKTAKAVAKELGIN-VRAEVLPD 453 (562)
T ss_pred HHHHHHHHHH-HHcCCeEEEEcCCCHHHHHHHHHHcCCc-EEccCChH
Confidence 4555666667 8899999999999999999999999997 55555553
No 90
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=21.93 E-value=4.6e+02 Score=24.69 Aligned_cols=58 Identities=17% Similarity=0.334 Sum_probs=38.0
Q ss_pred HHHHHHHHhhcCCeEEEEecChh----------------------hHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHH
Q 010783 87 RLLQRNIEETFQILFFLFQGEAE----------------------DNIPNFVRECGASLLVTDFSPLREIRRCKDKICNR 144 (501)
Q Consensus 87 ~~L~~~L~~~~G~~L~v~~G~~~----------------------~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~ 144 (501)
..|.+.| .+.|...+++.|+.. ..+.+|..+.|.-.|++-.+|+..+|+ .+++.
T Consensus 41 ~ale~~L-~~~G~~~y~LDGDnvR~gL~~dLgFs~edR~eniRRvaevAkll~daG~iviva~ISP~r~~R~---~aR~~ 116 (197)
T COG0529 41 NALEEKL-FAKGYHVYLLDGDNVRHGLNRDLGFSREDRIENIRRVAEVAKLLADAGLIVIVAFISPYREDRQ---MAREL 116 (197)
T ss_pred HHHHHHH-HHcCCeEEEecChhHhhcccCCCCCChHHHHHHHHHHHHHHHHHHHCCeEEEEEeeCccHHHHH---HHHHH
Confidence 3577888 999999999988642 113344455677677777888876553 34454
Q ss_pred hCCC
Q 010783 145 VSDS 148 (501)
Q Consensus 145 l~~g 148 (501)
+.+|
T Consensus 117 ~~~~ 120 (197)
T COG0529 117 LGEG 120 (197)
T ss_pred hCcC
Confidence 5444
No 91
>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=21.85 E-value=7.1e+02 Score=23.79 Aligned_cols=83 Identities=8% Similarity=0.093 Sum_probs=52.2
Q ss_pred HHHHHHHHHhhCCCCEEEEEE-ecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEec----------ChhhHHHH
Q 010783 46 ALIHAVDQANKNNVPVAVAFN-LFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG----------EAEDNIPN 114 (501)
Q Consensus 46 aL~~A~~~a~~~~~~vl~vfi-~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G----------~~~~~l~~ 114 (501)
.+..++..|.+-|.+.+.+.. ..+.. .....-+..+.++|+.+.+-. ++.|+.+.+-.. +..+.+.+
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 344566666666777654322 11211 112333556689999999888 899999988642 24566778
Q ss_pred HHHHhCCCEEEEcCCc
Q 010783 115 FVRECGASLLVTDFSP 130 (501)
Q Consensus 115 L~~~~~i~~V~~~~~p 130 (501)
++++.+-..|-+..++
T Consensus 163 li~~v~~~~~~i~~D~ 178 (254)
T TIGR03234 163 VIDDVGRENLKLQYDL 178 (254)
T ss_pred HHHHhCCCCEeEeeeh
Confidence 8888877767654433
No 92
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=21.72 E-value=6.1e+02 Score=25.05 Aligned_cols=53 Identities=11% Similarity=0.141 Sum_probs=34.7
Q ss_pred cCCeEEEEe-cCh-----hhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh-CCCceEEE
Q 010783 97 FQILFFLFQ-GEA-----EDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHE 153 (501)
Q Consensus 97 ~G~~L~v~~-G~~-----~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l-~~gi~~~~ 153 (501)
..++++++. .++ .+.+.+.+++.|++.|+....|.++ ...+.+.| ++|+....
T Consensus 90 ~~~p~vlm~Y~N~i~~~G~e~F~~~~~~aGvdgviipDLP~ee----~~~~~~~~~~~gi~~I~ 149 (263)
T CHL00200 90 IKAPIVIFTYYNPVLHYGINKFIKKISQAGVKGLIIPDLPYEE----SDYLISVCNLYNIELIL 149 (263)
T ss_pred CCCCEEEEecccHHHHhCHHHHHHHHHHcCCeEEEecCCCHHH----HHHHHHHHHHcCCCEEE
Confidence 467865543 443 3556777788999999997666542 34556666 47886665
No 93
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=21.65 E-value=1.9e+02 Score=30.83 Aligned_cols=68 Identities=16% Similarity=0.076 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHHHhhcCCeEEEEec--ChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh-CCCceEEEE
Q 010783 82 MLRGLRLLQRNIEETFQILFFLFQG--EAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEV 154 (501)
Q Consensus 82 l~esL~~L~~~L~~~~G~~L~v~~G--~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l-~~gi~~~~~ 154 (501)
+=+=|..+.+++ ++.|..++.... +..+.+.+++++.+++.|+..-+...++ -.+.+.| +.|+++..-
T Consensus 49 ld~~l~~~~~~~-~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS~~~ee----igl~~~L~~~g~~~~et 119 (432)
T TIGR00273 49 LDFYLDQLKENV-TQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSKSMVSEE----IGLNEVLEKIGIEVWET 119 (432)
T ss_pred HHHHHHHHHHHH-HHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcCchHHHH----hCCHHHHHhCCCeeeeC
Confidence 444556667778 888999988864 4668899999999999999976554432 2455556 367765443
No 94
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=21.53 E-value=3.6e+02 Score=22.66 Aligned_cols=57 Identities=12% Similarity=-0.028 Sum_probs=37.2
Q ss_pred CEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEEec------ChhhHHHHHHHHhCCC
Q 010783 60 PVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG------EAEDNIPNFVRECGAS 122 (501)
Q Consensus 60 ~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~~G------~~~~~l~~L~~~~~i~ 122 (501)
+++.|+++.. .+...+.. +..|.+|.+++ ++.|+.++.+.. +..+.+.++++++++.
T Consensus 24 k~vvl~F~a~---~C~~C~~~--~p~l~~l~~~~-~~~~~~vi~i~~~~~~~~~~~~~~~~~~~~~~~~ 86 (126)
T cd03012 24 KVVLLDFWTY---CCINCLHT--LPYLTDLEQKY-KDDGLVVIGVHSPEFAFERDLANVKSAVLRYGIT 86 (126)
T ss_pred CEEEEEEECC---CCccHHHH--HHHHHHHHHHc-CcCCeEEEEeccCccccccCHHHHHHHHHHcCCC
Confidence 4444666643 33333222 56789999999 888888777643 3456777888888776
No 95
>PRK15122 magnesium-transporting ATPase; Provisional
Probab=21.52 E-value=2.9e+02 Score=32.57 Aligned_cols=38 Identities=11% Similarity=0.108 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCC
Q 010783 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGAS 122 (501)
Q Consensus 84 esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~ 122 (501)
+...+.-++| ++.|+.+.+..||....-..++++.|+.
T Consensus 553 ~~a~~aI~~l-~~aGI~v~miTGD~~~tA~aIA~~lGI~ 590 (903)
T PRK15122 553 ESAAPAIAAL-RENGVAVKVLTGDNPIVTAKICREVGLE 590 (903)
T ss_pred HHHHHHHHHH-HHCCCeEEEECCCCHHHHHHHHHHcCCC
Confidence 4566667778 9999999999999999999999999997
No 96
>PF00578 AhpC-TSA: AhpC/TSA family; InterPro: IPR000866 Peroxiredoxins (Prxs) are a ubiquitous family of antioxidant enzymes that also control cytokine-induced peroxide levels which mediate signal transduction in mammalian cells. Prxs can be regulated by changes to phosphorylation, redox and possibly oligomerisation states. Prxs are divided into three classes: typical 2-Cys Prxs; atypical 2-Cys Prxs; and 1-Cys Prxs. All Prxs share the same basic catalytic mechanism, in which an active-site cysteine (the peroxidatic cysteine) is oxidised to a sulphenic acid by the peroxide substrate. The recycling of the sulphenic acid back to a thiol is what distinguishes the three enzyme classes. Using crystal structures, a detailed catalytic cycle has been derived for typical 2-Cys Prxs, including a model for the redox-regulated oligomeric state proposed to control enzyme activity []. Alkyl hydroperoxide reductase (AhpC) is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defence against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.; GO: 0016209 antioxidant activity, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QMV_A 1PRX_B 3HJP_C 3HA9_A 2V41_G 2V32_C 2V2G_C 3LWA_A 3IA1_B 1ZYE_G ....
Probab=21.36 E-value=2.1e+02 Score=23.72 Aligned_cols=46 Identities=17% Similarity=0.244 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCC-EEEEcC
Q 010783 82 MLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGAS-LLVTDF 128 (501)
Q Consensus 82 l~esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~-~V~~~~ 128 (501)
.+..|.++.+++ ++.|+.++.+..++.+.+.+++++++.. .+++|.
T Consensus 44 ~l~~l~~~~~~~-~~~~~~vi~is~d~~~~~~~~~~~~~~~~~~~~D~ 90 (124)
T PF00578_consen 44 ELPELNELYKKY-KDKGVQVIGISTDDPEEIKQFLEEYGLPFPVLSDP 90 (124)
T ss_dssp HHHHHHHHHHHH-HTTTEEEEEEESSSHHHHHHHHHHHTCSSEEEEET
T ss_pred chhHHHHHhhhh-ccceEEeeecccccccchhhhhhhhccccccccCc
Confidence 345688999999 9999999999989888999999999866 555553
No 97
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=21.24 E-value=4.2e+02 Score=25.89 Aligned_cols=71 Identities=20% Similarity=0.293 Sum_probs=43.5
Q ss_pred hHHHHHHHHHHHHHHHHHhhc-----CCeEEEEecChhhHHHHHHHHhCCCEEEEc---CCcchHHHHHHHHHHHHhC-C
Q 010783 77 RQLGFMLRGLRLLQRNIEETF-----QILFFLFQGEAEDNIPNFVRECGASLLVTD---FSPLREIRRCKDKICNRVS-D 147 (501)
Q Consensus 77 ~r~~Fl~esL~~L~~~L~~~~-----G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~---~~p~~~~~~rd~~v~~~l~-~ 147 (501)
.+..-+.+.|.+|.+++ ++. +..+++.+ +.+.-|++.+|+..+... .+|.. +...++.+.++ +
T Consensus 145 ~N~~~~~~~L~~l~~~~-~~~~~~~~~~~~v~~H----~af~Y~~~~ygl~~~~~~~~~~eps~---~~l~~l~~~ik~~ 216 (266)
T cd01018 145 ANLDALLAELDALDSEI-RTILSKLKQRAFMVYH----PAWGYFARDYGLTQIPIEEEGKEPSP---ADLKRLIDLAKEK 216 (266)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHhcCCCCeEEEEC----chhHHHHHHcCCEEEecCCCCCCCCH---HHHHHHHHHHHHc
Confidence 34444556666666666 432 22344433 488999999999977552 33433 33456667674 7
Q ss_pred CceEEEEe
Q 010783 148 SVTIHEVD 155 (501)
Q Consensus 148 gi~~~~~~ 155 (501)
+|++..++
T Consensus 217 ~v~~if~e 224 (266)
T cd01018 217 GVRVVFVQ 224 (266)
T ss_pred CCCEEEEc
Confidence 88877765
No 98
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=21.18 E-value=1.8e+02 Score=30.19 Aligned_cols=60 Identities=13% Similarity=0.096 Sum_probs=34.9
Q ss_pred HHHhhcCC--eEEEEecChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh-CCCceEE
Q 010783 92 NIEETFQI--LFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIH 152 (501)
Q Consensus 92 ~L~~~~G~--~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l-~~gi~~~ 152 (501)
+| +++|+ ..+++.+.|.-...+.+-+.++..|+.-.+|....+.--+++.+.| .+||+|.
T Consensus 37 ~l-~~lgi~g~~i~~s~~p~~~cad~ii~~gi~rVVi~~D~d~~G~~~~~~~~~~L~~aGi~V~ 99 (360)
T PRK14719 37 SL-KNLKINANFITVSNTPVFQIADDLIAENISEVILLTDFDRAGRVYAKNIMEEFQSRGIKVN 99 (360)
T ss_pred HH-HHcCCCCcEEEEeCCchHHHHHHHHHcCCCEEEEEECCCCCCCccchHHHHHHHHCCCEEE
Confidence 56 77777 4666666665555555555688888773344332222223455666 4788883
No 99
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=21.03 E-value=4.4e+02 Score=24.99 Aligned_cols=71 Identities=10% Similarity=0.046 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHHhhcCCeEEEEecC--h--hhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEEEEe
Q 010783 80 GFMLRGLRLLQRNIEETFQILFFLFQGE--A--EDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVD 155 (501)
Q Consensus 80 ~Fl~esL~~L~~~L~~~~G~~L~v~~G~--~--~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~~~~ 155 (501)
.|..+-+..+.+.+ +++|..+++...+ + ...+.+.+.+.+++.|+..-.+.. +..+.+..+.++++..++
T Consensus 12 ~~~~~~~~gi~~~~-~~~gy~v~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~-----~~~~~~~~~~~~pvV~i~ 85 (269)
T cd06293 12 PFFAELADAVEEEA-DARGLSLVLCATRNRPERELTYLRWLDTNHVDGLIFVTNRPD-----DGALAKLINSYGNIVLVD 85 (269)
T ss_pred CcHHHHHHHHHHHH-HHCCCEEEEEeCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCC-----HHHHHHHHhcCCCEEEEC
Confidence 35566777778888 8889888877543 2 223334556778999988532211 122333334578888876
Q ss_pred c
Q 010783 156 A 156 (501)
Q Consensus 156 ~ 156 (501)
.
T Consensus 86 ~ 86 (269)
T cd06293 86 E 86 (269)
T ss_pred C
Confidence 4
No 100
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=20.74 E-value=4.6e+02 Score=24.71 Aligned_cols=72 Identities=3% Similarity=-0.062 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHHhhcCCeEEEEecCh-----hhHHHHHHHHhCCCEEEEcC-CcchHHHHHHHHHHHHhCCCceEE
Q 010783 79 LGFMLRGLRLLQRNIEETFQILFFLFQGEA-----EDNIPNFVRECGASLLVTDF-SPLREIRRCKDKICNRVSDSVTIH 152 (501)
Q Consensus 79 ~~Fl~esL~~L~~~L~~~~G~~L~v~~G~~-----~~~l~~L~~~~~i~~V~~~~-~p~~~~~~rd~~v~~~l~~gi~~~ 152 (501)
-.|..+-+..+++.+ ++.|..+.+...+. ...+.+++...+++.|+... .... ...+......||++.
T Consensus 11 ~~~~~~~~~gi~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~-----~~~~~~~~~~~ipvv 84 (270)
T cd01545 11 PGYVSEIQLGALDAC-RDTGYQLVIEPCDSGSPDLAERVRALLQRSRVDGVILTPPLSDN-----PELLDLLDEAGVPYV 84 (270)
T ss_pred cccHHHHHHHHHHHH-HhCCCeEEEEeCCCCchHHHHHHHHHHHHCCCCEEEEeCCCCCc-----cHHHHHHHhcCCCEE
Confidence 456677778888888 88999988876442 22344555567899998842 2111 112222224689998
Q ss_pred EEec
Q 010783 153 EVDA 156 (501)
Q Consensus 153 ~~~~ 156 (501)
.++.
T Consensus 85 ~i~~ 88 (270)
T cd01545 85 RIAP 88 (270)
T ss_pred EEec
Confidence 8864
No 101
>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=20.73 E-value=5.1e+02 Score=26.97 Aligned_cols=77 Identities=17% Similarity=0.143 Sum_probs=47.6
Q ss_pred CccCCHHHHHHHHHHhhCCCCEEEEEEecCCccccchhHHHHHHHHHHHHHHHHHhhcCCeEEEE-ecC-hhhHHHHHHH
Q 010783 40 RVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLF-QGE-AEDNIPNFVR 117 (501)
Q Consensus 40 Rl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~G~~L~v~-~G~-~~~~l~~L~~ 117 (501)
-..-||+|+.|+-.-.++|.=.-.+|++|. .-+.+.++.|++.+ .+.|+.+... +.+ ....+.+++.
T Consensus 6 ~~~~n~~~~~~a~~~~~~g~~~~~~yvIDl----------~~I~~N~~~l~~~~-~~~~~~l~~vvKAna~~~~ia~~l~ 74 (382)
T cd06811 6 LLKRNPALIEAALTLHQSGAIPPDTYVIDL----------DQIEENARLLAETA-EKYGIELYFMTKQFGRNPFLARALL 74 (382)
T ss_pred HhhhCHHHHHHHHHHHHcCCCCCCEEEecH----------HHHHHHHHHHHHHH-hhCCCEEEEEEccCCCCHHHHHHHH
Confidence 356799999886533345533335667763 34556888888888 8778776553 443 1234445666
Q ss_pred HhCCCEEEEc
Q 010783 118 ECGASLLVTD 127 (501)
Q Consensus 118 ~~~i~~V~~~ 127 (501)
+.|++.+.+.
T Consensus 75 ~~G~~g~~va 84 (382)
T cd06811 75 EAGIPGAVAV 84 (382)
T ss_pred HcCCCeEeEe
Confidence 7788765553
No 102
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member 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 trans
Probab=20.64 E-value=6.2e+02 Score=23.76 Aligned_cols=70 Identities=6% Similarity=0.004 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHHhhcCCeEEEEecC--hhh--HHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEEEEec
Q 010783 81 FMLRGLRLLQRNIEETFQILFFLFQGE--AED--NIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDA 156 (501)
Q Consensus 81 Fl~esL~~L~~~L~~~~G~~L~v~~G~--~~~--~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~~~~~ 156 (501)
|..+-+..+.+.+ ++.|..+.+.... +.. .+.+.+...+++.|+..-.... +..+.+..+.||++..++.
T Consensus 13 ~~~~~~~gi~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~-----~~~~~~l~~~~ipvV~~~~ 86 (265)
T cd06299 13 YFASLATAIQDAA-SAAGYSTIIGNSDENPETENRYLDNLLSQRVDGIIVVPHEQS-----AEQLEDLLKRGIPVVFVDR 86 (265)
T ss_pred cHHHHHHHHHHHH-HHcCCEEEEEeCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCC-----hHHHHHHHhCCCCEEEEec
Confidence 5556667778888 8889998887532 221 2222344668999988421111 1224443356899988865
No 103
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=20.58 E-value=7.3e+02 Score=23.52 Aligned_cols=73 Identities=10% Similarity=-0.017 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHHHhhcCCeEEEEecC---hh---hHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEE
Q 010783 79 LGFMLRGLRLLQRNIEETFQILFFLFQGE---AE---DNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIH 152 (501)
Q Consensus 79 ~~Fl~esL~~L~~~L~~~~G~~L~v~~G~---~~---~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~ 152 (501)
-.|+.+.+..+.+.+ ++.|..+.+...+ +. +.+..+. ..+++.|+..-. ... .....++...++||++.
T Consensus 12 ~~~~~~~~~g~~~~~-~~~g~~v~~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~-~~~--~~~~~l~~~~~~~ipvV 86 (271)
T cd06312 12 DPFWTVVKNGAEDAA-KDLGVDVEYRGPETFDVADMARLIEAAI-AAKPDGIVVTIP-DPD--ALDPAIKRAVAAGIPVI 86 (271)
T ss_pred CcHHHHHHHHHHHHH-HHhCCEEEEECCCCCCHHHHHHHHHHHH-HhCCCEEEEeCC-ChH--HhHHHHHHHHHCCCeEE
Confidence 367778888999999 9999999988643 22 2233333 348999988431 111 11223444335689999
Q ss_pred EEec
Q 010783 153 EVDA 156 (501)
Q Consensus 153 ~~~~ 156 (501)
.++.
T Consensus 87 ~~~~ 90 (271)
T cd06312 87 SFNA 90 (271)
T ss_pred EeCC
Confidence 9864
No 104
>TIGR00338 serB phosphoserine phosphatase SerB. Phosphoserine phosphatase catalyzes the reaction 3-phospho-serine + H2O = L-serine + phosphate. It catalyzes the last of three steps in the biosynthesis of serine from D-3-phosphoglycerate. Note that this enzyme acts on free phosphoserine, not on phosphoserine residues of phosphoproteins.
Probab=20.56 E-value=1.3e+02 Score=28.23 Aligned_cols=38 Identities=8% Similarity=0.003 Sum_probs=16.7
Q ss_pred HHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEE
Q 010783 86 LRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLL 124 (501)
Q Consensus 86 L~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V 124 (501)
+.++-+.| ++.|.++.++.+.....+..+++..++..+
T Consensus 90 ~~~~l~~l-~~~g~~~~IvS~~~~~~~~~~l~~~~i~~~ 127 (219)
T TIGR00338 90 AEELVKTL-KEKGYKVAVISGGFDLFAEHVKDKLGLDAA 127 (219)
T ss_pred HHHHHHHH-HHCCCEEEEECCCcHHHHHHHHHHcCCCce
Confidence 33344444 444444444444444444444444444433
No 105
>TIGR01647 ATPase-IIIA_H plasma-membrane proton-efflux P-type ATPase. This model describes the plasma membrane proton efflux P-type ATPase found in plants, fungi, protozoa, slime molds and archaea. The best studied representative is from yeast.
Probab=20.43 E-value=3e+02 Score=31.70 Aligned_cols=39 Identities=8% Similarity=0.047 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCE
Q 010783 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASL 123 (501)
Q Consensus 84 esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~ 123 (501)
+...+.-++| ++.|+.+.+..||....-..++++.|+..
T Consensus 445 ~~a~~aI~~l-~~aGI~v~miTGD~~~tA~~IA~~lGI~~ 483 (755)
T TIGR01647 445 HDTKETIERA-RHLGVEVKMVTGDHLAIAKETARRLGLGT 483 (755)
T ss_pred hhHHHHHHHH-HHCCCeEEEECCCCHHHHHHHHHHcCCCC
Confidence 3455666677 89999999999999999999999999975
No 106
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. 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 represso
Probab=20.19 E-value=4.1e+02 Score=24.97 Aligned_cols=71 Identities=7% Similarity=0.005 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHHhhcCCeEEEEecCh----hhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEEEEe
Q 010783 80 GFMLRGLRLLQRNIEETFQILFFLFQGEA----EDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVD 155 (501)
Q Consensus 80 ~Fl~esL~~L~~~L~~~~G~~L~v~~G~~----~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~~~~ 155 (501)
.|..+-+..+.+.+ ++.|..+.+...+. .+.+.+++.+.+++.|+..-.... +..+....+.++++..++
T Consensus 16 ~~~~~~~~~i~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~-----~~~~~~~~~~~ipvV~~~ 89 (268)
T cd06271 16 PFFAEFLSGLSEAL-AEHGYDLVLLPVDPDEDPLEVYRRLVESGLVDGVIISRTRPD-----DPRVALLLERGFPFVTHG 89 (268)
T ss_pred ccHHHHHHHHHHHH-HHCCceEEEecCCCcHHHHHHHHHHHHcCCCCEEEEecCCCC-----ChHHHHHHhcCCCEEEEC
Confidence 45555666778888 88899988876432 244566666668998887421111 112222224688888875
Q ss_pred c
Q 010783 156 A 156 (501)
Q Consensus 156 ~ 156 (501)
.
T Consensus 90 ~ 90 (268)
T cd06271 90 R 90 (268)
T ss_pred C
Confidence 3
No 107
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=20.13 E-value=3.4e+02 Score=31.85 Aligned_cols=38 Identities=13% Similarity=0.098 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCC
Q 010783 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGAS 122 (501)
Q Consensus 84 esL~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~ 122 (501)
+...+.-++| ++.|+.+.+..||....-..++++.|+.
T Consensus 518 ~~~~~aI~~l-~~aGI~vvmiTGD~~~tA~aIA~~lGI~ 555 (867)
T TIGR01524 518 ESTKEAIAAL-FKNGINVKVLTGDNEIVTARICQEVGID 555 (867)
T ss_pred hhHHHHHHHH-HHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 4556666777 9999999999999999999999999997
No 108
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=20.12 E-value=5.6e+02 Score=25.26 Aligned_cols=68 Identities=12% Similarity=0.136 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHHHhhc-----CCeEEEEecChhhHHHHHHHHhCCCEEEE-----cCCcchHHHHHHHHHHHHhC-CC
Q 010783 80 GFMLRGLRLLQRNIEETF-----QILFFLFQGEAEDNIPNFVRECGASLLVT-----DFSPLREIRRCKDKICNRVS-DS 148 (501)
Q Consensus 80 ~Fl~esL~~L~~~L~~~~-----G~~L~v~~G~~~~~l~~L~~~~~i~~V~~-----~~~p~~~~~~rd~~v~~~l~-~g 148 (501)
.=+.+.|..|.+++ ++. +..+++.+ +.+.-|++.+|+..+.. +.+|.. ....++.+.++ ++
T Consensus 149 ~~~~~~L~~l~~~~-~~~~~~~~~~~~v~~H----~af~Y~~~~~gl~~~~~~~~~~~~eps~---~~l~~l~~~ik~~~ 220 (282)
T cd01017 149 AAYAKKLEALDQEY-RAKLAKAKGKTFVTQH----AAFGYLARRYGLKQIAIVGVSPEVEPSP---KQLAELVEFVKKSD 220 (282)
T ss_pred HHHHHHHHHHHHHH-HHHHhccCCCeEEEec----ccHHHHHHHCCCeEEecccCCCCCCCCH---HHHHHHHHHHHHcC
Confidence 33445566666666 432 33444444 48889999999998754 234544 33456666674 78
Q ss_pred ceEEEEe
Q 010783 149 VTIHEVD 155 (501)
Q Consensus 149 i~~~~~~ 155 (501)
|++..++
T Consensus 221 v~~if~e 227 (282)
T cd01017 221 VKYIFFE 227 (282)
T ss_pred CCEEEEe
Confidence 8877755
Done!