Query 017242
Match_columns 375
No_of_seqs 168 out of 1507
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 06:51:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017242.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017242hhsearch_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 7.6E-71 1.6E-75 553.7 34.5 357 11-374 3-361 (454)
2 COG0415 PhrB Deoxyribodipyrimi 100.0 8.4E-63 1.8E-67 481.7 27.2 316 29-373 2-327 (461)
3 TIGR03556 photolyase_8HDF deox 100.0 7.5E-60 1.6E-64 474.5 28.5 319 30-373 2-339 (471)
4 TIGR02765 crypto_DASH cryptoch 100.0 1.9E-59 4.2E-64 468.2 30.3 318 29-373 1-341 (429)
5 TIGR02766 crypt_chrom_pln cryp 100.0 4.9E-59 1.1E-63 470.4 26.3 317 32-373 1-337 (475)
6 PRK10674 deoxyribodipyrimidine 100.0 5.1E-58 1.1E-62 461.3 30.0 313 30-373 3-334 (472)
7 KOG0133 Deoxyribodipyrimidine 100.0 1.6E-40 3.5E-45 327.9 10.7 323 27-374 3-353 (531)
8 PF00875 DNA_photolyase: DNA p 100.0 1.5E-33 3.3E-38 246.1 13.2 147 31-182 1-153 (165)
9 PF03441 FAD_binding_7: FAD bi 100.0 6.9E-29 1.5E-33 233.7 9.9 127 232-374 1-137 (277)
10 COG3046 Uncharacterized protei 99.8 1.3E-16 2.8E-21 151.0 22.7 283 29-327 2-323 (505)
11 KOG0133 Deoxyribodipyrimidine 98.1 1.9E-08 4.2E-13 100.7 -10.2 347 11-370 78-438 (531)
12 PF04244 DPRP: Deoxyribodipyri 97.7 0.00029 6.3E-09 64.3 9.5 148 32-188 1-162 (224)
13 PRK09982 universal stress prot 94.0 0.35 7.5E-06 40.5 8.4 109 43-154 16-137 (142)
14 PRK10116 universal stress prot 93.6 2.5 5.4E-05 34.9 13.0 111 42-155 15-138 (142)
15 PRK12652 putative monovalent c 93.4 0.64 1.4E-05 45.5 10.1 108 44-153 19-148 (357)
16 PRK15005 universal stress prot 93.3 0.71 1.5E-05 38.3 9.1 82 45-127 19-114 (144)
17 cd01989 STK_N The N-terminal d 93.0 1.3 2.9E-05 36.8 10.3 84 42-126 11-109 (146)
18 cd01988 Na_H_Antiporter_C The 92.4 1.5 3.3E-05 35.4 9.8 82 44-126 13-100 (132)
19 cd01987 USP_OKCHK USP domain i 92.1 3.9 8.4E-05 32.8 11.8 80 43-127 12-92 (124)
20 cd00293 USP_Like Usp: Universa 91.9 2.6 5.6E-05 33.3 10.4 84 43-127 12-100 (130)
21 PRK15456 universal stress prot 90.0 2.6 5.7E-05 34.9 9.0 81 44-126 18-111 (142)
22 PRK10490 sensor protein KdpD; 88.9 2.7 5.9E-05 46.4 10.4 120 28-156 250-374 (895)
23 TIGR00289 conserved hypothetic 85.7 5.8 0.00013 36.2 9.0 95 46-153 16-116 (222)
24 PRK15118 universal stress glob 85.7 7.9 0.00017 32.0 9.3 111 42-155 15-138 (144)
25 COG2205 KdpD Osmosensitive K+ 85.1 12 0.00026 40.4 11.9 110 43-157 260-375 (890)
26 PF00582 Usp: Universal stress 85.1 4.9 0.00011 32.0 7.6 84 43-126 15-108 (140)
27 cd01994 Alpha_ANH_like_IV This 83.9 7.3 0.00016 34.7 8.7 87 57-153 22-119 (194)
28 PRK11175 universal stress prot 80.5 39 0.00084 31.7 12.9 119 38-157 11-147 (305)
29 TIGR00290 MJ0570_dom MJ0570-re 79.7 16 0.00036 33.3 9.5 96 45-153 15-116 (223)
30 PRK11175 universal stress prot 79.4 16 0.00034 34.4 9.8 81 45-126 174-267 (305)
31 COG2102 Predicted ATPases of P 70.0 35 0.00076 31.0 8.8 99 44-153 14-117 (223)
32 TIGR03679 arCOG00187 arCOG0018 65.8 50 0.0011 29.9 9.2 87 57-153 20-117 (218)
33 COG0589 UspA Universal stress 63.9 77 0.0017 25.6 9.9 80 46-126 22-119 (154)
34 PF01902 ATP_bind_4: ATP-bindi 61.7 12 0.00025 34.1 4.2 93 46-153 16-116 (218)
35 COG2217 ZntA Cation transport 58.8 25 0.00055 37.7 6.7 46 86-132 542-587 (713)
36 PF08218 Citrate_ly_lig: Citra 58.8 59 0.0013 28.6 7.7 115 59-181 26-163 (182)
37 TIGR01497 kdpB K+-transporting 55.5 52 0.0011 35.2 8.3 48 84-132 449-496 (675)
38 PF00702 Hydrolase: haloacid d 51.0 40 0.00088 29.4 5.9 48 83-131 129-180 (215)
39 COG0529 CysC Adenylylsulfate k 50.6 72 0.0016 28.2 7.0 63 87-154 41-125 (197)
40 PRK01122 potassium-transportin 48.5 71 0.0015 34.2 8.1 48 84-132 448-495 (679)
41 PF01261 AP_endonuc_2: Xylose 48.1 1.7E+02 0.0036 25.2 9.4 81 45-126 71-161 (213)
42 PRK09856 fructoselysine 3-epim 47.2 1.3E+02 0.0028 27.8 8.9 73 48-121 93-173 (275)
43 TIGR01512 ATPase-IB2_Cd heavy 45.7 61 0.0013 33.6 7.0 49 82-131 363-412 (536)
44 PRK14010 potassium-transportin 44.3 90 0.002 33.4 8.0 48 84-132 444-491 (673)
45 TIGR01525 ATPase-IB_hvy heavy 42.9 93 0.002 32.4 7.9 49 82-131 385-434 (556)
46 PF10008 DUF2251: Uncharacteri 42.4 3.1 6.7E-05 32.5 -2.4 12 362-373 34-45 (97)
47 TIGR01490 HAD-SF-IB-hyp1 HAD-s 42.1 47 0.001 28.9 4.9 44 82-126 88-131 (202)
48 PF13727 CoA_binding_3: CoA-bi 42.0 67 0.0015 26.9 5.7 44 109-154 130-174 (175)
49 PF10087 DUF2325: Uncharacteri 41.6 97 0.0021 23.9 6.0 66 86-158 12-85 (97)
50 COG1139 Uncharacterized conser 41.5 59 0.0013 32.6 5.7 65 86-155 67-134 (459)
51 TIGR01488 HAD-SF-IB Haloacid D 39.6 34 0.00074 29.0 3.5 42 84-126 76-117 (177)
52 KOG0207 Cation transport ATPas 38.8 85 0.0018 34.4 6.7 44 88-132 730-773 (951)
53 PF06574 FAD_syn: FAD syntheta 38.3 15 0.00032 31.5 1.0 107 47-156 25-145 (157)
54 TIGR01491 HAD-SF-IB-PSPlk HAD- 35.6 56 0.0012 28.2 4.3 40 85-125 84-123 (201)
55 PRK10671 copA copper exporting 34.1 1.6E+02 0.0035 32.3 8.4 45 86-131 655-699 (834)
56 KOG1615 Phosphoserine phosphat 34.0 50 0.0011 29.5 3.5 35 86-121 93-127 (227)
57 COG0560 SerB Phosphoserine pho 34.0 43 0.00094 30.1 3.3 43 84-127 80-122 (212)
58 COG2179 Predicted hydrolase of 33.2 1.8E+02 0.0039 25.4 6.7 53 89-144 54-106 (175)
59 TIGR03234 OH-pyruv-isom hydrox 31.6 3.9E+02 0.0085 24.1 9.5 79 46-126 85-174 (254)
60 TIGR01544 HAD-SF-IE haloacid d 31.4 71 0.0015 30.2 4.4 36 85-121 125-160 (277)
61 PF00578 AhpC-TSA: AhpC/TSA fa 31.1 2.5E+02 0.0055 21.8 7.4 45 82-127 44-89 (124)
62 TIGR00338 serB phosphoserine p 30.9 61 0.0013 28.7 3.8 40 85-125 89-128 (219)
63 TIGR03674 fen_arch flap struct 30.9 1.5E+02 0.0032 28.9 6.6 14 231-248 243-256 (338)
64 TIGR01088 aroQ 3-dehydroquinat 30.0 2.1E+02 0.0046 24.1 6.4 64 95-164 38-107 (141)
65 PF13911 AhpC-TSA_2: AhpC/TSA 29.7 1E+02 0.0022 24.3 4.6 41 86-128 2-44 (115)
66 PRK13015 3-dehydroquinate dehy 29.2 2.6E+02 0.0056 23.7 6.9 64 95-164 40-109 (146)
67 TIGR01511 ATPase-IB1_Cu copper 29.2 2E+02 0.0043 30.0 7.7 48 82-131 406-453 (562)
68 cd02970 PRX_like2 Peroxiredoxi 28.6 2.3E+02 0.005 22.9 6.7 59 58-122 23-81 (149)
69 PRK15122 magnesium-transportin 28.0 1.8E+02 0.004 32.3 7.5 38 84-122 553-590 (903)
70 PRK10517 magnesium-transportin 27.8 2E+02 0.0043 32.1 7.7 39 83-122 552-590 (902)
71 cd06279 PBP1_LacI_like_3 Ligan 27.3 2.7E+02 0.0059 25.4 7.7 72 80-157 17-88 (283)
72 PRK13210 putative L-xylulose 5 27.2 4.8E+02 0.01 23.9 9.3 77 47-124 96-177 (284)
73 TIGR00067 glut_race glutamate 27.1 2.1E+02 0.0046 26.4 6.7 61 63-124 26-89 (251)
74 PLN02954 phosphoserine phospha 27.1 82 0.0018 27.9 3.9 39 83-122 86-124 (224)
75 PRK09997 hydroxypyruvate isome 26.5 4.9E+02 0.011 23.6 9.2 77 47-125 87-174 (258)
76 PF12710 HAD: haloacid dehalog 26.5 1.1E+02 0.0024 26.1 4.5 38 88-126 96-135 (192)
77 PF08444 Gly_acyl_tr_C: Aralky 25.5 1.1E+02 0.0024 23.7 3.7 48 76-124 31-78 (89)
78 TIGR01524 ATPase-IIIB_Mg magne 25.1 2.7E+02 0.0058 30.9 8.1 38 84-122 518-555 (867)
79 cd06277 PBP1_LacI_like_1 Ligan 25.1 4E+02 0.0086 23.8 8.2 71 80-157 15-89 (268)
80 TIGR01647 ATPase-IIIA_H plasma 24.9 2.2E+02 0.0047 31.0 7.3 39 84-123 445-483 (755)
81 cd01018 ZntC Metal binding pro 24.2 4.1E+02 0.009 24.5 8.2 71 77-155 145-224 (266)
82 TIGR00273 iron-sulfur cluster- 24.0 1.7E+02 0.0036 29.6 5.8 68 82-154 49-119 (432)
83 PF13407 Peripla_BP_4: Peripla 24.0 4.1E+02 0.009 23.6 8.1 71 81-157 12-89 (257)
84 TIGR00542 hxl6Piso_put hexulos 23.9 5.7E+02 0.012 23.5 9.4 78 47-125 96-178 (279)
85 TIGR00715 precor6x_red precorr 23.9 2.9E+02 0.0062 25.7 6.9 58 95-155 168-230 (256)
86 PF13419 HAD_2: Haloacid dehal 23.3 4.1E+02 0.0089 21.6 7.6 37 85-122 81-117 (176)
87 COG3053 CitC Citrate lyase syn 23.2 6.3E+02 0.014 24.3 8.8 89 59-148 172-283 (352)
88 PF06415 iPGM_N: BPG-independe 23.1 2.2E+02 0.0047 26.0 5.7 73 84-158 14-105 (223)
89 TIGR02432 lysidine_TilS_N tRNA 23.0 4.8E+02 0.01 22.3 8.9 75 43-126 11-105 (189)
90 COG0196 RibF FAD synthase [Coe 23.0 3.2E+02 0.0069 26.2 7.1 111 45-158 33-155 (304)
91 cd01017 AdcA Metal binding pro 23.0 3.6E+02 0.0078 25.1 7.6 17 112-128 212-228 (282)
92 TIGR00083 ribF riboflavin kina 22.6 2.4E+02 0.0051 26.8 6.2 103 48-154 19-135 (288)
93 cd01427 HAD_like Haloacid deha 22.6 2.7E+02 0.0058 21.4 5.9 40 81-121 24-63 (139)
94 cd06294 PBP1_ycjW_transcriptio 22.5 2.9E+02 0.0062 24.7 6.7 72 80-157 17-92 (270)
95 PRK07084 fructose-bisphosphate 22.4 6.5E+02 0.014 24.4 9.1 56 101-157 90-148 (321)
96 PRK09989 hypothetical protein; 22.1 6E+02 0.013 23.1 9.0 56 47-104 87-143 (258)
97 PRK05627 bifunctional riboflav 21.6 2E+02 0.0044 27.4 5.6 107 46-155 32-152 (305)
98 TIGR03333 salvage_mtnX 2-hydro 21.1 1.5E+02 0.0033 26.2 4.5 37 82-119 71-107 (214)
99 cd03013 PRX5_like Peroxiredoxi 20.6 5.1E+02 0.011 21.7 8.2 38 83-121 50-88 (155)
100 cd01137 PsaA Metal binding pro 20.6 3E+02 0.0066 25.8 6.5 14 114-127 220-233 (287)
101 cd03017 PRX_BCP Peroxiredoxin 20.5 4.4E+02 0.0096 20.9 7.6 41 83-124 43-83 (140)
102 cd06542 GH18_EndoS-like Endo-b 20.5 6.1E+02 0.013 23.0 8.5 44 59-105 28-71 (255)
103 TIGR01489 DKMTPPase-SF 2,3-dik 20.4 1E+02 0.0022 26.2 3.1 37 85-122 76-112 (188)
104 cd01017 AdcA Metal binding pro 20.4 6.3E+02 0.014 23.4 8.7 66 82-155 151-227 (282)
105 TIGR01521 FruBisAldo_II_B fruc 20.3 7.4E+02 0.016 24.2 9.1 76 80-157 58-143 (347)
106 cd01545 PBP1_SalR Ligand-bindi 20.1 4.9E+02 0.011 23.1 7.8 72 80-157 12-89 (270)
107 cd01137 PsaA Metal binding pro 20.0 6.2E+02 0.013 23.7 8.6 68 80-155 153-233 (287)
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=7.6e-71 Score=553.66 Aligned_cols=357 Identities=46% Similarity=0.736 Sum_probs=291.1
Q ss_pred cccccccccccCc-CCCC-CCcEEEEeeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHH
Q 017242 11 VQPGRIRVLKQGS-LDKK-RGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRL 88 (375)
Q Consensus 11 ~~~~r~~~~~~~~-~~~~-~~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~ 88 (375)
+++.||+.+++.| +.+. +.++|||||+|||++||+||.+|++.|.+.+.+|+||||+||.++..+.+|++||++||.+
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 5554 4459999999999999999999998766667899999999999888899999999999999
Q ss_pred HHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHcCCCceEEEecCCeeeeccccccc
Q 017242 89 LQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEK 168 (375)
Q Consensus 89 L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l~~~i~~~~~~~~~l~~~~~~~~~ 168 (375)
|+++| +++|++|+|+.|++.++|.+|+++++|++||++.++...+++||+.|++.|+.+|.++++++++|+|++.+.++
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 99999999999999999999999999999999877776788999999999944899999999999999988777
Q ss_pred CCcchhhhHHHHHhhCCCcCCCCCCCCCCCCccCCCCCCCChHHHHHHHHhcCCCCCCcccCCCcHHHHHHHHccchhHH
Q 017242 169 LEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGF 248 (375)
Q Consensus 169 ~~~~~~t~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~~~~~F 248 (375)
.+|++|||++++.+.++..+.+.+...+...+....+...++..+...+ .....+....+++|||++|+++| ++|
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 8999999999975543322222121100000000001112222221111 11112221222389999999999 999
Q ss_pred HhhhcCCCCCcCCCCCCCCCCccCchhhhcCcccHHHHHHHHHHHhhcCcchHHHHHHHhHHHHHHhhhhhhcCCCCCCC
Q 017242 249 LTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSL 328 (375)
Q Consensus 249 l~~~l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~fl~eL~wRrEf~~~~~~~~P~~~~~ 328 (375)
+++++.+|+++||.|+. ++||+|||||+||+||||+|++++.+.....+++.+.|++||+||||||+|+++++|++.++
T Consensus 237 ~~~~l~~Y~~~Rn~p~~-~~tS~LSPyL~~G~IS~R~i~~~~~~~~~~~~~~~~~fl~EL~WR~ef~~~~~~~~p~~~~~ 315 (454)
T TIGR00591 237 IEKRLCFFRTRRNDPNN-DALSMLSPWLHFGQLSAQRAARAVERARGNAGESVEFFEEELVVRRELADNFCFYNPYYDSL 315 (454)
T ss_pred HHHHHHHHHHhcCCccc-ccccccchHHhcCcccHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHHhHhhhcCCCcccc
Confidence 99999999999999998 99999999999999999999999865433234456789999999988999999999999888
Q ss_pred cCchHHHHHhHhhhhcCCcccCCCHHHHhhCCCCchhhhHhhhhhc
Q 017242 329 KGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPVSIYLWMFIL 374 (375)
Q Consensus 329 ~~~~~W~~~~l~~~~~d~~~w~~~~e~~~~G~TG~PiVDA~~~~~~ 374 (375)
...+.|+.++|++|..|.++..++.++|++|+||||||||+|--|.
T Consensus 316 ~~~~~w~~~~l~~~~~d~r~~~~~~~~W~~G~Tg~pivdA~MrqL~ 361 (454)
T TIGR00591 316 CGAYWWARTTLDDHAKDKREHLYSLEQLEKSTTHDYLWNAAQEQLV 361 (454)
T ss_pred ccchHHHHHHHHHHhcCCccccCCHHHHHhcCcCcHhHhHHHHHHH
Confidence 8888999999999998877888899999999999999999997653
No 2
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=100.00 E-value=8.4e-63 Score=481.71 Aligned_cols=316 Identities=21% Similarity=0.264 Sum_probs=256.0
Q ss_pred CcEEEEeeCCCCccCCHHHHHHHHHHhhCCCC-EEEEEEcCCCCcC-cchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcC
Q 017242 29 GPVVYWMFRDQRVRDNWALIHAVDQANKNNVP-VAVAFNLFDQFLG-AKARQLGFMLRGLRLLQRNIEETFQILFFLFQG 106 (375)
Q Consensus 29 ~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~-vl~vfi~dp~~~~-~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g 106 (375)
+++|||||||||+.||+||++|++ .+.+ +++|||+||.++. +++++.+||.+||++|+++| +++||+|+|..|
T Consensus 2 ~~~l~WfrrDLR~~DN~aL~~A~~----~~~~~~~~vfi~~~~~~~~~~~~~~~Fl~~sL~~L~~~L-~~~gi~L~v~~~ 76 (461)
T COG0415 2 STVLVWFRRDLRLTDNAALAAACQ----SGQPVIIAVFILDPEQLGHASPRHAAFLLQSLQALQQSL-AELGIPLLVREG 76 (461)
T ss_pred CeEEEEeccccccCChHHHHHHHh----cCCCceEEEEEechhhccccCHHHHHHHHHHHHHHHHHH-HHcCCceEEEeC
Confidence 578999999999999999999998 4556 5689999999885 89999999999999999999 999999999999
Q ss_pred CccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc-CCCceEEEecCCeeeecccccc--cCCcchhhhHHHHHhh
Q 017242 107 EAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVASE--KLEYSAKTLRGKINKL 183 (375)
Q Consensus 107 ~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l-~~~i~~~~~~~~~l~~~~~~~~--~~~~~~~t~~~~~~~~ 183 (375)
++.+++++++++.+++.|++++++...++.||.+|++.| +.||.++.|++++|++|+.+.+ +++|++||+|++.|..
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 999999999999999999997666666889999999999 8899999999999999998865 5789999999987654
Q ss_pred CCCcCCCCCCCCCC-CCccCCCCCCCChHHHHHHHHhcC-CCCCCcccCCCcHHHHHHHHccchhHHHhhhcCCCCCcCC
Q 017242 184 LPEYLIDYPMLEQP-IEKWTGTRQSIDWDSIIAAVLRKG-AEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRN 261 (375)
Q Consensus 184 ~~~~~~~~p~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~gGe~~A~~~L~~~~~~Fl~~~l~~Y~~~Rd 261 (375)
......+.+. |. ...... ... ... .. ..+ ........+.|||++|+++| ++|+.+++.+|++.||
T Consensus 157 ~~~~~~~~~~--p~~~~~~~~--~~~-~~~---~~-~~P~~~~~~~~~~~~Ge~aA~~~l----~~F~~~~l~~Y~~~Rd 223 (461)
T COG0415 157 RLRILRPVPA--PDVLDALRD--EEP-PPE---EI-SLPDFSKFDVLLFTGGEKAALARL----QDFLAEGLDDYERTRD 223 (461)
T ss_pred hcccCCCCCC--cchhccccc--ccc-Ccc---cc-cCCccccccccCCCchHHHHHHHH----HHHHHHHHHHHHHhcC
Confidence 3222222222 11 001000 000 000 00 011 11112235789999999999 9999999999999999
Q ss_pred CCCCCCCCccCchhhhcCcccHHHHHHHHHHHhhcCcchHHHHHHHhHHHHHHhhhhhhcCCCCCCCcCchHHHHHhHhh
Q 017242 262 NPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKD 341 (375)
Q Consensus 262 ~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~fl~eL~wRrEf~~~~~~~~P~~~~~~~~~~W~~~~l~~ 341 (375)
+|+. ++||+|||||+||+||||+|++++.+......++...|++||+|| |||+|+++++|++..... + .
T Consensus 224 ~p~~-~~TS~LSpyL~~G~IS~r~v~~~~~~~~~~~~~~~~~~~~eL~WR-EFy~h~~~~~p~~~~~~~-~--------~ 292 (461)
T COG0415 224 FPAL-DGTSRLSPYLAFGVISPREVYAALLAAESDAREGTAALINELIWR-EFYQHLLYHYPSLSRFEP-F--------A 292 (461)
T ss_pred Cccc-ccccccCHHHHcCCcCHHHHHHHHHHhhhcccchHHHHHHHHHHH-HHHHHHHHhCCccccccc-c--------c
Confidence 9998 999999999999999999999999877654567788999999998 999999999998633322 2 3
Q ss_pred hhcCCcccCCCHHH---HhhCCCCchhhhHhhhhh
Q 017242 342 HASDKREHIYTKEQ---FEKAQTADPVSIYLWMFI 373 (375)
Q Consensus 342 ~~~d~~~w~~~~e~---~~~G~TG~PiVDA~~~~~ 373 (375)
..++.++|.+++.. |++|+||||||||+|.=|
T Consensus 293 ~~~~~~~w~~~~~~f~aW~~G~TGyPIVDA~MRqL 327 (461)
T COG0415 293 EKTLNIPWEDNPAHFQAWQEGKTGYPIVDAAMRQL 327 (461)
T ss_pred ccccCCccccCHHHHHHHhcCCCCCccccHHHHHH
Confidence 45678999998855 559999999999999754
No 3
>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=7.5e-60 Score=474.47 Aligned_cols=319 Identities=18% Similarity=0.190 Sum_probs=248.2
Q ss_pred cEEEEeeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEcCCCCcC---cchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcC
Q 017242 30 PVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLG---AKARQLGFMLRGLRLLQRNIEETFQILFFLFQG 106 (375)
Q Consensus 30 ~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~---~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g 106 (375)
.+|||||||||++||+||.+|++ .+.+|+||||+||.++. .+.+|.+||+|||.+|+++| +++|++|+++.|
T Consensus 2 ~vl~WfRrDLRl~DN~AL~~A~~----~~~~vl~vfi~dp~~~~~~~~~~~r~~Fl~esL~~L~~~L-~~~G~~L~v~~G 76 (471)
T TIGR03556 2 LILFWHRRDLRLSDNIGLAAARQ----QSAKVVGLFCLDPNILQADDMAPARVAYLIGCLQELQQRY-QQAGSQLLILQG 76 (471)
T ss_pred CEEEEeCCCCCcchHHHHHHHHh----cCCCEEEEEEEchhhhccccCCHHHHHHHHHHHHHHHHHH-HHCCCCeEEEEC
Confidence 58999999999999999999987 46799999999998754 57899999999999999999 999999999999
Q ss_pred CccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc-CCCceEEEecCCeeeeccccc--ccCCcchhhhHHHHHhh
Q 017242 107 EAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVAS--EKLEYSAKTLRGKINKL 183 (375)
Q Consensus 107 ~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l-~~~i~~~~~~~~~l~~~~~~~--~~~~~~~~t~~~~~~~~ 183 (375)
++.++|++|+++++|++||++.++...+++||++|++.| ..||.++.+.+++|++|+.+. .+.+|++||+|++.+..
T Consensus 77 ~p~~vl~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~i~~~~~~~y~~ft~f~k~~~~ 156 (471)
T TIGR03556 77 DPVQLIPQLAQQLGAKAVYWNLDVEPYGRKRDRAVAAALKEAGIAVVTLWDQLLHSPDEILTGSGNPYTVYTPFWKNWSS 156 (471)
T ss_pred CHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHCCCEEEEeCCcEEECccccccCCCCCCcchhHHHHHHHh
Confidence 999999999999999999997666666789999999999 789999999999999998874 45689999999887654
Q ss_pred CCCcCCCCCCCCCCCC-ccCC-CC---CCCChHHHHHHHHhcCCCCCCcccCCCcHHHHHHHHccchhHHHhhhcCCCCC
Q 017242 184 LPEYLIDYPMLEQPIE-KWTG-TR---QSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPT 258 (375)
Q Consensus 184 ~~~~~~~~p~~~~~~~-~~~~-~~---~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~~~~~Fl~~~l~~Y~~ 258 (375)
.... .+.+. |... +.+. .. ..++...+ +.+..++........+.|||++|+++| +.|+++++.+|+.
T Consensus 157 ~~~~-~~~~~--p~~~~~~~~~~~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~gGe~~A~~~L----~~f~~~~l~~Y~~ 228 (471)
T TIGR03556 157 LPKP-TPVAT--PTELEGLTEAELEAAAPLGVIAL-PTAKDLGFDWDGDLILEPGETAAQARL----EEFCDRAIADYQE 228 (471)
T ss_pred cccc-CCCCC--ccccccCCccccccccccccccC-CcccccccccccccCCCCcHHHHHHHH----HHHHHHHHHHhhh
Confidence 3211 11111 1000 0000 00 00110000 011011110011113689999999999 9999999999999
Q ss_pred cCCCCCCCCCCccCchhhhcCcccHHHHHHHHHHHhhc-----CcchHHHHHHHhHHHHHHhhhhhhcCCCCCCCcCchH
Q 017242 259 DRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKL-----CPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWE 333 (375)
Q Consensus 259 ~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~-----~~~~~~~fl~eL~wRrEf~~~~~~~~P~~~~~~~~~~ 333 (375)
+||.|+. ++||+|||||+||+||+|+|++++.+.... ...+.++|++||+|| |||+++++++|++... .
T Consensus 229 ~r~~p~~-~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~~~~~~~~~~~~f~~eL~WR-ef~~~~~~~~p~~~~~--~-- 302 (471)
T TIGR03556 229 QRNFPAL-DGTSQLSPALKFGVIGIRTVWQATQEAHENSRSEEARNSIRTWQQELAWR-EFYQHALYHFPELADG--P-- 302 (471)
T ss_pred ccCCCCC-CCCCCCChhhcCCcccHHHHHHHHHHHHhhcccccccccHHHHHHHHHHH-HHHHHHHHHCcchhcc--c--
Confidence 9999987 899999999999999999999999764321 223567899999998 9999999999986432 1
Q ss_pred HHHHhHhhhhcCCcccCCCHHH---HhhCCCCchhhhHhhhhh
Q 017242 334 WARKSLKDHASDKREHIYTKEQ---FEKAQTADPVSIYLWMFI 373 (375)
Q Consensus 334 W~~~~l~~~~~d~~~w~~~~e~---~~~G~TG~PiVDA~~~~~ 373 (375)
+ +..++.++|.++++. |++|+||||+|||+|.-|
T Consensus 303 -----~-~~~~~~~~w~~~~~~~~~W~~G~TG~P~vDAaMrqL 339 (471)
T TIGR03556 303 -----Y-RSLFQNFPWENNEAHFQAWCEGRTGYPIVDAAMRQL 339 (471)
T ss_pred -----c-chhhhcCCCcCCHHHHHHHhcCCCCCCcccHHHHHH
Confidence 1 335667789887654 569999999999999755
No 4
>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=1.9e-59 Score=468.20 Aligned_cols=318 Identities=17% Similarity=0.161 Sum_probs=241.0
Q ss_pred CcEEEEeeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEcCCCCcC---------cchhHHHHHHHhHHHHHHHHHHhcCC
Q 017242 29 GPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLG---------AKARQLGFMLRGLRLLQRNIEETFQI 99 (375)
Q Consensus 29 ~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~---------~~~~r~~Fl~esL~~L~~~L~~~~g~ 99 (375)
+.+|||||||||++||+||.+|++ .+.+|+||||+||.++. .|++|.+|+++||.+|+++| +++|+
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 cEEEEcCCccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc-CCCceEEEecCCeeeecccccc--cCCcchhhh
Q 017242 100 LFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVASE--KLEYSAKTL 176 (375)
Q Consensus 100 ~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l-~~~i~~~~~~~~~l~~~~~~~~--~~~~~~~t~ 176 (375)
+|+++.|++.++|.+|+++++|++||++.++...+++||++|++.| +.||.++.+++++|++|+.+.. +.+|.+||.
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 9999999999999999999999999998777777889999999999 7899999999999999998864 578888887
Q ss_pred HHHHHhh-CCCcCCCCCCCCCCCCc-cCCC-CCCCChHHHHHHHHhcCCC-CCCcccCCCcHHHHHHHHccchhHHHh-h
Q 017242 177 RGKINKL-LPEYLIDYPMLEQPIEK-WTGT-RQSIDWDSIIAAVLRKGAE-VPEIGWCESGEDAAMEVLKGSKDGFLT-K 251 (375)
Q Consensus 177 ~~~~~~~-~~~~~~~~p~~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~-~~~~~~~~gGe~~A~~~L~~~~~~Fl~-~ 251 (375)
+++.+.. .. ...+.+. |...+ .+.. .... ...+ +.+ ..+.. ......++|||.+|+++| ++|+. +
T Consensus 156 f~~~~~~~~~-~~~~~~~--p~~~~~~~~~~~~~~-~~~l-~~~-~~~~~~~~~~~~~~gGe~~A~~~L----~~Fl~~~ 225 (429)
T TIGR02765 156 FRKQVEAKCS-IRPPLPA--PEKLPPLPSVDDPGW-IPTL-EDL-GEESSEVDRGLPFVGGETAGLARL----KEYFWSK 225 (429)
T ss_pred HHHHHHhhCC-CCCCCCC--cccCCCCcccccccC-CCCh-hhc-CCCcccccccCCcCchHHHHHHHH----HHHHhhc
Confidence 7765542 22 1222222 11111 0000 0000 0001 111 11111 111224689999999999 99997 4
Q ss_pred hcCCCCCcCCCCCCCCCCccCchhhhcCcccHHHHHHHHHHHhhcC--cchHHHHHHHhHHHHHHhhhhhhcCCC-CCCC
Q 017242 252 RLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLC--PEAIDTFLEELIVRRELADNFCFYQPN-YDSL 328 (375)
Q Consensus 252 ~l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~--~~~~~~fl~eL~wRrEf~~~~~~~~P~-~~~~ 328 (375)
++..|++.||.|...++||+|||||+||+||||+|++++.+..... .++...|+.||+|| |||+++++++|. +..+
T Consensus 226 ~l~~Y~~~R~~~~~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~~~~~~~~~~~~eL~WR-ef~~~~~~~~~~~~~~~ 304 (429)
T TIGR02765 226 DLKSYKETRNGMLGPDYSTKFSPWLALGCVSPRQIYEELQRYETERGANDSTYWVIFELLWR-DYFRFYALKYGNRLFRF 304 (429)
T ss_pred cHhhhhhccCcccCCCCcCccCHHHhCCcccHHHHHHHHHHHHhhcccCCCcHHHHHHHHHH-HHHHHHHHHcCCccccc
Confidence 6999999999975338999999999999999999999987643211 12333466799998 999988888874 4444
Q ss_pred cCchHHHHHhHhhhhcCCcccCCCH---HHHhhCCCCchhhhHhhhhh
Q 017242 329 KGAWEWARKSLKDHASDKREHIYTK---EQFEKAQTADPVSIYLWMFI 373 (375)
Q Consensus 329 ~~~~~W~~~~l~~~~~d~~~w~~~~---e~~~~G~TG~PiVDA~~~~~ 373 (375)
.+.. .+..+|.++. ++|++|+||||||||+|.-|
T Consensus 305 ~~~~-----------~~~~~w~~~~~~~~~W~~G~TG~PivDAamrqL 341 (429)
T TIGR02765 305 GGLR-----------GKHPKWSFDAKRFEQWKTGTTGYPLVDANMREL 341 (429)
T ss_pred CCCc-----------cCCCCCccCHHHHHHHhCCCCCChhhhHHHHHH
Confidence 3321 1356787765 45669999999999999755
No 5
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=100.00 E-value=4.9e-59 Score=470.39 Aligned_cols=317 Identities=17% Similarity=0.170 Sum_probs=240.1
Q ss_pred EEEeeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEcCCCCcC---cchhHHHHHHHhHHHHHHHHHHhcCCcEEEE-cCC
Q 017242 32 VYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLG---AKARQLGFMLRGLRLLQRNIEETFQILFFLF-QGE 107 (375)
Q Consensus 32 l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~---~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~-~g~ 107 (375)
|||||||||++||+||.+|++ .+ +|+||||+||.++. .+.++.+||++||.+|+++| +++|++|+|+ .|+
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 699999999999999999986 34 89999999997653 46788889999999999999 9999999998 589
Q ss_pred ccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc-CCCceEEEecCCeeeecccccc--cCCcchhhhHHHHHhhC
Q 017242 108 AEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVASE--KLEYSAKTLRGKINKLL 184 (375)
Q Consensus 108 ~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l-~~~i~~~~~~~~~l~~~~~~~~--~~~~~~~t~~~~~~~~~ 184 (375)
+.++|.+|+++++|+.||++.++...+++||++|++.| +.||.++.+++++|++|+.+.+ +.+|++||+|++.+...
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 99999999999999999998777666889999999999 7899999999999999998754 46899998777654322
Q ss_pred CC-cCCCCCCCCCCCCccCCCCCCCChHHH-HHHHHhcCCCCCCcccCCCcHHHHHHHHccchhHHHhhhcCCCCCcCCC
Q 017242 185 PE-YLIDYPMLEQPIEKWTGTRQSIDWDSI-IAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNN 262 (375)
Q Consensus 185 ~~-~~~~~p~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~~~~~Fl~~~l~~Y~~~Rd~ 262 (375)
.. ...+.+. |...+.+. ......+.+ ................|+|||++|+++| +.|+.+++.+|+++||.
T Consensus 155 ~~~~~~~~~~--p~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L----~~Fl~~~~~~Y~~~Rd~ 227 (475)
T TIGR02766 155 PYDPESPLLP--PKKIISGD-VSKCSADDLGFEDDSEKGSNALLARAWSPGWSNADKAL----TEFINGPLLEYSKNRKK 227 (475)
T ss_pred cCCCCCCCCC--ccccCCCc-cccCChhhcCCCCcccccccccccccCCCccHHHHHHH----HHHHHHHHHHHhhcCCC
Confidence 11 0001111 11111000 000000000 0000000000000123789999999999 99999999999999999
Q ss_pred CCCCCCCccCchhhhcCcccHHHHHHHHHHHh-----hc---CcchHHHHHHHhHHHHHHhhhhhhcCCCCCCCcCchHH
Q 017242 263 PLKPRALSGLSPYLHFGQISAQRCALEARKAR-----KL---CPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEW 334 (375)
Q Consensus 263 p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~-----~~---~~~~~~~fl~eL~wRrEf~~~~~~~~P~~~~~~~~~~W 334 (375)
|+. ++||+|||||+|||||||+|++++.... .. ..++.++|++||+|| |||+++++++|.+.. ..
T Consensus 228 p~~-~~tS~LSPyL~~G~ISpR~v~~~~~~~~~~~~~~~~~~~~~s~~~f~~eL~WR-ef~~~~~~~~p~~~~--~~--- 300 (475)
T TIGR02766 228 ADS-ATTSLLSPYLHFGEVSVRKVFHLVRMKQIAWANEGNSAGEESVNLFLRSIGLR-EYSRYISFNHPFSHE--KP--- 300 (475)
T ss_pred CCC-CCCCCCCcccccCcccHHHHHHHHHhhhhhhhhcccCCCcccHHHHHHHHHHH-HHHHHHHHhCCcccc--cc---
Confidence 998 9999999999999999999999985211 11 134567899999998 999999999997532 22
Q ss_pred HHHhHhhhhcCCcccCCCHHH---HhhCCCCchhhhHhhhhh
Q 017242 335 ARKSLKDHASDKREHIYTKEQ---FEKAQTADPVSIYLWMFI 373 (375)
Q Consensus 335 ~~~~l~~~~~d~~~w~~~~e~---~~~G~TG~PiVDA~~~~~ 373 (375)
+ +..++.++|.++.+. |++|+||||||||+|.-|
T Consensus 301 ----~-~~~~~~~~w~~~~~~f~aW~~G~TG~P~VDA~MRqL 337 (475)
T TIGR02766 301 ----L-LGHLKFFPWAVDENYFKAWRQGRTGYPLVDAGMREL 337 (475)
T ss_pred ----h-hhhhhcCCCCCCHHHHHHHHcCCCCCcchhHHHHHH
Confidence 2 334567899888654 569999999999999755
No 6
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=5.1e-58 Score=461.30 Aligned_cols=313 Identities=19% Similarity=0.195 Sum_probs=242.8
Q ss_pred cEEEEeeCCCCccCCHHHHHHHHHHhhCC-CCEEEEEEcCCCCc---CcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEc
Q 017242 30 PVVYWMFRDQRVRDNWALIHAVDQANKNN-VPVAVAFNLFDQFL---GAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ 105 (375)
Q Consensus 30 ~~l~WfrrDLRl~DN~aL~~A~~~a~~~~-~~vl~vfi~dp~~~---~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~ 105 (375)
.+|||||||||++||+||.+|++. + .+|+||||+||.++ ..+.+|++||+|||.+|+++| +++|++|+|+.
T Consensus 3 ~~l~WfRrDLRl~DN~aL~~A~~~----~~~~vlpvyv~dp~~~~~~~~~~~r~~Fl~esL~~L~~~L-~~~g~~L~v~~ 77 (472)
T PRK10674 3 THLVWFRNDLRLHDNLALAAACRD----PSARVLALFIATPAQWAAHDMAPRQAAFINAQLNALQIAL-AEKGIPLLFHE 77 (472)
T ss_pred ceEEEECCCCCcchHHHHHHHHhC----CCCCEEEEEEECchhhccCCCCHHHHHHHHHHHHHHHHHH-HHcCCceEEEe
Confidence 369999999999999999999873 3 47999999999654 368999999999999999999 99999999997
Q ss_pred C----CccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHcCCCceEEEecCCeeeeccccc--ccCCcchhhhHHH
Q 017242 106 G----EAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVAS--EKLEYSAKTLRGK 179 (375)
Q Consensus 106 g----~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l~~~i~~~~~~~~~l~~~~~~~--~~~~~~~~t~~~~ 179 (375)
| ++.++|++|+++++|+.||++.++...+++||++|++.|. ||.++.+++++|++|+.+. .+.+|++||++++
T Consensus 78 g~~~g~~~~vl~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~-~i~~~~~~~~~l~~~~~i~~~~~~~y~~ft~f~~ 156 (472)
T PRK10674 78 VDDFAASVEWLKQFCQQHQVTHLFYNYQYEVNERQRDAAVERALR-NVVCQGFDDSVLLPPGSVMTGNHEMYKVFTPFKN 156 (472)
T ss_pred cCCcCCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHcC-CCEEEEecCceEeCccccccCCCCCCCcccHHHH
Confidence 5 6999999999999999999988777778899999999886 7999999999999999875 3568999997766
Q ss_pred HH-hhCCCcC-CCCCCCCCCCCccCCCCCCCChHHHHHHHHhcCCCCC--CcccCCCcHHHHHHHHccchhHHHhhhcCC
Q 017242 180 IN-KLLPEYL-IDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVP--EIGWCESGEDAAMEVLKGSKDGFLTKRLKN 255 (375)
Q Consensus 180 ~~-~~~~~~~-~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~gGe~~A~~~L~~~~~~Fl~~~l~~ 255 (375)
.+ +.+.... .+.+. |..... ...... .+..++.... ....++|||++|+++| ++|+++++.+
T Consensus 157 ~~~~~~~~~~p~~~~~--p~~~~~----~~~~~~----~~~~~~~~~~~~~~~~~~gGe~~A~~~L----~~f~~~~l~~ 222 (472)
T PRK10674 157 AFLKRLREGDPECVPA--PKVRSS----GAIEPL----PPIPFNYPQQSFDTALFPVGEKAAIAQL----RQFCQQGAGE 222 (472)
T ss_pred HHHHhhcccCCccCCC--Cccccc----cccCCC----CcccccCcccccccCCCCCCHHHHHHHH----HHHHHHHHHH
Confidence 44 3332211 11111 111000 000000 0000111110 1123689999999999 9999999999
Q ss_pred CCCcCCCCCCCCCCccCchhhhcCcccHHHHHHHHHHHhhc--CcchHHHHHHHhHHHHHHhhhhhhcCCCCCCCcCchH
Q 017242 256 YPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKL--CPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWE 333 (375)
Q Consensus 256 Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~--~~~~~~~fl~eL~wRrEf~~~~~~~~P~~~~~~~~~~ 333 (375)
|+.+||.|+. ++||+|||||+|||||||+|++++.+.... ...+..+|++||+|| |||+++++++|+++.+.+..+
T Consensus 223 Y~~~r~~p~~-~~tS~LSPyL~~G~iS~r~v~~~~~~~~~~~~~~~~~~~fl~eL~WR-ef~~~~~~~~p~~~~~~~~~~ 300 (472)
T PRK10674 223 YEQQRDFPAV-DGTSRLSAYLATGVLSPRQCLHRLLAEQPQALDGGAGSVWLNELIWR-EFYRHLMVAYPSLCKHRPFIA 300 (472)
T ss_pred hccccCCCCc-cCCCCcChhhccCcCCHHHHHHHHHHHhhhhhccCchhHHHHHHHHH-HHHHHHHHhCCchhhccCcch
Confidence 9999999987 899999999999999999999999763221 122446899999998 999999999999866545443
Q ss_pred HHHHhHhhhhcCCcccCCCH---HHHhhCCCCchhhhHhhhhh
Q 017242 334 WARKSLKDHASDKREHIYTK---EQFEKAQTADPVSIYLWMFI 373 (375)
Q Consensus 334 W~~~~l~~~~~d~~~w~~~~---e~~~~G~TG~PiVDA~~~~~ 373 (375)
| .+..+|.++. ++|++|+||||+|||+|.-|
T Consensus 301 ~---------~~~~~w~~~~~~~~~W~~G~TG~P~vDA~mrqL 334 (472)
T PRK10674 301 W---------TDRVQWQSNPAHLQAWQQGKTGYPIVDAAMRQL 334 (472)
T ss_pred h---------hhccCcccCHHHHHHHHcCCCCCccHHHHHHHH
Confidence 3 3356787775 45679999999999999655
No 7
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=100.00 E-value=1.6e-40 Score=327.93 Aligned_cols=323 Identities=19% Similarity=0.184 Sum_probs=228.9
Q ss_pred CCCcEEEEeeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEcCCCCc---CcchhHHHHHHHhHHHHHHHHHHhcCCcEEE
Q 017242 27 KRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFL---GAKARQLGFMLRGLRLLQRNIEETFQILFFL 103 (375)
Q Consensus 27 ~~~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~---~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v 103 (375)
.+..+|+|||+|||++|||||.+|+. ...+|+||||+||+.. ..|..+.+|+.|+|++|+++| +++|++|.+
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 46788999999999999999987765 4569999999999864 478999999999999999999 999999999
Q ss_pred EcCCccchHHHHHHHhCCCEEEE--cCCcchHHHHHHHHHHHHc-CCCceEEEecCCeeeecccccc---cCC-cchhhh
Q 017242 104 FQGEAEDNIPNFVRECGASLLVT--DFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVASE---KLE-YSAKTL 176 (375)
Q Consensus 104 ~~g~~~~~l~~l~~~~~~~~V~~--~~~p~~~~~~rd~~v~~~l-~~~i~~~~~~~~~l~~~~~~~~---~~~-~~~~t~ 176 (375)
++|.|..+|..+.+..+++.|.+ +++|. .+.||..++..+ +.|+.+....+++++.++.+.. +.+ ..+.+|
T Consensus 78 ~~~~p~~vl~~~~~~~~~~~l~~~~~~~p~--~~vrD~~~~~~a~~l~i~v~s~~s~~~~~~~~~i~~n~~k~pls~~~~ 155 (531)
T KOG0133|consen 78 FRGHPIAVLSRLLEQVGVQKLKFEYDMEPD--GKVRDATIKSLATELGLSVVSPVSHTLYLPDKIIEANGGKPPLSYKTF 155 (531)
T ss_pred EeCCchHHHhhhhhccceeEEEEEEeccCc--cccccHHHHHHHHHhhhhhcccCchhhhcHHHHHHhcCCCCccccccc
Confidence 99999999999999999999986 56776 468899999888 7899999999999999987653 233 333334
Q ss_pred HHHHHhhCCCcCCCCCCCCCCCCccCCCCCCC---ChHHHHHHHH--hcCCCCCCcccCCCcHHHHHHHHccchhHHHhh
Q 017242 177 RGKINKLLPEYLIDYPMLEQPIEKWTGTRQSI---DWDSIIAAVL--RKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTK 251 (375)
Q Consensus 177 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~---~~~~~~~~~~--~~~~~~~~~~~~~gGe~~A~~~L~~~~~~Fl~~ 251 (375)
+...... .... .|.........+..+... ......+.+. ....+......|.||+..|+.+| ++|+..
T Consensus 156 ~~~~~~~-~~~~--~p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~~~~~~~~~~g~s~al~~l----~~~l~~ 228 (531)
T KOG0133|consen 156 RGVCQSM-SAPK--IPALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPSNYGEVVWRGGESEALKRL----DAHLKV 228 (531)
T ss_pred ccccccc-cccc--ccccccccccCCCChhhhhhcccccccCCchhhccCcccccccccCCcccchhHHH----HHHhhH
Confidence 4333221 1111 111000000000000000 0000000110 11111111123689999999999 999986
Q ss_pred h--cCCCCCcCCCCCC--CCCCccCchhhhcCcccHHHHHHHH--HHHh---hcCcchHH-HHHHHhHHHHHHhhhhhhc
Q 017242 252 R--LKNYPTDRNNPLK--PRALSGLSPYLHFGQISAQRCALEA--RKAR---KLCPEAID-TFLEELIVRRELADNFCFY 321 (375)
Q Consensus 252 ~--l~~Y~~~Rd~p~~--~~~tS~LSpyL~~G~IS~R~v~~~~--~~~~---~~~~~~~~-~fl~eL~wRrEf~~~~~~~ 321 (375)
. ..+++..+..+.. ..+|+.|||||+||++|+|.+++.. .+.. ..++...+ .|+.||+|| ||||+.+..
T Consensus 229 ~~~~an~~~~~~~~~~~~~~s~~~Ls~yL~fg~~svr~~~~~~~~k~V~~~~~~~s~~~es~~~~qv~Wr-e~~y~~~~n 307 (531)
T KOG0133|consen 229 PLWVANLELRYSNANSRVKISTTVLSPYLKFGCLSVRYFYRCVRLKQVKWKAKKNSLPPESLFLGQVAWR-EFFYTAAFN 307 (531)
T ss_pred HHHHhhhhccccccchhcCCCccccccceeeccceeEeehhHhHHHHHHHhhhcccCCccccccceeeee-chhhHhhcC
Confidence 6 4555555555543 2678899999999999999998522 1211 12233334 499999998 999999999
Q ss_pred CCCCCCCcCchHHHHHhHhhhhcCCcccCCCHHHH---hhCCCCchhhhHhhhhhc
Q 017242 322 QPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQF---EKAQTADPVSIYLWMFIL 374 (375)
Q Consensus 322 ~P~~~~~~~~~~W~~~~l~~~~~d~~~w~~~~e~~---~~G~TG~PiVDA~~~~~~ 374 (375)
+|.++.+.++. ..-+++|..|+..+ .+|+||||+|||+|..++
T Consensus 308 ~p~~~~m~~n~----------~~~~ipw~~n~~~~~aw~~G~tG~P~ida~m~~l~ 353 (531)
T KOG0133|consen 308 TPYFDDMPGNK----------ILLQIPWDKNPPKLAAWLEGLTGYPWLDAGMRQLL 353 (531)
T ss_pred Ccccccccccc----------ccccCCcccChhhhHHHHcCCCCCCchhHHHHHHH
Confidence 99988877743 34578998887664 499999999999998774
No 8
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=100.00 E-value=1.5e-33 Score=246.05 Aligned_cols=147 Identities=25% Similarity=0.350 Sum_probs=123.4
Q ss_pred EEEEeeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEcCCCC-c--CcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcCC
Q 017242 31 VVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQF-L--GAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE 107 (375)
Q Consensus 31 ~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~-~--~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g~ 107 (375)
+|||||+|||++||+||++|++ .+.+|+||||+||.. . ..|++|.+|+++||.+|+++| +++|++|+++.|+
T Consensus 1 ~l~Wfr~DLRl~DN~aL~~A~~----~~~~v~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L-~~~g~~L~v~~g~ 75 (165)
T PF00875_consen 1 VLVWFRRDLRLHDNPALHAAAQ----NGDPVLPVFVFDPEEFHPYRIGPRRRRFLLESLADLQESL-RKLGIPLLVLRGD 75 (165)
T ss_dssp EEEEESS--SSTT-HHHHHHHH----TTSEEEEEEEE-HHGGTTCSSCHHHHHHHHHHHHHHHHHH-HHTTS-EEEEESS
T ss_pred CEEEEcCCCchhhhHHHHHHHH----cCCCeEEEEEecccccccccCcchHHHHHHHHHHHHHHHH-HhcCcceEEEecc
Confidence 6999999999999999999987 578999999999983 2 249999999999999999999 9999999999999
Q ss_pred ccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc-CCCceEEEecCCeeeecccccc--cCCcchhhhHHHHHh
Q 017242 108 AEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVASE--KLEYSAKTLRGKINK 182 (375)
Q Consensus 108 ~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l-~~~i~~~~~~~~~l~~~~~~~~--~~~~~~~t~~~~~~~ 182 (375)
+.++|.+|+++++|++||++.++...+++||++|++.| +.||+++.+++++|++|+.+.+ +.+|++||+|++.+.
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 99999999999999999998777667899999999999 7799999999999999998853 568899998877554
No 9
>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=99.95 E-value=6.9e-29 Score=233.68 Aligned_cols=127 Identities=28% Similarity=0.398 Sum_probs=100.5
Q ss_pred CcHHHHHHHHccchhHHHhhhcCCCCCcCCCCCCCCCCccCchhhhcCcccHHHHHHHHHHHhhc---CcchHHHHHHHh
Q 017242 232 SGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKL---CPEAIDTFLEEL 308 (375)
Q Consensus 232 gGe~~A~~~L~~~~~~Fl~~~l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~---~~~~~~~fl~eL 308 (375)
|||++|+++| +.|+++++.+|++.||.|+. ++||+|||||+|||||||+|++++.+.... ..++.++|++||
T Consensus 1 GGe~~A~~~L----~~Fl~~~l~~Y~~~r~~p~~-~~~S~LSpyL~~G~lS~r~v~~~~~~~~~~~~~~~~~~~~f~~eL 75 (277)
T PF03441_consen 1 GGETAALKRL----EEFLKERLADYGEQRDDPAA-DGTSRLSPYLNFGCLSPREVYRAVKKAQEANDAHSESAEKFIREL 75 (277)
T ss_dssp SSHHHHHHHH----HHHHHHCGGGHHHHTT-TTS-TTS---HHHHHTTSS-HHHHHHHHHHHHHCHTCHHHHHHHHHHHH
T ss_pred CcHHHHHHHH----HHHHHHHHHhhchhccCCCc-CCcCcccHHHhCCCcCHHHHHHHHHHHhhhcccccchHHHHHHHH
Confidence 7999999999 99999999999999999977 899999999999999999999999877641 125688999999
Q ss_pred HHHHHHhhhhhhcCCCCC-CCcCchHHHHHhHhhhhcCCcccC---CC---HHHHhhCCCCchhhhHhhhhhc
Q 017242 309 IVRRELADNFCFYQPNYD-SLKGAWEWARKSLKDHASDKREHI---YT---KEQFEKAQTADPVSIYLWMFIL 374 (375)
Q Consensus 309 ~wRrEf~~~~~~~~P~~~-~~~~~~~W~~~~l~~~~~d~~~w~---~~---~e~~~~G~TG~PiVDA~~~~~~ 374 (375)
+|| |||+++++++|++. ..... ..++.++|. ++ .+.|++|+||||+|||+|.-|.
T Consensus 76 ~WR-ef~~~~~~~~p~~~~~~~~~----------~~~~~~~w~~~~~~~~~~~~w~~G~TG~p~vDAamrqL~ 137 (277)
T PF03441_consen 76 IWR-EFYRQLLYHNPNLDMFENFN----------PKFRQIPWEDDRENPELFEAWCEGRTGYPLVDAAMRQLR 137 (277)
T ss_dssp HHH-HHHHHHHHHSGGCTCSSTSS----------TTCCCSHCBTSBSTHHHHHHHHTT-SS-HHHHHHHHHHH
T ss_pred HHH-HHHHHHHHhCCcchhhhhcc----------HHHHhhhhcccccCHHHHHHHHcCCCCChHHHHHHHHHH
Confidence 998 99999999999976 33332 245566774 34 4567799999999999997663
No 10
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=99.76 E-value=1.3e-16 Score=150.99 Aligned_cols=283 Identities=15% Similarity=0.147 Sum_probs=191.2
Q ss_pred CcEEEEeeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEcC-CCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcCC
Q 017242 29 GPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLF-DQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE 107 (375)
Q Consensus 29 ~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~d-p~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g~ 107 (375)
..+++|.--|.-.++++||.. . ++...||.|-..- -.+...+.++..++..+|+.+.++| +..|..+....-+
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 457899999999999999875 2 1234444443321 1234567899999999999999999 9999998776544
Q ss_pred c---cchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc-CCCceEEEecCC-eeeeccccc----ccCCcchhhhHH
Q 017242 108 A---EDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAH-NVVPVWVAS----EKLEYSAKTLRG 178 (375)
Q Consensus 108 ~---~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l-~~~i~~~~~~~~-~l~~~~~~~----~~~~~~~~t~~~ 178 (375)
+ ...|...++.+..+.|++. +|.. .....++++.- ..||++..+++. .|.++.++. ++.+.....|++
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 DNSFGGELRRALEAYPGDRVQVQ-EPGD--HRLEARMKSLSMALGIEITEVENPHFLCSRAEFDAWAGDRKPLLMESFYR 152 (505)
T ss_pred CcccchHHHHHHHhcCCCeEEEe-cCcc--hhHHHHHHhhhhhcCceeEEecCcceecCHHHhhhhhccCcchhhHHHHH
Confidence 4 4567778888899999885 3331 12233444433 459999999776 677877764 234566666777
Q ss_pred HHHhhCCCcCC-----------------CCC-CCCCCCCccCCCCCCCChHHHHHHHHh-cC---CCCCCcccCCCcHHH
Q 017242 179 KINKLLPEYLI-----------------DYP-MLEQPIEKWTGTRQSIDWDSIIAAVLR-KG---AEVPEIGWCESGEDA 236 (375)
Q Consensus 179 ~~~~~~~~~~~-----------------~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~---~~~~~~~~~~gGe~~ 236 (375)
...|.++..+. +.| .+.+ +.+....|..+ ..++.+.+.. ++ ..+ ..+.|+...+.
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 RMRKRTGILMEDDQPEGGRWNFDAENRKKLPPDLLP-PKPLKFPPDEI-VQEVKERVERLFPDNFGQV-EGFGWPVTRTQ 229 (505)
T ss_pred HHHHhhceeccCCCCCCCcCCcCcccccCCCCcCCC-CCCCCCCCcch-hHHHHHHHHhhCCCCCCcc-ccCCCCCCHHH
Confidence 77665443221 111 1000 00100001111 1122222211 11 122 33567899999
Q ss_pred HHHHHccchhHHHhhhcCCCCCcCCCCCCCC---CCccCchhhhcCcccHHHHHHHHHHHhhc---CcchHHHHHHHhHH
Q 017242 237 AMEVLKGSKDGFLTKRLKNYPTDRNNPLKPR---ALSGLSPYLHFGQISAQRCALEARKARKL---CPEAIDTFLEELIV 310 (375)
Q Consensus 237 A~~~L~~~~~~Fl~~~l~~Y~~~Rd~p~~~~---~tS~LSpyL~~G~IS~R~v~~~~~~~~~~---~~~~~~~fl~eL~w 310 (375)
|...| ++|+..+|.+|....|.+...+ .+|.|||||+.|.|+|.+|+.++.++... ...+++.|++|+|.
T Consensus 230 A~~~L----~~Fi~~~L~nFG~yQDam~~d~~~L~HSllS~alNigLL~PleVi~Aa~~Ay~~g~ipLN~VEGFvRQiiG 305 (505)
T COG3046 230 ALRAL----KHFIADRLPNFGSYQDAMSADDPHLWHSLLSFALNIGLLTPLEVIRAALKAYREGDIPLNSVEGFVRQIIG 305 (505)
T ss_pred HHHHH----HHHHHHhhhcCCcHHHHHhcCCchhHHHHHHHHhhccCCCHHHHHHHHHHhhccCCCchHHHHHHHHHHhh
Confidence 99999 9999999999999998875412 78999999999999999999999877643 34568999999998
Q ss_pred HHHHhhhhhhcC-CCCCC
Q 017242 311 RRELADNFCFYQ-PNYDS 327 (375)
Q Consensus 311 RrEf~~~~~~~~-P~~~~ 327 (375)
||||.+.+++.. |+|.+
T Consensus 306 WREfmRgiY~~~~P~y~t 323 (505)
T COG3046 306 WREFMRGIYWLKMPDYAT 323 (505)
T ss_pred HHHHHHHhhhhcCCchhh
Confidence 889999999877 88743
No 11
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=98.12 E-value=1.9e-08 Score=100.75 Aligned_cols=347 Identities=25% Similarity=0.280 Sum_probs=199.4
Q ss_pred cccccccccccCcCCCC--CCcEEEEeeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHH
Q 017242 11 VQPGRIRVLKQGSLDKK--RGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRL 88 (375)
Q Consensus 11 ~~~~r~~~~~~~~~~~~--~~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~ 88 (375)
+...+|.++-.+--... .-...+|+-.+=++.||.++..|.+.+.+-..++-.+++.-...+..+..+--+++.+.+.
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 33445666555431111 2235689999999999999999988643332232222222122334556667788899999
Q ss_pred HHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc-CCCceEEEecCCeeeecccccc
Q 017242 89 LQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVASE 167 (375)
Q Consensus 89 L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l-~~~i~~~~~~~~~l~~~~~~~~ 167 (375)
+..+. ...-++.++..+...+..+.++...++.+++...++.......-..+. +. ......+..+.+...+.+....
T Consensus 158 ~~~~~-~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~~~~~~~-~~~g~s~al~~l~~~l~~~~~~an~ 235 (531)
T KOG0133|consen 158 VCQSM-SAPKIPALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPSNYGEVV-WRGGESEALKRLDAHLKVPLWVANL 235 (531)
T ss_pred ccccc-ccccccccccccccCCCChhhhhhcccccccCCchhhccCcccccccc-cCCcccchhHHHHHHhhHHHHHhhh
Confidence 99998 888888888899999999999999888888876665432111100111 11 1112222223222222222111
Q ss_pred cCCcchhhhHHHHH-hhCCCcCCCCCCCCCCCCccCCCCCCCChHHHHHHHH--hc-CC--CCCCcccCCCcHHHHHHHH
Q 017242 168 KLEYSAKTLRGKIN-KLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVL--RK-GA--EVPEIGWCESGEDAAMEVL 241 (375)
Q Consensus 168 ~~~~~~~t~~~~~~-~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~--~~-~~--~~~~~~~~~gGe~~A~~~L 241 (375)
..+|...+.+-+.. +.+..++.-.+. ...... .......+..... .. .. .+....|-..++..|-...
T Consensus 236 ~~~~~~~~~~~~~s~~~Ls~yL~fg~~----svr~~~--~~~~~k~V~~~~~~~s~~~es~~~~qv~Wre~~y~~~~n~p 309 (531)
T KOG0133|consen 236 ELRYSNANSRVKISTTVLSPYLKFGCL----SVRYFY--RCVRLKQVKWKAKKNSLPPESLFLGQVAWREFFYTAAFNTP 309 (531)
T ss_pred hccccccchhcCCCccccccceeeccc----eeEeeh--hHhHHHHHHHhhhcccCCccccccceeeeechhhHhhcCCc
Confidence 12222222221110 011111110000 000000 0001111110000 00 01 1222334455677776666
Q ss_pred ccchhHHHhhhcCCCCCcCCCCCCCCCCccCc--hhhhcCcccHHHHHHHHHHHhhcCcchHHHHH---HHhHHHHHHhh
Q 017242 242 KGSKDGFLTKRLKNYPTDRNNPLKPRALSGLS--PYLHFGQISAQRCALEARKARKLCPEAIDTFL---EELIVRRELAD 316 (375)
Q Consensus 242 ~~~~~~Fl~~~l~~Y~~~Rd~p~~~~~tS~LS--pyL~~G~IS~R~v~~~~~~~~~~~~~~~~~fl---~eL~wRrEf~~ 316 (375)
. +.+-+++..+..+.-.+|.+.....++.++ |++.+|+++.++.-+...... ....+|+ ..++-|||-..
T Consensus 310 ~-~~~m~~n~~~~~ipw~~n~~~~~aw~~G~tG~P~ida~m~~l~~~gw~h~~~R----~~vasf~tr~~L~i~w~eg~~ 384 (531)
T KOG0133|consen 310 Y-FDDMPGNKILLQIPWDKNPPKLAAWLEGLTGYPWLDAGMRQLLASGWEHHRSR----TIVASFLTRGDLLISWREGLD 384 (531)
T ss_pred c-ccccccccccccCCcccChhhhHHHHcCCCCCCchhHHHHHHHHHHHHhcccc----hhhHhHhhccceeeeHHHHHH
Confidence 2 222455556788888897775447899999 999999999999877654322 2234444 33444459999
Q ss_pred hhhhcCCCCCCCcCchHHHHHhHhhhhcCCcccCCCHHHHhhCCCCchhhhHhh
Q 017242 317 NFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPVSIYLW 370 (375)
Q Consensus 317 ~~~~~~P~~~~~~~~~~W~~~~l~~~~~d~~~w~~~~e~~~~G~TG~PiVDA~~ 370 (375)
+++.+..+.|...+.-.|+..+...+..++....|+++.+..+-|-.++.++.|
T Consensus 385 ~F~~~llD~D~~~~agnW~~~S~~s~f~~~~~~~ysp~~~~kk~dP~g~yir~~ 438 (531)
T KOG0133|consen 385 VFMEYLLDADSSKNAGNWMWLSSTSHFFDQFDRVYSPVALGKKLDPDGLYIRQW 438 (531)
T ss_pred HHHHHhcchhhhcCCCccceeccccccccccccccCHHHHhCcCCcchhhHHHH
Confidence 999999998887888889888876888888888999999988888888887765
No 12
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=97.66 E-value=0.00029 Score=64.25 Aligned_cols=148 Identities=11% Similarity=0.113 Sum_probs=82.2
Q ss_pred EEEeeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEcCC-CCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcCC---
Q 017242 32 VYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFD-QFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE--- 107 (375)
Q Consensus 32 l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp-~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g~--- 107 (375)
|.|.--|.-..++++|.. -. .+..|+-+-.... .+...+.+|+.+++.+|+...++| ++.|..+.++.-+
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 567777888888898866 21 2334433333221 134578899999999999999999 9999999888633
Q ss_pred ----ccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc-CCCceEEEecCCe-eeeccccc---c-cCCcchhhhH
Q 017242 108 ----AEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHN-VVPVWVAS---E-KLEYSAKTLR 177 (375)
Q Consensus 108 ----~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l-~~~i~~~~~~~~~-l~~~~~~~---~-~~~~~~~t~~ 177 (375)
..+.|.+++++++++.|.+. +|. +....+.+.+++ ..||++..+++.. |.++..+. . ++.+..-.||
T Consensus 75 ~~~s~~~~L~~~~~~~~~~~~~~~-~P~--d~~l~~~l~~~~~~~~i~~~~~~~~~Fl~s~~~f~~~~~~~k~~~Me~FY 151 (224)
T PF04244_consen 75 NTQSFEDALARALKQHGIDRLHVM-EPG--DYRLEQRLESLAQQLGIPLEVLEDPHFLTSREEFAEWFEGRKRLRMEYFY 151 (224)
T ss_dssp --SSHHHHHHHHHHHH----EEEE---S---HHHHHHHHH----SSS-EEEE--TTSSS-HHHHHHHHTT-SS--HHHHH
T ss_pred ccccHHHHHHHHHHHcCCCEEEEE-CCC--CHHHHHHHHhhhcccCCceEEeCCCCccCCHHHHHHHHccCCceeHHHHH
Confidence 24678888999999999885 344 235567787777 6799999998875 55666553 2 3556677777
Q ss_pred HHHHhhCCCcC
Q 017242 178 GKINKLLPEYL 188 (375)
Q Consensus 178 ~~~~~~~~~~~ 188 (375)
+...+.....+
T Consensus 152 R~mRkr~~ILm 162 (224)
T PF04244_consen 152 REMRKRFGILM 162 (224)
T ss_dssp HHHHHHHTTTE
T ss_pred HHHHHHcCccc
Confidence 77777665555
No 13
>PRK09982 universal stress protein UspD; Provisional
Probab=94.03 E-value=0.35 Score=40.52 Aligned_cols=109 Identities=16% Similarity=0.052 Sum_probs=66.9
Q ss_pred CCHHHHHHHHHHhhCCCCEEEEEEcCCCCcC------cc-hh----HHHHHHHhHHHHHHHHHHhcCCcEEEEcCCccch
Q 017242 43 DNWALIHAVDQANKNNVPVAVAFNLFDQFLG------AK-AR----QLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDN 111 (375)
Q Consensus 43 DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~------~~-~~----r~~Fl~esL~~L~~~L~~~~g~~L~v~~g~~~~~ 111 (375)
-..||.+|++.|++.+..+..+++.++.... .. .. ......+.|+++.+++ ...++...+..|+|.+.
T Consensus 16 s~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~v~~G~p~~~ 94 (142)
T PRK09982 16 DALLVNKALELARHNDAHLTLIHIDDGLSELYPGIYFPATEDILQLLKNKSDNKLYKLTKNI-QWPKTKLRIERGEMPET 94 (142)
T ss_pred hHHHHHHHHHHHHHhCCeEEEEEEccCcchhchhhhccchHHHHHHHHHHHHHHHHHHHHhc-CCCcceEEEEecCHHHH
Confidence 3578999999988888889999998753210 00 01 1111222344444444 44456678888999999
Q ss_pred HHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc--CCCceEEEe
Q 017242 112 IPNFVRECGASLLVTDFSPLREIRRCKDKICNRV--SDSVTIHEV 154 (375)
Q Consensus 112 l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l--~~~i~~~~~ 154 (375)
|.+.+++.+++.|+.-..-.. ..+.- .+.+.. ...|+|-.+
T Consensus 95 I~~~A~~~~aDLIVmG~~~~~-~~~~~-~va~~V~~~s~~pVLvv 137 (142)
T PRK09982 95 LLEIMQKEQCDLLVCGHHHSF-INRLM-PAYRGMINKMSADLLIV 137 (142)
T ss_pred HHHHHHHcCCCEEEEeCChhH-HHHHH-HHHHHHHhcCCCCEEEe
Confidence 999999999999998422111 11222 244433 346766554
No 14
>PRK10116 universal stress protein UspC; Provisional
Probab=93.63 E-value=2.5 Score=34.85 Aligned_cols=111 Identities=18% Similarity=0.106 Sum_probs=66.6
Q ss_pred cCCHHHHHHHHHHhhCCCCEEEEEEcCCCCc--Cc-----chhHHHHHHHhHHHHHHHHHHhcCCc---EEEEcCCccch
Q 017242 42 RDNWALIHAVDQANKNNVPVAVAFNLFDQFL--GA-----KARQLGFMLRGLRLLQRNIEETFQIL---FFLFQGEAEDN 111 (375)
Q Consensus 42 ~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~--~~-----~~~r~~Fl~esL~~L~~~L~~~~g~~---L~v~~g~~~~~ 111 (375)
..+.+|.+|+..|++.+..+..+++.++... .. ...+....-+..+.|++.. .+.|++ .++..|++.+.
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 4468999999998877778888888764311 11 1111122222223344434 555653 45668999999
Q ss_pred HHHHHHHhCCCEEEEc-CCcchHHHHHHHHHHHHc--CCCceEEEec
Q 017242 112 IPNFVRECGASLLVTD-FSPLREIRRCKDKICNRV--SDSVTIHEVD 155 (375)
Q Consensus 112 l~~l~~~~~~~~V~~~-~~p~~~~~~rd~~v~~~l--~~~i~~~~~~ 155 (375)
+.+.+++.+++.|+.. .......+. -.+.+.+ ..+|++-.+.
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 9999999999999983 222222222 2344333 4577776554
No 15
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=93.38 E-value=0.64 Score=45.49 Aligned_cols=108 Identities=13% Similarity=0.130 Sum_probs=66.3
Q ss_pred CHHHHHHHHHHhhC--CCCEEEEEEcCCCCcCcchh-HHHHHHHhHHHHHHHHHHh------cCCcEEEE--c-------
Q 017242 44 NWALIHAVDQANKN--NVPVAVAFNLFDQFLGAKAR-QLGFMLRGLRLLQRNIEET------FQILFFLF--Q------- 105 (375)
Q Consensus 44 N~aL~~A~~~a~~~--~~~vl~vfi~dp~~~~~~~~-r~~Fl~esL~~L~~~L~~~------~g~~L~v~--~------- 105 (375)
..|+.+|++.|++. +..|..+++.++........ -..---+-++...+.+ ++ .|+..... .
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 46889999998763 46888999988643211110 0011123345555555 43 37764333 2
Q ss_pred -CCccchHHHHHHHhCCCEEEEc--CCcchHHHHHHHHHHHHc-CCCceEEE
Q 017242 106 -GEAEDNIPNFVRECGASLLVTD--FSPLREIRRCKDKICNRV-SDSVTIHE 153 (375)
Q Consensus 106 -g~~~~~l~~l~~~~~~~~V~~~--~~p~~~~~~rd~~v~~~l-~~~i~~~~ 153 (375)
|++.+.|.+.+++.+++.|+.+ |.|... ..--+-+...| ..||.+..
T Consensus 98 ~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 148 (357)
T PRK12652 98 PGDYAEVLIAYAEEHGIDRVVLDPEYNPGGT-APMLQPLERELARAGITYEE 148 (357)
T ss_pred CCCHHHHHHHHHHHcCCCEEEECCCCCCCCC-CcccchHHHHHHhcCCceec
Confidence 8999999999999999999995 666432 12223344445 55777665
No 16
>PRK15005 universal stress protein F; Provisional
Probab=93.27 E-value=0.71 Score=38.28 Aligned_cols=82 Identities=11% Similarity=0.087 Sum_probs=54.2
Q ss_pred HHHHHHHHHHhhCCCCEEEEEEcCCCCc----Cc-----chhH---HHHHHHhHHHHHHHHHHhcCC--cEEEEcCCccc
Q 017242 45 WALIHAVDQANKNNVPVAVAFNLFDQFL----GA-----KARQ---LGFMLRGLRLLQRNIEETFQI--LFFLFQGEAED 110 (375)
Q Consensus 45 ~aL~~A~~~a~~~~~~vl~vfi~dp~~~----~~-----~~~r---~~Fl~esL~~L~~~L~~~~g~--~L~v~~g~~~~ 110 (375)
.+|.+|++.|++.+.+|..+++.++... .. .... ..-..+.|..+.+++ ...|. ..++..|++.+
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 5788888888877888998999875211 00 0111 111223444444444 43343 56778899999
Q ss_pred hHHHHHHHhCCCEEEEc
Q 017242 111 NIPNFVRECGASLLVTD 127 (375)
Q Consensus 111 ~l~~l~~~~~~~~V~~~ 127 (375)
.|.+.+++.+++.|+.-
T Consensus 98 ~I~~~a~~~~~DLIV~G 114 (144)
T PRK15005 98 RILELAKKIPADMIIIA 114 (144)
T ss_pred HHHHHHHHcCCCEEEEe
Confidence 99999999999999973
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=92.95 E-value=1.3 Score=36.76 Aligned_cols=84 Identities=12% Similarity=0.025 Sum_probs=55.6
Q ss_pred cCCHHHHHHHHHHhhCCCCEEEEEEcCCCCcCcc--------h----hHHHHHHHhHHHHHHHHHHhcCCc--EEEEcC-
Q 017242 42 RDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAK--------A----RQLGFMLRGLRLLQRNIEETFQIL--FFLFQG- 106 (375)
Q Consensus 42 ~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~--------~----~r~~Fl~esL~~L~~~L~~~~g~~--L~v~~g- 106 (375)
.-..||..|++.|.+.+.++..+++.++...... . ....-..+-|+...+.+ ++.|+. ..+..|
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 3457889999888777889999999876422110 0 00111233444445555 556654 345555
Q ss_pred CccchHHHHHHHhCCCEEEE
Q 017242 107 EAEDNIPNFVRECGASLLVT 126 (375)
Q Consensus 107 ~~~~~l~~l~~~~~~~~V~~ 126 (375)
++.+.|.+.+++.+++.|+.
T Consensus 90 ~~~~~I~~~a~~~~~dlIV~ 109 (146)
T cd01989 90 DVAKAIVEYVADHGITKLVM 109 (146)
T ss_pred cHHHHHHHHHHHcCCCEEEE
Confidence 88999999999999999997
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=92.41 E-value=1.5 Score=35.36 Aligned_cols=82 Identities=13% Similarity=0.007 Sum_probs=58.9
Q ss_pred CHHHHHHHHHHhhCCCCEEEEEEcCCCCcC-c--chhHHHHHHHhHHHHHHHHHHhcCCcEEEE---cCCccchHHHHHH
Q 017242 44 NWALIHAVDQANKNNVPVAVAFNLFDQFLG-A--KARQLGFMLRGLRLLQRNIEETFQILFFLF---QGEAEDNIPNFVR 117 (375)
Q Consensus 44 N~aL~~A~~~a~~~~~~vl~vfi~dp~~~~-~--~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~---~g~~~~~l~~l~~ 117 (375)
..+|.+|...|...+.+|+.+++.++.... . ......-..+.+..+.+.+ ++.|++.... .|++.+.|.++++
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 357888888887777889999998853211 0 1222334556777777777 8888875433 4788899999999
Q ss_pred HhCCCEEEE
Q 017242 118 ECGASLLVT 126 (375)
Q Consensus 118 ~~~~~~V~~ 126 (375)
+.+++.|+.
T Consensus 92 ~~~~dlIV~ 100 (132)
T cd01988 92 ERQADLIIM 100 (132)
T ss_pred hcCCCEEEE
Confidence 999999997
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=92.12 E-value=3.9 Score=32.79 Aligned_cols=80 Identities=16% Similarity=0.160 Sum_probs=57.9
Q ss_pred CCHHHHHHHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEE-cCCccchHHHHHHHhCC
Q 017242 43 DNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLF-QGEAEDNIPNFVRECGA 121 (375)
Q Consensus 43 DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~-~g~~~~~l~~l~~~~~~ 121 (375)
...+|..|+..|.+.+.++..+++.++......... .+-|..+.+.. ++.++...+. .|++.+.|.+.++++++
T Consensus 12 s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~----~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~I~~~~~~~~~ 86 (124)
T cd01987 12 AERLIRRAARLADRLKAPWYVVYVETPRLNRLSEAE----RRRLAEALRLA-EELGAEVVTLPGDDVAEAIVEFAREHNV 86 (124)
T ss_pred hHHHHHHHHHHHHHhCCCEEEEEEecCccccCCHHH----HHHHHHHHHHH-HHcCCEEEEEeCCcHHHHHHHHHHHcCC
Confidence 567888888888888889999999886532111121 23455666667 7778876554 46788999999999999
Q ss_pred CEEEEc
Q 017242 122 SLLVTD 127 (375)
Q Consensus 122 ~~V~~~ 127 (375)
+.|+.-
T Consensus 87 dllviG 92 (124)
T cd01987 87 TQIVVG 92 (124)
T ss_pred CEEEeC
Confidence 999983
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=91.90 E-value=2.6 Score=33.33 Aligned_cols=84 Identities=17% Similarity=0.117 Sum_probs=59.6
Q ss_pred CCHHHHHHHHHHhhCCCCEEEEEEcCCCCcCc---chhHHHHHHHhHHHHHHHHHHhcCCcE--EEEcCCccchHHHHHH
Q 017242 43 DNWALIHAVDQANKNNVPVAVAFNLFDQFLGA---KARQLGFMLRGLRLLQRNIEETFQILF--FLFQGEAEDNIPNFVR 117 (375)
Q Consensus 43 DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~---~~~r~~Fl~esL~~L~~~L~~~~g~~L--~v~~g~~~~~l~~l~~ 117 (375)
...++..|...|++.+.++..+++.++..... ......-..+.|..+...+ ...|+++ .+..|++.+.|.+.++
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 45677888888888888999999987643211 1122233446667777666 6678876 4456888889999999
Q ss_pred HhCCCEEEEc
Q 017242 118 ECGASLLVTD 127 (375)
Q Consensus 118 ~~~~~~V~~~ 127 (375)
+.+++.|+..
T Consensus 91 ~~~~dlvvig 100 (130)
T cd00293 91 ELGADLIVMG 100 (130)
T ss_pred HcCCCEEEEc
Confidence 9999999974
No 21
>PRK15456 universal stress protein UspG; Provisional
Probab=89.98 E-value=2.6 Score=34.90 Aligned_cols=81 Identities=16% Similarity=0.064 Sum_probs=52.8
Q ss_pred CHHHHHHHHHHhhCCCCEEEEEEcCCCCcC------c--c---hhHHHHHHHhHHHHHHHHHHhcCC--cEEEEcCCccc
Q 017242 44 NWALIHAVDQANKNNVPVAVAFNLFDQFLG------A--K---ARQLGFMLRGLRLLQRNIEETFQI--LFFLFQGEAED 110 (375)
Q Consensus 44 N~aL~~A~~~a~~~~~~vl~vfi~dp~~~~------~--~---~~r~~Fl~esL~~L~~~L~~~~g~--~L~v~~g~~~~ 110 (375)
..||.+|+..|+.. ..+..++++++.... . . .....-..+.|.++.+.+ ...|. ..++..|++.+
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 46788888888765 478888888763210 0 0 011122233444555444 43344 55677899999
Q ss_pred hHHHHHHHhCCCEEEE
Q 017242 111 NIPNFVRECGASLLVT 126 (375)
Q Consensus 111 ~l~~l~~~~~~~~V~~ 126 (375)
.|.+.+++.+++.|+.
T Consensus 96 ~I~~~a~~~~~DLIVm 111 (142)
T PRK15456 96 EVNELAEELGADVVVI 111 (142)
T ss_pred HHHHHHhhcCCCEEEE
Confidence 9999999999999997
No 22
>PRK10490 sensor protein KdpD; Provisional
Probab=88.89 E-value=2.7 Score=46.38 Aligned_cols=120 Identities=12% Similarity=0.131 Sum_probs=74.2
Q ss_pred CCcEEEEeeCCCCccCCHHH-HHHHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcC
Q 017242 28 RGPVVYWMFRDQRVRDNWAL-IHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG 106 (375)
Q Consensus 28 ~~~~l~WfrrDLRl~DN~aL-~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g 106 (375)
+..+|+=.-.+ ..+..| -.|.+.|.+.+.++++|||-++...........-+.+.++ |.++| |....+..|
T Consensus 250 ~eriLV~v~~~---~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~~~~~~~~~~l~~~~~-lA~~l----Ga~~~~~~~ 321 (895)
T PRK10490 250 RDAILLCIGHN---TGSEKLVRTAARLAARLGSVWHAVYVETPRLHRLPEKKRRAILSALR-LAQEL----GAETATLSD 321 (895)
T ss_pred CCeEEEEECCC---cchHHHHHHHHHHHHhcCCCEEEEEEecCCcCcCCHHHHHHHHHHHH-HHHHc----CCEEEEEeC
Confidence 34445544443 445555 5566788888889999999877533333333444555553 55554 999877776
Q ss_pred -CccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc---CCCceEEEecC
Q 017242 107 -EAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV---SDSVTIHEVDA 156 (375)
Q Consensus 107 -~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l---~~~i~~~~~~~ 156 (375)
+..+.|.+++++.+|+.|+.-.+..... -+...+.+.+ ..+|.++.+.+
T Consensus 322 ~dva~~i~~~A~~~~vt~IViG~s~~~~~-~~~~s~~~~l~r~~~~idi~iv~~ 374 (895)
T PRK10490 322 PAEEKAVLRYAREHNLGKIIIGRRASRRW-WRRESFADRLARLGPDLDLVIVAL 374 (895)
T ss_pred CCHHHHHHHHHHHhCCCEEEECCCCCCCC-ccCCCHHHHHHHhCCCCCEEEEeC
Confidence 4678999999999999999843321111 0111333322 35788888853
No 23
>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=85.74 E-value=5.8 Score=36.18 Aligned_cols=95 Identities=18% Similarity=0.219 Sum_probs=57.5
Q ss_pred HHHHHHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEc--CC---ccchHHHHHHHhC
Q 017242 46 ALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--GE---AEDNIPNFVRECG 120 (375)
Q Consensus 46 aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~--g~---~~~~l~~l~~~~~ 120 (375)
||+.|.+ . ..|..++..-|... .+..|-...+..++.+- +.+|++|+... |. ..+.+.+.+++.+
T Consensus 16 Al~~~~~----~-~~V~~L~~~~~~~~----~s~~~h~~~~~~~~~qA-~algiPl~~~~~~~~~e~~~~~l~~~l~~~g 85 (222)
T TIGR00289 16 ALYKALE----E-HEVISLVGVFSENE----ESYMFHSPNLHLTDLVA-EAVGIPLIKLYTSGEEEKEVEDLAGQLGELD 85 (222)
T ss_pred HHHHHHH----c-CeeEEEEEEcCCCC----CccccccCCHHHHHHHH-HHcCCCeEEEEcCCchhHHHHHHHHHHHHcC
Confidence 4555554 3 46777777665421 13333334667777787 88999998765 32 2344555566779
Q ss_pred CCEEEE-cCCcchHHHHHHHHHHHHcCCCceEEE
Q 017242 121 ASLLVT-DFSPLREIRRCKDKICNRVSDSVTIHE 153 (375)
Q Consensus 121 ~~~V~~-~~~p~~~~~~rd~~v~~~l~~~i~~~~ 153 (375)
++.|++ +..-. ..+.|.+++.+.+ |++...
T Consensus 86 v~~vv~GdI~s~-~qr~~~e~vc~~~--gl~~~~ 116 (222)
T TIGR00289 86 VEALCIGAIESN-YQKSRIDKVCREL--GLKSIA 116 (222)
T ss_pred CCEEEECccccH-HHHHHHHHHHHHc--CCEEec
Confidence 999998 43221 1456667776655 666543
No 24
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=85.65 E-value=7.9 Score=31.96 Aligned_cols=111 Identities=12% Similarity=-0.022 Sum_probs=63.0
Q ss_pred cCCHHHHHHHHHHhhCCCCEEEEEEcCCC-CcCc-------chhHHHHHHHhHHHHHHHHHHhcCCcE---EEEcCCccc
Q 017242 42 RDNWALIHAVDQANKNNVPVAVAFNLFDQ-FLGA-------KARQLGFMLRGLRLLQRNIEETFQILF---FLFQGEAED 110 (375)
Q Consensus 42 ~DN~aL~~A~~~a~~~~~~vl~vfi~dp~-~~~~-------~~~r~~Fl~esL~~L~~~L~~~~g~~L---~v~~g~~~~ 110 (375)
....||.+|...|++.+..+..+++..+. .... ...+.....+..+.|++-+ ++.|+.. ++..|++.+
T Consensus 15 ~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~~G~p~~ 93 (144)
T PRK15118 15 ESKVLVEKAVSMARPYNAKVSLIHVDVNYSDLYTGLIDVNLGDMQKRISEETHHALTELS-TNAGYPITETLSGSGDLGQ 93 (144)
T ss_pred hHHHHHHHHHHHHHhhCCEEEEEEEccChhhhhhhhhhcchHHHHHHHHHHHHHHHHHHH-HhCCCCceEEEEEecCHHH
Confidence 34678889998887777788888883221 1100 0111111222223444444 5556653 345799999
Q ss_pred hHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc--CCCceEEEec
Q 017242 111 NIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV--SDSVTIHEVD 155 (375)
Q Consensus 111 ~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l--~~~i~~~~~~ 155 (375)
.|.+.+++.+++.|+.-..... . .+--++.+.+ ...|++-.+.
T Consensus 94 ~I~~~a~~~~~DLIV~Gs~~~~-~-~~lgSva~~v~~~a~~pVLvv~ 138 (144)
T PRK15118 94 VLVDAIKKYDMDLVVCGHHQDF-W-SKLMSSARQLINTVHVDMLIVP 138 (144)
T ss_pred HHHHHHHHhCCCEEEEeCcccH-H-HHHHHHHHHHHhhCCCCEEEec
Confidence 9999999999999997322111 1 1222455443 3456665553
No 25
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=85.10 E-value=12 Score=40.36 Aligned_cols=110 Identities=16% Similarity=0.189 Sum_probs=73.4
Q ss_pred CCHHHHH-HHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcCC-ccchHHHHHHHhC
Q 017242 43 DNWALIH-AVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE-AEDNIPNFVRECG 120 (375)
Q Consensus 43 DN~aL~~-A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g~-~~~~l~~l~~~~~ 120 (375)
.|..|.. |++.|.+.+.+..+|||-.|+....+.....-+.+ ...|.++| |....++.|+ ..+.+.+.|+.++
T Consensus 260 ~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~~~~~~~~~l~~-~~~Lae~l----Gae~~~l~~~dv~~~i~~ya~~~~ 334 (890)
T COG2205 260 GSEKLIRRAARLASRLHAKWTAVYVETPELHRLSEKEARRLHE-NLRLAEEL----GAEIVTLYGGDVAKAIARYAREHN 334 (890)
T ss_pred chHHHHHHHHHHHHHhCCCeEEEEEeccccccccHHHHHHHHH-HHHHHHHh----CCeEEEEeCCcHHHHHHHHHHHcC
Confidence 4666654 55678888889999999998876554444434433 34455555 9999888854 5688999999999
Q ss_pred CCEEEEcCCcchHHHHH-HHHHHHHc---CCCceEEEecCC
Q 017242 121 ASLLVTDFSPLREIRRC-KDKICNRV---SDSVTIHEVDAH 157 (375)
Q Consensus 121 ~~~V~~~~~p~~~~~~r-d~~v~~~l---~~~i~~~~~~~~ 157 (375)
++.|+.-.+.....+.+ ...+...| ..++.++.+...
T Consensus 335 ~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~~ 375 (890)
T COG2205 335 ATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVALD 375 (890)
T ss_pred CeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeCC
Confidence 99999854433222221 24455444 467888877543
No 26
>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=85.09 E-value=4.9 Score=31.98 Aligned_cols=84 Identities=17% Similarity=0.092 Sum_probs=50.4
Q ss_pred CCHHHHHHHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHH--------HHHHHhcC--CcEEEEcCCccchH
Q 017242 43 DNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQ--------RNIEETFQ--ILFFLFQGEAEDNI 112 (375)
Q Consensus 43 DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~--------~~L~~~~g--~~L~v~~g~~~~~l 112 (375)
...++..|...|...+.+|..+++.++...................-. .......+ ....+..|++.+.+
T Consensus 15 ~~~al~~a~~la~~~~~~i~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 94 (140)
T PF00582_consen 15 SRRALRFALELAKRSGAEITLLHVIPPPPQYSFSAAEDEESEEEAEEEEQARQAEAEEAEAEGGIVIEVVIESGDVADAI 94 (140)
T ss_dssp HHHHHHHHHHHHHHHTCEEEEEEEEESCHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEEEESSHHHHH
T ss_pred HHHHHHHHHHHHHhhCCeEEEEEeeccccccccccccccccccccchhhhhhhHHHHHHhhhccceeEEEEEeeccchhh
Confidence 346788888888878889999999986532111100000000000000 11102222 33555679999999
Q ss_pred HHHHHHhCCCEEEE
Q 017242 113 PNFVRECGASLLVT 126 (375)
Q Consensus 113 ~~l~~~~~~~~V~~ 126 (375)
.+++++.+++.|+.
T Consensus 95 ~~~~~~~~~dliv~ 108 (140)
T PF00582_consen 95 IEFAEEHNADLIVM 108 (140)
T ss_dssp HHHHHHTTCSEEEE
T ss_pred hhccccccceeEEE
Confidence 99999999999997
No 27
>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=83.90 E-value=7.3 Score=34.66 Aligned_cols=87 Identities=18% Similarity=0.285 Sum_probs=50.7
Q ss_pred CCCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEc--CCc---cchH----HHHHHHhCCCEEEE-
Q 017242 57 NNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--GEA---EDNI----PNFVRECGASLLVT- 126 (375)
Q Consensus 57 ~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~--g~~---~~~l----~~l~~~~~~~~V~~- 126 (375)
.|..|+++++..|... .+..|-...+..++... +++|++++++. ++. .+.+ .++.++ +++.|++
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 5778888888765421 11112223566777777 88899998875 221 1223 333333 6888887
Q ss_pred c-CCcchHHHHHHHHHHHHcCCCceEEE
Q 017242 127 D-FSPLREIRRCKDKICNRVSDSVTIHE 153 (375)
Q Consensus 127 ~-~~p~~~~~~rd~~v~~~l~~~i~~~~ 153 (375)
+ .+-. .+.|.+++.+.+ |++...
T Consensus 96 ~i~sd~--~~~~~e~~~~~~--gl~~~~ 119 (194)
T cd01994 96 AILSEY--QRTRVERVCERL--GLEPLA 119 (194)
T ss_pred ccccHH--HHHHHHHHHHHc--CCEEEe
Confidence 3 2222 456667776655 665543
No 28
>PRK11175 universal stress protein UspE; Provisional
Probab=80.52 E-value=39 Score=31.70 Aligned_cols=119 Identities=15% Similarity=0.063 Sum_probs=69.4
Q ss_pred CCCccCCHHHHHHHHHHhhCCCCEEEEEEcCC-CCc-----Ccch---hHHHH---HHHhHHHHHHHHHHhcCCcEE--E
Q 017242 38 DQRVRDNWALIHAVDQANKNNVPVAVAFNLFD-QFL-----GAKA---RQLGF---MLRGLRLLQRNIEETFQILFF--L 103 (375)
Q Consensus 38 DLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp-~~~-----~~~~---~r~~F---l~esL~~L~~~L~~~~g~~L~--v 103 (375)
|+=-....||.+|+..|++.+..++.+++.++ ... .... .+... ..+.|..+.+.+ +..|++.. +
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 34445788999999999888878887776643 111 0111 11111 223344555555 56676653 3
Q ss_pred E-cCCccchHHHHHHHhCCCEEEEcCC-cchHHHHHHHHHH-HHc-CCCceEEEecCC
Q 017242 104 F-QGEAEDNIPNFVRECGASLLVTDFS-PLREIRRCKDKIC-NRV-SDSVTIHEVDAH 157 (375)
Q Consensus 104 ~-~g~~~~~l~~l~~~~~~~~V~~~~~-p~~~~~~rd~~v~-~~l-~~~i~~~~~~~~ 157 (375)
. .|++.+.|.+.+++.+++.|+.... ........-..+. +.+ ...|++..+...
T Consensus 90 ~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~~~ 147 (305)
T PRK11175 90 VWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVKDQ 147 (305)
T ss_pred ecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEeccc
Confidence 3 5889999999999999999998422 2211111111222 233 446888887654
No 29
>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=79.74 E-value=16 Score=33.25 Aligned_cols=96 Identities=14% Similarity=0.179 Sum_probs=54.3
Q ss_pred HHHHHHHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEc--CC---ccchHHHHHHHh
Q 017242 45 WALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--GE---AEDNIPNFVREC 119 (375)
Q Consensus 45 ~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~--g~---~~~~l~~l~~~~ 119 (375)
-||+.|.+ . ..|+++...-|... .+..|-.-.+.-++.+- +.+|++|+... +. -.+.+.+++++.
T Consensus 15 ~al~~a~~----~-~~v~~L~t~~~~~~----~s~~~H~~~~~~~~~qA-~algipl~~~~~~~~~e~~~e~l~~~l~~~ 84 (223)
T TIGR00290 15 LALYHALK----E-HEVISLVNIMPENE----ESYMFHGVNAHLTDLQA-ESIGIPLIKLYTEGTEEDEVEELKGILHTL 84 (223)
T ss_pred HHHHHHHH----h-CeeEEEEEEecCCC----CcccccccCHHHHHHHH-HHcCCCeEEeecCCCccHHHHHHHHHHHHc
Confidence 45666655 4 45666655544321 12222222445555566 77899997643 23 345556667777
Q ss_pred CCCEEEE-cCCcchHHHHHHHHHHHHcCCCceEEE
Q 017242 120 GASLLVT-DFSPLREIRRCKDKICNRVSDSVTIHE 153 (375)
Q Consensus 120 ~~~~V~~-~~~p~~~~~~rd~~v~~~l~~~i~~~~ 153 (375)
+++.|++ |..-. ..+.|.+++.+.+ |++...
T Consensus 85 gv~~vv~GdI~s~-~qr~~~e~v~~~l--gl~~~~ 116 (223)
T TIGR00290 85 DVEAVVFGAIYSE-YQKTRIERVCREL--GLKSFA 116 (223)
T ss_pred CCCEEEECCcccH-HHHHHHHHHHHhc--CCEEec
Confidence 9999998 43222 1356666666655 665543
No 30
>PRK11175 universal stress protein UspE; Provisional
Probab=79.40 E-value=16 Score=34.45 Aligned_cols=81 Identities=16% Similarity=0.119 Sum_probs=52.6
Q ss_pred HHHHHHHHHHhhC-CCCEEEEEEcCCCCcC---------cchhHHHHHHHhHHHHHHHHHHhcCCc---EEEEcCCccch
Q 017242 45 WALIHAVDQANKN-NVPVAVAFNLFDQFLG---------AKARQLGFMLRGLRLLQRNIEETFQIL---FFLFQGEAEDN 111 (375)
Q Consensus 45 ~aL~~A~~~a~~~-~~~vl~vfi~dp~~~~---------~~~~r~~Fl~esL~~L~~~L~~~~g~~---L~v~~g~~~~~ 111 (375)
.+|.+|...|... +..+..++++++.... ........--+....+++-+ ++.|++ .++..|++.+.
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 4778888877766 7788888887643210 11111111122334455545 555664 56778999999
Q ss_pred HHHHHHHhCCCEEEE
Q 017242 112 IPNFVRECGASLLVT 126 (375)
Q Consensus 112 l~~l~~~~~~~~V~~ 126 (375)
|.+.+++.+++.|++
T Consensus 253 I~~~a~~~~~DLIVm 267 (305)
T PRK11175 253 IPDLAEHLDAELVIL 267 (305)
T ss_pred HHHHHHHhCCCEEEE
Confidence 999999999999997
No 31
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=70.00 E-value=35 Score=30.99 Aligned_cols=99 Identities=15% Similarity=0.216 Sum_probs=59.2
Q ss_pred CHHHHHHHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEc--CC---ccchHHHHHHH
Q 017242 44 NWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--GE---AEDNIPNFVRE 118 (375)
Q Consensus 44 N~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~--g~---~~~~l~~l~~~ 118 (375)
+-||+.|.+ .|..|..+.++-|.-. -..-|-.-++.-....- +..|++++... |. -.+.|.++.+.
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 457777776 5888888888766432 11112223344444444 66799987765 31 24556677888
Q ss_pred hCCCEEEEcCCcchHHHHHHHHHHHHcCCCceEEE
Q 017242 119 CGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHE 153 (375)
Q Consensus 119 ~~~~~V~~~~~p~~~~~~rd~~v~~~l~~~i~~~~ 153 (375)
.+++.|++-.=.....+.|.++|++.+ |+++.+
T Consensus 85 l~~d~iv~GaI~s~yqk~rve~lc~~l--Gl~~~~ 117 (223)
T COG2102 85 LKVDGIVAGAIASEYQKERVERLCEEL--GLKVYA 117 (223)
T ss_pred CcccEEEEchhhhHHHHHHHHHHHHHh--CCEEee
Confidence 899999983111122456667777655 676654
No 32
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=65.83 E-value=50 Score=29.86 Aligned_cols=87 Identities=15% Similarity=0.220 Sum_probs=45.1
Q ss_pred CCCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcCC-----ccchH----HHHHHHhCCCEEEE-
Q 017242 57 NNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE-----AEDNI----PNFVRECGASLLVT- 126 (375)
Q Consensus 57 ~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g~-----~~~~l----~~l~~~~~~~~V~~- 126 (375)
.|..|++++.+.+.... +.-+-...+..++... +.+|++++++.-+ ..+.+ .++.++ +++.|++
T Consensus 20 ~G~~v~~l~~~~~~~~~----~~~~~~~~~~~~~~~A-~~lgip~~~i~~~~~~~~~~~~l~~~l~~~~~~-g~~~vv~G 93 (218)
T TIGR03679 20 EGHEVRCLITVVPENEE----SYMFHTPNIELTRLQA-EALGIPLVKIETSGEKEKEVEDLKGALKELKRE-GVEGIVTG 93 (218)
T ss_pred cCCEEEEEEEeccCCCC----ccccCCCCHHHHHHHH-HHhCCCEEEEECCCCChHHHHHHHHHHHHHHHc-CCCEEEEC
Confidence 57677766665543210 1111112455666667 7789999887633 11223 333333 8999987
Q ss_pred c-CCcchHHHHHHHHHHHHcCCCceEEE
Q 017242 127 D-FSPLREIRRCKDKICNRVSDSVTIHE 153 (375)
Q Consensus 127 ~-~~p~~~~~~rd~~v~~~l~~~i~~~~ 153 (375)
+ .+.+ .+.|.+++.+. .|+++..
T Consensus 94 ~i~sd~--~~~~~e~v~~~--~gl~~~~ 117 (218)
T TIGR03679 94 AIASRY--QKSRIERICEE--LGLKVFA 117 (218)
T ss_pred CcccHh--HHHHHHHHHHh--CCCeEEe
Confidence 2 2321 23444444443 3665543
No 33
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=63.87 E-value=77 Score=25.60 Aligned_cols=80 Identities=19% Similarity=0.082 Sum_probs=53.0
Q ss_pred HHHHHHHHHhhCCCCEEEEEEcCCCCcCc-------c-------hhHHHHHHHhHHHHHHHHHHhcCCc---EEEEcCCc
Q 017242 46 ALIHAVDQANKNNVPVAVAFNLFDQFLGA-------K-------ARQLGFMLRGLRLLQRNIEETFQIL---FFLFQGEA 108 (375)
Q Consensus 46 aL~~A~~~a~~~~~~vl~vfi~dp~~~~~-------~-------~~r~~Fl~esL~~L~~~L~~~~g~~---L~v~~g~~ 108 (375)
++..|...+...+.++..+++.++..... . ..-..-..+.+..+.+.+ .+.|+. ..+..|++
T Consensus 22 a~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~g~~ 100 (154)
T COG0589 22 ALEEAVALAKRLGAPLILLVVIDPLEPTALVSVALADAPIPLSEEELEEEAEELLAEAKALA-EAAGVPVVETEVVEGSP 100 (154)
T ss_pred HHHHHHHHHHhcCCeEEEEEEecccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHH-HHcCCCeeEEEEecCCC
Confidence 34444444455666777777776543210 0 011233356677778888 778865 56678999
Q ss_pred -cchHHHHHHHhCCCEEEE
Q 017242 109 -EDNIPNFVRECGASLLVT 126 (375)
Q Consensus 109 -~~~l~~l~~~~~~~~V~~ 126 (375)
.+.+..++.+.+++.|+.
T Consensus 101 ~~~~i~~~a~~~~adliV~ 119 (154)
T COG0589 101 SAEEILELAEEEDADLIVV 119 (154)
T ss_pred cHHHHHHHHHHhCCCEEEE
Confidence 599999999999999997
No 34
>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=61.74 E-value=12 Score=34.11 Aligned_cols=93 Identities=18% Similarity=0.354 Sum_probs=44.8
Q ss_pred HHHHHHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHh--HHHHHHHHHHhcCCcEEEEc--CCcc---chHHHHHHH
Q 017242 46 ALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRG--LRLLQRNIEETFQILFFLFQ--GEAE---DNIPNFVRE 118 (375)
Q Consensus 46 aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~es--L~~L~~~L~~~~g~~L~v~~--g~~~---~~l~~l~~~ 118 (375)
||+.|.+ . .+|..+..+-|... . .++.++ +.-++.+- +.+|++|+... |+.. +.+.+.+++
T Consensus 16 Al~~a~~----~-~~v~~L~t~~~~~~----~--s~~~H~~~~~~~~~qA-~algipl~~~~~~g~~~~~~~~l~~~l~~ 83 (218)
T PF01902_consen 16 ALYRALR----Q-HEVVCLLTMVPEEE----D--SYMFHGVNIELIEAQA-EALGIPLIEIPTSGDEEDYVEDLKEALKE 83 (218)
T ss_dssp HHHHHHH----T--EEEEEEEEEESTT----T---SSS-STTGTCHHHHH-HHHT--EEEEEE---CCCHHHHHHHHHCT
T ss_pred HHHHHHH----h-CCccEEEEeccCCC----C--cccccccCHHHHHHHH-HHCCCCEEEEEccCccchhhHHHHHHHHH
Confidence 5666655 4 56666665544321 1 122222 33444555 66899998764 3343 445566677
Q ss_pred hCCCEEEE-cCCcchHHHHHHHHHHHHcCCCceEEE
Q 017242 119 CGASLLVT-DFSPLREIRRCKDKICNRVSDSVTIHE 153 (375)
Q Consensus 119 ~~~~~V~~-~~~p~~~~~~rd~~v~~~l~~~i~~~~ 153 (375)
.+++.|++ |..-. ..+.|.+++.+.+ |++...
T Consensus 84 ~~v~~vv~GdI~~~-~~r~~~e~vc~~l--Gl~~~~ 116 (218)
T PF01902_consen 84 LKVEAVVFGDIDSE-YQRNWVERVCERL--GLEAVF 116 (218)
T ss_dssp C--SEEE--TTS-H-HHHHHHHHHHHHC--T-EEE-
T ss_pred cCCCEEEECcCCcH-HHHHHHHHHHHHc--CCEEEe
Confidence 89999998 54322 2356666666655 676553
No 35
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=58.78 E-value=25 Score=37.73 Aligned_cols=46 Identities=11% Similarity=0.234 Sum_probs=40.3
Q ss_pred HHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCCcch
Q 017242 86 LRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (375)
Q Consensus 86 L~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~~ 132 (375)
-.+.-++| +++|++++++.||....-.+++++.||++|+.+--|..
T Consensus 542 a~~aI~~L-~~~Gi~~~mLTGDn~~~A~~iA~~lGId~v~AellPed 587 (713)
T COG2217 542 AKEAIAAL-KALGIKVVMLTGDNRRTAEAIAKELGIDEVRAELLPED 587 (713)
T ss_pred HHHHHHHH-HHCCCeEEEEcCCCHHHHHHHHHHcChHhheccCCcHH
Confidence 34455667 99999999999999999999999999999999988864
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=58.77 E-value=59 Score=28.56 Aligned_cols=115 Identities=10% Similarity=0.047 Sum_probs=69.2
Q ss_pred CCEEEEEEcCCCC-cCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcCCc-------------------cchHHH-HHH
Q 017242 59 VPVAVAFNLFDQF-LGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEA-------------------EDNIPN-FVR 117 (375)
Q Consensus 59 ~~vl~vfi~dp~~-~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g~~-------------------~~~l~~-l~~ 117 (375)
...+-||+...+. .-.-.-|...+.+|.++|..=. ---|++..|-.... ...+.+ ++.
T Consensus 26 ~d~l~vFVV~eD~S~Fpf~~R~~LVk~G~~~L~NV~-V~~~g~YiIS~aTFPsYFlK~~~~~~~~~~~lD~~iF~~~IAp 104 (182)
T PF08218_consen 26 CDWLHVFVVSEDRSLFPFADRYELVKEGTADLPNVT-VHPGGDYIISSATFPSYFLKDEDDVIKAQAELDATIFKKYIAP 104 (182)
T ss_pred CCEEEEEEEccccCcCCHHHHHHHHHHHhCcCCCEE-EEcCCCeeeecccChhhhccchhHHHHHHHHHHHHHHHHHhhH
Confidence 3566788876543 2345678889999998886543 33355555432111 122333 677
Q ss_pred HhCCCEEEEcCCcchHHHHH-HHHHHHHc-CCCceEEEecCCeeeecccccccCCcchhhhHHHHH
Q 017242 118 ECGASLLVTDFSPLREIRRC-KDKICNRV-SDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKIN 181 (375)
Q Consensus 118 ~~~~~~V~~~~~p~~~~~~r-d~~v~~~l-~~~i~~~~~~~~~l~~~~~~~~~~~~~~~t~~~~~~ 181 (375)
..+|+.-|.-.||.....+. -+.+++.| +.||++..+.- .-.++.+-++.+-|..+.
T Consensus 105 ~L~It~RfVG~EP~~~vT~~YN~~M~~~Lp~~gi~v~ei~R-------~~~~g~~ISAS~VR~~l~ 163 (182)
T PF08218_consen 105 ALGITKRFVGEEPFSPVTRIYNEAMKEILPPYGIEVVEIPR-------KEINGEPISASRVRKLLK 163 (182)
T ss_pred hcCcccceeCCCCCCHHHHHHHHHHHHhccccCCEEEEEec-------ccCCCcEEcHHHHHHHHH
Confidence 78999999977775443333 45677788 77899887651 112445556666666543
No 37
>TIGR01497 kdpB K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR.
Probab=55.49 E-value=52 Score=35.24 Aligned_cols=48 Identities=13% Similarity=0.259 Sum_probs=42.7
Q ss_pred HhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCCcch
Q 017242 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (375)
Q Consensus 84 esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~~ 132 (375)
....+.=++| ++.|+...++.|+.......++++.|++.++.+..|..
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 5667777788 99999999999999999999999999999999888863
No 38
>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=50.96 E-value=40 Score=29.36 Aligned_cols=48 Identities=13% Similarity=0.210 Sum_probs=40.8
Q ss_pred HHhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCE--EEEcC--Ccc
Q 017242 83 LRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASL--LVTDF--SPL 131 (375)
Q Consensus 83 ~esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~--V~~~~--~p~ 131 (375)
...+.++-++| ++.|+++.++.|+.......+++..++.. |+... .|.
T Consensus 129 ~~~~~~~l~~L-~~~Gi~~~i~TGD~~~~a~~~~~~lgi~~~~v~a~~~~kP~ 180 (215)
T PF00702_consen 129 RPGAKEALQEL-KEAGIKVAILTGDNESTASAIAKQLGIFDSIVFARVIGKPE 180 (215)
T ss_dssp HTTHHHHHHHH-HHTTEEEEEEESSEHHHHHHHHHHTTSCSEEEEESHETTTH
T ss_pred hhhhhhhhhhh-hccCcceeeeecccccccccccccccccccccccccccccc
Confidence 45677788888 99999999999999999999999999966 66666 675
No 39
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=50.64 E-value=72 Score=28.20 Aligned_cols=63 Identities=19% Similarity=0.350 Sum_probs=38.6
Q ss_pred HHHHHHHHHhcCCcEEEEcCCcc----------------c------hHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHH
Q 017242 87 RLLQRNIEETFQILFFLFQGEAE----------------D------NIPNFVRECGASLLVTDFSPLREIRRCKDKICNR 144 (375)
Q Consensus 87 ~~L~~~L~~~~g~~L~v~~g~~~----------------~------~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~ 144 (375)
..|.+.| .+.|...+++.|+.. + .+.+|....|.-.|++-.+|++..| +.+++.
T Consensus 41 ~ale~~L-~~~G~~~y~LDGDnvR~gL~~dLgFs~edR~eniRRvaevAkll~daG~iviva~ISP~r~~R---~~aR~~ 116 (197)
T COG0529 41 NALEEKL-FAKGYHVYLLDGDNVRHGLNRDLGFSREDRIENIRRVAEVAKLLADAGLIVIVAFISPYREDR---QMAREL 116 (197)
T ss_pred HHHHHHH-HHcCCeEEEecChhHhhcccCCCCCChHHHHHHHHHHHHHHHHHHHCCeEEEEEeeCccHHHH---HHHHHH
Confidence 4678899 999999999988761 1 1223344445555555678886433 355555
Q ss_pred cCCCceEEEe
Q 017242 145 VSDSVTIHEV 154 (375)
Q Consensus 145 l~~~i~~~~~ 154 (375)
++.| +|.++
T Consensus 117 ~~~~-~FiEV 125 (197)
T COG0529 117 LGEG-EFIEV 125 (197)
T ss_pred hCcC-ceEEE
Confidence 6434 44443
No 40
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=48.55 E-value=71 Score=34.22 Aligned_cols=48 Identities=13% Similarity=0.239 Sum_probs=42.4
Q ss_pred HhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCCcch
Q 017242 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (375)
Q Consensus 84 esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~~ 132 (375)
+...+.=++| ++.|++..++.||....-..++++.|++.++.+..|..
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 5566666788 99999999999999999999999999999999888863
No 41
>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=48.08 E-value=1.7e+02 Score=25.18 Aligned_cols=81 Identities=16% Similarity=0.097 Sum_probs=57.3
Q ss_pred HHHHHHHHHHhhCCCCEEEEEEc--CCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEc--CC---cc---chHHH
Q 017242 45 WALIHAVDQANKNNVPVAVAFNL--FDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--GE---AE---DNIPN 114 (375)
Q Consensus 45 ~aL~~A~~~a~~~~~~vl~vfi~--dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~--g~---~~---~~l~~ 114 (375)
.-+..+++.|+..|.+.+.+... ...........+..+.++|+.|.+.+ ++.|+.+.+-. +. .. +.+.+
T Consensus 71 ~~~~~~i~~a~~lg~~~i~~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~a-~~~gv~i~lE~~~~~~~~~~~~~~~~~~ 149 (213)
T PF01261_consen 71 EYLKKAIDLAKRLGAKYIVVHSGRYPSGPEDDTEENWERLAENLRELAEIA-EEYGVRIALENHPGPFSETPFSVEEIYR 149 (213)
T ss_dssp HHHHHHHHHHHHHTBSEEEEECTTESSSTTSSHHHHHHHHHHHHHHHHHHH-HHHTSEEEEE-SSSSSSSEESSHHHHHH
T ss_pred HHHHHHHHHHHHhCCCceeecCcccccccCCCHHHHHHHHHHHHHHHHhhh-hhhcceEEEecccCccccchhhHHHHHH
Confidence 35566777788888888777755 22222344577888999999999999 99999987753 11 22 67888
Q ss_pred HHHHhCCCEEEE
Q 017242 115 FVRECGASLLVT 126 (375)
Q Consensus 115 l~~~~~~~~V~~ 126 (375)
++++.+-..|..
T Consensus 150 ~l~~~~~~~~~i 161 (213)
T PF01261_consen 150 LLEEVDSPNVGI 161 (213)
T ss_dssp HHHHHTTTTEEE
T ss_pred HHhhcCCCcceE
Confidence 999888755543
No 42
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=47.23 E-value=1.3e+02 Score=27.76 Aligned_cols=73 Identities=14% Similarity=0.071 Sum_probs=48.5
Q ss_pred HHHHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcCC--------ccchHHHHHHHh
Q 017242 48 IHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGE--------AEDNIPNFVREC 119 (375)
Q Consensus 48 ~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g~--------~~~~l~~l~~~~ 119 (375)
..+++.|...|.+.+.+....+.........+.++.++|+.|.+.. ++.|+.|.+-... ..+.+.++++..
T Consensus 93 ~~~i~~a~~lGa~~i~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~a-~~~gv~l~iE~~~~~~~~~~~t~~~~~~l~~~~ 171 (275)
T PRK09856 93 KLAMDMAKEMNAGYTLISAAHAGYLTPPNVIWGRLAENLSELCEYA-ENIGMDLILEPLTPYESNVVCNANDVLHALALV 171 (275)
T ss_pred HHHHHHHHHhCCCEEEEcCCCCCCCCCHHHHHHHHHHHHHHHHHHH-HHcCCEEEEecCCCCcccccCCHHHHHHHHHHc
Confidence 3445666778888776654433333344566788999999999999 9999998876422 134455666665
Q ss_pred CC
Q 017242 120 GA 121 (375)
Q Consensus 120 ~~ 121 (375)
+-
T Consensus 172 ~~ 173 (275)
T PRK09856 172 PS 173 (275)
T ss_pred CC
Confidence 43
No 43
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=45.72 E-value=61 Score=33.58 Aligned_cols=49 Identities=12% Similarity=0.162 Sum_probs=43.5
Q ss_pred HHHhHHHHHHHHHHhcCC-cEEEEcCCccchHHHHHHHhCCCEEEEcCCcc
Q 017242 82 MLRGLRLLQRNIEETFQI-LFFLFQGEAEDNIPNFVRECGASLLVTDFSPL 131 (375)
Q Consensus 82 l~esL~~L~~~L~~~~g~-~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~ 131 (375)
+.++..++=++| ++.|+ ++.+..|++......++++.++..++.+..|.
T Consensus 363 l~~~~~e~i~~L-~~~Gi~~v~vvTgd~~~~a~~i~~~lgi~~~f~~~~p~ 412 (536)
T TIGR01512 363 PRPDAAEAIAEL-KALGIEKVVMLTGDRRAVAERVARELGIDEVHAELLPE 412 (536)
T ss_pred chHHHHHHHHHH-HHcCCCcEEEEcCCCHHHHHHHHHHcCChhhhhccCcH
Confidence 567888888999 99999 99999999999999999999999988766664
No 44
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=44.32 E-value=90 Score=33.42 Aligned_cols=48 Identities=21% Similarity=0.318 Sum_probs=42.2
Q ss_pred HhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCCcch
Q 017242 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (375)
Q Consensus 84 esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~~ 132 (375)
+...+.=++| ++.|++..++.||....-..++++.|++.++.+..|..
T Consensus 444 ~~a~e~I~~L-r~~GI~vvMiTGDn~~TA~aIA~elGI~~v~A~~~Ped 491 (673)
T PRK14010 444 DGLVERFREL-REMGIETVMCTGDNELTAATIAKEAGVDRFVAECKPED 491 (673)
T ss_pred HHHHHHHHHH-HHCCCeEEEECCCCHHHHHHHHHHcCCceEEcCCCHHH
Confidence 5566666788 99999999999999999999999999999999888863
No 45
>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=42.86 E-value=93 Score=32.36 Aligned_cols=49 Identities=10% Similarity=0.165 Sum_probs=43.4
Q ss_pred HHHhHHHHHHHHHHhcC-CcEEEEcCCccchHHHHHHHhCCCEEEEcCCcc
Q 017242 82 MLRGLRLLQRNIEETFQ-ILFFLFQGEAEDNIPNFVRECGASLLVTDFSPL 131 (375)
Q Consensus 82 l~esL~~L~~~L~~~~g-~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~ 131 (375)
+..+..++=+.| ++.| +++.+..|++......++++.+++.+|....|.
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 667888888899 9999 999999999999999999999999998865553
No 46
>PF10008 DUF2251: Uncharacterized protein conserved in bacteria (DUF2251); InterPro: IPR014449 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=42.36 E-value=3.1 Score=32.47 Aligned_cols=12 Identities=17% Similarity=0.351 Sum_probs=9.7
Q ss_pred CchhhhHhhhhh
Q 017242 362 ADPVSIYLWMFI 373 (375)
Q Consensus 362 G~PiVDA~~~~~ 373 (375)
+-||+||+..|-
T Consensus 34 ~~~I~DAL~IYN 45 (97)
T PF10008_consen 34 EQPIVDALHIYN 45 (97)
T ss_pred CCceeeEEEEEe
Confidence 469999998774
No 47
>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=42.08 E-value=47 Score=28.94 Aligned_cols=44 Identities=14% Similarity=0.012 Sum_probs=33.9
Q ss_pred HHHhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEE
Q 017242 82 MLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVT 126 (375)
Q Consensus 82 l~esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~ 126 (375)
+..++.++-+.+ ++.|.++.++.+.+...+..+++..+++.++.
T Consensus 88 ~~~~~~~~l~~l-~~~g~~v~ivS~s~~~~v~~~~~~lg~~~~~~ 131 (202)
T TIGR01490 88 LYPEARDLIRWH-KAEGHTIVLVSASLTILVKPLARILGIDNAIG 131 (202)
T ss_pred ccHHHHHHHHHH-HHCCCEEEEEeCCcHHHHHHHHHHcCCcceEe
Confidence 455666777777 88888888888888778888888888877764
No 48
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=42.00 E-value=67 Score=26.93 Aligned_cols=44 Identities=18% Similarity=0.282 Sum_probs=28.2
Q ss_pred cchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc-CCCceEEEe
Q 017242 109 EDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEV 154 (375)
Q Consensus 109 ~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l-~~~i~~~~~ 154 (375)
.+.+.+++++.+++.|+...... +.+..+++.+.| +.||+++.+
T Consensus 130 ~~~l~~~~~~~~id~v~ial~~~--~~~~i~~ii~~~~~~~v~v~~v 174 (175)
T PF13727_consen 130 LDDLPELVREHDIDEVIIALPWS--EEEQIKRIIEELENHGVRVRVV 174 (175)
T ss_dssp GGGHHHHHHHHT--EEEE--TTS---HHHHHHHHHHHHTTT-EEEE-
T ss_pred HHHHHHHHHhCCCCEEEEEcCcc--CHHHHHHHHHHHHhCCCEEEEe
Confidence 47788999999999999864333 235566777777 789988765
No 49
>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=41.59 E-value=97 Score=23.87 Aligned_cols=66 Identities=15% Similarity=0.256 Sum_probs=41.5
Q ss_pred HHHHHHHHHHhcCCcEEEE--c-CCccch--HHHHHHHhCCCEEEE--cCCcchHHHHHHHHHHHHc-CCCceEEEecCC
Q 017242 86 LRLLQRNIEETFQILFFLF--Q-GEAEDN--IPNFVRECGASLLVT--DFSPLREIRRCKDKICNRV-SDSVTIHEVDAH 157 (375)
Q Consensus 86 L~~L~~~L~~~~g~~L~v~--~-g~~~~~--l~~l~~~~~~~~V~~--~~~p~~~~~~rd~~v~~~l-~~~i~~~~~~~~ 157 (375)
...+++.+ ++.|..+.+. . |..... |+..++ +++.|++ ++--. .--..+++.+ +.++++....+.
T Consensus 12 ~~~~~~~~-~~~G~~~~~hg~~~~~~~~~~~l~~~i~--~aD~VIv~t~~vsH----~~~~~vk~~akk~~ip~~~~~~~ 84 (97)
T PF10087_consen 12 ERRYKRIL-EKYGGKLIHHGRDGGDEKKASRLPSKIK--KADLVIVFTDYVSH----NAMWKVKKAAKKYGIPIIYSRSR 84 (97)
T ss_pred HHHHHHHH-HHcCCEEEEEecCCCCccchhHHHHhcC--CCCEEEEEeCCcCh----HHHHHHHHHHHHcCCcEEEECCC
Confidence 56778888 9999999988 3 333333 666666 5666664 54322 1223555556 568999887754
Q ss_pred e
Q 017242 158 N 158 (375)
Q Consensus 158 ~ 158 (375)
.
T Consensus 85 ~ 85 (97)
T PF10087_consen 85 G 85 (97)
T ss_pred C
Confidence 3
No 50
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=41.54 E-value=59 Score=32.56 Aligned_cols=65 Identities=18% Similarity=0.203 Sum_probs=47.0
Q ss_pred HHHHHHHHHHhcCCcEEEEc--CCccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc-CCCceEEEec
Q 017242 86 LRLLQRNIEETFQILFFLFQ--GEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVD 155 (375)
Q Consensus 86 L~~L~~~L~~~~g~~L~v~~--g~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l-~~~i~~~~~~ 155 (375)
|..+.+++ .++|+..|+.. .+..+.+.+++.+.+++.|+...+=..+| -.+.+.| +.|+++.+.|
T Consensus 67 l~~~~~~v-~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKSmvseE----Igln~~Le~~G~ev~ETD 134 (459)
T COG1139 67 LEQLEENV-TRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKSMVSEE----IGLNHYLEEKGIEVWETD 134 (459)
T ss_pred HHHHHHHH-HHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecchhHHH----hhhHHHHHHcCCeEEEcc
Confidence 45677888 88999999986 33457788999999999999754433222 3455666 6688887764
No 51
>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=39.59 E-value=34 Score=29.02 Aligned_cols=42 Identities=14% Similarity=0.088 Sum_probs=30.1
Q ss_pred HhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEE
Q 017242 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVT 126 (375)
Q Consensus 84 esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~ 126 (375)
.++.++-+.| ++.|+++.|+.+.....+..+++.+++..++.
T Consensus 76 ~g~~~~l~~l-~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~~ 117 (177)
T TIGR01488 76 PGARELISWL-KERGIDTVIVSGGFDFFVEPVAEKLGIDDVFA 117 (177)
T ss_pred cCHHHHHHHH-HHCCCEEEEECCCcHHHHHHHHHHcCCchhee
Confidence 4566677777 77788887777777777777777777766554
No 52
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=38.76 E-value=85 Score=34.45 Aligned_cols=44 Identities=11% Similarity=0.304 Sum_probs=38.8
Q ss_pred HHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCCcch
Q 017242 88 LLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLR 132 (375)
Q Consensus 88 ~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~~ 132 (375)
..-..| +++|++.+++.||....-...+++.|++.||++--|..
T Consensus 730 ~av~~L-k~~Gi~v~mLTGDn~~aA~svA~~VGi~~V~aev~P~~ 773 (951)
T KOG0207|consen 730 LAVAEL-KSMGIKVVMLTGDNDAAARSVAQQVGIDNVYAEVLPEQ 773 (951)
T ss_pred HHHHHH-HhcCceEEEEcCCCHHHHHHHHHhhCcceEEeccCchh
Confidence 344567 88999999999999999999999999999999988863
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=38.34 E-value=15 Score=31.51 Aligned_cols=107 Identities=14% Similarity=0.139 Sum_probs=56.2
Q ss_pred HHHHHHHHhhCCCCEEEEEEcCCCCcC-cchhHHHHHHHhHHHHHHHHHHhcCCcEEEEc--------CCccchHHHHHH
Q 017242 47 LIHAVDQANKNNVPVAVAFNLFDQFLG-AKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--------GEAEDNIPNFVR 117 (375)
Q Consensus 47 L~~A~~~a~~~~~~vl~vfi~dp~~~~-~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~--------g~~~~~l~~l~~ 117 (375)
+..|++.|.+.+.+ ..|+.|+|.-.. ..+....+.+-++.+=.+.| +++|+..++.. -++.+-+..++.
T Consensus 25 i~~~~~~a~~~~~~-~~v~tF~~~P~~~~~~~~~~~~l~s~~ek~~~l-~~~Gvd~~~~~~F~~~~~~ls~~~Fi~~iL~ 102 (157)
T PF06574_consen 25 IKKAVEIAKEKGLK-SVVLTFDPHPKEVLNPDKPPKLLTSLEEKLELL-ESLGVDYVIVIPFTEEFANLSPEDFIEKILK 102 (157)
T ss_dssp HHHHHHHHHHCT-E-EEEEEESS-CHHHHSCTCCGGBSS-HHHHHHHH-HHTTESEEEEE-CCCHHCCS-HHHHHHHHCC
T ss_pred HHHHhhhhhhcccc-eEEEEcccCHHHHhcCCCcccCCCCHHHHHHHH-HHcCCCEEEEecchHHHHcCCHHHHHHHHHH
Confidence 34566666666543 346677764211 11122223456777777788 99999865542 223445556555
Q ss_pred -HhCCCEEEE--cCCcchHHHH-HHHHHHHHc-CCCceEEEecC
Q 017242 118 -ECGASLLVT--DFSPLREIRR-CKDKICNRV-SDSVTIHEVDA 156 (375)
Q Consensus 118 -~~~~~~V~~--~~~p~~~~~~-rd~~v~~~l-~~~i~~~~~~~ 156 (375)
..++..|++ |+..... +. -.+.+++.+ +.|+.+..++.
T Consensus 103 ~~l~~~~ivvG~DfrFG~~-~~G~~~~L~~~~~~~g~~v~~v~~ 145 (157)
T PF06574_consen 103 EKLNVKHIVVGEDFRFGKN-RSGDVELLKELGKEYGFEVEVVPP 145 (157)
T ss_dssp CHCTEEEEEEETT-EESGG-GEEEHHHHHHCTTTT-SEEEEE--
T ss_pred hcCCccEEEEccCccCCCC-CCCCHHHHHHhcccCceEEEEECC
Confidence 789999998 4332211 11 123555555 56888887764
No 54
>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=35.62 E-value=56 Score=28.24 Aligned_cols=40 Identities=8% Similarity=-0.053 Sum_probs=20.9
Q ss_pred hHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEE
Q 017242 85 GLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLV 125 (375)
Q Consensus 85 sL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~ 125 (375)
++.++=+.| ++.|+++.++.+.....+..+++..++..++
T Consensus 84 g~~e~l~~l-~~~g~~~~IvS~~~~~~~~~~l~~~g~~~~~ 123 (201)
T TIGR01491 84 YAEELVRWL-KEKGLKTAIVSGGIMCLAKKVAEKLNPDYVY 123 (201)
T ss_pred cHHHHHHHH-HHCCCEEEEEeCCcHHHHHHHHHHhCCCeEE
Confidence 444455555 5555555555555555555555555554443
No 55
>PRK10671 copA copper exporting ATPase; Provisional
Probab=34.08 E-value=1.6e+02 Score=32.31 Aligned_cols=45 Identities=9% Similarity=0.175 Sum_probs=38.4
Q ss_pred HHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCCcc
Q 017242 86 LRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPL 131 (375)
Q Consensus 86 L~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~ 131 (375)
..+.-+.| ++.|+++.++.|+.......++++.+++.++.+..|.
T Consensus 655 a~~~i~~L-~~~gi~v~~~Tgd~~~~a~~ia~~lgi~~~~~~~~p~ 699 (834)
T PRK10671 655 SVAALQRL-HKAGYRLVMLTGDNPTTANAIAKEAGIDEVIAGVLPD 699 (834)
T ss_pred HHHHHHHH-HHCCCeEEEEcCCCHHHHHHHHHHcCCCEEEeCCCHH
Confidence 44455778 8899999999999999999999999999999876665
No 56
>KOG1615 consensus Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=34.03 E-value=50 Score=29.52 Aligned_cols=35 Identities=17% Similarity=0.250 Sum_probs=14.2
Q ss_pred HHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCC
Q 017242 86 LRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGA 121 (375)
Q Consensus 86 L~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~ 121 (375)
+++|-+.| .++|..++++.|-....+.-++.+.++
T Consensus 93 i~eLv~~L-~~~~~~v~liSGGF~~~i~~Va~~Lgi 127 (227)
T KOG1615|consen 93 IRELVSRL-HARGTQVYLISGGFRQLIEPVAEQLGI 127 (227)
T ss_pred HHHHHHHH-HHcCCeEEEEcCChHHHHHHHHHHhCC
Confidence 33344444 444444444444443333333333333
No 57
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=34.00 E-value=43 Score=30.14 Aligned_cols=43 Identities=12% Similarity=0.146 Sum_probs=35.8
Q ss_pred HhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEc
Q 017242 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTD 127 (375)
Q Consensus 84 esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 127 (375)
.+..+|-+.| ++.|....++.|.+......+++..+++.++.+
T Consensus 80 ~ga~elv~~l-k~~G~~v~iiSgg~~~lv~~ia~~lg~d~~~an 122 (212)
T COG0560 80 PGAEELVAAL-KAAGAKVVIISGGFTFLVEPIAERLGIDYVVAN 122 (212)
T ss_pred ccHHHHHHHH-HHCCCEEEEEcCChHHHHHHHHHHhCCchheee
Confidence 3477888888 999999999999998888888888888877764
No 58
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=33.22 E-value=1.8e+02 Score=25.37 Aligned_cols=53 Identities=9% Similarity=0.190 Sum_probs=42.3
Q ss_pred HHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHH
Q 017242 89 LQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNR 144 (375)
Q Consensus 89 L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~ 144 (375)
.-.++ ++.|+.++|+..+....+..+++..++.-|+...-|.. +..++++++.
T Consensus 54 W~~e~-k~~gi~v~vvSNn~e~RV~~~~~~l~v~fi~~A~KP~~--~~fr~Al~~m 106 (175)
T COG2179 54 WLAEL-KEAGIKVVVVSNNKESRVARAAEKLGVPFIYRAKKPFG--RAFRRALKEM 106 (175)
T ss_pred HHHHH-HhcCCEEEEEeCCCHHHHHhhhhhcCCceeecccCccH--HHHHHHHHHc
Confidence 33567 88999999999988899999999999999998877874 3555566553
No 59
>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=31.58 E-value=3.9e+02 Score=24.13 Aligned_cols=79 Identities=9% Similarity=0.070 Sum_probs=49.6
Q ss_pred HHHHHHHHHhhCCCCEEEEEEc-CCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcC----------CccchHHH
Q 017242 46 ALIHAVDQANKNNVPVAVAFNL-FDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG----------EAEDNIPN 114 (375)
Q Consensus 46 aL~~A~~~a~~~~~~vl~vfi~-dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g----------~~~~~l~~ 114 (375)
.+..+++.|...|.+.|.+... .|.. .....-...+.++|+++.+-. ++.|+.+.+-.. +..+.+.+
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 4556677777778787654332 2211 112333455679999999988 999999887531 23455667
Q ss_pred HHHHhCCCEEEE
Q 017242 115 FVRECGASLLVT 126 (375)
Q Consensus 115 l~~~~~~~~V~~ 126 (375)
++++.+-..|-.
T Consensus 163 li~~v~~~~~~i 174 (254)
T TIGR03234 163 VIDDVGRENLKL 174 (254)
T ss_pred HHHHhCCCCEeE
Confidence 788776555544
No 60
>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=31.42 E-value=71 Score=30.15 Aligned_cols=36 Identities=17% Similarity=0.409 Sum_probs=20.2
Q ss_pred hHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCC
Q 017242 85 GLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGA 121 (375)
Q Consensus 85 sL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~ 121 (375)
+..+|=+.| ++.|+++.|+.|.....+..+++..++
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 445555556 566666666655555555555555443
No 61
>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=31.10 E-value=2.5e+02 Score=21.78 Aligned_cols=45 Identities=18% Similarity=0.278 Sum_probs=36.7
Q ss_pred HHHhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCC-EEEEc
Q 017242 82 MLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGAS-LLVTD 127 (375)
Q Consensus 82 l~esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~-~V~~~ 127 (375)
.+..|+++.+++ ++.|+.++.+.-++.+.+.+++++++.. .+++|
T Consensus 44 ~l~~l~~~~~~~-~~~~~~vi~is~d~~~~~~~~~~~~~~~~~~~~D 89 (124)
T PF00578_consen 44 ELPELNELYKKY-KDKGVQVIGISTDDPEEIKQFLEEYGLPFPVLSD 89 (124)
T ss_dssp HHHHHHHHHHHH-HTTTEEEEEEESSSHHHHHHHHHHHTCSSEEEEE
T ss_pred chhHHHHHhhhh-ccceEEeeecccccccchhhhhhhhccccccccC
Confidence 346689999999 9999999998888888899999998865 44455
No 62
>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=30.94 E-value=61 Score=28.69 Aligned_cols=40 Identities=10% Similarity=0.058 Sum_probs=19.7
Q ss_pred hHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEE
Q 017242 85 GLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLV 125 (375)
Q Consensus 85 sL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~ 125 (375)
++.++=+.| ++.|.++.++.+.....+..+++..++..++
T Consensus 89 g~~~~l~~l-~~~g~~~~IvS~~~~~~~~~~l~~~~i~~~~ 128 (219)
T TIGR00338 89 GAEELVKTL-KEKGYKVAVISGGFDLFAEHVKDKLGLDAAF 128 (219)
T ss_pred CHHHHHHHH-HHCCCEEEEECCCcHHHHHHHHHHcCCCceE
Confidence 444444555 5555555555554444444445444544433
No 63
>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=30.87 E-value=1.5e+02 Score=28.87 Aligned_cols=14 Identities=14% Similarity=0.363 Sum_probs=11.2
Q ss_pred CCcHHHHHHHHccchhHH
Q 017242 231 ESGEDAAMEVLKGSKDGF 248 (375)
Q Consensus 231 ~gGe~~A~~~L~~~~~~F 248 (375)
-.|...|.+.+ +.|
T Consensus 243 GIG~ktA~kli----~~~ 256 (338)
T TIGR03674 243 GIGPKTALKLI----KEH 256 (338)
T ss_pred CccHHHHHHHH----HHc
Confidence 35899999999 665
No 64
>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=30.05 E-value=2.1e+02 Score=24.08 Aligned_cols=64 Identities=14% Similarity=0.185 Sum_probs=40.6
Q ss_pred HhcCCcEEEEcCCccchHHHHHHHh--CCCEEEEc---CCcchHHHHHHHHHHHHc-CCCceEEEecCCeeeeccc
Q 017242 95 ETFQILFFLFQGEAEDNIPNFVREC--GASLLVTD---FSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWV 164 (375)
Q Consensus 95 ~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~V~~~---~~p~~~~~~rd~~v~~~l-~~~i~~~~~~~~~l~~~~~ 164 (375)
+++|+.+.++..+.+-.|-+.+++. +++.|+.| |+-.. -.+...+ .-++++.+++-..++..+.
T Consensus 38 ~~~g~~v~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtS------iAl~DAl~~~~~P~vEVHiSNi~aRE~ 107 (141)
T TIGR01088 38 AQLNVELEFFQSNSEGQLIDKIHEAEGQYDGIIINPGALTHTS------VALRDALAAVSLPVVEVHLSNVHAREE 107 (141)
T ss_pred HHcCCEEEEEeeCcHHHHHHHHHhccccCCEEEEcChHHhhhH------HHHHHHHHcCCCCEEEEEcCCcccccc
Confidence 4458999999888876666665554 45677765 22221 1333444 4579999998776665543
No 65
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=29.69 E-value=1e+02 Score=24.27 Aligned_cols=41 Identities=15% Similarity=0.157 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHh--CCCEEEEcC
Q 017242 86 LRLLQRNIEETFQILFFLFQGEAEDNIPNFVREC--GASLLVTDF 128 (375)
Q Consensus 86 L~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~V~~~~ 128 (375)
|.....+| ++.|++|+++--...+.+.++++.. ... ||+|.
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 9999999887544443488888654 444 77763
No 66
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=29.22 E-value=2.6e+02 Score=23.73 Aligned_cols=64 Identities=16% Similarity=0.201 Sum_probs=39.7
Q ss_pred HhcCCcEEEEcCCccchHHHHHHHh--CCCEEEEc---CCcchHHHHHHHHHHHHc-CCCceEEEecCCeeeeccc
Q 017242 95 ETFQILFFLFQGEAEDNIPNFVREC--GASLLVTD---FSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWV 164 (375)
Q Consensus 95 ~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~V~~~---~~p~~~~~~rd~~v~~~l-~~~i~~~~~~~~~l~~~~~ 164 (375)
+++|+.+.++..+.+-.|-+.+++. +++.|+.| |+-.. -.+...+ .-++++.+++-..++..+.
T Consensus 40 ~~~g~~~~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtS------iAl~DAl~~~~~P~VEVHiSNi~aRE~ 109 (146)
T PRK13015 40 EALGLEVEFRQSNHEGELIDWIHEARGDVAGIVINPGAYTHTS------VAIRDALAALELPVIEVHISNVHAREA 109 (146)
T ss_pred HHcCCEEEEEeeCcHHHHHHHHHHhhhcCCEEEEcchHHhhhH------HHHHHHHHcCCCCEEEEEcCCcccccc
Confidence 4458999999888776665555443 46777765 22221 1333334 4579999998666655433
No 67
>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=29.22 E-value=2e+02 Score=30.03 Aligned_cols=48 Identities=10% Similarity=0.180 Sum_probs=38.5
Q ss_pred HHHhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCCcc
Q 017242 82 MLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPL 131 (375)
Q Consensus 82 l~esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~ 131 (375)
+..+..++=++| ++.|+++.+..|+.......+++..+++ ++.+..|.
T Consensus 406 l~~~a~e~i~~L-k~~Gi~v~ilSgd~~~~a~~ia~~lgi~-~~~~~~p~ 453 (562)
T TIGR01511 406 LRPEAKEVIQAL-KRRGIEPVMLTGDNRKTAKAVAKELGIN-VRAEVLPD 453 (562)
T ss_pred ccHHHHHHHHHH-HHcCCeEEEEcCCCHHHHHHHHHHcCCc-EEccCChH
Confidence 345666777778 8899999999999999999999999997 55555553
No 68
>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=28.57 E-value=2.3e+02 Score=22.87 Aligned_cols=59 Identities=17% Similarity=0.153 Sum_probs=38.4
Q ss_pred CCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCC
Q 017242 58 NVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGAS 122 (375)
Q Consensus 58 ~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 122 (375)
+.+++.+|+.... +..-+ . -+..|.++.+++ ++.|+.++.+.-+..+...+++++.+..
T Consensus 23 ~~~~vl~f~~~~~---Cp~C~-~-~~~~l~~~~~~~-~~~~v~vv~V~~~~~~~~~~~~~~~~~~ 81 (149)
T cd02970 23 EGPVVVVFYRGFG---CPFCR-E-YLRALSKLLPEL-DALGVELVAVGPESPEKLEAFDKGKFLP 81 (149)
T ss_pred CCCEEEEEECCCC---ChhHH-H-HHHHHHHHHHHH-HhcCeEEEEEeCCCHHHHHHHHHhcCCC
Confidence 4577777764432 11111 1 246788999999 8899998887766555566677776665
No 69
>PRK15122 magnesium-transporting ATPase; Provisional
Probab=27.96 E-value=1.8e+02 Score=32.33 Aligned_cols=38 Identities=11% Similarity=0.108 Sum_probs=34.1
Q ss_pred HhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCC
Q 017242 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGAS 122 (375)
Q Consensus 84 esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 122 (375)
+...+.=++| ++.|+++.++.||....-..++++.|+.
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 5667777888 9999999999999999999999999997
No 70
>PRK10517 magnesium-transporting ATPase MgtA; Provisional
Probab=27.78 E-value=2e+02 Score=32.06 Aligned_cols=39 Identities=10% Similarity=0.131 Sum_probs=34.5
Q ss_pred HHhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCC
Q 017242 83 LRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGAS 122 (375)
Q Consensus 83 ~esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 122 (375)
.+...+.=++| ++.|++..++.||....-..++++.|+.
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 45666777888 9999999999999999999999999997
No 71
>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=27.35 E-value=2.7e+02 Score=25.35 Aligned_cols=72 Identities=11% Similarity=0.078 Sum_probs=42.3
Q ss_pred HHHHHhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHcCCCceEEEecCC
Q 017242 80 GFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAH 157 (375)
Q Consensus 80 ~Fl~esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l~~~i~~~~~~~~ 157 (375)
-|..+-+..+.+.+ ++.|..+.+...+......+.+...+++.|+....+.. +..+.+....|+++..++..
T Consensus 17 ~~~~~~~~gi~~~a-~~~g~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-----~~~~~~~~~~~ipvV~~~~~ 88 (283)
T cd06279 17 PVASQFLAGVAEVL-DAAGVNLLLLPASSEDSDSALVVSALVDGFIVYGVPRD-----DPLVAALLRRGLPVVVVDQP 88 (283)
T ss_pred ccHHHHHHHHHHHH-HHCCCEEEEecCccHHHHHHHHHhcCCCEEEEeCCCCC-----hHHHHHHHHcCCCEEEEecC
Confidence 36666777778888 88898888876543223333445568888776322111 11222222457888888653
No 72
>PRK13210 putative L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=27.15 E-value=4.8e+02 Score=23.88 Aligned_cols=77 Identities=9% Similarity=0.037 Sum_probs=47.5
Q ss_pred HHHHHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcC--C---ccchHHHHHHHhCC
Q 017242 47 LIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG--E---AEDNIPNFVRECGA 121 (375)
Q Consensus 47 L~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g--~---~~~~l~~l~~~~~~ 121 (375)
+..+++.|...|.+.+.+.-.+..........+..+.++|+.+.+-. ++.|+.|.+-.- . ..+.+..|++..+-
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 46666777778888876532221111223455677889999999999 999999877431 1 12335556666544
Q ss_pred CEE
Q 017242 122 SLL 124 (375)
Q Consensus 122 ~~V 124 (375)
..|
T Consensus 175 ~~~ 177 (284)
T PRK13210 175 PWL 177 (284)
T ss_pred Cce
Confidence 444
No 73
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=27.13 E-value=2.1e+02 Score=26.40 Aligned_cols=61 Identities=8% Similarity=0.092 Sum_probs=50.0
Q ss_pred EEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHH-hcCCcEEEEcCCccc--hHHHHHHHhCCCEE
Q 017242 63 VAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEE-TFQILFFLFQGEAED--NIPNFVRECGASLL 124 (375)
Q Consensus 63 ~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~-~~g~~L~v~~g~~~~--~l~~l~~~~~~~~V 124 (375)
.+|+.|......|.+-...+.+-+.+.-+.| . +.|..++++-.+.+. .+.++-+..++.-|
T Consensus 26 ~iy~~D~~~~PYG~ks~~~i~~~~~~~~~~L-~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii 89 (251)
T TIGR00067 26 YIYVGDTKRFPYGEKSPEFILEYVLELLTFL-KERHNIKLLVVACNTASALALEDLQRNFDFPVV 89 (251)
T ss_pred EEEEecCCCCCCCCCCHHHHHHHHHHHHHHH-HHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEE
Confidence 4899998877788888889999999999999 8 999999999988765 36777776666544
No 74
>PLN02954 phosphoserine phosphatase
Probab=27.12 E-value=82 Score=27.94 Aligned_cols=39 Identities=15% Similarity=0.180 Sum_probs=25.0
Q ss_pred HHhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCC
Q 017242 83 LRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGAS 122 (375)
Q Consensus 83 ~esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 122 (375)
..++.++-+.| ++.|+++.|+.+.....+..+++..++.
T Consensus 86 ~pg~~e~l~~l-~~~g~~~~IvS~~~~~~i~~~l~~~gi~ 124 (224)
T PLN02954 86 SPGIPELVKKL-RARGTDVYLVSGGFRQMIAPVAAILGIP 124 (224)
T ss_pred CccHHHHHHHH-HHCCCEEEEECCCcHHHHHHHHHHhCCC
Confidence 35556666666 6667777666666666666666666664
No 75
>PRK09997 hydroxypyruvate isomerase; Provisional
Probab=26.52 E-value=4.9e+02 Score=23.64 Aligned_cols=77 Identities=10% Similarity=0.041 Sum_probs=47.4
Q ss_pred HHHHHHHHhhCCCCEEEEEEcC-CCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcC----------CccchHHHH
Q 017242 47 LIHAVDQANKNNVPVAVAFNLF-DQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQG----------EAEDNIPNF 115 (375)
Q Consensus 47 L~~A~~~a~~~~~~vl~vfi~d-p~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g----------~~~~~l~~l 115 (375)
+..+++.|+..|.+.|.++... +.-. .....+..+.++|..+.+.. ++.|+.|.+-.. +..+...++
T Consensus 87 ~~~~i~~a~~lga~~i~~~~g~~~~~~-~~~~~~~~~~~~l~~l~~~a-~~~Gv~l~lE~~n~~~~~~~~~~~~~~~~~l 164 (258)
T PRK09997 87 VAAAIRYARALGNKKINCLVGKTPAGF-SSEQIHATLVENLRYAANML-MKEDILLLIEPINHFDIPGFHLTGTRQALKL 164 (258)
T ss_pred HHHHHHHHHHhCCCEEEECCCCCCCCC-CHHHHHHHHHHHHHHHHHHH-HHcCCEEEEEeCCCcCCCCCccCCHHHHHHH
Confidence 5666777777888876554321 2111 11233566779999999999 999999877531 122344556
Q ss_pred HHHhCCCEEE
Q 017242 116 VRECGASLLV 125 (375)
Q Consensus 116 ~~~~~~~~V~ 125 (375)
++..+-..|-
T Consensus 165 l~~v~~~~v~ 174 (258)
T PRK09997 165 IDDVGCCNLK 174 (258)
T ss_pred HHHhCCCCEE
Confidence 6666544443
No 76
>PF12710 HAD: haloacid dehalogenase-like hydrolase; PDB: 3P96_A 3N28_A 3FVV_A 1RKU_A 1RKV_A 1Y8A_A 2FEA_B 3KD3_B.
Probab=26.46 E-value=1.1e+02 Score=26.12 Aligned_cols=38 Identities=16% Similarity=0.254 Sum_probs=31.2
Q ss_pred HHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCE--EEE
Q 017242 88 LLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASL--LVT 126 (375)
Q Consensus 88 ~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~--V~~ 126 (375)
++=+.+ ++.|++++|+.|.+...+..+++..++.. |++
T Consensus 96 e~i~~~-~~~~~~v~IvS~~~~~~i~~~~~~~~i~~~~v~~ 135 (192)
T PF12710_consen 96 ELIREL-KDNGIKVVIVSGSPDEIIEPIAERLGIDDDNVIG 135 (192)
T ss_dssp HHHHHH-HHTTSEEEEEEEEEHHHHHHHHHHTTSSEGGEEE
T ss_pred HHHHHH-HHCCCEEEEECCCcHHHHHHHHHHcCCCceEEEE
Confidence 666667 78899999999888888888888888887 665
No 77
>PF08444 Gly_acyl_tr_C: Aralkyl acyl-CoA:amino acid N-acyltransferase, C-terminal region; InterPro: IPR013652 This entry represents mammalian-specific glycine N-acyltransferase (also called aralkyl acyl-CoA:amino acid N-acyltransferase; 2.3.1.13 from EC). Mitochondrial acyltransferases catalyse the transfer of an acyl group from acyl-CoA to the N terminus of glycine to produce N-acylglycine. These enzymes can conjugate a multitude of substrates to form a variety of N-acylglycines. The CoA derivatives of a number of aliphatic and aromatic acids, but not phenylacetyl-CoA or (indol-3-yl)acetyl-CoA, can act as donor [, ].
Probab=25.46 E-value=1.1e+02 Score=23.66 Aligned_cols=48 Identities=15% Similarity=0.250 Sum_probs=40.4
Q ss_pred hhHHHHHHHhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEE
Q 017242 76 ARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLL 124 (375)
Q Consensus 76 ~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V 124 (375)
-|+..++..-+..+.+.| .++|++++....+..+...++.+..+...+
T Consensus 31 yR~~G~~~~v~~~~~~~L-~~~g~P~Y~hv~~~N~~~~r~~~~lg~~~~ 78 (89)
T PF08444_consen 31 YRGQGLMSQVMYHLAQYL-HKLGFPFYGHVDEDNEASQRLSKSLGFIFM 78 (89)
T ss_pred HhcCCHHHHHHHHHHHHH-HHCCCCeEeehHhccHHHHHHHHHCCCeec
Confidence 477788888899999999 999999999888888888888887766544
No 78
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=25.12 E-value=2.7e+02 Score=30.87 Aligned_cols=38 Identities=13% Similarity=0.098 Sum_probs=33.9
Q ss_pred HhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCC
Q 017242 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGAS 122 (375)
Q Consensus 84 esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 122 (375)
+...+.=++| ++.|+++.++.||....-..++++.|+.
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 5566777788 9999999999999999999999999997
No 79
>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=25.06 E-value=4e+02 Score=23.84 Aligned_cols=71 Identities=14% Similarity=0.120 Sum_probs=43.0
Q ss_pred HHHHHhHHHHHHHHHHhcCCcEEEEcCCccc-h---HHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHcCCCceEEEec
Q 017242 80 GFMLRGLRLLQRNIEETFQILFFLFQGEAED-N---IPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVD 155 (375)
Q Consensus 80 ~Fl~esL~~L~~~L~~~~g~~L~v~~g~~~~-~---l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l~~~i~~~~~~ 155 (375)
.|..+-+..+++.+ ++.|..+.+...+... . +.+.+...+++.|+....... ..+.+....|+++..++
T Consensus 15 ~~~~~~~~~i~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~------~~~~~l~~~~ipvV~~~ 87 (268)
T cd06277 15 AFYSEIYRAIEEEA-KKYGYNLILKFVSDEDEEEFELPSFLEDGKVDGIILLGGIST------EYIKEIKELGIPFVLVD 87 (268)
T ss_pred CcHHHHHHHHHHHH-HHcCCEEEEEeCCCChHHHHHHHHHHHHCCCCEEEEeCCCCh------HHHHHHhhcCCCEEEEc
Confidence 36667777889999 9999998776543322 1 222334568998887422111 11333225689999887
Q ss_pred CC
Q 017242 156 AH 157 (375)
Q Consensus 156 ~~ 157 (375)
..
T Consensus 88 ~~ 89 (268)
T cd06277 88 HY 89 (268)
T ss_pred cC
Confidence 54
No 80
>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=24.91 E-value=2.2e+02 Score=30.98 Aligned_cols=39 Identities=8% Similarity=0.047 Sum_probs=33.9
Q ss_pred HhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCE
Q 017242 84 RGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASL 123 (375)
Q Consensus 84 esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~ 123 (375)
+...+.=++| ++.|+++.++.||....-..++++.|+..
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 4556667788 99999999999999999999999999964
No 81
>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=24.19 E-value=4.1e+02 Score=24.48 Aligned_cols=71 Identities=20% Similarity=0.281 Sum_probs=42.4
Q ss_pred hHHHHHHHhHHHHHHHHHHhc-----CCcEEEEcCCccchHHHHHHHhCCCEEEE---cCCcchHHHHHHHHHHHHc-CC
Q 017242 77 RQLGFMLRGLRLLQRNIEETF-----QILFFLFQGEAEDNIPNFVRECGASLLVT---DFSPLREIRRCKDKICNRV-SD 147 (375)
Q Consensus 77 ~r~~Fl~esL~~L~~~L~~~~-----g~~L~v~~g~~~~~l~~l~~~~~~~~V~~---~~~p~~~~~~rd~~v~~~l-~~ 147 (375)
.+..=+.+.|.+|.+++ ++. +..+++.+ +.+.-|++.+|+..+.. +.+|. .+...++.+.+ +.
T Consensus 145 ~N~~~~~~~L~~l~~~~-~~~~~~~~~~~~v~~H----~af~Y~~~~ygl~~~~~~~~~~eps---~~~l~~l~~~ik~~ 216 (266)
T cd01018 145 ANLDALLAELDALDSEI-RTILSKLKQRAFMVYH----PAWGYFARDYGLTQIPIEEEGKEPS---PADLKRLIDLAKEK 216 (266)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHhcCCCCeEEEEC----chhHHHHHHcCCEEEecCCCCCCCC---HHHHHHHHHHHHHc
Confidence 33444555666666666 443 22233332 57889999999997654 23443 24455666666 66
Q ss_pred CceEEEec
Q 017242 148 SVTIHEVD 155 (375)
Q Consensus 148 ~i~~~~~~ 155 (375)
+|++..++
T Consensus 217 ~v~~if~e 224 (266)
T cd01018 217 GVRVVFVQ 224 (266)
T ss_pred CCCEEEEc
Confidence 88877765
No 82
>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=23.98 E-value=1.7e+02 Score=29.57 Aligned_cols=68 Identities=16% Similarity=0.076 Sum_probs=46.6
Q ss_pred HHHhHHHHHHHHHHhcCCcEEEEcC--CccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc-CCCceEEEe
Q 017242 82 MLRGLRLLQRNIEETFQILFFLFQG--EAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEV 154 (375)
Q Consensus 82 l~esL~~L~~~L~~~~g~~L~v~~g--~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l-~~~i~~~~~ 154 (375)
+-+=|..+.+++ ++.|...+.... +..+.+.+++++.++..|+..-+....+ -.+.+.| +.|+++..-
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 334456677788 888999988863 3457788999999999998865544222 2444555 567776654
No 83
>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=23.95 E-value=4.1e+02 Score=23.57 Aligned_cols=71 Identities=10% Similarity=0.155 Sum_probs=45.3
Q ss_pred HHHHhHHHHHHHHHHhcCCcEEEE-cCC--cc---chHHHHHHHhCCCEEEEc-CCcchHHHHHHHHHHHHcCCCceEEE
Q 017242 81 FMLRGLRLLQRNIEETFQILFFLF-QGE--AE---DNIPNFVRECGASLLVTD-FSPLREIRRCKDKICNRVSDSVTIHE 153 (375)
Q Consensus 81 Fl~esL~~L~~~L~~~~g~~L~v~-~g~--~~---~~l~~l~~~~~~~~V~~~-~~p~~~~~~rd~~v~~~l~~~i~~~~ 153 (375)
|..+-..-+++.+ +++|..+.+. .+. +. +.+..++ ..+++.|+.. ..+... ...+.+..+.||++..
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 7777888888999 9999999885 422 22 2223333 3379988863 333211 1344443367999999
Q ss_pred ecCC
Q 017242 154 VDAH 157 (375)
Q Consensus 154 ~~~~ 157 (375)
++..
T Consensus 86 ~d~~ 89 (257)
T PF13407_consen 86 VDSD 89 (257)
T ss_dssp ESST
T ss_pred Eecc
Confidence 9877
No 84
>TIGR00542 hxl6Piso_put hexulose-6-phosphate isomerase, putative. This family is conserved at better than 40 % identity among the four known examples from three species: Escherichia coli (SgbU and SgaU), Haemophilus influenzae, and Mycoplasma pneumoniae. The rarity of the family, high level of conservation, and proposed catabolic role suggests lateral transfer may be a part of the evolutionary history of this protein.
Probab=23.89 E-value=5.7e+02 Score=23.48 Aligned_cols=78 Identities=6% Similarity=-0.072 Sum_probs=46.7
Q ss_pred HHHHHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEc--CCc---cchHHHHHHHhCC
Q 017242 47 LIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--GEA---EDNIPNFVRECGA 121 (375)
Q Consensus 47 L~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~--g~~---~~~l~~l~~~~~~ 121 (375)
+..+++.|...|.+++.+.-.+.............+.++|+.+.+-. ++.|+.|.+-. ++. .....++++..+-
T Consensus 96 ~~~~i~~a~~lG~~~v~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~A-~~~Gv~l~lE~~~~~~~~t~~~~~~li~~v~~ 174 (279)
T TIGR00542 96 MEKAIQLARDLGIRTIQLAGYDVYYEEHDEETRRRFREGLKEAVELA-ARAQVTLAVEIMDTPFMSSISKWLKWDHYLNS 174 (279)
T ss_pred HHHHHHHHHHhCCCEEEecCcccccCcCCHHHHHHHHHHHHHHHHHH-HHcCCEEEEeeCCCchhcCHHHHHHHHHHcCC
Confidence 45566667778888775543221111123455677889999999999 99999987753 121 1233455655544
Q ss_pred CEEE
Q 017242 122 SLLV 125 (375)
Q Consensus 122 ~~V~ 125 (375)
..|-
T Consensus 175 ~~v~ 178 (279)
T TIGR00542 175 PWFT 178 (279)
T ss_pred CceE
Confidence 4443
No 85
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=23.87 E-value=2.9e+02 Score=25.72 Aligned_cols=58 Identities=10% Similarity=0.139 Sum_probs=31.0
Q ss_pred HhcCCc---EEEEcCCccchH-HHHHHHhCCCEEEE-cCCcchHHHHHHHHHHHHcCCCceEEEec
Q 017242 95 ETFQIL---FFLFQGEAEDNI-PNFVRECGASLLVT-DFSPLREIRRCKDKICNRVSDSVTIHEVD 155 (375)
Q Consensus 95 ~~~g~~---L~v~~g~~~~~l-~~l~~~~~~~~V~~-~~~p~~~~~~rd~~v~~~l~~~i~~~~~~ 155 (375)
.++|++ ++...|.....+ .+|+++++|+.|++ +..-.. ...+++....+.||++..+.
T Consensus 168 ~~~G~~~~~iia~~gPfs~e~n~al~~~~~i~~lVtK~SG~~G---g~~eKi~AA~~lgi~vivI~ 230 (256)
T TIGR00715 168 LKLGFPSDRIIAMRGPFSEELEKALLREYRIDAVVTKASGEQG---GELEKVKAAEALGINVIRIA 230 (256)
T ss_pred HHcCCChhcEEEEeCCCCHHHHHHHHHHcCCCEEEEcCCCCcc---chHHHHHHHHHcCCcEEEEe
Confidence 455554 566666655444 46777778887777 432210 01123333224477777655
No 86
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=23.34 E-value=4.1e+02 Score=21.59 Aligned_cols=37 Identities=16% Similarity=0.322 Sum_probs=24.3
Q ss_pred hHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCC
Q 017242 85 GLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGAS 122 (375)
Q Consensus 85 sL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 122 (375)
++.++=++| ++.|+++.++.+.+.+.+..+++..++.
T Consensus 81 ~~~~~L~~l-~~~~~~~~i~Sn~~~~~~~~~l~~~~~~ 117 (176)
T PF13419_consen 81 GVRELLERL-KAKGIPLVIVSNGSRERIERVLERLGLD 117 (176)
T ss_dssp THHHHHHHH-HHTTSEEEEEESSEHHHHHHHHHHTTHG
T ss_pred hhhhhhhhc-ccccceeEEeecCCcccccccccccccc
Confidence 455566666 7677777777766666666666666543
No 87
>COG3053 CitC Citrate lyase synthetase [Energy production and conversion]
Probab=23.20 E-value=6.3e+02 Score=24.25 Aligned_cols=89 Identities=8% Similarity=0.010 Sum_probs=56.8
Q ss_pred CCEEEEEEcCCCC-cCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcCCc-------------------cchHHH-HHH
Q 017242 59 VPVAVAFNLFDQF-LGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEA-------------------EDNIPN-FVR 117 (375)
Q Consensus 59 ~~vl~vfi~dp~~-~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g~~-------------------~~~l~~-l~~ 117 (375)
...+-+|+...+- .-.-.-|...+.+|+.+|..-- --.|++.+|-+... ..++.+ ++.
T Consensus 172 cDwlHLFvV~eD~S~f~y~~R~~Lv~~G~~~l~Nvt-~HsgsdYiISrATFP~YFiKeq~vv~~s~t~iDl~iFr~~iA~ 250 (352)
T COG3053 172 CDWLHLFVVKEDSSLFPYEDRLDLVKKGTADLPNVT-VHSGSDYIISRATFPAYFIKEQSVVNDSQTEIDLKIFRKYIAP 250 (352)
T ss_pred CCEEEEEEEecccccCCHHHHHHHHHHhhccCCceE-EecCCCeEEEecccchhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567788875432 2234677889999999987765 55577777754322 233444 677
Q ss_pred HhCCCEEEEcCCcchH-HHHHHHHHHHHc-CCC
Q 017242 118 ECGASLLVTDFSPLRE-IRRCKDKICNRV-SDS 148 (375)
Q Consensus 118 ~~~~~~V~~~~~p~~~-~~~rd~~v~~~l-~~~ 148 (375)
..||++-|.-.||... ...--+.+..+| +.+
T Consensus 251 aLgIThRfVG~EP~c~vT~~YNq~M~~~L~~~~ 283 (352)
T COG3053 251 ALGITHRFVGTEPFCRVTAIYNQQMRYWLEDPT 283 (352)
T ss_pred HhCcceeeecCCCCcHHHHHHHHHHHHHHhccC
Confidence 7899999987777532 222345677777 434
No 88
>PF06415 iPGM_N: BPG-independent PGAM N-terminus (iPGM_N); InterPro: IPR011258 This family represents the N-terminal region of the 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (or phosphoglyceromutase or BPG-independent PGAM) protein (5.4.2.1 from EC). The family is found in conjunction with Metalloenzyme (located in the C-terminal region of the protein). ; GO: 0004619 phosphoglycerate mutase activity, 0030145 manganese ion binding, 0006007 glucose catabolic process, 0005737 cytoplasm; PDB: 1EQJ_A 1EJJ_A 1O99_A 1O98_A 3IGZ_B 3IGY_B 3NVL_A 2IFY_A.
Probab=23.08 E-value=2.2e+02 Score=26.04 Aligned_cols=73 Identities=10% Similarity=0.060 Sum_probs=0.0
Q ss_pred HhHHHHHHHHHHhcCCcEEEE----------cCCccchHHHHHHHhCCCEEEE-------cCCcchHHHHHHHHHHHHc-
Q 017242 84 RGLRLLQRNIEETFQILFFLF----------QGEAEDNIPNFVRECGASLLVT-------DFSPLREIRRCKDKICNRV- 145 (375)
Q Consensus 84 esL~~L~~~L~~~~g~~L~v~----------~g~~~~~l~~l~~~~~~~~V~~-------~~~p~~~~~~rd~~v~~~l- 145 (375)
+.|.++-+.+ ++.|..||+. +-+....|.+++++.|+..|+. |-.|.. ...-.+++.+.|
T Consensus 14 ~~l~~~~~~~-k~~~~~lHl~GLlSdGGVHSh~~Hl~al~~~a~~~gv~~V~vH~f~DGRDt~P~S-~~~yl~~l~~~l~ 91 (223)
T PF06415_consen 14 PVLLEAIEHA-KKNGGRLHLMGLLSDGGVHSHIDHLFALIKLAKKQGVKKVYVHAFTDGRDTPPKS-ALKYLEELEEKLA 91 (223)
T ss_dssp HHHHHHHHHH-CCTT--EEEEEEESS-SSS--HHHHHHHHHHHHHTT-SEEEEEEEE-SSSS-TTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHH-HhcCCeEEEEEEecCCCccccHHHHHHHHHHHHHcCCCEEEEEEecCCCCCCcch-HHHHHHHHHHHHH
Q ss_pred CCCc-eEEEecCCe
Q 017242 146 SDSV-TIHEVDAHN 158 (375)
Q Consensus 146 ~~~i-~~~~~~~~~ 158 (375)
+.|+ ++-++-|..
T Consensus 92 ~~~~g~IAsv~GRy 105 (223)
T PF06415_consen 92 EIGIGRIASVSGRY 105 (223)
T ss_dssp HHTCTEEEEEEECC
T ss_pred hhCCceEEEEecee
No 89
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=23.01 E-value=4.8e+02 Score=22.30 Aligned_cols=75 Identities=16% Similarity=0.159 Sum_probs=41.5
Q ss_pred CCHHHHHHHHHH-hhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcCCcc------------
Q 017242 43 DNWALIHAVDQA-NKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAE------------ 109 (375)
Q Consensus 43 DN~aL~~A~~~a-~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g~~~------------ 109 (375)
|...|.+.+... .+.+.++.++++ |..+.. .-.+....+++-+ +.+|+++++..-+..
T Consensus 11 DS~~ll~ll~~~~~~~~~~v~~v~v-d~g~~~-------~~~~~~~~~~~~~-~~~gi~~~~~~~~~~~~~~~~~~~~~~ 81 (189)
T TIGR02432 11 DSMALLHLLLKLQPKLKIRLIAAHV-DHGLRP-------ESDEEAEFVQQFC-KKLNIPLEIKKVDVKALAKGKKKNLEE 81 (189)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEEEe-CCCCCh-------hHHHHHHHHHHHH-HHcCCCEEEEEecchhhccccCCCHHH
Confidence 555565555432 223556777776 332211 1123466666777 778999988753321
Q ss_pred -------chHHHHHHHhCCCEEEE
Q 017242 110 -------DNIPNFVRECGASLLVT 126 (375)
Q Consensus 110 -------~~l~~l~~~~~~~~V~~ 126 (375)
..+.+++++.|++.|++
T Consensus 82 ~~r~~R~~~l~~~a~~~g~~~i~~ 105 (189)
T TIGR02432 82 AAREARYDFFEEIAKKHGADYILT 105 (189)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEE
Confidence 23445566666666665
No 90
>COG0196 RibF FAD synthase [Coenzyme metabolism]
Probab=22.98 E-value=3.2e+02 Score=26.20 Aligned_cols=111 Identities=19% Similarity=0.161 Sum_probs=61.3
Q ss_pred HHHHHHHHHHhhCCCCEEEEEEcCCCCcC-cchhHHHHHHHhHHHHHHHHHHhcCCcEEEEc--------CCccchHHHH
Q 017242 45 WALIHAVDQANKNNVPVAVAFNLFDQFLG-AKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--------GEAEDNIPNF 115 (375)
Q Consensus 45 ~aL~~A~~~a~~~~~~vl~vfi~dp~~~~-~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~--------g~~~~~l~~l 115 (375)
.-|.+|.+.|.+.+.++ .|+.|+|.-.. ..+.+.-..+-.+++=-+.| +.+|++..++. -++.+-+..+
T Consensus 33 ~ll~~a~~~a~~~~~~~-~VitF~p~P~~~~~~~~~~~~Lt~~~~k~~~l-~~~gvd~~~v~~F~~~fa~ls~~~Fv~~l 110 (304)
T COG0196 33 KLLAQALEAAEKRGLPV-VVITFEPHPRELLKPDKPPTRLTPLREKIRLL-AGYGVDALVVLDFDLEFANLSAEEFVELL 110 (304)
T ss_pred HHHHHHHHHHHHhCCce-EEEEecCCCHHHcCCCCCccccCCHHHHHHHH-HhcCCcEEEEEeCCHhHhhCCHHHHHHHH
Confidence 45667777777777776 46777763211 11111223334455555668 88998865542 2234445567
Q ss_pred HHHhCCCEEEE--cCCcchHHHHHH-HHHHHHcCCCceEEEecCCe
Q 017242 116 VRECGASLLVT--DFSPLREIRRCK-DKICNRVSDSVTIHEVDAHN 158 (375)
Q Consensus 116 ~~~~~~~~V~~--~~~p~~~~~~rd-~~v~~~l~~~i~~~~~~~~~ 158 (375)
++..++..|++ |+..... +.-+ ..++...+.|+.+..++.-+
T Consensus 111 v~~l~~k~ivvG~DF~FGk~-~~g~~~~L~~~~~~gf~v~~v~~~~ 155 (304)
T COG0196 111 VEKLNVKHIVVGFDFRFGKG-RQGNAELLRELGQKGFEVTIVPKIN 155 (304)
T ss_pred HhccCCcEEEEecccccCCC-CCCCHHHHHHhccCCceEEEeccEe
Confidence 78889998887 5443321 1111 23334342288887766433
No 91
>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=22.97 E-value=3.6e+02 Score=25.13 Aligned_cols=17 Identities=12% Similarity=0.317 Sum_probs=10.4
Q ss_pred HHHHHHHhCCCEEEEcC
Q 017242 112 IPNFVRECGASLLVTDF 128 (375)
Q Consensus 112 l~~l~~~~~~~~V~~~~ 128 (375)
+.+++++.++..||++.
T Consensus 212 l~~~ik~~~v~~if~e~ 228 (282)
T cd01017 212 LVEFVKKSDVKYIFFEE 228 (282)
T ss_pred HHHHHHHcCCCEEEEeC
Confidence 34445666777777653
No 92
>TIGR00083 ribF riboflavin kinase/FMN adenylyltransferase. multifunctional enzyme: riboflavin kinase (EC 2.7.1.26) (flavokinase) / FMN adenylyltransferase (EC 2.7.7.2) (FAD pyrophosphorylase) (FAD synthetase).
Probab=22.63 E-value=2.4e+02 Score=26.79 Aligned_cols=103 Identities=13% Similarity=-0.028 Sum_probs=54.3
Q ss_pred HHHHHHHhhCCCCEEEEEEcCCCCcC-cchhHHHHHHHhHHHHHHHHHHhcCCcEEEEc--------CCccchHHHHHH-
Q 017242 48 IHAVDQANKNNVPVAVAFNLFDQFLG-AKARQLGFMLRGLRLLQRNIEETFQILFFLFQ--------GEAEDNIPNFVR- 117 (375)
Q Consensus 48 ~~A~~~a~~~~~~vl~vfi~dp~~~~-~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~--------g~~~~~l~~l~~- 117 (375)
..|.+.|++.+.+. .|+.|+|.-.. ..+..... +-++.+=.+.| +++|++.++.. -++.+-+.++..
T Consensus 19 ~~~~~~a~~~~~~~-~V~tF~phP~~~~~~~~~~~-l~~~~~k~~~l-~~~Gvd~~~~~~F~~~~a~ls~e~Fi~~~l~~ 95 (288)
T TIGR00083 19 QELKQIAEEKGLPP-AVLLFEPHPSEQFNWLTAPA-LTPLEDKARQL-QIKGVEQLLVVVFDEEFANLSALQFIDQLIVK 95 (288)
T ss_pred HHHHHHHHHhCCCE-EEEEeCCChHHHhCccCCCC-CCCHHHHHHHH-HHcCCCEEEEeCCCHHHHcCCHHHHHHHHHHh
Confidence 44555565555443 46677763111 11111112 55667777778 88999866543 223444556654
Q ss_pred HhCCCEEEE--cCCcchHHHHH-HHHHHHHc-CCCceEEEe
Q 017242 118 ECGASLLVT--DFSPLREIRRC-KDKICNRV-SDSVTIHEV 154 (375)
Q Consensus 118 ~~~~~~V~~--~~~p~~~~~~r-d~~v~~~l-~~~i~~~~~ 154 (375)
..++..|++ |+..... +.- .+.+++.+ +.|+.+..+
T Consensus 96 ~l~~~~ivvG~Df~FG~~-~~G~~~~L~~~~~~~g~~v~~~ 135 (288)
T TIGR00083 96 HLHVKFLVVGDDFRFGHD-RQGDFLLLQLFGNTTIFCVIVK 135 (288)
T ss_pred ccCCcEEEECCCccCCCC-CCCCHHHHHHhccccCcEEEEe
Confidence 479999998 4432211 111 23455555 456665544
No 93
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=22.56 E-value=2.7e+02 Score=21.42 Aligned_cols=40 Identities=13% Similarity=0.228 Sum_probs=33.5
Q ss_pred HHHHhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCC
Q 017242 81 FMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGA 121 (375)
Q Consensus 81 Fl~esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~ 121 (375)
-+.+++.++-+.| ++.|..+.++.+.....+..+++..++
T Consensus 24 ~~~~~~~~~l~~l-~~~g~~i~ivS~~~~~~~~~~~~~~~~ 63 (139)
T cd01427 24 ELYPGVKEALKEL-KEKGIKLALATNKSRREVLELLEELGL 63 (139)
T ss_pred CcCcCHHHHHHHH-HHCCCeEEEEeCchHHHHHHHHHHcCC
Confidence 4556777888888 888999999999988888888888876
No 94
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=22.46 E-value=2.9e+02 Score=24.70 Aligned_cols=72 Identities=11% Similarity=0.091 Sum_probs=40.5
Q ss_pred HHHHHhHHHHHHHHHHhcCCcEEEEcCCcc----chHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHcCCCceEEEec
Q 017242 80 GFMLRGLRLLQRNIEETFQILFFLFQGEAE----DNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVD 155 (375)
Q Consensus 80 ~Fl~esL~~L~~~L~~~~g~~L~v~~g~~~----~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l~~~i~~~~~~ 155 (375)
.|..+-+..+++.+ ++.|..+.+..++.. +.+..++...+++.|+....... +..+....+.||++..++
T Consensus 17 ~~~~~~~~~~~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-----~~~~~~~~~~~ipvV~~~ 90 (270)
T cd06294 17 PFFIEVLRGISAVA-NENGYDISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED-----DPIIDYLKEEKFPFVVIG 90 (270)
T ss_pred CCHHHHHHHHHHHH-HHCCCEEEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC-----cHHHHHHHhcCCCEEEEC
Confidence 45666677788888 888888877654322 23334444556887776321110 011222225578888886
Q ss_pred CC
Q 017242 156 AH 157 (375)
Q Consensus 156 ~~ 157 (375)
..
T Consensus 91 ~~ 92 (270)
T cd06294 91 KP 92 (270)
T ss_pred CC
Confidence 53
No 95
>PRK07084 fructose-bisphosphate aldolase; Provisional
Probab=22.43 E-value=6.5e+02 Score=24.35 Aligned_cols=56 Identities=20% Similarity=0.189 Sum_probs=33.5
Q ss_pred EEEEcCCccchHHHHHHHhCCCEEEEcCC--cchHHHHHHHHHHHHc-CCCceEEEecCC
Q 017242 101 FFLFQGEAEDNIPNFVRECGASLLVTDFS--PLREIRRCKDKICNRV-SDSVTIHEVDAH 157 (375)
Q Consensus 101 L~v~~g~~~~~l~~l~~~~~~~~V~~~~~--p~~~~~~rd~~v~~~l-~~~i~~~~~~~~ 157 (375)
||+=+|...+.+.+-+ +.|.+.|-.|-+ |+.+-.+..++|.+.+ ..|+.|..=-++
T Consensus 90 lHLDHg~~~e~i~~ai-~~GftSVMiD~S~lp~eeNI~~T~evv~~Ah~~GvsVEaElG~ 148 (321)
T PRK07084 90 LHLDHGDSFELCKDCI-DSGFSSVMIDGSHLPYEENVALTKKVVEYAHQFDVTVEGELGV 148 (321)
T ss_pred EECCCCCCHHHHHHHH-HcCCCEEEeeCCCCCHHHHHHHHHHHHHHHHHcCCeEEEEEee
Confidence 4444565555443333 349999998743 4443445566777777 678877753333
No 96
>PRK09989 hypothetical protein; Provisional
Probab=22.08 E-value=6e+02 Score=23.06 Aligned_cols=56 Identities=11% Similarity=-0.012 Sum_probs=37.1
Q ss_pred HHHHHHHHhhCCCCEEEEEEcC-CCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEE
Q 017242 47 LIHAVDQANKNNVPVAVAFNLF-DQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLF 104 (375)
Q Consensus 47 L~~A~~~a~~~~~~vl~vfi~d-p~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~ 104 (375)
+..+++.|...|.+.+.++... |.. .........+.++|+.+.+.. ++.|+.|.+-
T Consensus 87 l~~~i~~A~~lg~~~v~v~~g~~~~~-~~~~~~~~~~~~~l~~l~~~a-~~~gv~l~lE 143 (258)
T PRK09989 87 IDLALEYALALNCEQVHVMAGVVPAG-EDAERYRAVFIDNLRYAADRF-APHGKRILVE 143 (258)
T ss_pred HHHHHHHHHHhCcCEEEECccCCCCC-CCHHHHHHHHHHHHHHHHHHH-HhcCCEEEEE
Confidence 5666666777788866443311 111 112344567889999999999 9999998763
No 97
>PRK05627 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed
Probab=21.56 E-value=2e+02 Score=27.45 Aligned_cols=107 Identities=18% Similarity=0.126 Sum_probs=56.3
Q ss_pred HHHHHHHHHhhCCCCEEEEEEcCCCCcC-cchhHHHHHHHhHHHHHHHHHHhcCCcEEEEcC--------CccchHHH-H
Q 017242 46 ALIHAVDQANKNNVPVAVAFNLFDQFLG-AKARQLGFMLRGLRLLQRNIEETFQILFFLFQG--------EAEDNIPN-F 115 (375)
Q Consensus 46 aL~~A~~~a~~~~~~vl~vfi~dp~~~~-~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~g--------~~~~~l~~-l 115 (375)
.|..|.+.|.+.+.+. .++.|||.-.. ..+......+-++.+=.+.| +++|++..+..- ++.+-+.+ |
T Consensus 32 Ll~~a~~~a~~~~~~~-~vitFd~~p~~~~~~~~~~~~l~t~eeR~~~l-~~~gVD~~~~~~F~~~~~~ls~e~Fi~~~l 109 (305)
T PRK05627 32 LLARAREIARERGLPS-VVMTFEPHPREVFAPDKAPARLTPLRDKAELL-AELGVDYVLVLPFDEEFAKLSAEEFIEDLL 109 (305)
T ss_pred HHHHHHHHHHhcCCCE-EEEEecCCHHHHcCCCCCCcCCCCHHHHHHHH-HHcCCCEEEEecCCHHHhcCCHHHHHHHHH
Confidence 3456666666555444 35667763110 00011123445666767777 888998666421 34445555 4
Q ss_pred HHHhCCCEEEE--cCCcchHHHHH-HHHHHHHc-CCCceEEEec
Q 017242 116 VRECGASLLVT--DFSPLREIRRC-KDKICNRV-SDSVTIHEVD 155 (375)
Q Consensus 116 ~~~~~~~~V~~--~~~p~~~~~~r-d~~v~~~l-~~~i~~~~~~ 155 (375)
.+..+++.|++ |+.-.. .+.- -+.+++.+ +.|+++..++
T Consensus 110 ~~~l~~~~iVvG~Df~FG~-~~~G~~~~L~~~~~~~g~~v~~v~ 152 (305)
T PRK05627 110 VKGLNAKHVVVGFDFRFGK-KRAGDFELLKEAGKEFGFEVTIVP 152 (305)
T ss_pred HhccCCCEEEECCCCCCCC-CCCCCHHHHHHHHHHcCcEEEEec
Confidence 45689999998 442211 0111 13444544 4577776654
No 98
>TIGR03333 salvage_mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase. Members of this family are the methionine salvage enzyme MnxX, a member of the HAD-superfamily hydrolases, subfamily IB (see TIGR01488). Members are found in Bacillus subtilis and related species, paired with MtnW (TIGR03332). In most species that recycle methionine from methylthioadenosine, the single protein MtnC replaces the MtnW/MtnX pair. In B. subtilis, mtnX was first known as ykrX.
Probab=21.14 E-value=1.5e+02 Score=26.20 Aligned_cols=37 Identities=16% Similarity=0.273 Sum_probs=24.5
Q ss_pred HHHhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHh
Q 017242 82 MLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVREC 119 (375)
Q Consensus 82 l~esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~ 119 (375)
+..++.++-+.| ++.|+++.|+.+.....+..+++..
T Consensus 71 l~pg~~e~l~~l-~~~g~~~~IvS~~~~~~i~~il~~~ 107 (214)
T TIGR03333 71 IREGFREFVAFI-NEHGIPFYVISGGMDFFVYPLLEGI 107 (214)
T ss_pred ccccHHHHHHHH-HHCCCeEEEECCCcHHHHHHHHHhh
Confidence 445666777777 7777777777776666666665554
No 99
>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=20.62 E-value=5.1e+02 Score=21.68 Aligned_cols=38 Identities=11% Similarity=0.036 Sum_probs=32.8
Q ss_pred HHhHHHHHHHHHHhcCCc-EEEEcCCccchHHHHHHHhCC
Q 017242 83 LRGLRLLQRNIEETFQIL-FFLFQGEAEDNIPNFVRECGA 121 (375)
Q Consensus 83 ~esL~~L~~~L~~~~g~~-L~v~~g~~~~~l~~l~~~~~~ 121 (375)
...+++..+++ +++|.. ++.+..+......+++++.++
T Consensus 50 ~~~~~~~~~~f-~~~g~~~V~~iS~D~~~~~~~~~~~~~~ 88 (155)
T cd03013 50 LPGYVENADEL-KAKGVDEVICVSVNDPFVMKAWGKALGA 88 (155)
T ss_pred HHHHHHhHHHH-HHCCCCEEEEEECCCHHHHHHHHHhhCC
Confidence 46678888999 999994 888998888889999999887
No 100
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=20.56 E-value=3e+02 Score=25.83 Aligned_cols=14 Identities=7% Similarity=0.131 Sum_probs=7.6
Q ss_pred HHHHHhCCCEEEEc
Q 017242 114 NFVRECGASLLVTD 127 (375)
Q Consensus 114 ~l~~~~~~~~V~~~ 127 (375)
+++++.++..||++
T Consensus 220 ~~ik~~~v~~if~e 233 (287)
T cd01137 220 EQVKKEKVPAVFVE 233 (287)
T ss_pred HHHHHhCCCEEEEe
Confidence 34455566666654
No 101
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w
Probab=20.53 E-value=4.4e+02 Score=20.94 Aligned_cols=41 Identities=10% Similarity=0.175 Sum_probs=33.0
Q ss_pred HHhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEE
Q 017242 83 LRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLL 124 (375)
Q Consensus 83 ~esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V 124 (375)
...|..+.+++ ++.|+.++.+.-+..+.+.++++++++.-.
T Consensus 43 ~~~l~~~~~~~-~~~~~~vv~is~d~~~~~~~~~~~~~~~~~ 83 (140)
T cd03017 43 ACDFRDLYEEF-KALGAVVIGVSPDSVESHAKFAEKYGLPFP 83 (140)
T ss_pred HHHHHHHHHHH-HHCCCEEEEEcCCCHHHHHHHHHHhCCCce
Confidence 46788888999 888999888877777888899988877643
No 102
>cd06542 GH18_EndoS-like Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain. Some members also have an additional C-terminal glycosyl hydrolase family 20 (GH20) domain while others have an N-terminal domain of unknown function (pfam08522). Members of this family include endo-beta-N-acetylglucosaminidase S (EndoS) from Streptococcus pyogenes, EndoF1, EndoF2, EndoF3, and EndoH from Flavobacterium meningosepticum, and EndoE from Enterococcus faecalis. EndoS is a secreted endoglycosidase from Streptococcus pyogenes that specifically hydrolyzes the glycan on human IgG between two core N-acetylglucosamine residues. EndoE is a secreted endoglycosidase, encoded by the ndoE gene in Enterococcus faecalis, that hydrolyzes the glycan on human RNase B.
Probab=20.47 E-value=6.1e+02 Score=22.97 Aligned_cols=44 Identities=18% Similarity=0.139 Sum_probs=30.0
Q ss_pred CCEEEEEEcCCCCcCcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEc
Q 017242 59 VPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ 105 (375)
Q Consensus 59 ~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~ 105 (375)
--++.+|--.+....... ..|..+...+....| ++.|+++++..
T Consensus 28 ~D~v~lf~~~~~~~~~~~--~~~~~~~~~~~i~~l-~~kG~KVl~si 71 (255)
T cd06542 28 VDMVSLFAANINLDAATA--VQFLLTNKETYIRPL-QAKGTKVLLSI 71 (255)
T ss_pred ceEEEEcccccCcccccc--hhhhhHHHHHHHHHH-hhCCCEEEEEE
Confidence 456666655554221112 668888889999999 99999987654
No 103
>TIGR01489 DKMTPPase-SF 2,3-diketo-5-methylthio-1-phosphopentane phosphatase. Note that SP|P53981 from S. cerevisiae, a member of this family, is annotated as a "probable membrane protein" due to a predicted transmembrane helix. The region in question contains the second of the three conserved HAD superfamily catalytic motifs and thus, considering the fold of the HAD catalytic domain, is unlikely to be a transmembrane region in fact.
Probab=20.40 E-value=1e+02 Score=26.20 Aligned_cols=37 Identities=16% Similarity=0.214 Sum_probs=23.3
Q ss_pred hHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCC
Q 017242 85 GLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGAS 122 (375)
Q Consensus 85 sL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 122 (375)
++.++-+.| ++.|+++.+..+.....+..+++..++.
T Consensus 76 g~~~ll~~l-~~~g~~~~i~S~~~~~~~~~~l~~~~l~ 112 (188)
T TIGR01489 76 GFKEFIAFI-KEHGIDFIVISDGNDFFIDPVLEGIGEK 112 (188)
T ss_pred cHHHHHHHH-HHcCCcEEEEeCCcHHHHHHHHHHcCCh
Confidence 445555666 6667777777666666666666665554
No 104
>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=20.40 E-value=6.3e+02 Score=23.44 Aligned_cols=66 Identities=12% Similarity=0.150 Sum_probs=41.0
Q ss_pred HHHhHHHHHHHHHHhc-----CCcEEEEcCCccchHHHHHHHhCCCEEEE-----cCCcchHHHHHHHHHHHHc-CCCce
Q 017242 82 MLRGLRLLQRNIEETF-----QILFFLFQGEAEDNIPNFVRECGASLLVT-----DFSPLREIRRCKDKICNRV-SDSVT 150 (375)
Q Consensus 82 l~esL~~L~~~L~~~~-----g~~L~v~~g~~~~~l~~l~~~~~~~~V~~-----~~~p~~~~~~rd~~v~~~l-~~~i~ 150 (375)
+.+.|.+|.+++ ++. +-.+++.+ +.+.-|++.+|+..+.. +.+|. .+...++.+.+ +.+|+
T Consensus 151 ~~~~L~~l~~~~-~~~~~~~~~~~~v~~H----~af~Y~~~~~gl~~~~~~~~~~~~eps---~~~l~~l~~~ik~~~v~ 222 (282)
T cd01017 151 YAKKLEALDQEY-RAKLAKAKGKTFVTQH----AAFGYLARRYGLKQIAIVGVSPEVEPS---PKQLAELVEFVKKSDVK 222 (282)
T ss_pred HHHHHHHHHHHH-HHHHhccCCCeEEEec----ccHHHHHHHCCCeEEecccCCCCCCCC---HHHHHHHHHHHHHcCCC
Confidence 445566666666 442 22344433 58889999999997753 23454 24456666667 67888
Q ss_pred EEEec
Q 017242 151 IHEVD 155 (375)
Q Consensus 151 ~~~~~ 155 (375)
+..++
T Consensus 223 ~if~e 227 (282)
T cd01017 223 YIFFE 227 (282)
T ss_pred EEEEe
Confidence 77665
No 105
>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=20.32 E-value=7.4e+02 Score=24.22 Aligned_cols=76 Identities=8% Similarity=0.047 Sum_probs=43.7
Q ss_pred HHHHHhHHHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCC---------cchHHHHHHHHHHHHc-CCCc
Q 017242 80 GFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFS---------PLREIRRCKDKICNRV-SDSV 149 (375)
Q Consensus 80 ~Fl~esL~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~---------p~~~~~~rd~~v~~~l-~~~i 149 (375)
.++..-++.+.++. ...-+-||+=+|...+.+.+-+ ..|.+.|-.|-+ |+.+-.+..++|.+.+ ..||
T Consensus 58 ~~~~~~~~~~ae~~-~~VPValHLDHg~~~e~i~~Ai-~~GFtSVMiDgS~l~~~~~~~p~eENI~~Tkevve~Ah~~Gv 135 (347)
T TIGR01521 58 PFLRHLILAAIEEY-PHIPVVMHQDHGNSPATCQRAI-QLGFTSVMMDGSLREDAKTPADYDYNVRVTAEVVAFAHAVGA 135 (347)
T ss_pred HHHHHHHHHHHHhC-CCCcEEEECCCCCCHHHHHHHH-HcCCCEEeecCcCCcccCCCCCHHHHHHHHHHHHHHHHHcCC
Confidence 34444444444433 2223345555676555544333 349999998754 5554556677787777 6788
Q ss_pred eEEEecCC
Q 017242 150 TIHEVDAH 157 (375)
Q Consensus 150 ~~~~~~~~ 157 (375)
.|..=-++
T Consensus 136 sVEaELG~ 143 (347)
T TIGR01521 136 SVEGELGC 143 (347)
T ss_pred eEEEEeee
Confidence 87764443
No 106
>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=20.14 E-value=4.9e+02 Score=23.13 Aligned_cols=72 Identities=3% Similarity=-0.060 Sum_probs=43.0
Q ss_pred HHHHHhHHHHHHHHHHhcCCcEEEEcCCc--c---chHHHHHHHhCCCEEEEc-CCcchHHHHHHHHHHHHcCCCceEEE
Q 017242 80 GFMLRGLRLLQRNIEETFQILFFLFQGEA--E---DNIPNFVRECGASLLVTD-FSPLREIRRCKDKICNRVSDSVTIHE 153 (375)
Q Consensus 80 ~Fl~esL~~L~~~L~~~~g~~L~v~~g~~--~---~~l~~l~~~~~~~~V~~~-~~p~~~~~~rd~~v~~~l~~~i~~~~ 153 (375)
.|..+-+..+++.+ ++.|..+.+...+. . ..+.+.+...+++.|+.. ..... ...+......|+++..
T Consensus 12 ~~~~~~~~gi~~~~-~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~-----~~~~~~~~~~~ipvv~ 85 (270)
T cd01545 12 GYVSEIQLGALDAC-RDTGYQLVIEPCDSGSPDLAERVRALLQRSRVDGVILTPPLSDN-----PELLDLLDEAGVPYVR 85 (270)
T ss_pred ccHHHHHHHHHHHH-HhCCCeEEEEeCCCCchHHHHHHHHHHHHCCCCEEEEeCCCCCc-----cHHHHHHHhcCCCEEE
Confidence 46677778888888 88899887765432 1 223444556688888764 11111 1112222255889888
Q ss_pred ecCC
Q 017242 154 VDAH 157 (375)
Q Consensus 154 ~~~~ 157 (375)
++..
T Consensus 86 i~~~ 89 (270)
T cd01545 86 IAPG 89 (270)
T ss_pred EecC
Confidence 8654
No 107
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=20.00 E-value=6.2e+02 Score=23.69 Aligned_cols=68 Identities=10% Similarity=0.056 Sum_probs=42.3
Q ss_pred HHHHHhHHHHHHHHHHhc-------CCcEEEEcCCccchHHHHHHHhCCCEEEE-----cCCcchHHHHHHHHHHHHc-C
Q 017242 80 GFMLRGLRLLQRNIEETF-------QILFFLFQGEAEDNIPNFVRECGASLLVT-----DFSPLREIRRCKDKICNRV-S 146 (375)
Q Consensus 80 ~Fl~esL~~L~~~L~~~~-------g~~L~v~~g~~~~~l~~l~~~~~~~~V~~-----~~~p~~~~~~rd~~v~~~l-~ 146 (375)
.=+.+-|.+|++++ ++. |..+++.+ ..+.-|++.+|...+.. +.+|. .++..++.+.+ +
T Consensus 153 ~~~~~~L~~l~~~~-~~~l~~~~~~~~~~v~~H----~af~Y~~~~yGl~~~~~~~~~~~~eps---~~~l~~l~~~ik~ 224 (287)
T cd01137 153 AAYKAKLKALDEWA-KAKFATIPAEKRKLVTSE----GAFSYFAKAYGLKEAYLWPINTEEEGT---PKQVATLIEQVKK 224 (287)
T ss_pred HHHHHHHHHHHHHH-HHHHhcCCcccCEEEEec----ccHHHHHHHcCCeEeecccCCCCCCCC---HHHHHHHHHHHHH
Confidence 34456677777765 432 22233333 58889999999997753 23454 24456666666 6
Q ss_pred CCceEEEec
Q 017242 147 DSVTIHEVD 155 (375)
Q Consensus 147 ~~i~~~~~~ 155 (375)
.+|++..++
T Consensus 225 ~~v~~if~e 233 (287)
T cd01137 225 EKVPAVFVE 233 (287)
T ss_pred hCCCEEEEe
Confidence 688887754
Done!