Query 012490
Match_columns 462
No_of_seqs 135 out of 1249
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 03:11:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012490.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012490hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02765 crypto_DASH cryptoch 100.0 5.5E-54 1.2E-58 451.1 32.6 296 124-444 1-299 (429)
2 TIGR03556 photolyase_8HDF deox 100.0 3.7E-53 8.1E-58 449.2 31.9 294 125-447 2-300 (471)
3 COG0415 PhrB Deoxyribodipyrimi 100.0 6.6E-53 1.4E-57 437.4 28.6 292 124-455 2-295 (461)
4 TIGR02766 crypt_chrom_pln cryp 100.0 1.6E-51 3.4E-56 437.7 28.3 294 127-446 1-297 (475)
5 PRK10674 deoxyribodipyrimidine 100.0 3.6E-50 7.8E-55 426.5 31.3 283 126-447 4-294 (472)
6 TIGR00591 phr2 photolyase PhrI 100.0 4.7E-49 1E-53 416.5 28.3 295 120-456 19-322 (454)
7 PF00875 DNA_photolyase: DNA p 100.0 2E-37 4.3E-42 285.0 15.0 164 126-294 1-164 (165)
8 KOG0133 Deoxyribodipyrimidine 100.0 3.7E-35 8.1E-40 307.7 10.8 302 121-445 2-311 (531)
9 COG3046 Uncharacterized protei 99.8 4.7E-19 1E-23 178.3 21.0 293 124-447 2-323 (505)
10 PF03441 FAD_binding_7: FAD bi 99.7 3E-18 6.6E-23 170.6 7.4 99 338-453 1-99 (277)
11 KOG0133 Deoxyribodipyrimidine 99.1 5.4E-12 1.2E-16 133.7 -1.9 420 16-461 69-499 (531)
12 PF04244 DPRP: Deoxyribodipyri 98.5 3.4E-07 7.4E-12 88.5 7.7 147 127-284 1-156 (224)
13 cd01994 Alpha_ANH_like_IV This 91.1 1.6 3.4E-05 41.4 9.5 97 140-252 14-119 (194)
14 PRK12652 putative monovalent c 91.0 2.3 4.9E-05 44.3 11.2 107 139-252 19-148 (357)
15 TIGR00289 conserved hypothetic 90.9 1.5 3.3E-05 42.5 9.3 97 139-251 14-115 (222)
16 TIGR00290 MJ0570_dom MJ0570-re 87.9 4.5 9.8E-05 39.3 10.1 97 139-251 14-115 (223)
17 COG2102 Predicted ATPases of P 87.8 4.1 8.9E-05 39.4 9.5 99 139-252 14-117 (223)
18 cd00293 USP_Like Usp: Universa 85.2 13 0.00027 30.7 10.5 76 147-227 25-102 (130)
19 PRK09982 universal stress prot 83.9 21 0.00046 31.3 11.8 112 139-252 17-136 (142)
20 cd01988 Na_H_Antiporter_C The 82.4 18 0.00039 30.5 10.4 84 139-227 13-103 (132)
21 cd01989 STK_N The N-terminal d 81.8 21 0.00045 31.1 10.8 90 138-227 12-112 (146)
22 PRK15005 universal stress prot 80.2 28 0.0006 30.1 11.0 45 183-227 70-116 (144)
23 TIGR03679 arCOG00187 arCOG0018 78.6 18 0.00039 34.8 10.0 96 140-251 12-116 (218)
24 PRK13015 3-dehydroquinate dehy 77.1 13 0.00029 33.6 7.9 67 192-262 39-108 (146)
25 TIGR01088 aroQ 3-dehydroquinat 76.3 15 0.00032 33.2 7.8 67 193-263 38-107 (141)
26 cd01987 USP_OKCHK USP domain i 76.2 35 0.00076 28.6 10.2 77 139-227 13-94 (124)
27 PF01902 ATP_bind_4: ATP-bindi 75.9 3.6 7.7E-05 39.8 4.2 97 139-251 14-115 (218)
28 PF10087 DUF2325: Uncharacteri 73.9 18 0.00039 30.0 7.5 66 185-254 12-82 (97)
29 cd00466 DHQase_II Dehydroquina 73.7 15 0.00033 33.1 7.3 68 193-264 38-108 (140)
30 TIGR01490 HAD-SF-IB-hyp1 HAD-s 73.3 21 0.00046 33.0 8.7 45 181-225 88-132 (202)
31 COG2217 ZntA Cation transport 72.7 12 0.00026 42.5 7.9 63 186-253 543-605 (713)
32 PF01220 DHquinase_II: Dehydro 72.6 19 0.00041 32.4 7.7 77 183-263 25-108 (140)
33 PRK10116 universal stress prot 71.2 67 0.0014 27.6 13.0 114 136-253 14-137 (142)
34 PF00702 Hydrolase: haloacid d 69.7 15 0.00032 33.9 6.8 72 182-255 129-203 (215)
35 PRK14010 potassium-transportin 67.7 22 0.00047 40.2 8.6 65 183-252 444-508 (673)
36 PRK15456 universal stress prot 67.4 65 0.0014 27.9 10.1 45 183-227 68-114 (142)
37 PF00582 Usp: Universal stress 66.8 68 0.0015 26.4 9.8 56 197-252 81-138 (140)
38 PRK01122 potassium-transportin 65.1 26 0.00057 39.6 8.6 65 183-252 448-512 (679)
39 PF08218 Citrate_ly_lig: Citra 64.9 31 0.00067 32.4 7.6 107 139-253 15-143 (182)
40 PF02571 CbiJ: Precorrin-6x re 64.8 30 0.00065 34.1 8.1 58 197-256 43-102 (249)
41 PRK15118 universal stress glob 64.5 94 0.002 26.8 13.1 42 186-227 68-112 (144)
42 COG0299 PurN Folate-dependent 61.9 62 0.0013 30.9 9.1 100 138-255 39-141 (200)
43 PRK10490 sensor protein KdpD; 61.4 71 0.0015 37.4 11.6 116 122-254 249-373 (895)
44 PRK05395 3-dehydroquinate dehy 61.3 79 0.0017 28.7 9.3 75 185-263 28-109 (146)
45 PRK14719 bifunctional RNAse/5- 61.2 22 0.00048 37.0 6.7 61 191-251 37-99 (360)
46 TIGR01497 kdpB K+-transporting 60.0 49 0.0011 37.5 9.6 66 183-253 449-514 (675)
47 COG0560 SerB Phosphoserine pho 58.5 28 0.00061 33.3 6.5 66 184-249 81-159 (212)
48 PRK08057 cobalt-precorrin-6x r 58.2 64 0.0014 31.8 9.1 55 200-256 45-101 (248)
49 COG1139 Uncharacterized conser 55.8 35 0.00075 36.3 6.9 65 185-253 67-133 (459)
50 KOG0207 Cation transport ATPas 54.4 43 0.00093 38.8 7.9 63 188-255 731-793 (951)
51 PRK10517 magnesium-transportin 53.7 59 0.0013 38.1 9.2 39 182-220 552-590 (902)
52 PF06415 iPGM_N: BPG-independe 52.8 63 0.0014 31.5 7.8 75 183-257 14-105 (223)
53 PRK15122 magnesium-transportin 51.5 61 0.0013 38.0 8.9 67 182-253 552-643 (903)
54 cd06279 PBP1_LacI_like_3 Ligan 51.0 1.1E+02 0.0024 29.6 9.5 72 179-256 17-88 (283)
55 PRK09484 3-deoxy-D-manno-octul 50.2 57 0.0012 30.2 6.9 56 184-249 56-111 (183)
56 TIGR01524 ATPase-IIIB_Mg magne 49.2 72 0.0016 37.2 9.0 39 182-220 517-555 (867)
57 TIGR01647 ATPase-IIIA_H plasma 48.8 68 0.0015 36.8 8.6 39 183-221 445-483 (755)
58 TIGR01488 HAD-SF-IB Haloacid D 48.7 22 0.00048 31.9 3.9 43 183-225 76-118 (177)
59 TIGR01525 ATPase-IB_hvy heavy 48.0 1E+02 0.0022 33.9 9.5 45 181-225 385-430 (556)
60 COG2205 KdpD Osmosensitive K+ 47.9 2.8E+02 0.006 32.3 12.7 121 121-256 246-375 (890)
61 TIGR01512 ATPase-IB2_Cd heavy 47.6 70 0.0015 35.0 8.2 45 181-225 363-408 (536)
62 cd01427 HAD_like Haloacid deha 47.5 62 0.0014 26.6 6.3 47 180-226 24-74 (139)
63 PF13167 GTP-bdg_N: GTP-bindin 47.0 1.4E+02 0.003 25.1 8.0 59 182-243 7-79 (95)
64 TIGR01491 HAD-SF-IB-PSPlk HAD- 46.5 38 0.00083 31.0 5.2 42 183-224 83-124 (201)
65 PF05368 NmrA: NmrA-like famil 46.2 82 0.0018 29.7 7.6 64 188-253 36-100 (233)
66 cd06294 PBP1_ycjW_transcriptio 45.4 1.2E+02 0.0026 28.6 8.7 72 179-256 17-92 (270)
67 cd06542 GH18_EndoS-like Endo-b 44.3 2.8E+02 0.0061 26.7 11.2 27 178-204 46-72 (255)
68 PRK09590 celB cellobiose phosp 43.5 1.8E+02 0.0038 24.8 8.3 68 179-254 15-82 (104)
69 TIGR00268 conserved hypothetic 43.2 1.7E+02 0.0038 28.5 9.5 72 186-257 3-75 (252)
70 PRK11175 universal stress prot 43.2 2.2E+02 0.0047 28.0 10.4 43 184-226 224-269 (305)
71 PF12710 HAD: haloacid dehalog 42.7 57 0.0012 29.5 5.7 41 187-227 96-138 (192)
72 TIGR00715 precor6x_red precorr 42.5 2E+02 0.0043 28.5 9.7 47 207-255 54-100 (256)
73 COG0589 UspA Universal stress 42.0 2.1E+02 0.0046 24.1 9.1 46 181-226 72-121 (154)
74 TIGR00273 iron-sulfur cluster- 41.6 52 0.0011 35.2 5.8 67 182-252 50-118 (432)
75 TIGR01670 YrbI-phosphatas 3-de 40.7 90 0.0019 28.0 6.5 54 189-248 37-90 (154)
76 TIGR02199 rfaE_dom_II rfaE bif 40.7 1.4E+02 0.0031 26.5 7.8 113 126-254 14-128 (144)
77 cd01018 ZntC Metal binding pro 40.0 1.7E+02 0.0038 28.7 9.0 74 176-254 145-224 (266)
78 cd06277 PBP1_LacI_like_1 Ligan 39.2 1.9E+02 0.0041 27.4 9.0 71 179-256 15-89 (268)
79 cd01545 PBP1_SalR Ligand-bindi 39.0 2.2E+02 0.0048 26.8 9.4 73 179-256 12-89 (270)
80 TIGR00338 serB phosphoserine p 39.0 43 0.00093 31.3 4.3 44 182-225 87-130 (219)
81 KOG1615 Phosphoserine phosphat 38.1 42 0.0009 32.2 3.9 35 185-219 93-127 (227)
82 COG2179 Predicted hydrolase of 38.0 1.1E+02 0.0024 28.5 6.6 56 190-251 56-111 (175)
83 cd06295 PBP1_CelR Ligand bindi 37.9 2.7E+02 0.0059 26.4 9.9 71 179-255 23-95 (275)
84 COG0757 AroQ 3-dehydroquinate 37.1 3.2E+02 0.0069 24.8 9.0 70 189-262 35-107 (146)
85 TIGR01544 HAD-SF-IE haloacid d 37.1 59 0.0013 32.7 5.1 30 187-216 128-157 (277)
86 cd01540 PBP1_arabinose_binding 36.8 2.6E+02 0.0056 26.8 9.6 73 179-256 12-88 (289)
87 cd06267 PBP1_LacI_sugar_bindin 36.8 2.6E+02 0.0057 25.8 9.4 71 179-256 12-87 (264)
88 PF13727 CoA_binding_3: CoA-bi 36.8 65 0.0014 28.5 5.0 44 208-253 131-174 (175)
89 cd06322 PBP1_ABC_sugar_binding 36.7 3E+02 0.0065 25.9 10.0 73 178-255 11-88 (267)
90 TIGR01511 ATPase-IB1_Cu copper 36.2 1.7E+02 0.0037 32.2 9.1 42 182-224 407-448 (562)
91 PRK10671 copA copper exporting 35.1 1.9E+02 0.0041 33.6 9.5 44 187-232 657-700 (834)
92 PF07476 MAAL_C: Methylasparta 34.9 1.9E+02 0.004 28.4 7.8 86 153-251 105-193 (248)
93 TIGR02990 ectoine_eutA ectoine 34.8 97 0.0021 30.4 6.1 48 205-255 106-153 (239)
94 cd06313 PBP1_ABC_sugar_binding 34.4 3E+02 0.0065 26.4 9.6 73 179-256 12-89 (272)
95 COG2099 CobK Precorrin-6x redu 33.9 91 0.002 31.0 5.7 48 207-256 55-102 (257)
96 COG1358 RPL8A Ribosomal protei 33.8 1.3E+02 0.0029 26.1 6.2 47 208-256 33-79 (116)
97 PRK10826 2-deoxyglucose-6-phos 33.7 56 0.0012 30.8 4.2 33 186-218 98-130 (222)
98 cd06297 PBP1_LacI_like_12 Liga 33.6 1.6E+02 0.0035 28.2 7.5 71 179-255 12-86 (269)
99 PLN02954 phosphoserine phospha 33.5 64 0.0014 30.3 4.6 38 183-220 87-124 (224)
100 PF06574 FAD_syn: FAD syntheta 33.2 24 0.00053 32.2 1.5 75 181-255 60-145 (157)
101 TIGR02634 xylF D-xylose ABC tr 32.7 3.9E+02 0.0084 26.3 10.3 74 178-256 10-88 (302)
102 PRK11175 universal stress prot 32.5 2.8E+02 0.0061 27.2 9.3 71 185-255 71-146 (305)
103 cd06547 GH85_ENGase Endo-beta- 32.4 3.6E+02 0.0078 27.9 10.1 105 127-257 37-151 (339)
104 TIGR01517 ATPase-IIB_Ca plasma 32.3 1.7E+02 0.0036 34.6 8.6 39 182-220 581-619 (941)
105 TIGR01522 ATPase-IIA2_Ca golgi 32.1 2.1E+02 0.0045 33.5 9.3 39 182-220 530-568 (884)
106 TIGR02137 HSK-PSP phosphoserin 31.9 1.1E+02 0.0025 28.8 6.0 43 182-225 70-112 (203)
107 PF13407 Peripla_BP_4: Peripla 31.9 3.3E+02 0.0071 25.6 9.3 72 180-256 12-89 (257)
108 TIGR00099 Cof-subfamily Cof su 31.8 4.2E+02 0.0091 25.3 10.1 69 191-259 27-108 (256)
109 PRK10530 pyridoxal phosphate ( 31.6 3.4E+02 0.0073 26.1 9.5 67 191-257 31-111 (272)
110 cd01537 PBP1_Repressors_Sugar_ 31.2 3.8E+02 0.0083 24.6 9.6 72 179-256 12-88 (264)
111 cd06271 PBP1_AglR_RafR_like Li 31.1 2.7E+02 0.0059 26.1 8.6 71 179-255 16-90 (268)
112 cd06296 PBP1_CatR_like Ligand- 31.0 3.6E+02 0.0078 25.4 9.5 71 179-256 12-87 (270)
113 cd01017 AdcA Metal binding pro 30.6 3.7E+02 0.008 26.5 9.7 71 178-253 148-226 (282)
114 cd06284 PBP1_LacI_like_6 Ligan 30.6 3.6E+02 0.0079 25.2 9.4 70 179-255 12-85 (267)
115 PLN02347 GMP synthetase 30.3 2.6E+02 0.0056 30.9 9.1 78 179-257 213-294 (536)
116 PRK13600 putative ribosomal pr 30.3 1.7E+02 0.0036 24.1 5.8 34 218-254 29-62 (84)
117 COG0656 ARA1 Aldo/keto reducta 30.2 2.2E+02 0.0048 28.7 7.9 44 208-253 146-189 (280)
118 cd06305 PBP1_methylthioribose_ 30.1 3.5E+02 0.0076 25.5 9.2 73 179-256 12-89 (273)
119 PRK15126 thiamin pyrimidine py 30.1 3.2E+02 0.0068 26.5 9.0 68 192-259 31-111 (272)
120 TIGR01454 AHBA_synth_RP 3-amin 30.1 1.2E+02 0.0027 27.9 5.9 35 185-219 80-114 (205)
121 PRK05265 pyridoxine 5'-phospha 29.8 3.7E+02 0.0081 26.5 9.1 43 183-226 113-155 (239)
122 cd06272 PBP1_hexuronate_repres 29.8 4.3E+02 0.0093 24.8 9.8 72 179-256 12-83 (261)
123 PLN02770 haloacid dehalogenase 29.7 1.8E+02 0.0038 28.1 7.1 34 185-218 113-146 (248)
124 COG1412 Uncharacterized protei 29.5 1.9E+02 0.0041 25.9 6.5 49 203-261 83-131 (136)
125 KOG1014 17 beta-hydroxysteroid 29.4 2E+02 0.0043 29.5 7.3 61 186-248 63-127 (312)
126 PRK08335 translation initiatio 29.0 3.7E+02 0.0081 27.0 9.2 67 188-259 152-223 (275)
127 cd06299 PBP1_LacI_like_13 Liga 28.9 4.5E+02 0.0098 24.6 9.7 71 180-256 13-87 (265)
128 PF13911 AhpC-TSA_2: AhpC/TSA 28.7 1.2E+02 0.0026 25.4 5.1 42 185-227 2-45 (115)
129 TIGR00884 guaA_Cterm GMP synth 28.7 3.2E+02 0.0069 27.8 8.9 75 180-257 2-81 (311)
130 cd01137 PsaA Metal binding pro 28.7 3.9E+02 0.0084 26.6 9.5 72 177-253 151-232 (287)
131 cd06281 PBP1_LacI_like_5 Ligan 28.6 4.5E+02 0.0098 24.8 9.7 72 180-256 13-88 (269)
132 cd06312 PBP1_ABC_sugar_binding 28.5 5E+02 0.011 24.6 10.0 73 179-256 13-91 (271)
133 cd06273 PBP1_GntR_like_1 This 28.4 4.3E+02 0.0094 24.8 9.5 70 179-255 12-86 (268)
134 PF08282 Hydrolase_3: haloacid 28.3 4.7E+02 0.01 24.0 10.1 75 185-260 21-108 (254)
135 PF00532 Peripla_BP_1: Peripla 28.0 4.1E+02 0.009 26.0 9.5 72 179-256 14-88 (279)
136 TIGR01545 YfhB_g-proteo haloac 27.8 1.4E+02 0.003 28.4 5.8 27 190-216 105-131 (210)
137 PTZ00222 60S ribosomal protein 27.6 1.6E+02 0.0034 29.3 6.1 52 198-253 130-181 (263)
138 COG1609 PurR Transcriptional r 27.5 4.4E+02 0.0095 26.8 9.8 72 179-256 71-146 (333)
139 PRK11033 zntA zinc/cadmium/mer 27.4 2.2E+02 0.0048 32.6 8.3 48 183-233 571-618 (741)
140 PRK08535 translation initiatio 27.3 4.3E+02 0.0094 26.8 9.6 67 186-257 161-232 (310)
141 TIGR03333 salvage_mtnX 2-hydro 27.2 1.1E+02 0.0023 28.8 4.9 36 182-217 72-107 (214)
142 PRK11590 hypothetical protein; 26.9 1.5E+02 0.0032 27.9 5.9 39 188-226 104-145 (211)
143 PRK10513 sugar phosphate phosp 26.7 4.8E+02 0.01 25.1 9.6 69 191-259 31-116 (270)
144 TIGR00853 pts-lac PTS system, 26.6 3.7E+02 0.008 22.2 8.4 66 179-254 17-82 (95)
145 cd06285 PBP1_LacI_like_7 Ligan 26.6 5.4E+02 0.012 24.1 9.9 72 179-256 12-87 (265)
146 PRK02090 phosphoadenosine phos 26.5 3.1E+02 0.0067 26.6 8.1 71 183-255 27-101 (241)
147 cd06301 PBP1_rhizopine_binding 25.7 5.4E+02 0.012 24.2 9.7 73 179-256 12-90 (272)
148 cd06309 PBP1_YtfQ_like Peripla 25.7 3.8E+02 0.0082 25.4 8.6 73 179-256 12-89 (273)
149 cd01542 PBP1_TreR_like Ligand- 25.6 5.5E+02 0.012 23.9 10.1 70 179-255 12-86 (259)
150 PF13419 HAD_2: Haloacid dehal 25.4 3.6E+02 0.0077 23.2 7.8 46 184-229 81-130 (176)
151 PF02630 SCO1-SenC: SCO1/SenC; 25.2 5E+02 0.011 23.7 8.9 85 148-253 51-141 (174)
152 cd06324 PBP1_ABC_sugar_binding 25.2 5.2E+02 0.011 25.2 9.7 72 179-256 13-91 (305)
153 PF08765 Mor: Mor transcriptio 24.4 2.3E+02 0.005 24.0 6.0 65 178-242 4-69 (108)
154 cd06292 PBP1_LacI_like_10 Liga 24.4 4.6E+02 0.01 24.7 8.9 75 179-256 12-92 (273)
155 cd06287 PBP1_LacI_like_8 Ligan 24.3 2.7E+02 0.0059 26.8 7.3 74 174-256 15-88 (269)
156 cd06270 PBP1_GalS_like Ligand 24.0 5.9E+02 0.013 23.9 9.6 71 179-256 12-87 (268)
157 PF00578 AhpC-TSA: AhpC/TSA fa 24.0 1.8E+02 0.004 24.0 5.4 50 175-225 39-89 (124)
158 COG0546 Gph Predicted phosphat 23.7 85 0.0018 29.8 3.5 39 183-221 92-130 (220)
159 PF01591 6PF2K: 6-phosphofruct 23.7 5.4E+02 0.012 24.9 9.1 68 175-243 74-146 (222)
160 PRK09545 znuA high-affinity zi 23.7 5E+02 0.011 26.2 9.3 70 179-253 181-258 (311)
161 TIGR02726 phenyl_P_delta pheny 23.7 2.7E+02 0.0058 25.7 6.7 52 191-248 45-96 (169)
162 cd06274 PBP1_FruR Ligand bindi 23.6 5.9E+02 0.013 23.9 9.5 71 180-256 13-87 (264)
163 PRK13223 phosphoglycolate phos 23.6 2.1E+02 0.0046 28.2 6.4 12 388-399 252-263 (272)
164 cd06314 PBP1_tmGBP Periplasmic 23.5 6.1E+02 0.013 24.0 9.6 71 179-255 11-87 (271)
165 PRK13602 putative ribosomal pr 23.4 2.6E+02 0.0055 22.6 5.8 40 212-254 21-60 (82)
166 TIGR01370 cysRS possible cyste 23.2 3.1E+02 0.0067 28.1 7.6 75 179-254 187-271 (315)
167 TIGR01422 phosphonatase phosph 23.0 66 0.0014 31.0 2.7 32 185-216 104-135 (253)
168 cd06300 PBP1_ABC_sugar_binding 23.0 6.1E+02 0.013 23.9 9.5 73 179-256 12-94 (272)
169 cd05565 PTS_IIB_lactose PTS_II 23.0 4.6E+02 0.0099 22.0 7.8 67 178-254 13-79 (99)
170 PRK09856 fructoselysine 3-epim 22.9 6.9E+02 0.015 24.1 12.1 56 174-229 120-183 (275)
171 TIGR03351 PhnX-like phosphonat 22.9 1.9E+02 0.0041 26.9 5.8 36 183-218 90-125 (220)
172 cd04185 GT_2_like_b Subfamily 22.8 3.3E+02 0.0071 24.5 7.2 42 178-220 9-50 (202)
173 cd06278 PBP1_LacI_like_2 Ligan 22.7 6.2E+02 0.014 23.5 9.6 70 180-256 13-86 (266)
174 cd06323 PBP1_ribose_binding Pe 22.7 5.9E+02 0.013 23.7 9.2 73 179-256 12-89 (268)
175 cd01541 PBP1_AraR Ligand-bindi 22.7 6E+02 0.013 23.9 9.4 77 178-256 11-92 (273)
176 cd01019 ZnuA Zinc binding prot 22.6 5.2E+02 0.011 25.6 9.1 73 176-253 154-234 (286)
177 cd06283 PBP1_RegR_EndR_KdgR_li 22.5 6.2E+02 0.013 23.5 9.4 70 180-256 13-87 (267)
178 TIGR01548 HAD-SF-IA-hyp1 haloa 22.5 4.3E+02 0.0093 24.2 8.0 35 187-221 113-147 (197)
179 TIGR03590 PseG pseudaminic aci 22.4 2.4E+02 0.0051 27.9 6.5 62 189-256 46-112 (279)
180 COG2873 MET17 O-acetylhomoseri 22.4 2.2E+02 0.0047 30.1 6.2 64 187-251 117-181 (426)
181 PF02142 MGS: MGS-like domain 22.3 96 0.0021 25.4 3.1 42 210-251 52-94 (95)
182 TIGR01656 Histidinol-ppas hist 22.1 3.3E+02 0.0071 23.9 6.8 26 181-206 28-53 (147)
183 cd01574 PBP1_LacI Ligand-bindi 22.0 6.1E+02 0.013 23.6 9.2 71 180-256 13-88 (264)
184 PRK08238 hypothetical protein; 22.0 2.7E+02 0.0058 30.2 7.2 46 183-228 75-121 (479)
185 PRK09701 D-allose transporter 21.8 7.6E+02 0.016 24.3 10.2 73 179-256 37-116 (311)
186 PRK00919 GMP synthase subunit 21.8 4.6E+02 0.0099 26.7 8.5 75 178-256 5-83 (307)
187 TIGR00511 ribulose_e2b2 ribose 21.7 7E+02 0.015 25.2 9.8 91 142-257 132-227 (301)
188 PF01261 AP_endonuc_2: Xylose 21.6 4.1E+02 0.0088 23.9 7.6 57 175-231 104-168 (213)
189 TIGR03772 anch_rpt_subst ancho 21.5 5.7E+02 0.012 27.8 9.6 69 180-253 348-426 (479)
190 PF11111 CENP-M: Centromere pr 21.4 6.7E+02 0.014 23.5 8.7 78 153-244 67-153 (176)
191 TIGR01489 DKMTPPase-SF 2,3-dik 21.4 1.1E+02 0.0025 27.3 3.8 37 184-220 76-112 (188)
192 PRK05434 phosphoglyceromutase; 21.3 6.2E+02 0.013 27.8 9.9 74 184-257 97-187 (507)
193 TIGR01681 HAD-SF-IIIC HAD-supe 21.3 2E+02 0.0042 24.9 5.1 39 180-218 29-68 (128)
194 cd06320 PBP1_allose_binding Pe 21.3 7E+02 0.015 23.5 10.0 73 179-256 12-91 (275)
195 PRK09552 mtnX 2-hydroxy-3-keto 21.3 1.5E+02 0.0032 28.0 4.6 35 183-217 77-111 (219)
196 PF04900 Fcf1: Fcf1; InterPro 21.2 2.4E+02 0.0051 23.4 5.4 46 204-259 51-97 (101)
197 cd01422 MGS Methylglyoxal synt 21.1 3.4E+02 0.0074 23.2 6.4 45 208-252 60-106 (115)
198 cd06291 PBP1_Qymf_like Ligand 21.0 5.9E+02 0.013 23.8 8.9 68 180-256 13-84 (265)
199 PRK11133 serB phosphoserine ph 21.0 1.8E+02 0.0039 29.7 5.4 41 185-225 186-226 (322)
200 cd08185 Fe-ADH1 Iron-containin 20.9 5E+02 0.011 26.9 8.9 75 177-252 6-88 (380)
201 COG1362 LAP4 Aspartyl aminopep 20.8 5.8E+02 0.012 27.4 9.1 108 133-256 237-379 (437)
202 PF07085 DRTGG: DRTGG domain; 20.6 2.3E+02 0.0049 23.5 5.2 60 186-253 32-91 (105)
203 PRK01372 ddl D-alanine--D-alan 20.6 2.4E+02 0.0052 27.9 6.2 65 182-251 22-86 (304)
204 cd01018 ZntC Metal binding pro 20.6 3.5E+02 0.0077 26.5 7.3 40 185-224 206-246 (266)
205 PRK10355 xylF D-xylose transpo 20.4 7.2E+02 0.016 24.9 9.8 72 179-255 38-114 (330)
206 cd01025 TOPRIM_recR TOPRIM_rec 20.3 5.1E+02 0.011 22.4 7.2 48 207-254 45-92 (112)
207 cd06318 PBP1_ABC_sugar_binding 20.2 7.4E+02 0.016 23.4 10.1 72 179-255 12-88 (282)
208 PHA02588 cd deoxycytidylate de 20.1 3.5E+02 0.0076 24.9 6.7 55 196-255 101-155 (168)
209 PF00535 Glycos_transf_2: Glyc 20.1 3.3E+02 0.0072 22.8 6.4 81 178-262 10-94 (169)
210 cd01391 Periplasmic_Binding_Pr 20.1 6E+02 0.013 22.9 8.5 71 180-256 14-91 (269)
211 PF01297 TroA: Periplasmic sol 20.0 5.3E+02 0.012 24.8 8.4 68 181-253 130-205 (256)
No 1
>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=5.5e-54 Score=451.10 Aligned_cols=296 Identities=45% Similarity=0.819 Sum_probs=235.4
Q ss_pred CeEEEEEeCCCCccChHHHHHhhhcCCceeeEEEeCCCccCC-CCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEE
Q 012490 124 RASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGK-SSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVR 202 (462)
Q Consensus 124 ~~~LvWFRrDLRl~DN~AL~~A~~~~~~vlpVyi~dp~~~~~-~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~ 202 (462)
+.+|||||||||++||+||.+|++.+.+|+||||+||+++.. +..+....|.+|..||++||++|+++|+++|++|+|+
T Consensus 1 ~~~l~WfRrDLRl~DN~aL~~A~~~~~~vl~vfi~dp~~~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~ 80 (429)
T TIGR02765 1 KVVLYWFRNDLRVHDNPALYKASSSSDTLIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESLKDLRTSLRKLGSDLLVR 80 (429)
T ss_pred CeEEEEeCCCCccccHHHHHHHHhcCCeEEEEEEECchHhccccccccCCCCHHHHHHHHHHHHHHHHHHHHcCCCeEEE
Confidence 468999999999999999999998888899999999988752 2122234789999999999999999999999999999
Q ss_pred ECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCCCCCCCCCCCCCChhhHHHHH
Q 012490 203 VGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKV 282 (462)
Q Consensus 203 ~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~i~~~~~~~~~~ft~F~k~~ 282 (462)
.|++.++|.+|+++++|++||+|++|++++++||++|++.|++.||+++.+++++|++++++++..|++|++|++|+++|
T Consensus 81 ~G~~~~vl~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~v~~~~~~~~~~ft~f~~~~ 160 (429)
T TIGR02765 81 SGKPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALARLGIHVEQHWGSTLYHEDDLPFDLEDLPDVFTQFRKQV 160 (429)
T ss_pred eCCHHHHHHHHHHHhCCCEEEEeccCCHHHHHHHHHHHHHHHhcCceEEEecCCEeECHHhcCCCCCCCCCCchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999998899999999999998
Q ss_pred hh-ccccccchhhccCCCCCCCCCCCCCCCCcccccCCCchhhhccCCCCCCCCCCccHHHHHHHHHHHHHH-HhcCCCC
Q 012490 283 KG-VEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAE-YQAQPPK 360 (462)
Q Consensus 283 ~~-l~~~~~~~~p~~l~~~p~~~~~~~~~ip~l~~l~~~~~~~~~~~~~~~~~~~~gGE~aA~~~L~~Fl~~-~l~~Y~~ 360 (462)
++ ...+++.+.|..+...+.. .....+|+++++++... .......|+|||++|+++|++|+.+ ++.+|..
T Consensus 161 ~~~~~~~~~~~~p~~~~~~~~~--~~~~~~~~l~~~~~~~~------~~~~~~~~~gGe~~A~~~L~~Fl~~~~l~~Y~~ 232 (429)
T TIGR02765 161 EAKCSIRPPLPAPEKLPPLPSV--DDPGWIPTLEDLGEESS------EVDRGLPFVGGETAGLARLKEYFWSKDLKSYKE 232 (429)
T ss_pred HhhCCCCCCCCCcccCCCCccc--ccccCCCChhhcCCCcc------cccccCCcCchHHHHHHHHHHHHhhccHhhhhh
Confidence 75 3333333333332221110 00111344444433221 0111224899999999999999984 5777766
Q ss_pred CCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHHHHHHHHHHHHHHHH
Q 012490 361 GNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRFITK 440 (462)
Q Consensus 361 ~~~~~~Rns~~~~~~TS~LSPYL~fG~ISpR~v~~~v~~~~~~~~~~~~k~~~g~~~~~~~~~~~~~EL~WREF~~~il~ 440 (462)
. ||..++.++||+|||||+|||||||+|++++.+..... ...++..|+++||+|||||+++++
T Consensus 233 ~-----R~~~~~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~------------~~~~~~~~~~~eL~WRef~~~~~~ 295 (429)
T TIGR02765 233 T-----RNGMLGPDYSTKFSPWLALGCVSPRQIYEELQRYETER------------GANDSTYWVIFELLWRDYFRFYAL 295 (429)
T ss_pred c-----cCcccCCCCcCccCHHHhCCcccHHHHHHHHHHHHhhc------------ccCCCcHHHHHHHHHHHHHHHHHH
Confidence 3 77556678899999999999999999999997743211 012234578789999999999999
Q ss_pred hCCc
Q 012490 441 KYSS 444 (462)
Q Consensus 441 ~~P~ 444 (462)
+||.
T Consensus 296 ~~~~ 299 (429)
T TIGR02765 296 KYGN 299 (429)
T ss_pred HcCC
Confidence 9985
No 2
>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=3.7e-53 Score=449.16 Aligned_cols=294 Identities=25% Similarity=0.447 Sum_probs=238.8
Q ss_pred eEEEEEeCCCCccChHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEEC
Q 012490 125 ASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG 204 (462)
Q Consensus 125 ~~LvWFRrDLRl~DN~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G 204 (462)
.+|||||||||++||+||.+|++.+.+|+||||+||.++..+ ..|.+|..||++||.+|+++|+++|++|+|+.|
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 LILFWHRRDLRLSDNIGLAAARQQSAKVVGLFCLDPNILQAD-----DMAPARVAYLIGCLQELQQRYQQAGSQLLILQG 76 (471)
T ss_pred CEEEEeCCCCCcchHHHHHHHHhcCCCEEEEEEEchhhhccc-----cCCHHHHHHHHHHHHHHHHHHHHCCCCeEEEEC
Confidence 589999999999999999999988889999999999887543 468899999999999999999999999999999
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCCCCCCCCCCCCCChhhHHHHHhh
Q 012490 205 KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKG 284 (462)
Q Consensus 205 ~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~i~~~~~~~~~~ft~F~k~~~~ 284 (462)
++.++|.+|+++++|++||+|.+|++++++||++|++.|.+.||+++.+.+++|++|+.+..+.|++|++||+|+++|.+
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 99999999999999999999999999999999999999999999999999999999999988888999999999999987
Q ss_pred ccccccchhhccCCCCCCC-----CCCCCCCCCcccccCCCchhhhccCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCC
Q 012490 285 VEIRKTIEALDQLKGLPSR-----GDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPP 359 (462)
Q Consensus 285 l~~~~~~~~p~~l~~~p~~-----~~~~~~~ip~l~~l~~~~~~~~~~~~~~~~~~~~gGE~aA~~~L~~Fl~~~l~~Y~ 359 (462)
...+.+++.|..+...+.. ..+....+|+++++++... . ...|+|||++|+++|+.|+++++..|.
T Consensus 157 ~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~------~---~~~~~gGe~~A~~~L~~f~~~~l~~Y~ 227 (471)
T TIGR03556 157 LPKPTPVATPTELEGLTEAELEAAAPLGVIALPTAKDLGFDWD------G---DLILEPGETAAQARLEEFCDRAIADYQ 227 (471)
T ss_pred ccccCCCCCccccccCCccccccccccccccCCcccccccccc------c---ccCCCCcHHHHHHHHHHHHHHHHHHhh
Confidence 5433344444433221100 0111222344444433211 1 124899999999999999999999998
Q ss_pred CCCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHHHHHHHHHHHHHHH
Q 012490 360 KGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRFIT 439 (462)
Q Consensus 360 ~~~~~~~Rns~~~~~~TS~LSPYL~fG~ISpR~v~~~v~~~~~~~~~~~~k~~~g~~~~~~~~~~~~~EL~WREF~~~il 439 (462)
.. ||. ++.++||+|||||+|||||+|+|++++++...... +.....+...| ++||+|||||++++
T Consensus 228 ~~-----r~~-p~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~~--------~~~~~~~~~~f-~~eL~WRef~~~~~ 292 (471)
T TIGR03556 228 EQ-----RNF-PALDGTSQLSPALKFGVIGIRTVWQATQEAHENSR--------SEEARNSIRTW-QQELAWREFYQHAL 292 (471)
T ss_pred hc-----cCC-CCCCCCCCCChhhcCCcccHHHHHHHHHHHHhhcc--------cccccccHHHH-HHHHHHHHHHHHHH
Confidence 74 664 77889999999999999999999999987543210 00011233445 58999999999999
Q ss_pred HhCCcccc
Q 012490 440 KKYSSAKK 447 (462)
Q Consensus 440 ~~~P~~~~ 447 (462)
++||++..
T Consensus 293 ~~~p~~~~ 300 (471)
T TIGR03556 293 YHFPELAD 300 (471)
T ss_pred HHCcchhc
Confidence 99998754
No 3
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=100.00 E-value=6.6e-53 Score=437.40 Aligned_cols=292 Identities=30% Similarity=0.516 Sum_probs=243.0
Q ss_pred CeEEEEEeCCCCccChHHHHHhhhcCCc-eeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEE
Q 012490 124 RASIVWFRNDLRVHDNESLNTANNESVS-VLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVR 202 (462)
Q Consensus 124 ~~~LvWFRrDLRl~DN~AL~~A~~~~~~-vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~ 202 (462)
+.+|||||||||++||.||++|++.+.+ +++|||+|+.+++ ..++++.+||.++|++|+++|+++||+|+|.
T Consensus 2 ~~~l~WfrrDLR~~DN~aL~~A~~~~~~~~~~vfi~~~~~~~-------~~~~~~~~Fl~~sL~~L~~~L~~~gi~L~v~ 74 (461)
T COG0415 2 STVLVWFRRDLRLTDNAALAAACQSGQPVIIAVFILDPEQLG-------HASPRHAAFLLQSLQALQQSLAELGIPLLVR 74 (461)
T ss_pred CeEEEEeccccccCChHHHHHHHhcCCCceEEEEEechhhcc-------ccCHHHHHHHHHHHHHHHHHHHHcCCceEEE
Confidence 5689999999999999999999998877 5699999999886 3689999999999999999999999999999
Q ss_pred ECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCCCCCCCCCCCCCChhhHHHHH
Q 012490 203 VGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKV 282 (462)
Q Consensus 203 ~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~i~~~~~~~~~~ft~F~k~~ 282 (462)
.|++.+++++++++++++.||+|.+|+.++..||..++..|.+.||.++.|+|.+|++++++.++.|++|++||+|+|.|
T Consensus 75 ~~~~~~~l~~~~~~~~~~~v~~n~~~~~~~~~rD~al~~~l~~~gi~~~~~~d~~l~~p~~~~t~~~~~y~vfT~F~k~~ 154 (461)
T COG0415 75 EGDPEQVLPELAKQLAATTVFWNRDYEEWERQRDAALAQPLTEVGIAVHSFWDALLHEPGEVRTGSGEPYKVFTPFYKAW 154 (461)
T ss_pred eCCHHHHHHHHHHHhCcceEEeeeeechhHHHHHHHHHHHHHhcCceEEEeccccccCHhhccCCCCCCccccchHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcc-ccccchhhccCCCCCCCCCCCCCCCCcccccCCCchhhhccCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCC
Q 012490 283 KGVE-IRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKG 361 (462)
Q Consensus 283 ~~l~-~~~~~~~p~~l~~~p~~~~~~~~~ip~l~~l~~~~~~~~~~~~~~~~~~~~gGE~aA~~~L~~Fl~~~l~~Y~~~ 361 (462)
.... +.++.+.|..+..+... .+ .+.. ..+.. ........|.+||++|+++|++|+.+++.+|+..
T Consensus 155 ~~~~~~~~~~~~p~~~~~~~~~---~~--~~~~--~~~P~------~~~~~~~~~~~Ge~aA~~~l~~F~~~~l~~Y~~~ 221 (461)
T COG0415 155 RDRLRILRPVPAPDVLDALRDE---EP--PPEE--ISLPD------FSKFDVLLFTGGEKAALARLQDFLAEGLDDYERT 221 (461)
T ss_pred HHhcccCCCCCCcchhcccccc---cc--Cccc--ccCCc------cccccccCCCchHHHHHHHHHHHHHHHHHHHHHh
Confidence 8753 23444544433222110 00 0000 00110 0011234699999999999999999999999874
Q ss_pred CCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHHHHHHHHHHHHHHHHh
Q 012490 362 NKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRFITKK 441 (462)
Q Consensus 362 ~~~~~Rns~~~~~~TS~LSPYL~fG~ISpR~v~~~v~~~~~~~~~~~~k~~~g~~~~~~~~~~~~~EL~WREF~~~il~~ 441 (462)
|| +|+.++||+|||||+||+||||+||+++.++... .+++..++++||+|||||+|++.+
T Consensus 222 -----Rd-~p~~~~TS~LSpyL~~G~IS~r~v~~~~~~~~~~--------------~~~~~~~~~~eL~WREFy~h~~~~ 281 (461)
T COG0415 222 -----RD-FPALDGTSRLSPYLAFGVISPREVYAALLAAESD--------------AREGTAALINELIWREFYQHLLYH 281 (461)
T ss_pred -----cC-CcccccccccCHHHHcCCcCHHHHHHHHHHhhhc--------------ccchHHHHHHHHHHHHHHHHHHHh
Confidence 77 7999999999999999999999999999987532 133555777999999999999999
Q ss_pred CCccccccccCccc
Q 012490 442 YSSAKKVVEAVPAT 455 (462)
Q Consensus 442 ~P~~~~~~~~~p~~ 455 (462)
||++++.-.-.+.+
T Consensus 282 ~p~~~~~~~~~~~~ 295 (461)
T COG0415 282 YPSLSRFEPFAEKT 295 (461)
T ss_pred CCcccccccccccc
Confidence 99996644433333
No 4
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=100.00 E-value=1.6e-51 Score=437.68 Aligned_cols=294 Identities=21% Similarity=0.316 Sum_probs=225.6
Q ss_pred EEEEeCCCCccChHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEE-CC
Q 012490 127 IVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV-GK 205 (462)
Q Consensus 127 LvWFRrDLRl~DN~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~-G~ 205 (462)
|||||||||++||+||.+|++.+ +|+||||+||.+++.+ ..+.+|..||++||.+|+++|+++|++|+|+. |+
T Consensus 1 l~WFRrDLRl~DN~aL~~A~~~~-~vlpvyi~dp~~~~~~-----~~~~~~~~fl~~sL~~L~~~L~~~G~~L~v~~~g~ 74 (475)
T TIGR02766 1 IVWFRRDLRVEDNPALAAAARAG-PVIPVFVWAPEEEGQY-----YPGRVSRWWLKQSLAHLDQSLRSLGTCLVTIRSTD 74 (475)
T ss_pred CEecCCCCCcchHHHHHHHHhCC-CEEEEEEechHHhccc-----cccHHHHHHHHHHHHHHHHHHHHcCCceEEEeCCC
Confidence 69999999999999999998776 8999999999887542 35678888999999999999999999999985 89
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCCCCCCCCCCCCCChhhHHHHHhhc
Q 012490 206 PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGV 285 (462)
Q Consensus 206 ~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~i~~~~~~~~~~ft~F~k~~~~l 285 (462)
++++|.+|+++++|++||+|++|++++++||++|++.|++.||+++.+++++|++|+++..+.+++|++|++|+++|.+.
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 99999999999999999999999999999999999999999999999999999999999887889999999999998763
Q ss_pred ccc--ccchhhccCCCCCCCCCCCCCCCCcccccCCCchhhhccCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCC
Q 012490 286 EIR--KTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKGNK 363 (462)
Q Consensus 286 ~~~--~~~~~p~~l~~~p~~~~~~~~~ip~l~~l~~~~~~~~~~~~~~~~~~~~gGE~aA~~~L~~Fl~~~l~~Y~~~~~ 363 (462)
... .+...|..+... +...+.++++++.+....... ......|+|||++|+++|++|+++++..|...
T Consensus 155 ~~~~~~~~~~p~~~~~~-------~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~gGe~~A~~~L~~Fl~~~~~~Y~~~-- 224 (475)
T TIGR02766 155 PYDPESPLLPPKKIISG-------DVSKCSADDLGFEDDSEKGSN-ALLARAWSPGWSNADKALTEFINGPLLEYSKN-- 224 (475)
T ss_pred cCCCCCCCCCccccCCC-------ccccCChhhcCCCCccccccc-ccccccCCCccHHHHHHHHHHHHHHHHHHhhc--
Confidence 321 112222221100 000111122333211000000 00112499999999999999999999888764
Q ss_pred CCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHHHHHHHHHHHHHHHHhCC
Q 012490 364 DGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRFITKKYS 443 (462)
Q Consensus 364 ~~~Rns~~~~~~TS~LSPYL~fG~ISpR~v~~~v~~~~~~~~~~~~k~~~g~~~~~~~~~~~~~EL~WREF~~~il~~~P 443 (462)
||. +..++||+|||||+|||||||+||+++.+....... .+....+.+.++|++||+|||||+++++++|
T Consensus 225 ---Rd~-p~~~~tS~LSPyL~~G~ISpR~v~~~~~~~~~~~~~------~~~~~~~~s~~~f~~eL~WRef~~~~~~~~p 294 (475)
T TIGR02766 225 ---RKK-ADSATTSLLSPYLHFGEVSVRKVFHLVRMKQIAWAN------EGNSAGEESVNLFLRSIGLREYSRYISFNHP 294 (475)
T ss_pred ---CCC-CCCCCCCCCCcccccCcccHHHHHHHHHhhhhhhhh------cccCCCcccHHHHHHHHHHHHHHHHHHHhCC
Confidence 664 566899999999999999999999999642100000 0000112344456689999999999999999
Q ss_pred ccc
Q 012490 444 SAK 446 (462)
Q Consensus 444 ~~~ 446 (462)
.+.
T Consensus 295 ~~~ 297 (475)
T TIGR02766 295 FSH 297 (475)
T ss_pred ccc
Confidence 763
No 5
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=3.6e-50 Score=426.46 Aligned_cols=283 Identities=23% Similarity=0.363 Sum_probs=225.1
Q ss_pred EEEEEeCCCCccChHHHHHhhhcC-CceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEEC
Q 012490 126 SIVWFRNDLRVHDNESLNTANNES-VSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG 204 (462)
Q Consensus 126 ~LvWFRrDLRl~DN~AL~~A~~~~-~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G 204 (462)
+|||||||||++||+||.+|++.+ .+|+||||+||..+... ..|.+|++||++||.+|+++|+++|++|+|+.|
T Consensus 4 ~l~WfRrDLRl~DN~aL~~A~~~~~~~vlpvyv~dp~~~~~~-----~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g 78 (472)
T PRK10674 4 HLVWFRNDLRLHDNLALAAACRDPSARVLALFIATPAQWAAH-----DMAPRQAAFINAQLNALQIALAEKGIPLLFHEV 78 (472)
T ss_pred eEEEECCCCCcchHHHHHHHHhCCCCCEEEEEEECchhhccC-----CCCHHHHHHHHHHHHHHHHHHHHcCCceEEEec
Confidence 599999999999999999999876 47999999999876532 468999999999999999999999999999975
Q ss_pred ----ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCCCCCCCCCCCCCChhhHHH
Q 012490 205 ----KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFRE 280 (462)
Q Consensus 205 ----~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~i~~~~~~~~~~ft~F~k 280 (462)
++.++|.+|+++++|+.||+|++|++++++||++|++.|. ||.++.+++++|++++.+..+.+++|++||+|++
T Consensus 79 ~~~g~~~~vl~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~--~i~~~~~~~~~l~~~~~i~~~~~~~y~~ft~f~~ 156 (472)
T PRK10674 79 DDFAASVEWLKQFCQQHQVTHLFYNYQYEVNERQRDAAVERALR--NVVCQGFDDSVLLPPGSVMTGNHEMYKVFTPFKN 156 (472)
T ss_pred CCcCCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHcC--CCEEEEecCceEeCccccccCCCCCCCcccHHHH
Confidence 7999999999999999999999999999999999999996 8999999999999999999888899999999999
Q ss_pred HHhhccc-c--ccchhhccCCCCCCCCCCCCCCCCcccccCCCchhhhccCCCCCCCCCCccHHHHHHHHHHHHHHHhcC
Q 012490 281 KVKGVEI-R--KTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQ 357 (462)
Q Consensus 281 ~~~~l~~-~--~~~~~p~~l~~~p~~~~~~~~~ip~l~~l~~~~~~~~~~~~~~~~~~~~gGE~aA~~~L~~Fl~~~l~~ 357 (462)
+|++... . ++++.|...... ....+.+..+++... ......|+|||++|+++|++|+++++..
T Consensus 157 ~~~~~~~~~~p~~~~~p~~~~~~-------~~~~~~~~~~~~~~~-------~~~~~~~~gGe~~A~~~L~~f~~~~l~~ 222 (472)
T PRK10674 157 AFLKRLREGDPECVPAPKVRSSG-------AIEPLPPIPFNYPQQ-------SFDTALFPVGEKAAIAQLRQFCQQGAGE 222 (472)
T ss_pred HHHHhhcccCCccCCCCcccccc-------ccCCCCcccccCccc-------ccccCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 9976321 1 111111110000 000111111221110 0011348999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHHHHHHHHHHHHH
Q 012490 358 PPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRF 437 (462)
Q Consensus 358 Y~~~~~~~~Rns~~~~~~TS~LSPYL~fG~ISpR~v~~~v~~~~~~~~~~~~k~~~g~~~~~~~~~~~~~EL~WREF~~~ 437 (462)
|... || .++.++||+|||||+|||||+|+|++++.+..+... ...+...|+ +||+|||||++
T Consensus 223 Y~~~-----r~-~p~~~~tS~LSPyL~~G~iS~r~v~~~~~~~~~~~~-----------~~~~~~~fl-~eL~WRef~~~ 284 (472)
T PRK10674 223 YEQQ-----RD-FPAVDGTSRLSAYLATGVLSPRQCLHRLLAEQPQAL-----------DGGAGSVWL-NELIWREFYRH 284 (472)
T ss_pred hccc-----cC-CCCccCCCCcChhhccCcCCHHHHHHHHHHHhhhhh-----------ccCchhHHH-HHHHHHHHHHH
Confidence 9874 66 477789999999999999999999999987432210 012234566 89999999999
Q ss_pred HHHhCCcccc
Q 012490 438 ITKKYSSAKK 447 (462)
Q Consensus 438 il~~~P~~~~ 447 (462)
+++++|.+.+
T Consensus 285 ~~~~~p~~~~ 294 (472)
T PRK10674 285 LMVAYPSLCK 294 (472)
T ss_pred HHHhCCchhh
Confidence 9999999743
No 6
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=4.7e-49 Score=416.55 Aligned_cols=295 Identities=15% Similarity=0.112 Sum_probs=224.3
Q ss_pred CCCCCeEEEEEeCCCCccChHHHHHhhh--c--CCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhC
Q 012490 120 AAIRRASIVWFRNDLRVHDNESLNTANN--E--SVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQAR 195 (462)
Q Consensus 120 ~~~~~~~LvWFRrDLRl~DN~AL~~A~~--~--~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~ 195 (462)
...+..+|||||||||++||+||++|++ . +.+|+||||+||.++. .+.+|..||++||.+|+++|+++
T Consensus 19 ~~~~~~vL~WFRrDLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~--------~~~~r~~Fl~esL~~L~~~L~~~ 90 (454)
T TIGR00591 19 LRSSGVVVYWMSRDQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLA--------ATRRHYFFMLGGLDEVANECERL 90 (454)
T ss_pred CCCCCeEEEEecCchhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCccc--------ccHHHHHHHHHHHHHHHHHHHHc
Confidence 4556679999999999999999999975 2 6789999999998764 37899999999999999999999
Q ss_pred CCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCCCCCCCCCCCCCCh
Q 012490 196 GSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNY 275 (462)
Q Consensus 196 Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~i~~~~~~~~~~f 275 (462)
|++|+|+.|++.++|.+|+++++|++||+|.+|+++++++|+.|++.|++ +|.++.+++++|++++.+..+ .+|++|
T Consensus 91 g~~L~v~~g~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~rd~~v~~~l~~-~i~~~~~~~~~l~p~~~~~~~--~~y~~f 167 (454)
T TIGR00591 91 IIPFHLLDGPPKELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLLPK-DVPFQQVDAHNVVPCWAASKK--LEYAAR 167 (454)
T ss_pred CCceEEeecChHHHHHHHHHHcCCCEEEEecccCcHHHHHHHHHHHHhcC-CCcEEEECCceEeeCcccCCc--eeeeee
Confidence 99999999999999999999999999999999999999999999999966 999999999999999887654 588999
Q ss_pred hhHHHHHhhccccccchhhccCCCCCCCCCCCCC--CCCc-ccccCCCchhhhccCCCCCCCCC-CccHHHHHHHHHHHH
Q 012490 276 GGFREKVKGVEIRKTIEALDQLKGLPSRGDVEPG--DIPS-LLDLGLSQSAAMSQGGKPAANSM-KGGETEALQRLKKFA 351 (462)
Q Consensus 276 t~F~k~~~~l~~~~~~~~p~~l~~~p~~~~~~~~--~ip~-l~~l~~~~~~~~~~~~~~~~~~~-~gGE~aA~~~L~~Fl 351 (462)
|+|++. ++.........+.. ...+......+. .++. ++.+++.. .. ....| +|||++|+++|++|+
T Consensus 168 t~~~k~-~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~-~~~~~~~gGe~aA~~~L~~F~ 237 (454)
T TIGR00591 168 TIRGKI-RKLLPEYLTEFPRV-LKHPSPLDLEAGPVDWDAVRDSLAVER-------SV-EEVVWAKPGTTAGLIMLESFI 237 (454)
T ss_pred cHHHHH-HHhChhhccccCCC-ccCCcccccccCcCCHHHHHHhccCcC-------Cc-CCcCCCCCcHHHHHHHHHHHH
Confidence 877775 43221100000100 000100000000 0000 01111110 01 11237 999999999999999
Q ss_pred HHHhcCCCCCCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHHHHHHH
Q 012490 352 AEYQAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLW 431 (462)
Q Consensus 352 ~~~l~~Y~~~~~~~~Rns~~~~~~TS~LSPYL~fG~ISpR~v~~~v~~~~~~~~~~~~k~~~g~~~~~~~~~~~~~EL~W 431 (462)
++++..|... ||. |+.++||+|||||+||+||||+|++++.+.... ...+...|++||+|
T Consensus 238 ~~~l~~Y~~~-----Rn~-p~~~~tS~LSPyL~~G~IS~R~i~~~~~~~~~~--------------~~~~~~~fl~EL~W 297 (454)
T TIGR00591 238 EKRLCFFRTR-----RND-PNNDALSMLSPWLHFGQLSAQRAARAVERARGN--------------AGESVEFFEEELVV 297 (454)
T ss_pred HHHHHHHHHh-----cCC-cccccccccchHHhcCcccHHHHHHHHHHhccC--------------CchHHHHHHHHHHH
Confidence 9999999874 774 777999999999999999999999998654211 01223345599999
Q ss_pred H-HHHHHHHHhCCccccccccCcccc
Q 012490 432 R-DFFRFITKKYSSAKKVVEAVPATA 456 (462)
Q Consensus 432 R-EF~~~il~~~P~~~~~~~~~p~~~ 456 (462)
| |||+|+++++|++.. +...|.|+
T Consensus 298 R~ef~~~~~~~~p~~~~-~~~~~~w~ 322 (454)
T TIGR00591 298 RRELADNFCFYNPYYDS-LCGAYWWA 322 (454)
T ss_pred HHHHHhHhhhcCCCccc-cccchHHH
Confidence 9 899999999999965 55566664
No 7
>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=2e-37 Score=284.96 Aligned_cols=164 Identities=41% Similarity=0.648 Sum_probs=137.1
Q ss_pred EEEEEeCCCCccChHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEECC
Q 012490 126 SIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGK 205 (462)
Q Consensus 126 ~LvWFRrDLRl~DN~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G~ 205 (462)
+|||||||||++||+||++|++.+.+|+||||+||..... ...|.+|++||++||.+|+++|+++|++|+|+.|+
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 VLVWFRRDLRLHDNPALHAAAQNGDPVLPVFVFDPEEFHP-----YRIGPRRRRFLLESLADLQESLRKLGIPLLVLRGD 75 (165)
T ss_dssp EEEEESS--SSTT-HHHHHHHHTTSEEEEEEEE-HHGGTT-----CSSCHHHHHHHHHHHHHHHHHHHHTTS-EEEEESS
T ss_pred CEEEEcCCCchhhhHHHHHHHHcCCCeEEEEEeccccccc-----ccCcchHHHHHHHHHHHHHHHHHhcCcceEEEecc
Confidence 6999999999999999999999999999999999983221 03589999999999999999999999999999999
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCCCCCCCCCCCCCChhhHHHHHhhc
Q 012490 206 PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGV 285 (462)
Q Consensus 206 ~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~i~~~~~~~~~~ft~F~k~~~~l 285 (462)
+.++|.+|+++++|++||+|++|+++++++|++|++.|++.||+++.+++++|++++++..+.|++|++||+|+|+|++.
T Consensus 76 ~~~~l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~L~~~~~i~~~~~~~~~vFtpf~k~~~~~ 155 (165)
T PF00875_consen 76 PEEVLPELAKEYGATAVYFNEEYTPYERRRDERVRKALKKHGIKVHTFDDHTLVPPDDIPKKDGEPYKVFTPFRKKWEKQ 155 (165)
T ss_dssp HHHHHHHHHHHHTESEEEEE---SHHHHHHHHHHHHHHHHTTSEEEEE--SSSS-HHHCHSTTSSSHSSHHHHHHHHHCH
T ss_pred hHHHHHHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHHhcceEEEEECCcEEEeccccccCCCCCcccHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999999988899999999999999985
Q ss_pred cccccchhh
Q 012490 286 EIRKTIEAL 294 (462)
Q Consensus 286 ~~~~~~~~p 294 (462)
..++|+++|
T Consensus 156 ~~~~p~p~p 164 (165)
T PF00875_consen 156 LLEEPLPAP 164 (165)
T ss_dssp CSC------
T ss_pred CCCCCCCCC
Confidence 434555554
No 8
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=100.00 E-value=3.7e-35 Score=307.72 Aligned_cols=302 Identities=27% Similarity=0.368 Sum_probs=226.4
Q ss_pred CCCCeEEEEEeCCCCccChHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEE
Q 012490 121 AIRRASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLV 200 (462)
Q Consensus 121 ~~~~~~LvWFRrDLRl~DN~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~ 200 (462)
+.+.++|+|||+|||+||||||.+|++...++.||||+||+..+.+ ..|..|.+||.++|++|+++|+++|++|.
T Consensus 2 ~~~~~~v~wfr~~lR~~dnpal~~a~~~~~~~~~v~i~d~~~~~~~-----~~g~~~~~~l~qsL~~ld~sl~~l~~~L~ 76 (531)
T KOG0133|consen 2 ATGSKSVHWFRKGLRLHDNPALLAAAAGKEPVRPVFILDPEEAGSS-----NVGRNRWRFLLQSLEDLDQSLRELNSRLF 76 (531)
T ss_pred CCccceEEecccCcccccChhhHHHhccCCCceeEEEeCHhHhhcc-----ccchhHHHHHHHHHHHHHHHHHHhCCceE
Confidence 3567889999999999999999888877789999999999988754 77899999999999999999999999999
Q ss_pred EEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCCCCCC-CCCCCCCChhhHH
Q 012490 201 VRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPF-KLGEMPTNYGGFR 279 (462)
Q Consensus 201 v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~i~~-~~~~~~~~ft~F~ 279 (462)
+++|.++.+|..+.+..++..|.++.+++|+.+.+|..++..+.+.|+.+.....++++.++.+.. +.++++-.|..|+
T Consensus 77 v~~~~p~~vl~~~~~~~~~~~l~~~~~~~p~~~vrD~~~~~~a~~l~i~v~s~~s~~~~~~~~~i~~n~~k~pls~~~~~ 156 (531)
T KOG0133|consen 77 VFRGHPIAVLSRLLEQVGVQKLKFEYDMEPDGKVRDATIKSLATELGLSVVSPVSHTLYLPDKIIEANGGKPPLSYKTFR 156 (531)
T ss_pred EEeCCchHHHhhhhhccceeEEEEEEeccCccccccHHHHHHHHHhhhhhcccCchhhhcHHHHHHhcCCCCcccccccc
Confidence 999999999999999999999999999999999999999999999999999999999999988764 4678888999999
Q ss_pred HHHhhccccccchhhcc---CCCCCCC-CCC-CCCCCCcccccCCCchhhhccCCCCCCCCCCccHHHHHHHHHHHHHHH
Q 012490 280 EKVKGVEIRKTIEALDQ---LKGLPSR-GDV-EPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEY 354 (462)
Q Consensus 280 k~~~~l~~~~~~~~p~~---l~~~p~~-~~~-~~~~ip~l~~l~~~~~~~~~~~~~~~~~~~~gGE~aA~~~L~~Fl~~~ 354 (462)
.....+..+.....+.. .+..|.- ... ....+|+++.+.+.+. .. ....|.+|++.|+.+|+.|+...
T Consensus 157 ~~~~~~~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~------~~-~~~~~~~g~s~al~~l~~~l~~~ 229 (531)
T KOG0133|consen 157 GVCQSMSAPKIPALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPS------NY-GEVVWRGGESEALKRLDAHLKVP 229 (531)
T ss_pred ccccccccccccccccccccCCCChhhhhhcccccccCCchhhccCcc------cc-cccccCCcccchhHHHHHHhhHH
Confidence 88776432211000000 0011100 000 0113456666665542 11 12349999999999999999987
Q ss_pred hcCCCCCCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHH--HHHHHhhhhcccccCCCCCCCCCCcchHHHHHHHHHH
Q 012490 355 QAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFD--ELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWR 432 (462)
Q Consensus 355 l~~Y~~~~~~~~Rns~~~~~~TS~LSPYL~fG~ISpR~v~~--~v~~~~~~~~~~~~k~~~g~~~~~~~~~~~~~EL~WR 432 (462)
+-.++......++++ ....+++.|||||+|||+|.|.+++ .+.+...+. .|++. ...+ -+..||+||
T Consensus 230 ~~~an~~~~~~~~~~-~~~~s~~~Ls~yL~fg~~svr~~~~~~~~k~V~~~~----~~~s~----~~es--~~~~qv~Wr 298 (531)
T KOG0133|consen 230 LWVANLELRYSNANS-RVKISTTVLSPYLKFGCLSVRYFYRCVRLKQVKWKA----KKNSL----PPES--LFLGQVAWR 298 (531)
T ss_pred HHHhhhhccccccch-hcCCCccccccceeeccceeEeehhHhHHHHHHHhh----hcccC----Cccc--cccceeeee
Confidence 544443322233443 2235577999999999999999995 222222211 11111 1111 366899999
Q ss_pred HHHHHHHHhCCcc
Q 012490 433 DFFRFITKKYSSA 445 (462)
Q Consensus 433 EF~~~il~~~P~~ 445 (462)
||||++...+|..
T Consensus 299 e~~y~~~~n~p~~ 311 (531)
T KOG0133|consen 299 EFFYTAAFNTPYF 311 (531)
T ss_pred chhhHhhcCCccc
Confidence 9999999999884
No 9
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=99.83 E-value=4.7e-19 Score=178.29 Aligned_cols=293 Identities=16% Similarity=0.151 Sum_probs=198.6
Q ss_pred CeEEEEEeCCCCccChHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEE
Q 012490 124 RASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV 203 (462)
Q Consensus 124 ~~~LvWFRrDLRl~DN~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~ 203 (462)
..+++|.-.|.-.+++.||-. +. +-..|.+++-..+. ++.+.+.++..++..+|+++.++|+..|..+.+..
T Consensus 2 ~~~~~lvLgdQL~~~~~al~~---d~-~~~~vllvE~~~~a----~~~r~HkqKl~lv~aAMR~Fad~LraeG~~V~Y~~ 73 (505)
T COG3046 2 MSSVVLVLGDQLSEDHSALGD---DR-SQDGVLLVESAAEA----RYRRHHKQKLVLVFAAMRHFADELRAEGLKVRYER 73 (505)
T ss_pred CceEEEEeccccccccchhcc---Cc-ccCcEEEehhHhHh----hhhhcchhhhHHHHHHHHHHHHHHhhCCceeEEEE
Confidence 357899999999999999865 21 12244444433322 23466789999999999999999999999988775
Q ss_pred CC---hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCC-eeeeCCCCCC-CCCCCCCChhhH
Q 012490 204 GK---PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS-TLYHLDDLPF-KLGEMPTNYGGF 278 (462)
Q Consensus 204 G~---~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~-~L~~p~~i~~-~~~~~~~~ft~F 278 (462)
-+ ....|...++.++.++|++.+ |.+.+.+.+++..--+.||++..+++. .|.++.++.. -.++++-.+..|
T Consensus 74 ~~~~~~~~~l~~~l~~~~~d~~~~~~---p~~~~l~~~m~~L~~~~g~~i~~~~~~~Fl~s~a~f~~w~~~~k~~lme~F 150 (505)
T COG3046 74 ADDNSFGGELRRALEAYPGDRVQVQE---PGDHRLEARMKSLSMALGIEITEVENPHFLCSRAEFDAWAGDRKPLLMESF 150 (505)
T ss_pred cCCcccchHHHHHHHhcCCCeEEEec---CcchhHHHHHHhhhhhcCceeEEecCcceecCHHHhhhhhccCcchhhHHH
Confidence 43 467788899999999999965 455555555555544679999999887 6888887763 233455567789
Q ss_pred HHHHhh----cccc-ccchhh-----ccCCCC------CCCCCCCCCCCC-cccc---cCCCchhhhccCCCCCCCCCCc
Q 012490 279 REKVKG----VEIR-KTIEAL-----DQLKGL------PSRGDVEPGDIP-SLLD---LGLSQSAAMSQGGKPAANSMKG 338 (462)
Q Consensus 279 ~k~~~~----l~~~-~~~~~p-----~~l~~~------p~~~~~~~~~ip-~l~~---l~~~~~~~~~~~~~~~~~~~~g 338 (462)
|+..++ ++.. +|..-- ++-++. |.+..+.+.++. .+.+ -.+.+ .-|....+.|+.
T Consensus 151 Yr~mRkr~g~LM~~dqP~GGrWnFDaeNR~~~~pdL~~P~pl~fppd~~vq~v~e~Ve~~f~~-----~~G~~e~F~wpv 225 (505)
T COG3046 151 YRRMRKRTGILMEDDQPEGGRWNFDAENRKKLPPDLLPPKPLKFPPDEIVQEVKERVERLFPD-----NFGQVEGFGWPV 225 (505)
T ss_pred HHHHHHhhceeccCCCCCCCcCCcCcccccCCCCcCCCCCCCCCCCcchhHHHHHHHHhhCCC-----CCCccccCCCCC
Confidence 998876 2221 222100 000111 111111111110 0100 01111 124444568999
Q ss_pred cHHHHHHHHHHHHHHHhcCC---CCCCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCC
Q 012490 339 GETEALQRLKKFAAEYQAQP---PKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGES 415 (462)
Q Consensus 339 GE~aA~~~L~~Fl~~~l~~Y---~~~~~~~~Rns~~~~~~TS~LSPYL~fG~ISpR~v~~~v~~~~~~~~~~~~k~~~g~ 415 (462)
..++|...|++||+.+|.++ .+.+. ++. + ...+|.||+||+.|.|+|++|+.++.++... |+
T Consensus 226 tr~~A~~~L~~Fi~~~L~nFG~yQDam~---~d~-~-~L~HSllS~alNigLL~PleVi~Aa~~Ay~~----------g~ 290 (505)
T COG3046 226 TRTQALRALKHFIADRLPNFGSYQDAMS---ADD-P-HLWHSLLSFALNIGLLTPLEVIRAALKAYRE----------GD 290 (505)
T ss_pred CHHHHHHHHHHHHHHhhhcCCcHHHHHh---cCC-c-hhHHHHHHHHhhccCCCHHHHHHHHHHhhcc----------CC
Confidence 99999999999999998754 44432 331 1 2579999999999999999999999987653 23
Q ss_pred CCCCcchHHHHHHHHHHHHHHHHHHhC-Ccccc
Q 012490 416 GSSGAGSNWLMFELLWRDFFRFITKKY-SSAKK 447 (462)
Q Consensus 416 ~~~~~~~~~~~~EL~WREF~~~il~~~-P~~~~ 447 (462)
.+.++.+.++++.|+||||.|+|++.. |++..
T Consensus 291 ipLN~VEGFvRQiiGWREfmRgiY~~~~P~y~t 323 (505)
T COG3046 291 IPLNSVEGFVRQIIGWREFMRGIYWLKMPDYAT 323 (505)
T ss_pred CchHHHHHHHHHHhhHHHHHHHhhhhcCCchhh
Confidence 356778888888899999999999988 77754
No 10
>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=99.73 E-value=3e-18 Score=170.57 Aligned_cols=99 Identities=31% Similarity=0.572 Sum_probs=76.6
Q ss_pred ccHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCC
Q 012490 338 GGETEALQRLKKFAAEYQAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGS 417 (462)
Q Consensus 338 gGE~aA~~~L~~Fl~~~l~~Y~~~~~~~~Rns~~~~~~TS~LSPYL~fG~ISpR~v~~~v~~~~~~~~~~~~k~~~g~~~ 417 (462)
|||++|+++|++|+++++..|... ||. ++.++||+|||||+|||||||+|++++.+...... .
T Consensus 1 GGe~~A~~~L~~Fl~~~l~~Y~~~-----r~~-p~~~~~S~LSpyL~~G~lS~r~v~~~~~~~~~~~~-----------~ 63 (277)
T PF03441_consen 1 GGETAALKRLEEFLKERLADYGEQ-----RDD-PAADGTSRLSPYLNFGCLSPREVYRAVKKAQEAND-----------A 63 (277)
T ss_dssp SSHHHHHHHHHHHHHHCGGGHHHH-----TT--TTSTTS---HHHHHTTSS-HHHHHHHHHHHHHCHT-----------C
T ss_pred CcHHHHHHHHHHHHHHHHHhhchh-----ccC-CCcCCcCcccHHHhCCCcCHHHHHHHHHHHhhhcc-----------c
Confidence 799999999999999999999874 664 67889999999999999999999999998865100 0
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHhCCccccccccCc
Q 012490 418 SGAGSNWLMFELLWRDFFRFITKKYSSAKKVVEAVP 453 (462)
Q Consensus 418 ~~~~~~~~~~EL~WREF~~~il~~~P~~~~~~~~~p 453 (462)
...+.+.|++||+|||||+++++++|++.+.....|
T Consensus 64 ~~~~~~~f~~eL~WRef~~~~~~~~p~~~~~~~~~~ 99 (277)
T PF03441_consen 64 HSESAEKFIRELIWREFYRQLLYHNPNLDMFENFNP 99 (277)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHSGGCTCSSTSST
T ss_pred ccchHHHHHHHHHHHHHHHHHHHhCCcchhhhhccH
Confidence 113556777999999999999999999863433333
No 11
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=99.12 E-value=5.4e-12 Score=133.67 Aligned_cols=420 Identities=21% Similarity=0.119 Sum_probs=254.7
Q ss_pred ccccCccccccCCCccceeeeeeecccccCCCccccCCCcccc----ccCCCCCCCCCcccccceeeeeccCCCCCCCcc
Q 012490 16 NEEQNPLATIPSQSPFATLSLSFSLPQVLPANTFFIQPKISTL----FSHQPNKVKVPTQASTLTHISLSASSTLSPSKI 91 (462)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (462)
.+.+.+|.++-+. |. .+|+..+ .|.+...+ +++++.+++.+++.+.++|++++.-++-+.---
T Consensus 69 ~~l~~~L~v~~~~-p~--~vl~~~~----------~~~~~~~l~~~~~~~p~~~vrD~~~~~~a~~l~i~v~s~~s~~~~ 135 (531)
T KOG0133|consen 69 RELNSRLFVFRGH-PI--AVLSRLL----------EQVGVQKLKFEYDMEPDGKVRDATIKSLATELGLSVVSPVSHTLY 135 (531)
T ss_pred HHhCCceEEEeCC-ch--HHHhhhh----------hccceeEEEEEEeccCccccccHHHHHHHHHhhhhhcccCchhhh
Confidence 5678889999877 74 4444444 45555554 799999999999999999999998875444446
Q ss_pred ccccccccCCCCCCCCCCCCCCCCCCCCCCCCCeEEEEEeCCCCccChHHHHHhhhcCCceeeEEEeCCCccCCCC--CC
Q 012490 92 SFKSTLSANPLQSPLSLGPHRPLDPNNGAAIRRASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSS--SG 169 (462)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LvWFRrDLRl~DN~AL~~A~~~~~~vlpVyi~dp~~~~~~~--~g 169 (462)
.++..+.+|+.+.+++..+.+...++-.+.... .++|++.+++.++|.....++....+++..+.++++.++... +|
T Consensus 136 ~~~~~i~~n~~k~pls~~~~~~~~~~~~~~~~p-~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~~~~~~~~~~g 214 (531)
T KOG0133|consen 136 LPDKIIEANGGKPPLSYKTFRGVCQSMSAPKIP-ALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPSNYGEVVWRGG 214 (531)
T ss_pred cHHHHHHhcCCCCcccccccccccccccccccc-ccccccccCCCChhhhhhcccccccCCchhhccCcccccccccCCc
Confidence 777789999999999999999999988887776 899999999999999887777666777888888887665443 34
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCe
Q 012490 170 FDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIE 249 (462)
Q Consensus 170 ~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~ 249 (462)
......+.-.|+... .+..++...+....++.+....+|...++...++..+++.+....++..+......-.+.++.
T Consensus 215 ~s~al~~l~~~l~~~--~~~an~~~~~~~~~~~~~~s~~~Ls~yL~fg~~svr~~~~~~~~k~V~~~~~~~s~~~es~~~ 292 (531)
T KOG0133|consen 215 ESEALKRLDAHLKVP--LWVANLELRYSNANSRVKISTTVLSPYLKFGCLSVRYFYRCVRLKQVKWKAKKNSLPPESLFL 292 (531)
T ss_pred ccchhHHHHHHhhHH--HHHhhhhccccccchhcCCCccccccceeeccceeEeehhHhHHHHHHHhhhcccCCcccccc
Confidence 444444555566555 557777778888888877777788888887777777776644344443333333222222244
Q ss_pred EEEEeCCeeeeCCCCCCCCCCCCCChhhHHHHHhhccc----cccchhhccCCCCCCCCCCCCCCCCcccccCCCchhhh
Q 012490 250 VKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVEI----RKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAM 325 (462)
Q Consensus 250 v~~~~~~~L~~p~~i~~~~~~~~~~ft~F~k~~~~l~~----~~~~~~p~~l~~~p~~~~~~~~~ip~l~~l~~~~~~~~ 325 (462)
-...|....++.........+++ +.+.+..... +....+-+...++|..+.+....+++.=+.+.... +
T Consensus 293 ~qv~Wre~~y~~~~n~p~~~~m~-----~n~~~~~ipw~~n~~~~~aw~~G~tG~P~ida~m~~l~~~gw~h~~~R~--~ 365 (531)
T KOG0133|consen 293 GQVAWREFFYTAAFNTPYFDDMP-----GNKILLQIPWDKNPPKLAAWLEGLTGYPWLDAGMRQLLASGWEHHRSRT--I 365 (531)
T ss_pred ceeeeechhhHhhcCCccccccc-----cccccccCCcccChhhhHHHHcCCCCCCchhHHHHHHHHHHHHhcccch--h
Confidence 44445555554332211111111 1111111111 01111112233344321110000000000011110 0
Q ss_pred ccCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCC-CCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhh
Q 012490 326 SQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKGNKD-GNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSI 404 (462)
Q Consensus 326 ~~~~~~~~~~~~gGE~aA~~~L~~Fl~~~l~~Y~~~~~~-~~Rns~~~~~~TS~LSPYL~fG~ISpR~v~~~v~~~~~~~ 404 (462)
.. ........-+++.++.+.+.+|+.+.=..-+.+... .+-++..+..+-...||.+--|-++|+-.|.+..--.-..
T Consensus 366 va-sf~tr~~L~i~w~eg~~~F~~~llD~D~~~~agnW~~~S~~s~f~~~~~~~ysp~~~~kk~dP~g~yir~~lp~l~~ 444 (531)
T KOG0133|consen 366 VA-SFLTRGDLLISWREGLDVFMEYLLDADSSKNAGNWMWLSSTSHFFDQFDRVYSPVALGKKLDPDGLYIRQWLPELRS 444 (531)
T ss_pred hH-hHhhccceeeeHHHHHHHHHHHhcchhhhcCCCccceeccccccccccccccCHHHHhCcCCcchhhHHHHhHHHhc
Confidence 00 000112456788899999888886531111111000 0001223444556789999999999999998765322111
Q ss_pred cccccCCCCCCCCCCcchHHHHHHHHHHHHHHHHHHhCCccccccccCccccccccC
Q 012490 405 SAASKWNDGESGSSGAGSNWLMFELLWRDFFRFITKKYSSAKKVVEAVPATACTGAL 461 (462)
Q Consensus 405 ~~~~~k~~~g~~~~~~~~~~~~~EL~WREF~~~il~~~P~~~~~~~~~p~~~~~~~~ 461 (462)
.... -.-..-+...+..+...+++|++|.+-+..+.-+-+++.|+.+++.|+|+.
T Consensus 445 ~p~~--~i~~pW~~p~~~~~~~~~~lg~~Yp~~iv~~~~a~k~~~e~~~~~~~~~~~ 499 (531)
T KOG0133|consen 445 GPMH--FIYEPWAAPEGVQTAAGELLGVDYPKPIVKLASAAKRNMEAMGCMWSIGAV 499 (531)
T ss_pred CCcc--eeccCCCCcHHHhhhhhhhhhcccchhhhhhHHhhHhHHHHHHHHHhhccc
Confidence 0000 000000112344567789999999999999999999999999999999875
No 12
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=98.48 E-value=3.4e-07 Score=88.54 Aligned_cols=147 Identities=13% Similarity=0.163 Sum_probs=88.3
Q ss_pred EEEEeCCCCccChHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEEC--
Q 012490 127 IVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG-- 204 (462)
Q Consensus 127 LvWFRrDLRl~DN~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G-- 204 (462)
|+|.-.|.-..++++|.. ...+ ..|++++-..+.. +...+..|+.+++.||+++.++|+++|..+.++.-
T Consensus 1 L~lIlgdQL~~~~~~l~~-~~~~---~~v~mvE~~~~~~----~~~~HkqKl~l~~saMRhfa~~L~~~G~~V~Y~~~~~ 72 (224)
T PF04244_consen 1 LRLILGDQLFEDHPALRD-DPAD---DRVLMVEVPEEFT----YVPHHKQKLVLFFSAMRHFADELRAKGFRVHYIELDD 72 (224)
T ss_dssp EEE--TT---TT-HHHHT--TTT----EEEEE--HHHHH----SS---HHHHHHHHHHHHHHHHHHHHTT--EEEE-TT-
T ss_pred CeEeccCCCCCccccccc-CCCC---CEEEEEEchHHhC----cCcccHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCCC
Confidence 578888999999999866 3333 4666666443321 24678899999999999999999999999999863
Q ss_pred -----ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCe-eeeCCCCC-CCCCCCCCChhh
Q 012490 205 -----KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGST-LYHLDDLP-FKLGEMPTNYGG 277 (462)
Q Consensus 205 -----~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~-L~~p~~i~-~~~~~~~~~ft~ 277 (462)
+..+.|..++++++++.|.+ ++|.+.+.+++++++|++.||++..+++.. |.+++++. +-.|++...+..
T Consensus 73 ~~~~~s~~~~L~~~~~~~~~~~~~~---~~P~d~~l~~~l~~~~~~~~i~~~~~~~~~Fl~s~~~f~~~~~~~k~~~Me~ 149 (224)
T PF04244_consen 73 PENTQSFEDALARALKQHGIDRLHV---MEPGDYRLEQRLESLAQQLGIPLEVLEDPHFLTSREEFAEWFEGRKRLRMEY 149 (224)
T ss_dssp TT--SSHHHHHHHHHHHH----EEE---E--S-HHHHHHHHH----SSS-EEEE--TTSSS-HHHHHHHHTT-SS--HHH
T ss_pred ccccccHHHHHHHHHHHcCCCEEEE---ECCCCHHHHHHHHhhhcccCCceEEeCCCCccCCHHHHHHHHccCCceeHHH
Confidence 34688999999999999988 457888889999999999999999998875 55555543 223455567889
Q ss_pred HHHHHhh
Q 012490 278 FREKVKG 284 (462)
Q Consensus 278 F~k~~~~ 284 (462)
||+.+++
T Consensus 150 FYR~mRk 156 (224)
T PF04244_consen 150 FYREMRK 156 (224)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 9999887
No 13
>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=91.14 E-value=1.6 Score=41.41 Aligned_cols=97 Identities=21% Similarity=0.177 Sum_probs=59.6
Q ss_pred HHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEE--C---ChHHH----H
Q 012490 140 ESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV--G---KPETV----L 210 (462)
Q Consensus 140 ~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~--G---~~~~~----L 210 (462)
-+|+.|.+.|..++++++..+.... +..|....+..+++.-+.+|++++++. + +..+. |
T Consensus 14 ~al~~a~~~G~~v~~l~~~~~~~~~------------~~~~h~~~~e~~~~~A~~lgipl~~i~~~~~~e~~~~~l~~~l 81 (194)
T cd01994 14 YALYRALEEGHEVVALLNLTPEEGS------------SMMYHTVNHELLELQAEAMGIPLIRIEISGEEEDEVEDLKELL 81 (194)
T ss_pred HHHHHHHHcCCEEEEEEEEecCCCC------------cccccccCHHHHHHHHHHcCCcEEEEeCCCCchHHHHHHHHHH
Confidence 4566677777778888887654321 111222345666677788899999886 2 22233 3
Q ss_pred HHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEE
Q 012490 211 VELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 211 ~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~ 252 (462)
.++.++ |++.|++-.-..-+.+.| +++.|.+.|++...
T Consensus 82 ~~~~~~-g~~~vv~G~i~sd~~~~~---~e~~~~~~gl~~~~ 119 (194)
T cd01994 82 RKLKEE-GVDAVVFGAILSEYQRTR---VERVCERLGLEPLA 119 (194)
T ss_pred HHHHHc-CCCEEEECccccHHHHHH---HHHHHHHcCCEEEe
Confidence 333444 688888876555454444 56677778887763
No 14
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=90.98 E-value=2.3 Score=44.27 Aligned_cols=107 Identities=17% Similarity=0.138 Sum_probs=68.0
Q ss_pred hHHHHHhhh---c---CCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh------CCCcEEEE--E-
Q 012490 139 NESLNTANN---E---SVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQA------RGSDLVVR--V- 203 (462)
Q Consensus 139 N~AL~~A~~---~---~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~------~Gi~L~v~--~- 203 (462)
..|+.+|++ . +..|..|++.++..... . ...-..-.-+-++..++.+++ .|+..... .
T Consensus 19 ~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~------~-~~~~~~~~eelle~~~~~~~~~l~~~~~gV~ve~~vv~~ 91 (357)
T PRK12652 19 RQTVAYAVESAEEAAETPTVHLVAAASGRAVDP------E-GQDELAAAEELLERVEVWATEDLGDDASSVTIETALLGT 91 (357)
T ss_pred HHHHHHHHHHHHhcCCCCEEEEEEEecCccccc------c-hhHHHHHHHHHHHHHHHHHHHhhhcccCCCceEEEEEec
Confidence 345666542 2 35788899988643211 1 110001111234444444443 47765443 3
Q ss_pred -------CChHHHHHHHHHHhCCCEEEEeccCCchHHH-HHHHHHHHhhhcCCeEEE
Q 012490 204 -------GKPETVLVELAKAIGADAVYAHREVSHDEVK-SEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 204 -------G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~-rd~~v~~~l~~~gI~v~~ 252 (462)
|++.+.+.+.+++.+++.|++..+|.|.... .-+-++..|.+.||+++.
T Consensus 92 ~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 (357)
T PRK12652 92 DEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAPMLQPLERELARAGITYEE 148 (357)
T ss_pred cccccCCCCHHHHHHHHHHHcCCCEEEECCCCCCCCCCcccchHHHHHHhcCCceec
Confidence 8999999999999999999999999988643 345677778888888774
No 15
>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=90.93 E-value=1.5 Score=42.52 Aligned_cols=97 Identities=15% Similarity=0.076 Sum_probs=63.0
Q ss_pred hHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEE--C---ChHHHHHHH
Q 012490 139 NESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV--G---KPETVLVEL 213 (462)
Q Consensus 139 N~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~--G---~~~~~L~~L 213 (462)
.-||+.|.+. ..|.+++..-+.... +..|.-..+..++.+-+.+|++|+.+. | +..+.|.+.
T Consensus 14 ~lAl~~~~~~-~~V~~L~~~~~~~~~------------s~~~h~~~~~~~~~qA~algiPl~~~~~~~~~e~~~~~l~~~ 80 (222)
T TIGR00289 14 ILALYKALEE-HEVISLVGVFSENEE------------SYMFHSPNLHLTDLVAEAVGIPLIKLYTSGEEEKEVEDLAGQ 80 (222)
T ss_pred HHHHHHHHHc-CeeEEEEEEcCCCCC------------ccccccCCHHHHHHHHHHcCCCeEEEEcCCchhHHHHHHHHH
Confidence 4567777776 567777776654321 223333355666677788899998765 3 244555566
Q ss_pred HHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEE
Q 012490 214 AKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (462)
Q Consensus 214 ~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~ 251 (462)
+++.|++.|++-.=...+.+.| +++.|++.|++..
T Consensus 81 l~~~gv~~vv~GdI~s~~qr~~---~e~vc~~~gl~~~ 115 (222)
T TIGR00289 81 LGELDVEALCIGAIESNYQKSR---IDKVCRELGLKSI 115 (222)
T ss_pred HHHcCCCEEEECccccHHHHHH---HHHHHHHcCCEEe
Confidence 6777999998877555555444 6667777888766
No 16
>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=87.88 E-value=4.5 Score=39.29 Aligned_cols=97 Identities=15% Similarity=0.071 Sum_probs=60.9
Q ss_pred hHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEE-----CChHHHHHHH
Q 012490 139 NESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV-----GKPETVLVEL 213 (462)
Q Consensus 139 N~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~-----G~~~~~L~~L 213 (462)
+-||+.|.+. ..|.++..+-|... .+..|..-.+.-++.+-+.+|++|+.+. ++-.+.|.++
T Consensus 14 ~~al~~a~~~-~~v~~L~t~~~~~~------------~s~~~H~~~~~~~~~qA~algipl~~~~~~~~~e~~~e~l~~~ 80 (223)
T TIGR00290 14 CLALYHALKE-HEVISLVNIMPENE------------ESYMFHGVNAHLTDLQAESIGIPLIKLYTEGTEEDEVEELKGI 80 (223)
T ss_pred HHHHHHHHHh-CeeEEEEEEecCCC------------CcccccccCHHHHHHHHHHcCCCeEEeecCCCccHHHHHHHHH
Confidence 4678888877 66777666544321 1122221133444445567899997743 2355667777
Q ss_pred HHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEE
Q 012490 214 AKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (462)
Q Consensus 214 ~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~ 251 (462)
+++.|++.|++-.=...+.+.| +++.|++.|++..
T Consensus 81 l~~~gv~~vv~GdI~s~~qr~~---~e~v~~~lgl~~~ 115 (223)
T TIGR00290 81 LHTLDVEAVVFGAIYSEYQKTR---IERVCRELGLKSF 115 (223)
T ss_pred HHHcCCCEEEECCcccHHHHHH---HHHHHHhcCCEEe
Confidence 7788999999877655555444 5666777788766
No 17
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=87.82 E-value=4.1 Score=39.42 Aligned_cols=99 Identities=19% Similarity=0.156 Sum_probs=66.5
Q ss_pred hHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEE--C---ChHHHHHHH
Q 012490 139 NESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV--G---KPETVLVEL 213 (462)
Q Consensus 139 N~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~--G---~~~~~L~~L 213 (462)
+-||+.|.+.|..|..+.++-|.... ++.|..-.+.-....-+..|++++... | .-.+.|.++
T Consensus 14 ~~Al~~a~~~G~eV~~Ll~~~p~~~d------------S~m~H~~n~~~~~~~Ae~~gi~l~~~~~~g~~e~eve~L~~~ 81 (223)
T COG2102 14 FYALYLALEEGHEVVYLLTVKPENGD------------SYMFHTPNLELAELQAEAMGIPLVTFDTSGEEEREVEELKEA 81 (223)
T ss_pred HHHHHHHHHcCCeeEEEEEEecCCCC------------eeeeeccchHHHHHHHHhcCCceEEEecCccchhhHHHHHHH
Confidence 77899999999888888888765331 111211222222223345699987764 3 245777788
Q ss_pred HHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEE
Q 012490 214 AKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 214 ~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~ 252 (462)
++..+++.|+.-.-++.+.+.| ++..|++.|+.+..
T Consensus 82 l~~l~~d~iv~GaI~s~yqk~r---ve~lc~~lGl~~~~ 117 (223)
T COG2102 82 LRRLKVDGIVAGAIASEYQKER---VERLCEELGLKVYA 117 (223)
T ss_pred HHhCcccEEEEchhhhHHHHHH---HHHHHHHhCCEEee
Confidence 8889999999988777676655 66667778887664
No 18
>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=85.20 E-value=13 Score=30.71 Aligned_cols=76 Identities=20% Similarity=0.273 Sum_probs=50.0
Q ss_pred hcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcE--EEEECChHHHHHHHHHHhCCCEEEE
Q 012490 147 NESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDL--VVRVGKPETVLVELAKAIGADAVYA 224 (462)
Q Consensus 147 ~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L--~v~~G~~~~~L~~L~~~~~a~~V~~ 224 (462)
..+.++..+|+.++..... .........-..+.|.++.+.+...|+++ .+..|++.+.|.+.+++.+++.|+.
T Consensus 25 ~~~~~i~~l~v~~~~~~~~-----~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvi 99 (130)
T cd00293 25 RLGAELVLLHVVDPPPSSA-----AELAELLEEEARALLEALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVM 99 (130)
T ss_pred hcCCEEEEEEEecCCCCcc-----hhHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEE
Confidence 4567888899987532210 00011222334566777777666678777 4456888899999999999999988
Q ss_pred ecc
Q 012490 225 HRE 227 (462)
Q Consensus 225 ~~e 227 (462)
...
T Consensus 100 g~~ 102 (130)
T cd00293 100 GSR 102 (130)
T ss_pred cCC
Confidence 653
No 19
>PRK09982 universal stress protein UspD; Provisional
Probab=83.89 E-value=21 Score=31.28 Aligned_cols=112 Identities=13% Similarity=0.063 Sum_probs=60.3
Q ss_pred hHHHHHhh----hcCCceeeEEEeCCCccCCCCCCCCCCCHH---HHHHHHHHHHHHHHHHHhCCCcEEEEECChHHHHH
Q 012490 139 NESLNTAN----NESVSVLPVYCFDPRDYGKSSSGFDKTGPY---RASFLIESVSDLRKNLQARGSDLVVRVGKPETVLV 211 (462)
Q Consensus 139 N~AL~~A~----~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~---r~~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~ 211 (462)
..||..|. +.+..+..+++.++.........+...... ......+.|+++.+.+...++...+..|++.+.+.
T Consensus 17 ~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~G~p~~~I~ 96 (142)
T PRK09982 17 ALLVNKALELARHNDAHLTLIHIDDGLSELYPGIYFPATEDILQLLKNKSDNKLYKLTKNIQWPKTKLRIERGEMPETLL 96 (142)
T ss_pred HHHHHHHHHHHHHhCCeEEEEEEccCcchhchhhhccchHHHHHHHHHHHHHHHHHHHHhcCCCcceEEEEecCHHHHHH
Confidence 45565554 346678888998753211000000000011 11122233444444444345677788899999999
Q ss_pred HHHHHhCCCEEEEeccCCchHHHH-HHHHHHHhhhcCCeEEE
Q 012490 212 ELAKAIGADAVYAHREVSHDEVKS-EEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 212 ~L~~~~~a~~V~~~~ey~p~e~~r-d~~v~~~l~~~gI~v~~ 252 (462)
+.+++.+++-|++-.. .....+ --.-.+.+....++|-.
T Consensus 97 ~~A~~~~aDLIVmG~~--~~~~~~~~~va~~V~~~s~~pVLv 136 (142)
T PRK09982 97 EIMQKEQCDLLVCGHH--HSFINRLMPAYRGMINKMSADLLI 136 (142)
T ss_pred HHHHHcCCCEEEEeCC--hhHHHHHHHHHHHHHhcCCCCEEE
Confidence 9999999999999754 222221 11223344455566553
No 20
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=82.43 E-value=18 Score=30.50 Aligned_cols=84 Identities=10% Similarity=0.053 Sum_probs=54.6
Q ss_pred hHHHHHhhh----cCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEE---ECChHHHHH
Q 012490 139 NESLNTANN----ESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVR---VGKPETVLV 211 (462)
Q Consensus 139 N~AL~~A~~----~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~---~G~~~~~L~ 211 (462)
..+|.+|.. .+.++..++++++...... ........-..+.+..+.+.+++.|++.... .|++.+.+.
T Consensus 13 ~~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~ 87 (132)
T cd01988 13 RDLLELAAALARAQNGEIIPLNVIEVPNHSSP-----SQLEVNVQRARKLLRQAERIAASLGVPVHTIIRIDHDIASGIL 87 (132)
T ss_pred HHHHHHHHHHhhcCCCeEEEEEEEecCCCCCc-----chhHHHHHHHHHHHHHHHHHhhhcCCceEEEEEecCCHHHHHH
Confidence 345655542 4567888899886432100 0011223345566777777778888876543 378889999
Q ss_pred HHHHHhCCCEEEEecc
Q 012490 212 ELAKAIGADAVYAHRE 227 (462)
Q Consensus 212 ~L~~~~~a~~V~~~~e 227 (462)
+++++++++-|++-..
T Consensus 88 ~~a~~~~~dlIV~G~~ 103 (132)
T cd01988 88 RTAKERQADLIIMGWH 103 (132)
T ss_pred HHHHhcCCCEEEEecC
Confidence 9999999999988664
No 21
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=81.80 E-value=21 Score=31.07 Aligned_cols=90 Identities=18% Similarity=0.084 Sum_probs=50.8
Q ss_pred ChHHHHHhhh----cCCceeeEEEeCCCccCCCCCCCC-CCCH---HHHHHHHHHHHHHHHHHHhCCCcE--EEEEC-Ch
Q 012490 138 DNESLNTANN----ESVSVLPVYCFDPRDYGKSSSGFD-KTGP---YRASFLIESVSDLRKNLQARGSDL--VVRVG-KP 206 (462)
Q Consensus 138 DN~AL~~A~~----~~~~vlpVyi~dp~~~~~~~~g~~-~~~~---~r~~Fl~esL~~L~~~L~~~Gi~L--~v~~G-~~ 206 (462)
-..||.+|++ .+.++..+++.++........+.. .... ....-..+-|+...+.+++.|+.. ++..| ++
T Consensus 12 s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~g~~~ 91 (146)
T cd01989 12 SKNALKWALDNLATKGQTIVLVHVHPPITSIPSSSGKLEVASAYKQEEDKEAKELLLPYRCFCSRKGVQCEDVVLEDDDV 91 (146)
T ss_pred cHHHHHHHHHhccCCCCcEEEEEeccCcccCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCeEEEEEEeCCcH
Confidence 3456666653 366788899987643321100000 0000 001122334444555555566544 44555 88
Q ss_pred HHHHHHHHHHhCCCEEEEecc
Q 012490 207 ETVLVELAKAIGADAVYAHRE 227 (462)
Q Consensus 207 ~~~L~~L~~~~~a~~V~~~~e 227 (462)
.+.|.+.+++++++.|++-..
T Consensus 92 ~~~I~~~a~~~~~dlIV~Gs~ 112 (146)
T cd01989 92 AKAIVEYVADHGITKLVMGAS 112 (146)
T ss_pred HHHHHHHHHHcCCCEEEEecc
Confidence 999999999999999988653
No 22
>PRK15005 universal stress protein F; Provisional
Probab=80.24 E-value=28 Score=30.12 Aligned_cols=45 Identities=24% Similarity=0.383 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHhCC--CcEEEEECChHHHHHHHHHHhCCCEEEEecc
Q 012490 183 ESVSDLRKNLQARG--SDLVVRVGKPETVLVELAKAIGADAVYAHRE 227 (462)
Q Consensus 183 esL~~L~~~L~~~G--i~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e 227 (462)
+.|+++.+.+...| +..++..|++.+.|.+.+++.+++-|++...
T Consensus 70 ~~l~~~~~~~~~~~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~ 116 (144)
T PRK15005 70 SQLEEIIKKFKLPTDRVHVHVEEGSPKDRILELAKKIPADMIIIASH 116 (144)
T ss_pred HHHHHHHHHhCCCCCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeCC
Confidence 34444444444334 3567788999999999999999999988654
No 23
>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=78.63 E-value=18 Score=34.77 Aligned_cols=96 Identities=22% Similarity=0.196 Sum_probs=54.5
Q ss_pred HHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEECC-----hH----HHH
Q 012490 140 ESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGK-----PE----TVL 210 (462)
Q Consensus 140 ~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G~-----~~----~~L 210 (462)
-+|+.|.+.|..+++++.+.+.... + ..+....+..+++.-+.+|++++++.-+ .. +.+
T Consensus 12 ~al~~a~~~G~~v~~l~~~~~~~~~-~-----------~~~~~~~~~~~~~~A~~lgip~~~i~~~~~~~~~~~~l~~~l 79 (218)
T TIGR03679 12 YALYKALEEGHEVRCLITVVPENEE-S-----------YMFHTPNIELTRLQAEALGIPLVKIETSGEKEKEVEDLKGAL 79 (218)
T ss_pred HHHHHHHHcCCEEEEEEEeccCCCC-c-----------cccCCCCHHHHHHHHHHhCCCEEEEECCCCChHHHHHHHHHH
Confidence 4566666777677666665543211 0 0000113445556667789999887633 22 233
Q ss_pred HHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEE
Q 012490 211 VELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (462)
Q Consensus 211 ~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~ 251 (462)
.++.++ |++.|++-.-.+-+. +.++++.|.+.|+++.
T Consensus 80 ~~~~~~-g~~~vv~G~i~sd~~---~~~~e~v~~~~gl~~~ 116 (218)
T TIGR03679 80 KELKRE-GVEGIVTGAIASRYQ---KSRIERICEELGLKVF 116 (218)
T ss_pred HHHHHc-CCCEEEECCcccHhH---HHHHHHHHHhCCCeEE
Confidence 333343 899998866554333 3445577777788765
No 24
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=77.14 E-value=13 Score=33.63 Aligned_cols=67 Identities=16% Similarity=0.172 Sum_probs=47.9
Q ss_pred HHhCCCcEEEEECChHHHHHHHHHHh--CCCEEEEec-cCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCC
Q 012490 192 LQARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLD 262 (462)
Q Consensus 192 L~~~Gi~L~v~~G~~~~~L~~L~~~~--~a~~V~~~~-ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~ 262 (462)
-+++|+.+.+++-+.+-.|.+.+.+. +++.|+.|. .|+++.+. ++.+++..++++.+++-..++..+
T Consensus 39 a~~~g~~~~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtSiA----l~DAl~~~~~P~VEVHiSNi~aRE 108 (146)
T PRK13015 39 AEALGLEVEFRQSNHEGELIDWIHEARGDVAGIVINPGAYTHTSVA----IRDALAALELPVIEVHISNVHARE 108 (146)
T ss_pred HHHcCCEEEEEeeCcHHHHHHHHHHhhhcCCEEEEcchHHhhhHHH----HHHHHHcCCCCEEEEEcCCccccc
Confidence 34559999999988877777666543 467788885 66666664 566667779999988766665544
No 25
>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=76.27 E-value=15 Score=33.19 Aligned_cols=67 Identities=13% Similarity=0.149 Sum_probs=48.7
Q ss_pred HhCCCcEEEEECChHHHHHHHHHHh--CCCEEEEec-cCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCCC
Q 012490 193 QARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDD 263 (462)
Q Consensus 193 ~~~Gi~L~v~~G~~~~~L~~L~~~~--~a~~V~~~~-ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~ 263 (462)
+++|+.+.+++-+.+-.|.+.+.+. +++.|+.|. .|+++.+. ++.+++..++++.+++-..++..+.
T Consensus 38 ~~~g~~v~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtSiA----l~DAl~~~~~P~vEVHiSNi~aRE~ 107 (141)
T TIGR01088 38 AQLNVELEFFQSNSEGQLIDKIHEAEGQYDGIIINPGALTHTSVA----LRDALAAVSLPVVEVHLSNVHAREE 107 (141)
T ss_pred HHcCCEEEEEeeCcHHHHHHHHHhccccCCEEEEcChHHhhhHHH----HHHHHHcCCCCEEEEEcCCcccccc
Confidence 3459999999988887777777654 357788885 66777664 5666777799999987766665553
No 26
>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=76.17 E-value=35 Score=28.63 Aligned_cols=77 Identities=13% Similarity=0.154 Sum_probs=49.8
Q ss_pred hHHHHHhh----hcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEE-ECChHHHHHHH
Q 012490 139 NESLNTAN----NESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVR-VGKPETVLVEL 213 (462)
Q Consensus 139 N~AL~~A~----~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~-~G~~~~~L~~L 213 (462)
..+|..|+ +.+..+..+++.++.... ...... +-|..+.+..++.|++..++ .|++.+.|.+.
T Consensus 13 ~~al~~a~~la~~~~~~l~ll~v~~~~~~~--------~~~~~~----~~l~~~~~~~~~~~~~~~~~~~~~~~~~I~~~ 80 (124)
T cd01987 13 ERLIRRAARLADRLKAPWYVVYVETPRLNR--------LSEAER----RRLAEALRLAEELGAEVVTLPGDDVAEAIVEF 80 (124)
T ss_pred HHHHHHHHHHHHHhCCCEEEEEEecCcccc--------CCHHHH----HHHHHHHHHHHHcCCEEEEEeCCcHHHHHHHH
Confidence 44555554 346678889998764321 111222 23455555566677766554 46788999999
Q ss_pred HHHhCCCEEEEecc
Q 012490 214 AKAIGADAVYAHRE 227 (462)
Q Consensus 214 ~~~~~a~~V~~~~e 227 (462)
+++++++.|+.-..
T Consensus 81 ~~~~~~dllviG~~ 94 (124)
T cd01987 81 AREHNVTQIVVGKS 94 (124)
T ss_pred HHHcCCCEEEeCCC
Confidence 99999999988654
No 27
>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=75.87 E-value=3.6 Score=39.83 Aligned_cols=97 Identities=16% Similarity=0.063 Sum_probs=50.6
Q ss_pred hHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEE-----CChHHHHHHH
Q 012490 139 NESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV-----GKPETVLVEL 213 (462)
Q Consensus 139 N~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~-----G~~~~~L~~L 213 (462)
.-||+.|.+. ..|.++..+-|...... ..+... +.-++.+-+.+|++|+... .+..+.|.++
T Consensus 14 ~lAl~~a~~~-~~v~~L~t~~~~~~~s~-----~~H~~~-------~~~~~~qA~algipl~~~~~~g~~~~~~~~l~~~ 80 (218)
T PF01902_consen 14 CLALYRALRQ-HEVVCLLTMVPEEEDSY-----MFHGVN-------IELIEAQAEALGIPLIEIPTSGDEEDYVEDLKEA 80 (218)
T ss_dssp HHHHHHHHHT--EEEEEEEEEESTTT-S-----SS-STT-------GTCHHHHHHHHT--EEEEEE---CCCHHHHHHHH
T ss_pred HHHHHHHHHh-CCccEEEEeccCCCCcc-----cccccC-------HHHHHHHHHHCCCCEEEEEccCccchhhHHHHHH
Confidence 4578888877 66766655544321100 111111 2223333456699998764 3455777788
Q ss_pred HHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEE
Q 012490 214 AKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (462)
Q Consensus 214 ~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~ 251 (462)
+++.++++|++-.=..-+.+. .+++.|.+.|+++.
T Consensus 81 l~~~~v~~vv~GdI~~~~~r~---~~e~vc~~lGl~~~ 115 (218)
T PF01902_consen 81 LKELKVEAVVFGDIDSEYQRN---WVERVCERLGLEAV 115 (218)
T ss_dssp HCTC--SEEE--TTS-HHHHH---HHHHHHHHCT-EEE
T ss_pred HHHcCCCEEEECcCCcHHHHH---HHHHHHHHcCCEEE
Confidence 888999999886644444333 46677788888776
No 28
>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=73.89 E-value=18 Score=29.97 Aligned_cols=66 Identities=23% Similarity=0.256 Sum_probs=45.2
Q ss_pred HHHHHHHHHhCCCcEEEE--E-CChHH--HHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 185 VSDLRKNLQARGSDLVVR--V-GKPET--VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~--~-G~~~~--~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
...+++.+++.|..+.+. . |.... .|+..+++ ++.|++-.++--... -..+++.|++.|+++....
T Consensus 12 ~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~~--aD~VIv~t~~vsH~~--~~~vk~~akk~~ip~~~~~ 82 (97)
T PF10087_consen 12 ERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIKK--ADLVIVFTDYVSHNA--MWKVKKAAKKYGIPIIYSR 82 (97)
T ss_pred HHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcCC--CCEEEEEeCCcChHH--HHHHHHHHHHcCCcEEEEC
Confidence 467788889999999998 2 33222 36665553 677777666643333 2368888999999998754
No 29
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=73.71 E-value=15 Score=33.06 Aligned_cols=68 Identities=16% Similarity=0.227 Sum_probs=48.9
Q ss_pred HhCCCcEEEEECChHHHHHHHHHHh--CCCEEEEec-cCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCCCC
Q 012490 193 QARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDL 264 (462)
Q Consensus 193 ~~~Gi~L~v~~G~~~~~L~~L~~~~--~a~~V~~~~-ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~i 264 (462)
+++|+.+.+++-+.+-.|.+.+.+. +++.|+.|. .|+++.+. ++.+++.-++++.+++-..++..+.+
T Consensus 38 ~~~g~~v~~~QSN~Egelid~I~~a~~~~dgiIINpga~THtSvA----i~DAl~~~~~P~VEVHiSNi~aRE~f 108 (140)
T cd00466 38 AELGVEVEFFQSNHEGELIDWIHEARDGADGIIINPGAYTHTSIA----LRDALAAVSIPVIEVHISNIHAREEF 108 (140)
T ss_pred HHcCCEEEEEeeCcHHHHHHHHHHhhccCcEEEEcchHHHHHHHH----HHHHHHcCCCCEEEEecCCccccccc
Confidence 4469999999988877777766553 467888885 56666664 56667777899999887776665543
No 30
>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=73.29 E-value=21 Score=32.96 Aligned_cols=45 Identities=22% Similarity=0.313 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEe
Q 012490 181 LIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (462)
Q Consensus 181 l~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~ 225 (462)
+...+.++-+.|++.|.++.|..+.+...+..+++..|++.++.+
T Consensus 88 ~~~~~~~~l~~l~~~g~~v~ivS~s~~~~v~~~~~~lg~~~~~~~ 132 (202)
T TIGR01490 88 LYPEARDLIRWHKAEGHTIVLVSASLTILVKPLARILGIDNAIGT 132 (202)
T ss_pred ccHHHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHcCCcceEec
Confidence 345666666778899999999999999999999999999988765
No 31
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=72.67 E-value=12 Score=42.55 Aligned_cols=63 Identities=24% Similarity=0.346 Sum_probs=47.5
Q ss_pred HHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
++.-+.|+++|++++++.||....-.+++++.|+++|+. +..|+++.. .| +.+++.|-.+-.+
T Consensus 543 ~~aI~~L~~~Gi~~~mLTGDn~~~A~~iA~~lGId~v~A--ellPedK~~--~V-~~l~~~g~~VamV 605 (713)
T COG2217 543 KEAIAALKALGIKVVMLTGDNRRTAEAIAKELGIDEVRA--ELLPEDKAE--IV-RELQAEGRKVAMV 605 (713)
T ss_pred HHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcChHhhec--cCCcHHHHH--HH-HHHHhcCCEEEEE
Confidence 344456788899999999999999999999999999988 567777643 23 3455666555544
No 32
>PF01220 DHquinase_II: Dehydroquinase class II; InterPro: IPR001874 3-dehydroquinate dehydratase (4.2.1.10 from EC), or dehydroquinase, catalyzes the conversion of 3-dehydroquinate into 3-dehydroshikimate. It is the third step in the shikimate pathway for the biosynthesis of aromatic amino acids from chorismate. Two classes of dehydroquinases exist, known as types I and II. Class-II enzymes are homododecameric enzymes of about 17 kDa. They are found in some bacteria such as actinomycetales [, ] and some fungi where they act in a catabolic pathway that allows the use of quinic acid as a carbon source.; GO: 0003855 3-dehydroquinate dehydratase activity; PDB: 3N8K_J 3N7A_I 3N87_F 3N8N_H 3N86_N 1H0S_A 3N59_J 1H05_A 1H0R_A 2Y71_A ....
Probab=72.62 E-value=19 Score=32.43 Aligned_cols=77 Identities=16% Similarity=0.233 Sum_probs=51.0
Q ss_pred HHHHHHHHHHH----hCCCcEEEEECChHHHHHHHHHHh--CCCEEEEec-cCCchHHHHHHHHHHHhhhcCCeEEEEeC
Q 012490 183 ESVSDLRKNLQ----ARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 183 esL~~L~~~L~----~~Gi~L~v~~G~~~~~L~~L~~~~--~a~~V~~~~-ey~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
.+|.++.+.|+ ++|+.+.+++-+.+..|.+.+.+. .++.|+.|. .|+++.+. ++.+++.-++++..++-
T Consensus 25 ~tl~~i~~~~~~~a~~~g~~v~~~QSN~EGelid~I~~a~~~~dgiIINpga~thtS~A----i~DAl~~~~~P~vEVHi 100 (140)
T PF01220_consen 25 TTLEDIEQKCKETAAELGVEVEFFQSNHEGELIDWIHEARDDVDGIIINPGAYTHTSIA----IRDALKAISIPVVEVHI 100 (140)
T ss_dssp SHHHHHHHHHHHHHHHTTEEEEEEE-SSHHHHHHHHHHHTCTTSEEEEE-GGGGHT-HH----HHHHHHCCTS-EEEEES
T ss_pred CCHHHHHHHHHHHHHHCCCeEEEEecCCHHHHHHHHHHHHhhCCEEEEccchhccccHH----HHHHHHcCCCCEEEEEc
Confidence 34555555554 468999999988887777777654 478888885 66777664 56677777899999887
Q ss_pred CeeeeCCC
Q 012490 256 STLYHLDD 263 (462)
Q Consensus 256 ~~L~~p~~ 263 (462)
..++.++.
T Consensus 101 SNi~~RE~ 108 (140)
T PF01220_consen 101 SNIHAREE 108 (140)
T ss_dssp S-GGGS-G
T ss_pred CCcccccc
Confidence 77665543
No 33
>PRK10116 universal stress protein UspC; Provisional
Probab=71.22 E-value=67 Score=27.63 Aligned_cols=114 Identities=12% Similarity=0.075 Sum_probs=60.7
Q ss_pred ccChHHHHHhhh----cCCceeeEEEeCCCccCCCCCCCCCC--CHHHHHHHHHHHHHHHHHHHhCCCc---EEEEECCh
Q 012490 136 VHDNESLNTANN----ESVSVLPVYCFDPRDYGKSSSGFDKT--GPYRASFLIESVSDLRKNLQARGSD---LVVRVGKP 206 (462)
Q Consensus 136 l~DN~AL~~A~~----~~~~vlpVyi~dp~~~~~~~~g~~~~--~~~r~~Fl~esL~~L~~~L~~~Gi~---L~v~~G~~ 206 (462)
-+...+|..|.. .+..+..++++++..... ++... ...+....-+..+.|++...+.|++ .++..|++
T Consensus 14 ~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~G~~ 90 (142)
T PRK10116 14 PESQQLLAKAVSIARPVNGKISLITLASDPEMYN---QFAAPMLEDLRSVMQEETQSFLDKLIQDADYPIEKTFIAYGEL 90 (142)
T ss_pred cchHHHHHHHHHHHHHhCCEEEEEEEccCcccch---hhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEecCCH
Confidence 344678877753 355777777776432110 00000 0111122222223344333455654 45567999
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCchHHHHH-HHHHHHhhhcCCeEEEE
Q 012490 207 ETVLVELAKAIGADAVYAHREVSHDEVKSE-EKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 207 ~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd-~~v~~~l~~~gI~v~~~ 253 (462)
.+.+.+.+++.+++-|+....-. ....+. -.-.+.+...++++-.+
T Consensus 91 ~~~I~~~a~~~~~DLiV~g~~~~-~~~~~~~s~a~~v~~~~~~pVLvv 137 (142)
T PRK10116 91 SEHILEVCRKHHFDLVICGNHNH-SFFSRASCSAKRVIASSEVDVLLV 137 (142)
T ss_pred HHHHHHHHHHhCCCEEEEcCCcc-hHHHHHHHHHHHHHhcCCCCEEEE
Confidence 99999999999999999865432 222221 12234445566766544
No 34
>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=69.72 E-value=15 Score=33.87 Aligned_cols=72 Identities=17% Similarity=0.205 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccC--CchHHHHHHHHHHHhh-hcCCeEEEEeC
Q 012490 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREV--SHDEVKSEEKIEAAMK-DEGIEVKYFWG 255 (462)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey--~p~e~~rd~~v~~~l~-~~gI~v~~~~~ 255 (462)
+..+.++=+.|++.|+++.++.|+.......++++.|+....+..+. .|...-. .++.+.++ +.+ ++-.+.|
T Consensus 129 ~~~~~~~l~~L~~~Gi~~~i~TGD~~~~a~~~~~~lgi~~~~v~a~~~~kP~~k~~-~~~i~~l~~~~~-~v~~vGD 203 (215)
T PF00702_consen 129 RPGAKEALQELKEAGIKVAILTGDNESTASAIAKQLGIFDSIVFARVIGKPEPKIF-LRIIKELQVKPG-EVAMVGD 203 (215)
T ss_dssp HTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTTSCSEEEEESHETTTHHHHH-HHHHHHHTCTGG-GEEEEES
T ss_pred hhhhhhhhhhhhccCcceeeeeccccccccccccccccccccccccccccccchhH-HHHHHHHhcCCC-EEEEEcc
Confidence 34466677778889999999999999999999999999653222333 5554422 23333444 223 5555544
No 35
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=67.65 E-value=22 Score=40.24 Aligned_cols=65 Identities=20% Similarity=0.281 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEE
Q 012490 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~ 252 (462)
...++.=++|++.|++.+++.||....-..++++.|++.|++ +..|+++.+ +-+.++++|-.|-.
T Consensus 444 ~~a~e~I~~Lr~~GI~vvMiTGDn~~TA~aIA~elGI~~v~A--~~~PedK~~---iV~~lQ~~G~~VaM 508 (673)
T PRK14010 444 DGLVERFRELREMGIETVMCTGDNELTAATIAKEAGVDRFVA--ECKPEDKIN---VIREEQAKGHIVAM 508 (673)
T ss_pred HHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCceEEc--CCCHHHHHH---HHHHHHhCCCEEEE
Confidence 344555567788999999999999999999999999998876 557776653 44455666644443
No 36
>PRK15456 universal stress protein UspG; Provisional
Probab=67.41 E-value=65 Score=27.92 Aligned_cols=45 Identities=27% Similarity=0.336 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHhCCC--cEEEEECChHHHHHHHHHHhCCCEEEEecc
Q 012490 183 ESVSDLRKNLQARGS--DLVVRVGKPETVLVELAKAIGADAVYAHRE 227 (462)
Q Consensus 183 esL~~L~~~L~~~Gi--~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e 227 (462)
+.|.++.+.+...|. ..++..|++.+.|.+++++.+++-|++-..
T Consensus 68 ~~l~~~~~~~~~~~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~ 114 (142)
T PRK15456 68 ERLQTMVSHFTIDPSRIKQHVRFGSVRDEVNELAEELGADVVVIGSR 114 (142)
T ss_pred HHHHHHHHHhCCCCcceEEEEcCCChHHHHHHHHhhcCCCEEEEcCC
Confidence 344555544433343 556678999999999999999999988653
No 37
>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=66.82 E-value=68 Score=26.42 Aligned_cols=56 Identities=18% Similarity=0.153 Sum_probs=36.4
Q ss_pred CcEEEEECChHHHHHHHHHHhCCCEEEEeccC-CchHH-HHHHHHHHHhhhcCCeEEE
Q 012490 197 SDLVVRVGKPETVLVELAKAIGADAVYAHREV-SHDEV-KSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 197 i~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey-~p~e~-~rd~~v~~~l~~~gI~v~~ 252 (462)
....+..|+..+.+.+++++.+++.|++...- ..... -.-....+.+....++|..
T Consensus 81 ~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~~~~~~pVlv 138 (140)
T PF00582_consen 81 IEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLLRHAPCPVLV 138 (140)
T ss_dssp EEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHHHHTSSEEEE
T ss_pred eEEEEEeeccchhhhhccccccceeEEEeccCCCCccCCCcCCHHHHHHHcCCCCEEE
Confidence 34455679999999999999999999998754 22221 1122334444555666654
No 38
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=65.08 E-value=26 Score=39.64 Aligned_cols=65 Identities=18% Similarity=0.232 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEE
Q 012490 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~ 252 (462)
...++.=++|++.|++.+++.||....-..++++.|++.+++ +..|+++.+ +-+.+++.|-.|-.
T Consensus 448 ~~~~eai~~Lr~~GI~vvMiTGDn~~TA~aIA~elGId~v~A--~~~PedK~~---iV~~lQ~~G~~VaM 512 (679)
T PRK01122 448 PGIKERFAELRKMGIKTVMITGDNPLTAAAIAAEAGVDDFLA--EATPEDKLA---LIRQEQAEGRLVAM 512 (679)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCcEEEc--cCCHHHHHH---HHHHHHHcCCeEEE
Confidence 344555567788999999999999999999999999999876 456776643 33445555643433
No 39
>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=64.87 E-value=31 Score=32.39 Aligned_cols=107 Identities=21% Similarity=0.207 Sum_probs=67.6
Q ss_pred hHHHHH-hhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEEC--------Ch---
Q 012490 139 NESLNT-ANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG--------KP--- 206 (462)
Q Consensus 139 N~AL~~-A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G--------~~--- 206 (462)
|--|.. |++. ...+-||+.+.+.-. -.-.-|...+.++.++|..----.|++.+|-.. +.
T Consensus 15 H~yLiE~Aa~~-~d~l~vFVV~eD~S~-------Fpf~~R~~LVk~G~~~L~NV~V~~~g~YiIS~aTFPsYFlK~~~~~ 86 (182)
T PF08218_consen 15 HRYLIEQAAKE-CDWLHVFVVSEDRSL-------FPFADRYELVKEGTADLPNVTVHPGGDYIISSATFPSYFLKDEDDV 86 (182)
T ss_pred HHHHHHHHHHh-CCEEEEEEEccccCc-------CCHHHHHHHHHHHhCcCCCEEEEcCCCeeeecccChhhhccchhHH
Confidence 444543 4444 467788998764321 123578899999999987543334555555331 11
Q ss_pred --------HHHHHH-HHHHhCCCEEEEeccC-CchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 207 --------ETVLVE-LAKAIGADAVYAHREV-SHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 207 --------~~~L~~-L~~~~~a~~V~~~~ey-~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
...+.+ ++...||+.-|+-+|. ++--..-.+.++++|...||+++.+
T Consensus 87 ~~~~~~lD~~iF~~~IAp~L~It~RfVG~EP~~~vT~~YN~~M~~~Lp~~gi~v~ei 143 (182)
T PF08218_consen 87 IKAQAELDATIFKKYIAPALGITKRFVGEEPFSPVTRIYNEAMKEILPPYGIEVVEI 143 (182)
T ss_pred HHHHHHHHHHHHHHHhhHhcCcccceeCCCCCCHHHHHHHHHHHHhccccCCEEEEE
Confidence 123333 6667899998887654 3434445678899999999999864
No 40
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=64.84 E-value=30 Score=34.14 Aligned_cols=58 Identities=28% Similarity=0.289 Sum_probs=47.9
Q ss_pred CcEEEEECC--hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCC
Q 012490 197 SDLVVRVGK--PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (462)
Q Consensus 197 i~L~v~~G~--~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~ 256 (462)
..+.++.|. ..+.+.+++++.+++.|+=. ..|+....-+++.++|++.||++..|.-.
T Consensus 43 ~~~~v~~G~lg~~~~l~~~l~~~~i~~vIDA--THPfA~~is~na~~a~~~~~ipylR~eRp 102 (249)
T PF02571_consen 43 PGLEVRVGRLGDEEGLAEFLRENGIDAVIDA--THPFAAEISQNAIEACRELGIPYLRFERP 102 (249)
T ss_pred CCceEEECCCCCHHHHHHHHHhCCCcEEEEC--CCchHHHHHHHHHHHHhhcCcceEEEEcC
Confidence 445677776 57899999999999988653 45899999999999999999999987544
No 41
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=64.51 E-value=94 Score=26.84 Aligned_cols=42 Identities=21% Similarity=0.216 Sum_probs=31.5
Q ss_pred HHHHHHHHhCCCcE---EEEECChHHHHHHHHHHhCCCEEEEecc
Q 012490 186 SDLRKNLQARGSDL---VVRVGKPETVLVELAKAIGADAVYAHRE 227 (462)
Q Consensus 186 ~~L~~~L~~~Gi~L---~v~~G~~~~~L~~L~~~~~a~~V~~~~e 227 (462)
+.|++.+++.|+.. ++..|++.+.|.+.+++.+++-|+....
T Consensus 68 ~~l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~ 112 (144)
T PRK15118 68 HALTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHH 112 (144)
T ss_pred HHHHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCc
Confidence 44444445567653 3457999999999999999999998665
No 42
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=61.92 E-value=62 Score=30.91 Aligned_cols=100 Identities=23% Similarity=0.308 Sum_probs=66.7
Q ss_pred ChHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHh
Q 012490 138 DNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAI 217 (462)
Q Consensus 138 DN~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~ 217 (462)
|-.+|..|.+.| +|.++++++.+. .|..|= .+|-+.|++.+.+|+++-|=..-.=+.|++.+
T Consensus 39 ~A~~lerA~~~g---Ipt~~~~~k~~~-----------~r~~~d----~~l~~~l~~~~~dlvvLAGyMrIL~~~fl~~~ 100 (200)
T COG0299 39 DAYALERAAKAG---IPTVVLDRKEFP-----------SREAFD----RALVEALDEYGPDLVVLAGYMRILGPEFLSRF 100 (200)
T ss_pred CCHHHHHHHHcC---CCEEEeccccCC-----------CHHHHH----HHHHHHHHhcCCCEEEEcchHHHcCHHHHHHh
Confidence 357888888777 688898886653 345553 56777888999999999885433334677777
Q ss_pred CCCEEEEeccCCchH---HHHHHHHHHHhhhcCCeEEEEeC
Q 012490 218 GADAVYAHREVSHDE---VKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 218 ~a~~V~~~~ey~p~e---~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
.-.-|-.|-.+-|.. ..-.+.++.-.+..|+.|+.++.
T Consensus 101 ~grIlNIHPSLLP~f~G~h~~~~A~~aG~k~sG~TVH~V~e 141 (200)
T COG0299 101 EGRILNIHPSLLPAFPGLHAHEQALEAGVKVSGCTVHFVTE 141 (200)
T ss_pred hcceEecCcccccCCCCchHHHHHHHcCCCccCcEEEEEcc
Confidence 665566665554432 22234455555667899988754
No 43
>PRK10490 sensor protein KdpD; Provisional
Probab=61.42 E-value=71 Score=37.38 Aligned_cols=116 Identities=13% Similarity=0.153 Sum_probs=68.8
Q ss_pred CCCeEEEEEeCCCCccChHHHHHh-----hhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCC
Q 012490 122 IRRASIVWFRNDLRVHDNESLNTA-----NNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARG 196 (462)
Q Consensus 122 ~~~~~LvWFRrDLRl~DN~AL~~A-----~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~G 196 (462)
.+...||=.-.+ ..+..|... .+.+.++++|||-++..- ........-+.+.++ |- +++|
T Consensus 249 ~~eriLV~v~~~---~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~--------~~~~~~~~~l~~~~~-lA---~~lG 313 (895)
T PRK10490 249 TRDAILLCIGHN---TGSEKLVRTAARLAARLGSVWHAVYVETPRLH--------RLPEKKRRAILSALR-LA---QELG 313 (895)
T ss_pred cCCeEEEEECCC---cchHHHHHHHHHHHHhcCCCEEEEEEecCCcC--------cCCHHHHHHHHHHHH-HH---HHcC
Confidence 344555555544 345555332 234678999999876321 122333333444442 44 3459
Q ss_pred CcEEEEEC-ChHHHHHHHHHHhCCCEEEEeccCCchHH---HHHHHHHHHhhhcCCeEEEEe
Q 012490 197 SDLVVRVG-KPETVLVELAKAIGADAVYAHREVSHDEV---KSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 197 i~L~v~~G-~~~~~L~~L~~~~~a~~V~~~~ey~p~e~---~rd~~v~~~l~~~gI~v~~~~ 254 (462)
..++.+.| +..+.|.+++++.+++.|+.-+.-..... ..-+++.+. ..+|.++.+.
T Consensus 314 a~~~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~~~~~s~~~~l~r~--~~~idi~iv~ 373 (895)
T PRK10490 314 AETATLSDPAEEKAVLRYAREHNLGKIIIGRRASRRWWRRESFADRLARL--GPDLDLVIVA 373 (895)
T ss_pred CEEEEEeCCCHHHHHHHHHHHhCCCEEEECCCCCCCCccCCCHHHHHHHh--CCCCCEEEEe
Confidence 99877776 67899999999999999999875432211 011223322 3578888774
No 44
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=61.26 E-value=79 Score=28.73 Aligned_cols=75 Identities=20% Similarity=0.252 Sum_probs=52.1
Q ss_pred HHHHHHHH----HhCCCcEEEEECChHHHHHHHHHHh--CCCEEEEec-cCCchHHHHHHHHHHHhhhcCCeEEEEeCCe
Q 012490 185 VSDLRKNL----QARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGST 257 (462)
Q Consensus 185 L~~L~~~L----~~~Gi~L~v~~G~~~~~L~~L~~~~--~a~~V~~~~-ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~ 257 (462)
|.++.+.| ++.|+.+.+++-+.+-.|.+.+.+. +++.|+.|. .|+++.+. ++.+++.-++++.+++-..
T Consensus 28 l~~i~~~~~~~a~~~g~~v~~~QSN~EGelId~I~~a~~~~dgiiINpga~THtSiA----l~DAl~~~~~P~VEVHiSN 103 (146)
T PRK05395 28 LADIEALLEEEAAELGVELEFFQSNHEGELIDRIHEARDGADGIIINPGAYTHTSVA----LRDALAAVSIPVIEVHLSN 103 (146)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhcccCCcEEEECchHHHHHHHH----HHHHHHcCCCCEEEEecCC
Confidence 44444444 3459999999988877777766554 478888885 66666664 5666777799999987666
Q ss_pred eeeCCC
Q 012490 258 LYHLDD 263 (462)
Q Consensus 258 L~~p~~ 263 (462)
++.++.
T Consensus 104 i~aRE~ 109 (146)
T PRK05395 104 IHAREE 109 (146)
T ss_pred cccccc
Confidence 665543
No 45
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=61.15 E-value=22 Score=37.03 Aligned_cols=61 Identities=13% Similarity=0.147 Sum_probs=41.5
Q ss_pred HHHhCCC--cEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEE
Q 012490 191 NLQARGS--DLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (462)
Q Consensus 191 ~L~~~Gi--~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~ 251 (462)
+|+++|+ ..+++.+.+-....+.+-+.|+..|+.-.|..|.....-+++.+.|++.||+|.
T Consensus 37 ~l~~lgi~g~~i~~s~~p~~~cad~ii~~gi~rVVi~~D~d~~G~~~~~~~~~~L~~aGi~V~ 99 (360)
T PRK14719 37 SLKNLKINANFITVSNTPVFQIADDLIAENISEVILLTDFDRAGRVYAKNIMEEFQSRGIKVN 99 (360)
T ss_pred HHHHcCCCCcEEEEeCCchHHHHHHHHHcCCCEEEEEECCCCCCCccchHHHHHHHHCCCEEE
Confidence 5677777 455566666554555555568888887777776544444567788899999984
No 46
>TIGR01497 kdpB K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR.
Probab=59.96 E-value=49 Score=37.46 Aligned_cols=66 Identities=18% Similarity=0.240 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
...++.=+.|++.|++.+++.||.......++++.|++.+++ +..|.++.. .+++. ++.|-.+-.+
T Consensus 449 p~a~eaI~~l~~~Gi~v~miTGD~~~ta~~iA~~lGI~~v~a--~~~PedK~~--~v~~l-q~~g~~Vamv 514 (675)
T TIGR01497 449 GGIKERFAQLRKMGIKTIMITGDNRLTAAAIAAEAGVDDFIA--EATPEDKIA--LIRQE-QAEGKLVAMT 514 (675)
T ss_pred hHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCCEEEc--CCCHHHHHH--HHHHH-HHcCCeEEEE
Confidence 445566667788899999999999999999999999999886 556776543 34444 3444434433
No 47
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=58.54 E-value=28 Score=33.33 Aligned_cols=66 Identities=21% Similarity=0.289 Sum_probs=51.1
Q ss_pred HHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccC------Cc-------hHHHHHHHHHHHhhhcCCe
Q 012490 184 SVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREV------SH-------DEVKSEEKIEAAMKDEGIE 249 (462)
Q Consensus 184 sL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey------~p-------~e~~rd~~v~~~l~~~gI~ 249 (462)
...+|-+.|++.|....|+.|.+...+..++++.|++.++.|.-. +. +...-.+.+++.+++.|+.
T Consensus 81 ga~elv~~lk~~G~~v~iiSgg~~~lv~~ia~~lg~d~~~an~l~~~dG~ltG~v~g~~~~~~~K~~~l~~~~~~~g~~ 159 (212)
T COG0560 81 GAEELVAALKAAGAKVVIISGGFTFLVEPIAERLGIDYVVANELEIDDGKLTGRVVGPICDGEGKAKALRELAAELGIP 159 (212)
T ss_pred cHHHHHHHHHHCCCEEEEEcCChHHHHHHHHHHhCCchheeeEEEEeCCEEeceeeeeecCcchHHHHHHHHHHHcCCC
Confidence 377888899999999999999999999999999999988777521 11 0112356677888888887
No 48
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=58.19 E-value=64 Score=31.81 Aligned_cols=55 Identities=22% Similarity=0.157 Sum_probs=44.2
Q ss_pred EEEECC--hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCC
Q 012490 200 VVRVGK--PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (462)
Q Consensus 200 ~v~~G~--~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~ 256 (462)
.++.|. ..+.+.+++++.+++.|+=. ..|+....-+.+.++|++.||++..|.-.
T Consensus 45 ~v~~G~l~~~~~l~~~l~~~~i~~VIDA--THPfA~~is~~a~~ac~~~~ipyiR~eR~ 101 (248)
T PRK08057 45 PVRVGGFGGAEGLAAYLREEGIDLVIDA--THPYAAQISANAAAACRALGIPYLRLERP 101 (248)
T ss_pred eEEECCCCCHHHHHHHHHHCCCCEEEEC--CCccHHHHHHHHHHHHHHhCCcEEEEeCC
Confidence 344454 35889999999999988653 45899999999999999999999988643
No 49
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=55.84 E-value=35 Score=36.34 Aligned_cols=65 Identities=15% Similarity=0.304 Sum_probs=51.1
Q ss_pred HHHHHHHHHhCCCcEEEEEC--ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 185 VSDLRKNLQARGSDLVVRVG--KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~G--~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
|..+.+++.++|+.+++-.. +..+.+.+++++.+++.|+-.....-+|. .+.+.|++.|+++...
T Consensus 67 l~~~~~~v~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKSmvseEI----gln~~Le~~G~ev~ET 133 (459)
T COG1139 67 LEQLEENVTRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKSMVSEEI----GLNHYLEEKGIEVWET 133 (459)
T ss_pred HHHHHHHHHHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecchhHHHh----hhHHHHHHcCCeEEEc
Confidence 45567777788998888753 45688889999999999999887766665 4677778889998865
No 50
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=54.38 E-value=43 Score=38.80 Aligned_cols=63 Identities=25% Similarity=0.381 Sum_probs=46.3
Q ss_pred HHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeC
Q 012490 188 LRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 188 L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
--..|+++|++++++.||....-...+++.|++.||+ |..|.+... .|++ +++++-.+..+.|
T Consensus 731 av~~Lk~~Gi~v~mLTGDn~~aA~svA~~VGi~~V~a--ev~P~~K~~--~Ik~-lq~~~~~VaMVGD 793 (951)
T KOG0207|consen 731 AVAELKSMGIKVVMLTGDNDAAARSVAQQVGIDNVYA--EVLPEQKAE--KIKE-IQKNGGPVAMVGD 793 (951)
T ss_pred HHHHHHhcCceEEEEcCCCHHHHHHHHHhhCcceEEe--ccCchhhHH--HHHH-HHhcCCcEEEEeC
Confidence 3346788899999999999999999999999999998 456776543 3444 3445555555533
No 51
>PRK10517 magnesium-transporting ATPase MgtA; Provisional
Probab=53.70 E-value=59 Score=38.13 Aligned_cols=39 Identities=26% Similarity=0.400 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCC
Q 012490 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (462)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~ 220 (462)
.....+.-+.|++.|++++++.||....-..++++.|+.
T Consensus 552 R~~a~~aI~~l~~aGI~v~miTGD~~~tA~~IA~~lGI~ 590 (902)
T PRK10517 552 KETTAPALKALKASGVTVKILTGDSELVAAKVCHEVGLD 590 (902)
T ss_pred hhhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 556677777888999999999999999999999999996
No 52
>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=52.82 E-value=63 Score=31.46 Aligned_cols=75 Identities=23% Similarity=0.333 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHhCCCcEEEEE----C------ChHHHHHHHHHHhCCCEEEEec-----cCCch-HHHHHHHHHHHhhhc
Q 012490 183 ESVSDLRKNLQARGSDLVVRV----G------KPETVLVELAKAIGADAVYAHR-----EVSHD-EVKSEEKIEAAMKDE 246 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~----G------~~~~~L~~L~~~~~a~~V~~~~-----ey~p~-e~~rd~~v~~~l~~~ 246 (462)
+.|.++-+.+++.|..|+++= | +....|.+++++.|+..|+.|. |+.|. ...--+++.+.|++.
T Consensus 14 ~~l~~~~~~~k~~~~~lHl~GLlSdGGVHSh~~Hl~al~~~a~~~gv~~V~vH~f~DGRDt~P~S~~~yl~~l~~~l~~~ 93 (223)
T PF06415_consen 14 PVLLEAIEHAKKNGGRLHLMGLLSDGGVHSHIDHLFALIKLAKKQGVKKVYVHAFTDGRDTPPKSALKYLEELEEKLAEI 93 (223)
T ss_dssp HHHHHHHHHHCCTT--EEEEEEESS-SSS--HHHHHHHHHHHHHTT-SEEEEEEEE-SSSS-TTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCeEEEEEEecCCCccccHHHHHHHHHHHHHcCCCEEEEEEecCCCCCCcchHHHHHHHHHHHHHhh
Confidence 456677777788899999862 3 2446677788899999887774 66665 344567888888887
Q ss_pred CC-eEEEEeCCe
Q 012490 247 GI-EVKYFWGST 257 (462)
Q Consensus 247 gI-~v~~~~~~~ 257 (462)
|+ ++-++-++.
T Consensus 94 ~~g~IAsv~GRy 105 (223)
T PF06415_consen 94 GIGRIASVSGRY 105 (223)
T ss_dssp TCTEEEEEEECC
T ss_pred CCceEEEEecee
Confidence 65 888877665
No 53
>PRK15122 magnesium-transporting ATPase; Provisional
Probab=51.54 E-value=61 Score=38.01 Aligned_cols=67 Identities=19% Similarity=0.348 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCC-------------------------EEEEeccCCchHHHHH
Q 012490 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD-------------------------AVYAHREVSHDEVKSE 236 (462)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~-------------------------~V~~~~ey~p~e~~rd 236 (462)
.....+.=+.|++.|++++++.||....-..++++.|+. .||+ +..|+.+.+
T Consensus 552 R~~a~~aI~~l~~aGI~v~miTGD~~~tA~aIA~~lGI~~~~vi~G~el~~~~~~el~~~v~~~~VfA--r~sPe~K~~- 628 (903)
T PRK15122 552 KESAAPAIAALRENGVAVKVLTGDNPIVTAKICREVGLEPGEPLLGTEIEAMDDAALAREVEERTVFA--KLTPLQKSR- 628 (903)
T ss_pred HHHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCCCCCccchHhhhhCCHHHHHHHhhhCCEEE--EeCHHHHHH-
Confidence 456667777888999999999999999999999999996 4555 456676643
Q ss_pred HHHHHHhhhcCCeEEEE
Q 012490 237 EKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 237 ~~v~~~l~~~gI~v~~~ 253 (462)
+.+.|++.|-.|-.+
T Consensus 629 --iV~~Lq~~G~vVamt 643 (903)
T PRK15122 629 --VLKALQANGHTVGFL 643 (903)
T ss_pred --HHHHHHhCCCEEEEE
Confidence 556666666544444
No 54
>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=50.99 E-value=1.1e+02 Score=29.58 Aligned_cols=72 Identities=17% Similarity=0.139 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCC
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~ 256 (462)
.|+.+-+..+++.+++.|..+.+...+......+.+...+++.|+...... . +..+ +.+++.||++..++..
T Consensus 17 ~~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~-~----~~~~-~~~~~~~ipvV~~~~~ 88 (283)
T cd06279 17 PVASQFLAGVAEVLDAAGVNLLLLPASSEDSDSALVVSALVDGFIVYGVPR-D----DPLV-AALLRRGLPVVVVDQP 88 (283)
T ss_pred ccHHHHHHHHHHHHHHCCCEEEEecCccHHHHHHHHHhcCCCEEEEeCCCC-C----hHHH-HHHHHcCCCEEEEecC
Confidence 466666777889999999999988765433444455667899888754321 1 1223 3456689999988654
No 55
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=50.21 E-value=57 Score=30.19 Aligned_cols=56 Identities=11% Similarity=0.243 Sum_probs=41.1
Q ss_pred HHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCe
Q 012490 184 SVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIE 249 (462)
Q Consensus 184 sL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~ 249 (462)
+++.|+ ++|+.+.|..|.+...+..++++.|+..++...+ . . -..+..+|++.|+.
T Consensus 56 ~i~~L~----~~Gi~v~I~T~~~~~~v~~~l~~lgl~~~f~g~~--~--k--~~~l~~~~~~~gl~ 111 (183)
T PRK09484 56 GIRCLL----TSGIEVAIITGRKSKLVEDRMTTLGITHLYQGQS--N--K--LIAFSDLLEKLAIA 111 (183)
T ss_pred HHHHHH----HCCCEEEEEeCCCcHHHHHHHHHcCCceeecCCC--c--H--HHHHHHHHHHhCCC
Confidence 555554 5799999999999899999999999987765322 1 1 24577777777763
No 56
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=49.17 E-value=72 Score=37.22 Aligned_cols=39 Identities=26% Similarity=0.360 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCC
Q 012490 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (462)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~ 220 (462)
.+..++.=+.|++.|+++.++.||....-..++++.|+.
T Consensus 517 R~~~~~aI~~l~~aGI~vvmiTGD~~~tA~aIA~~lGI~ 555 (867)
T TIGR01524 517 KESTKEAIAALFKNGINVKVLTGDNEIVTARICQEVGID 555 (867)
T ss_pred chhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 455666777788899999999999999999999999996
No 57
>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=48.84 E-value=68 Score=36.76 Aligned_cols=39 Identities=13% Similarity=0.228 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCE
Q 012490 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADA 221 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~ 221 (462)
...++.=+.|++.|++++++.||....-..++++.|+..
T Consensus 445 ~~a~~aI~~l~~aGI~v~miTGD~~~tA~~IA~~lGI~~ 483 (755)
T TIGR01647 445 HDTKETIERARHLGVEVKMVTGDHLAIAKETARRLGLGT 483 (755)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCCC
Confidence 445666667888999999999999999999999999864
No 58
>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=48.67 E-value=22 Score=31.88 Aligned_cols=43 Identities=28% Similarity=0.422 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEe
Q 012490 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~ 225 (462)
.++.++-+.|++.|+++.|..|.....+..+++.+|+..++.+
T Consensus 76 ~g~~~~l~~l~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~~~ 118 (177)
T TIGR01488 76 PGARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVFAN 118 (177)
T ss_pred cCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCchheee
Confidence 4556666677777888888887777777777777777766554
No 59
>TIGR01525 ATPase-IB_hvy heavy metal translocating P-type ATPase. This alignment encompasses two equivalog models for the copper and cadmium-type heavy metal transporting P-type ATPases (TIGR01511 and TIGR01512) as well as those species which score ambiguously between both models. For more comments and references, see the files on TIGR01511 and 01512.
Probab=48.04 E-value=1e+02 Score=33.93 Aligned_cols=45 Identities=24% Similarity=0.316 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHhCC-CcEEEEECChHHHHHHHHHHhCCCEEEEe
Q 012490 181 LIESVSDLRKNLQARG-SDLVVRVGKPETVLVELAKAIGADAVYAH 225 (462)
Q Consensus 181 l~esL~~L~~~L~~~G-i~L~v~~G~~~~~L~~L~~~~~a~~V~~~ 225 (462)
++..+.++=+.|++.| +++.+..|++......++++.|++.+|..
T Consensus 385 ~~~g~~e~l~~L~~~g~i~v~ivTgd~~~~a~~i~~~lgi~~~f~~ 430 (556)
T TIGR01525 385 LRPEAKEAIAALKRAGGIKLVMLTGDNRSAAEAVAAELGIDEVHAE 430 (556)
T ss_pred chHhHHHHHHHHHHcCCCeEEEEeCCCHHHHHHHHHHhCCCeeecc
Confidence 5667777778888999 99999999999999999999999988874
No 60
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=47.88 E-value=2.8e+02 Score=32.27 Aligned_cols=121 Identities=17% Similarity=0.154 Sum_probs=71.7
Q ss_pred CCCCeEEEEEeCCCCccChHHHHHh-----hhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhC
Q 012490 121 AIRRASIVWFRNDLRVHDNESLNTA-----NNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQAR 195 (462)
Q Consensus 121 ~~~~~~LvWFRrDLRl~DN~AL~~A-----~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~ 195 (462)
..+...||=.-.+ ..|+.|... .+.+.+..+|||-.|+.... +.....-+ +....|.++ +
T Consensus 246 ~~~e~ilvcI~~~---~~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~~--------~~~~~~~l-~~~~~Lae~---l 310 (890)
T COG2205 246 AARERILVCISGS---PGSEKLIRRAARLASRLHAKWTAVYVETPELHRL--------SEKEARRL-HENLRLAEE---L 310 (890)
T ss_pred cccceEEEEECCC---CchHHHHHHHHHHHHHhCCCeEEEEEeccccccc--------cHHHHHHH-HHHHHHHHH---h
Confidence 3344445544433 346666443 23467889999998876531 22233333 334445544 4
Q ss_pred CCcEEEEE-CChHHHHHHHHHHhCCCEEEEeccCCchHHHH-HHHHHHHh--hhcCCeEEEEeCC
Q 012490 196 GSDLVVRV-GKPETVLVELAKAIGADAVYAHREVSHDEVKS-EEKIEAAM--KDEGIEVKYFWGS 256 (462)
Q Consensus 196 Gi~L~v~~-G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~r-d~~v~~~l--~~~gI~v~~~~~~ 256 (462)
|..+..+. ++..+.+.++++.+++++|+.-+.-...+..+ ...+...+ ...+|.++.+...
T Consensus 311 Gae~~~l~~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~~ 375 (890)
T COG2205 311 GAEIVTLYGGDVAKAIARYAREHNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVALD 375 (890)
T ss_pred CCeEEEEeCCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeCC
Confidence 99998888 46779999999999999999977543333221 12233222 2357777765443
No 61
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=47.63 E-value=70 Score=35.01 Aligned_cols=45 Identities=24% Similarity=0.326 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHhCCC-cEEEEECChHHHHHHHHHHhCCCEEEEe
Q 012490 181 LIESVSDLRKNLQARGS-DLVVRVGKPETVLVELAKAIGADAVYAH 225 (462)
Q Consensus 181 l~esL~~L~~~L~~~Gi-~L~v~~G~~~~~L~~L~~~~~a~~V~~~ 225 (462)
++..+.++=+.|++.|+ ++.+..|+.......++++.|+..++.+
T Consensus 363 l~~~~~e~i~~L~~~Gi~~v~vvTgd~~~~a~~i~~~lgi~~~f~~ 408 (536)
T TIGR01512 363 PRPDAAEAIAELKALGIEKVVMLTGDRRAVAERVARELGIDEVHAE 408 (536)
T ss_pred chHHHHHHHHHHHHcCCCcEEEEcCCCHHHHHHHHHHcCChhhhhc
Confidence 56677777788889999 9999999999999999999999888764
No 62
>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=47.46 E-value=62 Score=26.60 Aligned_cols=47 Identities=26% Similarity=0.392 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCC----CEEEEec
Q 012490 180 FLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGA----DAVYAHR 226 (462)
Q Consensus 180 Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a----~~V~~~~ 226 (462)
-+...+.++=+.|++.|..+.++.|.....+..+++..++ +.++...
T Consensus 24 ~~~~~~~~~l~~l~~~g~~i~ivS~~~~~~~~~~~~~~~~~~~~~~i~~~~ 74 (139)
T cd01427 24 ELYPGVKEALKELKEKGIKLALATNKSRREVLELLEELGLDDYFDPVITSN 74 (139)
T ss_pred CcCcCHHHHHHHHHHCCCeEEEEeCchHHHHHHHHHHcCCchhhhheeccc
Confidence 4455666777778888999999999988888888888876 4555544
No 63
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=46.96 E-value=1.4e+02 Score=25.05 Aligned_cols=59 Identities=25% Similarity=0.340 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHhCCCcEEEE--E-----------C-ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHh
Q 012490 182 IESVSDLRKNLQARGSDLVVR--V-----------G-KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAM 243 (462)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~--~-----------G-~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l 243 (462)
-++|.+|..-.+..|+..+-. . | .-.+.|.+++++.+++.|+++.+.+|...+ ++++.+
T Consensus 7 ~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~Lsp~Q~r---NLe~~~ 79 (95)
T PF13167_consen 7 EESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNELSPSQQR---NLEKAL 79 (95)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCCCCHHHHH---HHHHHH
Confidence 467888888888888766421 1 1 124778889999999999999998887553 455554
No 64
>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=46.51 E-value=38 Score=30.95 Aligned_cols=42 Identities=19% Similarity=0.325 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEE
Q 012490 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYA 224 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~ 224 (462)
.++.++=+.|++.|+++.|+.+.....+..+++.+|+..++.
T Consensus 83 ~g~~e~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~g~~~~~~ 124 (201)
T TIGR01491 83 DYAEELVRWLKEKGLKTAIVSGGIMCLAKKVAEKLNPDYVYS 124 (201)
T ss_pred ccHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHhCCCeEEE
Confidence 345555566666677777777666666666666666665544
No 65
>PF05368 NmrA: NmrA-like family; InterPro: IPR008030 NmrA is a negative transcriptional regulator involved in the post-translational modification of the transcription factor AreA. NmrA is part of a system controlling nitrogen metabolite repression in fungi []. This family only contains a few sequences as iteration results in significant matches to other Rossmann fold families.; PDB: 2ZCV_A 2ZCU_A 2R6J_B 3C3X_A 2QZZ_B 2QYS_A 2QX7_A 2QW8_A 2R2G_B 3E5M_B ....
Probab=46.17 E-value=82 Score=29.73 Aligned_cols=64 Identities=27% Similarity=0.288 Sum_probs=42.5
Q ss_pred HHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCC-chHHHHHHHHHHHhhhcCCeEEEE
Q 012490 188 LRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVS-HDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 188 L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~-p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.-++|++.|..++...-+..+.|.+.++ |++.|++..... +.+....+++.+++++.||+...+
T Consensus 36 ~~~~l~~~g~~vv~~d~~~~~~l~~al~--g~d~v~~~~~~~~~~~~~~~~~li~Aa~~agVk~~v~ 100 (233)
T PF05368_consen 36 RAQQLQALGAEVVEADYDDPESLVAALK--GVDAVFSVTPPSHPSELEQQKNLIDAAKAAGVKHFVP 100 (233)
T ss_dssp HHHHHHHTTTEEEES-TT-HHHHHHHHT--TCSEEEEESSCSCCCHHHHHHHHHHHHHHHT-SEEEE
T ss_pred hhhhhhcccceEeecccCCHHHHHHHHc--CCceEEeecCcchhhhhhhhhhHHHhhhccccceEEE
Confidence 3456677788654323334566666555 799999887755 667777788888888889876643
No 66
>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=45.35 E-value=1.2e+02 Score=28.63 Aligned_cols=72 Identities=15% Similarity=0.182 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECC----hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGK----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~----~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
.|+.+-+..+++.+++.|..+.+..++ ..+.+..++.+.+++.|+....... ..+.+.+.+.||++..++
T Consensus 17 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~------~~~~~~~~~~~ipvV~~~ 90 (270)
T cd06294 17 PFFIEVLRGISAVANENGYDISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED------DPIIDYLKEEKFPFVVIG 90 (270)
T ss_pred CCHHHHHHHHHHHHHHCCCEEEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC------cHHHHHHHhcCCCEEEEC
Confidence 455555677888888899999887543 2244455555667888877532211 122344567899999886
Q ss_pred CC
Q 012490 255 GS 256 (462)
Q Consensus 255 ~~ 256 (462)
..
T Consensus 91 ~~ 92 (270)
T cd06294 91 KP 92 (270)
T ss_pred CC
Confidence 53
No 67
>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=44.30 E-value=2.8e+02 Score=26.74 Aligned_cols=27 Identities=22% Similarity=0.459 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHhCCCcEEEEEC
Q 012490 178 ASFLIESVSDLRKNLQARGSDLVVRVG 204 (462)
Q Consensus 178 ~~Fl~esL~~L~~~L~~~Gi~L~v~~G 204 (462)
..|+.+...+..+.|+++|+++++..|
T Consensus 46 ~~~~~~~~~~~i~~l~~kG~KVl~sig 72 (255)
T cd06542 46 VQFLLTNKETYIRPLQAKGTKVLLSIL 72 (255)
T ss_pred hhhhhHHHHHHHHHHhhCCCEEEEEEC
Confidence 568888888999999999999987553
No 68
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=43.54 E-value=1.8e+02 Score=24.76 Aligned_cols=68 Identities=16% Similarity=0.068 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
.++.+.+ ++.++++|++..+......+ +.......+++.|+.. |.-+-+.+.+++.+++.|+++...+
T Consensus 15 Slla~k~---k~~~~e~gi~~~i~a~~~~e-~~~~~~~~~~DvIll~----PQi~~~~~~i~~~~~~~~ipv~~I~ 82 (104)
T PRK09590 15 SMMAKKT---TEYLKEQGKDIEVDAITATE-GEKAIAAAEYDLYLVS----PQTKMYFKQFEEAGAKVGKPVVQIP 82 (104)
T ss_pred HHHHHHH---HHHHHHCCCceEEEEecHHH-HHHhhccCCCCEEEEC----hHHHHHHHHHHHHhhhcCCCEEEeC
Confidence 4665444 77788899998887765433 4444333456666653 3444456778888888899998643
No 69
>TIGR00268 conserved hypothetical protein TIGR00268. The N-terminal region of the model shows similarity to Argininosuccinate synthase proteins using PSI-blast and using the recognize protein identification server.
Probab=43.21 E-value=1.7e+02 Score=28.52 Aligned_cols=72 Identities=14% Similarity=0.161 Sum_probs=44.4
Q ss_pred HHHHHHHHhCCCcEEEEECChH-HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCe
Q 012490 186 SDLRKNLQARGSDLVVRVGKPE-TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGST 257 (462)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~G~~~-~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~ 257 (462)
..|++-|++.+.-++.+.|... .++..++.+.|.+.+.++.++......-.+.+++.|++.||+.+.++-+.
T Consensus 3 ~~l~~~l~~~~~vlVa~SGGvDSs~ll~la~~~g~~v~av~~~~~~~~~~e~~~a~~~a~~lgi~~~ii~~~~ 75 (252)
T TIGR00268 3 ENLRNFLKEFKKVLIAYSGGVDSSLLAAVCSDAGTEVLAITVVSPSISPRELEDAIIIAKEIGVNHEFVKIDK 75 (252)
T ss_pred HHHHHHHHhcCCEEEEecCcHHHHHHHHHHHHhCCCEEEEEecCCCCCHHHHHHHHHHHHHcCCCEEEEEcHH
Confidence 5677788887776777777543 55566776666554444443321111222456778888999988776554
No 70
>PRK11175 universal stress protein UspE; Provisional
Probab=43.19 E-value=2.2e+02 Score=28.02 Aligned_cols=43 Identities=28% Similarity=0.331 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhCCCc---EEEEECChHHHHHHHHHHhCCCEEEEec
Q 012490 184 SVSDLRKNLQARGSD---LVVRVGKPETVLVELAKAIGADAVYAHR 226 (462)
Q Consensus 184 sL~~L~~~L~~~Gi~---L~v~~G~~~~~L~~L~~~~~a~~V~~~~ 226 (462)
....+++-+++.|++ .++..|++.+.|.+.+++.+++-|++..
T Consensus 224 ~~~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~ 269 (305)
T PRK11175 224 HLLAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGT 269 (305)
T ss_pred HHHHHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECC
Confidence 344455555555664 5667899999999999999999998865
No 71
>PF12710 HAD: haloacid dehalogenase-like hydrolase; PDB: 3P96_A 3N28_A 3FVV_A 1RKU_A 1RKV_A 1Y8A_A 2FEA_B 3KD3_B.
Probab=42.67 E-value=57 Score=29.47 Aligned_cols=41 Identities=24% Similarity=0.531 Sum_probs=35.1
Q ss_pred HHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCE--EEEecc
Q 012490 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIGADA--VYAHRE 227 (462)
Q Consensus 187 ~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~--V~~~~e 227 (462)
++=+.|++.|++++|+.|.+...+..+++..++.. |+.++-
T Consensus 96 e~i~~~~~~~~~v~IvS~~~~~~i~~~~~~~~i~~~~v~~~~~ 138 (192)
T PF12710_consen 96 ELIRELKDNGIKVVIVSGSPDEIIEPIAERLGIDDDNVIGNEL 138 (192)
T ss_dssp HHHHHHHHTTSEEEEEEEEEHHHHHHHHHHTTSSEGGEEEEEE
T ss_pred HHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEEEEEee
Confidence 55566788899999999999999999999999987 777765
No 72
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=42.47 E-value=2e+02 Score=28.51 Aligned_cols=47 Identities=19% Similarity=0.095 Sum_probs=38.9
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeC
Q 012490 207 ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 207 ~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
.+.+.+++++.+++.|+-. ..|+....-+.+.++|++.||++..|.-
T Consensus 54 ~~~l~~~l~~~~i~~VIDA--tHPfA~~is~~a~~a~~~~~ipylR~eR 100 (256)
T TIGR00715 54 PQELREFLKRHSIDILVDA--THPFAAQITTNATAVCKELGIPYVRFER 100 (256)
T ss_pred HHHHHHHHHhcCCCEEEEc--CCHHHHHHHHHHHHHHHHhCCcEEEEEC
Confidence 3558899999999977653 4688888899999999999999998853
No 73
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=41.95 E-value=2.1e+02 Score=24.13 Aligned_cols=46 Identities=24% Similarity=0.268 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHhCCCc---EEEEECCh-HHHHHHHHHHhCCCEEEEec
Q 012490 181 LIESVSDLRKNLQARGSD---LVVRVGKP-ETVLVELAKAIGADAVYAHR 226 (462)
Q Consensus 181 l~esL~~L~~~L~~~Gi~---L~v~~G~~-~~~L~~L~~~~~a~~V~~~~ 226 (462)
..+.+..+++.+.+.|+. ..+..|++ .+.+...+.+.+++.|++-.
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~ 121 (154)
T COG0589 72 AEELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGS 121 (154)
T ss_pred HHHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECC
Confidence 356677778888888865 46677998 69999999999999998865
No 74
>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=41.56 E-value=52 Score=35.21 Aligned_cols=67 Identities=16% Similarity=0.280 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHhCCCcEEEEEC--ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEE
Q 012490 182 IESVSDLRKNLQARGSDLVVRVG--KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G--~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~ 252 (462)
-+=|..+.+++.+.|..+++... +..+.+.+++++.++..|.........|. .+.+.|++.|+++..
T Consensus 50 d~~l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS~~~eei----gl~~~L~~~g~~~~e 118 (432)
T TIGR00273 50 DFYLDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSKSMVSEEI----GLNEVLEKIGIEVWE 118 (432)
T ss_pred HHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcCchHHHHh----CCHHHHHhCCCeeee
Confidence 34456667778888998888753 45577889999999999988765544443 566777778988654
No 75
>TIGR01670 YrbI-phosphatas 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase, YrbI family. The Methanosarcina sequence is distinctive in that it is linked to an N-terminal cytidylyltransferase domain (pfam02348) and is annotated as acylneuraminate cytidylyltransferase. This may give some clue as the function of these phosphatases. Several eukaryotic sequences scoring between trusted and noise are also closely related to this function such as the CMP-N-acetylneuraminic acid synthetase from mouse, but in these cases the phosphatase domain is clearly inactive as many of the active site residues are not conserved.
Probab=40.70 E-value=90 Score=27.95 Aligned_cols=54 Identities=9% Similarity=0.242 Sum_probs=38.8
Q ss_pred HHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCC
Q 012490 189 RKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGI 248 (462)
Q Consensus 189 ~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI 248 (462)
=+.|++.|+.+.|..+.+...+..+++++|+...+.... +. -+.+.++|++.|+
T Consensus 37 i~~Lk~~G~~i~IvTn~~~~~~~~~l~~~gi~~~~~~~~--~k----~~~~~~~~~~~~~ 90 (154)
T TIGR01670 37 IRCALKSGIEVAIITGRKAKLVEDRCKTLGITHLYQGQS--NK----LIAFSDILEKLAL 90 (154)
T ss_pred HHHHHHCCCEEEEEECCCCHHHHHHHHHcCCCEEEeccc--ch----HHHHHHHHHHcCC
Confidence 345677899999999998888889999999988765431 11 2345566666564
No 76
>TIGR02199 rfaE_dom_II rfaE bifunctional protein, domain II. RfaE is a protein involved in the biosynthesis of ADP-L-glycero-D-manno-heptose, a precursor for LPS inner core biosynthesis. RfaE is a bifunctional protein in E. coli, and separate proteins in some other genome. Domain I (TIGR02198) is suggested to act in D-glycero-D-manno-heptose 1-phosphate biosynthesis, while domain II (this family) adds ADP to yield ADP-D-glycero-D-manno-heptose.
Probab=40.68 E-value=1.4e+02 Score=26.50 Aligned_cols=113 Identities=15% Similarity=-0.022 Sum_probs=65.9
Q ss_pred EEEEEeCCCCccChHHHHHhh-hcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCC-CcEEEEE
Q 012490 126 SIVWFRNDLRVHDNESLNTAN-NESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARG-SDLVVRV 203 (462)
Q Consensus 126 ~LvWFRrDLRl~DN~AL~~A~-~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~G-i~L~v~~ 203 (462)
++.--.=|.=-.-|-.|...+ +.+..++.++.+||.-.. . + +.. ..+-++.+=.+.|.+.| ++.++.
T Consensus 14 v~~~G~FDgvH~GH~~ll~~a~~~~~~~~v~v~~d~~~~~-~-----k-~~~---~~l~~~eeR~~~l~~~~~VD~vi~- 82 (144)
T TIGR02199 14 VFTNGCFDILHAGHVSYLQQARALGDRLVVGVNSDASVKR-L-----K-GET---RPINPEEDRAEVLAALSSVDYVVI- 82 (144)
T ss_pred EEEeCcccccCHHHHHHHHHHHHhCCccEEEEECCcCHHH-h-----C-CCC---CCcCCHHHHHHHHHhcCCCCEEEE-
Confidence 333333466555666665544 445557777788875321 0 0 000 11334555566677775 887666
Q ss_pred CChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 204 GKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 204 G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
.+.. .-.++++.++++.|+...++...... -.+.+++.|.++..++
T Consensus 83 f~~~-~~~~fi~~l~~~~vv~G~d~~~~~~~----~~~~~~~~g~~v~~~~ 128 (144)
T TIGR02199 83 FDED-TPEELIGELKPDILVKGGDYKVETLV----GAELVESYGGQVVLLP 128 (144)
T ss_pred CCCC-CHHHHHHHhCCCEEEECCCCCCCcch----hHHHHHHcCCEEEEEe
Confidence 3221 23456678999999999988764321 1245677788888655
No 77
>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=39.98 E-value=1.7e+02 Score=28.66 Aligned_cols=74 Identities=11% Similarity=0.161 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHHHHHhC-----CCcEEEEECChHHHHHHHHHHhCCCEEEEe-ccCCchHHHHHHHHHHHhhhcCCe
Q 012490 176 YRASFLIESVSDLRKNLQAR-----GSDLVVRVGKPETVLVELAKAIGADAVYAH-REVSHDEVKSEEKIEAAMKDEGIE 249 (462)
Q Consensus 176 ~r~~Fl~esL~~L~~~L~~~-----Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~-~ey~p~e~~rd~~v~~~l~~~gI~ 249 (462)
.+..=+.+.|.+|++.+++. +..+++.+ +.+..|++.+|.+.+... .+-+|... .-.++.+.+++.+|.
T Consensus 145 ~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H----~af~Y~~~~ygl~~~~~~~~~~eps~~-~l~~l~~~ik~~~v~ 219 (266)
T cd01018 145 ANLDALLAELDALDSEIRTILSKLKQRAFMVYH----PAWGYFARDYGLTQIPIEEEGKEPSPA-DLKRLIDLAKEKGVR 219 (266)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCeEEEEC----chhHHHHHHcCCEEEecCCCCCCCCHH-HHHHHHHHHHHcCCC
Confidence 34455666777777776653 22333322 478899999999876542 22233333 335677778889998
Q ss_pred EEEEe
Q 012490 250 VKYFW 254 (462)
Q Consensus 250 v~~~~ 254 (462)
+..++
T Consensus 220 ~if~e 224 (266)
T cd01018 220 VVFVQ 224 (266)
T ss_pred EEEEc
Confidence 87643
No 78
>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=39.24 E-value=1.9e+02 Score=27.42 Aligned_cols=71 Identities=17% Similarity=0.203 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECChH-H---HHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGKPE-T---VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~-~---~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
.|+.+-+..+++.+++.|..+.+...+.. + .+.+.+.+.+++.|+..... ... .+. .+.+.||++..++
T Consensus 15 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~-~~~-----~~~-~l~~~~ipvV~~~ 87 (268)
T cd06277 15 AFYSEIYRAIEEEAKKYGYNLILKFVSDEDEEEFELPSFLEDGKVDGIILLGGI-STE-----YIK-EIKELGIPFVLVD 87 (268)
T ss_pred CcHHHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHCCCCEEEEeCCC-ChH-----HHH-HHhhcCCCEEEEc
Confidence 45566667788889999999888764321 1 22333445689999875522 121 133 3456799999876
Q ss_pred CC
Q 012490 255 GS 256 (462)
Q Consensus 255 ~~ 256 (462)
..
T Consensus 88 ~~ 89 (268)
T cd06277 88 HY 89 (268)
T ss_pred cC
Confidence 43
No 79
>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=39.01 E-value=2.2e+02 Score=26.78 Aligned_cols=73 Identities=12% Similarity=0.127 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECC-----hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGK-----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~-----~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.|+.+-+.-+++.+++.|..+.+...+ ....+.+++...+++.|+..-..... ..+.+.+.+.||++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~-----~~~~~~~~~~~ipvv~i 86 (270)
T cd01545 12 GYVSEIQLGALDACRDTGYQLVIEPCDSGSPDLAERVRALLQRSRVDGVILTPPLSDN-----PELLDLLDEAGVPYVRI 86 (270)
T ss_pred ccHHHHHHHHHHHHHhCCCeEEEEeCCCCchHHHHHHHHHHHHCCCCEEEEeCCCCCc-----cHHHHHHHhcCCCEEEE
Confidence 466666677777888999998887543 23345555666789998875321111 12233456679999988
Q ss_pred eCC
Q 012490 254 WGS 256 (462)
Q Consensus 254 ~~~ 256 (462)
+..
T Consensus 87 ~~~ 89 (270)
T cd01545 87 APG 89 (270)
T ss_pred ecC
Confidence 654
No 80
>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=39.01 E-value=43 Score=31.35 Aligned_cols=44 Identities=25% Similarity=0.407 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEe
Q 012490 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (462)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~ 225 (462)
..++.++=+.|++.|.++.|..+.....+..+++..|+..++.+
T Consensus 87 ~~g~~~~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~~i~~~~~~ 130 (219)
T TIGR00338 87 TEGAEELVKTLKEKGYKVAVISGGFDLFAEHVKDKLGLDAAFAN 130 (219)
T ss_pred CCCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEee
Confidence 34555666667777777777777776777777777777665543
No 81
>KOG1615 consensus Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=38.12 E-value=42 Score=32.18 Aligned_cols=35 Identities=23% Similarity=0.444 Sum_probs=16.3
Q ss_pred HHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCC
Q 012490 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGA 219 (462)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a 219 (462)
+++|-..|+++|..++++.|.....+.-.+.+.|+
T Consensus 93 i~eLv~~L~~~~~~v~liSGGF~~~i~~Va~~Lgi 127 (227)
T KOG1615|consen 93 IRELVSRLHARGTQVYLISGGFRQLIEPVAEQLGI 127 (227)
T ss_pred HHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHhCC
Confidence 34444444455555555555444444444444444
No 82
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=37.95 E-value=1.1e+02 Score=28.52 Aligned_cols=56 Identities=18% Similarity=0.284 Sum_probs=41.6
Q ss_pred HHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEE
Q 012490 190 KNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (462)
Q Consensus 190 ~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~ 251 (462)
.++++.|+.++|..-+.+.-+..+++..|+.-|+...- |... .++++|++.+++.+
T Consensus 56 ~e~k~~gi~v~vvSNn~e~RV~~~~~~l~v~fi~~A~K--P~~~----~fr~Al~~m~l~~~ 111 (175)
T COG2179 56 AELKEAGIKVVVVSNNKESRVARAAEKLGVPFIYRAKK--PFGR----AFRRALKEMNLPPE 111 (175)
T ss_pred HHHHhcCCEEEEEeCCCHHHHHhhhhhcCCceeecccC--ccHH----HHHHHHHHcCCChh
Confidence 36778899999998888888889999999988877553 4433 45666666676543
No 83
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=37.89 E-value=2.7e+02 Score=26.43 Aligned_cols=71 Identities=15% Similarity=0.222 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECC--hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeC
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGK--PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~--~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
.|+.+-++.+++.+++.|..+.+...+ ..+.+.+.+.+.+++.|+....... . ..+ +.+.+.||++..++.
T Consensus 23 ~~~~~~~~gi~~~~~~~g~~~~v~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~-~----~~~-~~~~~~~ipvV~~~~ 95 (275)
T cd06295 23 PFFLSLLGGIADALAERGYDLLLSFVSSPDRDWLARYLASGRADGVILIGQHDQ-D----PLP-ERLAETGLPFVVWGR 95 (275)
T ss_pred chHHHHHHHHHHHHHHcCCEEEEEeCCchhHHHHHHHHHhCCCCEEEEeCCCCC-h----HHH-HHHHhCCCCEEEECC
Confidence 355556667788899999998887532 2445555666678998876432211 1 113 345668999998764
No 84
>COG0757 AroQ 3-dehydroquinate dehydratase II [Amino acid transport and metabolism]
Probab=37.11 E-value=3.2e+02 Score=24.75 Aligned_cols=70 Identities=14% Similarity=0.169 Sum_probs=46.5
Q ss_pred HHHHHhCCCcEEEEECChHHHHHHHHHHhCC--CEEEEe-ccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCC
Q 012490 189 RKNLQARGSDLVVRVGKPETVLVELAKAIGA--DAVYAH-REVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLD 262 (462)
Q Consensus 189 ~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a--~~V~~~-~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~ 262 (462)
++.-+++|+.+.+++.+.+-.|.+++.+..- ..|+.| ..|++..+. ++.++..-.+++..++=..+...+
T Consensus 35 ~~~a~~~g~~v~~~QSN~Eg~Lid~Ihea~~~~~~IvINpga~THTSvA----lrDAi~av~iP~vEVHlSNihaRE 107 (146)
T COG0757 35 EEEAAKLGVEVEFRQSNHEGELIDWIHEARGKAGDIVINPGAYTHTSVA----LRDAIAAVSIPVVEVHLSNIHARE 107 (146)
T ss_pred HHHHHHcCceEEEEecCchHHHHHHHHHhhccCCeEEEcCccchhhHHH----HHHHHHhcCCCEEEEEecCchhcc
Confidence 3344567999999998888777777755422 226666 477777775 455666667899887655554433
No 85
>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=37.07 E-value=59 Score=32.66 Aligned_cols=30 Identities=17% Similarity=0.189 Sum_probs=12.8
Q ss_pred HHHHHHHhCCCcEEEEECChHHHHHHHHHH
Q 012490 187 DLRKNLQARGSDLVVRVGKPETVLVELAKA 216 (462)
Q Consensus 187 ~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~ 216 (462)
+|=+.|+++|+++.|..|.....+..++++
T Consensus 128 efl~~L~~~GIpv~IvS~G~~~~Ie~vL~~ 157 (277)
T TIGR01544 128 NFFDKLQQHSIPVFIFSAGIGNVLEEVLRQ 157 (277)
T ss_pred HHHHHHHHCCCcEEEEeCCcHHHHHHHHHH
Confidence 333344444444444444444444444443
No 86
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=36.80 E-value=2.6e+02 Score=26.82 Aligned_cols=73 Identities=19% Similarity=0.088 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEEC-ChHH---HHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVG-KPET---VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G-~~~~---~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
.|+.+-++.+++.+++.|..+.+... +..+ .+..+ ...+++.|+.... +. .....+.+.+.+.||++..++
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~i~~~-~~~~~dgiii~~~---~~-~~~~~~~~~~~~~~iPvV~~~ 86 (289)
T cd01540 12 PWFQTEWKFAKKAAKEKGFTVVKIDVPDGEKVLSAIDNL-GAQGAKGFVICVP---DV-KLGPAIVAKAKAYNMKVVAVD 86 (289)
T ss_pred cHHHHHHHHHHHHHHHcCCEEEEccCCCHHHHHHHHHHH-HHcCCCEEEEccC---ch-hhhHHHHHHHHhCCCeEEEec
Confidence 35566678888899999999888754 3322 22232 3467888887532 11 111233444667899999886
Q ss_pred CC
Q 012490 255 GS 256 (462)
Q Consensus 255 ~~ 256 (462)
..
T Consensus 87 ~~ 88 (289)
T cd01540 87 DR 88 (289)
T ss_pred CC
Confidence 54
No 87
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=36.78 E-value=2.6e+02 Score=25.83 Aligned_cols=71 Identities=14% Similarity=0.124 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECCh-----HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGKP-----ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~~-----~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.|..+-...+++.++++|+.+.++..+. .+.+..+.. .+++.|+........ .. ...+.+.||++..+
T Consensus 12 ~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~-~~~d~iii~~~~~~~-~~-----~~~~~~~~ipvv~~ 84 (264)
T cd06267 12 PFFAELLRGIEEAAREAGYSVLLCNSDEDPEKEREALELLLS-RRVDGIILAPSRLDD-EL-----LEELAALGIPVVLV 84 (264)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHH-cCcCEEEEecCCcch-HH-----HHHHHHcCCCEEEe
Confidence 3455555677777888899999886542 344445544 478888775533221 11 23356789999987
Q ss_pred eCC
Q 012490 254 WGS 256 (462)
Q Consensus 254 ~~~ 256 (462)
...
T Consensus 85 ~~~ 87 (264)
T cd06267 85 DRP 87 (264)
T ss_pred ccc
Confidence 654
No 88
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=36.76 E-value=65 Score=28.55 Aligned_cols=44 Identities=20% Similarity=0.268 Sum_probs=29.7
Q ss_pred HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 208 TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 208 ~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
+.+.+++++.+++.|+..... .+...-+++-+.|++.||+++.+
T Consensus 131 ~~l~~~~~~~~id~v~ial~~--~~~~~i~~ii~~~~~~~v~v~~v 174 (175)
T PF13727_consen 131 DDLPELVREHDIDEVIIALPW--SEEEQIKRIIEELENHGVRVRVV 174 (175)
T ss_dssp GGHHHHHHHHT--EEEE--TT--S-HHHHHHHHHHHHTTT-EEEE-
T ss_pred HHHHHHHHhCCCCEEEEEcCc--cCHHHHHHHHHHHHhCCCEEEEe
Confidence 678889999999999997643 33445577888999999999864
No 89
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=36.71 E-value=3e+02 Score=25.91 Aligned_cols=73 Identities=16% Similarity=0.203 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHHHhCCCcEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEE
Q 012490 178 ASFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 178 ~~Fl~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~ 252 (462)
..|+.+-+..+++.+++.|..+.+..+ +.. +.+..+. ..+++.|+.... ... ..++.+.. +.+.||++..
T Consensus 11 ~~~~~~~~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~~~-~~~vdgiii~~~-~~~--~~~~~~~~-~~~~~ipvV~ 85 (267)
T cd06322 11 HPFYIELANAMKEEAKKQKVNLIVSIANQDLNKQLSDVEDFI-TKKVDAIVLSPV-DSK--GIRAAIAK-AKKAGIPVIT 85 (267)
T ss_pred cHHHHHHHHHHHHHHHhcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC-Chh--hhHHHHHH-HHHCCCCEEE
Confidence 367778889999999999999988754 332 3333433 458998888432 111 11223433 5667999998
Q ss_pred EeC
Q 012490 253 FWG 255 (462)
Q Consensus 253 ~~~ 255 (462)
++.
T Consensus 86 ~~~ 88 (267)
T cd06322 86 VDI 88 (267)
T ss_pred Ecc
Confidence 864
No 90
>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=36.15 E-value=1.7e+02 Score=32.22 Aligned_cols=42 Identities=24% Similarity=0.354 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEE
Q 012490 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYA 224 (462)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~ 224 (462)
.....++=+.|++.|+++.+..|+.......+++++|++ ++.
T Consensus 407 ~~~a~e~i~~Lk~~Gi~v~ilSgd~~~~a~~ia~~lgi~-~~~ 448 (562)
T TIGR01511 407 RPEAKEVIQALKRRGIEPVMLTGDNRKTAKAVAKELGIN-VRA 448 (562)
T ss_pred cHHHHHHHHHHHHcCCeEEEEcCCCHHHHHHHHHHcCCc-EEc
Confidence 344555566678889999999999999999999999997 443
No 91
>PRK10671 copA copper exporting ATPase; Provisional
Probab=35.12 E-value=1.9e+02 Score=33.58 Aligned_cols=44 Identities=32% Similarity=0.336 Sum_probs=35.9
Q ss_pred HHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchH
Q 012490 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDE 232 (462)
Q Consensus 187 ~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e 232 (462)
+.-+.|++.|+++.+..|+.......++++.|+..++.. ..|.+
T Consensus 657 ~~i~~L~~~gi~v~~~Tgd~~~~a~~ia~~lgi~~~~~~--~~p~~ 700 (834)
T PRK10671 657 AALQRLHKAGYRLVMLTGDNPTTANAIAKEAGIDEVIAG--VLPDG 700 (834)
T ss_pred HHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcCCCEEEeC--CCHHH
Confidence 333667888999999999999999999999999998874 34554
No 92
>PF07476 MAAL_C: Methylaspartate ammonia-lyase C-terminus; InterPro: IPR022662 Methylaspartate ammonia-lyase 4.3.1.2 from EC catalyses the second step of fermentation of glutamate. It is a homodimer. This domain represents the C-terminal region of methylaspartate ammonia-lyase and contains a TIM barrel fold similar to the PF01188 from PFAM. This domain represents the catalytic domain and contains a metal binding site []. ; PDB: 1KKO_B 1KKR_A 3ZVI_A 1KD0_B 1KCZ_B 3ZVH_A.
Probab=34.88 E-value=1.9e+02 Score=28.40 Aligned_cols=86 Identities=21% Similarity=0.270 Sum_probs=46.6
Q ss_pred eeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEEC---ChHHHHHHHHHHhCCCEEEEeccCC
Q 012490 153 LPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG---KPETVLVELAKAIGADAVYAHREVS 229 (462)
Q Consensus 153 lpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G---~~~~~L~~L~~~~~a~~V~~~~ey~ 229 (462)
++++|=.|-+.+ .+ .==++.|..|++.|+.+|+++.++.. +..+-+.+|+..-.+.-|-. .-.+
T Consensus 105 ~~L~iEgP~d~g----------~r--~~QI~~l~~Lr~~L~~~g~~v~iVADEWCNT~eDI~~F~da~A~dmVQI-KtPD 171 (248)
T PF07476_consen 105 FKLRIEGPMDAG----------SR--EAQIEALAELREELDRRGINVEIVADEWCNTLEDIREFADAKAADMVQI-KTPD 171 (248)
T ss_dssp S-EEEE-SB--S----------SH--HHHHHHHHHHHHHHHHCT--EEEEE-TT--SHHHHHHHHHTT-SSEEEE--GGG
T ss_pred CeeeeeCCcCCC----------Ch--HHHHHHHHHHHHHHHhcCCCCeEEeehhcCCHHHHHHHHhcCCcCEEEe-cCCC
Confidence 578887775543 11 22247889999999999999999874 57778888887644444433 2221
Q ss_pred chHHHHHHHHHHHhhhcCCeEE
Q 012490 230 HDEVKSEEKIEAAMKDEGIEVK 251 (462)
Q Consensus 230 p~e~~rd~~v~~~l~~~gI~v~ 251 (462)
-..+..--...-.|++.|+-..
T Consensus 172 LGgi~ntieAvlyCk~~gvgaY 193 (248)
T PF07476_consen 172 LGGINNTIEAVLYCKEHGVGAY 193 (248)
T ss_dssp GSSTHHHHHHHHHHHHTT-EEE
T ss_pred ccchhhHHHHHHHHHhcCCcee
Confidence 1222222222336788888654
No 93
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=34.78 E-value=97 Score=30.36 Aligned_cols=48 Identities=15% Similarity=0.218 Sum_probs=40.1
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeC
Q 012490 205 KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 205 ~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
.+...+.+.++..|++.|.. .+||....++.+++.+++.|+++..+.+
T Consensus 106 t~~~A~~~AL~alg~~RIal---vTPY~~~v~~~~~~~l~~~G~eV~~~~~ 153 (239)
T TIGR02990 106 TPSSAAVDGLAALGVRRISL---LTPYTPETSRPMAQYFAVRGFEIVNFTC 153 (239)
T ss_pred CHHHHHHHHHHHcCCCEEEE---ECCCcHHHHHHHHHHHHhCCcEEeeeec
Confidence 46678888888899999988 5567777788999999999999988755
No 94
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=34.35 E-value=3e+02 Score=26.38 Aligned_cols=73 Identities=14% Similarity=0.063 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
-|+.+-+..+++.+++.|..+.+...+ +. +.+..+. ..+++.|+.... +....+..+ +.+.+.||++..+
T Consensus 12 ~f~~~~~~gi~~~~~~~G~~~~~~~~~~d~~~~~~~i~~~~-~~~vdgiii~~~---~~~~~~~~i-~~~~~~~iPvV~~ 86 (272)
T cd06313 12 TWCAQGKQAADEAGKLLGVDVTWYGGALDAVKQVAAIENMA-SQGWDFIAVDPL---GIGTLTEAV-QKAIARGIPVIDM 86 (272)
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC---ChHHhHHHH-HHHHHCCCcEEEe
Confidence 577788888999999999999988643 32 3333433 468888888431 111122233 3455679999988
Q ss_pred eCC
Q 012490 254 WGS 256 (462)
Q Consensus 254 ~~~ 256 (462)
+..
T Consensus 87 ~~~ 89 (272)
T cd06313 87 GTL 89 (272)
T ss_pred CCC
Confidence 654
No 95
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=33.94 E-value=91 Score=30.96 Aligned_cols=48 Identities=15% Similarity=0.132 Sum_probs=40.4
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCC
Q 012490 207 ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (462)
Q Consensus 207 ~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~ 256 (462)
.+.|.+++++.+++.|+=. ..||.-+.-++..++|++.||++..|.-.
T Consensus 55 ~e~l~~~l~e~~i~llIDA--THPyAa~iS~Na~~aake~gipy~r~eRP 102 (257)
T COG2099 55 AEGLAAFLREEGIDLLIDA--THPYAARISQNAARAAKETGIPYLRLERP 102 (257)
T ss_pred HHHHHHHHHHcCCCEEEEC--CChHHHHHHHHHHHHHHHhCCcEEEEECC
Confidence 4889999999999987653 45898888999999999999999987543
No 96
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=33.84 E-value=1.3e+02 Score=26.11 Aligned_cols=47 Identities=15% Similarity=0.180 Sum_probs=34.8
Q ss_pred HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCC
Q 012490 208 TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (462)
Q Consensus 208 ~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~ 256 (462)
+...+.+++-.+.-|+..+|.+|.+.. ..+...|++.+|++..+.+.
T Consensus 33 ~e~~Kai~~g~a~LVviA~Dv~P~~~~--~~l~~lc~~~~vpyv~V~sk 79 (116)
T COG1358 33 NEVTKAIERGKAKLVVIAEDVSPEELV--KHLPALCEEKNVPYVYVGSK 79 (116)
T ss_pred HHHHHHHHcCCCcEEEEecCCCHHHHH--HHHHHHHHhcCCCEEEeCCH
Confidence 344455555678888999999888774 46888899999999876543
No 97
>PRK10826 2-deoxyglucose-6-phosphatase; Provisional
Probab=33.66 E-value=56 Score=30.80 Aligned_cols=33 Identities=12% Similarity=0.145 Sum_probs=13.8
Q ss_pred HHHHHHHHhCCCcEEEEECChHHHHHHHHHHhC
Q 012490 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKAIG 218 (462)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~ 218 (462)
.++=+.|++.|+++.|..+.....+..+++..+
T Consensus 98 ~~~l~~l~~~g~~~~i~S~~~~~~~~~~l~~~~ 130 (222)
T PRK10826 98 REALALCKAQGLKIGLASASPLHMLEAVLTMFD 130 (222)
T ss_pred HHHHHHHHHCCCeEEEEeCCcHHHHHHHHHhCc
Confidence 333344444444444444444333333334333
No 98
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=33.63 E-value=1.6e+02 Score=28.16 Aligned_cols=71 Identities=13% Similarity=0.016 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECCh----HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGKP----ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~~----~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
.|+.+-+..+.+.++++|..+.+...+. .+.+..++...+++.|++... ... ..+.+.+.+.|+++..++
T Consensus 12 ~~~~~~~~~i~~~~~~~gy~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~-~~~-----~~~~~~l~~~~iPvv~~~ 85 (269)
T cd06297 12 EFYRRLLEGIEGALLEQRYDLALFPLLSLARLKRYLESTTLAYLTDGLLLASY-DLT-----ERLAERRLPTERPVVLVD 85 (269)
T ss_pred hhHHHHHHHHHHHHHHCCCEEEEEeCCCcHHHHHHHHHHHHhcCCCEEEEecC-ccC-----hHHHHHHhhcCCCEEEEc
Confidence 4556667888889999999999876432 233334455678998888642 122 123344567899999886
Q ss_pred C
Q 012490 255 G 255 (462)
Q Consensus 255 ~ 255 (462)
.
T Consensus 86 ~ 86 (269)
T cd06297 86 A 86 (269)
T ss_pred c
Confidence 5
No 99
>PLN02954 phosphoserine phosphatase
Probab=33.46 E-value=64 Score=30.29 Aligned_cols=38 Identities=26% Similarity=0.475 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCC
Q 012490 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~ 220 (462)
.++.++-+.|++.|+++.|..+.....+..+++.+|+.
T Consensus 87 pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~~l~~~gi~ 124 (224)
T PLN02954 87 PGIPELVKKLRARGTDVYLVSGGFRQMIAPVAAILGIP 124 (224)
T ss_pred ccHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHhCCC
Confidence 44555555566666666666666666666666666654
No 100
>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=33.16 E-value=24 Score=32.16 Aligned_cols=75 Identities=19% Similarity=0.293 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHHHhCCCcEEEEEC--------ChHHHHHHHHH-HhCCCEEEEeccCCchHHH--HHHHHHHHhhhcCCe
Q 012490 181 LIESVSDLRKNLQARGSDLVVRVG--------KPETVLVELAK-AIGADAVYAHREVSHDEVK--SEEKIEAAMKDEGIE 249 (462)
Q Consensus 181 l~esL~~L~~~L~~~Gi~L~v~~G--------~~~~~L~~L~~-~~~a~~V~~~~ey~p~e~~--rd~~v~~~l~~~gI~ 249 (462)
.+-++.+=.+.|+++|++.++... .+.+-+..++. +.++..|++-.|+.....+ --+.+++.+++.|++
T Consensus 60 ~l~s~~ek~~~l~~~Gvd~~~~~~F~~~~~~ls~~~Fi~~iL~~~l~~~~ivvG~DfrFG~~~~G~~~~L~~~~~~~g~~ 139 (157)
T PF06574_consen 60 LLTSLEEKLELLESLGVDYVIVIPFTEEFANLSPEDFIEKILKEKLNVKHIVVGEDFRFGKNRSGDVELLKELGKEYGFE 139 (157)
T ss_dssp BSS-HHHHHHHHHHTTESEEEEE-CCCHHCCS-HHHHHHHHCCCHCTEEEEEEETT-EESGGGEEEHHHHHHCTTTT-SE
T ss_pred CCCCHHHHHHHHHHcCCCEEEEecchHHHHcCCHHHHHHHHHHhcCCccEEEEccCccCCCCCCCCHHHHHHhcccCceE
Confidence 356677777788899998776532 35566666555 8999999999988543322 135678888888999
Q ss_pred EEEEeC
Q 012490 250 VKYFWG 255 (462)
Q Consensus 250 v~~~~~ 255 (462)
+..++.
T Consensus 140 v~~v~~ 145 (157)
T PF06574_consen 140 VEVVPP 145 (157)
T ss_dssp EEEE--
T ss_pred EEEECC
Confidence 987653
No 101
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=32.71 E-value=3.9e+02 Score=26.26 Aligned_cols=74 Identities=15% Similarity=0.138 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHHHHHHhCCCcEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEE
Q 012490 178 ASFLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 178 ~~Fl~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~ 252 (462)
-.|+......+++.+++.|..+++...+ .. +.+.. +...+++.|+.... +....+..+ +.+.+.||+|..
T Consensus 10 ~~~~~~~~~~i~~~a~~~g~~v~~~~~~~~~~~q~~~i~~-l~~~~vDgIIi~~~---~~~~~~~~l-~~~~~~~iPvV~ 84 (302)
T TIGR02634 10 LERWQKDRDIFVAAAESLGAKVFVQSANGNEAKQISQIEN-LIARGVDVLVIIPQ---NGQVLSNAV-QEAKDEGIKVVA 84 (302)
T ss_pred hhhHHHHHHHHHHHHHhcCCEEEEEeCCCCHHHHHHHHHH-HHHcCCCEEEEeCC---ChhHHHHHH-HHHHHCCCeEEE
Confidence 4788888999999999999999887543 22 33333 33458898887542 212223333 345678999998
Q ss_pred EeCC
Q 012490 253 FWGS 256 (462)
Q Consensus 253 ~~~~ 256 (462)
++..
T Consensus 85 ~d~~ 88 (302)
T TIGR02634 85 YDRL 88 (302)
T ss_pred ecCc
Confidence 8653
No 102
>PRK11175 universal stress protein UspE; Provisional
Probab=32.51 E-value=2.8e+02 Score=27.17 Aligned_cols=71 Identities=11% Similarity=0.028 Sum_probs=43.9
Q ss_pred HHHHHHHHHhCCCcEEE--E-ECChHHHHHHHHHHhCCCEEEEeccCCchHHHH--HHHHHHHhhhcCCeEEEEeC
Q 012490 185 VSDLRKNLQARGSDLVV--R-VGKPETVLVELAKAIGADAVYAHREVSHDEVKS--EEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 185 L~~L~~~L~~~Gi~L~v--~-~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~r--d~~v~~~l~~~gI~v~~~~~ 255 (462)
|++..+.++..|++... . .|++.+.+.+.+++.+++-|++...-.....+. .-..++.+....+++-.+..
T Consensus 71 l~~~~~~~~~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~~ 146 (305)
T PRK11175 71 IREQAKPYLDAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVKD 146 (305)
T ss_pred HHHHHHHHhhcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEecc
Confidence 44444455556766643 3 589999999999999999999976432211110 11123445556788877654
No 103
>cd06547 GH85_ENGase Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with the protein and N-acetylglucosamine 2 forms the reducing end of the released glycan. ENGase is a key enzyme in the processing of free oligosaccharides in the cytosol of eukaryotes. Oligosaccharides formed in the lumen of the endoplasmic reticulum are transported into the cytosol where they are catabolized by cytosolic ENGases and other enzymes, possibly to maximize the reutilization of the component sugars. ENGases have an eight-stranded alpha/beta barrel topology and are classified as a family 85 glycosyl hydrolase (GH85) domain. The GH85 ENGases are sequence-similar to the family 18 glycosyl hydrolases, also known as GH18 chitinases. An ENGase-like protein is also found in bacteria and is included in this alignment mod
Probab=32.42 E-value=3.6e+02 Score=27.86 Aligned_cols=105 Identities=22% Similarity=0.281 Sum_probs=61.3
Q ss_pred EEEEeCCCCccChHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh-CCCcEEEEECC
Q 012490 127 IVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQA-RGSDLVVRVGK 205 (462)
Q Consensus 127 LvWFRrDLRl~DN~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~-~Gi~L~v~~G~ 205 (462)
++|=..-.++-.-..+.+|-++|.+|++.++++.. + +. .+ +++-|++ .... -.
T Consensus 37 vywsh~~~~iPp~~~idaAHknGV~Vlgti~~e~~--~---------~~---~~-------~~~lL~~~~~~~-----~~ 90 (339)
T cd06547 37 VYFSHSAVTIPPADWINAAHRNGVPVLGTFIFEWT--G---------QV---EW-------LEDFLKKDEDGS-----FP 90 (339)
T ss_pred ecccCccccCCCcHHHHHHHhcCCeEEEEEEecCC--C---------ch---HH-------HHHHhccCcccc-----hH
Confidence 45555555666555556666789999999998753 1 11 11 2222221 1111 12
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCc-hH--HH----HHHHHHHHhhhc--CCeEEEEeCCe
Q 012490 206 PETVLVELAKAIGADAVYAHREVSH-DE--VK----SEEKIEAAMKDE--GIEVKYFWGST 257 (462)
Q Consensus 206 ~~~~L~~L~~~~~a~~V~~~~ey~p-~e--~~----rd~~v~~~l~~~--gI~v~~~~~~~ 257 (462)
.++.|.++++.+|.+-+..|.|... .. .. .-+.+.+.+++. +..+..|++.+
T Consensus 91 ~a~kLv~lak~yGfDGw~iN~E~~~~~~~~~~~l~~F~~~L~~~~~~~~~~~~v~WYDs~t 151 (339)
T cd06547 91 VADKLVEVAKYYGFDGWLINIETELGDAEKAKRLIAFLRYLKAKLHENVPGSLVIWYDSMT 151 (339)
T ss_pred HHHHHHHHHHHhCCCceEeeeeccCCcHHHHHHHHHHHHHHHHHHhhcCCCcEEEEEecCC
Confidence 4688999999999999999999876 21 11 123333333332 56666666543
No 104
>TIGR01517 ATPase-IIB_Ca plasma-membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIB based on a phylogenetic analysis which distinguishes this group from the Type IIA SERCA calcium pump. A separate analysis divides Type IIA into sub-types (SERCA and PMR1), which are modelled by the corresponding TIGR01116 and TIGR01522. This model is well separated from the two others.
Probab=32.34 E-value=1.7e+02 Score=34.58 Aligned_cols=39 Identities=15% Similarity=0.136 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCC
Q 012490 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (462)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~ 220 (462)
.+...+.-+.|++.|++++++.||....-..++++.|+.
T Consensus 581 r~~~~~aI~~l~~aGI~v~miTGD~~~tA~~iA~~~GI~ 619 (941)
T TIGR01517 581 RPGVREAVQECQRAGITVRMVTGDNIDTAKAIARNCGIL 619 (941)
T ss_pred chhHHHHHHHHHHCCCEEEEECCCChHHHHHHHHHcCCC
Confidence 345566667788889999999999999999999999985
No 105
>TIGR01522 ATPase-IIA2_Ca golgi membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIA based on a phylogenetic analysis which distinguishes this group from the Type IIB PMCA calcium pump modelled by TIGR01517. A separate analysis divides Type IIA into sub-types, SERCA and PMR1 the former of which is modelled by TIGR01116.
Probab=32.10 E-value=2.1e+02 Score=33.51 Aligned_cols=39 Identities=18% Similarity=0.343 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCC
Q 012490 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (462)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~ 220 (462)
.+...+.=+.|++.|+++.++.||..+.-..++++.|+.
T Consensus 530 r~~~~~~i~~l~~~Gi~v~miTGD~~~tA~~ia~~~Gi~ 568 (884)
T TIGR01522 530 RPGVKEAVTTLITGGVRIIMITGDSQETAVSIARRLGMP 568 (884)
T ss_pred hhHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCC
Confidence 456666777778999999999999999999999999986
No 106
>TIGR02137 HSK-PSP phosphoserine phosphatase/homoserine phosphotransferase bifunctional protein. This enzyme is a member of the haloacid dehalogenase (HAD) superfamily, specifically part of subfamily IB by virtue of the presence of an alpha helical domain in between motifs I and II of the HAD domain . The closest homologs to this family are monofunctional phosphoserine phosphatases (TIGR00338).
Probab=31.89 E-value=1.1e+02 Score=28.84 Aligned_cols=43 Identities=16% Similarity=0.231 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEe
Q 012490 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (462)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~ 225 (462)
..+..++=+.|++. +++.|+.|.....+..++++.|+..+++|
T Consensus 70 ~pga~ell~~lk~~-~~~~IVS~~~~~~~~~il~~lgi~~~~an 112 (203)
T TIGR02137 70 LEGAVEFVDWLRER-FQVVILSDTFYEFSQPLMRQLGFPTLLCH 112 (203)
T ss_pred CccHHHHHHHHHhC-CeEEEEeCChHHHHHHHHHHcCCchhhce
Confidence 33455666677775 48999999888888889999999888775
No 107
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=31.87 E-value=3.3e+02 Score=25.60 Aligned_cols=72 Identities=17% Similarity=0.232 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEE-EC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 180 FLIESVSDLRKNLQARGSDLVVR-VG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 180 Fl~esL~~L~~~L~~~Gi~L~v~-~G--~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
|+.+-.+-+++.++++|..+.+. .+ +.. +.+..+++ .+++.|+..-- .+... ...++ .+.+.||++..+
T Consensus 12 ~~~~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~-~~~d~Iiv~~~-~~~~~--~~~l~-~~~~~gIpvv~~ 86 (257)
T PF13407_consen 12 FWQQVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAIS-QGVDGIIVSPV-DPDSL--APFLE-KAKAAGIPVVTV 86 (257)
T ss_dssp HHHHHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHH-TTESEEEEESS-STTTT--HHHHH-HHHHTTSEEEEE
T ss_pred HHHHHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHH-hcCCEEEecCC-CHHHH--HHHHH-HHhhcCceEEEE
Confidence 77777888888999999999985 43 332 33333333 37998887642 22222 12333 456789999998
Q ss_pred eCC
Q 012490 254 WGS 256 (462)
Q Consensus 254 ~~~ 256 (462)
+..
T Consensus 87 d~~ 89 (257)
T PF13407_consen 87 DSD 89 (257)
T ss_dssp SST
T ss_pred ecc
Confidence 777
No 108
>TIGR00099 Cof-subfamily Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily. The members of this subfamily are restricted almost exclusively to bacteria (one sequences from S. pombe scores above trusted, while another is between trusted and noise). It is notable that no archaea are found in this group, the closest relations to the archaea found here being two Deinococcus sequences.
Probab=31.79 E-value=4.2e+02 Score=25.35 Aligned_cols=69 Identities=22% Similarity=0.440 Sum_probs=44.1
Q ss_pred HHHhCCCcEEEEECChHHHHHHHHHHhCCC--------EEEEecc--C---CchHHHHHHHHHHHhhhcCCeEEEEeCCe
Q 012490 191 NLQARGSDLVVRVGKPETVLVELAKAIGAD--------AVYAHRE--V---SHDEVKSEEKIEAAMKDEGIEVKYFWGST 257 (462)
Q Consensus 191 ~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~--------~V~~~~e--y---~p~e~~rd~~v~~~l~~~gI~v~~~~~~~ 257 (462)
.|++.|+.+.+..|++...+..++++.+.. +++++.+ + .+-....-+.+.+.+++.++.+..+.+..
T Consensus 27 ~l~~~G~~~~iaTGR~~~~~~~~~~~~~~~~~~I~~NGa~i~~~~~~~i~~~~i~~~~~~~i~~~~~~~~~~~~~~~~~~ 106 (256)
T TIGR00099 27 KLREKGIKVVLATGRPYKEVKNILKELGLDTPFITANGAAVIDDQGEILYKKPLDLDLVEEILNFLKKHGLDVILYGDDS 106 (256)
T ss_pred HHHHCCCeEEEEeCCCHHHHHHHHHHcCCCCCEEEcCCcEEECCCCCEEeecCCCHHHHHHHHHHHHHcCcEEEEEeCCe
Confidence 456779999999999988888888887765 2222211 0 11112233456667777888776665554
Q ss_pred ee
Q 012490 258 LY 259 (462)
Q Consensus 258 L~ 259 (462)
.+
T Consensus 107 ~~ 108 (256)
T TIGR00099 107 IY 108 (256)
T ss_pred EE
Confidence 44
No 109
>PRK10530 pyridoxal phosphate (PLP) phosphatase; Provisional
Probab=31.57 E-value=3.4e+02 Score=26.07 Aligned_cols=67 Identities=10% Similarity=0.211 Sum_probs=41.9
Q ss_pred HHHhCCCcEEEEECChHHHHHHHHHHhCCC--------EEEEe---ccC---CchHHHHHHHHHHHhhhcCCeEEEEeCC
Q 012490 191 NLQARGSDLVVRVGKPETVLVELAKAIGAD--------AVYAH---REV---SHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (462)
Q Consensus 191 ~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~--------~V~~~---~ey---~p~e~~rd~~v~~~l~~~gI~v~~~~~~ 256 (462)
.|++.|+.+.+-.|.+...+..++++.+.. +++++ .++ .+-....-+.+.+.+++.++.+..+.+.
T Consensus 31 ~~~~~G~~~~iaTGR~~~~~~~~~~~l~~~~~~I~~NGa~i~d~~~~~~l~~~~l~~~~~~~i~~~~~~~~~~~~~~~~~ 110 (272)
T PRK10530 31 RAREAGYKVIIVTGRHHVAIHPFYQALALDTPAICCNGTYLYDYQAKKVLEADPLPVQQALQVIEMLDEHQIHGLMYVDD 110 (272)
T ss_pred HHHHCCCEEEEEcCCChHHHHHHHHhcCCCCCEEEcCCcEEEecCCCEEEEecCCCHHHHHHHHHHHHhCCcEEEEEcCC
Confidence 367789999999999988888888887665 23332 111 1112233345666777778876655444
Q ss_pred e
Q 012490 257 T 257 (462)
Q Consensus 257 ~ 257 (462)
.
T Consensus 111 ~ 111 (272)
T PRK10530 111 A 111 (272)
T ss_pred c
Confidence 3
No 110
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=31.21 E-value=3.8e+02 Score=24.60 Aligned_cols=72 Identities=15% Similarity=0.217 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECC--h---HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGK--P---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~--~---~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.|..+-..-+++.++++|+.+.++... + .+.+.++++. +++.|+...... .... ....+.+.|+++..+
T Consensus 12 ~~~~~~~~g~~~~~~~~g~~l~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~~~-~~~~----~~~~l~~~~ip~v~~ 85 (264)
T cd01537 12 PFFAQVLKGIEEAAKAAGYQVLLANSQNDAEKQLSALENLIAR-GVDGIIIAPSDL-TAPT----IVKLARKAGIPVVLV 85 (264)
T ss_pred hHHHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecCCC-cchh----HHHHhhhcCCCEEEe
Confidence 355566677777788899999888643 2 3444555544 888888754321 2111 234556789999887
Q ss_pred eCC
Q 012490 254 WGS 256 (462)
Q Consensus 254 ~~~ 256 (462)
+..
T Consensus 86 ~~~ 88 (264)
T cd01537 86 DRD 88 (264)
T ss_pred ccC
Confidence 654
No 111
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=31.08 E-value=2.7e+02 Score=26.06 Aligned_cols=71 Identities=25% Similarity=0.294 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECC----hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGK----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~----~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
.|..+-+..+.+.+++.|+.+.+...+ ..+.+.+++++.+++.|+........ ..+ +.+.+.++++..++
T Consensus 16 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~-----~~~-~~~~~~~ipvV~~~ 89 (268)
T cd06271 16 PFFAEFLSGLSEALAEHGYDLVLLPVDPDEDPLEVYRRLVESGLVDGVIISRTRPDD-----PRV-ALLLERGFPFVTHG 89 (268)
T ss_pred ccHHHHHHHHHHHHHHCCceEEEecCCCcHHHHHHHHHHHHcCCCCEEEEecCCCCC-----hHH-HHHHhcCCCEEEEC
Confidence 344555667788888999998887643 23455666666678888875432111 122 34456799999875
Q ss_pred C
Q 012490 255 G 255 (462)
Q Consensus 255 ~ 255 (462)
.
T Consensus 90 ~ 90 (268)
T cd06271 90 R 90 (268)
T ss_pred C
Confidence 4
No 112
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=30.96 E-value=3.6e+02 Score=25.36 Aligned_cols=71 Identities=17% Similarity=0.157 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.|+.+-+..+++.+++.|..+.+...+ .. +.+.. +.+.+++.|++.... ... .. .+.+.+.||++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~-l~~~~~dgiii~~~~-~~~----~~-~~~~~~~~ipvV~i 84 (270)
T cd06296 12 PWASEVLRGVEEAAAAAGYDVVLSESGRRTSPERQWVER-LSARRTDGVILVTPE-LTS----AQ-RAALRRTGIPFVVV 84 (270)
T ss_pred ccHHHHHHHHHHHHHHcCCeEEEecCCCchHHHHHHHHH-HHHcCCCEEEEecCC-CCh----HH-HHHHhcCCCCEEEE
Confidence 455555677777888899999887643 21 22333 334588888765321 221 12 33456679999988
Q ss_pred eCC
Q 012490 254 WGS 256 (462)
Q Consensus 254 ~~~ 256 (462)
+..
T Consensus 85 ~~~ 87 (270)
T cd06296 85 DPA 87 (270)
T ss_pred ecc
Confidence 654
No 113
>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=30.65 E-value=3.7e+02 Score=26.53 Aligned_cols=71 Identities=17% Similarity=0.268 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHHhC-----CCcEEEEECChHHHHHHHHHHhCCCEEEEe---ccCCchHHHHHHHHHHHhhhcCCe
Q 012490 178 ASFLIESVSDLRKNLQAR-----GSDLVVRVGKPETVLVELAKAIGADAVYAH---REVSHDEVKSEEKIEAAMKDEGIE 249 (462)
Q Consensus 178 ~~Fl~esL~~L~~~L~~~-----Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~---~ey~p~e~~rd~~v~~~l~~~gI~ 249 (462)
..=+.+.|.+|++.+++. |..+++.+ +.+..|++.+|.+.+... .+.+|.... -.++.+.+++.||.
T Consensus 148 ~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H----~af~Y~~~~~gl~~~~~~~~~~~~eps~~~-l~~l~~~ik~~~v~ 222 (282)
T cd01017 148 AAAYAKKLEALDQEYRAKLAKAKGKTFVTQH----AAFGYLARRYGLKQIAIVGVSPEVEPSPKQ-LAELVEFVKKSDVK 222 (282)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCCeEEEec----ccHHHHHHHCCCeEEecccCCCCCCCCHHH-HHHHHHHHHHcCCC
Confidence 333456677777776653 33344333 478899999999977542 233444443 35577778999998
Q ss_pred EEEE
Q 012490 250 VKYF 253 (462)
Q Consensus 250 v~~~ 253 (462)
+..+
T Consensus 223 ~if~ 226 (282)
T cd01017 223 YIFF 226 (282)
T ss_pred EEEE
Confidence 8854
No 114
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=30.61 E-value=3.6e+02 Score=25.16 Aligned_cols=70 Identities=13% Similarity=0.151 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECC--h--HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGK--P--ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~--~--~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
.|+.+-+..+++.+++.|..+++...+ . ...+.+.+...+++.|+......+.. +.+.+ +.||++..+.
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~------~~~~~-~~~ipvv~~~ 84 (267)
T cd06284 12 PFFSEILKGIEDEAREAGYGVLLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT------ALTAL-AKLPPIVQAC 84 (267)
T ss_pred ccHHHHHHHHHHHHHHcCCeEEEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH------HHHHH-hcCCCEEEEe
Confidence 455556677888889999999887642 2 22334445566899888754322221 22233 3489998775
Q ss_pred C
Q 012490 255 G 255 (462)
Q Consensus 255 ~ 255 (462)
+
T Consensus 85 ~ 85 (267)
T cd06284 85 E 85 (267)
T ss_pred c
Confidence 3
No 115
>PLN02347 GMP synthetase
Probab=30.30 E-value=2.6e+02 Score=30.87 Aligned_cols=78 Identities=18% Similarity=0.217 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECCh-HHHHHHHHHH-hC--CCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGKP-ETVLVELAKA-IG--ADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~~-~~~L~~L~~~-~~--a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
.|+.+.++++++.+.+.+.-++-+.|.. -.++..++.+ .| +..|+++....+.. +.++.++..+++.||+++.++
T Consensus 213 ~~~~~~i~~i~~~~~~~~~vvvalSGGVDSsvla~l~~~alG~~v~av~id~g~~~~~-E~~~~~~~~a~~lgi~~~vvd 291 (536)
T PLN02347 213 DVLEEQIELIKATVGPDEHVICALSGGVDSTVAATLVHKAIGDRLHCVFVDNGLLRYK-EQERVMETFKRDLHLPVTCVD 291 (536)
T ss_pred hHHHHHHHHHHHHhccCCeEEEEecCChhHHHHHHHHHHHhCCcEEEEEEeCCCCChh-HHHHHHHHHHHHcCCcEEEEe
Confidence 4566778888888776554455566643 3566667766 44 55667765444432 233334556678899998887
Q ss_pred CCe
Q 012490 255 GST 257 (462)
Q Consensus 255 ~~~ 257 (462)
-.-
T Consensus 292 ~~e 294 (536)
T PLN02347 292 ASE 294 (536)
T ss_pred CcH
Confidence 654
No 116
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=30.26 E-value=1.7e+02 Score=24.07 Aligned_cols=34 Identities=12% Similarity=0.253 Sum_probs=19.2
Q ss_pred CCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 218 GADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 218 ~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
.+..||...|.++... ..+...|++.||++..++
T Consensus 29 ~~~~v~iA~Da~~~vv---~~l~~lceek~Ip~v~V~ 62 (84)
T PRK13600 29 QVTSLIIAEDVEVYLM---TRVLSQINQKNIPVSFFK 62 (84)
T ss_pred CceEEEEeCCCCHHHH---HHHHHHHHHcCCCEEEEC
Confidence 4556666666554422 356666666666666543
No 117
>COG0656 ARA1 Aldo/keto reductases, related to diketogulonate reductase [General function prediction only]
Probab=30.16 E-value=2.2e+02 Score=28.65 Aligned_cols=44 Identities=18% Similarity=0.136 Sum_probs=26.7
Q ss_pred HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 208 TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 208 ~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
+.|.++.+..++.-++-.-+|.|+-++.+ +..+|+++||.+..+
T Consensus 146 ~~L~~l~~~~~~~p~~NQIe~hp~~~q~e--l~~~~~~~gI~v~Ay 189 (280)
T COG0656 146 EHLEELLSLAKVKPAVNQIEYHPYLRQPE--LLPFCQRHGIAVEAY 189 (280)
T ss_pred HHHHHHHHhcCCCCceEEEEeccCCCcHH--HHHHHHHcCCEEEEE
Confidence 44445555433333333346666655544 888999999988864
No 118
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=30.14 E-value=3.5e+02 Score=25.50 Aligned_cols=73 Identities=18% Similarity=0.140 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.|+.+-+..+++.++++|..+.+... ++. +.+..+.. .+++.|+.... +.. ..+..+ +.+++.||++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~l~~~~~-~~vdgii~~~~-~~~--~~~~~i-~~~~~~~ipvV~~ 86 (273)
T cd06305 12 DFDQAYLAGTKAEAEALGGDLRVYDAGGDDAKQADQIDQAIA-QKVDAIIIQHG-RAE--VLKPWV-KRALDAGIPVVAF 86 (273)
T ss_pred cHHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHH-cCCCEEEEecC-Chh--hhHHHH-HHHHHcCCCEEEe
Confidence 36666677888899999999888753 332 33344444 48999888532 111 112223 3456789999988
Q ss_pred eCC
Q 012490 254 WGS 256 (462)
Q Consensus 254 ~~~ 256 (462)
+..
T Consensus 87 ~~~ 89 (273)
T cd06305 87 DVD 89 (273)
T ss_pred cCC
Confidence 654
No 119
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=30.13 E-value=3.2e+02 Score=26.53 Aligned_cols=68 Identities=16% Similarity=0.180 Sum_probs=41.9
Q ss_pred HHhCCCcEEEEECChHHHHHHHHHHhCCCE--E------EEec--cC---CchHHHHHHHHHHHhhhcCCeEEEEeCCee
Q 012490 192 LQARGSDLVVRVGKPETVLVELAKAIGADA--V------YAHR--EV---SHDEVKSEEKIEAAMKDEGIEVKYFWGSTL 258 (462)
Q Consensus 192 L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~--V------~~~~--ey---~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L 258 (462)
|++.|+.+.+-.|.+...+..++++.+... | +++. +. .+-....-+.+.+.+++.++.+..+.+...
T Consensus 31 l~~~G~~~~iaTGR~~~~~~~~~~~l~~~~~~I~~NGa~I~~~~~~~l~~~~i~~~~~~~i~~~~~~~~~~~~~~~~~~~ 110 (272)
T PRK15126 31 LRERDITLTFATGRHVLEMQHILGALSLDAYLITGNGTRVHSLEGELLHRQDLPADVAELVLHQQWDTRASMHVFNDDGW 110 (272)
T ss_pred HHHCCCEEEEECCCCHHHHHHHHHHcCCCCcEEecCCcEEEcCCCCEEEeecCCHHHHHHHHHHhhhcCcEEEEEcCCeE
Confidence 567899999999999988888988877652 2 2211 00 011122223455555667777776665554
Q ss_pred e
Q 012490 259 Y 259 (462)
Q Consensus 259 ~ 259 (462)
+
T Consensus 111 ~ 111 (272)
T PRK15126 111 F 111 (272)
T ss_pred E
Confidence 4
No 120
>TIGR01454 AHBA_synth_RP 3-amino-5-hydroxybenoic acid synthesis related protein. The most closely related enzyme below the noise cutoff is IndB which is involved in the biosynthesis of Indigoidine in Pectobacterium (Erwinia) chrysanthemi, a gamma proteobacter. This enzyme is similarly related to PGP. In this case, too it is unclear what role would be be played by a PGPase activity.
Probab=30.13 E-value=1.2e+02 Score=27.93 Aligned_cols=35 Identities=29% Similarity=0.406 Sum_probs=18.0
Q ss_pred HHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCC
Q 012490 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGA 219 (462)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a 219 (462)
+.++=+.|++.|+++.|..+.....+...++..|+
T Consensus 80 ~~~~L~~L~~~g~~~~i~Sn~~~~~~~~~l~~~~l 114 (205)
T TIGR01454 80 VPELLAELRADGVGTAIATGKSGPRARSLLEALGL 114 (205)
T ss_pred HHHHHHHHHHCCCeEEEEeCCchHHHHHHHHHcCC
Confidence 33444445555666666555554555555555444
No 121
>PRK05265 pyridoxine 5'-phosphate synthase; Provisional
Probab=29.81 E-value=3.7e+02 Score=26.46 Aligned_cols=43 Identities=21% Similarity=0.370 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEec
Q 012490 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHR 226 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ 226 (462)
+-|+..-+.|++.||++-++-. |...-.+.+++.|++.|-.+.
T Consensus 113 ~~l~~~i~~L~~~gIrVSLFid-P~~~qi~~A~~~GAd~VELhT 155 (239)
T PRK05265 113 DKLKPAIARLKDAGIRVSLFID-PDPEQIEAAAEVGADRIELHT 155 (239)
T ss_pred HHHHHHHHHHHHCCCEEEEEeC-CCHHHHHHHHHhCcCEEEEec
Confidence 5567778888999999988764 445555788999999986553
No 122
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=29.81 E-value=4.3e+02 Score=24.78 Aligned_cols=72 Identities=18% Similarity=0.124 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCC
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~ 256 (462)
.|+.+-+..+++.+++.|..+.+......+...+.....+++.|+.... .... ..+ +.+.+.|+++..++..
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~l~~~~vdgii~~~~-~~~~----~~~-~~~~~~~ipvV~~~~~ 83 (261)
T cd06272 12 VALTELVTGINQAISKNGYNMNVSITPSLAEAEDLFKENRFDGVIIFGE-SASD----VEY-LYKIKLAIPVVSYGVD 83 (261)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEEecccHHHHHHHHHHcCcCEEEEeCC-CCCh----HHH-HHHHHcCCCEEEEccc
Confidence 5667777888888899999988875433333444455668998876532 1111 112 3345679999887653
No 123
>PLN02770 haloacid dehalogenase-like hydrolase family protein
Probab=29.75 E-value=1.8e+02 Score=28.13 Aligned_cols=34 Identities=18% Similarity=0.263 Sum_probs=15.4
Q ss_pred HHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhC
Q 012490 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIG 218 (462)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~ 218 (462)
+.++=+.|++.|+++.|..+...+.+...++..|
T Consensus 113 v~e~L~~L~~~g~~l~I~Tn~~~~~~~~~l~~~g 146 (248)
T PLN02770 113 LYKLKKWIEDRGLKRAAVTNAPRENAELMISLLG 146 (248)
T ss_pred HHHHHHHHHHcCCeEEEEeCCCHHHHHHHHHHcC
Confidence 3334444444455555554444444444444444
No 124
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=29.50 E-value=1.9e+02 Score=25.94 Aligned_cols=49 Identities=18% Similarity=0.255 Sum_probs=35.0
Q ss_pred ECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeC
Q 012490 203 VGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHL 261 (462)
Q Consensus 203 ~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p 261 (462)
.+...+.|.+.+.+++...|.+ . |+.+++.+.+.||++.++.+..++-.
T Consensus 83 ~~~aDe~i~~~a~~~~~~iVaT-n---------D~eLk~rlr~~GIPvi~lr~r~~~~i 131 (136)
T COG1412 83 GRYADECLLEAALKHGRYIVAT-N---------DKELKRRLRENGIPVITLRQRKLLII 131 (136)
T ss_pred CCChHHHHHHHHHHcCCEEEEe-C---------CHHHHHHHHHcCCCEEEEeCCeEEEe
Confidence 3566799999999999443433 3 34567777777999999987765543
No 125
>KOG1014 consensus 17 beta-hydroxysteroid dehydrogenase type 3, HSD17B3 [Lipid transport and metabolism]
Probab=29.35 E-value=2e+02 Score=29.47 Aligned_cols=61 Identities=13% Similarity=0.207 Sum_probs=37.0
Q ss_pred HHHHHHHHhCCCcEEEEECChHHHHHHHH----HHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCC
Q 012490 186 SDLRKNLQARGSDLVVRVGKPETVLVELA----KAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGI 248 (462)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~----~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI 248 (462)
+.+.++|+++|..++++ +...+.|..+. ++++++.-+...|++.... .-+++++.|...+|
T Consensus 63 KayA~eLAkrG~nvvLI-sRt~~KL~~v~kEI~~~~~vev~~i~~Dft~~~~-~ye~i~~~l~~~~V 127 (312)
T KOG1014|consen 63 KAYARELAKRGFNVVLI-SRTQEKLEAVAKEIEEKYKVEVRIIAIDFTKGDE-VYEKLLEKLAGLDV 127 (312)
T ss_pred HHHHHHHHHcCCEEEEE-eCCHHHHHHHHHHHHHHhCcEEEEEEEecCCCch-hHHHHHHHhcCCce
Confidence 46778999999995554 55566666554 4567443344456654443 34567777764433
No 126
>PRK08335 translation initiation factor IF-2B subunit alpha; Validated
Probab=28.97 E-value=3.7e+02 Score=26.98 Aligned_cols=67 Identities=21% Similarity=0.209 Sum_probs=40.4
Q ss_pred HHHHHHhCCCcEEEEECChHHHHHHHHHH-----hCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeee
Q 012490 188 LRKNLQARGSDLVVRVGKPETVLVELAKA-----IGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLY 259 (462)
Q Consensus 188 L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~-----~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~ 259 (462)
|.++|.+.|++..++..+..-. +.++ .|++.|..|-++- -+--.-.+.-..+..||+|..+....=+
T Consensus 152 la~eL~~~GI~vtlI~Dsa~~~---~m~~vd~VivGAD~I~~nG~v~--NKiGT~~lA~~Ak~~~vPfyV~a~~~k~ 223 (275)
T PRK08335 152 LANELEFLGIEFEVITDAQLGL---FAKEATLALVGADNVTRDGYVV--NKAGTYLLALACHDNGVPFYVAAETFKF 223 (275)
T ss_pred HHHHHHHCCCCEEEEeccHHHH---HHHhCCEEEECccEEecCCCEe--ehhhHHHHHHHHHHcCCCEEEECcccee
Confidence 4778889999999998765443 3444 2555555555431 1111234455557889999876544333
No 127
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=28.88 E-value=4.5e+02 Score=24.59 Aligned_cols=71 Identities=13% Similarity=0.249 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEEC--ChH--HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeC
Q 012490 180 FLIESVSDLRKNLQARGSDLVVRVG--KPE--TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 180 Fl~esL~~L~~~L~~~Gi~L~v~~G--~~~--~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
|+.+-+..+++.+++.|..+.+... +.. ..+.+.+...+++.|+.... .... ..+ +.+.+.||++..++.
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~-~~~~----~~~-~~l~~~~ipvV~~~~ 86 (265)
T cd06299 13 YFASLATAIQDAASAAGYSTIIGNSDENPETENRYLDNLLSQRVDGIIVVPH-EQSA----EQL-EDLLKRGIPVVFVDR 86 (265)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHhcCCCEEEEcCC-CCCh----HHH-HHHHhCCCCEEEEec
Confidence 4445556677778889999888753 222 12233344568998887532 1121 123 444567999998865
Q ss_pred C
Q 012490 256 S 256 (462)
Q Consensus 256 ~ 256 (462)
.
T Consensus 87 ~ 87 (265)
T cd06299 87 E 87 (265)
T ss_pred c
Confidence 4
No 128
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=28.74 E-value=1.2e+02 Score=25.43 Aligned_cols=42 Identities=31% Similarity=0.483 Sum_probs=30.0
Q ss_pred HHHHHHHHHhCCCcEEEEE-CChHHHHHHHHHHhCCC-EEEEecc
Q 012490 185 VSDLRKNLQARGSDLVVRV-GKPETVLVELAKAIGAD-AVYAHRE 227 (462)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~-G~~~~~L~~L~~~~~a~-~V~~~~e 227 (462)
|.....+|++.|++|+++- |+... +.++++..+.. .||++.+
T Consensus 2 L~~~~~~l~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~ly~D~~ 45 (115)
T PF13911_consen 2 LSRRKPELEAAGVKLVVIGCGSPEG-IEKFCELTGFPFPLYVDPE 45 (115)
T ss_pred hhHhHHHHHHcCCeEEEEEcCCHHH-HHHHHhccCCCCcEEEeCc
Confidence 5677888999999998875 66544 88888665432 2777653
No 129
>TIGR00884 guaA_Cterm GMP synthase (glutamine-hydrolyzing), C-terminal domain or B subunit. This protein of purine de novo biosynthesis is well-conserved. However, it appears to split into two separate polypeptide chains in most of the Archaea. This C-terminal region would be the larger subunit
Probab=28.70 E-value=3.2e+02 Score=27.84 Aligned_cols=75 Identities=19% Similarity=0.350 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEECCh-HHHHHHHHHH-hC--CCEEEEeccCCchHHHHHHHHHHHh-hhcCCeEEEEe
Q 012490 180 FLIESVSDLRKNLQARGSDLVVRVGKP-ETVLVELAKA-IG--ADAVYAHREVSHDEVKSEEKIEAAM-KDEGIEVKYFW 254 (462)
Q Consensus 180 Fl~esL~~L~~~L~~~Gi~L~v~~G~~-~~~L~~L~~~-~~--a~~V~~~~ey~p~e~~rd~~v~~~l-~~~gI~v~~~~ 254 (462)
|+-+.++.|++.+++ +--++.+.|.. -.++..++.+ .| +.+|+++....+. ...+.+++.+ ++.||+++.++
T Consensus 2 ~~~~~~~~l~~~v~~-~kVvValSGGVDSsvla~ll~~~~G~~v~av~vd~G~~~~--~E~e~~~~~~~~~lgi~~~vvd 78 (311)
T TIGR00884 2 FIEEAVEEIREQVGD-AKVIIALSGGVDSSVAAVLAHRAIGDRLTCVFVDHGLLRK--GEAEQVVKTFGDRLGLNLVYVD 78 (311)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEecCChHHHHHHHHHHHHhCCCEEEEEEeCCCCCh--HHHHHHHHHHHHHcCCcEEEEe
Confidence 677888889888875 33344456643 3445555544 34 4556666544332 2234455554 47899999877
Q ss_pred CCe
Q 012490 255 GST 257 (462)
Q Consensus 255 ~~~ 257 (462)
-.-
T Consensus 79 ~~e 81 (311)
T TIGR00884 79 AKE 81 (311)
T ss_pred CcH
Confidence 653
No 130
>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=28.65 E-value=3.9e+02 Score=26.61 Aligned_cols=72 Identities=18% Similarity=0.198 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHHHhC-------CCcEEEEECChHHHHHHHHHHhCCCEEEEe---ccCCchHHHHHHHHHHHhhhc
Q 012490 177 RASFLIESVSDLRKNLQAR-------GSDLVVRVGKPETVLVELAKAIGADAVYAH---REVSHDEVKSEEKIEAAMKDE 246 (462)
Q Consensus 177 r~~Fl~esL~~L~~~L~~~-------Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~---~ey~p~e~~rd~~v~~~l~~~ 246 (462)
+..=+.+-|.+|++.+++. |..+++.+ ..+..|++.+|.+.+..- .+.+|.... -..+.+.+++.
T Consensus 151 N~~~~~~~L~~l~~~~~~~l~~~~~~~~~~v~~H----~af~Y~~~~yGl~~~~~~~~~~~~eps~~~-l~~l~~~ik~~ 225 (287)
T cd01137 151 NAAAYKAKLKALDEWAKAKFATIPAEKRKLVTSE----GAFSYFAKAYGLKEAYLWPINTEEEGTPKQ-VATLIEQVKKE 225 (287)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCcccCEEEEec----ccHHHHHHHcCCeEeecccCCCCCCCCHHH-HHHHHHHHHHh
Confidence 4444566688887766542 22333333 578899999999977532 233444333 35677788889
Q ss_pred CCeEEEE
Q 012490 247 GIEVKYF 253 (462)
Q Consensus 247 gI~v~~~ 253 (462)
||.+..+
T Consensus 226 ~v~~if~ 232 (287)
T cd01137 226 KVPAVFV 232 (287)
T ss_pred CCCEEEE
Confidence 9998854
No 131
>cd06281 PBP1_LacI_like_5 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=28.62 E-value=4.5e+02 Score=24.81 Aligned_cols=72 Identities=15% Similarity=0.201 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEEC--Ch--HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeC
Q 012490 180 FLIESVSDLRKNLQARGSDLVVRVG--KP--ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 180 Fl~esL~~L~~~L~~~Gi~L~v~~G--~~--~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
|+.+-+..+.+.++++|..+++... ++ ...+.+.+.+.+++.|+........ ..+.+.+++.||++..++.
T Consensus 13 ~~~~~~~~i~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~-----~~~~~~~~~~~ipvV~i~~ 87 (269)
T cd06281 13 LLAQLFSGAEDRLRAAGYSLLIANSLNDPERELEILRSFEQRRMDGIIIAPGDERD-----PELVDALASLDLPIVLLDR 87 (269)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCc-----HHHHHHHHhCCCCEEEEec
Confidence 4455566778888899999888753 22 2223333455688888875422111 1233445667999998865
Q ss_pred C
Q 012490 256 S 256 (462)
Q Consensus 256 ~ 256 (462)
.
T Consensus 88 ~ 88 (269)
T cd06281 88 D 88 (269)
T ss_pred c
Confidence 3
No 132
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=28.46 E-value=5e+02 Score=24.58 Aligned_cols=73 Identities=15% Similarity=0.135 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEEC---ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVG---KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G---~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~ 252 (462)
.|+.+-++.+++.+++.|..+.+... ++. +.+..+.. .+++.|+.... ... .....++ .+.+.||++..
T Consensus 13 ~~~~~~~~g~~~~~~~~g~~v~~~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~-~~~--~~~~~l~-~~~~~~ipvV~ 87 (271)
T cd06312 13 PFWTVVKNGAEDAAKDLGVDVEYRGPETFDVADMARLIEAAIA-AKPDGIVVTIP-DPD--ALDPAIK-RAVAAGIPVIS 87 (271)
T ss_pred cHHHHHHHHHHHHHHHhCCEEEEECCCCCCHHHHHHHHHHHHH-hCCCEEEEeCC-ChH--HhHHHHH-HHHHCCCeEEE
Confidence 57777888889999999999988754 332 22333333 48898877542 111 1122333 34667999998
Q ss_pred EeCC
Q 012490 253 FWGS 256 (462)
Q Consensus 253 ~~~~ 256 (462)
++..
T Consensus 88 ~~~~ 91 (271)
T cd06312 88 FNAG 91 (271)
T ss_pred eCCC
Confidence 8654
No 133
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=28.44 E-value=4.3e+02 Score=24.76 Aligned_cols=70 Identities=14% Similarity=0.225 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.|..+-+..+.+.+++.|..+++...+ +. +.+..+.+ .+++.|++..... . ..+.+.+++.||++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~-~~vdgiii~~~~~-~-----~~~~~~l~~~~iPvv~~ 84 (268)
T cd06273 12 AIFARVIQAFQETLAAHGYTLLVASSGYDLDREYAQARKLLE-RGVDGLALIGLDH-S-----PALLDLLARRGVPYVAT 84 (268)
T ss_pred chHHHHHHHHHHHHHHCCCEEEEecCCCCHHHHHHHHHHHHh-cCCCEEEEeCCCC-C-----HHHHHHHHhCCCCEEEE
Confidence 344555677888999999999887532 32 33444444 4788887643211 1 12233566789999887
Q ss_pred eC
Q 012490 254 WG 255 (462)
Q Consensus 254 ~~ 255 (462)
+.
T Consensus 85 ~~ 86 (268)
T cd06273 85 WN 86 (268)
T ss_pred cC
Confidence 64
No 134
>PF08282 Hydrolase_3: haloacid dehalogenase-like hydrolase; InterPro: IPR013200 The Haloacid Dehydrogenase (HAD) superfamily includes phosphatases, phosphonatases, P-type ATPases, beta-phosphoglucomutases, phosphomannomutases, and dehalogenases, which are involved in a variety of cellular processes ranging from amino acid biosynthesis to detoxification []. This HAD domain is found in several distinct enzymes including: Phospholipid-transporting ATPase 1 (3.6.3.1 from EC), a putative lipid-flipping enzyme involved in cold tolerance in Arabidopsis [] 3-deoxy-D-manno-octulosonate (KDO) 8-phosphate phosphatase (3.1.3.45 from EC), which catalyses the final step in the biosynthesis of KDO - a component of lipopolysaccharide in Gram-negative bacteria [] Mannosyl-3-phosphoglycerate phosphatase (3.1.3.70 from EC), which hydrolyzes mannosyl-3-phosphoglycerate to form the osmolyte mannosylglycerate [] Phosphoglycolate phopshatase (3.1.3.18 from EC), which catalyses the dephosphorylation of 2-phosphoglycolate [] ; PDB: 2B30_B 3R4C_A 1XVI_B 3IJ5_B 3MMZ_C 3L7Y_A 1XPJ_C 1RLT_B 1RLM_B 2HF2_A ....
Probab=28.33 E-value=4.7e+02 Score=24.03 Aligned_cols=75 Identities=21% Similarity=0.394 Sum_probs=49.4
Q ss_pred HHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCC-EEEE-eccC-----------CchHHHHHHHHHHHhhhcCCeEE
Q 012490 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD-AVYA-HREV-----------SHDEVKSEEKIEAAMKDEGIEVK 251 (462)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~-~V~~-~~ey-----------~p~e~~rd~~v~~~l~~~gI~v~ 251 (462)
+..|+ +|++.|+.+++..|++...+..+.+++++. -+++ |-.+ .+-....-+.+.+.+.+.++.+.
T Consensus 21 ~~al~-~l~~~g~~~~i~TGR~~~~~~~~~~~~~~~~~~I~~nGa~i~~~~~~~l~~~~i~~~~~~~i~~~~~~~~~~~~ 99 (254)
T PF08282_consen 21 IEALK-ELQEKGIKLVIATGRSYSSIKRLLKELGIDDYFICSNGALIDDPKGKILYEKPIDSDDVKKILKYLKEHNISFF 99 (254)
T ss_dssp HHHHH-HHHHTTCEEEEECSSTHHHHHHHHHHTTHCSEEEEGGGTEEEETTTEEEEEESB-HHHHHHHHHHHHHTTCEEE
T ss_pred HHHHH-hhcccceEEEEEccCcccccccccccccchhhhcccccceeeecccccchhhheeccchhheeehhhhcccccc
Confidence 33444 366689999999999999999999988765 2211 1111 11123344567778888888888
Q ss_pred EEeCCeeee
Q 012490 252 YFWGSTLYH 260 (462)
Q Consensus 252 ~~~~~~L~~ 260 (462)
.+...-.+-
T Consensus 100 ~~~~~~~~~ 108 (254)
T PF08282_consen 100 FYTDDDIYI 108 (254)
T ss_dssp EEESSEEEE
T ss_pred cccceeeec
Confidence 877665543
No 135
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=28.04 E-value=4.1e+02 Score=26.03 Aligned_cols=72 Identities=21% Similarity=0.331 Sum_probs=48.0
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEE-CC-hH-HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeC
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRV-GK-PE-TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~-G~-~~-~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
.|+.+-+..+++.+++.|..+.+.. ++ .. +...+.+.+.+++.|++.. ...+ +..+....+. |+++..++.
T Consensus 14 pff~~ii~gIe~~a~~~Gy~l~l~~t~~~~~~e~~i~~l~~~~vDGiI~~s-~~~~----~~~l~~~~~~-~iPvV~~~~ 87 (279)
T PF00532_consen 14 PFFAEIIRGIEQEAREHGYQLLLCNTGDDEEKEEYIELLLQRRVDGIILAS-SEND----DEELRRLIKS-GIPVVLIDR 87 (279)
T ss_dssp HHHHHHHHHHHHHHHHTTCEEEEEEETTTHHHHHHHHHHHHTTSSEEEEES-SSCT----CHHHHHHHHT-TSEEEEESS
T ss_pred cHHHHHHHHHHHHHHHcCCEEEEecCCCchHHHHHHHHHHhcCCCEEEEec-ccCC----hHHHHHHHHc-CCCEEEEEe
Confidence 5778888999999999999998865 32 21 2333456677999988863 2222 2335555454 999998765
Q ss_pred C
Q 012490 256 S 256 (462)
Q Consensus 256 ~ 256 (462)
.
T Consensus 88 ~ 88 (279)
T PF00532_consen 88 Y 88 (279)
T ss_dssp -
T ss_pred c
Confidence 4
No 136
>TIGR01545 YfhB_g-proteo haloacid dehalogenase superfamily, subfamily IF hydrolase, YfhB. The gene name comes from the E. coli gene. There is currently no information regarding the function of this gene.
Probab=27.79 E-value=1.4e+02 Score=28.39 Aligned_cols=27 Identities=15% Similarity=0.322 Sum_probs=15.6
Q ss_pred HHHHhCCCcEEEEECChHHHHHHHHHH
Q 012490 190 KNLQARGSDLVVRVGKPETVLVELAKA 216 (462)
Q Consensus 190 ~~L~~~Gi~L~v~~G~~~~~L~~L~~~ 216 (462)
+.|++.|.++.|..+.+...+..+++.
T Consensus 105 ~~l~~~G~~v~IvSas~~~~~~~ia~~ 131 (210)
T TIGR01545 105 QYLESSDADIWLITGSPQPLVEAVYFD 131 (210)
T ss_pred HHHHhCCCEEEEEcCCcHHHHHHHHHh
Confidence 344555666666666665555555554
No 137
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=27.64 E-value=1.6e+02 Score=29.35 Aligned_cols=52 Identities=15% Similarity=0.061 Sum_probs=40.5
Q ss_pred cEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 198 DLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 198 ~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
++.+..|. ..+..++++-.+.-|+...|+++.+.. ..+...|++.||++..+
T Consensus 130 p~~LvsG~--n~VtkaIekkKAkLVIIA~DVsPie~v--k~LpaLCrk~~VPY~iV 181 (263)
T PTZ00222 130 PLAVVTGL--QEVTRAIEKKQARMVVIANNVDPVELV--LWMPNLCRANKIPYAIV 181 (263)
T ss_pred CCeeccCH--HHHHHHHHcCCceEEEEeCCCCHHHHH--HHHHHHHHhcCCCEEEE
Confidence 46677786 456677787789999999999888763 35788899999999864
No 138
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=27.49 E-value=4.4e+02 Score=26.75 Aligned_cols=72 Identities=17% Similarity=0.189 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECCh----HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGKP----ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~~----~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
-|..+-+.-+.+.+++.|..+++...+. ++...+...+.+++.|+..... .. ....+.+.+.++++..++
T Consensus 71 ~~~~~i~~gi~~~~~~~gy~~~l~~~~~~~~~e~~~~~~l~~~~vdGiIi~~~~-~~-----~~~~~~l~~~~~P~V~i~ 144 (333)
T COG1609 71 PFFAEILKGIEEAAREAGYSLLLANTDDDPEKEREYLETLLQKRVDGLILLGER-PN-----DSLLELLAAAGIPVVVID 144 (333)
T ss_pred chHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCC-CC-----HHHHHHHHhcCCCEEEEe
Confidence 6788889999999999999999987543 3444556667789998886511 11 223445566799999887
Q ss_pred CC
Q 012490 255 GS 256 (462)
Q Consensus 255 ~~ 256 (462)
..
T Consensus 145 ~~ 146 (333)
T COG1609 145 RS 146 (333)
T ss_pred CC
Confidence 64
No 139
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=27.44 E-value=2.2e+02 Score=32.62 Aligned_cols=48 Identities=19% Similarity=0.225 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHH
Q 012490 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEV 233 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~ 233 (462)
....+.=+.|+++|+++.++.|+.......++++.|+. +++ +..|.++
T Consensus 571 ~~a~~~i~~L~~~gi~~~llTGd~~~~a~~ia~~lgi~-~~~--~~~p~~K 618 (741)
T PRK11033 571 ADARQAISELKALGIKGVMLTGDNPRAAAAIAGELGID-FRA--GLLPEDK 618 (741)
T ss_pred hhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC-eec--CCCHHHH
Confidence 44556666778899999999999999999999999997 333 3455543
No 140
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Probab=27.26 E-value=4.3e+02 Score=26.81 Aligned_cols=67 Identities=19% Similarity=0.163 Sum_probs=40.9
Q ss_pred HHHHHHHHhCCCcEEEEECChHHHHHHHHHH-----hCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCe
Q 012490 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKA-----IGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGST 257 (462)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~-----~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~ 257 (462)
..+.++|.+.|++..++..+..- .+.++ .|++.|+.|-..- .+.--..+.-.++..+|+|..+....
T Consensus 161 ~~~a~~L~~~GI~vtlI~Dsav~---~~m~~vd~VivGAd~v~~nG~v~--nkiGT~~~A~~Ak~~~vPv~V~a~~~ 232 (310)
T PRK08535 161 HITAKELAEYGIPVTLIVDSAVR---YFMKDVDKVVVGADAITANGAVI--NKIGTSQIALAAHEARVPFMVAAETY 232 (310)
T ss_pred HHHHHHHHHCCCCEEEEehhHHH---HHHHhCCEEEECccEEecCCCEE--eHHhHHHHHHHHHHhCCCEEEecccc
Confidence 44667889999999999765443 33444 2555555554321 12223345556678899998765443
No 141
>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=27.22 E-value=1.1e+02 Score=28.84 Aligned_cols=36 Identities=17% Similarity=0.207 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHh
Q 012490 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAI 217 (462)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~ 217 (462)
..++.++-+.|++.|+++.|..+.....+..+++.+
T Consensus 72 ~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~ 107 (214)
T TIGR03333 72 REGFREFVAFINEHGIPFYVISGGMDFFVYPLLEGI 107 (214)
T ss_pred cccHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHhh
Confidence 345556666666667777777666655555555554
No 142
>PRK11590 hypothetical protein; Provisional
Probab=26.91 E-value=1.5e+02 Score=27.88 Aligned_cols=39 Identities=15% Similarity=0.212 Sum_probs=24.7
Q ss_pred HHHHHHhCCCcEEEEECChHHHHHHHHHHhC---CCEEEEec
Q 012490 188 LRKNLQARGSDLVVRVGKPETVLVELAKAIG---ADAVYAHR 226 (462)
Q Consensus 188 L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~---a~~V~~~~ 226 (462)
|++.|++.|..+.|..+.+...+..+++..+ +.+|++++
T Consensus 104 L~~~l~~~G~~l~IvSas~~~~~~~il~~l~~~~~~~~i~t~ 145 (211)
T PRK11590 104 LTTYLLSSDADVWLITGSPQPLVEQVYFDTPWLPRVNLIASQ 145 (211)
T ss_pred HHHHHHhCCCEEEEEeCCcHHHHHHHHHHccccccCceEEEE
Confidence 3345566677777777777766666776666 35555543
No 143
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=26.68 E-value=4.8e+02 Score=25.05 Aligned_cols=69 Identities=16% Similarity=0.260 Sum_probs=42.7
Q ss_pred HHHhCCCcEEEEECChHHHHHHHHHHhCCC-----EEEEeccCC------------chHHHHHHHHHHHhhhcCCeEEEE
Q 012490 191 NLQARGSDLVVRVGKPETVLVELAKAIGAD-----AVYAHREVS------------HDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 191 ~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~-----~V~~~~ey~------------p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.|++.|+.+++-.|.+...+..++++.+.. .|..|-.+- +-....-+.+.+.+++.++.+..+
T Consensus 31 ~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~~~~~~~I~~NGa~i~~~~~~~~i~~~~l~~~~~~~i~~~~~~~~~~~~~~ 110 (270)
T PRK10513 31 AARAKGVNVVLTTGRPYAGVHRYLKELHMEQPGDYCITNNGALVQKAADGETVAQTALSYDDYLYLEKLSREVGVHFHAL 110 (270)
T ss_pred HHHHCCCEEEEecCCChHHHHHHHHHhCCCCCCCeEEEcCCeEEEECCCCCEEEecCCCHHHHHHHHHHHHHcCCcEEEE
Confidence 357789999999999988888888888753 122221110 001112234556666778877776
Q ss_pred eCCeee
Q 012490 254 WGSTLY 259 (462)
Q Consensus 254 ~~~~L~ 259 (462)
....++
T Consensus 111 ~~~~~~ 116 (270)
T PRK10513 111 DRNTLY 116 (270)
T ss_pred ECCEEE
Confidence 665544
No 144
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=26.63 E-value=3.7e+02 Score=22.22 Aligned_cols=66 Identities=18% Similarity=0.210 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
.++. ..+++.++++|+++.+......+ +.+... +++.|+.. |.-.-..+.+++.+++.|+++...+
T Consensus 17 S~l~---~k~~~~~~~~gi~~~v~a~~~~~-~~~~~~--~~Dvill~----pqi~~~~~~i~~~~~~~~ipv~~I~ 82 (95)
T TIGR00853 17 SLLV---NKMNKAAEEYGVPVKIAAGSYGA-AGEKLD--DADVVLLA----PQVAYMLPDLKKETDKKGIPVEVIN 82 (95)
T ss_pred HHHH---HHHHHHHHHCCCcEEEEEecHHH-HHhhcC--CCCEEEEC----chHHHHHHHHHHHhhhcCCCEEEeC
Confidence 4554 56777789999999888766544 333333 35556553 3333445678888888899998653
No 145
>cd06285 PBP1_LacI_like_7 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=26.61 E-value=5.4e+02 Score=24.14 Aligned_cols=72 Identities=13% Similarity=0.201 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECC--hH--HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGK--PE--TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~--~~--~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
.|+.+-+..+.+.++++|..+.+..++ .. ....+.+...+++.|+...... . +..++ .+.+.||++..++
T Consensus 12 ~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~-~----~~~~~-~~~~~~iPvv~~~ 85 (265)
T cd06285 12 TVMATMYEGIEEAAAERGYSTFVANTGDNPDAQRRAIEMLLDRRVDGLILGDARS-D----DHFLD-ELTRRGVPFVLVL 85 (265)
T ss_pred ccHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCC-C----hHHHH-HHHHcCCCEEEEc
Confidence 355566777888888999998776543 22 2233344557899888754221 1 12233 3466799998876
Q ss_pred CC
Q 012490 255 GS 256 (462)
Q Consensus 255 ~~ 256 (462)
..
T Consensus 86 ~~ 87 (265)
T cd06285 86 RH 87 (265)
T ss_pred cC
Confidence 53
No 146
>PRK02090 phosphoadenosine phosphosulfate reductase; Provisional
Probab=26.52 E-value=3.1e+02 Score=26.55 Aligned_cols=71 Identities=15% Similarity=0.206 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHhCCCcEEEE-E-CChHHHHHHHHHHhC--CCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeC
Q 012490 183 ESVSDLRKNLQARGSDLVVR-V-GKPETVLVELAKAIG--ADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~-~-G~~~~~L~~L~~~~~--a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
++++-++..+.+.|.++.|- . |..-.++..|+.+.+ +..||++..+...+. .+-+++..++.|++++.+..
T Consensus 27 ~~~e~i~~a~~~~~~~i~vs~SGGKDS~vlL~L~~~~~~~i~vvfiDTG~~~pet--~e~~~~~~~~~gl~l~v~~~ 101 (241)
T PRK02090 27 SAQERLAWALENFGGRLALVSSFGAEDAVLLHLVAQVDPDIPVIFLDTGYLFPET--YRFIDELTERLLLNLKVYRP 101 (241)
T ss_pred CHHHHHHHHHHHcCCCEEEEecCCHHHHHHHHHHHhcCCCCcEEEecCCCCCHHH--HHHHHHHHHHhCCCEEEECC
Confidence 35556677777777765554 3 566678888888764 677888777654433 23455555666888886543
No 147
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=25.71 E-value=5.4e+02 Score=24.22 Aligned_cols=73 Identities=18% Similarity=0.221 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHh-CCCcEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEE
Q 012490 179 SFLIESVSDLRKNLQA-RGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~-~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~ 252 (462)
.|+.+-+..+.+.+++ .|..+++..+ ++. +.+..+. ..+++.|+..... . .....+.+.+.+.||++..
T Consensus 12 ~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~-~---~~~~~~~~~l~~~~iPvv~ 86 (272)
T cd06301 12 NFLTLLRNAMKEHAKVLGGVELQFEDAKNDVATQLSQVENFI-AQGVDAIIVVPVD-T---AATAPIVKAANAAGIPLVY 86 (272)
T ss_pred HHHHHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHHHH-HcCCCEEEEecCc-h---hhhHHHHHHHHHCCCeEEE
Confidence 4555666777778888 8999998754 332 3333433 4588888764321 1 1112344456778999998
Q ss_pred EeCC
Q 012490 253 FWGS 256 (462)
Q Consensus 253 ~~~~ 256 (462)
++.+
T Consensus 87 ~~~~ 90 (272)
T cd06301 87 VNRR 90 (272)
T ss_pred ecCC
Confidence 7654
No 148
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=25.66 E-value=3.8e+02 Score=25.43 Aligned_cols=73 Identities=16% Similarity=0.200 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.|+.+-++.+.+.++++|..+.+... +.. +.+..+.. .+++.|+.... ... ..+..+ +.+.+.||++..+
T Consensus 12 ~~~~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~-~~~--~~~~~i-~~~~~~~iPvV~~ 86 (273)
T cd06309 12 PWRTAETKSIKDAAEKRGFDLKFADAQQKQENQISAIRSFIA-QGVDVIILAPV-VET--GWDPVL-KEAKAAGIPVILV 86 (273)
T ss_pred HHHHHHHHHHHHHHHhcCCEEEEeCCCCCHHHHHHHHHHHHH-cCCCEEEEcCC-ccc--cchHHH-HHHHHCCCCEEEE
Confidence 67788889999999999999999753 222 33444433 57888877432 111 112223 3456779999988
Q ss_pred eCC
Q 012490 254 WGS 256 (462)
Q Consensus 254 ~~~ 256 (462)
+..
T Consensus 87 ~~~ 89 (273)
T cd06309 87 DRG 89 (273)
T ss_pred ecC
Confidence 754
No 149
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type 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 binding wh
Probab=25.57 E-value=5.5e+02 Score=23.88 Aligned_cols=70 Identities=16% Similarity=0.091 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.|..+-+..+++.++++|..+.+...+ +. +.+..++ ..+++.|+....... ..+.+.+.+.|+++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~-~~~~dgii~~~~~~~------~~~~~~~~~~~ipvv~~ 84 (259)
T cd01542 12 FSTSRTVKGILAALYENGYQMLLMNTNFSIEKEIEALELLA-RQKVDGIILLATTIT------DEHREAIKKLNVPVVVV 84 (259)
T ss_pred chHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHH-hcCCCEEEEeCCCCC------HHHHHHHhcCCCCEEEE
Confidence 355667788889999999999887643 32 3344443 458898887543211 12334456678999887
Q ss_pred eC
Q 012490 254 WG 255 (462)
Q Consensus 254 ~~ 255 (462)
+.
T Consensus 85 ~~ 86 (259)
T cd01542 85 GQ 86 (259)
T ss_pred ec
Confidence 64
No 150
>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=25.36 E-value=3.6e+02 Score=23.19 Aligned_cols=46 Identities=22% Similarity=0.398 Sum_probs=33.3
Q ss_pred HHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCC----CEEEEeccCC
Q 012490 184 SVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGA----DAVYAHREVS 229 (462)
Q Consensus 184 sL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a----~~V~~~~ey~ 229 (462)
.+.++=+.|++.|+++.++.+...+.+...++.+|+ +.|++..++.
T Consensus 81 ~~~~~L~~l~~~~~~~~i~Sn~~~~~~~~~l~~~~~~~~f~~i~~~~~~~ 130 (176)
T PF13419_consen 81 GVRELLERLKAKGIPLVIVSNGSRERIERVLERLGLDDYFDEIISSDDVG 130 (176)
T ss_dssp THHHHHHHHHHTTSEEEEEESSEHHHHHHHHHHTTHGGGCSEEEEGGGSS
T ss_pred hhhhhhhhcccccceeEEeecCCcccccccccccccccccccccccchhh
Confidence 445555667777999999888877777778887764 4777776654
No 151
>PF02630 SCO1-SenC: SCO1/SenC; InterPro: IPR003782 This family is involved in biogenesis of respiratory and photosynthetic systems. In yeast the SCO1 protein is specifically required for a post-translational step in the accumulation of subunits 1 and 2 of cytochrome c oxidase (COXI and COX-II) []. It is a mitochondrion-associated cytochrome c oxidase assembly factor. The purple nonsulphur photosynthetic eubacterium Rhodobacter capsulatus is a versatile organism that can obtain cellular energy by several means, including the capture of light energy for photosynthesis as well as the use of light-independent respiration, in which molecular oxygen serves as a terminal electron acceptor. The SenC protein is required for optimal cytochrome c oxidase activity in aerobically grown R. capsulatus cells and is involved in the induction of structural polypeptides of the light-harvesting and reaction centre complexes [].; PDB: 2K6V_A 3ME8_A 3ME7_A 2GT6_A 2GQL_A 2GQK_A 2GGT_B 1WP0_C 2HRN_A 2GQM_A ....
Probab=25.24 E-value=5e+02 Score=23.72 Aligned_cols=85 Identities=22% Similarity=0.257 Sum_probs=48.9
Q ss_pred cCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEE--EEC----ChHHHHHHHHHHhCCCE
Q 012490 148 ESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVV--RVG----KPETVLVELAKAIGADA 221 (462)
Q Consensus 148 ~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v--~~G----~~~~~L~~L~~~~~a~~ 221 (462)
.|..++..|++.. +... .--.+..|.+++++|.+.|.++.+ +.= |..++|.+.++.++.+-
T Consensus 51 ~Gk~~lv~F~yT~------------Cpdv-Cp~~l~~l~~~~~~l~~~~~~v~~v~ISvDP~~DTp~~L~~Y~~~~~~~~ 117 (174)
T PF02630_consen 51 KGKWVLVFFGYTR------------CPDV-CPTTLANLSQLQKQLGEEGKDVQFVFISVDPERDTPEVLKKYAKKFGPDF 117 (174)
T ss_dssp TTSEEEEEEE-TT------------SSSH-HHHHHHHHHHHHHHHHHTTTTEEEEEEESSTTTC-HHHHHHHHHCHTTTC
T ss_pred CCCeEEEEEEEcC------------CCcc-CHHHHHHHHHHHHHhhhccCceEEEEEEeCCCCCCHHHHHHHHHhcCCCc
Confidence 4666666677642 1111 234455677777788776655544 442 45689999999999887
Q ss_pred EEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 222 VYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 222 V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
..+.-. ...+++..+..++.+...
T Consensus 118 ~~ltg~--------~~~i~~l~~~~~v~~~~~ 141 (174)
T PF02630_consen 118 IGLTGS--------REEIEELAKQFGVYYEKV 141 (174)
T ss_dssp EEEEEE--------HHHHHHHHHHCTHCEEEE
T ss_pred ceeEeC--------HHHHHHHHHHHHhhhccc
Confidence 766542 122344444556655443
No 152
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=25.18 E-value=5.2e+02 Score=25.24 Aligned_cols=72 Identities=11% Similarity=0.061 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEEC--ChH---HHHHHHHHHh--CCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAI--GADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~--~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~ 251 (462)
.|+.+-+..+++.++++|..+.+... +.. +.+..+ ... +++.|+.... .. ..+ .+.+.+.+.||++.
T Consensus 13 ~~~~~~~~gi~~~~~~~g~~v~~~~~~~~~~~~~~~i~~~-~~~~~~vdgiIi~~~-~~---~~~-~~~~~~~~~giPvV 86 (305)
T cd06324 13 PFWNSVARFMQAAADDLGIELEVLYAERDRFLMLQQARTI-LQRPDKPDALIFTNE-KS---VAP-ELLRLAEGAGVKLF 86 (305)
T ss_pred cHHHHHHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHH-HHhccCCCEEEEcCC-cc---chH-HHHHHHHhCCCeEE
Confidence 56667778888889999999888753 222 223333 344 8888887432 11 112 22344567899999
Q ss_pred EEeCC
Q 012490 252 YFWGS 256 (462)
Q Consensus 252 ~~~~~ 256 (462)
.++..
T Consensus 87 ~~~~~ 91 (305)
T cd06324 87 LVNSG 91 (305)
T ss_pred EEecC
Confidence 88754
No 153
>PF08765 Mor: Mor transcription activator family; InterPro: IPR014875 Mor (Middle operon regulator) is a sequence specific DNA binding protein. It mediates transcription activation through its interactions with the C-terminal domains of the alpha and sigma subunits of bacterial RNA polymerase. The N-terminal region of Mor is the dimerisation region, and the C-terminal contains a helix-turn-helix motif which binds DNA []. ; PDB: 1RR7_A.
Probab=24.42 E-value=2.3e+02 Score=23.96 Aligned_cols=65 Identities=17% Similarity=0.175 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHhCC-CcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHH
Q 012490 178 ASFLIESVSDLRKNLQARG-SDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAA 242 (462)
Q Consensus 178 ~~Fl~esL~~L~~~L~~~G-i~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~ 242 (462)
..+|-+-...+...|++.| +.=.+-.--..+++..|++.+|-..||+-.........|+..|.+.
T Consensus 4 ~e~l~~l~~~i~~~l~~~g~i~~~~a~~ig~~~~~~L~~~~gG~~iyiP~~~~~~~~~R~~~I~~~ 69 (108)
T PF08765_consen 4 PELLSELADVIAAELERLGEIDAELAEIIGEEVALKLCRYFGGQQIYIPKCDRLLRALRNREIRRE 69 (108)
T ss_dssp HHHHHHHHHHHHHHHHHTS-S-----TTSHHHHHHHHHHHH-SS------SHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHHHHHHHCCEeEEeeCccHHHHHHHHHHHHHH
Confidence 4566666667788888888 6544444446788899999999999988665444445566666554
No 154
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=24.36 E-value=4.6e+02 Score=24.69 Aligned_cols=75 Identities=13% Similarity=0.173 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHH-HHHHHHHHhhhcCCeEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVK-SEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~-rd~~v~~~l~~~gI~v~~ 252 (462)
.|+.+-+..+++.+++.|..+.+... +.. +.+..|.. .+++.|+.... .+.... ....+. .+.+.|+++..
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~-~~~~~~~~~~~i~-~~~~~~ipvV~ 88 (273)
T cd06292 12 PIFPAFAEAIEAALAQYGYTVLLCNTYRGGVSEADYVEDLLA-RGVRGVVFISS-LHADTHADHSHYE-RLAERGLPVVL 88 (273)
T ss_pred chHHHHHHHHHHHHHHCCCEEEEEeCCCChHHHHHHHHHHHH-cCCCEEEEeCC-CCCcccchhHHHH-HHHhCCCCEEE
Confidence 35555667888888899999877653 222 33334444 58888877421 111111 112233 34567999998
Q ss_pred EeCC
Q 012490 253 FWGS 256 (462)
Q Consensus 253 ~~~~ 256 (462)
++..
T Consensus 89 i~~~ 92 (273)
T cd06292 89 VNGR 92 (273)
T ss_pred EcCC
Confidence 8643
No 155
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=24.27 E-value=2.7e+02 Score=26.83 Aligned_cols=74 Identities=19% Similarity=0.302 Sum_probs=50.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 174 GPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 174 ~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
|+.|.-|+.+-+..+.+.+++.|..+++...+..+ ......+++.|+..... .. +..++ .+.+.++++..+
T Consensus 15 ~~~~~~~~~~~~~~i~~~~~~~gy~~~~~~~~~~~---~~l~~~~vdgiIi~~~~-~~----~~~~~-~l~~~~iPvV~i 85 (269)
T cd06287 15 GPSRLGFMMEVAAAAAESALERGLALCLVPPHEAD---SPLDALDIDGAILVEPM-AD----DPQVA-RLRQRGIPVVSI 85 (269)
T ss_pred CcccCccHHHHHHHHHHHHHHCCCEEEEEeCCCch---hhhhccCcCeEEEecCC-CC----CHHHH-HHHHcCCCEEEe
Confidence 56788899999999999999999999887643211 23456789988764311 11 12233 345679999888
Q ss_pred eCC
Q 012490 254 WGS 256 (462)
Q Consensus 254 ~~~ 256 (462)
+..
T Consensus 86 ~~~ 88 (269)
T cd06287 86 GRP 88 (269)
T ss_pred CCC
Confidence 653
No 156
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=24.03 E-value=5.9e+02 Score=23.90 Aligned_cols=71 Identities=14% Similarity=0.209 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.|+.+-+.-+++.++++|..+.+..++ .. +.+..+. ..+++.|++.... ... ..++ .+.+.|+++..+
T Consensus 12 ~~~~~~~~g~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~~~-~~~vdgii~~~~~-~~~----~~~~-~~~~~~ipvV~~ 84 (268)
T cd06270 12 PFFGPLLSGVESVARKAGKHLIITAGHHSAEKEREAIEFLL-ERRCDALILHSKA-LSD----DELI-ELAAQVPPLVLI 84 (268)
T ss_pred cchHHHHHHHHHHHHHCCCEEEEEeCCCchHHHHHHHHHHH-HcCCCEEEEecCC-CCH----HHHH-HHhhCCCCEEEE
Confidence 455666777788899999999887543 22 2333333 4588988774321 111 1133 345679999888
Q ss_pred eCC
Q 012490 254 WGS 256 (462)
Q Consensus 254 ~~~ 256 (462)
+..
T Consensus 85 ~~~ 87 (268)
T cd06270 85 NRH 87 (268)
T ss_pred ecc
Confidence 653
No 157
>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=23.95 E-value=1.8e+02 Score=24.00 Aligned_cols=50 Identities=12% Similarity=0.278 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCC-EEEEe
Q 012490 175 PYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD-AVYAH 225 (462)
Q Consensus 175 ~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~-~V~~~ 225 (462)
+.+.. .+..|.++.+++++.|+.++.+.-+..+.+.+++++++.. .++++
T Consensus 39 ~~c~~-~l~~l~~~~~~~~~~~~~vi~is~d~~~~~~~~~~~~~~~~~~~~D 89 (124)
T PF00578_consen 39 PFCQA-ELPELNELYKKYKDKGVQVIGISTDDPEEIKQFLEEYGLPFPVLSD 89 (124)
T ss_dssp HHHHH-HHHHHHHHHHHHHTTTEEEEEEESSSHHHHHHHHHHHTCSSEEEEE
T ss_pred ccccc-chhHHHHHhhhhccceEEeeecccccccchhhhhhhhccccccccC
Confidence 34443 3456888889999999999999988888999999998865 45554
No 158
>COG0546 Gph Predicted phosphatases [General function prediction only]
Probab=23.69 E-value=85 Score=29.77 Aligned_cols=39 Identities=33% Similarity=0.405 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCE
Q 012490 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADA 221 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~ 221 (462)
.++.++=+.|++.|++|.|..+++...+..+++.+|+..
T Consensus 92 ~gv~e~L~~L~~~g~~l~i~T~k~~~~~~~~l~~~gl~~ 130 (220)
T COG0546 92 PGVKELLAALKSAGYKLGIVTNKPERELDILLKALGLAD 130 (220)
T ss_pred CCHHHHHHHHHhCCCeEEEEeCCcHHHHHHHHHHhCCcc
Confidence 344555556666677777777777677777777666554
No 159
>PF01591 6PF2K: 6-phosphofructo-2-kinase; InterPro: IPR013079 6-Phosphofructo-2-kinase (2.7.1.105 from EC, 3.1.3.46 from EC) is a bifunctional enzyme that catalyses both the synthesis and the degradation of fructose-2, 6-bisphosphate. The fructose-2,6-bisphosphatase reaction involves a phosphohistidine intermediate. The catalytic pathway is: ATP + D-fructose 6-phosphate = ADP + D-fructose 2,6-bisphosphate D-fructose 2,6-bisphosphate + H2O = 6-fructose 6-phosphate + Pi The enzyme is important in the regulation of hepatic carbohydrate metabolism and is found in greatest quantities in the liver, kidney and heart. In mammals, several genes often encode different isoforms, each of which differs in its tissue distribution and enzymatic activity []. The family described here bears a resemblance to the ATP-driven phospho-fructokinases, however, they share little sequence similarity, although a few residues seem key to their interaction with fructose 6-phosphate []. This domain forms the N-terminal region of this enzyme, while IPR013078 from INTERPRO forms the C-terminal domain.; GO: 0003873 6-phosphofructo-2-kinase activity, 0005524 ATP binding, 0006000 fructose metabolic process; PDB: 2DWO_A 3QPW_A 3QPV_A 3QPU_A 2I1V_B 2DWP_A 2AXN_A 1K6M_B 3BIF_A 2BIF_A ....
Probab=23.69 E-value=5.4e+02 Score=24.89 Aligned_cols=68 Identities=24% Similarity=0.247 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCcEEEEECCh-----HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHh
Q 012490 175 PYRASFLIESVSDLRKNLQARGSDLVVRVGKP-----ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAM 243 (462)
Q Consensus 175 ~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G~~-----~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l 243 (462)
..|..+...+|.++-+.|.+.|+.+-|+.+.. -..|.+.+++.++ .|++-+.+.-++.-.+..|+...
T Consensus 74 ~~R~~~a~~~l~dl~~~l~~~~G~VAI~DATN~T~~RR~~l~~~~~~~~~-~vlFIEsic~D~~ii~~NI~~~~ 146 (222)
T PF01591_consen 74 KLREQIAKEALEDLIEWLQEEGGQVAIFDATNSTRERRKMLVERFKEHGI-KVLFIESICDDPEIIERNIREKK 146 (222)
T ss_dssp HHHHHHHHHHHHHHHHHHHTS--SEEEEES---SHHHHHHHHHHHHHTT--EEEEEEEE---HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHHcCC-cEEEEEEEeCCHHHHHHHHHHHH
Confidence 46788999999999999998899999998742 3667777888884 55555555556555566776654
No 160
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=23.69 E-value=5e+02 Score=26.24 Aligned_cols=70 Identities=10% Similarity=0.117 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHhC-----CCcEEEEECChHHHHHHHHHHhCCCEEEEe---ccCCchHHHHHHHHHHHhhhcCCeE
Q 012490 179 SFLIESVSDLRKNLQAR-----GSDLVVRVGKPETVLVELAKAIGADAVYAH---REVSHDEVKSEEKIEAAMKDEGIEV 250 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~-----Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~---~ey~p~e~~rd~~v~~~l~~~gI~v 250 (462)
.=+.+-|.+|++++++. |..+++.+ +.+..|++.+|.+.+..- .+-+|.... -.++.+.+++.+|.+
T Consensus 181 ~~~~~~L~~l~~~~~~~l~~~~~~~~i~~H----~af~Yf~~~ygl~~~~~~~~~~~~eps~~~-l~~l~~~ik~~~v~~ 255 (311)
T PRK09545 181 KDFEAQLAQTDKQIGNQLAPVKGKGYFVFH----DAYGYFEKHYGLTPLGHFTVNPEIQPGAQR-LHEIRTQLVEQKATC 255 (311)
T ss_pred HHHHHHHHHHHHHHHHHhhccCCCcEEEEC----chHHHHHHhCCCceeeeeccCCCCCCCHHH-HHHHHHHHHHcCCCE
Confidence 33455677777777654 33344433 578999999999876432 233344333 356777888899998
Q ss_pred EEE
Q 012490 251 KYF 253 (462)
Q Consensus 251 ~~~ 253 (462)
..+
T Consensus 256 If~ 258 (311)
T PRK09545 256 VFA 258 (311)
T ss_pred EEe
Confidence 864
No 161
>TIGR02726 phenyl_P_delta phenylphosphate carboxylase, delta subunit. Members of this protein family are the alpha subunit of phenylphosphate carboxylase. Phenol (methyl-benzene) is converted to phenylphosphate, then para-carboxylated by this four-subunit enzyme, with the release of phosphate, to 4-hydroxybenzoate. The enzyme contains neither biotin nor thiamin pyrophosphate. This delta subunit belongs to HAD family hydrolases.
Probab=23.66 E-value=2.7e+02 Score=25.65 Aligned_cols=52 Identities=15% Similarity=0.153 Sum_probs=37.7
Q ss_pred HHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCC
Q 012490 191 NLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGI 248 (462)
Q Consensus 191 ~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI 248 (462)
.|++.|+++.|..+.....+..+++.+|+..++... .|. -+.+...+++.|+
T Consensus 45 ~L~~~Gi~laIiT~k~~~~~~~~l~~lgi~~~f~~~--kpk----p~~~~~~~~~l~~ 96 (169)
T TIGR02726 45 VLQLCGIDVAIITSKKSGAVRHRAEELKIKRFHEGI--KKK----TEPYAQMLEEMNI 96 (169)
T ss_pred HHHHCCCEEEEEECCCcHHHHHHHHHCCCcEEEecC--CCC----HHHHHHHHHHcCc
Confidence 356779999999999999999999999999777533 222 1245555665554
No 162
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. 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=23.61 E-value=5.9e+02 Score=23.85 Aligned_cols=71 Identities=21% Similarity=0.215 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEEC--ChHH--HHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeC
Q 012490 180 FLIESVSDLRKNLQARGSDLVVRVG--KPET--VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 180 Fl~esL~~L~~~L~~~Gi~L~v~~G--~~~~--~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
|+.+-+..+++.+++.|..+.+... ++.. .+.+.+...+++.|+......... .++ .+.+.|+++..++.
T Consensus 13 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~-----~~~-~~~~~~ipvV~~~~ 86 (264)
T cd06274 13 SFARIAKRLEALARERGYQLLIACSDDDPETERETVETLIARQVDALIVAGSLPPDD-----PYY-LCQKAGLPVVALDR 86 (264)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCchH-----HHH-HHHhcCCCEEEecC
Confidence 3444456667778889998888754 3322 222333456899887754321111 133 34567999998855
Q ss_pred C
Q 012490 256 S 256 (462)
Q Consensus 256 ~ 256 (462)
.
T Consensus 87 ~ 87 (264)
T cd06274 87 P 87 (264)
T ss_pred c
Confidence 4
No 163
>PRK13223 phosphoglycolate phosphatase; Provisional
Probab=23.57 E-value=2.1e+02 Score=28.15 Aligned_cols=12 Identities=17% Similarity=0.368 Sum_probs=5.9
Q ss_pred cCHHHHHHHHHH
Q 012490 388 LSPRSMFDELKK 399 (462)
Q Consensus 388 ISpR~v~~~v~~ 399 (462)
++-|..+-++.+
T Consensus 252 ~~~~~~~~~~~~ 263 (272)
T PRK13223 252 VVTRKLWMKVIK 263 (272)
T ss_pred eehHHHHHHHHH
Confidence 445555544443
No 164
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=23.49 E-value=6.1e+02 Score=23.97 Aligned_cols=71 Identities=15% Similarity=0.106 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEE-C--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRV-G--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~-G--~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~ 252 (462)
.|+.+-+..+++.++++|..+.+.. . +.. +.+.. +...+++.|+.... ++ ...++.+++. .+ ||++..
T Consensus 11 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~i~~-l~~~~vDgiIi~~~-~~--~~~~~~l~~~-~~-~ipvV~ 84 (271)
T cd06314 11 PFWKIAEAGVKAAGKELGVDVEFVVPQQGTVNAQLRMLED-LIAEGVDGIAISPI-DP--KAVIPALNKA-AA-GIKLIT 84 (271)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEeCCCCCCHHHHHHHHHH-HHhcCCCEEEEecC-Ch--hHhHHHHHHH-hc-CCCEEE
Confidence 4667778889999999999998874 2 222 22333 34458898887532 11 1112334443 45 999998
Q ss_pred EeC
Q 012490 253 FWG 255 (462)
Q Consensus 253 ~~~ 255 (462)
++.
T Consensus 85 ~~~ 87 (271)
T cd06314 85 TDS 87 (271)
T ss_pred ecC
Confidence 754
No 165
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=23.36 E-value=2.6e+02 Score=22.58 Aligned_cols=40 Identities=20% Similarity=0.200 Sum_probs=27.3
Q ss_pred HHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 212 ELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 212 ~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
+-+++-++.-|+...|.++. .-+.+...|++.+|++..+.
T Consensus 21 kai~~gkaklViiA~D~~~~---~~~~i~~~c~~~~Vp~~~~~ 60 (82)
T PRK13602 21 KALKRGSVKEVVVAEDADPR---LTEKVEALANEKGVPVSKVD 60 (82)
T ss_pred HHHHcCCeeEEEEECCCCHH---HHHHHHHHHHHcCCCEEEEC
Confidence 33344567778887777653 33467888888888887765
No 166
>TIGR01370 cysRS possible cysteinyl-tRNA synthetase, Methanococcus type. Assignment of this protein family as cysteinyl-tRNA synthetase is controversial, supported by PubMed:11333988 but challenged by PubMed:14679218. Members of this family from Deinococcus radiodurans (bacterial) and Methanococcus jannaschii (archaeal), species lacking a conventional cysteinyl-tRNA synthetase (Cys--tRNA ligase), have been indicated to be a novel form of that enzyme, perhaps distantly related to class I tRNA ligases. The member from Thermotoga maritima is presumed to be a second isozyme of cysteinyl-tRNA synthetase. A number of homologous but more distantly related proteins are annotated as alpha-1,4 polygalactosaminidases.
Probab=23.20 E-value=3.1e+02 Score=28.12 Aligned_cols=75 Identities=12% Similarity=0.090 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECChHHHHH-------HHHHHhCCCEEEEec--cCCchHHHH-HHHHHHHhhhcCC
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGKPETVLV-------ELAKAIGADAVYAHR--EVSHDEVKS-EEKIEAAMKDEGI 248 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~-------~L~~~~~a~~V~~~~--ey~p~e~~r-d~~v~~~l~~~gI 248 (462)
.=+++.++.|.+.+++++-++.|+--+-.+.+. .++....++.||++. .++..+++. .+.+++ +++.|+
T Consensus 187 ~~m~~~i~~Ia~~ar~~~P~~~II~NnG~eil~~~~g~~~~~idgV~~Eslf~~~~~~~~e~dr~~~l~~L~~-~~~~G~ 265 (315)
T TIGR01370 187 AEMIAFVCEIAAYARAQNPQFVIIPQNGEELLRDDHGGLAATVSGWAVEELFYYAANRPTEAERQRRLLALYR-LWQQGK 265 (315)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEEEecCchhhhhccccchhhhceEEEecceEEcCCCCCCHHHHHHHHHHHHH-HHHCCC
Confidence 446666777777779998888776322224443 345555677888764 222222222 233444 445699
Q ss_pred eEEEEe
Q 012490 249 EVKYFW 254 (462)
Q Consensus 249 ~v~~~~ 254 (462)
+|..++
T Consensus 266 ~Vl~ID 271 (315)
T TIGR01370 266 FVLTVD 271 (315)
T ss_pred cEEEEE
Confidence 887654
No 167
>TIGR01422 phosphonatase phosphonoacetaldehyde hydrolase. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases (pfam00702), and contains a modified version of the conserved catalytic motifs of that superfamily: the first motif is usually DxDx(T/V), here it is DxAxT, and in the third motif the normal conserved lysine is instead an arginine. Additionally, the enzyme contains a unique conserved catalytic lysine (B. cereus pos. 53) which is involved in the binding and activation of the substrate through the formation of a Schiff base. The substrate of this enzyme is the product of 2-aminoethylphosphonate (AEP) transaminase, phosphonoacetaldehyde. This degradation pathway for AEP may be related to its toxic properties which are utilized by microorganisms as a chemical warfare agent.
Probab=23.05 E-value=66 Score=31.03 Aligned_cols=32 Identities=22% Similarity=0.275 Sum_probs=14.7
Q ss_pred HHHHHHHHHhCCCcEEEEECChHHHHHHHHHH
Q 012490 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKA 216 (462)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~ 216 (462)
+.++=+.|++.|+++.|..+.+.+.+..+++.
T Consensus 104 ~~e~L~~L~~~g~~l~IvT~~~~~~~~~~l~~ 135 (253)
T TIGR01422 104 VIEVIAYLRARGIKIGSTTGYTREMMDVVAPE 135 (253)
T ss_pred HHHHHHHHHHCCCeEEEECCCcHHHHHHHHHH
Confidence 33444444444555555554444444444433
No 168
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=23.03 E-value=6.1e+02 Score=23.87 Aligned_cols=73 Identities=18% Similarity=0.278 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHhC---CC--cEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCC
Q 012490 179 SFLIESVSDLRKNLQAR---GS--DLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGI 248 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~---Gi--~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI 248 (462)
.|+.+-+..+++.++++ |. .|++... +.. +.+..+.. .+++.|+.... ... ..+..+ ..+.+.||
T Consensus 12 ~~~~~~~~~i~~~~~~~~~~g~~~~l~i~~~~~~~~~~~~~~~~~~~-~~vdgiIi~~~-~~~--~~~~~l-~~~~~~~i 86 (272)
T cd06300 12 TWRAQMLDEFKAQAKELKKAGLISEFIVTSADGDVAQQIADIRNLIA-QGVDAIIINPA-SPT--ALNPVI-EEACEAGI 86 (272)
T ss_pred hHHHHHHHHHHHHHHhhhccCCeeEEEEecCCCCHHHHHHHHHHHHH-cCCCEEEEeCC-Chh--hhHHHH-HHHHHCCC
Confidence 56666677777788888 87 5666643 322 33444444 48999888542 111 112233 34567899
Q ss_pred eEEEEeCC
Q 012490 249 EVKYFWGS 256 (462)
Q Consensus 249 ~v~~~~~~ 256 (462)
++..++..
T Consensus 87 Pvv~~~~~ 94 (272)
T cd06300 87 PVVSFDGT 94 (272)
T ss_pred eEEEEecC
Confidence 99988753
No 169
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=22.98 E-value=4.6e+02 Score=22.03 Aligned_cols=67 Identities=16% Similarity=0.165 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 178 ASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 178 ~~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
-.++. +.+++.++++|+++.+..... ..+..... +++.|+.. |--+-+-+.+++.++..||++...+
T Consensus 13 Ss~la---~km~~~a~~~gi~~~i~a~~~-~e~~~~~~--~~Dvill~----PQv~~~~~~i~~~~~~~~ipv~~I~ 79 (99)
T cd05565 13 SGLLA---NALNKGAKERGVPLEAAAGAY-GSHYDMIP--DYDLVILA----PQMASYYDELKKDTDRLGIKLVTTT 79 (99)
T ss_pred HHHHH---HHHHHHHHHCCCcEEEEEeeH-HHHHHhcc--CCCEEEEc----ChHHHHHHHHHHHhhhcCCCEEEeC
Confidence 35554 555667788999998876554 33444344 35555553 3334455678888988999998654
No 170
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=22.92 E-value=6.9e+02 Score=24.06 Aligned_cols=56 Identities=13% Similarity=0.122 Sum_probs=40.7
Q ss_pred CHHHHHHHHHHHHHHHHHHHhCCCcEEEEEC--------ChHHHHHHHHHHhCCCEEEEeccCC
Q 012490 174 GPYRASFLIESVSDLRKNLQARGSDLVVRVG--------KPETVLVELAKAIGADAVYAHREVS 229 (462)
Q Consensus 174 ~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G--------~~~~~L~~L~~~~~a~~V~~~~ey~ 229 (462)
....+.++.++|+.|-+..++.|+.|.+-.. +..+.+.+++++.+-..|...-|+.
T Consensus 120 ~~~~~~~~~~~l~~l~~~a~~~gv~l~iE~~~~~~~~~~~t~~~~~~l~~~~~~~~v~~~~D~~ 183 (275)
T PRK09856 120 PNVIWGRLAENLSELCEYAENIGMDLILEPLTPYESNVVCNANDVLHALALVPSPRLFSMVDIC 183 (275)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCEEEEecCCCCcccccCCHHHHHHHHHHcCCCcceeEEeec
Confidence 3456688999999999999999999987642 1356778888887755554444443
No 171
>TIGR03351 PhnX-like phosphonatase-like hydrolase. This clade of sequences are the closest homologs to the PhnX enzyme, phosphonoacetaldehyde (Pald) hydrolase (phosphonatase, TIGR01422). This phosphonatase-like enzyme and PhnX itself are members of the haloacid dehalogenase (HAD) superfamily (pfam00702) having a a number of distinctive features that set them apart from typical HAD enzymes. The typical HAD N-terminal motif DxDx(T/V) here is DxAGT and the usual conserved lysine prior to the C-terminal motif is instead an arginine. Also distinctive of phosphonatase, and particular to its bi-catalytic mechanism is a conserved lysine in the variable "cap" domain. This lysine forms a Schiff base with the aldehyde of phosphonoacetaldehyde, providing, through the resulting positive charge, a polarization of the C-P bond necesary for cleavage as well as a route to the initial product of cleavage, an ene-amine. The conservation of these elements in this phosphonatase-like enzyme suggests that the
Probab=22.89 E-value=1.9e+02 Score=26.91 Aligned_cols=36 Identities=14% Similarity=0.285 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhC
Q 012490 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIG 218 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~ 218 (462)
.++.++-+.|++.|+++.|..+...+.+...++..+
T Consensus 90 ~G~~~~L~~L~~~g~~~~ivT~~~~~~~~~~l~~~~ 125 (220)
T TIGR03351 90 PGAEEAFRSLRSSGIKVALTTGFDRDTAERLLEKLG 125 (220)
T ss_pred CCHHHHHHHHHHCCCEEEEEeCCchHHHHHHHHHhh
Confidence 344555556666666666666655555555555444
No 172
>cd04185 GT_2_like_b Subfamily of Glycosyltransferase Family GT2 of unknown function. GT-2 includes diverse families of glycosyltransferases with a common GT-A type structural fold, which has two tightly associated beta/alpha/beta domains that tend to form a continuous central sheet of at least eight beta-strands. These are enzymes that catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. Glycosyltransferases have been classified into more than 90 distinct sequence based families.
Probab=22.79 E-value=3.3e+02 Score=24.54 Aligned_cols=42 Identities=14% Similarity=0.140 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCC
Q 012490 178 ASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (462)
Q Consensus 178 ~~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~ 220 (462)
..++.++|+.|.++-. .+..++|..+...+...+++++.+..
T Consensus 9 ~~~l~~~l~sl~~q~~-~~~eiiivD~~s~d~t~~~~~~~~~~ 50 (202)
T cd04185 9 LDLLKECLDALLAQTR-PPDHIIVIDNASTDGTAEWLTSLGDL 50 (202)
T ss_pred HHHHHHHHHHHHhccC-CCceEEEEECCCCcchHHHHHHhcCC
Confidence 4667788888865422 14578888766555566667666544
No 173
>cd06278 PBP1_LacI_like_2 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=22.71 E-value=6.2e+02 Score=23.50 Aligned_cols=70 Identities=21% Similarity=0.267 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEECCh----HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeC
Q 012490 180 FLIESVSDLRKNLQARGSDLVVRVGKP----ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 180 Fl~esL~~L~~~L~~~Gi~L~v~~G~~----~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
|+..-+..+.+.+++.|..+.+...+. .+.+..+. ..+++.|+..... +.. .+.+.+.+.||++..++.
T Consensus 13 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~~-~~~-----~~~~~~~~~~ipvV~~~~ 85 (266)
T cd06278 13 FYSELLEALSRALQARGYQPLLINTDDDEDLDAALRQLL-QYRVDGVIVTSGT-LSS-----ELAEECRRNGIPVVLINR 85 (266)
T ss_pred hHHHHHHHHHHHHHHCCCeEEEEcCCCCHHHHHHHHHHH-HcCCCEEEEecCC-CCH-----HHHHHHhhcCCCEEEECC
Confidence 334444566888899999988876432 23333333 4588888775321 111 123345567999998865
Q ss_pred C
Q 012490 256 S 256 (462)
Q Consensus 256 ~ 256 (462)
.
T Consensus 86 ~ 86 (266)
T cd06278 86 Y 86 (266)
T ss_pred c
Confidence 3
No 174
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=22.71 E-value=5.9e+02 Score=23.73 Aligned_cols=73 Identities=19% Similarity=0.201 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.|+.+-+..+++.+++.|..+.+... ++. +.+..+ ...+++.|++... ... ....+-+.+.+.||++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~-~~~~~dgii~~~~---~~~-~~~~~l~~l~~~~ipvv~~ 86 (268)
T cd06323 12 PFFVTLKDGAQKEAKELGYELTVLDAQNDAAKQLNDIEDL-ITRGVDAIIINPT---DSD-AVVPAVKAANEAGIPVFTI 86 (268)
T ss_pred HHHHHHHHHHHHHHHHcCceEEecCCCCCHHHHHHHHHHH-HHcCCCEEEEcCC---ChH-HHHHHHHHHHHCCCcEEEE
Confidence 57777778888999999999988753 332 233333 3457888776321 111 1112223345679999988
Q ss_pred eCC
Q 012490 254 WGS 256 (462)
Q Consensus 254 ~~~ 256 (462)
+..
T Consensus 87 ~~~ 89 (268)
T cd06323 87 DRE 89 (268)
T ss_pred ccC
Confidence 653
No 175
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type 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 binding which i
Probab=22.66 E-value=6e+02 Score=23.94 Aligned_cols=77 Identities=16% Similarity=0.201 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHHhCCCcEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEE
Q 012490 178 ASFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 178 ~~Fl~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~ 252 (462)
-.|+.+-+..+.+.++++|..+.+... +.. +.+..+.. .+++.|+......-.....+..+ +.+.+.||++..
T Consensus 11 ~~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgii~~~~~~~~~~~~~~~~-~~~~~~~ipvV~ 88 (273)
T cd01541 11 DYIFPSIIRGIESVLSEKGYSLLLASTNNDPERERKCLENMLS-QGIDGLIIEPTKSALPNPNIDLY-LKLEKLGIPYVF 88 (273)
T ss_pred chhHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHH-cCCCEEEEeccccccccccHHHH-HHHHHCCCCEEE
Confidence 356666677788899999999988753 232 33444444 58998887432110000011223 334667999998
Q ss_pred EeCC
Q 012490 253 FWGS 256 (462)
Q Consensus 253 ~~~~ 256 (462)
++..
T Consensus 89 ~~~~ 92 (273)
T cd01541 89 INAS 92 (273)
T ss_pred EecC
Confidence 8643
No 176
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. 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=22.57 E-value=5.2e+02 Score=25.64 Aligned_cols=73 Identities=14% Similarity=0.184 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHHHHHhC-----CCcEEEEECChHHHHHHHHHHhCCCEEEEe---ccCCchHHHHHHHHHHHhhhcC
Q 012490 176 YRASFLIESVSDLRKNLQAR-----GSDLVVRVGKPETVLVELAKAIGADAVYAH---REVSHDEVKSEEKIEAAMKDEG 247 (462)
Q Consensus 176 ~r~~Fl~esL~~L~~~L~~~-----Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~---~ey~p~e~~rd~~v~~~l~~~g 247 (462)
.+..=+.+-|.+|++.+++. +-.+++. . ..+..|++.+|.+.+..- .+-+|.... -.++.+.+++.+
T Consensus 154 ~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~--H--~af~Yl~~~~gl~~~~~~~~~~~~eps~~~-l~~l~~~ik~~~ 228 (286)
T cd01019 154 ANLEAFNARLAELDATIKERLAPVKTKPFFVF--H--DAYGYFEKRYGLTQAGVFTIDPEIDPGAKR-LAKIRKEIKEKG 228 (286)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccCCCeEEEe--c--ccHHHHHHHcCCceeeeecCCCCCCCCHHH-HHHHHHHHHHcC
Confidence 44555777888888877754 2223332 2 478899999999866432 233344333 345777788899
Q ss_pred CeEEEE
Q 012490 248 IEVKYF 253 (462)
Q Consensus 248 I~v~~~ 253 (462)
|.+..+
T Consensus 229 v~~If~ 234 (286)
T cd01019 229 ATCVFA 234 (286)
T ss_pred CcEEEe
Confidence 998854
No 177
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. 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 b
Probab=22.55 E-value=6.2e+02 Score=23.55 Aligned_cols=70 Identities=19% Similarity=0.203 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 180 FLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 180 Fl~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
|+.+-+..+++.++++|..+.+...+ .. +.+..+. ..+++.|+....- ... ..+ +.+.+.||++..++
T Consensus 13 ~~~~~~~~i~~~a~~~g~~~~~~~~~~~~~~~~~~~~~l~-~~~~dgiii~~~~-~~~----~~l-~~~~~~~ipvV~~~ 85 (267)
T cd06283 13 FSSLVLKGIEDVCRAHGYQVLVCNSDNDPEKEKEYLESLL-AYQVDGLIVNPTG-NNK----ELY-QRLAKNGKPVVLVD 85 (267)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHH-HcCcCEEEEeCCC-CCh----HHH-HHHhcCCCCEEEEc
Confidence 44455677778888999998876543 22 2233333 3578888775421 111 123 33466799999887
Q ss_pred CC
Q 012490 255 GS 256 (462)
Q Consensus 255 ~~ 256 (462)
..
T Consensus 86 ~~ 87 (267)
T cd06283 86 RK 87 (267)
T ss_pred CC
Confidence 54
No 178
>TIGR01548 HAD-SF-IA-hyp1 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548. All but the Halobacterium sequence currently found are annotated as "Imidazoleglycerol-phosphate dehydratase", however, the source of the annotation could not be traced and significant homology could not be found between any of these sequences and known IGPD's.
Probab=22.53 E-value=4.3e+02 Score=24.15 Aligned_cols=35 Identities=17% Similarity=0.321 Sum_probs=26.9
Q ss_pred HHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCE
Q 012490 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIGADA 221 (462)
Q Consensus 187 ~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~ 221 (462)
++=+.|++.|+++.|..+.+.+.+..+++..|...
T Consensus 113 ~~L~~l~~~g~~~~i~T~~~~~~~~~~l~~~gl~~ 147 (197)
T TIGR01548 113 GLLRELHRAPKGMAVVTGRPRKDAAKFLTTHGLEI 147 (197)
T ss_pred HHHHHHHHcCCcEEEECCCCHHHHHHHHHHcCchh
Confidence 33345667899999999988888888888887653
No 179
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=22.37 E-value=2.4e+02 Score=27.91 Aligned_cols=62 Identities=15% Similarity=0.053 Sum_probs=38.0
Q ss_pred HHHHHhCCCcEEEEECCh-----HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCC
Q 012490 189 RKNLQARGSDLVVRVGKP-----ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (462)
Q Consensus 189 ~~~L~~~Gi~L~v~~G~~-----~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~ 256 (462)
.+.+++.|.+++.+.+.. .+.+.+++++.+.+.|+++- |.-.+. ..+.+++.+..+..++|-
T Consensus 46 ~~~i~~~g~~v~~~~~~~~~~~d~~~~~~~l~~~~~d~vV~D~-y~~~~~-----~~~~~k~~~~~l~~iDD~ 112 (279)
T TIGR03590 46 IDLLLSAGFPVYELPDESSRYDDALELINLLEEEKFDILIVDH-YGLDAD-----WEKLIKEFGRKILVIDDL 112 (279)
T ss_pred HHHHHHcCCeEEEecCCCchhhhHHHHHHHHHhcCCCEEEEcC-CCCCHH-----HHHHHHHhCCeEEEEecC
Confidence 345677888888776532 34577788887887776654 433322 233344457777777764
No 180
>COG2873 MET17 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]
Probab=22.36 E-value=2.2e+02 Score=30.13 Aligned_cols=64 Identities=13% Similarity=0.055 Sum_probs=44.7
Q ss_pred HHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHH-HHHHHHHhhhcCCeEE
Q 012490 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKS-EEKIEAAMKDEGIEVK 251 (462)
Q Consensus 187 ~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~r-d~~v~~~l~~~gI~v~ 251 (462)
-+.--|+.+||...+..++..+.+.+.+++ +-++||...--.|.-.-. -++|.+.+++.||++.
T Consensus 117 lf~~tl~~~Gi~v~fvd~~d~~~~~~aI~~-nTkavf~EtigNP~~~v~Die~ia~iAh~~gvpli 181 (426)
T COG2873 117 LFSHTLKRLGIEVRFVDPDDPENFEAAIDE-NTKAVFAETIGNPGLDVLDIEAIAEIAHRHGVPLI 181 (426)
T ss_pred HHHHHHHhcCcEEEEeCCCCHHHHHHHhCc-ccceEEEEeccCCCccccCHHHHHHHHHHcCCcEE
Confidence 345567888999999998877877777765 566777754322332222 3678889999999886
No 181
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=22.31 E-value=96 Score=25.39 Aligned_cols=42 Identities=21% Similarity=0.125 Sum_probs=25.3
Q ss_pred HHHHHHHhCCCEEEEeccCCchHHH-HHHHHHHHhhhcCCeEE
Q 012490 210 LVELAKAIGADAVYAHREVSHDEVK-SEEKIEAAMKDEGIEVK 251 (462)
Q Consensus 210 L~~L~~~~~a~~V~~~~ey~p~e~~-rd~~v~~~l~~~gI~v~ 251 (462)
+.+++++.+++-|+.+......... ....+++.+.+.+|++-
T Consensus 52 i~~~i~~~~IdlVIn~~~~~~~~~~~dg~~irr~a~~~~Ip~~ 94 (95)
T PF02142_consen 52 IMDLIKNGKIDLVINTPYPFSDQEHTDGYKIRRAAVEYNIPLF 94 (95)
T ss_dssp HHHHHHTTSEEEEEEE--THHHHHTHHHHHHHHHHHHTTSHEE
T ss_pred HHHHHHcCCeEEEEEeCCCCcccccCCcHHHHHHHHHcCCCCc
Confidence 6777777778766665543222222 35677777777887763
No 182
>TIGR01656 Histidinol-ppas histidinol-phosphate phosphatase family domain. This domain is a member of the haloacid-dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. This superfamily is distinguished by the presence of three motifs: an N-terminal motif containing the nucleophilic aspartate, a central motif containing an conserved serine or threonine, and a C-terminal motif containing a conserved lysine (or arginine) and conserved aspartates. More specifically, the domian modelled here is a member of subfamily III of the HAD-superfamily by virtue of lacking a "capping" domain in either of the two common positions, between motifs 1 and 2, or between motifs 2 and 3.
Probab=22.08 E-value=3.3e+02 Score=23.88 Aligned_cols=26 Identities=23% Similarity=0.204 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHhCCCcEEEEECCh
Q 012490 181 LIESVSDLRKNLQARGSDLVVRVGKP 206 (462)
Q Consensus 181 l~esL~~L~~~L~~~Gi~L~v~~G~~ 206 (462)
++..+.++=+.|++.|+.+.|.....
T Consensus 28 ~~~g~~~~l~~Lk~~g~~~~I~Sn~~ 53 (147)
T TIGR01656 28 LRPGAVPALLTLRAAGYTVVVVTNQS 53 (147)
T ss_pred EcCChHHHHHHHHHCCCEEEEEeCCC
Confidence 45667777788888899988887543
No 183
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type 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 binding which in turn changes the DNA b
Probab=21.99 E-value=6.1e+02 Score=23.63 Aligned_cols=71 Identities=14% Similarity=0.103 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEECC--h---HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 180 FLIESVSDLRKNLQARGSDLVVRVGK--P---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 180 Fl~esL~~L~~~L~~~Gi~L~v~~G~--~---~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
|+.+-+..+++.+++.|..+.+...+ . ...+.+.+.+.+++.|+......... .+... .+.||++..++
T Consensus 13 ~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-----~~~~~-~~~~ipvv~~~ 86 (264)
T cd01574 13 GPSSTLAAIESAAREAGYAVTLSMLAEADEEALRAAVRRLLAQRVDGVIVNAPLDDAD-----AALAA-APADVPVVFVD 86 (264)
T ss_pred cHHHHHHHHHHHHHHCCCeEEEEeCCCCchHHHHHHHHHHHhcCCCEEEEeCCCCChH-----HHHHH-HhcCCCEEEEe
Confidence 55566677888888899999887642 1 12222223455788888754322222 12222 35799999887
Q ss_pred CC
Q 012490 255 GS 256 (462)
Q Consensus 255 ~~ 256 (462)
..
T Consensus 87 ~~ 88 (264)
T cd01574 87 GS 88 (264)
T ss_pred cc
Confidence 54
No 184
>PRK08238 hypothetical protein; Validated
Probab=21.95 E-value=2.7e+02 Score=30.24 Aligned_cols=46 Identities=28% Similarity=0.395 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCC-CEEEEeccC
Q 012490 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGA-DAVYAHREV 228 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a-~~V~~~~ey 228 (462)
+.+.++=+++++.|.++.+..+.+...+..+++..|+ +.|+..++.
T Consensus 75 pga~e~L~~lk~~G~~v~LaTas~~~~a~~i~~~lGlFd~Vigsd~~ 121 (479)
T PRK08238 75 EEVLDYLRAERAAGRKLVLATASDERLAQAVAAHLGLFDGVFASDGT 121 (479)
T ss_pred hhHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHHHcCCCCEEEeCCCc
Confidence 4566666677899999999999999999999999996 888887654
No 185
>PRK09701 D-allose transporter subunit; Provisional
Probab=21.85 E-value=7.6e+02 Score=24.28 Aligned_cols=73 Identities=11% Similarity=0.106 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEEC----ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVG----KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G----~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~ 251 (462)
.|+.+-+..+++.+++.|..+.+..+ +.. +.+..+. ..+++.|+.... .+ ...+..+.+. .+.||++.
T Consensus 37 ~f~~~~~~gi~~~a~~~g~~v~~~~~~~~~~~~~~~~~i~~l~-~~~vDgiIi~~~-~~--~~~~~~l~~~-~~~giPvV 111 (311)
T PRK09701 37 PFWVDMKKGIEDEAKTLGVSVDIFASPSEGDFQSQLQLFEDLS-NKNYKGIAFAPL-SS--VNLVMPVARA-WKKGIYLV 111 (311)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHH-HcCCCEEEEeCC-Ch--HHHHHHHHHH-HHCCCcEE
Confidence 56677778888899999999988632 222 2333433 447888877532 11 1122234433 46799999
Q ss_pred EEeCC
Q 012490 252 YFWGS 256 (462)
Q Consensus 252 ~~~~~ 256 (462)
.++..
T Consensus 112 ~~~~~ 116 (311)
T PRK09701 112 NLDEK 116 (311)
T ss_pred EeCCC
Confidence 88754
No 186
>PRK00919 GMP synthase subunit B; Validated
Probab=21.80 E-value=4.6e+02 Score=26.72 Aligned_cols=75 Identities=19% Similarity=0.383 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHHhCCCcEEEEECCh-HHHHHHHHHH-hC--CCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 178 ASFLIESVSDLRKNLQARGSDLVVRVGKP-ETVLVELAKA-IG--ADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 178 ~~Fl~esL~~L~~~L~~~Gi~L~v~~G~~-~~~L~~L~~~-~~--a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
..|+-+.+..|++.++. +--++.+.|.. -.++..++.+ .| +..|+++....+ ..--+.+++.|++. +.++.+
T Consensus 5 ~~~~~~~~~~l~~~~~~-~kVlVa~SGGVDSsvla~la~~~lG~~v~aV~vD~G~~~--~~E~e~a~~~~~~~-i~~~vv 80 (307)
T PRK00919 5 EKFIEEAIEEIREEIGD-GKAIIALSGGVDSSVAAVLAHRAIGDRLTPVFVDTGLMR--KGETERIKETFSDM-LNLRIV 80 (307)
T ss_pred HHHHHHHHHHHHHHhCC-CCEEEEecCCHHHHHHHHHHHHHhCCeEEEEEEECCCCC--HHHHHHHHHHHhcc-CCcEEE
Confidence 46899999999999876 44455566643 3455566655 45 455666544432 22234566667665 777666
Q ss_pred eCC
Q 012490 254 WGS 256 (462)
Q Consensus 254 ~~~ 256 (462)
+-.
T Consensus 81 d~~ 83 (307)
T PRK00919 81 DAK 83 (307)
T ss_pred ECC
Confidence 544
No 187
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family. The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
Probab=21.67 E-value=7e+02 Score=25.22 Aligned_cols=91 Identities=16% Similarity=0.175 Sum_probs=53.0
Q ss_pred HHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHh----
Q 012490 142 LNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAI---- 217 (462)
Q Consensus 142 L~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~---- 217 (462)
|..|.+.|.. +-|||.+.+=. .++ ..+-++|.+.|++..++..... ..+.++.
T Consensus 132 l~~a~~~~~~-f~V~v~EsrP~------------------~~G-~~~a~~L~~~gI~vtlI~Dsa~---~~~m~~vd~Vi 188 (301)
T TIGR00511 132 IKTAFEQGKD-IEVIATETRPR------------------KQG-HITAKELRDYGIPVTLIVDSAV---RYFMKEVDHVV 188 (301)
T ss_pred HHHHHHcCCc-EEEEEecCCCc------------------chH-HHHHHHHHHCCCCEEEEehhHH---HHHHHhCCEEE
Confidence 4455555543 67888764311 133 4567788999999999876543 3344442
Q ss_pred -CCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCe
Q 012490 218 -GADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGST 257 (462)
Q Consensus 218 -~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~ 257 (462)
|++.|+.|-..- -+.--..+.-.++..+|+|..+....
T Consensus 189 vGad~v~~nG~v~--nkiGT~~lA~~Ak~~~vPv~V~a~~~ 227 (301)
T TIGR00511 189 VGADAITANGALI--NKIGTSQLALAAREARVPFMVAAETY 227 (301)
T ss_pred ECccEEecCCCEE--EHHhHHHHHHHHHHhCCCEEEEcccc
Confidence 455555554321 12223445666688899998765544
No 188
>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=21.60 E-value=4.1e+02 Score=23.91 Aligned_cols=57 Identities=12% Similarity=0.103 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCcEEEEEC-----ChH---HHHHHHHHHhCCCEEEEeccCCch
Q 012490 175 PYRASFLIESVSDLRKNLQARGSDLVVRVG-----KPE---TVLVELAKAIGADAVYAHREVSHD 231 (462)
Q Consensus 175 ~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G-----~~~---~~L~~L~~~~~a~~V~~~~ey~p~ 231 (462)
...+..+.+.|+.|-+.+++.|+.+.+-.. ... +.+.+++++.+-..|.+.-|..+.
T Consensus 104 ~~~~~~~~~~l~~l~~~a~~~gv~i~lE~~~~~~~~~~~~~~~~~~~l~~~~~~~~~i~~D~~h~ 168 (213)
T PF01261_consen 104 EENWERLAENLRELAEIAEEYGVRIALENHPGPFSETPFSVEEIYRLLEEVDSPNVGICFDTGHL 168 (213)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTSEEEEE-SSSSSSSEESSHHHHHHHHHHHTTTTEEEEEEHHHH
T ss_pred HHHHHHHHHHHHHHHhhhhhhcceEEEecccCccccchhhHHHHHHHHhhcCCCcceEEEehHHH
Confidence 467788999999999999999999888642 122 888999999998777777766444
No 189
>TIGR03772 anch_rpt_subst anchored repeat ABC transporter, substrate-binding protein. Members of this protein family are ABC transporter permease subunits as identified by pfam00950, but additionally contain the Actinobacterial insert domain described by TIGR03769. Some homologs (lacking the insert) have been described as transporters of manganese or of chelated iron. Members of this family typically are found along with an ATP-binding cassette protein, a permease, and an LPXTG-anchored protein with two or three copies of the TIGR03769 insert that occurs just once in this protein family.
Probab=21.48 E-value=5.7e+02 Score=27.82 Aligned_cols=69 Identities=10% Similarity=0.170 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHhC-------CCcEEEEECChHHHHHHHHHHhCCCEEEE---eccCCchHHHHHHHHHHHhhhcCCe
Q 012490 180 FLIESVSDLRKNLQAR-------GSDLVVRVGKPETVLVELAKAIGADAVYA---HREVSHDEVKSEEKIEAAMKDEGIE 249 (462)
Q Consensus 180 Fl~esL~~L~~~L~~~-------Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~---~~ey~p~e~~rd~~v~~~l~~~gI~ 249 (462)
-+.+-|++|+++++++ +-.+++.+ +.+..|++.+|.+.+-+ +.+-+|.... -+++.+.+++.+|+
T Consensus 348 ay~~eL~~Ld~~~~~~la~ip~k~r~vvt~H----~af~YLa~~YGL~~~~~~~~~~~~ePS~~~-L~~Li~~IK~~~V~ 422 (479)
T TIGR03772 348 AYIHRLERLDTYVRRTIATIPPSRRHLITTH----DAYSYLGQAYGLNIAGFVTPNPAVEPSLAD-RRRLTRTIENLKVP 422 (479)
T ss_pred HHHHHHHHHHHHHHHHhhhccccCCEEEEEC----CcHHHHHHHCCCeEEeeeccCCCCCCCHHH-HHHHHHHHHHcCCC
Confidence 3445566666655543 22233332 47889999999987643 2344555443 35677788889998
Q ss_pred EEEE
Q 012490 250 VKYF 253 (462)
Q Consensus 250 v~~~ 253 (462)
+..+
T Consensus 423 ~IF~ 426 (479)
T TIGR03772 423 AVFL 426 (479)
T ss_pred EEEE
Confidence 8864
No 190
>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []. CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].
Probab=21.41 E-value=6.7e+02 Score=23.55 Aligned_cols=78 Identities=12% Similarity=0.169 Sum_probs=50.6
Q ss_pred eeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEE---------CChHHHHHHHHHHhCCCEEE
Q 012490 153 LPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV---------GKPETVLVELAKAIGADAVY 223 (462)
Q Consensus 153 lpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~---------G~~~~~L~~L~~~~~a~~V~ 223 (462)
+.||++|.. +....+....||.+++..+-- +++.++. +-..+.+.+|+.+|+.--++
T Consensus 67 lIVFvinl~------------sk~SL~~ve~SL~~vd~~ffl--GKVCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~ 132 (176)
T PF11111_consen 67 LIVFVINLH------------SKYSLQSVEASLSHVDPSFFL--GKVCFLATNAGRESHCSVHPNEVRKLAATYNSPLLF 132 (176)
T ss_pred EEEEEEecC------------CcccHHHHHHHHhhCChhhhc--cceEEEEcCCCcccccccCHHHHHHHHHHhCCCEEE
Confidence 578888752 234566777777777666543 3333332 12447788999999999999
Q ss_pred EeccCCchHHHHHHHHHHHhh
Q 012490 224 AHREVSHDEVKSEEKIEAAMK 244 (462)
Q Consensus 224 ~~~ey~p~e~~rd~~v~~~l~ 244 (462)
++.+.+-.....-+++-+.++
T Consensus 133 ~~le~~~~~~~lAqRLL~~lq 153 (176)
T PF11111_consen 133 ADLENEEGRTSLAQRLLRMLQ 153 (176)
T ss_pred eecccchHHHHHHHHHHHHHH
Confidence 998876555444555555543
No 191
>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=21.35 E-value=1.1e+02 Score=27.33 Aligned_cols=37 Identities=14% Similarity=0.276 Sum_probs=24.9
Q ss_pred HHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCC
Q 012490 184 SVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (462)
Q Consensus 184 sL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~ 220 (462)
++.++-+.|++.|+++.|..+.....+..+++.+++.
T Consensus 76 g~~~ll~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l~ 112 (188)
T TIGR01489 76 GFKEFIAFIKEHGIDFIVISDGNDFFIDPVLEGIGEK 112 (188)
T ss_pred cHHHHHHHHHHcCCcEEEEeCCcHHHHHHHHHHcCCh
Confidence 3445556667777888877777666677777766654
No 192
>PRK05434 phosphoglyceromutase; Provisional
Probab=21.34 E-value=6.2e+02 Score=27.76 Aligned_cols=74 Identities=24% Similarity=0.344 Sum_probs=51.5
Q ss_pred HHHHHHHHHHhCCCcEEEEE----C------ChHHHHHHHHHHhCCCEEEEec-----cCCch-HHHHHHHHHHHhhhcC
Q 012490 184 SVSDLRKNLQARGSDLVVRV----G------KPETVLVELAKAIGADAVYAHR-----EVSHD-EVKSEEKIEAAMKDEG 247 (462)
Q Consensus 184 sL~~L~~~L~~~Gi~L~v~~----G------~~~~~L~~L~~~~~a~~V~~~~-----ey~p~-e~~rd~~v~~~l~~~g 247 (462)
.|.++-+..++.|..|+++= | +....|.+++++.|++.|+.|. |+.|. ....-+++++.|++.|
T Consensus 97 ~~~~~~~~~~~~~~~lHl~GL~SdggVHsh~~hl~~l~~~a~~~g~~~v~vH~~~DGRD~~p~s~~~~i~~l~~~~~~~~ 176 (507)
T PRK05434 97 ALLDAIDKAKKNGGALHLMGLLSDGGVHSHIDHLFALLELAKEEGVKKVYVHAFLDGRDTPPKSALGYLEELEAKLAELG 176 (507)
T ss_pred HHHHHHHHHHhcCCeEEEEEeccCCCcccHHHHHHHHHHHHHHcCCCEEEEEEecCCCCCCchhHHHHHHHHHHHHHHhC
Confidence 44555556677799999862 3 2445666777889998888884 55554 3444567888888877
Q ss_pred C-eEEEEeCCe
Q 012490 248 I-EVKYFWGST 257 (462)
Q Consensus 248 I-~v~~~~~~~ 257 (462)
+ ++-++-++.
T Consensus 177 ~~~iasv~GRy 187 (507)
T PRK05434 177 VGRIASVSGRY 187 (507)
T ss_pred CeeEEEEeccc
Confidence 6 788887775
No 193
>TIGR01681 HAD-SF-IIIC HAD-superfamily phosphatase, subfamily IIIC. No member of this subfamily is characterized with respect to function, however the MDP-1 protein is a characterized phosphatase. All of the characterized enzymes within subfamily III are phosphatases, and all of the active site residues characteristic of HAD-superfamily phosphatases are present in subfamily IIIC.
Probab=21.32 E-value=2e+02 Score=24.87 Aligned_cols=39 Identities=23% Similarity=0.210 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEECC-hHHHHHHHHHHhC
Q 012490 180 FLIESVSDLRKNLQARGSDLVVRVGK-PETVLVELAKAIG 218 (462)
Q Consensus 180 Fl~esL~~L~~~L~~~Gi~L~v~~G~-~~~~L~~L~~~~~ 218 (462)
-++.++.++=+.|++.|+++.+..+. ..+....+.+..+
T Consensus 29 ~~~~gv~e~L~~Lk~~g~~l~i~Sn~~~~~~~~~~l~~~~ 68 (128)
T TIGR01681 29 VTIKEIRDKLQTLKKNGFLLALASYNDDPHVAYELLKIFE 68 (128)
T ss_pred HHHHHHHHHHHHHHHCCeEEEEEeCCCCHHHHHHHHHhcc
Confidence 46788888888999999999999887 6666666666655
No 194
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=21.31 E-value=7e+02 Score=23.52 Aligned_cols=73 Identities=11% Similarity=0.144 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEEC----ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVG----KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G----~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~ 251 (462)
.|+.+-+..+++.++++|..+.+... ++. +.+..+. ..+++.|+... .... ..+..+ +.+.+.||++.
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~-~~~~--~~~~~~-~~~~~~~iPvV 86 (275)
T cd06320 12 EFWRSLKEGYENEAKKLGVSVDIQAAPSEGDQQGQLSIAENMI-NKGYKGLLFSP-ISDV--NLVPAV-ERAKKKGIPVV 86 (275)
T ss_pred HHHHHHHHHHHHHHHHhCCeEEEEccCCCCCHHHHHHHHHHHH-HhCCCEEEECC-CChH--HhHHHH-HHHHHCCCeEE
Confidence 45556667788888999999988742 332 2233333 35889887643 1111 112233 34567899999
Q ss_pred EEeCC
Q 012490 252 YFWGS 256 (462)
Q Consensus 252 ~~~~~ 256 (462)
.++..
T Consensus 87 ~~~~~ 91 (275)
T cd06320 87 NVNDK 91 (275)
T ss_pred EECCC
Confidence 87653
No 195
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=21.26 E-value=1.5e+02 Score=27.97 Aligned_cols=35 Identities=11% Similarity=0.186 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHh
Q 012490 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAI 217 (462)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~ 217 (462)
.++.++=+.|++.|+++.|..+.....+..+++.+
T Consensus 77 pG~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~ 111 (219)
T PRK09552 77 EGFHEFVQFVKENNIPFYVVSGGMDFFVYPLLQGL 111 (219)
T ss_pred cCHHHHHHHHHHcCCeEEEECCCcHHHHHHHHHHh
Confidence 34455555556666666666655555555555543
No 196
>PF04900 Fcf1: Fcf1; InterPro: IPR006984 This family is comprises of uncharacterised eukaryotic proteins.
Probab=21.25 E-value=2.4e+02 Score=23.37 Aligned_cols=46 Identities=17% Similarity=0.383 Sum_probs=33.2
Q ss_pred CChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhh-hcCCeEEEEeCCeee
Q 012490 204 GKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMK-DEGIEVKYFWGSTLY 259 (462)
Q Consensus 204 G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~-~~gI~v~~~~~~~L~ 259 (462)
+.+.+.|..++.+.+. -++++. |+.+++.+. ..||++..+..+.++
T Consensus 51 ~~addci~~~~~~~~~-~~VaT~---------D~~Lr~~lr~~~GvPvi~l~~~~~~ 97 (101)
T PF04900_consen 51 GSADDCILDLAGKNNK-YIVATQ---------DKELRRRLRKIPGVPVIYLRRNVLI 97 (101)
T ss_pred cCHHHHHHHHhccCCe-EEEEec---------CHHHHHHHhcCCCCCEEEEECCEEE
Confidence 4678999999987776 555554 345666665 789999998876543
No 197
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=21.11 E-value=3.4e+02 Score=23.20 Aligned_cols=45 Identities=13% Similarity=0.012 Sum_probs=27.8
Q ss_pred HHHHHHHHHhCCCEEEEeccC-CchH-HHHHHHHHHHhhhcCCeEEE
Q 012490 208 TVLVELAKAIGADAVYAHREV-SHDE-VKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 208 ~~L~~L~~~~~a~~V~~~~ey-~p~e-~~rd~~v~~~l~~~gI~v~~ 252 (462)
..+.++++.-.++-|+...+. .... ..-...+++.|-+.+|++-+
T Consensus 60 ~~i~~~i~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~T 106 (115)
T cd01422 60 QQIGALIAEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLAT 106 (115)
T ss_pred hHHHHHHHcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEEE
Confidence 446666776677777665543 3232 22345777778778887754
No 198
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group 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
Probab=21.02 E-value=5.9e+02 Score=23.84 Aligned_cols=68 Identities=21% Similarity=0.289 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEECC--hHH--HHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeC
Q 012490 180 FLIESVSDLRKNLQARGSDLVVRVGK--PET--VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 180 Fl~esL~~L~~~L~~~Gi~L~v~~G~--~~~--~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
|+.+-+..+++.+++.|..+.+...+ ..+ .+.+.+...+++.|++...- .. +. .+.+.||++..++.
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~-~~-------~~-~~~~~gipvv~~~~ 83 (265)
T cd06291 13 FFSELARAVEKELYKKGYKLILCNSDNDPEKEREYLEMLRQNQVDGIIAGTHN-LG-------IE-EYENIDLPIVSFDR 83 (265)
T ss_pred hHHHHHHHHHHHHHHCCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEEecCC-cC-------HH-HHhcCCCCEEEEeC
Confidence 45555667788889999998887542 322 22233455688888775421 11 11 33467999998876
Q ss_pred C
Q 012490 256 S 256 (462)
Q Consensus 256 ~ 256 (462)
.
T Consensus 84 ~ 84 (265)
T cd06291 84 Y 84 (265)
T ss_pred C
Confidence 5
No 199
>PRK11133 serB phosphoserine phosphatase; Provisional
Probab=20.95 E-value=1.8e+02 Score=29.75 Aligned_cols=41 Identities=24% Similarity=0.226 Sum_probs=21.0
Q ss_pred HHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEe
Q 012490 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (462)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~ 225 (462)
+.++=+.|++.|+++.|..|........+.++.++..++.|
T Consensus 186 a~elL~~Lk~~G~~~aIvSgg~~~~~~~l~~~Lgld~~~an 226 (322)
T PRK11133 186 LTELVLKLQALGWKVAIASGGFTYFADYLRDKLRLDAAVAN 226 (322)
T ss_pred HHHHHHHHHHcCCEEEEEECCcchhHHHHHHHcCCCeEEEe
Confidence 34444555555555555555544444444455555555443
No 200
>cd08185 Fe-ADH1 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases-like (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase fold and is a member of the iron-containing alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown. They are present in bacteria and archaea.
Probab=20.85 E-value=5e+02 Score=26.89 Aligned_cols=75 Identities=17% Similarity=0.258 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHHHHhCCCcEEEEECChH-------HHHHHHHHHhCCCEEEEec-cCCchHHHHHHHHHHHhhhcCC
Q 012490 177 RASFLIESVSDLRKNLQARGSDLVVRVGKPE-------TVLVELAKAIGADAVYAHR-EVSHDEVKSEEKIEAAMKDEGI 248 (462)
Q Consensus 177 r~~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~-------~~L~~L~~~~~a~~V~~~~-ey~p~e~~rd~~v~~~l~~~gI 248 (462)
|+.|=..++.+|.+.+++.|.+.+|+.|... +.+.+.+++.+++..+++. +.+|.....+ ++.+.+++.++
T Consensus 6 ~i~fG~g~l~~l~~~~~~~g~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~-~~~~~~~~~~~ 84 (380)
T cd08185 6 KIVFGAGKLNELGEEALKPGKKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNPTTTTVM-EGAALAREEGC 84 (380)
T ss_pred eEEECcCHHHHHHHHHHhcCCeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCCCHHHHH-HHHHHHHHcCC
Confidence 3344445677888888887877887776432 4455556666776655532 2233333222 34455566666
Q ss_pred eEEE
Q 012490 249 EVKY 252 (462)
Q Consensus 249 ~v~~ 252 (462)
.+..
T Consensus 85 D~Ii 88 (380)
T cd08185 85 DFVV 88 (380)
T ss_pred CEEE
Confidence 5543
No 201
>COG1362 LAP4 Aspartyl aminopeptidase [Amino acid transport and metabolism]
Probab=20.84 E-value=5.8e+02 Score=27.38 Aligned_cols=108 Identities=17% Similarity=0.175 Sum_probs=58.6
Q ss_pred CCCccChHHHHHhh------hcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEECCh
Q 012490 133 DLRVHDNESLNTAN------NESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKP 206 (462)
Q Consensus 133 DLRl~DN~AL~~A~------~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G~~ 206 (462)
--|++|-.+.+++. ..+..+..+.+||-+..+.. ....+.-.||-.-|+...-.+. |+.
T Consensus 237 a~rlDn~~~~~a~m~AL~~~~~~~~~~v~~~fD~EEIGS~-----s~~GAds~fL~~vLeri~~a~~----------~~~ 301 (437)
T COG1362 237 APRLDNLICCHAGMEALLAAANSDKTCVLALFDHEEIGSL-----SAQGADSPFLENVLERIILALG----------GSR 301 (437)
T ss_pred cCCccchHHHHHHHHHHHhccCCCCceEEEEechhhcccc-----cccCcCchhHHHHHHHHHHHcc----------CCh
Confidence 34666665555443 23455677888998776532 2223456788877777433322 111
Q ss_pred HHHHHHHHHH--------------------------h--C-CCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCC
Q 012490 207 ETVLVELAKA--------------------------I--G-ADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (462)
Q Consensus 207 ~~~L~~L~~~--------------------------~--~-a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~ 256 (462)
.+.+..|.+. . | +-.++.|..|.-+..- -..+++.|++.||++..|.-.
T Consensus 302 ~~~~~~l~nS~~iSaD~ahaihPny~~~hd~~n~p~ln~G~vik~~an~ry~td~~~-~a~~~~l~~~~~Vp~Q~f~~~ 379 (437)
T COG1362 302 DDHLRALANSFLISADVAHAIHPNYPEKHDPNNAPKLNKGPVIKVNANQRYATDSEG-IALLRKLAQKAGVPWQVFVLR 379 (437)
T ss_pred HHHHHHHhhceeeehhhHhhcCCCCccccCcccCCccCCCceEEecCCCCcccCchH-HHHHHHHHHHcCCceEEEEec
Confidence 1111122111 1 1 1246677777654332 245778888889998876433
No 202
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=20.64 E-value=2.3e+02 Score=23.49 Aligned_cols=60 Identities=25% Similarity=0.339 Sum_probs=35.9
Q ss_pred HHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.++.+.+++ ..|+|..|+-.+++...+.. ++..|+......+. +.+.+.+++.||++-..
T Consensus 32 ~~~~~~~~~--~~lvIt~gdR~di~~~a~~~-~i~~iIltg~~~~~-----~~v~~la~~~~i~vi~t 91 (105)
T PF07085_consen 32 SDFLEYLKP--GDLVITPGDREDIQLAAIEA-GIACIILTGGLEPS-----EEVLELAKELGIPVIST 91 (105)
T ss_dssp HHHHHCHHT--TEEEEEETT-HHHHHHHCCT-TECEEEEETT---------HHHHHHHHHHT-EEEE-
T ss_pred HHHHhhcCC--CeEEEEeCCcHHHHHHHHHh-CCCEEEEeCCCCCC-----HHHHHHHHHCCCEEEEE
Confidence 444444544 56788878887777766554 57788777655444 45667777888888753
No 203
>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed
Probab=20.61 E-value=2.4e+02 Score=27.85 Aligned_cols=65 Identities=18% Similarity=0.168 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEE
Q 012490 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (462)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~ 251 (462)
+++-..+.+.|+++|+.++++..+. .+.+.+++.+++.|+..-+-...+ +..+...|+..||++.
T Consensus 22 ~~s~~~i~~al~~~g~~v~~i~~~~--~~~~~~~~~~~D~v~~~~~g~~~~---~~~~~~~le~~gi~~~ 86 (304)
T PRK01372 22 LNSGAAVLAALREAGYDAHPIDPGE--DIAAQLKELGFDRVFNALHGRGGE---DGTIQGLLELLGIPYT 86 (304)
T ss_pred HHhHHHHHHHHHHCCCEEEEEecCc--chHHHhccCCCCEEEEecCCCCCC---ccHHHHHHHHcCCCcc
Confidence 3466888889999999998886552 233445556777776542111111 2345566666676554
No 204
>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=20.56 E-value=3.5e+02 Score=26.46 Aligned_cols=40 Identities=20% Similarity=0.210 Sum_probs=19.8
Q ss_pred HHHHHHHHHhCCCcEEEEE-CChHHHHHHHHHHhCCCEEEE
Q 012490 185 VSDLRKNLQARGSDLVVRV-GKPETVLVELAKAIGADAVYA 224 (462)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~-G~~~~~L~~L~~~~~a~~V~~ 224 (462)
|.++.+.+++.|++.++.. ......+..++++.|+..+..
T Consensus 206 l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~~l 246 (266)
T cd01018 206 LKRLIDLAKEKGVRVVFVQPQFSTKSAEAIAREIGAKVVTI 246 (266)
T ss_pred HHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHcCCeEEEe
Confidence 3445555555555555553 223344445555555554443
No 205
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=20.41 E-value=7.2e+02 Score=24.92 Aligned_cols=72 Identities=17% Similarity=0.175 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.|+.+.++.+++.+++.|..+.+..++ .. +.+..+. ..+++.|++... ... ..+..+. .+.+.||++..+
T Consensus 38 ~f~~~~~~gi~~~a~~~g~~l~i~~~~~~~~~~~~~i~~l~-~~~vDGiIi~~~-~~~--~~~~~l~-~~~~~~iPvV~i 112 (330)
T PRK10355 38 ERWQKDRDIFVKKAESLGAKVFVQSANGNEETQMSQIENMI-NRGVDVLVIIPY-NGQ--VLSNVIK-EAKQEGIKVLAY 112 (330)
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHH-HcCCCEEEEeCC-Chh--hHHHHHH-HHHHCCCeEEEE
Confidence 477788889999999999999988653 22 3333433 458999887542 111 1123333 345678999988
Q ss_pred eC
Q 012490 254 WG 255 (462)
Q Consensus 254 ~~ 255 (462)
+.
T Consensus 113 d~ 114 (330)
T PRK10355 113 DR 114 (330)
T ss_pred CC
Confidence 54
No 206
>cd01025 TOPRIM_recR TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a single-stranded DNA molecule coated with RecA to allow invasion of a homologous molecule. The RecFOR system directs the loading of RecA onto gapped DNA coated with SSB protein. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). In RecR sequences this glutamate in the first turn of the TOPRIM domain is semiconserved, the DXD motif is not conserved.
Probab=20.31 E-value=5.1e+02 Score=22.41 Aligned_cols=48 Identities=17% Similarity=0.084 Sum_probs=37.1
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEe
Q 012490 207 ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (462)
Q Consensus 207 ~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (462)
.+.|.+.+++.+++.|+.....+.+....-.-+.+.++..++.+....
T Consensus 45 i~~L~~ri~~~~i~EVIlA~~pt~EGe~Ta~yi~~~l~~~~~kvsRlA 92 (112)
T cd01025 45 IDKLLERIAKGQVKEVILATNPTVEGEATALYIAKLLKDFGVKVTRLA 92 (112)
T ss_pred HHHHHHHHhcCCCcEEEEecCCCchHHHHHHHHHHHHhHcCCCeEEEE
Confidence 456666666678899999988888877777788888888788777643
No 207
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=20.17 E-value=7.4e+02 Score=23.38 Aligned_cols=72 Identities=13% Similarity=0.127 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEE
Q 012490 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 179 ~Fl~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
.|+.+-+..+++.++++|..+.+... +.. +.+.. +...+++.|+..... +.. ....++ .+.+.||++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~i~~-~~~~~~Dgiii~~~~-~~~--~~~~i~-~~~~~~iPvV~~ 86 (282)
T cd06318 12 PFFAALTEAAKAHAKALGYELISTDAQGDLTKQIADVED-LLTRGVNVLIINPVD-PEG--LVPAVA-AAKAAGVPVVVV 86 (282)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHH-HHHcCCCEEEEecCC-ccc--hHHHHH-HHHHCCCCEEEe
Confidence 56677778888999999999988753 332 23333 345688888875421 211 122333 345679999988
Q ss_pred eC
Q 012490 254 WG 255 (462)
Q Consensus 254 ~~ 255 (462)
+.
T Consensus 87 ~~ 88 (282)
T cd06318 87 DS 88 (282)
T ss_pred cC
Confidence 64
No 208
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=20.14 E-value=3.5e+02 Score=24.93 Aligned_cols=55 Identities=15% Similarity=0.176 Sum_probs=38.5
Q ss_pred CCcEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeC
Q 012490 196 GSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (462)
Q Consensus 196 Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (462)
|..|++-.-........++. .|+..|++...|..... ...+.|++.||+|+.+..
T Consensus 101 g~tLYvTlePC~~Ca~aI~~-~gI~rVvy~~~~~~~~~----~~~~~L~~~Gi~v~~~~~ 155 (168)
T PHA02588 101 GATMYVTASPCPDCAKAIAQ-SGIKKLVYCEKYDRNGP----GWDDILRKSGIEVIQIPK 155 (168)
T ss_pred CcEEEEeCCCcHHHHHHHHH-hCCCEEEEeeccCCCcH----HHHHHHHHCCCEEEEeCH
Confidence 66777766666666666665 69999999887765422 245677889999997643
No 209
>PF00535 Glycos_transf_2: Glycosyl transferase family 2; InterPro: IPR001173 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. This domain is found in a diverse family of glycosyl transferases that transfer the sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; PDB: 2Z87_A 2Z86_B 2D7R_A 2D7I_A 3CKN_A 3CKQ_A 3CKJ_A 3CKV_A 3CKO_A 2FFU_A ....
Probab=20.13 E-value=3.3e+02 Score=22.82 Aligned_cols=81 Identities=14% Similarity=0.154 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHHHhCCCcEEEEECChHHHHHHHHHHh---CCCEEEEeccCC-chHHHHHHHHHHHhhhcCCeEEEE
Q 012490 178 ASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAI---GADAVYAHREVS-HDEVKSEEKIEAAMKDEGIEVKYF 253 (462)
Q Consensus 178 ~~Fl~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~---~a~~V~~~~ey~-p~e~~rd~~v~~~l~~~gI~v~~~ 253 (462)
..+|.++|..|.++ ......++|......+...++++++ +..-.+.+.+-. .....+...++.+- |=-+...
T Consensus 10 ~~~l~~~l~sl~~q-~~~~~eiivvdd~s~d~~~~~~~~~~~~~~~i~~i~~~~n~g~~~~~n~~~~~a~---~~~i~~l 85 (169)
T PF00535_consen 10 AEYLERTLESLLKQ-TDPDFEIIVVDDGSTDETEEILEEYAESDPNIRYIRNPENLGFSAARNRGIKHAK---GEYILFL 85 (169)
T ss_dssp TTTHHHHHHHHHHH-SGCEEEEEEEECS-SSSHHHHHHHHHCCSTTEEEEEHCCCSHHHHHHHHHHHH-----SSEEEEE
T ss_pred HHHHHHHHHHHhhc-cCCCEEEEEeccccccccccccccccccccccccccccccccccccccccccccc---eeEEEEe
Confidence 46788888888877 5556677777654433333444443 344444444322 23333444444332 2245556
Q ss_pred eCCeeeeCC
Q 012490 254 WGSTLYHLD 262 (462)
Q Consensus 254 ~~~~L~~p~ 262 (462)
+++..++++
T Consensus 86 d~D~~~~~~ 94 (169)
T PF00535_consen 86 DDDDIISPD 94 (169)
T ss_dssp ETTEEE-TT
T ss_pred CCCceEcHH
Confidence 666766554
No 210
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=20.13 E-value=6e+02 Score=22.92 Aligned_cols=71 Identities=14% Similarity=0.219 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHh--CCCcEEEEECC-----hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEE
Q 012490 180 FLIESVSDLRKNLQA--RGSDLVVRVGK-----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 180 Fl~esL~~L~~~L~~--~Gi~L~v~~G~-----~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~ 252 (462)
|..+-+..++..+++ .|+.+.+.... ..+.+.+++.+ +++.|+..... ... ..+...+.+.||++..
T Consensus 14 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~~--~~~---~~~~~~~~~~~ip~v~ 87 (269)
T cd01391 14 FGAQLLAGIELAAEEIGRGLEVILADSQSDPERALEALRDLIQQ-GVDGIIGPPSS--SSA---LAVVELAAAAGIPVVS 87 (269)
T ss_pred HHHHHHHHHHHHHHHhCCceEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEecCCC--HHH---HHHHHHHHHcCCcEEE
Confidence 444445555566666 78888877542 23445555554 78888774432 111 1145566778999987
Q ss_pred EeCC
Q 012490 253 FWGS 256 (462)
Q Consensus 253 ~~~~ 256 (462)
+...
T Consensus 88 ~~~~ 91 (269)
T cd01391 88 LDAT 91 (269)
T ss_pred ecCC
Confidence 7543
No 211
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=20.01 E-value=5.3e+02 Score=24.80 Aligned_cols=68 Identities=12% Similarity=0.211 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHhC-----CCcEEEEECChHHHHHHHHHHhCCCEEEEe---ccCCchHHHHHHHHHHHhhhcCCeEEE
Q 012490 181 LIESVSDLRKNLQAR-----GSDLVVRVGKPETVLVELAKAIGADAVYAH---REVSHDEVKSEEKIEAAMKDEGIEVKY 252 (462)
Q Consensus 181 l~esL~~L~~~L~~~-----Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~---~ey~p~e~~rd~~v~~~l~~~gI~v~~ 252 (462)
+.+.|.+|.+.+++. +..+++.+ +.+..|++.+|+..+..- .+-+|.... -.++.+.+++.+|.+..
T Consensus 130 ~~~~L~~l~~~~~~~~~~~~~~~~v~~h----~~~~Y~~~~~gl~~~~~~~~~~~~~ps~~~-l~~l~~~ik~~~v~~i~ 204 (256)
T PF01297_consen 130 YLKELDELDAEIKEKLAKLPGRPVVVYH----DAFQYFAKRYGLKVIGVIEISPGEEPSPKD-LAELIKLIKENKVKCIF 204 (256)
T ss_dssp HHHHHHHHHHHHHHHHTTSSGGEEEEEE----STTHHHHHHTT-EEEEEESSSSSSSS-HHH-HHHHHHHHHHTT-SEEE
T ss_pred HHHHHHHHHHHHHHHhhcccCCeEEEEC----hHHHHHHHhcCCceeeeeccccccCCCHHH-HHHHHHHhhhcCCcEEE
Confidence 445566666655432 23444444 457789999999877655 223333333 34577788889998875
Q ss_pred E
Q 012490 253 F 253 (462)
Q Consensus 253 ~ 253 (462)
+
T Consensus 205 ~ 205 (256)
T PF01297_consen 205 T 205 (256)
T ss_dssp E
T ss_pred e
Confidence 4
Done!