Query 013801
Match_columns 436
No_of_seqs 129 out of 1254
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 07:32:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013801.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013801hhsearch_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 5.2E-52 1.1E-56 432.1 27.8 288 124-436 1-291 (429)
2 TIGR03556 photolyase_8HDF deox 100.0 7.3E-51 1.6E-55 427.6 27.5 283 125-436 2-289 (471)
3 COG0415 PhrB Deoxyribodipyrimi 100.0 6.9E-50 1.5E-54 411.1 24.0 273 124-436 2-276 (461)
4 TIGR02766 crypt_chrom_pln cryp 100.0 7.8E-49 1.7E-53 413.1 23.4 284 127-436 1-287 (475)
5 PRK10674 deoxyribodipyrimidine 100.0 6.1E-48 1.3E-52 405.6 26.5 272 126-436 4-283 (472)
6 TIGR00591 phr2 photolyase PhrI 100.0 5.5E-46 1.2E-50 389.5 25.1 279 116-436 15-303 (454)
7 PF00875 DNA_photolyase: DNA p 100.0 4.4E-37 9.6E-42 280.0 14.9 164 126-294 1-164 (165)
8 KOG0133 Deoxyribodipyrimidine 100.0 2.2E-32 4.7E-37 284.3 11.6 293 121-436 2-302 (531)
9 COG3046 Uncharacterized protei 99.8 1.4E-19 3.1E-24 180.3 18.5 284 124-436 2-311 (505)
10 PF03441 FAD_binding_7: FAD bi 99.6 2.7E-16 5.9E-21 155.1 2.5 82 338-436 1-82 (277)
11 PF04244 DPRP: Deoxyribodipyri 98.7 2.6E-08 5.7E-13 95.3 7.9 147 127-284 1-156 (224)
12 KOG0133 Deoxyribodipyrimidine 98.6 3.3E-09 7.2E-14 111.7 -1.2 397 16-436 69-474 (531)
13 PRK12652 putative monovalent c 91.6 1.9 4.2E-05 44.3 11.3 107 139-252 19-148 (357)
14 cd01994 Alpha_ANH_like_IV This 90.8 1.8 3.9E-05 40.6 9.5 96 140-251 14-118 (194)
15 TIGR00289 conserved hypothetic 90.8 1.6 3.6E-05 41.9 9.3 97 139-251 14-115 (222)
16 COG2102 Predicted ATPases of P 89.8 2.4 5.2E-05 40.6 9.3 98 139-251 14-116 (223)
17 TIGR00290 MJ0570_dom MJ0570-re 87.7 4.8 0.0001 38.7 10.1 97 139-251 14-115 (223)
18 PRK09982 universal stress prot 87.3 19 0.00041 31.3 13.2 112 139-252 17-136 (142)
19 cd00293 USP_Like Usp: Universa 86.5 11 0.00024 30.8 10.6 78 145-227 23-102 (130)
20 cd01988 Na_H_Antiporter_C The 86.1 10 0.00022 31.7 10.3 83 140-227 14-103 (132)
21 cd01989 STK_N The N-terminal d 83.9 16 0.00034 31.5 10.8 91 137-227 11-112 (146)
22 PF10087 DUF2325: Uncharacteri 83.0 7 0.00015 32.1 7.7 67 185-255 12-83 (97)
23 TIGR03679 arCOG00187 arCOG0018 82.4 12 0.00026 35.7 10.1 96 140-251 12-116 (218)
24 PRK15005 universal stress prot 81.8 25 0.00055 30.0 11.2 87 140-227 19-116 (144)
25 cd01987 USP_OKCHK USP domain i 80.5 23 0.00049 29.5 10.2 77 139-227 13-94 (124)
26 COG0299 PurN Folate-dependent 76.6 16 0.00036 34.4 8.6 99 138-254 39-140 (200)
27 PRK13015 3-dehydroquinate dehy 75.4 17 0.00037 32.6 8.0 71 189-263 36-109 (146)
28 TIGR01490 HAD-SF-IB-hyp1 HAD-s 75.2 19 0.00042 32.9 8.9 45 181-225 88-132 (202)
29 PRK10116 universal stress prot 75.0 52 0.0011 28.0 12.7 112 137-252 15-136 (142)
30 TIGR01088 aroQ 3-dehydroquinat 75.0 17 0.00037 32.4 7.9 75 185-263 26-107 (141)
31 PF01902 ATP_bind_4: ATP-bindi 73.9 4.3 9.3E-05 38.9 4.2 97 139-251 14-115 (218)
32 PRK10490 sensor protein KdpD; 73.9 32 0.00069 39.8 12.0 116 122-254 249-373 (895)
33 PRK15456 universal stress prot 73.2 45 0.00098 28.6 10.3 88 140-227 19-114 (142)
34 PF00582 Usp: Universal stress 70.8 50 0.0011 27.0 9.7 56 197-252 81-138 (140)
35 PRK15118 universal stress glob 69.9 70 0.0015 27.4 13.3 42 186-227 68-112 (144)
36 COG1139 Uncharacterized conser 69.2 14 0.00031 38.7 7.0 66 185-254 67-134 (459)
37 PF02571 CbiJ: Precorrin-6x re 67.8 25 0.00054 34.4 8.1 57 198-256 44-102 (249)
38 PRK08057 cobalt-precorrin-6x r 67.0 43 0.00094 32.7 9.6 48 206-255 53-100 (248)
39 PF00702 Hydrolase: haloacid d 66.9 17 0.00037 33.1 6.6 71 182-254 129-202 (215)
40 COG2217 ZntA Cation transport 66.3 17 0.00036 41.0 7.3 61 186-251 543-603 (713)
41 PRK05395 3-dehydroquinate dehy 64.6 68 0.0015 28.9 9.4 76 184-263 27-109 (146)
42 cd00466 DHQase_II Dehydroquina 63.2 70 0.0015 28.5 9.2 71 189-263 34-107 (140)
43 PF05368 NmrA: NmrA-like famil 62.8 33 0.00072 32.1 7.8 65 187-253 35-100 (233)
44 PF08218 Citrate_ly_lig: Citra 61.4 38 0.00083 31.5 7.5 102 143-252 20-142 (182)
45 PF01220 DHquinase_II: Dehydro 61.1 63 0.0014 28.8 8.6 77 183-263 25-108 (140)
46 PRK14010 potassium-transportin 60.5 35 0.00076 38.2 8.4 70 183-258 444-513 (673)
47 PRK14719 bifunctional RNAse/5- 60.2 23 0.00049 36.6 6.5 62 190-251 36-99 (360)
48 COG2205 KdpD Osmosensitive K+ 59.9 1.6E+02 0.0034 33.8 13.1 106 138-255 260-374 (890)
49 TIGR01497 kdpB K+-transporting 59.3 53 0.0012 36.8 9.6 64 182-250 448-511 (675)
50 PRK01122 potassium-transportin 57.8 42 0.00092 37.6 8.5 71 183-259 448-518 (679)
51 cd06279 PBP1_LacI_like_3 Ligan 56.6 74 0.0016 30.5 9.2 71 180-256 18-88 (283)
52 KOG0207 Cation transport ATPas 55.1 43 0.00093 38.5 7.9 59 190-253 733-791 (951)
53 TIGR00273 iron-sulfur cluster- 53.9 27 0.00057 37.0 5.9 66 184-253 52-119 (432)
54 cd06294 PBP1_ycjW_transcriptio 53.7 73 0.0016 29.9 8.5 71 180-256 18-92 (270)
55 PRK09590 celB cellobiose phosp 51.4 1.2E+02 0.0025 25.6 8.3 66 180-253 16-81 (104)
56 COG0560 SerB Phosphoserine pho 51.1 48 0.001 31.4 6.7 66 184-249 81-159 (212)
57 cd01427 HAD_like Haloacid deha 50.2 53 0.0011 26.8 6.2 48 180-227 24-75 (139)
58 cd06295 PBP1_CelR Ligand bindi 49.1 1.3E+02 0.0028 28.4 9.6 70 180-255 24-95 (275)
59 TIGR01525 ATPase-IB_hvy heavy 49.0 97 0.0021 33.7 9.5 50 181-232 385-435 (556)
60 TIGR00715 precor6x_red precorr 48.7 1.4E+02 0.003 29.3 9.7 46 207-254 54-99 (256)
61 TIGR01491 HAD-SF-IB-PSPlk HAD- 47.8 37 0.00081 30.7 5.3 42 183-224 83-124 (201)
62 PRK11175 universal stress prot 47.7 1.5E+02 0.0033 28.8 10.0 43 185-227 225-270 (305)
63 cd06297 PBP1_LacI_like_12 Liga 47.3 1.3E+02 0.0027 28.6 9.1 70 180-255 13-86 (269)
64 TIGR01488 HAD-SF-IB Haloacid D 47.3 25 0.00054 31.2 3.9 43 183-225 76-118 (177)
65 TIGR01512 ATPase-IB2_Cd heavy 47.1 71 0.0015 34.6 8.1 46 180-225 362-408 (536)
66 PF13727 CoA_binding_3: CoA-bi 46.6 38 0.00081 29.8 5.0 45 207-253 130-174 (175)
67 PRK10517 magnesium-transportin 46.3 98 0.0021 36.0 9.4 39 182-220 552-590 (902)
68 cd06277 PBP1_LacI_like_1 Ligan 46.2 1.4E+02 0.003 28.1 9.2 70 180-256 16-89 (268)
69 PRK15122 magnesium-transportin 46.2 90 0.0019 36.3 9.1 72 182-259 552-648 (903)
70 PF13167 GTP-bdg_N: GTP-bindin 44.9 1.5E+02 0.0032 24.6 7.8 52 182-233 7-72 (95)
71 TIGR01524 ATPase-IIIB_Mg magne 44.8 1E+02 0.0023 35.6 9.3 39 182-220 517-555 (867)
72 cd06547 GH85_ENGase Endo-beta- 44.4 1.3E+02 0.0027 30.9 8.9 103 127-255 37-149 (339)
73 PF06415 iPGM_N: BPG-independe 44.1 1.1E+02 0.0025 29.4 8.0 73 183-255 14-103 (223)
74 COG0589 UspA Universal stress 44.0 1.9E+02 0.0042 24.2 9.1 47 181-227 72-122 (154)
75 cd01545 PBP1_SalR Ligand-bindi 43.3 1.9E+02 0.0041 27.0 9.6 72 180-256 13-89 (270)
76 PRK09484 3-deoxy-D-manno-octul 42.9 70 0.0015 29.3 6.3 57 183-249 55-111 (183)
77 TIGR01647 ATPase-IIIA_H plasma 42.4 1E+02 0.0023 34.9 8.7 39 183-221 445-483 (755)
78 cd01542 PBP1_TreR_like Ligand- 42.0 2E+02 0.0043 26.7 9.5 69 180-255 13-86 (259)
79 cd06305 PBP1_methylthioribose_ 42.0 1.9E+02 0.0042 27.0 9.5 72 180-256 13-89 (273)
80 COG1412 Uncharacterized protei 41.7 83 0.0018 28.0 6.2 48 203-260 83-130 (136)
81 COG1609 PurR Transcriptional r 41.6 1.8E+02 0.004 29.2 9.6 72 179-256 71-146 (333)
82 cd06313 PBP1_ABC_sugar_binding 41.5 2.2E+02 0.0048 27.0 9.9 73 179-256 12-89 (272)
83 TIGR02199 rfaE_dom_II rfaE bif 41.4 1.2E+02 0.0026 26.8 7.3 107 132-254 20-128 (144)
84 cd01540 PBP1_arabinose_binding 41.0 2E+02 0.0044 27.2 9.6 72 180-256 13-88 (289)
85 cd06272 PBP1_hexuronate_repres 40.6 2.2E+02 0.0048 26.5 9.6 72 179-256 12-83 (261)
86 cd01018 ZntC Metal binding pro 39.4 2.2E+02 0.0047 27.7 9.5 73 176-253 145-223 (266)
87 cd06273 PBP1_GntR_like_1 This 39.1 2.3E+02 0.0049 26.5 9.4 69 180-255 13-86 (268)
88 cd06296 PBP1_CatR_like Ligand- 39.0 2.2E+02 0.0047 26.6 9.3 70 180-256 13-87 (270)
89 cd06267 PBP1_LacI_sugar_bindin 38.9 2.6E+02 0.0057 25.6 9.7 70 180-256 13-87 (264)
90 PF13419 HAD_2: Haloacid dehal 38.7 1.5E+02 0.0033 25.3 7.7 44 185-228 82-129 (176)
91 cd06542 GH18_EndoS-like Endo-b 38.6 3.6E+02 0.0077 25.7 11.7 52 178-229 46-115 (255)
92 cd06322 PBP1_ABC_sugar_binding 38.4 2.9E+02 0.0063 25.7 10.1 72 179-255 12-88 (267)
93 cd05565 PTS_IIB_lactose PTS_II 38.3 2.2E+02 0.0047 23.8 7.9 62 186-254 18-79 (99)
94 cd06271 PBP1_AglR_RafR_like Li 38.2 1.5E+02 0.0032 27.7 7.9 70 180-255 17-90 (268)
95 COG0656 ARA1 Aldo/keto reducta 38.0 1.3E+02 0.0029 29.9 7.7 45 206-252 144-188 (280)
96 PF12710 HAD: haloacid dehalog 37.7 75 0.0016 28.4 5.6 41 187-227 96-138 (192)
97 PF06574 FAD_syn: FAD syntheta 37.7 15 0.00032 33.3 0.8 75 180-254 59-144 (157)
98 cd01537 PBP1_Repressors_Sugar_ 37.2 2.9E+02 0.0062 25.2 9.7 71 180-256 13-88 (264)
99 cd06278 PBP1_LacI_like_2 Ligan 36.8 2.7E+02 0.0059 25.8 9.5 69 180-255 13-85 (266)
100 PLN02770 haloacid dehalogenase 36.7 1.2E+02 0.0026 29.0 7.2 34 185-218 113-146 (248)
101 TIGR01544 HAD-SF-IE haloacid d 36.6 62 0.0013 32.2 5.1 10 343-352 246-255 (277)
102 TIGR00338 serB phosphoserine p 36.5 52 0.0011 30.5 4.4 44 182-225 87-130 (219)
103 COG0757 AroQ 3-dehydroquinate 35.7 3.3E+02 0.0071 24.4 9.2 69 190-262 36-107 (146)
104 cd06299 PBP1_LacI_like_13 Liga 35.4 3E+02 0.0066 25.5 9.6 71 180-256 13-87 (265)
105 TIGR02990 ectoine_eutA ectoine 35.2 92 0.002 30.2 6.0 48 205-255 106-153 (239)
106 TIGR01670 YrbI-phosphatas 3-de 35.0 1.4E+02 0.003 26.5 6.7 54 189-248 37-90 (154)
107 cd06281 PBP1_LacI_like_5 Ligan 34.6 3.3E+02 0.0072 25.5 9.8 72 180-256 13-88 (269)
108 PRK10671 copA copper exporting 34.6 2E+02 0.0043 33.1 9.5 46 186-233 656-701 (834)
109 TIGR01511 ATPase-IB1_Cu copper 34.5 1.9E+02 0.0041 31.6 9.0 49 181-232 406-454 (562)
110 TIGR02634 xylF D-xylose ABC tr 34.1 3.7E+02 0.0081 26.1 10.4 73 179-256 11-88 (302)
111 TIGR03351 PhnX-like phosphonat 34.1 1.1E+02 0.0025 28.1 6.4 48 181-228 88-141 (220)
112 cd06309 PBP1_YtfQ_like Peripla 33.9 3.1E+02 0.0066 25.8 9.5 73 179-256 12-89 (273)
113 COG2179 Predicted hydrolase of 33.6 1.7E+02 0.0038 27.0 7.0 54 190-249 56-109 (175)
114 PF07476 MAAL_C: Methylasparta 33.4 67 0.0015 31.1 4.5 85 153-252 105-194 (248)
115 cd06285 PBP1_LacI_like_7 Ligan 33.3 3.6E+02 0.0078 25.1 9.8 71 180-256 13-87 (265)
116 PF00532 Peripla_BP_1: Peripla 33.0 2.9E+02 0.0062 26.9 9.2 71 180-256 15-88 (279)
117 PF13407 Peripla_BP_4: Peripla 32.9 3.2E+02 0.0069 25.4 9.3 72 180-256 12-89 (257)
118 PLN02954 phosphoserine phospha 32.7 70 0.0015 29.7 4.7 38 183-220 87-124 (224)
119 cd06312 PBP1_ABC_sugar_binding 32.7 3.5E+02 0.0077 25.4 9.7 73 179-256 13-91 (271)
120 cd06284 PBP1_LacI_like_6 Ligan 32.5 3.5E+02 0.0076 25.0 9.5 69 180-255 13-85 (267)
121 cd06292 PBP1_LacI_like_10 Liga 31.9 3E+02 0.0066 25.7 9.1 73 180-255 13-91 (273)
122 cd06301 PBP1_rhizopine_binding 31.8 3.8E+02 0.0082 25.0 9.7 72 180-256 13-90 (272)
123 TIGR00853 pts-lac PTS system, 31.5 2.9E+02 0.0063 22.6 8.5 61 186-253 21-81 (95)
124 PF08282 Hydrolase_3: haloacid 31.5 4E+02 0.0088 24.2 9.8 77 183-260 19-108 (254)
125 cd00008 53EXOc 5'-3' exonuclea 31.4 2.3E+02 0.0051 27.2 8.1 81 148-228 47-134 (240)
126 PRK11175 universal stress prot 31.3 4.9E+02 0.011 25.2 12.4 121 133-255 11-146 (305)
127 cd06323 PBP1_ribose_binding Pe 31.3 4.1E+02 0.0089 24.6 9.8 72 179-255 12-88 (268)
128 PF04900 Fcf1: Fcf1; InterPro 31.2 1.2E+02 0.0026 24.9 5.3 45 204-258 51-96 (101)
129 COG1358 RPL8A Ribosomal protei 31.2 1.7E+02 0.0037 25.2 6.3 46 208-255 33-78 (116)
130 cd06324 PBP1_ABC_sugar_binding 31.1 4.4E+02 0.0095 25.5 10.3 72 179-256 13-91 (305)
131 PF00535 Glycos_transf_2: Glyc 31.0 1.8E+02 0.0039 24.3 6.7 81 178-262 10-94 (169)
132 cd06320 PBP1_allose_binding Pe 30.8 4.3E+02 0.0094 24.7 10.0 71 180-255 13-90 (275)
133 COG2099 CobK Precorrin-6x redu 30.7 1.4E+02 0.0031 29.3 6.4 48 206-255 54-101 (257)
134 TIGR00268 conserved hypothetic 30.6 3.5E+02 0.0076 26.1 9.3 72 186-257 3-75 (252)
135 PRK05265 pyridoxine 5'-phospha 30.3 3.6E+02 0.0079 26.3 9.0 69 183-252 113-189 (239)
136 TIGR01481 ccpA catabolite cont 30.3 4.2E+02 0.0091 25.7 10.1 70 180-255 73-146 (329)
137 cd06287 PBP1_LacI_like_8 Ligan 29.8 2E+02 0.0042 27.5 7.4 74 173-255 14-87 (269)
138 cd01017 AdcA Metal binding pro 29.7 3.8E+02 0.0082 26.2 9.5 71 177-252 147-225 (282)
139 TIGR01454 AHBA_synth_RP 3-amin 29.6 96 0.0021 28.4 5.0 15 191-205 86-100 (205)
140 PRK13600 putative ribosomal pr 29.5 1.8E+02 0.004 23.6 5.8 33 218-253 29-61 (84)
141 KOG1014 17 beta-hydroxysteroid 29.5 1.9E+02 0.0042 29.3 7.2 63 186-250 63-129 (312)
142 cd05855 Ig_TrkB_d5 Fifth domai 29.1 30 0.00064 27.5 1.2 21 120-140 8-28 (79)
143 COG2185 Sbm Methylmalonyl-CoA 29.0 2.1E+02 0.0046 25.6 6.7 81 174-263 25-107 (143)
144 cd06318 PBP1_ABC_sugar_binding 29.0 4.9E+02 0.011 24.4 10.1 72 179-255 12-88 (282)
145 PRK10826 2-deoxyglucose-6-phos 29.0 77 0.0017 29.5 4.2 28 188-215 100-127 (222)
146 PRK10513 sugar phosphate phosp 28.9 4.2E+02 0.0091 25.2 9.5 69 191-259 31-116 (270)
147 PF13911 AhpC-TSA_2: AhpC/TSA 28.8 1.2E+02 0.0025 25.3 4.9 41 185-227 2-45 (115)
148 PRK02261 methylaspartate mutas 28.7 3.6E+02 0.0079 23.6 8.2 62 186-248 21-83 (137)
149 TIGR01522 ATPase-IIA2_Ca golgi 28.7 2.8E+02 0.0061 32.1 9.5 39 182-220 530-568 (884)
150 PF08765 Mor: Mor transcriptio 28.7 1.7E+02 0.0038 24.4 5.9 67 177-243 3-70 (108)
151 TIGR03333 salvage_mtnX 2-hydro 28.7 1E+02 0.0022 28.7 5.0 37 181-217 71-107 (214)
152 PF01261 AP_endonuc_2: Xylose 28.6 2.5E+02 0.0054 25.1 7.6 58 174-231 103-168 (213)
153 cd06300 PBP1_ABC_sugar_binding 28.6 4.2E+02 0.0092 24.7 9.5 73 179-256 12-94 (272)
154 cd04185 GT_2_like_b Subfamily 28.3 2.3E+02 0.0051 25.3 7.3 41 179-220 10-50 (202)
155 cd06270 PBP1_GalS_like Ligand 28.1 4.9E+02 0.011 24.2 9.8 70 180-256 13-87 (268)
156 TIGR02137 HSK-PSP phosphoserin 28.1 1.5E+02 0.0033 27.7 6.1 43 182-225 70-112 (203)
157 COG3053 CitC Citrate lyase syn 28.0 4.3E+02 0.0092 26.8 9.1 108 132-247 155-283 (352)
158 TIGR03190 benz_CoA_bzdN benzoy 28.0 1.3E+02 0.0029 30.9 6.2 52 206-257 301-353 (377)
159 TIGR00099 Cof-subfamily Cof su 27.5 5.3E+02 0.011 24.3 10.0 70 190-259 26-108 (256)
160 TIGR01545 YfhB_g-proteo haloac 27.5 1.4E+02 0.0031 27.9 5.8 26 191-216 106-131 (210)
161 PF00289 CPSase_L_chain: Carba 27.5 1.2E+02 0.0026 25.7 4.7 58 190-250 19-77 (110)
162 PRK13602 putative ribosomal pr 27.4 2E+02 0.0043 23.0 5.8 41 211-254 20-60 (82)
163 TIGR01428 HAD_type_II 2-haloal 27.4 1.2E+02 0.0025 27.6 5.1 35 184-218 96-130 (198)
164 PRK00074 guaA GMP synthase; Re 27.2 2.7E+02 0.0059 30.1 8.5 74 180-256 201-279 (511)
165 cd06283 PBP1_RegR_EndR_KdgR_li 27.2 4.8E+02 0.01 24.0 9.5 70 180-256 13-87 (267)
166 TIGR03674 fen_arch flap struct 27.1 1.8E+02 0.0039 29.6 6.8 13 338-350 244-256 (338)
167 cd01018 ZntC Metal binding pro 27.0 2.2E+02 0.0049 27.6 7.3 39 186-224 207-246 (266)
168 TIGR01517 ATPase-IIB_Ca plasma 27.0 2.5E+02 0.0055 32.7 8.8 73 182-260 581-680 (941)
169 PRK14987 gluconate operon tran 26.9 4.6E+02 0.0099 25.6 9.6 70 180-255 77-150 (331)
170 cd06274 PBP1_FruR Ligand bindi 26.8 5.1E+02 0.011 24.0 9.6 71 180-256 13-87 (264)
171 COG0552 FtsY Signal recognitio 26.6 4.8E+02 0.01 26.8 9.5 71 184-256 155-230 (340)
172 TIGR01656 Histidinol-ppas hist 26.4 2.6E+02 0.0056 24.3 7.0 25 181-205 28-52 (147)
173 PF01591 6PF2K: 6-phosphofruct 26.3 4.9E+02 0.011 24.9 9.2 67 175-242 74-145 (222)
174 PRK10530 pyridoxal phosphate ( 26.3 4.7E+02 0.01 24.8 9.4 67 191-257 31-111 (272)
175 cd06310 PBP1_ABC_sugar_binding 26.3 5.4E+02 0.012 24.0 10.1 72 179-255 12-90 (273)
176 PLN02347 GMP synthetase 26.3 3.1E+02 0.0066 30.0 8.7 77 179-256 213-293 (536)
177 cd06314 PBP1_tmGBP Periplasmic 26.1 5.3E+02 0.011 24.1 9.7 70 180-255 12-87 (271)
178 cd01575 PBP1_GntR Ligand-bindi 26.1 5.2E+02 0.011 23.8 10.0 69 180-255 13-86 (268)
179 PRK14976 5'-3' exonuclease; Pr 26.0 3.7E+02 0.0079 26.7 8.6 80 148-228 52-139 (281)
180 PRK08238 hypothetical protein; 25.9 2E+02 0.0043 30.9 7.1 66 182-248 74-142 (479)
181 cd01538 PBP1_ABC_xylose_bindin 25.8 4.7E+02 0.01 25.0 9.3 73 179-256 12-89 (288)
182 PRK11590 hypothetical protein; 25.7 1.7E+02 0.0036 27.2 5.9 37 190-226 106-145 (211)
183 PF08444 Gly_acyl_tr_C: Aralky 25.6 1E+02 0.0023 25.3 3.8 47 176-222 32-78 (89)
184 TIGR01449 PGP_bact 2-phosphogl 25.6 1.6E+02 0.0035 26.8 5.7 9 216-224 99-107 (213)
185 TIGR03590 PseG pseudaminic aci 25.6 1.8E+02 0.0039 28.5 6.4 62 189-256 46-112 (279)
186 PRK15408 autoinducer 2-binding 25.5 4.4E+02 0.0096 26.5 9.3 72 180-256 37-114 (336)
187 COG3622 Hfi Hydroxypyruvate is 25.4 5.3E+02 0.012 25.3 9.1 102 133-244 82-194 (260)
188 cd08181 PPD-like 1,3-propanedi 25.3 1.8E+02 0.004 29.6 6.6 76 176-252 5-88 (357)
189 PF02142 MGS: MGS-like domain 25.3 79 0.0017 25.6 3.2 42 210-251 52-94 (95)
190 cd01137 PsaA Metal binding pro 25.2 4.8E+02 0.01 25.7 9.4 71 177-252 151-231 (287)
191 cd01539 PBP1_GGBP Periplasmic 25.2 5.3E+02 0.011 25.0 9.6 72 180-256 13-91 (303)
192 PF04007 DUF354: Protein of un 25.2 6.2E+02 0.013 25.8 10.2 68 174-246 9-82 (335)
193 PRK09860 putative alcohol dehy 25.2 1.6E+02 0.0034 30.5 6.1 77 175-252 9-93 (383)
194 TIGR01548 HAD-SF-IA-hyp1 haloa 25.1 3.7E+02 0.008 24.3 8.0 34 187-220 113-146 (197)
195 cd01541 PBP1_AraR Ligand-bindi 25.0 5.7E+02 0.012 23.8 9.7 75 179-256 12-92 (273)
196 PRK15126 thiamin pyrimidine py 24.9 4.4E+02 0.0095 25.2 8.9 68 192-259 31-111 (272)
197 cd01536 PBP1_ABC_sugar_binding 24.8 5.4E+02 0.012 23.5 9.8 72 179-255 12-88 (267)
198 COG4231 Indolepyruvate ferredo 24.8 3E+02 0.0066 30.6 8.2 62 187-253 261-327 (640)
199 cd06291 PBP1_Qymf_like Ligand 24.4 4.8E+02 0.01 24.2 9.0 68 180-256 13-84 (265)
200 PRK11033 zntA zinc/cadmium/mer 24.1 3E+02 0.0065 31.2 8.5 48 183-233 571-618 (741)
201 PRK10355 xylF D-xylose transpo 24.0 5.6E+02 0.012 25.4 9.7 71 180-255 39-114 (330)
202 PRK10703 DNA-binding transcrip 23.7 4.5E+02 0.0099 25.7 9.0 69 180-255 73-147 (341)
203 cd00003 PNPsynthase Pyridoxine 23.6 5.4E+02 0.012 25.0 8.9 43 183-226 110-152 (234)
204 cd06319 PBP1_ABC_sugar_binding 23.6 6E+02 0.013 23.6 9.7 71 180-255 13-88 (277)
205 cd08185 Fe-ADH1 Iron-containin 23.5 1.8E+02 0.0039 29.9 6.1 76 176-252 5-88 (380)
206 TIGR01681 HAD-SF-IIIC HAD-supe 23.5 1.8E+02 0.0038 24.9 5.2 39 180-218 29-68 (128)
207 PRK06683 hypothetical protein; 23.4 2.7E+02 0.0058 22.3 5.8 40 212-254 21-60 (82)
208 PTZ00222 60S ribosomal protein 23.3 2.2E+02 0.0047 28.1 6.1 51 198-252 130-180 (263)
209 PRK08535 translation initiatio 23.3 5.6E+02 0.012 25.7 9.4 91 142-254 137-229 (310)
210 cd01574 PBP1_LacI Ligand-bindi 23.2 6E+02 0.013 23.5 9.4 70 180-256 13-88 (264)
211 TIGR01422 phosphonatase phosph 23.2 67 0.0015 30.6 2.7 33 184-216 103-135 (253)
212 PRK10124 putative UDP-glucose 23.2 5.5E+02 0.012 27.3 9.8 47 208-256 193-239 (463)
213 PRK13223 phosphoglycolate phos 23.1 2.3E+02 0.005 27.6 6.5 13 388-400 252-264 (272)
214 PF07085 DRTGG: DRTGG domain; 22.9 1.6E+02 0.0035 24.1 4.7 61 185-253 31-91 (105)
215 cd06317 PBP1_ABC_sugar_binding 22.6 5.8E+02 0.013 23.7 9.1 72 179-255 13-89 (275)
216 COG0546 Gph Predicted phosphat 22.5 96 0.0021 29.1 3.6 40 182-221 91-130 (220)
217 PLN02512 acetylglutamate kinas 22.4 4.7E+02 0.01 26.2 8.7 68 185-254 69-147 (309)
218 cd01391 Periplasmic_Binding_Pr 22.3 5.3E+02 0.011 23.0 8.6 70 180-255 14-90 (269)
219 COG1778 Low specificity phosph 22.2 3.4E+02 0.0075 24.9 6.7 54 191-250 46-99 (170)
220 TIGR01501 MthylAspMutase methy 22.1 5.5E+02 0.012 22.6 9.0 62 186-248 19-81 (134)
221 PRK09552 mtnX 2-hydroxy-3-keto 22.1 1.4E+02 0.0031 27.8 4.7 35 183-217 77-111 (219)
222 PRK05234 mgsA methylglyoxal sy 22.1 2.9E+02 0.0063 24.5 6.3 14 238-251 97-110 (142)
223 cd01422 MGS Methylglyoxal synt 22.0 3.2E+02 0.0068 23.1 6.4 43 210-252 62-106 (115)
224 PF12048 DUF3530: Protein of u 21.9 6E+02 0.013 25.4 9.4 130 121-251 84-250 (310)
225 cd01017 AdcA Metal binding pro 21.9 5.3E+02 0.012 25.1 8.9 19 210-228 212-230 (282)
226 TIGR01370 cysRS possible cyste 21.9 3.3E+02 0.0071 27.7 7.4 76 178-254 186-271 (315)
227 PRK10653 D-ribose transporter 21.9 7E+02 0.015 23.8 10.1 72 180-255 40-115 (295)
228 TIGR00559 pdxJ pyridoxine 5'-p 21.8 6.2E+02 0.013 24.7 8.9 43 183-226 110-152 (237)
229 COG0529 CysC Adenylylsulfate k 21.8 1.3E+02 0.0029 28.2 4.1 59 186-251 41-99 (197)
230 TIGR03590 PseG pseudaminic aci 21.7 4.8E+02 0.01 25.4 8.5 68 187-256 22-89 (279)
231 PF00107 ADH_zinc_N: Zinc-bind 21.6 3.2E+02 0.0069 22.6 6.4 53 192-251 10-62 (130)
232 cd06306 PBP1_TorT-like TorT-li 21.5 6.8E+02 0.015 23.5 10.2 70 180-255 13-89 (268)
233 TIGR00884 guaA_Cterm GMP synth 21.5 5.2E+02 0.011 26.0 8.8 73 180-256 2-80 (311)
234 COG1751 Uncharacterized conser 21.5 2.7E+02 0.0058 25.5 5.9 72 185-258 16-93 (186)
235 TIGR01662 HAD-SF-IIIA HAD-supe 21.5 2.5E+02 0.0055 23.5 5.8 42 179-220 24-73 (132)
236 cd08189 Fe-ADH5 Iron-containin 21.4 2.1E+02 0.0046 29.3 6.1 76 176-252 5-88 (374)
237 PRK09701 D-allose transporter 21.4 7.6E+02 0.016 24.0 10.3 72 180-256 38-116 (311)
238 PRK02090 phosphoadenosine phos 21.4 4.5E+02 0.0097 25.2 8.1 70 183-254 27-100 (241)
239 PF00578 AhpC-TSA: AhpC/TSA fa 21.3 2.4E+02 0.0051 23.1 5.5 51 175-226 39-90 (124)
240 cd06321 PBP1_ABC_sugar_binding 21.2 6.7E+02 0.015 23.3 9.6 72 180-255 13-90 (271)
241 PF02310 B12-binding: B12 bind 21.0 4.7E+02 0.01 21.4 9.3 62 184-246 16-78 (121)
242 PF01297 TroA: Periplasmic sol 21.0 5.3E+02 0.011 24.6 8.5 78 175-256 124-208 (256)
243 TIGR03191 benz_CoA_bzdO benzoy 20.9 2.3E+02 0.005 29.9 6.4 51 206-257 349-401 (430)
244 TIGR03023 WcaJ_sugtrans Undeca 20.8 6.4E+02 0.014 26.4 9.7 47 207-255 180-226 (451)
245 cd06315 PBP1_ABC_sugar_binding 20.7 7.3E+02 0.016 23.5 10.2 72 180-255 14-89 (280)
246 PRK10936 TMAO reductase system 20.7 7.9E+02 0.017 24.4 10.1 71 180-256 60-137 (343)
247 COG0299 PurN Folate-dependent 20.7 6.7E+02 0.015 23.8 8.6 56 202-257 34-89 (200)
248 cd02064 FAD_synthetase_N FAD s 20.2 3.7E+02 0.0081 24.4 6.9 69 185-253 58-136 (180)
249 cd01424 MGS_CPS_II Methylglyox 20.1 3.4E+02 0.0073 22.3 6.1 18 186-203 16-33 (110)
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=5.2e-52 Score=432.11 Aligned_cols=288 Identities=45% Similarity=0.825 Sum_probs=226.7
Q ss_pred CeEEEEEeCCCCccCcHHHHHHhhcCCceeeEEEeCCCCcCC-CCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEE
Q 013801 124 RASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGK-SSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVR 202 (436)
Q Consensus 124 ~~~LvWfRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~-~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~ 202 (436)
|.+|||||||||++||+||.+|++.+.+|+||||+||.++.. +..+....+++|+.|+++||.+|+++|+++|++|+|+
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 568999999999999999999998888999999999987652 1111223689999999999999999999999999999
Q ss_pred ECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCeeeeCCCCCCCCCCCCCChhhHHHHH
Q 013801 203 VGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKV 282 (436)
Q Consensus 203 ~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~Lv~p~~l~~~~g~~~~~ft~F~r~~ 282 (436)
.|++.++|.+|+++++|++||+|.+|+++++++|++|++.|.+.||.++.+++++|++++++++..|++|++|++|+++|
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-ccccccchhcccCCCCCCCCCCCCCCCCcccccCCchhhhhccCCCCCCCCCCccHHHHHHHHHHHHHH-HhcCCCC
Q 013801 283 KG-VEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAE-YQAQPPK 360 (436)
Q Consensus 283 ~~-l~~~~~~~~p~~l~~~p~~~~~~~~~ip~L~~l~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~-~l~~Y~~ 360 (436)
+. .+.+++++.|..+...+... ....+|+++++++... .......|+|||++|+++|++|+.+ ++.+|..
T Consensus 161 ~~~~~~~~~~~~p~~~~~~~~~~--~~~~~~~l~~~~~~~~------~~~~~~~~~gGe~~A~~~L~~Fl~~~~l~~Y~~ 232 (429)
T TIGR02765 161 EAKCSIRPPLPAPEKLPPLPSVD--DPGWIPTLEDLGEESS------EVDRGLPFVGGETAGLARLKEYFWSKDLKSYKE 232 (429)
T ss_pred HhhCCCCCCCCCcccCCCCcccc--cccCCCChhhcCCCcc------cccccCCcCchHHHHHHHHHHHHhhccHhhhhh
Confidence 75 23333333333222111100 0111344444433211 0011124899999999999999984 5777866
Q ss_pred CCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHHhhheeecccC
Q 013801 361 GNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFR 436 (436)
Q Consensus 361 ~~~~~~Rd~~~~~~~TS~LSPyL~fG~ISpR~V~~~v~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~eL~WREFyr 436 (436)
. ||.+++.++||+|||||+|||||||+|++++.+..... .......|+++||+|||||+
T Consensus 233 ~-----R~~~~~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~------------~~~~~~~~~~~eL~WRef~~ 291 (429)
T TIGR02765 233 T-----RNGMLGPDYSTKFSPWLALGCVSPRQIYEELQRYETER------------GANDSTYWVIFELLWRDYFR 291 (429)
T ss_pred c-----cCcccCCCCcCccCHHHhCCcccHHHHHHHHHHHHhhc------------ccCCCcHHHHHHHHHHHHHH
Confidence 3 77656678899999999999999999999997742210 01223457878999999984
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=7.3e-51 Score=427.63 Aligned_cols=283 Identities=26% Similarity=0.462 Sum_probs=228.4
Q ss_pred eEEEEEeCCCCccCcHHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEEC
Q 013801 125 ASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG 204 (436)
Q Consensus 125 ~~LvWfRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G 204 (436)
.+|||||||||++||+||.+|++.+.+|+||||+||.+...+ ..+.+|+.|+++||.+|+++|+++|++|+|+.|
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 589999999999999999999988889999999999876532 467899999999999999999999999999999
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCeeeeCCCCCCCCCCCCCChhhHHHHHhh
Q 013801 205 KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKG 284 (436)
Q Consensus 205 ~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~Lv~p~~l~~~~g~~~~~ft~F~r~~~~ 284 (436)
++.++|.+|+++++|++||++.+|++++++||++|++.|.+.||.++.+++++|++|+.+..+.|++|++|++|+++|..
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 99999999999999999999999999999999999999999999999999999999999988888999999999999887
Q ss_pred ccccccchhcccCCCCCCC-----CCCCCCCCCcccccCCchhhhhccCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCC
Q 013801 285 VEIRKTIEALDQLKGLPSR-----GDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPP 359 (436)
Q Consensus 285 l~~~~~~~~p~~l~~~p~~-----~~~~~~~ip~L~~l~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~ 359 (436)
.....+++.|..+...+.. ..+....+|.++++++.. .. ...|+|||++|+++|++|+.+++.+|.
T Consensus 157 ~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~------~~---~~~~~gGe~~A~~~L~~f~~~~l~~Y~ 227 (471)
T TIGR03556 157 LPKPTPVATPTELEGLTEAELEAAAPLGVIALPTAKDLGFDW------DG---DLILEPGETAAQARLEEFCDRAIADYQ 227 (471)
T ss_pred ccccCCCCCccccccCCccccccccccccccCCccccccccc------cc---ccCCCCcHHHHHHHHHHHHHHHHHHhh
Confidence 5433344444333221110 011122234444443321 11 124899999999999999999999998
Q ss_pred CCCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHHhhheeecccC
Q 013801 360 KGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFR 436 (436)
Q Consensus 360 ~~~~~~~Rd~~~~~~~TS~LSPyL~fG~ISpR~V~~~v~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~eL~WREFyr 436 (436)
.. ||. ++.++||+|||||+|||||+|+|++++.+...... +.....+.+.|+ +||+|||||+
T Consensus 228 ~~-----r~~-p~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~~--------~~~~~~~~~~f~-~eL~WRef~~ 289 (471)
T TIGR03556 228 EQ-----RNF-PALDGTSQLSPALKFGVIGIRTVWQATQEAHENSR--------SEEARNSIRTWQ-QELAWREFYQ 289 (471)
T ss_pred hc-----cCC-CCCCCCCCCChhhcCCcccHHHHHHHHHHHHhhcc--------cccccccHHHHH-HHHHHHHHHH
Confidence 74 664 77889999999999999999999999987543210 000123345665 8999999985
No 3
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=100.00 E-value=6.9e-50 Score=411.06 Aligned_cols=273 Identities=31% Similarity=0.540 Sum_probs=227.6
Q ss_pred CeEEEEEeCCCCccCcHHHHHHhhcCCc-eeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEE
Q 013801 124 RASIVWFRNDLRVHDNESLNTANNESVS-VLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVR 202 (436)
Q Consensus 124 ~~~LvWfRrDLRl~DN~AL~~A~~~~~~-vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~ 202 (436)
+.+|||||||||+.||.||.+|++.+.+ +++|||+++.+.. ..+++++.|+.++|++|+++|+++||+|+|.
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 6789999999999999999999998877 4699999998875 3689999999999999999999999999999
Q ss_pred ECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCeeeeCCCCCCCCCCCCCChhhHHHHH
Q 013801 203 VGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKV 282 (436)
Q Consensus 203 ~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~Lv~p~~l~~~~g~~~~~ft~F~r~~ 282 (436)
.|++..++.+++++.++++||+|.+|+.++..||..|+..|.+.||.++.|+++++++|..+.+..|++|++||+|++.|
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-ccccchhcccCCCCCCCCCCCCCCCCcccccCCchhhhhccCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCC
Q 013801 283 KGVE-IRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKG 361 (436)
Q Consensus 283 ~~l~-~~~~~~~p~~l~~~p~~~~~~~~~ip~L~~l~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~ 361 (436)
.... ..++.+.|..+..+... .. .+.. ..+ + .........|.+||++|+++|++||.+++.+|+..
T Consensus 155 ~~~~~~~~~~~~p~~~~~~~~~---~~--~~~~--~~~-P-----~~~~~~~~~~~~Ge~aA~~~l~~F~~~~l~~Y~~~ 221 (461)
T COG0415 155 RDRLRILRPVPAPDVLDALRDE---EP--PPEE--ISL-P-----DFSKFDVLLFTGGEKAALARLQDFLAEGLDDYERT 221 (461)
T ss_pred HHhcccCCCCCCcchhcccccc---cc--Cccc--ccC-C-----ccccccccCCCchHHHHHHHHHHHHHHHHHHHHHh
Confidence 8863 23444444332222110 00 0000 000 0 00011123689999999999999999999999874
Q ss_pred CCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHHhhheeecccC
Q 013801 362 NKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFR 436 (436)
Q Consensus 362 ~~~~~Rd~~~~~~~TS~LSPyL~fG~ISpR~V~~~v~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~eL~WREFyr 436 (436)
|| +|+.++||+|||||+||+||||+||+++.+.... .+.+..++++||+|||||+
T Consensus 222 -----Rd-~p~~~~TS~LSpyL~~G~IS~r~v~~~~~~~~~~--------------~~~~~~~~~~eL~WREFy~ 276 (461)
T COG0415 222 -----RD-FPALDGTSRLSPYLAFGVISPREVYAALLAAESD--------------AREGTAALINELIWREFYQ 276 (461)
T ss_pred -----cC-CcccccccccCHHHHcCCcCHHHHHHHHHHhhhc--------------ccchHHHHHHHHHHHHHHH
Confidence 77 7999999999999999999999999999987532 1334556669999999985
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=7.8e-49 Score=413.13 Aligned_cols=284 Identities=22% Similarity=0.343 Sum_probs=214.4
Q ss_pred EEEEeCCCCccCcHHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEE-CC
Q 013801 127 IVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV-GK 205 (436)
Q Consensus 127 LvWfRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~-G~ 205 (436)
|||||||||++||+||.+|++.+ +|+||||+||.++... ..+.+|..||++||.+|+++|+++|++|+|+. |+
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 69999999999999999999776 8999999999876431 34677888999999999999999999999985 89
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCeeeeCCCCCCCCCCCCCChhhHHHHHhhc
Q 013801 206 PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGV 285 (436)
Q Consensus 206 ~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~Lv~p~~l~~~~g~~~~~ft~F~r~~~~l 285 (436)
++++|.+|+++++|+.||+|.+|++++++||++|+++|++.||+++.+++++|++|+++..+.|++|++|++|+++|...
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 99999999999999999999999999999999999999999999999999999999999887889999999999998653
Q ss_pred ccc--ccchhcccCCCCCCCCCCCCCCCCcccccCCchhhhhccCCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCC
Q 013801 286 EIR--KTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKGNK 363 (436)
Q Consensus 286 ~~~--~~~~~p~~l~~~p~~~~~~~~~ip~L~~l~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~~~ 363 (436)
... .+.+.|..+. .. ....+.++++++.+........ .....|+|||++|+++|++|+.+++.+|.+.
T Consensus 155 ~~~~~~~~~~p~~~~---~~----~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~gGe~~A~~~L~~Fl~~~~~~Y~~~-- 224 (475)
T TIGR02766 155 PYDPESPLLPPKKII---SG----DVSKCSADDLGFEDDSEKGSNA-LLARAWSPGWSNADKALTEFINGPLLEYSKN-- 224 (475)
T ss_pred cCCCCCCCCCccccC---CC----ccccCChhhcCCCCcccccccc-cccccCCCccHHHHHHHHHHHHHHHHHHhhc--
Confidence 211 1122222111 00 0001112233332110000000 0112489999999999999999999999764
Q ss_pred CCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHHhhheeecccC
Q 013801 364 DGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFR 436 (436)
Q Consensus 364 ~~~Rd~~~~~~~TS~LSPyL~fG~ISpR~V~~~v~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~eL~WREFyr 436 (436)
||. ++.++||+|||||+|||||||+||+++.+....... +...+. +.+..+|++||+|||||+
T Consensus 225 ---Rd~-p~~~~tS~LSPyL~~G~ISpR~v~~~~~~~~~~~~~-----~~~~~~-~~s~~~f~~eL~WRef~~ 287 (475)
T TIGR02766 225 ---RKK-ADSATTSLLSPYLHFGEVSVRKVFHLVRMKQIAWAN-----EGNSAG-EESVNLFLRSIGLREYSR 287 (475)
T ss_pred ---CCC-CCCCCCCCCCcccccCcccHHHHHHHHHhhhhhhhh-----cccCCC-cccHHHHHHHHHHHHHHH
Confidence 674 667899999999999999999999999632100000 000001 223334458999999985
No 5
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=6.1e-48 Score=405.61 Aligned_cols=272 Identities=23% Similarity=0.376 Sum_probs=215.3
Q ss_pred EEEEEeCCCCccCcHHHHHHhhcC-CceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEEC
Q 013801 126 SIVWFRNDLRVHDNESLNTANNES-VSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG 204 (436)
Q Consensus 126 ~LvWfRrDLRl~DN~AL~~A~~~~-~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G 204 (436)
+|||||||||++||+||.+|++.+ .+|+||||+||..+.. ...|.+|+.||++||.+|+++|+++|++|+|+.|
T Consensus 4 ~l~WfRrDLRl~DN~aL~~A~~~~~~~vlpvyv~dp~~~~~-----~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g 78 (472)
T PRK10674 4 HLVWFRNDLRLHDNLALAAACRDPSARVLALFIATPAQWAA-----HDMAPRQAAFINAQLNALQIALAEKGIPLLFHEV 78 (472)
T ss_pred eEEEECCCCCcchHHHHHHHHhCCCCCEEEEEEECchhhcc-----CCCCHHHHHHHHHHHHHHHHHHHHcCCceEEEec
Confidence 599999999999999999999876 4799999999987643 2468999999999999999999999999999975
Q ss_pred ----ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCeeeeCCCCCCCCCCCCCChhhHHH
Q 013801 205 ----KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFRE 280 (436)
Q Consensus 205 ----~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~Lv~p~~l~~~~g~~~~~ft~F~r 280 (436)
++.++|.+|+++++|+.||++.+|++++++||++|+++|. ||.++.+++++|++++.+..+.|++|++||+|++
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 6999999999999999999999999999999999999996 8999999999999999999888899999999999
Q ss_pred HHhhcccc---ccchhcccCCCCCCCCCCCCCCCCcccccCCchhhhhccCCCCCCCCCCccHHHHHHHHHHHHHHHhcC
Q 013801 281 KVKGVEIR---KTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQ 357 (436)
Q Consensus 281 ~~~~l~~~---~~~~~p~~l~~~p~~~~~~~~~ip~L~~l~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~ 357 (436)
+|++.... ..++.|... +. .....+.+..+++... . .....|+|||++|+++|++|+.+++.+
T Consensus 157 ~~~~~~~~~~p~~~~~p~~~---~~----~~~~~~~~~~~~~~~~------~-~~~~~~~gGe~~A~~~L~~f~~~~l~~ 222 (472)
T PRK10674 157 AFLKRLREGDPECVPAPKVR---SS----GAIEPLPPIPFNYPQQ------S-FDTALFPVGEKAAIAQLRQFCQQGAGE 222 (472)
T ss_pred HHHHhhcccCCccCCCCccc---cc----cccCCCCcccccCccc------c-cccCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 99863321 111111110 00 0000111111221100 0 011248999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHHhhheeecccC
Q 013801 358 PPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFR 436 (436)
Q Consensus 358 Y~~~~~~~~Rd~~~~~~~TS~LSPyL~fG~ISpR~V~~~v~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~eL~WREFyr 436 (436)
|... || .++.++||+|||||+|||||+|+|++++.+...+.. ...+...|+ +||+|||||+
T Consensus 223 Y~~~-----r~-~p~~~~tS~LSPyL~~G~iS~r~v~~~~~~~~~~~~-----------~~~~~~~fl-~eL~WRef~~ 283 (472)
T PRK10674 223 YEQQ-----RD-FPAVDGTSRLSAYLATGVLSPRQCLHRLLAEQPQAL-----------DGGAGSVWL-NELIWREFYR 283 (472)
T ss_pred hccc-----cC-CCCccCCCCcChhhccCcCCHHHHHHHHHHHhhhhh-----------ccCchhHHH-HHHHHHHHHH
Confidence 9874 66 477889999999999999999999999987433210 012334677 8999999984
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=5.5e-46 Score=389.51 Aligned_cols=279 Identities=15% Similarity=0.127 Sum_probs=211.2
Q ss_pred CCCCCCCCCeEEEEEeCCCCccCcHHHHHHhh--c--CCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q 013801 116 PNNGAAIRRASIVWFRNDLRVHDNESLNTANN--E--SVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKN 191 (436)
Q Consensus 116 ~~~~~~~~~~~LvWfRrDLRl~DN~AL~~A~~--~--~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~ 191 (436)
|....+.+..+|||||||||++||+||++|++ . +.+|+||||+||.++. .+.+|..||++||.+|+++
T Consensus 15 ~~~~~~~~~~vL~WFRrDLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~--------~~~~r~~Fl~esL~~L~~~ 86 (454)
T TIGR00591 15 EKPDLRSSGVVVYWMSRDQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLA--------ATRRHYFFMLGGLDEVANE 86 (454)
T ss_pred CCccCCCCCeEEEEecCchhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCccc--------ccHHHHHHHHHHHHHHHHH
Confidence 43445777889999999999999999999975 2 6789999999998763 3789999999999999999
Q ss_pred HHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCeeeeCCCCCCCCCCC
Q 013801 192 LQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEM 271 (436)
Q Consensus 192 L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~Lv~p~~l~~~~g~~ 271 (436)
|+++|++|+|+.|++.++|.+|+++++|++||++.+|+++++++|+.|++.|++ +|.++.+++++|++++.+..+ .+
T Consensus 87 L~~~g~~L~v~~g~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~rd~~v~~~l~~-~i~~~~~~~~~l~p~~~~~~~--~~ 163 (454)
T TIGR00591 87 CERLIIPFHLLDGPPKELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLLPK-DVPFQQVDAHNVVPCWAASKK--LE 163 (454)
T ss_pred HHHcCCceEEeecChHHHHHHHHHHcCCCEEEEecccCcHHHHHHHHHHHHhcC-CCcEEEECCceEeeCcccCCc--ee
Confidence 999999999999999999999999999999999999999999999999999976 999999999999999887655 58
Q ss_pred CCChhhHHHHHhhccccccchh-cccCCCCCCCCCCCCC--CCCc-ccccCCchhhhhccCCCCCCCCC-CccHHHHHHH
Q 013801 272 PTNYGGFREKVKGVEIRKTIEA-LDQLKGLPSRGDVEPG--DIPS-LLDLGLSQSAAMSQGGKPAANSM-KGGETEALQR 346 (436)
Q Consensus 272 ~~~ft~F~r~~~~l~~~~~~~~-p~~l~~~p~~~~~~~~--~ip~-L~~l~~~~~~~~~~~~~~~~~~~-~gGe~~A~~~ 346 (436)
|++|++|++. ++... ..+.. +.. ...+......+. .++. ++.+++. ... ....| +|||++|+++
T Consensus 164 y~~ft~~~k~-~~~~~-~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~-~~~~~~~gGe~aA~~~ 232 (454)
T TIGR00591 164 YAARTIRGKI-RKLLP-EYLTEFPRV-LKHPSPLDLEAGPVDWDAVRDSLAVE-------RSV-EEVVWAKPGTTAGLIM 232 (454)
T ss_pred eeeecHHHHH-HHhCh-hhccccCCC-ccCCcccccccCcCCHHHHHHhccCc-------CCc-CCcCCCCCcHHHHHHH
Confidence 8899977775 43221 11110 000 000100000000 0000 0111110 001 11237 9999999999
Q ss_pred HHHHHHHHhcCCCCCCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHH
Q 013801 347 LKKFAAEYQAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLM 426 (436)
Q Consensus 347 L~~Fl~~~l~~Y~~~~~~~~Rd~~~~~~~TS~LSPyL~fG~ISpR~V~~~v~k~~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (436)
|++|+.+++.+|... ||. |+.++||+|||||+||+||||+|++++.+.... ...+...|+
T Consensus 233 L~~F~~~~l~~Y~~~-----Rn~-p~~~~tS~LSPyL~~G~IS~R~i~~~~~~~~~~-------------~~~~~~~fl- 292 (454)
T TIGR00591 233 LESFIEKRLCFFRTR-----RND-PNNDALSMLSPWLHFGQLSAQRAARAVERARGN-------------AGESVEFFE- 292 (454)
T ss_pred HHHHHHHHHHHHHHh-----cCC-cccccccccchHHhcCcccHHHHHHHHHHhccC-------------CchHHHHHH-
Confidence 999999999999874 775 777999999999999999999999998654210 012223455
Q ss_pred hhheee-cccC
Q 013801 427 FELLWR-DFFR 436 (436)
Q Consensus 427 ~eL~WR-EFyr 436 (436)
+||+|| |||+
T Consensus 293 ~EL~WR~ef~~ 303 (454)
T TIGR00591 293 EELVVRRELAD 303 (454)
T ss_pred HHHHHHHHHHh
Confidence 899999 7874
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=4.4e-37 Score=280.04 Aligned_cols=164 Identities=41% Similarity=0.648 Sum_probs=137.1
Q ss_pred EEEEEeCCCCccCcHHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEECC
Q 013801 126 SIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGK 205 (436)
Q Consensus 126 ~LvWfRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~ 205 (436)
+|||||||||++||+||++|++.+.+|+||||+||..... ...|++|+.|+++||.+|+++|+++|++|+++.|+
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 6999999999999999999999999999999999973211 03589999999999999999999999999999999
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCeeeeCCCCCCCCCCCCCChhhHHHHHhhc
Q 013801 206 PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGV 285 (436)
Q Consensus 206 ~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~Lv~p~~l~~~~g~~~~~ft~F~r~~~~l 285 (436)
+.++|.+|+++++|++||++++|+++++++|++|++.|.+.||.++.+++++|+++++++++.|++|++||+|+++|++.
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 99999999999999999999999999999999999999999999999999999999999989999999999999999985
Q ss_pred cccccchhc
Q 013801 286 EIRKTIEAL 294 (436)
Q Consensus 286 ~~~~~~~~p 294 (436)
..++|+++|
T Consensus 156 ~~~~p~p~p 164 (165)
T PF00875_consen 156 LLEEPLPAP 164 (165)
T ss_dssp CSC------
T ss_pred CCCCCCCCC
Confidence 444555544
No 8
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=99.97 E-value=2.2e-32 Score=284.33 Aligned_cols=293 Identities=27% Similarity=0.379 Sum_probs=215.3
Q ss_pred CCCCeEEEEEeCCCCccCcHHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEE
Q 013801 121 AIRRASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLV 200 (436)
Q Consensus 121 ~~~~~~LvWfRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~ 200 (436)
+.+..+|+|||+|||++||+||.+|.+.+.++.||||+||+..+. ...|..|++||.++|++|+++|++.|++|.
T Consensus 2 ~~~~~~v~wfr~~lR~~dnpal~~a~~~~~~~~~v~i~d~~~~~~-----~~~g~~~~~~l~qsL~~ld~sl~~l~~~L~ 76 (531)
T KOG0133|consen 2 ATGSKSVHWFRKGLRLHDNPALLAAAAGKEPVRPVFILDPEEAGS-----SNVGRNRWRFLLQSLEDLDQSLRELNSRLF 76 (531)
T ss_pred CCccceEEecccCcccccChhhHHHhccCCCceeEEEeCHhHhhc-----cccchhHHHHHHHHHHHHHHHHHHhCCceE
Confidence 456789999999999999999988888778999999999988764 367899999999999999999999999999
Q ss_pred EEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCeeeeCCCCCC-CCCCCCCChhhHH
Q 013801 201 VRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPF-KLGEMPTNYGGFR 279 (436)
Q Consensus 201 v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~Lv~p~~l~~-~~g~~~~~ft~F~ 279 (436)
+++|.+..+|..+.++.+++.|.++-.++|+.+.+|..++..+.+.|+.+....+++++.++.+.. ..|+++..|..|+
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 999999999999999999999999999999999999999999999999999999999999888754 3678888999999
Q ss_pred HHHhhccccccchhcccCCCCCCCCC----CC-CCCCCcccccCCchhhhhccCCCCCCCCCCccHHHHHHHHHHHHHHH
Q 013801 280 EKVKGVEIRKTIEALDQLKGLPSRGD----VE-PGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEY 354 (436)
Q Consensus 280 r~~~~l~~~~~~~~p~~l~~~p~~~~----~~-~~~ip~L~~l~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~ 354 (436)
.....+...+.-..+..-...+.... .. ...+|+++.+.+.+. . .....|.+|++.|..+|+.|+...
T Consensus 157 ~~~~~~~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~------~-~~~~~~~~g~s~al~~l~~~l~~~ 229 (531)
T KOG0133|consen 157 GVCQSMSAPKIPALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPS------N-YGEVVWRGGESEALKRLDAHLKVP 229 (531)
T ss_pred ccccccccccccccccccccCCCChhhhhhcccccccCCchhhccCcc------c-ccccccCCcccchhHHHHHHhhHH
Confidence 87766432110000000000111000 00 113456666655442 1 112248999999999999999987
Q ss_pred hcCCCCCCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHH--HHHHHhhhhcccccCCCCCCCCCCcchHHHHhhheee
Q 013801 355 QAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFD--ELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWR 432 (436)
Q Consensus 355 l~~Y~~~~~~~~Rd~~~~~~~TS~LSPyL~fG~ISpR~V~~--~v~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~eL~WR 432 (436)
+-.++....+..++.+ ....++.|||||+|||+|+|.+++ .+.+...+. .++ ....++.+..||+||
T Consensus 230 ~~~an~~~~~~~~~~~-~~~s~~~Ls~yL~fg~~svr~~~~~~~~k~V~~~~----~~~------s~~~es~~~~qv~Wr 298 (531)
T KOG0133|consen 230 LWVANLELRYSNANSR-VKISTTVLSPYLKFGCLSVRYFYRCVRLKQVKWKA----KKN------SLPPESLFLGQVAWR 298 (531)
T ss_pred HHHhhhhccccccchh-cCCCccccccceeeccceeEeehhHhHHHHHHHhh----hcc------cCCccccccceeeee
Confidence 5444433222224432 224566999999999999999995 222221111 111 122233456999999
Q ss_pred cccC
Q 013801 433 DFFR 436 (436)
Q Consensus 433 EFyr 436 (436)
|||+
T Consensus 299 e~~y 302 (531)
T KOG0133|consen 299 EFFY 302 (531)
T ss_pred chhh
Confidence 9985
No 9
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=99.83 E-value=1.4e-19 Score=180.34 Aligned_cols=284 Identities=16% Similarity=0.178 Sum_probs=192.0
Q ss_pred CeEEEEEeCCCCccCcHHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEE
Q 013801 124 RASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV 203 (436)
Q Consensus 124 ~~~LvWfRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~ 203 (436)
..+++|.--|.-.+++.||.. + ..-..|.+.+...+. ++...++++..++..+|+++.+.|+..|..+.+..
T Consensus 2 ~~~~~lvLgdQL~~~~~al~~---d-~~~~~vllvE~~~~a----~~~r~HkqKl~lv~aAMR~Fad~LraeG~~V~Y~~ 73 (505)
T COG3046 2 MSSVVLVLGDQLSEDHSALGD---D-RSQDGVLLVESAAEA----RYRRHHKQKLVLVFAAMRHFADELRAEGLKVRYER 73 (505)
T ss_pred CceEEEEeccccccccchhcc---C-cccCcEEEehhHhHh----hhhhcchhhhHHHHHHHHHHHHHHhhCCceeEEEE
Confidence 457899999999999999875 1 122334444433221 12345789999999999999999999999997765
Q ss_pred CC---hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCC-eeeeCCCCC-CCCCCCCCChhhH
Q 013801 204 GK---PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS-TLYHLDDLP-FKLGEMPTNYGGF 278 (436)
Q Consensus 204 G~---~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~-~Lv~p~~l~-~~~g~~~~~ft~F 278 (436)
-+ -...|...++.++++.|++.+ |.+.+.+.++++.--..||++..+.+. .|.++.++. +..++++-.+..|
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 33 356678888999999999965 566666777776655789999998876 788888876 3344555677889
Q ss_pred HHHHhh----cccc-ccchhc-----ccCCCC------CCCCCCCCCCCC-cccccCCchhhhhc-cCCCCCCCCCCccH
Q 013801 279 REKVKG----VEIR-KTIEAL-----DQLKGL------PSRGDVEPGDIP-SLLDLGLSQSAAMS-QGGKPAANSMKGGE 340 (436)
Q Consensus 279 ~r~~~~----l~~~-~~~~~p-----~~l~~~------p~~~~~~~~~ip-~L~~l~~~~~~~~~-~~~~~~~~~~~gGe 340 (436)
|+.+++ +|.. +|.+.- ++-++. |++..+++.++. .+.+- + +..|+ .-+....+.|+.+.
T Consensus 151 Yr~mRkr~g~LM~~dqP~GGrWnFDaeNR~~~~pdL~~P~pl~fppd~~vq~v~e~-V--e~~f~~~~G~~e~F~wpvtr 227 (505)
T COG3046 151 YRRMRKRTGILMEDDQPEGGRWNFDAENRKKLPPDLLPPKPLKFPPDEIVQEVKER-V--ERLFPDNFGQVEGFGWPVTR 227 (505)
T ss_pred HHHHHHhhceeccCCCCCCCcCCcCcccccCCCCcCCCCCCCCCCCcchhHHHHHH-H--HhhCCCCCCccccCCCCCCH
Confidence 998877 3332 222210 011111 111111111110 10000 0 00111 12333345799999
Q ss_pred HHHHHHHHHHHHHHhcCCC---CCCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCC
Q 013801 341 TEALQRLKKFAAEYQAQPP---KGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGS 417 (436)
Q Consensus 341 ~~A~~~L~~Fl~~~l~~Y~---~~~~~~~Rd~~~~~~~TS~LSPyL~fG~ISpR~V~~~v~k~~~~~~~~~~~~~~~~~~ 417 (436)
++|...|++||..++.++. +... +++ + -.+||.||+|||.|.|+|++|++++.++++...+ +
T Consensus 228 ~~A~~~L~~Fi~~~L~nFG~yQDam~---~d~-~-~L~HSllS~alNigLL~PleVi~Aa~~Ay~~g~i----------p 292 (505)
T COG3046 228 TQALRALKHFIADRLPNFGSYQDAMS---ADD-P-HLWHSLLSFALNIGLLTPLEVIRAALKAYREGDI----------P 292 (505)
T ss_pred HHHHHHHHHHHHHhhhcCCcHHHHHh---cCC-c-hhHHHHHHHHhhccCCCHHHHHHHHHHhhccCCC----------c
Confidence 9999999999999987654 3322 221 1 2679999999999999999999999998775322 4
Q ss_pred CCcchHHHHhhheeecccC
Q 013801 418 SGAGSNWLMFELLWRDFFR 436 (436)
Q Consensus 418 ~~~~~~~~~~eL~WREFyr 436 (436)
.++.++|+|+.|+||||+|
T Consensus 293 LN~VEGFvRQiiGWREfmR 311 (505)
T COG3046 293 LNSVEGFVRQIIGWREFMR 311 (505)
T ss_pred hHHHHHHHHHHhhHHHHHH
Confidence 5788999999999999986
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=99.60 E-value=2.7e-16 Score=155.08 Aligned_cols=82 Identities=37% Similarity=0.701 Sum_probs=62.8
Q ss_pred ccHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCC
Q 013801 338 GGETEALQRLKKFAAEYQAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGS 417 (436)
Q Consensus 338 gGe~~A~~~L~~Fl~~~l~~Y~~~~~~~~Rd~~~~~~~TS~LSPyL~fG~ISpR~V~~~v~k~~~~~~~~~~~~~~~~~~ 417 (436)
|||++|+++|++||++++..|... ||. ++.++||+|||||+|||||||+|++++.+...... .
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 675 67889999999999999999999999998765100 0
Q ss_pred CCcchHHHHhhheeecccC
Q 013801 418 SGAGSNWLMFELLWRDFFR 436 (436)
Q Consensus 418 ~~~~~~~~~~eL~WREFyr 436 (436)
...+.+.|++||+|||||+
T Consensus 64 ~~~~~~~f~~eL~WRef~~ 82 (277)
T PF03441_consen 64 HSESAEKFIRELIWREFYR 82 (277)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred ccchHHHHHHHHHHHHHHH
Confidence 0134455669999999984
No 11
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=98.73 E-value=2.6e-08 Score=95.32 Aligned_cols=147 Identities=13% Similarity=0.154 Sum_probs=87.8
Q ss_pred EEEEeCCCCccCcHHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEEC--
Q 013801 127 IVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG-- 204 (436)
Q Consensus 127 LvWfRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G-- 204 (436)
|+|.--|.-..++++|.. ...+ ..|++.+...+. ++...+.+|+.+++.+|+++.+.|+++|..+.++.-
T Consensus 1 L~lIlgdQL~~~~~~l~~-~~~~---~~v~mvE~~~~~----~~~~~HkqKl~l~~saMRhfa~~L~~~G~~V~Y~~~~~ 72 (224)
T PF04244_consen 1 LRLILGDQLFEDHPALRD-DPAD---DRVLMVEVPEEF----TYVPHHKQKLVLFFSAMRHFADELRAKGFRVHYIELDD 72 (224)
T ss_dssp EEE--TT---TT-HHHHT--TTT----EEEEE--HHHH----HSS---HHHHHHHHHHHHHHHHHHHHTT--EEEE-TT-
T ss_pred CeEeccCCCCCccccccc-CCCC---CEEEEEEchHHh----CcCcccHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCCC
Confidence 577778888899999966 3333 356666543332 123568999999999999999999999999999863
Q ss_pred -----ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCe-eeeCCCCC-CCCCCCCCChhh
Q 013801 205 -----KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGST-LYHLDDLP-FKLGEMPTNYGG 277 (436)
Q Consensus 205 -----~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~-Lv~p~~l~-~~~g~~~~~ft~ 277 (436)
+-.+.|.+++++++++.|.+. +|.+.+.+++|.++|++.||++..+++.. |.+++++. +-.|+....+..
T Consensus 73 ~~~~~s~~~~L~~~~~~~~~~~~~~~---~P~d~~l~~~l~~~~~~~~i~~~~~~~~~Fl~s~~~f~~~~~~~k~~~Me~ 149 (224)
T PF04244_consen 73 PENTQSFEDALARALKQHGIDRLHVM---EPGDYRLEQRLESLAQQLGIPLEVLEDPHFLTSREEFAEWFEGRKRLRMEY 149 (224)
T ss_dssp TT--SSHHHHHHHHHHHH----EEEE-----S-HHHHHHHHH----SSS-EEEE--TTSSS-HHHHHHHHTT-SS--HHH
T ss_pred ccccccHHHHHHHHHHHcCCCEEEEE---CCCCHHHHHHHHhhhcccCCceEEeCCCCccCCHHHHHHHHccCCceeHHH
Confidence 346889899999999999995 57888899999999999999999998774 55655543 334555667889
Q ss_pred HHHHHhh
Q 013801 278 FREKVKG 284 (436)
Q Consensus 278 F~r~~~~ 284 (436)
||+.+++
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 12
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=98.65 E-value=3.3e-09 Score=111.66 Aligned_cols=397 Identities=20% Similarity=0.107 Sum_probs=227.2
Q ss_pred ccccCccccccCCCccceeeeeeecccccCCCccccCCCcccc----ccCCCCCCcCCcccccceeeeeccCCCCCCCcc
Q 013801 16 NEEQNPLATIPSQSPFATLSLSFSLPQVLPANTFFIQPKISTL----FSHQPNKVKVPTQASTLTHISLSASSTLSPSKI 91 (436)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (436)
.+.+.+|.++-+. |. .+|+..+ .|.+...+ +++++.+++.+++.+.++|++++.-++-+.---
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 ccccccccCCCCCCCCCCCCCCCCCCCCCCCCCeEEEEEeCCCCccCcHHHHHHhhcCCceeeEEEeCCCCcCCCC--CC
Q 013801 92 SFKSTLSANPLQSPLSLGPHRPLDPNNGAAIRRASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSS--SG 169 (436)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LvWfRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~--~~ 169 (436)
.++..+.+|+.+.+++..+.+...++-.+..+. .++|+..+++.++|.....++....+++..+.+++..++..- +|
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 777789999999999999999999998877777 999999999999999988888777888889999887775432 45
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCc
Q 013801 170 FDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIE 249 (436)
Q Consensus 170 ~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~ 249 (436)
+..+..+.-.|+... .+..+++..+....++.+.....|...++...++..+.+......++..+......-.+.++.
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 555555555666655 557778888888888877777788888888777877776533223332222222221111233
Q ss_pred EEEeeCCeeeeCCCCCCCCCCCCCChhhHHHHHhhccccccchhcccCCCCCCCCCCCCCCCCcccccCCchh--hhhcc
Q 013801 250 VKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQS--AAMSQ 327 (436)
Q Consensus 250 v~~~~~~~Lv~p~~l~~~~g~~~~~ft~F~r~~~~l~~~~~~~~p~~l~~~p~~~~~~~~~ip~L~~l~~~~~--~~~~~ 327 (436)
-...|....++.........+++.+..-+.-.|.+ ..+...+.-.....+|..+.+....+++.=+++.... ..|
T Consensus 293 ~qv~Wre~~y~~~~n~p~~~~m~~n~~~~~ipw~~-n~~~~~aw~~G~tG~P~ida~m~~l~~~gw~h~~~R~~vasf-- 369 (531)
T KOG0133|consen 293 GQVAWREFFYTAAFNTPYFDDMPGNKILLQIPWDK-NPPKLAAWLEGLTGYPWLDAGMRQLLASGWEHHRSRTIVASF-- 369 (531)
T ss_pred ceeeeechhhHhhcCCccccccccccccccCCccc-ChhhhHHHHcCCCCCCchhHHHHHHHHHHHHhcccchhhHhH--
Confidence 33445555554433211111222111101000111 0000001111122222211000000000000010000 000
Q ss_pred CCCCCCCCCCccHHHHHHHHHHHHHHHhcCCCCCCCC-CCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcc
Q 013801 328 GGKPAANSMKGGETEALQRLKKFAAEYQAQPPKGNKD-GNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISA 406 (436)
Q Consensus 328 ~~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~~~~-~~Rd~~~~~~~TS~LSPyL~fG~ISpR~V~~~v~k~~~~~~~ 406 (436)
.+ ......+.+++++.+.+|+.+.=..-+.+.-. .+-++..+..+-..-||.+--|-++|+-.|.+...-.-....
T Consensus 370 ~t---r~~L~i~w~eg~~~F~~~llD~D~~~~agnW~~~S~~s~f~~~~~~~ysp~~~~kk~dP~g~yir~~lp~l~~~p 446 (531)
T KOG0133|consen 370 LT---RGDLLISWREGLDVFMEYLLDADSSKNAGNWMWLSSTSHFFDQFDRVYSPVALGKKLDPDGLYIRQWLPELRSGP 446 (531)
T ss_pred hh---ccceeeeHHHHHHHHHHHhcchhhhcCCCccceeccccccccccccccCHHHHhCcCCcchhhHHHHhHHHhcCC
Confidence 00 11345778899999888886531100000000 000111233445578999999999999999876532211000
Q ss_pred cccCCCCCCCCCCcchHHHHhhheeecccC
Q 013801 407 ASKWNDGESGSSGAGSNWLMFELLWRDFFR 436 (436)
Q Consensus 407 ~~~~~~~~~~~~~~~~~~~~~eL~WREFyr 436 (436)
..-.. .......+..+...+++|++|.+
T Consensus 447 ~~~i~--~pW~~p~~~~~~~~~~lg~~Yp~ 474 (531)
T KOG0133|consen 447 MHFIY--EPWAAPEGVQTAAGELLGVDYPK 474 (531)
T ss_pred cceec--cCCCCcHHHhhhhhhhhhcccch
Confidence 00000 00012234457778999999864
No 13
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=91.57 E-value=1.9 Score=44.32 Aligned_cols=107 Identities=16% Similarity=0.138 Sum_probs=67.5
Q ss_pred cHHHHHHhh----c--CCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh------CCCeEEEEE---
Q 013801 139 NESLNTANN----E--SVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQA------RGSDLVVRV--- 203 (436)
Q Consensus 139 N~AL~~A~~----~--~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~------~Gi~L~v~~--- 203 (436)
..|+.+|++ . +..|..|||.+...... ....-..---+-+...++.+++ .|+......
T Consensus 19 ~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~-------~~~~~~~~~eelle~~~~~~~~~l~~~~~gV~ve~~vv~~ 91 (357)
T PRK12652 19 RQTVAYAVESAEEAAETPTVHLVAAASGRAVDP-------EGQDELAAAEELLERVEVWATEDLGDDASSVTIETALLGT 91 (357)
T ss_pred HHHHHHHHHHHHhcCCCCEEEEEEEecCccccc-------chhHHHHHHHHHHHHHHHHHHHhhhcccCCCceEEEEEec
Confidence 346666653 1 35788899988643221 0110001111234444444443 477764433
Q ss_pred -------CChHHHHHHHHHHhCCCEEEEeccCCchHH-HHHHHHHHHHHhcCCcEEE
Q 013801 204 -------GKPETVLVELAKAIGADAVYAHREVSHDEV-KSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 204 -------G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~-~rd~~l~~~l~~~gI~v~~ 252 (436)
|++.+.|.+.+++++++.|++..+|.|... .+-+-++..|.+.|+.+..
T Consensus 92 ~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 (357)
T PRK12652 92 DEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAPMLQPLERELARAGITYEE 148 (357)
T ss_pred cccccCCCCHHHHHHHHHHHcCCCEEEECCCCCCCCCCcccchHHHHHHhcCCceec
Confidence 899999999999999999999999998863 3345566677777887763
No 14
>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=90.79 E-value=1.8 Score=40.57 Aligned_cols=96 Identities=21% Similarity=0.188 Sum_probs=60.7
Q ss_pred HHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEE--CC---hHHHH----
Q 013801 140 ESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV--GK---PETVL---- 210 (436)
Q Consensus 140 ~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~--G~---~~~~L---- 210 (436)
.+|+.|.+.+..|+++++..+.... +..|....+..+++..+.+|+++++.. ++ ..+.+
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 4677777778788999987664321 111333355667777788999998875 22 22333
Q ss_pred HHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEE
Q 013801 211 VELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 211 ~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~ 251 (436)
.++.++ |++.|++-.-..-+.+.| +++.|.+.|++..
T Consensus 82 ~~~~~~-g~~~vv~G~i~sd~~~~~---~e~~~~~~gl~~~ 118 (194)
T cd01994 82 RKLKEE-GVDAVVFGAILSEYQRTR---VERVCERLGLEPL 118 (194)
T ss_pred HHHHHc-CCCEEEECccccHHHHHH---HHHHHHHcCCEEE
Confidence 333344 688888877665555544 4556777788775
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=90.77 E-value=1.6 Score=41.86 Aligned_cols=97 Identities=14% Similarity=0.069 Sum_probs=64.9
Q ss_pred cHHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEE--CC---hHHHHHHH
Q 013801 139 NESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV--GK---PETVLVEL 213 (436)
Q Consensus 139 N~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~--G~---~~~~L~~L 213 (436)
.-||+.|.+. ..|++++..-+...+ +..|....+..++..-+..|++|+... |. ..+.+.+.
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 4577788776 577888887664321 233444456667777788999998765 32 34445555
Q ss_pred HHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEE
Q 013801 214 AKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 214 ~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~ 251 (436)
+++.|++.|++-.=...+.+.| +++.|++.|+...
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 6778999999987666565544 4556777788775
No 16
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=89.80 E-value=2.4 Score=40.58 Aligned_cols=98 Identities=19% Similarity=0.148 Sum_probs=68.3
Q ss_pred cHHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEE--C---ChHHHHHHH
Q 013801 139 NESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV--G---KPETVLVEL 213 (436)
Q Consensus 139 N~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~--G---~~~~~L~~L 213 (436)
+.||+.|.+.|..|.++.++-|...+ .+.|..-++.-....=+..|++++... | .-.+.|.++
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 78999999999899999998875532 122333333334444456799988765 3 245667777
Q ss_pred HHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEE
Q 013801 214 AKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 214 ~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~ 251 (436)
++..+++.|++-.-+..|.+.|- +..|++.|+.+.
T Consensus 82 l~~l~~d~iv~GaI~s~yqk~rv---e~lc~~lGl~~~ 116 (223)
T COG2102 82 LRRLKVDGIVAGAIASEYQKERV---ERLCEELGLKVY 116 (223)
T ss_pred HHhCcccEEEEchhhhHHHHHHH---HHHHHHhCCEEe
Confidence 88899999999888777777554 455667788775
No 17
>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=87.72 E-value=4.8 Score=38.68 Aligned_cols=97 Identities=15% Similarity=0.077 Sum_probs=62.4
Q ss_pred cHHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEE-----CChHHHHHHH
Q 013801 139 NESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV-----GKPETVLVEL 213 (436)
Q Consensus 139 N~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~-----G~~~~~L~~L 213 (436)
+.||+.|.++ ..|+++..+-+.... +..|..-.+.-++.+=+..|++|+... ++..+.+.++
T Consensus 14 ~~al~~a~~~-~~v~~L~t~~~~~~~------------s~~~H~~~~~~~~~qA~algipl~~~~~~~~~e~~~e~l~~~ 80 (223)
T TIGR00290 14 CLALYHALKE-HEVISLVNIMPENEE------------SYMFHGVNAHLTDLQAESIGIPLIKLYTEGTEEDEVEELKGI 80 (223)
T ss_pred HHHHHHHHHh-CeeEEEEEEecCCCC------------cccccccCHHHHHHHHHHcCCCeEEeecCCCccHHHHHHHHH
Confidence 4688888887 667777666554321 222322233444555567899997644 2355667777
Q ss_pred HHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEE
Q 013801 214 AKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 214 ~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~ 251 (436)
+++.|++.|++-.-...+.+.| ++..|++.|+...
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 7888999999987666565544 4556677788775
No 18
>PRK09982 universal stress protein UspD; Provisional
Probab=87.34 E-value=19 Score=31.32 Aligned_cols=112 Identities=11% Similarity=-0.011 Sum_probs=62.4
Q ss_pred cHHHHHHh----hcCCceeeEEEeCCCCcCCCCCCCCCCCHHHH----HHHHHHHHHHHHHHHhCCCeEEEEECChHHHH
Q 013801 139 NESLNTAN----NESVSVLPVYCFDPRDYGKSSSGFDKTGPYRA----SFLIESVSDLRKNLQARGSDLVVRVGKPETVL 210 (436)
Q Consensus 139 N~AL~~A~----~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~----~FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L 210 (436)
..||.+|. +.+..+..++|.++...... ..+........ ....+.|.++.+.+...++...+..|++.+.|
T Consensus 17 ~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~G~p~~~I 95 (142)
T PRK09982 17 ALLVNKALELARHNDAHLTLIHIDDGLSELYP-GIYFPATEDILQLLKNKSDNKLYKLTKNIQWPKTKLRIERGEMPETL 95 (142)
T ss_pred HHHHHHHHHHHHHhCCeEEEEEEccCcchhch-hhhccchHHHHHHHHHHHHHHHHHHHHhcCCCcceEEEEecCHHHHH
Confidence 45666665 34567888999875321100 00000001111 12223355555555445677788889999999
Q ss_pred HHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEE
Q 013801 211 VELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 211 ~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~ 252 (436)
.+.+++.+++-|++-.. .....+.--.-.+.++...+++-.
T Consensus 96 ~~~A~~~~aDLIVmG~~-~~~~~~~~~va~~V~~~s~~pVLv 136 (142)
T PRK09982 96 LEIMQKEQCDLLVCGHH-HSFINRLMPAYRGMINKMSADLLI 136 (142)
T ss_pred HHHHHHcCCCEEEEeCC-hhHHHHHHHHHHHHHhcCCCCEEE
Confidence 99999999999999754 212111212223345556666653
No 19
>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=86.51 E-value=11 Score=30.78 Aligned_cols=78 Identities=18% Similarity=0.240 Sum_probs=51.7
Q ss_pred HhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEE--EECChHHHHHHHHHHhCCCEE
Q 013801 145 ANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVV--RVGKPETVLVELAKAIGADAV 222 (436)
Q Consensus 145 A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v--~~G~~~~~L~~L~~~~~a~~V 222 (436)
|...+.++..+||.++..... .........-..+.|..+...++..|+++.+ ..|++.+.|.+.+++.+++.|
T Consensus 23 a~~~~~~i~~l~v~~~~~~~~-----~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlv 97 (130)
T cd00293 23 ARRLGAELVLLHVVDPPPSSA-----AELAELLEEEARALLEALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLI 97 (130)
T ss_pred HHhcCCEEEEEEEecCCCCcc-----hhHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEE
Confidence 334567888999987643210 0001122234456777777777777887744 568888999999999999999
Q ss_pred EEecc
Q 013801 223 YAHRE 227 (436)
Q Consensus 223 ~~~~e 227 (436)
+....
T Consensus 98 vig~~ 102 (130)
T cd00293 98 VMGSR 102 (130)
T ss_pred EEcCC
Confidence 88653
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=86.05 E-value=10 Score=31.74 Aligned_cols=83 Identities=10% Similarity=0.052 Sum_probs=55.2
Q ss_pred HHHHHHhh----cCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEE---ECChHHHHHH
Q 013801 140 ESLNTANN----ESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVR---VGKPETVLVE 212 (436)
Q Consensus 140 ~AL~~A~~----~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~---~G~~~~~L~~ 212 (436)
.+|.+|.. .+..+..++++++...... ........-..+.+..+.+.+++.|++.... .|++.+.|.+
T Consensus 14 ~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~~ 88 (132)
T cd01988 14 DLLELAAALARAQNGEIIPLNVIEVPNHSSP-----SQLEVNVQRARKLLRQAERIAASLGVPVHTIIRIDHDIASGILR 88 (132)
T ss_pred HHHHHHHHHhhcCCCeEEEEEEEecCCCCCc-----chhHHHHHHHHHHHHHHHHHhhhcCCceEEEEEecCCHHHHHHH
Confidence 45655543 4567889999886432110 0011223345567777777788888886543 3788899999
Q ss_pred HHHHhCCCEEEEecc
Q 013801 213 LAKAIGADAVYAHRE 227 (436)
Q Consensus 213 L~~~~~a~~V~~~~e 227 (436)
++++++++.|++-..
T Consensus 89 ~a~~~~~dlIV~G~~ 103 (132)
T cd01988 89 TAKERQADLIIMGWH 103 (132)
T ss_pred HHHhcCCCEEEEecC
Confidence 999999999988765
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=83.87 E-value=16 Score=31.52 Aligned_cols=91 Identities=18% Similarity=0.095 Sum_probs=52.5
Q ss_pred cCcHHHHHHhh----cCCceeeEEEeCCCCcCCCCCCCCCCCH----HHHHHHHHHHHHHHHHHHhCCCeE--EEEEC-C
Q 013801 137 HDNESLNTANN----ESVSVLPVYCFDPRDYGKSSSGFDKTGP----YRASFLIESVSDLRKNLQARGSDL--VVRVG-K 205 (436)
Q Consensus 137 ~DN~AL~~A~~----~~~~vl~vyi~dp~~~~~~~~~~~~~~~----~r~~FL~esL~~L~~~L~~~Gi~L--~v~~G-~ 205 (436)
.-..||..|.+ .+..+..+|+.++..+.....+-..... ....-..+-|+.+.+.+++.|+.. ++..| +
T Consensus 11 ~s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~g~~ 90 (146)
T cd01989 11 KSKNALKWALDNLATKGQTIVLVHVHPPITSIPSSSGKLEVASAYKQEEDKEAKELLLPYRCFCSRKGVQCEDVVLEDDD 90 (146)
T ss_pred ccHHHHHHHHHhccCCCCcEEEEEeccCcccCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCeEEEEEEeCCc
Confidence 33456666654 3567889999886433211000000000 001122334455555666667654 44555 8
Q ss_pred hHHHHHHHHHHhCCCEEEEecc
Q 013801 206 PETVLVELAKAIGADAVYAHRE 227 (436)
Q Consensus 206 ~~~~L~~L~~~~~a~~V~~~~e 227 (436)
+.+.|.+.+++.+++.|++-..
T Consensus 91 ~~~~I~~~a~~~~~dlIV~Gs~ 112 (146)
T cd01989 91 VAKAIVEYVADHGITKLVMGAS 112 (146)
T ss_pred HHHHHHHHHHHcCCCEEEEecc
Confidence 8999999999999999988754
No 22
>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=83.00 E-value=7 Score=32.13 Aligned_cols=67 Identities=22% Similarity=0.259 Sum_probs=47.4
Q ss_pred HHHHHHHHHhCCCeEEEE---ECChHHH--HHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 185 VSDLRKNLQARGSDLVVR---VGKPETV--LVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~---~G~~~~~--L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
...+++.+++.|..+.+. .|..... |...++ +++.|++-.++-.... -..+++.|++.|+++.+..+
T Consensus 12 ~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~--~aD~VIv~t~~vsH~~--~~~vk~~akk~~ip~~~~~~ 83 (97)
T PF10087_consen 12 ERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIK--KADLVIVFTDYVSHNA--MWKVKKAAKKYGIPIIYSRS 83 (97)
T ss_pred HHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcC--CCCEEEEEeCCcChHH--HHHHHHHHHHcCCcEEEECC
Confidence 467888899999999998 3333333 666655 5788877666644433 35688899999999987653
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=82.44 E-value=12 Score=35.67 Aligned_cols=96 Identities=21% Similarity=0.171 Sum_probs=55.7
Q ss_pred HHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEECC-----hHHHHH---
Q 013801 140 ESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGK-----PETVLV--- 211 (436)
Q Consensus 140 ~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~-----~~~~L~--- 211 (436)
.+++.|.+.+..|++++.+.+..... ..+....+..++...+..|+++++..-+ ..+.+.
T Consensus 12 ~al~~a~~~G~~v~~l~~~~~~~~~~------------~~~~~~~~~~~~~~A~~lgip~~~i~~~~~~~~~~~~l~~~l 79 (218)
T TIGR03679 12 YALYKALEEGHEVRCLITVVPENEES------------YMFHTPNIELTRLQAEALGIPLVKIETSGEKEKEVEDLKGAL 79 (218)
T ss_pred HHHHHHHHcCCEEEEEEEeccCCCCc------------cccCCCCHHHHHHHHHHhCCCEEEEECCCCChHHHHHHHHHH
Confidence 46677777776777776665532110 0011123455566667889999887632 222233
Q ss_pred -HHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEE
Q 013801 212 -ELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 212 -~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~ 251 (436)
++.++ |++.|++-.-..-+.+ .++.+.|.+.|+++.
T Consensus 80 ~~~~~~-g~~~vv~G~i~sd~~~---~~~e~v~~~~gl~~~ 116 (218)
T TIGR03679 80 KELKRE-GVEGIVTGAIASRYQK---SRIERICEELGLKVF 116 (218)
T ss_pred HHHHHc-CCCEEEECCcccHhHH---HHHHHHHHhCCCeEE
Confidence 33333 8999988765554433 444566777788775
No 24
>PRK15005 universal stress protein F; Provisional
Probab=81.75 E-value=25 Score=30.03 Aligned_cols=87 Identities=18% Similarity=0.221 Sum_probs=50.3
Q ss_pred HHHHHHh----hcCCceeeEEEeCCCCcCCCCCCCC--CCCHHHH---HHHHHHHHHHHHHHHhCCC--eEEEEECChHH
Q 013801 140 ESLNTAN----NESVSVLPVYCFDPRDYGKSSSGFD--KTGPYRA---SFLIESVSDLRKNLQARGS--DLVVRVGKPET 208 (436)
Q Consensus 140 ~AL~~A~----~~~~~vl~vyi~dp~~~~~~~~~~~--~~~~~r~---~FL~esL~~L~~~L~~~Gi--~L~v~~G~~~~ 208 (436)
.+|.+|. ..+..+..++|+++...... .++. ....... .-..+.|..+.+.+...|. ..++..|++.+
T Consensus 19 ~a~~~a~~la~~~~~~l~ll~v~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v~~G~p~~ 97 (144)
T PRK15005 19 RVISHVEAEAKIDDAEVHFLTVIPSLPYYAS-LGLAYSAELPAMDDLKAEAKSQLEEIIKKFKLPTDRVHVHVEEGSPKD 97 (144)
T ss_pred HHHHHHHHHHhccCCeEEEEEEEccCccccc-ccccccccchHHHHHHHHHHHHHHHHHHHhCCCCCceEEEEeCCCHHH
Confidence 4555554 34567888889875322100 0000 0011111 1122344444444544443 56777899999
Q ss_pred HHHHHHHHhCCCEEEEecc
Q 013801 209 VLVELAKAIGADAVYAHRE 227 (436)
Q Consensus 209 ~L~~L~~~~~a~~V~~~~e 227 (436)
.|.+.+++.+++-|++-..
T Consensus 98 ~I~~~a~~~~~DLIV~Gs~ 116 (144)
T PRK15005 98 RILELAKKIPADMIIIASH 116 (144)
T ss_pred HHHHHHHHcCCCEEEEeCC
Confidence 9999999999999998754
No 25
>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=80.46 E-value=23 Score=29.54 Aligned_cols=77 Identities=13% Similarity=0.161 Sum_probs=50.6
Q ss_pred cHHHHHHh----hcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEE-CChHHHHHHH
Q 013801 139 NESLNTAN----NESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV-GKPETVLVEL 213 (436)
Q Consensus 139 N~AL~~A~----~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~-G~~~~~L~~L 213 (436)
..+|..|+ ..+..+..|+|.++.... ...... +-|..+.+..++.|++..+.. |++.+.|.+.
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 345678889998764311 111211 334555566667788775554 6788999999
Q ss_pred HHHhCCCEEEEecc
Q 013801 214 AKAIGADAVYAHRE 227 (436)
Q Consensus 214 ~~~~~a~~V~~~~e 227 (436)
+++++++.|++-..
T Consensus 81 ~~~~~~dllviG~~ 94 (124)
T cd01987 81 AREHNVTQIVVGKS 94 (124)
T ss_pred HHHcCCCEEEeCCC
Confidence 99999999988664
No 26
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=76.64 E-value=16 Score=34.36 Aligned_cols=99 Identities=23% Similarity=0.314 Sum_probs=71.1
Q ss_pred CcHHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHh
Q 013801 138 DNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAI 217 (436)
Q Consensus 138 DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~ 217 (436)
|-.+|..|.+.+ +|.++++++.+. .|..|= .++-+.|++.+.+|+++-|-..-.=.+++..+
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 457888888777 677888887653 244443 56777888999999999998766666888888
Q ss_pred CCCEEEEeccCCchH---HHHHHHHHHHHHhcCCcEEEee
Q 013801 218 GADAVYAHREVSHDE---VKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 218 ~a~~V~~~~e~~p~~---~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
.-..|-.|-.+.|.- ..-++.++.-.+..|+.++.++
T Consensus 101 ~grIlNIHPSLLP~f~G~h~~~~A~~aG~k~sG~TVH~V~ 140 (200)
T COG0299 101 EGRILNIHPSLLPAFPGLHAHEQALEAGVKVSGCTVHFVT 140 (200)
T ss_pred hcceEecCcccccCCCCchHHHHHHHcCCCccCcEEEEEc
Confidence 777777777665442 3335566666666788888765
No 27
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=75.38 E-value=17 Score=32.62 Aligned_cols=71 Identities=17% Similarity=0.179 Sum_probs=48.4
Q ss_pred HHHHHhCCCeEEEEECChHHHHHHHHHHh--CCCEEEEec-cCCchHHHHHHHHHHHHHhcCCcEEEeeCCeeeeCCC
Q 013801 189 RKNLQARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDD 263 (436)
Q Consensus 189 ~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~--~a~~V~~~~-e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~Lv~p~~ 263 (436)
++.-++.|+.+.++..+.+..|.+.+.+. +++.|+.|- .|+.+.. .++++++..++++..++-..++..+.
T Consensus 36 ~~~a~~~g~~~~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtSi----Al~DAl~~~~~P~VEVHiSNi~aRE~ 109 (146)
T PRK13015 36 RAAAEALGLEVEFRQSNHEGELIDWIHEARGDVAGIVINPGAYTHTSV----AIRDALAALELPVIEVHISNVHAREA 109 (146)
T ss_pred HHHHHHcCCEEEEEeeCcHHHHHHHHHHhhhcCCEEEEcchHHhhhHH----HHHHHHHcCCCCEEEEEcCCcccccc
Confidence 33344569999999877776666666543 467888875 4455555 56667777899999887666665443
No 28
>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=75.17 E-value=19 Score=32.87 Aligned_cols=45 Identities=22% Similarity=0.313 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEe
Q 013801 181 LIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (436)
Q Consensus 181 L~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~ 225 (436)
++..+.++-+.|++.|..+.+..+.....+..+++..|++.++++
T Consensus 88 ~~~~~~~~l~~l~~~g~~v~ivS~s~~~~v~~~~~~lg~~~~~~~ 132 (202)
T TIGR01490 88 LYPEARDLIRWHKAEGHTIVLVSASLTILVKPLARILGIDNAIGT 132 (202)
T ss_pred ccHHHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHcCCcceEec
Confidence 455677777788999999999999998999999999999988766
No 29
>PRK10116 universal stress protein UspC; Provisional
Probab=75.04 E-value=52 Score=28.04 Aligned_cols=112 Identities=13% Similarity=0.079 Sum_probs=60.1
Q ss_pred cCcHHHHHHhh----cCCceeeEEEeCCCCcCCCCCCCCCC--CHHHHHHHHHHHHHHHHHHHhCCCe---EEEEECChH
Q 013801 137 HDNESLNTANN----ESVSVLPVYCFDPRDYGKSSSGFDKT--GPYRASFLIESVSDLRKNLQARGSD---LVVRVGKPE 207 (436)
Q Consensus 137 ~DN~AL~~A~~----~~~~vl~vyi~dp~~~~~~~~~~~~~--~~~r~~FL~esL~~L~~~L~~~Gi~---L~v~~G~~~ 207 (436)
....+|.+|.. .+..+..++++++..... ++... ...+....-+..+.|++...+.|++ ..+..|++.
T Consensus 15 ~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~G~~~ 91 (142)
T PRK10116 15 ESQQLLAKAVSIARPVNGKISLITLASDPEMYN---QFAAPMLEDLRSVMQEETQSFLDKLIQDADYPIEKTFIAYGELS 91 (142)
T ss_pred chHHHHHHHHHHHHHhCCEEEEEEEccCcccch---hhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEecCCHH
Confidence 44678877753 356777788876532110 00000 0111112222223344334455654 455679999
Q ss_pred HHHHHHHHHhCCCEEEEeccCCchHHHHHHHH-HHHHHhcCCcEEE
Q 013801 208 TVLVELAKAIGADAVYAHREVSHDEVKSEEKI-EAAMKDEGIEVKY 252 (436)
Q Consensus 208 ~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l-~~~l~~~gI~v~~ 252 (436)
+.|.+.+++.+++-|++...-. ....+.-.+ .+.+.+.++++-.
T Consensus 92 ~~I~~~a~~~~~DLiV~g~~~~-~~~~~~~s~a~~v~~~~~~pVLv 136 (142)
T PRK10116 92 EHILEVCRKHHFDLVICGNHNH-SFFSRASCSAKRVIASSEVDVLL 136 (142)
T ss_pred HHHHHHHHHhCCCEEEEcCCcc-hHHHHHHHHHHHHHhcCCCCEEE
Confidence 9999999999999999966432 222221122 3345556666654
No 30
>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=75.00 E-value=17 Score=32.38 Aligned_cols=75 Identities=12% Similarity=0.171 Sum_probs=51.4
Q ss_pred HHHHHHHHH----hCCCeEEEEECChHHHHHHHHHHh--CCCEEEEec-cCCchHHHHHHHHHHHHHhcCCcEEEeeCCe
Q 013801 185 VSDLRKNLQ----ARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGST 257 (436)
Q Consensus 185 L~~L~~~L~----~~Gi~L~v~~G~~~~~L~~L~~~~--~a~~V~~~~-e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~ 257 (436)
|.++.+.|+ +.|+.+.++..+.+..|.+.+.+. +++.|+.|. .|+.+.+ .+++++..-++++..++-..
T Consensus 26 l~di~~~~~~~a~~~g~~v~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtSi----Al~DAl~~~~~P~vEVHiSN 101 (141)
T TIGR01088 26 LEEIVEIIETFAAQLNVELEFFQSNSEGQLIDKIHEAEGQYDGIIINPGALTHTSV----ALRDALAAVSLPVVEVHLSN 101 (141)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhccccCCEEEEcChHHhhhHH----HHHHHHHcCCCCEEEEEcCC
Confidence 344444444 569999999888777777777653 367788875 4555555 56677777899999887666
Q ss_pred eeeCCC
Q 013801 258 LYHLDD 263 (436)
Q Consensus 258 Lv~p~~ 263 (436)
++..+.
T Consensus 102 i~aRE~ 107 (141)
T TIGR01088 102 VHAREE 107 (141)
T ss_pred cccccc
Confidence 665543
No 31
>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=73.92 E-value=4.3 Score=38.88 Aligned_cols=97 Identities=18% Similarity=0.080 Sum_probs=51.9
Q ss_pred cHHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEE-----CChHHHHHHH
Q 013801 139 NESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV-----GKPETVLVEL 213 (436)
Q Consensus 139 N~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~-----G~~~~~L~~L 213 (436)
.-||+.|.++ ..|.++..+-+.... +..|..-.+.-++.+-+..|++|+... .+..+.+.+.
T Consensus 14 ~lAl~~a~~~-~~v~~L~t~~~~~~~------------s~~~H~~~~~~~~~qA~algipl~~~~~~g~~~~~~~~l~~~ 80 (218)
T PF01902_consen 14 CLALYRALRQ-HEVVCLLTMVPEEED------------SYMFHGVNIELIEAQAEALGIPLIEIPTSGDEEDYVEDLKEA 80 (218)
T ss_dssp HHHHHHHHHT--EEEEEEEEEESTTT-------------SSS-STTGTCHHHHHHHHT--EEEEEE---CCCHHHHHHHH
T ss_pred HHHHHHHHHh-CCccEEEEeccCCCC------------cccccccCHHHHHHHHHHCCCCEEEEEccCccchhhHHHHHH
Confidence 3578888887 677776655443221 111111112233344456799998764 3345677777
Q ss_pred HHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEE
Q 013801 214 AKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 214 ~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~ 251 (436)
+++.++++|++-.=..-+.+. .+++.|.+.|+++.
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 888899999887755444443 45666777888875
No 32
>PRK10490 sensor protein KdpD; Provisional
Probab=73.90 E-value=32 Score=39.82 Aligned_cols=116 Identities=13% Similarity=0.134 Sum_probs=69.6
Q ss_pred CCCeEEEEEeCCCCccCcHHHHH-----HhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCC
Q 013801 122 IRRASIVWFRNDLRVHDNESLNT-----ANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARG 196 (436)
Q Consensus 122 ~~~~~LvWfRrDLRl~DN~AL~~-----A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~G 196 (436)
.+...||=.--+ ..+..|.. |.+.+.++++|||-++..-. .......-+.+.++ |.+ ++|
T Consensus 249 ~~eriLV~v~~~---~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~~--------~~~~~~~~l~~~~~-lA~---~lG 313 (895)
T PRK10490 249 TRDAILLCIGHN---TGSEKLVRTAARLAARLGSVWHAVYVETPRLHR--------LPEKKRRAILSALR-LAQ---ELG 313 (895)
T ss_pred cCCeEEEEECCC---cchHHHHHHHHHHHHhcCCCEEEEEEecCCcCc--------CCHHHHHHHHHHHH-HHH---HcC
Confidence 344456555543 44555543 33446789999998764311 12233333444442 444 459
Q ss_pred CeEEEEEC-ChHHHHHHHHHHhCCCEEEEeccCCchHH---HHHHHHHHHHHhcCCcEEEee
Q 013801 197 SDLVVRVG-KPETVLVELAKAIGADAVYAHREVSHDEV---KSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 197 i~L~v~~G-~~~~~L~~L~~~~~a~~V~~~~e~~p~~~---~rd~~l~~~l~~~gI~v~~~~ 254 (436)
..++.+.| +..+.|.++|++.+++.|++-..-...+. ..-+++.... .+|.++.+.
T Consensus 314 a~~~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~~~~~s~~~~l~r~~--~~idi~iv~ 373 (895)
T PRK10490 314 AETATLSDPAEEKAVLRYAREHNLGKIIIGRRASRRWWRRESFADRLARLG--PDLDLVIVA 373 (895)
T ss_pred CEEEEEeCCCHHHHHHHHHHHhCCCEEEECCCCCCCCccCCCHHHHHHHhC--CCCCEEEEe
Confidence 99877776 68899999999999999999886543221 1122333322 478888764
No 33
>PRK15456 universal stress protein UspG; Provisional
Probab=73.18 E-value=45 Score=28.62 Aligned_cols=88 Identities=15% Similarity=0.099 Sum_probs=49.5
Q ss_pred HHHHHHhh---cCCceeeEEEeCCCCcCCCCCCCCCCCHHH---HHHHHHHHHHHHHHHHhCCC--eEEEEECChHHHHH
Q 013801 140 ESLNTANN---ESVSVLPVYCFDPRDYGKSSSGFDKTGPYR---ASFLIESVSDLRKNLQARGS--DLVVRVGKPETVLV 211 (436)
Q Consensus 140 ~AL~~A~~---~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r---~~FL~esL~~L~~~L~~~Gi--~L~v~~G~~~~~L~ 211 (436)
.+|.+|.. ....+..++|+++................. ..-..+.|..+.+.+...|. ..++..|++.+.|.
T Consensus 19 ~al~~A~~la~~~~~l~llhv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~~~v~~G~~~~~I~ 98 (142)
T PRK15456 19 KAVRHAEFLAQDDGVIHLLHVLPGSASLSLHRFAADVRRFEEHLQHEAEERLQTMVSHFTIDPSRIKQHVRFGSVRDEVN 98 (142)
T ss_pred HHHHHHHHHHhcCCeEEEEEEecCcccccccccccchhhHHHHHHHHHHHHHHHHHHHhCCCCcceEEEEcCCChHHHHH
Confidence 45555542 234678888887642211000000000111 12233445555555544444 55667899999999
Q ss_pred HHHHHhCCCEEEEecc
Q 013801 212 ELAKAIGADAVYAHRE 227 (436)
Q Consensus 212 ~L~~~~~a~~V~~~~e 227 (436)
+.+++.+++-|++-..
T Consensus 99 ~~a~~~~~DLIVmG~~ 114 (142)
T PRK15456 99 ELAEELGADVVVIGSR 114 (142)
T ss_pred HHHhhcCCCEEEEcCC
Confidence 9999999999988653
No 34
>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=70.77 E-value=50 Score=26.97 Aligned_cols=56 Identities=18% Similarity=0.153 Sum_probs=36.0
Q ss_pred CeEEEEECChHHHHHHHHHHhCCCEEEEeccC-CchHH-HHHHHHHHHHHhcCCcEEE
Q 013801 197 SDLVVRVGKPETVLVELAKAIGADAVYAHREV-SHDEV-KSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 197 i~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~-~p~~~-~rd~~l~~~l~~~gI~v~~ 252 (436)
....+..|+..+.+.+++++.+++.|++...- ..... ..-....+.+....+++..
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 1122333344445666643
No 35
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=69.87 E-value=70 Score=27.36 Aligned_cols=42 Identities=21% Similarity=0.216 Sum_probs=31.7
Q ss_pred HHHHHHHHhCCCeE---EEEECChHHHHHHHHHHhCCCEEEEecc
Q 013801 186 SDLRKNLQARGSDL---VVRVGKPETVLVELAKAIGADAVYAHRE 227 (436)
Q Consensus 186 ~~L~~~L~~~Gi~L---~v~~G~~~~~L~~L~~~~~a~~V~~~~e 227 (436)
+.|++.+++.|+.. ++..|++.+.|.+.+++.+++-|+....
T Consensus 68 ~~l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~ 112 (144)
T PRK15118 68 HALTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHH 112 (144)
T ss_pred HHHHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCc
Confidence 34444445667664 3357999999999999999999999665
No 36
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=69.24 E-value=14 Score=38.72 Aligned_cols=66 Identities=15% Similarity=0.273 Sum_probs=52.5
Q ss_pred HHHHHHHHHhCCCeEEEEEC--ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 185 VSDLRKNLQARGSDLVVRVG--KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~G--~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|..+.+++.++|+.+++-.. +..+.+.+++++.+++.|+-.....-+|. .+.+.|++.|+++...|
T Consensus 67 l~~~~~~v~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKSmvseEI----gln~~Le~~G~ev~ETD 134 (459)
T COG1139 67 LEQLEENVTRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKSMVSEEI----GLNHYLEEKGIEVWETD 134 (459)
T ss_pred HHHHHHHHHHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecchhHHHh----hhHHHHHHcCCeEEEcc
Confidence 44556777789999998763 56788999999999999999887765555 66778888999988665
No 37
>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=67.78 E-value=25 Score=34.36 Aligned_cols=57 Identities=28% Similarity=0.291 Sum_probs=47.0
Q ss_pred eEEEEECC--hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCC
Q 013801 198 DLVVRVGK--PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (436)
Q Consensus 198 ~L~v~~G~--~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~ 256 (436)
.+.++.|. ..+.+.+++++++++.|+=.. .|++...-+.+.++|++.||++..|.-.
T Consensus 44 ~~~v~~G~lg~~~~l~~~l~~~~i~~vIDAT--HPfA~~is~na~~a~~~~~ipylR~eRp 102 (249)
T PF02571_consen 44 GLEVRVGRLGDEEGLAEFLRENGIDAVIDAT--HPFAAEISQNAIEACRELGIPYLRFERP 102 (249)
T ss_pred CceEEECCCCCHHHHHHHHHhCCCcEEEECC--CchHHHHHHHHHHHHhhcCcceEEEEcC
Confidence 44556665 578899999999999988764 4899999999999999999999877533
No 38
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=67.03 E-value=43 Score=32.67 Aligned_cols=48 Identities=17% Similarity=0.070 Sum_probs=41.7
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 206 PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 206 ~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
..+.+.+++++.+++.|+=.. .|++...-+.+.+.|++.||++..|.-
T Consensus 53 ~~~~l~~~l~~~~i~~VIDAT--HPfA~~is~~a~~ac~~~~ipyiR~eR 100 (248)
T PRK08057 53 GAEGLAAYLREEGIDLVIDAT--HPYAAQISANAAAACRALGIPYLRLER 100 (248)
T ss_pred CHHHHHHHHHHCCCCEEEECC--CccHHHHHHHHHHHHHHhCCcEEEEeC
Confidence 458899999999999987664 489999999999999999999988763
No 39
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=66.85 E-value=17 Score=33.11 Aligned_cols=71 Identities=17% Similarity=0.207 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccC--CchHHHHHHHHHHHHH-hcCCcEEEee
Q 013801 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREV--SHDEVKSEEKIEAAMK-DEGIEVKYFW 254 (436)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~--~p~~~~rd~~l~~~l~-~~gI~v~~~~ 254 (436)
+..+.++=+.|++.|+.+.++.|+.......++++.|+....+..+. .|...-.. ++.+.++ +.+ .+-++-
T Consensus 129 ~~~~~~~l~~L~~~Gi~~~i~TGD~~~~a~~~~~~lgi~~~~v~a~~~~kP~~k~~~-~~i~~l~~~~~-~v~~vG 202 (215)
T PF00702_consen 129 RPGAKEALQELKEAGIKVAILTGDNESTASAIAKQLGIFDSIVFARVIGKPEPKIFL-RIIKELQVKPG-EVAMVG 202 (215)
T ss_dssp HTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTTSCSEEEEESHETTTHHHHHH-HHHHHHTCTGG-GEEEEE
T ss_pred hhhhhhhhhhhhccCcceeeeeccccccccccccccccccccccccccccccchhHH-HHHHHHhcCCC-EEEEEc
Confidence 34456677788899999999999999999999999999653222334 55554232 3333444 223 454443
No 40
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=66.29 E-value=17 Score=41.00 Aligned_cols=61 Identities=25% Similarity=0.352 Sum_probs=46.6
Q ss_pred HHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEE
Q 013801 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~ 251 (436)
++.=+.|+++|+.++++.||....-.+++++.|++.|+.+ ..|+++. ++.+.+++.|-.+-
T Consensus 543 ~~aI~~L~~~Gi~~~mLTGDn~~~A~~iA~~lGId~v~Ae--llPedK~---~~V~~l~~~g~~Va 603 (713)
T COG2217 543 KEAIAALKALGIKVVMLTGDNRRTAEAIAKELGIDEVRAE--LLPEDKA---EIVRELQAEGRKVA 603 (713)
T ss_pred HHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcChHhhecc--CCcHHHH---HHHHHHHhcCCEEE
Confidence 3444567889999999999999999999999999999986 6777762 23345566674444
No 41
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=64.59 E-value=68 Score=28.86 Aligned_cols=76 Identities=20% Similarity=0.256 Sum_probs=51.9
Q ss_pred HHHHHHHHH----HhCCCeEEEEECChHHHHHHHHHHh--CCCEEEEec-cCCchHHHHHHHHHHHHHhcCCcEEEeeCC
Q 013801 184 SVSDLRKNL----QARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (436)
Q Consensus 184 sL~~L~~~L----~~~Gi~L~v~~G~~~~~L~~L~~~~--~a~~V~~~~-e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~ 256 (436)
+|.++.+.| ++.|+.+.++..+.+..|.+.+.+. +++.|+.|- .|+.+.. .++++++.-++++..++-.
T Consensus 27 tl~~i~~~~~~~a~~~g~~v~~~QSN~EGelId~I~~a~~~~dgiiINpga~THtSi----Al~DAl~~~~~P~VEVHiS 102 (146)
T PRK05395 27 TLADIEALLEEEAAELGVELEFFQSNHEGELIDRIHEARDGADGIIINPGAYTHTSV----ALRDALAAVSIPVIEVHLS 102 (146)
T ss_pred CHHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhcccCCcEEEECchHHHHHHH----HHHHHHHcCCCCEEEEecC
Confidence 344444444 4569999999877777777766553 578888875 4455544 5667777779999988766
Q ss_pred eeeeCCC
Q 013801 257 TLYHLDD 263 (436)
Q Consensus 257 ~Lv~p~~ 263 (436)
.++.++.
T Consensus 103 Ni~aRE~ 109 (146)
T PRK05395 103 NIHAREE 109 (146)
T ss_pred Ccccccc
Confidence 6665543
No 42
>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=63.20 E-value=70 Score=28.54 Aligned_cols=71 Identities=17% Similarity=0.216 Sum_probs=49.2
Q ss_pred HHHHHhCCCeEEEEECChHHHHHHHHHHh--CCCEEEEec-cCCchHHHHHHHHHHHHHhcCCcEEEeeCCeeeeCCC
Q 013801 189 RKNLQARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDD 263 (436)
Q Consensus 189 ~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~--~a~~V~~~~-e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~Lv~p~~ 263 (436)
++.-++.|+.+.++..+.+..|.+.+.+. +++.|+.|. .|+.+.+ .++.++..-++++..++-..++..+.
T Consensus 34 ~~~a~~~g~~v~~~QSN~Egelid~I~~a~~~~dgiIINpga~THtSv----Ai~DAl~~~~~P~VEVHiSNi~aRE~ 107 (140)
T cd00466 34 RELAAELGVEVEFFQSNHEGELIDWIHEARDGADGIIINPGAYTHTSI----ALRDALAAVSIPVIEVHISNIHAREE 107 (140)
T ss_pred HHHHHHcCCEEEEEeeCcHHHHHHHHHHhhccCcEEEEcchHHHHHHH----HHHHHHHcCCCCEEEEecCCcccccc
Confidence 33344569999999877777676666543 477888875 4444544 56777777789999888777766554
No 43
>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=62.84 E-value=33 Score=32.13 Aligned_cols=65 Identities=28% Similarity=0.308 Sum_probs=44.9
Q ss_pred HHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCC-chHHHHHHHHHHHHHhcCCcEEEe
Q 013801 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVS-HDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 187 ~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~-p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
+.-+.|++.|..++...-+..+.|.+.++ |++.|++..... +.+......+.+++++.||+...+
T Consensus 35 ~~~~~l~~~g~~vv~~d~~~~~~l~~al~--g~d~v~~~~~~~~~~~~~~~~~li~Aa~~agVk~~v~ 100 (233)
T PF05368_consen 35 DRAQQLQALGAEVVEADYDDPESLVAALK--GVDAVFSVTPPSHPSELEQQKNLIDAAKAAGVKHFVP 100 (233)
T ss_dssp HHHHHHHHTTTEEEES-TT-HHHHHHHHT--TCSEEEEESSCSCCCHHHHHHHHHHHHHHHT-SEEEE
T ss_pred hhhhhhhcccceEeecccCCHHHHHHHHc--CCceEEeecCcchhhhhhhhhhHHHhhhccccceEEE
Confidence 34556778899765333334566666666 899999988755 667777888889999999887643
No 44
>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=61.37 E-value=38 Score=31.46 Aligned_cols=102 Identities=20% Similarity=0.198 Sum_probs=66.8
Q ss_pred HHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEEC--------C---------
Q 013801 143 NTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG--------K--------- 205 (436)
Q Consensus 143 ~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G--------~--------- 205 (436)
..|++++ ..+-|||.+..... ..-.-|...+.++.+||..----.|++.+|-.. +
T Consensus 20 E~Aa~~~-d~l~vFVV~eD~S~-------Fpf~~R~~LVk~G~~~L~NV~V~~~g~YiIS~aTFPsYFlK~~~~~~~~~~ 91 (182)
T PF08218_consen 20 EQAAKEC-DWLHVFVVSEDRSL-------FPFADRYELVKEGTADLPNVTVHPGGDYIISSATFPSYFLKDEDDVIKAQA 91 (182)
T ss_pred HHHHHhC-CEEEEEEEccccCc-------CCHHHHHHHHHHHhCcCCCEEEEcCCCeeeecccChhhhccchhHHHHHHH
Confidence 3455554 56778888653321 234679999999999997755555666666331 1
Q ss_pred --hHHHHHH-HHHHhCCCEEEEeccCC-chHHHHHHHHHHHHHhcCCcEEE
Q 013801 206 --PETVLVE-LAKAIGADAVYAHREVS-HDEVKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 206 --~~~~L~~-L~~~~~a~~V~~~~e~~-p~~~~rd~~l~~~l~~~gI~v~~ 252 (436)
....+.+ ++...|++.=|.-+|.. +--..--+.++++|.+.||+++.
T Consensus 92 ~lD~~iF~~~IAp~L~It~RfVG~EP~~~vT~~YN~~M~~~Lp~~gi~v~e 142 (182)
T PF08218_consen 92 ELDATIFKKYIAPALGITKRFVGEEPFSPVTRIYNEAMKEILPPYGIEVVE 142 (182)
T ss_pred HHHHHHHHHHhhHhcCcccceeCCCCCCHHHHHHHHHHHHhccccCCEEEE
Confidence 1123333 56678999888877653 33345578889999999999985
No 45
>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=61.12 E-value=63 Score=28.83 Aligned_cols=77 Identities=16% Similarity=0.233 Sum_probs=51.0
Q ss_pred HHHHHHHHHHH----hCCCeEEEEECChHHHHHHHHHHh--CCCEEEEec-cCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 183 ESVSDLRKNLQ----ARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 183 esL~~L~~~L~----~~Gi~L~v~~G~~~~~L~~L~~~~--~a~~V~~~~-e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
.+|.++.+.|+ +.|+.+.++..+.+..|.+++.+. .++.|+.|. .|+.+.. .++.+++.-++++..++-
T Consensus 25 ~tl~~i~~~~~~~a~~~g~~v~~~QSN~EGelid~I~~a~~~~dgiIINpga~thtS~----Ai~DAl~~~~~P~vEVHi 100 (140)
T PF01220_consen 25 TTLEDIEQKCKETAAELGVEVEFFQSNHEGELIDWIHEARDDVDGIIINPGAYTHTSI----AIRDALKAISIPVVEVHI 100 (140)
T ss_dssp SHHHHHHHHHHHHHHHTTEEEEEEE-SSHHHHHHHHHHHTCTTSEEEEE-GGGGHT-H----HHHHHHHCCTS-EEEEES
T ss_pred CCHHHHHHHHHHHHHHCCCeEEEEecCCHHHHHHHHHHHHhhCCEEEEccchhccccH----HHHHHHHcCCCCEEEEEc
Confidence 45555555554 679999999988888788777664 478888886 4555555 566677777899998887
Q ss_pred CeeeeCCC
Q 013801 256 STLYHLDD 263 (436)
Q Consensus 256 ~~Lv~p~~ 263 (436)
..++.++.
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 77766543
No 46
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=60.50 E-value=35 Score=38.24 Aligned_cols=70 Identities=19% Similarity=0.251 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCee
Q 013801 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTL 258 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~L 258 (436)
...++.=++|++.|+..+++.||....-..++++.|+..|++. ..|+++. ++.+.+++.|-.+ ..-|+.+
T Consensus 444 ~~a~e~I~~Lr~~GI~vvMiTGDn~~TA~aIA~elGI~~v~A~--~~PedK~---~iV~~lQ~~G~~V-aMtGDGv 513 (673)
T PRK14010 444 DGLVERFRELREMGIETVMCTGDNELTAATIAKEAGVDRFVAE--CKPEDKI---NVIREEQAKGHIV-AMTGDGT 513 (673)
T ss_pred HHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCceEEcC--CCHHHHH---HHHHHHHhCCCEE-EEECCCh
Confidence 4455566678889999999999999999999999999988764 5777763 3445566666433 3334433
No 47
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=60.22 E-value=23 Score=36.58 Aligned_cols=62 Identities=13% Similarity=0.133 Sum_probs=42.7
Q ss_pred HHHHhCCC--eEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEE
Q 013801 190 KNLQARGS--DLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 190 ~~L~~~Gi--~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~ 251 (436)
++|+++|| ..+++.+.+.....+.+-+.|+..|+.-.|..|.....-+++.+.|++.||+|.
T Consensus 36 ~~l~~lgi~g~~i~~s~~p~~~cad~ii~~gi~rVVi~~D~d~~G~~~~~~~~~~L~~aGi~V~ 99 (360)
T PRK14719 36 LSLKNLKINANFITVSNTPVFQIADDLIAENISEVILLTDFDRAGRVYAKNIMEEFQSRGIKVN 99 (360)
T ss_pred HHHHHcCCCCcEEEEeCCchHHHHHHHHHcCCCEEEEEECCCCCCCccchHHHHHHHHCCCEEE
Confidence 35777887 456666666665666666668888877767766444444566788888999884
No 48
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=59.86 E-value=1.6e+02 Score=33.83 Aligned_cols=106 Identities=17% Similarity=0.149 Sum_probs=67.7
Q ss_pred CcHHHHHH-----hhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEE-CChHHHHH
Q 013801 138 DNESLNTA-----NNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV-GKPETVLV 211 (436)
Q Consensus 138 DN~AL~~A-----~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~-G~~~~~L~ 211 (436)
.|+.|... .+...+..+|||-.++.... .+....-+.++ ..|.++ +|..+..+. ++..+.|.
T Consensus 260 ~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~~--------~~~~~~~l~~~-~~Lae~---lGae~~~l~~~dv~~~i~ 327 (890)
T COG2205 260 GSEKLIRRAARLASRLHAKWTAVYVETPELHRL--------SEKEARRLHEN-LRLAEE---LGAEIVTLYGGDVAKAIA 327 (890)
T ss_pred chHHHHHHHHHHHHHhCCCeEEEEEeccccccc--------cHHHHHHHHHH-HHHHHH---hCCeEEEEeCCcHHHHHH
Confidence 46666543 34567889999998876431 22333333333 344444 499998888 56789999
Q ss_pred HHHHHhCCCEEEEeccCCchHHHH-HHHHHHHHH--hcCCcEEEeeC
Q 013801 212 ELAKAIGADAVYAHREVSHDEVKS-EEKIEAAMK--DEGIEVKYFWG 255 (436)
Q Consensus 212 ~L~~~~~a~~V~~~~e~~p~~~~r-d~~l~~~l~--~~gI~v~~~~~ 255 (436)
++|++++++.|+.-+.-...+..+ ...+.+.+. ..+|.++.+..
T Consensus 328 ~ya~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~ 374 (890)
T COG2205 328 RYAREHNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVAL 374 (890)
T ss_pred HHHHHcCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeC
Confidence 999999999999988665444322 333443332 24777776543
No 49
>TIGR01497 kdpB K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR.
Probab=59.30 E-value=53 Score=36.83 Aligned_cols=64 Identities=17% Similarity=0.219 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcE
Q 013801 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEV 250 (436)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v 250 (436)
....++.=+.|++.|+.+.++.||.......++++.|++.+++. ..|+++. +.|++ +++.|-.+
T Consensus 448 Rp~a~eaI~~l~~~Gi~v~miTGD~~~ta~~iA~~lGI~~v~a~--~~PedK~--~~v~~-lq~~g~~V 511 (675)
T TIGR01497 448 KGGIKERFAQLRKMGIKTIMITGDNRLTAAAIAAEAGVDDFIAE--ATPEDKI--ALIRQ-EQAEGKLV 511 (675)
T ss_pred hhHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCCEEEcC--CCHHHHH--HHHHH-HHHcCCeE
Confidence 35556666778889999999999999999999999999998874 6777652 23444 34444433
No 50
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=57.77 E-value=42 Score=37.64 Aligned_cols=71 Identities=17% Similarity=0.190 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCeee
Q 013801 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLY 259 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~Lv 259 (436)
..+++.=++|++.|+..+++.||....-..++++.|++.|++. ..|+++. ++.+.+++.|-.+ .+-++.+.
T Consensus 448 ~~~~eai~~Lr~~GI~vvMiTGDn~~TA~aIA~elGId~v~A~--~~PedK~---~iV~~lQ~~G~~V-aMtGDGvN 518 (679)
T PRK01122 448 PGIKERFAELRKMGIKTVMITGDNPLTAAAIAAEAGVDDFLAE--ATPEDKL---ALIRQEQAEGRLV-AMTGDGTN 518 (679)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCcEEEcc--CCHHHHH---HHHHHHHHcCCeE-EEECCCcc
Confidence 4445555678889999999999999999999999999998765 5777663 2344556666433 33344443
No 51
>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=56.63 E-value=74 Score=30.48 Aligned_cols=71 Identities=17% Similarity=0.139 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~ 256 (436)
|..+-+..+++.+++.|..+.+..........+.+...+++.|++..... . +. ..+.+++.|+++..++..
T Consensus 18 ~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~-~----~~-~~~~~~~~~ipvV~~~~~ 88 (283)
T cd06279 18 VASQFLAGVAEVLDAAGVNLLLLPASSEDSDSALVVSALVDGFIVYGVPR-D----DP-LVAALLRRGLPVVVVDQP 88 (283)
T ss_pred cHHHHHHHHHHHHHHCCCEEEEecCccHHHHHHHHHhcCCCEEEEeCCCC-C----hH-HHHHHHHcCCCEEEEecC
Confidence 66777788889999999999988755433344455667899988864211 1 12 234556789999988653
No 52
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=55.08 E-value=43 Score=38.46 Aligned_cols=59 Identities=27% Similarity=0.439 Sum_probs=44.3
Q ss_pred HHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 190 KNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 190 ~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
..|++.|++++.+.||....-...+++.|++.||++ ..|.++. +.| +.+++++-.+-++
T Consensus 733 ~~Lk~~Gi~v~mLTGDn~~aA~svA~~VGi~~V~ae--v~P~~K~--~~I-k~lq~~~~~VaMV 791 (951)
T KOG0207|consen 733 AELKSMGIKVVMLTGDNDAAARSVAQQVGIDNVYAE--VLPEQKA--EKI-KEIQKNGGPVAMV 791 (951)
T ss_pred HHHHhcCceEEEEcCCCHHHHHHHHHhhCcceEEec--cCchhhH--HHH-HHHHhcCCcEEEE
Confidence 467889999999999999999999999999999996 5666652 233 3445555445443
No 53
>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=53.89 E-value=27 Score=37.02 Aligned_cols=66 Identities=17% Similarity=0.312 Sum_probs=48.8
Q ss_pred HHHHHHHHHHhCCCeEEEEEC--ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 184 SVSDLRKNLQARGSDLVVRVG--KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 184 sL~~L~~~L~~~Gi~L~v~~G--~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
=+..+.+++++.|..+++... +..+.+.+++++.|++.|+......-.+. .+.+.|++.|+++...
T Consensus 52 ~l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS~~~eei----gl~~~L~~~g~~~~et 119 (432)
T TIGR00273 52 YLDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSKSMVSEEI----GLNEVLEKIGIEVWET 119 (432)
T ss_pred HHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcCchHHHHh----CCHHHHHhCCCeeeeC
Confidence 345567778889999988763 46678889999999999998765544433 5667777789886544
No 54
>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=53.74 E-value=73 Score=29.89 Aligned_cols=71 Identities=15% Similarity=0.183 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC----hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~----~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|..+-+..+++.+++.|..+.+..++ ..+.+..++...+++.|+....... ..+.+.+.+.||++..++.
T Consensus 18 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~------~~~~~~~~~~~ipvV~~~~ 91 (270)
T cd06294 18 FFIEVLRGISAVANENGYDISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED------DPIIDYLKEEKFPFVVIGK 91 (270)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC------cHHHHHHHhcCCCEEEECC
Confidence 55666678888889999999876543 2244445555667898877542221 1233456678999988765
Q ss_pred C
Q 013801 256 S 256 (436)
Q Consensus 256 ~ 256 (436)
.
T Consensus 92 ~ 92 (270)
T cd06294 92 P 92 (270)
T ss_pred C
Confidence 3
No 55
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=51.43 E-value=1.2e+02 Score=25.60 Aligned_cols=66 Identities=17% Similarity=0.097 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
++.+.+ ++.++++|++..+......+ +.+.....+++.|.. +|.-+-+.+.+++.+.+.|+++...
T Consensus 16 lla~k~---k~~~~e~gi~~~i~a~~~~e-~~~~~~~~~~DvIll----~PQi~~~~~~i~~~~~~~~ipv~~I 81 (104)
T PRK09590 16 MMAKKT---TEYLKEQGKDIEVDAITATE-GEKAIAAAEYDLYLV----SPQTKMYFKQFEEAGAKVGKPVVQI 81 (104)
T ss_pred HHHHHH---HHHHHHCCCceEEEEecHHH-HHHhhccCCCCEEEE----ChHHHHHHHHHHHHhhhcCCCEEEe
Confidence 555555 77788999998887654433 444444445776666 4555666778888888889999753
No 56
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=51.09 E-value=48 Score=31.43 Aligned_cols=66 Identities=21% Similarity=0.289 Sum_probs=52.0
Q ss_pred HHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccC------Cc-------hHHHHHHHHHHHHHhcCCc
Q 013801 184 SVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREV------SH-------DEVKSEEKIEAAMKDEGIE 249 (436)
Q Consensus 184 sL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~------~p-------~~~~rd~~l~~~l~~~gI~ 249 (436)
...+|-+.|++.|..+.+..|.+...+..++++.|++.++.|.-. +. +...-.+++++++++.|+.
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 477888999999999999999999999999999999987776622 11 1123466788888888887
No 57
>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=50.23 E-value=53 Score=26.77 Aligned_cols=48 Identities=25% Similarity=0.378 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCC----CEEEEecc
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGA----DAVYAHRE 227 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a----~~V~~~~e 227 (436)
-+.+.+.++-+.|++.|..+++..|.....+..+++..++ ..|+....
T Consensus 24 ~~~~~~~~~l~~l~~~g~~i~ivS~~~~~~~~~~~~~~~~~~~~~~i~~~~~ 75 (139)
T cd01427 24 ELYPGVKEALKELKEKGIKLALATNKSRREVLELLEELGLDDYFDPVITSNG 75 (139)
T ss_pred CcCcCHHHHHHHHHHCCCeEEEEeCchHHHHHHHHHHcCCchhhhheeccch
Confidence 4556667777788888999999999888888888988876 45555443
No 58
>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=49.09 E-value=1.3e+02 Score=28.36 Aligned_cols=70 Identities=16% Similarity=0.223 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|..+-++.+++.+++.|..+.+...+ ....+.+.+...+++.|+....... +..+ +.+.+.||++..++.
T Consensus 24 ~~~~~~~gi~~~~~~~g~~~~v~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~-----~~~~-~~~~~~~ipvV~~~~ 95 (275)
T cd06295 24 FFLSLLGGIADALAERGYDLLLSFVSSPDRDWLARYLASGRADGVILIGQHDQ-----DPLP-ERLAETGLPFVVWGR 95 (275)
T ss_pred hHHHHHHHHHHHHHHcCCEEEEEeCCchhHHHHHHHHHhCCCCEEEEeCCCCC-----hHHH-HHHHhCCCCEEEECC
Confidence 55666677788999999999887532 2445556666678998877432111 1123 455678999988764
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=49.03 E-value=97 Score=33.70 Aligned_cols=50 Identities=22% Similarity=0.312 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHhCC-CeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchH
Q 013801 181 LIESVSDLRKNLQARG-SDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDE 232 (436)
Q Consensus 181 L~esL~~L~~~L~~~G-i~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~ 232 (436)
++..+.++=+.|++.| +++.+..|+.......++++.|++.++.. ..|..
T Consensus 385 ~~~g~~e~l~~L~~~g~i~v~ivTgd~~~~a~~i~~~lgi~~~f~~--~~p~~ 435 (556)
T TIGR01525 385 LRPEAKEAIAALKRAGGIKLVMLTGDNRSAAEAVAAELGIDEVHAE--LLPED 435 (556)
T ss_pred chHhHHHHHHHHHHcCCCeEEEEeCCCHHHHHHHHHHhCCCeeecc--CCHHH
Confidence 6677888888899999 99999999999999999999999988874 34443
No 60
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=48.67 E-value=1.4e+02 Score=29.26 Aligned_cols=46 Identities=20% Similarity=0.104 Sum_probs=39.1
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 207 ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 207 ~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
.+.+.+++++.+++.|+-. ..|++...-+.+.+.|++.||++..|.
T Consensus 54 ~~~l~~~l~~~~i~~VIDA--tHPfA~~is~~a~~a~~~~~ipylR~e 99 (256)
T TIGR00715 54 PQELREFLKRHSIDILVDA--THPFAAQITTNATAVCKELGIPYVRFE 99 (256)
T ss_pred HHHHHHHHHhcCCCEEEEc--CCHHHHHHHHHHHHHHHHhCCcEEEEE
Confidence 3558899999999977765 458999999999999999999998875
No 61
>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=47.83 E-value=37 Score=30.71 Aligned_cols=42 Identities=19% Similarity=0.325 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEE
Q 013801 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYA 224 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~ 224 (436)
.++.++=+.|++.|+++.+..+.....+..+++..|+..++.
T Consensus 83 ~g~~e~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~g~~~~~~ 124 (201)
T TIGR01491 83 DYAEELVRWLKEKGLKTAIVSGGIMCLAKKVAEKLNPDYVYS 124 (201)
T ss_pred ccHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHhCCCeEEE
Confidence 345555555666666666666665555666666666555544
No 62
>PRK11175 universal stress protein UspE; Provisional
Probab=47.66 E-value=1.5e+02 Score=28.82 Aligned_cols=43 Identities=28% Similarity=0.318 Sum_probs=32.2
Q ss_pred HHHHHHHHHhCCCe---EEEEECChHHHHHHHHHHhCCCEEEEecc
Q 013801 185 VSDLRKNLQARGSD---LVVRVGKPETVLVELAKAIGADAVYAHRE 227 (436)
Q Consensus 185 L~~L~~~L~~~Gi~---L~v~~G~~~~~L~~L~~~~~a~~V~~~~e 227 (436)
...+++-+++.|++ .++..|++.+.|.+.+++.+++-|++-..
T Consensus 225 ~~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~ 270 (305)
T PRK11175 225 LLAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGTV 270 (305)
T ss_pred HHHHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECCC
Confidence 34445545555664 56678999999999999999999998653
No 63
>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=47.32 E-value=1.3e+02 Score=28.59 Aligned_cols=70 Identities=13% Similarity=0.015 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECCh----HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGKP----ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~~----~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|..+-+..+.+.++++|..+++...+. .+.+..++...+++.|++... .+. ..+.+.+++.|+++..++.
T Consensus 13 ~~~~~~~~i~~~~~~~gy~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~-~~~-----~~~~~~l~~~~iPvv~~~~ 86 (269)
T cd06297 13 FYRRLLEGIEGALLEQRYDLALFPLLSLARLKRYLESTTLAYLTDGLLLASY-DLT-----ERLAERRLPTERPVVLVDA 86 (269)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEEeCCCcHHHHHHHHHHHHhcCCCEEEEecC-ccC-----hHHHHHHhhcCCCEEEEcc
Confidence 666777888899999999999876432 233434455678999888642 111 2234556778999988865
No 64
>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=47.26 E-value=25 Score=31.22 Aligned_cols=43 Identities=28% Similarity=0.422 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEe
Q 013801 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~ 225 (436)
.++.++-+.|++.|+++.|..|.....+..+++.+|+..|+.+
T Consensus 76 ~g~~~~l~~l~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~~~ 118 (177)
T TIGR01488 76 PGARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVFAN 118 (177)
T ss_pred cCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCchheee
Confidence 4556666666677777777776666666667776666655544
No 65
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=47.14 E-value=71 Score=34.63 Aligned_cols=46 Identities=24% Similarity=0.291 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHhCCC-eEEEEECChHHHHHHHHHHhCCCEEEEe
Q 013801 180 FLIESVSDLRKNLQARGS-DLVVRVGKPETVLVELAKAIGADAVYAH 225 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi-~L~v~~G~~~~~L~~L~~~~~a~~V~~~ 225 (436)
-++..+.++=+.|++.|+ ++.+..|+.......++++.|+..++..
T Consensus 362 ~l~~~~~e~i~~L~~~Gi~~v~vvTgd~~~~a~~i~~~lgi~~~f~~ 408 (536)
T TIGR01512 362 EPRPDAAEAIAELKALGIEKVVMLTGDRRAVAERVARELGIDEVHAE 408 (536)
T ss_pred cchHHHHHHHHHHHHcCCCcEEEEcCCCHHHHHHHHHHcCChhhhhc
Confidence 356778888888999999 9999999999999999999999888764
No 66
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=46.58 E-value=38 Score=29.80 Aligned_cols=45 Identities=22% Similarity=0.254 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 207 ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 207 ~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
.+.+.+++++++++.|+...+.. +...-+++.+.|++.||+++.+
T Consensus 130 ~~~l~~~~~~~~id~v~ial~~~--~~~~i~~ii~~~~~~~v~v~~v 174 (175)
T PF13727_consen 130 LDDLPELVREHDIDEVIIALPWS--EEEQIKRIIEELENHGVRVRVV 174 (175)
T ss_dssp GGGHHHHHHHHT--EEEE--TTS---HHHHHHHHHHHHTTT-EEEE-
T ss_pred HHHHHHHHHhCCCCEEEEEcCcc--CHHHHHHHHHHHHhCCCEEEEe
Confidence 36688999999999999986543 3445678889999999999853
No 67
>PRK10517 magnesium-transporting ATPase MgtA; Provisional
Probab=46.32 E-value=98 Score=35.97 Aligned_cols=39 Identities=26% Similarity=0.400 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCC
Q 013801 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (436)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~ 220 (436)
.+..++.=+.|++.|+.+.++.||....-..++++.|+.
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 566777778889999999999999999999999999996
No 68
>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=46.23 E-value=1.4e+02 Score=28.10 Aligned_cols=70 Identities=14% Similarity=0.147 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECCh-H---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGKP-E---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~~-~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|+.+-+..+++.+++.|..+.+...+. . ..+.+.+.+.+++.|+..... .. .. .+.+.+.|+++..++.
T Consensus 16 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~-~~-----~~-~~~l~~~~ipvV~~~~ 88 (268)
T cd06277 16 FYSEIYRAIEEEAKKYGYNLILKFVSDEDEEEFELPSFLEDGKVDGIILLGGI-ST-----EY-IKEIKELGIPFVLVDH 88 (268)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHCCCCEEEEeCCC-Ch-----HH-HHHHhhcCCCEEEEcc
Confidence 566677788899999999998875431 1 123333455789999886522 11 12 3345668999988764
Q ss_pred C
Q 013801 256 S 256 (436)
Q Consensus 256 ~ 256 (436)
.
T Consensus 89 ~ 89 (268)
T cd06277 89 Y 89 (268)
T ss_pred C
Confidence 3
No 69
>PRK15122 magnesium-transporting ATPase; Provisional
Probab=46.20 E-value=90 Score=36.28 Aligned_cols=72 Identities=21% Similarity=0.366 Sum_probs=52.4
Q ss_pred HHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCC-------------------------EEEEeccCCchHHHHH
Q 013801 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD-------------------------AVYAHREVSHDEVKSE 236 (436)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~-------------------------~V~~~~e~~p~~~~rd 236 (436)
.+..++.=+.|++.|+.+.++.||....-..++++.|+. .||+. ..|+.+
T Consensus 552 R~~a~~aI~~l~~aGI~v~miTGD~~~tA~aIA~~lGI~~~~vi~G~el~~~~~~el~~~v~~~~VfAr--~sPe~K--- 626 (903)
T PRK15122 552 KESAAPAIAALRENGVAVKVLTGDNPIVTAKICREVGLEPGEPLLGTEIEAMDDAALAREVEERTVFAK--LTPLQK--- 626 (903)
T ss_pred HHHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCCCCCccchHhhhhCCHHHHHHHhhhCCEEEE--eCHHHH---
Confidence 566677778889999999999999999999999999996 45553 567766
Q ss_pred HHHHHHHHhcCCcEEEeeCCeee
Q 013801 237 EKIEAAMKDEGIEVKYFWGSTLY 259 (436)
Q Consensus 237 ~~l~~~l~~~gI~v~~~~~~~Lv 259 (436)
.++.+.|++.|-.+- .-|+.+.
T Consensus 627 ~~iV~~Lq~~G~vVa-mtGDGvN 648 (903)
T PRK15122 627 SRVLKALQANGHTVG-FLGDGIN 648 (903)
T ss_pred HHHHHHHHhCCCEEE-EECCCch
Confidence 345567777765443 3344333
No 70
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=44.85 E-value=1.5e+02 Score=24.63 Aligned_cols=52 Identities=25% Similarity=0.300 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHhCCCeEEEE--E-----------CC-hHHHHHHHHHHhCCCEEEEeccCCchHH
Q 013801 182 IESVSDLRKNLQARGSDLVVR--V-----------GK-PETVLVELAKAIGADAVYAHREVSHDEV 233 (436)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~--~-----------G~-~~~~L~~L~~~~~a~~V~~~~e~~p~~~ 233 (436)
-++|.+|+.-.+..|+..+-. . |. -.+.|.+++++.+++.|+++.+.+|-..
T Consensus 7 ~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~Lsp~Q~ 72 (95)
T PF13167_consen 7 EESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNELSPSQQ 72 (95)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCCCCHHHH
Confidence 467888888888889877531 1 22 3466888999999999999999988755
No 71
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=44.82 E-value=1e+02 Score=35.57 Aligned_cols=39 Identities=26% Similarity=0.360 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCC
Q 013801 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (436)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~ 220 (436)
.+..++.=+.|++.|+.+.++.||....-..++++.|+.
T Consensus 517 R~~~~~aI~~l~~aGI~vvmiTGD~~~tA~aIA~~lGI~ 555 (867)
T TIGR01524 517 KESTKEAIAALFKNGINVKVLTGDNEIVTARICQEVGID 555 (867)
T ss_pred chhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 456677777889999999999999999999999999997
No 72
>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=44.40 E-value=1.3e+02 Score=30.89 Aligned_cols=103 Identities=19% Similarity=0.250 Sum_probs=63.9
Q ss_pred EEEEeCCCCccCcHHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh-CCCeEEEEECC
Q 013801 127 IVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQA-RGSDLVVRVGK 205 (436)
Q Consensus 127 LvWfRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~-~Gi~L~v~~G~ 205 (436)
++|=..-.++..-..+..|.++|.+|++.++++... +.. + +++-|++ .... -.
T Consensus 37 vywsh~~~~iPp~~~idaAHknGV~Vlgti~~e~~~-----------~~~---~-------~~~lL~~~~~~~-----~~ 90 (339)
T cd06547 37 VYFSHSAVTIPPADWINAAHRNGVPVLGTFIFEWTG-----------QVE---W-------LEDFLKKDEDGS-----FP 90 (339)
T ss_pred ecccCccccCCCcHHHHHHHhcCCeEEEEEEecCCC-----------chH---H-------HHHHhccCcccc-----hH
Confidence 555555667777777788889999999999987531 111 1 2222221 1111 12
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCc-hH------HHHHHHHHHHHHhc--CCcEEEeeC
Q 013801 206 PETVLVELAKAIGADAVYAHREVSH-DE------VKSEEKIEAAMKDE--GIEVKYFWG 255 (436)
Q Consensus 206 ~~~~L~~L~~~~~a~~V~~~~e~~p-~~------~~rd~~l~~~l~~~--gI~v~~~~~ 255 (436)
.++.|.++|+.+|.+.+..|.|... .. ..+.+.+.+.+++. +..+.-+++
T Consensus 91 ~a~kLv~lak~yGfDGw~iN~E~~~~~~~~~~~l~~F~~~L~~~~~~~~~~~~v~WYDs 149 (339)
T cd06547 91 VADKLVEVAKYYGFDGWLINIETELGDAEKAKRLIAFLRYLKAKLHENVPGSLVIWYDS 149 (339)
T ss_pred HHHHHHHHHHHhCCCceEeeeeccCCcHHHHHHHHHHHHHHHHHHhhcCCCcEEEEEec
Confidence 4688999999999999999999876 11 23345555555543 344444444
No 73
>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=44.07 E-value=1.1e+02 Score=29.39 Aligned_cols=73 Identities=23% Similarity=0.352 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHhCCCeEEEEE----C------ChHHHHHHHHHHhCCCEEEEec-----cCCch-HHHHHHHHHHHHHhc
Q 013801 183 ESVSDLRKNLQARGSDLVVRV----G------KPETVLVELAKAIGADAVYAHR-----EVSHD-EVKSEEKIEAAMKDE 246 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~----G------~~~~~L~~L~~~~~a~~V~~~~-----e~~p~-~~~rd~~l~~~l~~~ 246 (436)
+.|.++-+.+++.|..|++.- | +..-.|.+++++.|++.|+.|. ++.|. ....-+++.+.|++.
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 466777778888899998862 2 2345666888899999888775 55555 456678888889887
Q ss_pred CC-cEEEeeC
Q 013801 247 GI-EVKYFWG 255 (436)
Q Consensus 247 gI-~v~~~~~ 255 (436)
|+ ++-++-|
T Consensus 94 ~~g~IAsv~G 103 (223)
T PF06415_consen 94 GIGRIASVSG 103 (223)
T ss_dssp TCTEEEEEEE
T ss_pred CCceEEEEec
Confidence 66 6665443
No 74
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=43.98 E-value=1.9e+02 Score=24.17 Aligned_cols=47 Identities=23% Similarity=0.265 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHhCCCe---EEEEECCh-HHHHHHHHHHhCCCEEEEecc
Q 013801 181 LIESVSDLRKNLQARGSD---LVVRVGKP-ETVLVELAKAIGADAVYAHRE 227 (436)
Q Consensus 181 L~esL~~L~~~L~~~Gi~---L~v~~G~~-~~~L~~L~~~~~a~~V~~~~e 227 (436)
..+.+..+++.+++.|+. ..+..|++ .+.+...+.+.+++.|++-..
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~ 122 (154)
T COG0589 72 AEELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSR 122 (154)
T ss_pred HHHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCC
Confidence 356677778888888866 46677998 699999999999999988663
No 75
>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=43.34 E-value=1.9e+02 Score=27.00 Aligned_cols=72 Identities=14% Similarity=0.141 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC-----hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK-----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~-----~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|..+-+..+++.+++.|..+.+...+ ....+.+.+...+++.|+...... .. ..+.+.+.+.|+++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~-~~----~~~~~~~~~~~ipvv~i~ 87 (270)
T cd01545 13 YVSEIQLGALDACRDTGYQLVIEPCDSGSPDLAERVRALLQRSRVDGVILTPPLS-DN----PELLDLLDEAGVPYVRIA 87 (270)
T ss_pred cHHHHHHHHHHHHHhCCCeEEEEeCCCCchHHHHHHHHHHHHCCCCEEEEeCCCC-Cc----cHHHHHHHhcCCCEEEEe
Confidence 66666777788888999999887533 233455556667899988753211 11 122344566899998876
Q ss_pred CC
Q 013801 255 GS 256 (436)
Q Consensus 255 ~~ 256 (436)
..
T Consensus 88 ~~ 89 (270)
T cd01545 88 PG 89 (270)
T ss_pred cC
Confidence 43
No 76
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=42.87 E-value=70 Score=29.27 Aligned_cols=57 Identities=11% Similarity=0.227 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCc
Q 013801 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIE 249 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~ 249 (436)
.+++.| +++|+.+.|..|.....+..++++.++..++...+ + . -..+..+|++.|+.
T Consensus 55 ~~i~~L----~~~Gi~v~I~T~~~~~~v~~~l~~lgl~~~f~g~~--~--k--~~~l~~~~~~~gl~ 111 (183)
T PRK09484 55 YGIRCL----LTSGIEVAIITGRKSKLVEDRMTTLGITHLYQGQS--N--K--LIAFSDLLEKLAIA 111 (183)
T ss_pred HHHHHH----HHCCCEEEEEeCCCcHHHHHHHHHcCCceeecCCC--c--H--HHHHHHHHHHhCCC
Confidence 355554 45899999999998888999999999987765322 1 1 25677778877764
No 77
>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=42.39 E-value=1e+02 Score=34.92 Aligned_cols=39 Identities=13% Similarity=0.228 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCE
Q 013801 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADA 221 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~ 221 (436)
+..++.=+.|++.|+.+.++.||....-..++++.|+..
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 455666677888999999999999999999999999864
No 78
>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=42.05 E-value=2e+02 Score=26.70 Aligned_cols=69 Identities=14% Similarity=0.075 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--h---HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--P---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~---~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|..+-+..+++.++++|..+.+...+ + .+.+.+++ ..+++.|++...... ..+...+.+.|+++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~-~~~~dgii~~~~~~~------~~~~~~~~~~~ipvv~~~ 85 (259)
T cd01542 13 STSRTVKGILAALYENGYQMLLMNTNFSIEKEIEALELLA-RQKVDGIILLATTIT------DEHREAIKKLNVPVVVVG 85 (259)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHH-hcCCCEEEEeCCCCC------HHHHHHHhcCCCCEEEEe
Confidence 55677788889999999999887643 2 23344443 468999888643211 123455566789998876
Q ss_pred C
Q 013801 255 G 255 (436)
Q Consensus 255 ~ 255 (436)
.
T Consensus 86 ~ 86 (259)
T cd01542 86 Q 86 (259)
T ss_pred c
Confidence 4
No 79
>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=41.97 E-value=1.9e+02 Score=27.03 Aligned_cols=72 Identities=18% Similarity=0.140 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|..+-+..+++.+++.|..+.+... ++. +.+..+.. .+++.|++... +.. .....+ +.+++.||++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~l~~~~~-~~vdgii~~~~-~~~--~~~~~i-~~~~~~~ipvV~~~ 87 (273)
T cd06305 13 FDQAYLAGTKAEAEALGGDLRVYDAGGDDAKQADQIDQAIA-QKVDAIIIQHG-RAE--VLKPWV-KRALDAGIPVVAFD 87 (273)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHH-cCCCEEEEecC-Chh--hhHHHH-HHHHHcCCCEEEec
Confidence 6667778889999999999988753 332 33444444 48999988532 111 112223 44567899998887
Q ss_pred CC
Q 013801 255 GS 256 (436)
Q Consensus 255 ~~ 256 (436)
..
T Consensus 88 ~~ 89 (273)
T cd06305 88 VD 89 (273)
T ss_pred CC
Confidence 54
No 80
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=41.70 E-value=83 Score=27.95 Aligned_cols=48 Identities=19% Similarity=0.269 Sum_probs=35.9
Q ss_pred ECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCeeee
Q 013801 203 VGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYH 260 (436)
Q Consensus 203 ~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~Lv~ 260 (436)
.+++.+.|.+.+.+++ ..++++. |+.+++.+.+.||++.++.+...+-
T Consensus 83 ~~~aDe~i~~~a~~~~-~~iVaTn---------D~eLk~rlr~~GIPvi~lr~r~~~~ 130 (136)
T COG1412 83 GRYADECLLEAALKHG-RYIVATN---------DKELKRRLRENGIPVITLRQRKLLI 130 (136)
T ss_pred CCChHHHHHHHHHHcC-CEEEEeC---------CHHHHHHHHHcCCCEEEEeCCeEEE
Confidence 4567899999999999 4444443 4678888888899999988665443
No 81
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=41.56 E-value=1.8e+02 Score=29.24 Aligned_cols=72 Identities=17% Similarity=0.189 Sum_probs=52.5
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEECCh----HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVGKP----ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G~~----~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
.|..+-+..+.+.|++.|..+++...+. ++...+...+.+++.|+...... +....+.+.+.++++..++
T Consensus 71 ~~~~~i~~gi~~~~~~~gy~~~l~~~~~~~~~e~~~~~~l~~~~vdGiIi~~~~~------~~~~~~~l~~~~~P~V~i~ 144 (333)
T COG1609 71 PFFAEILKGIEEAAREAGYSLLLANTDDDPEKEREYLETLLQKRVDGLILLGERP------NDSLLELLAAAGIPVVVID 144 (333)
T ss_pred chHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCCC------CHHHHHHHHhcCCCEEEEe
Confidence 4888999999999999999999986542 34445666778999998875211 2234456667799998877
Q ss_pred CC
Q 013801 255 GS 256 (436)
Q Consensus 255 ~~ 256 (436)
..
T Consensus 145 ~~ 146 (333)
T COG1609 145 RS 146 (333)
T ss_pred CC
Confidence 53
No 82
>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=41.46 E-value=2.2e+02 Score=27.02 Aligned_cols=73 Identities=14% Similarity=0.064 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
-|+.+-+..+++.+++.|..+.+...+ .. +.+..+. ..+++.|+.... . .......+ +.+.+.||++..+
T Consensus 12 ~f~~~~~~gi~~~~~~~G~~~~~~~~~~d~~~~~~~i~~~~-~~~vdgiii~~~-~--~~~~~~~i-~~~~~~~iPvV~~ 86 (272)
T cd06313 12 TWCAQGKQAADEAGKLLGVDVTWYGGALDAVKQVAAIENMA-SQGWDFIAVDPL-G--IGTLTEAV-QKAIARGIPVIDM 86 (272)
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC-C--hHHhHHHH-HHHHHCCCcEEEe
Confidence 477788889999999999999988642 22 3333433 468998888531 1 11123333 4456679999988
Q ss_pred eCC
Q 013801 254 WGS 256 (436)
Q Consensus 254 ~~~ 256 (436)
+..
T Consensus 87 ~~~ 89 (272)
T cd06313 87 GTL 89 (272)
T ss_pred CCC
Confidence 653
No 83
>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=41.38 E-value=1.2e+02 Score=26.76 Aligned_cols=107 Identities=17% Similarity=0.021 Sum_probs=62.0
Q ss_pred CCCCccCcHHHHH-HhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCC-CeEEEEECChHHH
Q 013801 132 NDLRVHDNESLNT-ANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARG-SDLVVRVGKPETV 209 (436)
Q Consensus 132 rDLRl~DN~AL~~-A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~G-i~L~v~~G~~~~~ 209 (436)
=|.==.-|-.|.. |.+.+..++.++-+|+.... . + +.. ..+-++.+=.+.|++.| ++.++. .+.. .
T Consensus 20 FDgvH~GH~~ll~~a~~~~~~~~v~v~~d~~~~~-~-----k-~~~---~~l~~~eeR~~~l~~~~~VD~vi~-f~~~-~ 87 (144)
T TIGR02199 20 FDILHAGHVSYLQQARALGDRLVVGVNSDASVKR-L-----K-GET---RPINPEEDRAEVLAALSSVDYVVI-FDED-T 87 (144)
T ss_pred ccccCHHHHHHHHHHHHhCCccEEEEECCcCHHH-h-----C-CCC---CCcCCHHHHHHHHHhcCCCCEEEE-CCCC-C
Confidence 3544444555544 44455567777778874321 0 0 000 11334455556677775 887665 3221 2
Q ss_pred HHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 210 LVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 210 L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
-.++++.++++.|++-.++..... .-.+.+++.|..+..++
T Consensus 88 ~~~fi~~l~~~~vv~G~d~~~~~~----~~~~~~~~~g~~v~~~~ 128 (144)
T TIGR02199 88 PEELIGELKPDILVKGGDYKVETL----VGAELVESYGGQVVLLP 128 (144)
T ss_pred HHHHHHHhCCCEEEECCCCCCCcc----hhHHHHHHcCCEEEEEe
Confidence 356667899999999998876432 11346677888887654
No 84
>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=40.99 E-value=2e+02 Score=27.25 Aligned_cols=72 Identities=19% Similarity=0.089 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC-hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK-PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~-~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|..+-++.+++.+++.|..+.+...+ .. +.+.. +...+++.|+.... + ......+.+.+.+.||++..++.
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~i~~-~~~~~~dgiii~~~---~-~~~~~~~~~~~~~~~iPvV~~~~ 87 (289)
T cd01540 13 WFQTEWKFAKKAAKEKGFTVVKIDVPDGEKVLSAIDN-LGAQGAKGFVICVP---D-VKLGPAIVAKAKAYNMKVVAVDD 87 (289)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEccCCCHHHHHHHHHH-HHHcCCCEEEEccC---c-hhhhHHHHHHHHhCCCeEEEecC
Confidence 56677788889999999999887543 22 22223 23468888887532 1 11122334556778999998764
Q ss_pred C
Q 013801 256 S 256 (436)
Q Consensus 256 ~ 256 (436)
.
T Consensus 88 ~ 88 (289)
T cd01540 88 R 88 (289)
T ss_pred C
Confidence 3
No 85
>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=40.64 E-value=2.2e+02 Score=26.53 Aligned_cols=72 Identities=18% Similarity=0.124 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCC
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~ 256 (436)
.|..+-+..+++.+++.|..+.+..........+.....+++.|++... .... ..+ ..+.+.|+++..++..
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 3677777888889999999988875432333445556678998876532 1111 122 3445689999887653
No 86
>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=39.37 E-value=2.2e+02 Score=27.65 Aligned_cols=73 Identities=11% Similarity=0.168 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHHHHhC-----CCeEEEEECChHHHHHHHHHHhCCCEEEEe-ccCCchHHHHHHHHHHHHHhcCCc
Q 013801 176 YRASFLIESVSDLRKNLQAR-----GSDLVVRVGKPETVLVELAKAIGADAVYAH-REVSHDEVKSEEKIEAAMKDEGIE 249 (436)
Q Consensus 176 ~r~~FL~esL~~L~~~L~~~-----Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~-~e~~p~~~~rd~~l~~~l~~~gI~ 249 (436)
.+..-+.+.|.+|.+.+++. +..+++.+ +.+.-|++.+|...+... .+-+|. .+.-.++.+.+++.+|.
T Consensus 145 ~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H----~af~Y~~~~ygl~~~~~~~~~~eps-~~~l~~l~~~ik~~~v~ 219 (266)
T cd01018 145 ANLDALLAELDALDSEIRTILSKLKQRAFMVYH----PAWGYFARDYGLTQIPIEEEGKEPS-PADLKRLIDLAKEKGVR 219 (266)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCeEEEEC----chhHHHHHHcCCEEEecCCCCCCCC-HHHHHHHHHHHHHcCCC
Confidence 34455666777777766643 33344433 468899999999977542 222333 23345677788889999
Q ss_pred EEEe
Q 013801 250 VKYF 253 (436)
Q Consensus 250 v~~~ 253 (436)
+..+
T Consensus 220 ~if~ 223 (266)
T cd01018 220 VVFV 223 (266)
T ss_pred EEEE
Confidence 8754
No 87
>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=39.10 E-value=2.3e+02 Score=26.45 Aligned_cols=69 Identities=14% Similarity=0.219 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|..+-+..+.+.+++.|..+++...+ +. +.+..+.. .+++.|++...... ..+.+.+++.||++..++
T Consensus 13 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~-~~vdgiii~~~~~~------~~~~~~l~~~~iPvv~~~ 85 (268)
T cd06273 13 IFARVIQAFQETLAAHGYTLLVASSGYDLDREYAQARKLLE-RGVDGLALIGLDHS------PALLDLLARRGVPYVATW 85 (268)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEecCCCCHHHHHHHHHHHHh-cCCCEEEEeCCCCC------HHHHHHHHhCCCCEEEEc
Confidence 45566677888999999999887532 22 33344444 47888877432211 122345677899998775
Q ss_pred C
Q 013801 255 G 255 (436)
Q Consensus 255 ~ 255 (436)
.
T Consensus 86 ~ 86 (268)
T cd06273 86 N 86 (268)
T ss_pred C
Confidence 4
No 88
>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=38.98 E-value=2.2e+02 Score=26.65 Aligned_cols=70 Identities=17% Similarity=0.157 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|+.+-+..+++.+++.|..+.+...+ .. +.+.. +.+.+++.|++.... ... .. .+.+.+.|+++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~-l~~~~~dgiii~~~~-~~~----~~-~~~~~~~~ipvV~i~ 85 (270)
T cd06296 13 WASEVLRGVEEAAAAAGYDVVLSESGRRTSPERQWVER-LSARRTDGVILVTPE-LTS----AQ-RAALRRTGIPFVVVD 85 (270)
T ss_pred cHHHHHHHHHHHHHHcCCeEEEecCCCchHHHHHHHHH-HHHcCCCEEEEecCC-CCh----HH-HHHHhcCCCCEEEEe
Confidence 55666677788888899999887643 21 22333 344689988765321 121 12 345566899999886
Q ss_pred CC
Q 013801 255 GS 256 (436)
Q Consensus 255 ~~ 256 (436)
..
T Consensus 86 ~~ 87 (270)
T cd06296 86 PA 87 (270)
T ss_pred cc
Confidence 53
No 89
>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=38.92 E-value=2.6e+02 Score=25.55 Aligned_cols=70 Identities=16% Similarity=0.173 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--h---HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--P---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~---~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|..+-...+++.++++|+.+.+...+ + .+.+..+.. .+++.|+...... .... ...+.+.||++..++
T Consensus 13 ~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~-~~~d~iii~~~~~-~~~~-----~~~~~~~~ipvv~~~ 85 (264)
T cd06267 13 FFAELLRGIEEAAREAGYSVLLCNSDEDPEKEREALELLLS-RRVDGIILAPSRL-DDEL-----LEELAALGIPVVLVD 85 (264)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHH-cCcCEEEEecCCc-chHH-----HHHHHHcCCCEEEec
Confidence 55555677777888899999887643 2 344444443 4888887755332 2211 344567899998876
Q ss_pred CC
Q 013801 255 GS 256 (436)
Q Consensus 255 ~~ 256 (436)
..
T Consensus 86 ~~ 87 (264)
T cd06267 86 RP 87 (264)
T ss_pred cc
Confidence 44
No 90
>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=38.69 E-value=1.5e+02 Score=25.32 Aligned_cols=44 Identities=23% Similarity=0.401 Sum_probs=22.4
Q ss_pred HHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhC----CCEEEEeccC
Q 013801 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIG----ADAVYAHREV 228 (436)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~----a~~V~~~~e~ 228 (436)
+.++=+.|++.|+++.++.+.....+..+++..| ++.|++..++
T Consensus 82 ~~~~L~~l~~~~~~~~i~Sn~~~~~~~~~l~~~~~~~~f~~i~~~~~~ 129 (176)
T PF13419_consen 82 VRELLERLKAKGIPLVIVSNGSRERIERVLERLGLDDYFDEIISSDDV 129 (176)
T ss_dssp HHHHHHHHHHTTSEEEEEESSEHHHHHHHHHHTTHGGGCSEEEEGGGS
T ss_pred hhhhhhhcccccceeEEeecCCcccccccccccccccccccccccchh
Confidence 3344444555566666655555555555555544 3355555444
No 91
>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=38.63 E-value=3.6e+02 Score=25.75 Aligned_cols=52 Identities=23% Similarity=0.372 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEEC-Ch-----------------HHHHHHHHHHhCCCEEEEeccCC
Q 013801 178 ASFLIESVSDLRKNLQARGSDLVVRVG-KP-----------------ETVLVELAKAIGADAVYAHREVS 229 (436)
Q Consensus 178 ~~FL~esL~~L~~~L~~~Gi~L~v~~G-~~-----------------~~~L~~L~~~~~a~~V~~~~e~~ 229 (436)
..|+.+...+..+.|+++|+.+++-.| .. .+.+..+++++|.+.|-.+.|+.
T Consensus 46 ~~~~~~~~~~~i~~l~~kG~KVl~sigg~~~~~~~~~~~~~~~~~~fa~~l~~~v~~yglDGiDiD~E~~ 115 (255)
T cd06542 46 VQFLLTNKETYIRPLQAKGTKVLLSILGNHLGAGFANNLSDAAAKAYAKAIVDTVDKYGLDGVDFDDEYS 115 (255)
T ss_pred hhhhhHHHHHHHHHHhhCCCEEEEEECCCCCCCCccccCCHHHHHHHHHHHHHHHHHhCCCceEEeeeec
Confidence 568888888999999999999987543 10 24455666677777777766653
No 92
>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=38.37 E-value=2.9e+02 Score=25.73 Aligned_cols=72 Identities=18% Similarity=0.221 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
.|..+-++.+++.+++.|..+.+..+ +.. +.+..+. ..+++.|+.... .+. ..+..+ +.+.+.||++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~~~-~~~vdgiii~~~-~~~--~~~~~~-~~~~~~~ipvV~~ 86 (267)
T cd06322 12 PFYIELANAMKEEAKKQKVNLIVSIANQDLNKQLSDVEDFI-TKKVDAIVLSPV-DSK--GIRAAI-AKAKKAGIPVITV 86 (267)
T ss_pred HHHHHHHHHHHHHHHhcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC-Chh--hhHHHH-HHHHHCCCCEEEE
Confidence 47778889999999999999988764 322 3333433 458999888532 111 112334 3456689999888
Q ss_pred eC
Q 013801 254 WG 255 (436)
Q Consensus 254 ~~ 255 (436)
+.
T Consensus 87 ~~ 88 (267)
T cd06322 87 DI 88 (267)
T ss_pred cc
Confidence 64
No 93
>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=38.30 E-value=2.2e+02 Score=23.75 Aligned_cols=62 Identities=16% Similarity=0.167 Sum_probs=41.0
Q ss_pred HHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
..+++.++++|+++.+......+ +.+... +++.|.. +|--+-+...+++.+...||++...+
T Consensus 18 ~km~~~a~~~gi~~~i~a~~~~e-~~~~~~--~~Dvill----~PQv~~~~~~i~~~~~~~~ipv~~I~ 79 (99)
T cd05565 18 NALNKGAKERGVPLEAAAGAYGS-HYDMIP--DYDLVIL----APQMASYYDELKKDTDRLGIKLVTTT 79 (99)
T ss_pred HHHHHHHHHCCCcEEEEEeeHHH-HHHhcc--CCCEEEE----cChHHHHHHHHHHHhhhcCCCEEEeC
Confidence 44556778899999887654333 444333 4565555 45555566788888888899997543
No 94
>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=38.18 E-value=1.5e+02 Score=27.66 Aligned_cols=70 Identities=24% Similarity=0.287 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC----hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~----~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|..+-+..+.+.+++.|+.+.+...+ ..+.+.+++.+.+++.|+....... +..+ +.+.+.++++..++.
T Consensus 17 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~-----~~~~-~~~~~~~ipvV~~~~ 90 (268)
T cd06271 17 FFAEFLSGLSEALAEHGYDLVLLPVDPDEDPLEVYRRLVESGLVDGVIISRTRPD-----DPRV-ALLLERGFPFVTHGR 90 (268)
T ss_pred cHHHHHHHHHHHHHHCCceEEEecCCCcHHHHHHHHHHHHcCCCCEEEEecCCCC-----ChHH-HHHHhcCCCEEEECC
Confidence 45555677788888999999887632 2345566666667898887543211 1122 345668999988754
No 95
>COG0656 ARA1 Aldo/keto reductases, related to diketogulonate reductase [General function prediction only]
Probab=38.02 E-value=1.3e+02 Score=29.93 Aligned_cols=45 Identities=18% Similarity=0.070 Sum_probs=29.1
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEE
Q 013801 206 PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 206 ~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~ 252 (436)
..+.+.++.+..++.-++-.-+|.|+.++.+ +..+|+++||.+..
T Consensus 144 ~~~~L~~l~~~~~~~p~~NQIe~hp~~~q~e--l~~~~~~~gI~v~A 188 (280)
T COG0656 144 GVEHLEELLSLAKVKPAVNQIEYHPYLRQPE--LLPFCQRHGIAVEA 188 (280)
T ss_pred CHHHHHHHHHhcCCCCceEEEEeccCCCcHH--HHHHHHHcCCEEEE
Confidence 3455555665544444555556677766555 88899999998864
No 96
>PF12710 HAD: haloacid dehalogenase-like hydrolase; PDB: 3P96_A 3N28_A 3FVV_A 1RKU_A 1RKV_A 1Y8A_A 2FEA_B 3KD3_B.
Probab=37.69 E-value=75 Score=28.38 Aligned_cols=41 Identities=24% Similarity=0.531 Sum_probs=34.9
Q ss_pred HHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCE--EEEecc
Q 013801 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIGADA--VYAHRE 227 (436)
Q Consensus 187 ~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~--V~~~~e 227 (436)
++=+.|++.|+.++|+-|++...+..+++..++.. |++++-
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 55566788899999999999999999999999988 777775
No 97
>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=37.68 E-value=15 Score=33.29 Aligned_cols=75 Identities=20% Similarity=0.293 Sum_probs=51.1
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEC--------ChHHHHHHHHH-HhCCCEEEEeccCCchHHHH--HHHHHHHHHhcCC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVG--------KPETVLVELAK-AIGADAVYAHREVSHDEVKS--EEKIEAAMKDEGI 248 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G--------~~~~~L~~L~~-~~~a~~V~~~~e~~p~~~~r--d~~l~~~l~~~gI 248 (436)
..+-++.+=.+.|++.|++.++... ++.+-+..++. +.++..|++-.++.....+. -+.+++.+++.|+
T Consensus 59 ~~l~s~~ek~~~l~~~Gvd~~~~~~F~~~~~~ls~~~Fi~~iL~~~l~~~~ivvG~DfrFG~~~~G~~~~L~~~~~~~g~ 138 (157)
T PF06574_consen 59 KLLTSLEEKLELLESLGVDYVIVIPFTEEFANLSPEDFIEKILKEKLNVKHIVVGEDFRFGKNRSGDVELLKELGKEYGF 138 (157)
T ss_dssp GBSS-HHHHHHHHHHTTESEEEEE-CCCHHCCS-HHHHHHHHCCCHCTEEEEEEETT-EESGGGEEEHHHHHHCTTTT-S
T ss_pred cCCCCHHHHHHHHHHcCCCEEEEecchHHHHcCCHHHHHHHHHHhcCCccEEEEccCccCCCCCCCCHHHHHHhcccCce
Confidence 3356677777788899999876542 36666666566 89999999999986554322 4567788888899
Q ss_pred cEEEee
Q 013801 249 EVKYFW 254 (436)
Q Consensus 249 ~v~~~~ 254 (436)
.+..++
T Consensus 139 ~v~~v~ 144 (157)
T PF06574_consen 139 EVEVVP 144 (157)
T ss_dssp EEEEE-
T ss_pred EEEEEC
Confidence 988654
No 98
>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=37.18 E-value=2.9e+02 Score=25.20 Aligned_cols=71 Identities=15% Similarity=0.217 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--h---HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--P---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~---~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|..+-...+++.+++.|+.+.+.... + .+.+.+++.. +++.|++...-. ... . ....+.+.|+++..++
T Consensus 13 ~~~~~~~g~~~~~~~~g~~l~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~~~-~~~---~-~~~~l~~~~ip~v~~~ 86 (264)
T cd01537 13 FFAQVLKGIEEAAKAAGYQVLLANSQNDAEKQLSALENLIAR-GVDGIIIAPSDL-TAP---T-IVKLARKAGIPVVLVD 86 (264)
T ss_pred HHHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecCCC-cch---h-HHHHhhhcCCCEEEec
Confidence 55566677777888899999887632 2 3444455544 889888754321 211 1 3456677899998776
Q ss_pred CC
Q 013801 255 GS 256 (436)
Q Consensus 255 ~~ 256 (436)
..
T Consensus 87 ~~ 88 (264)
T cd01537 87 RD 88 (264)
T ss_pred cC
Confidence 44
No 99
>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=36.77 E-value=2.7e+02 Score=25.78 Aligned_cols=69 Identities=22% Similarity=0.280 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECCh----HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGKP----ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~~----~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|+..-+..+.+.+++.|..+.+...+. .+.+..+. ..+++.|++.... +.. .+.+.+.+.||++..++.
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 444455567888999999998876432 23333433 4689888875321 111 123455668999998864
No 100
>PLN02770 haloacid dehalogenase-like hydrolase family protein
Probab=36.70 E-value=1.2e+02 Score=28.99 Aligned_cols=34 Identities=18% Similarity=0.263 Sum_probs=16.0
Q ss_pred HHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhC
Q 013801 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIG 218 (436)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~ 218 (436)
+.++-+.|+++|+++.|..+...+.+...++..+
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 4444444445555555554444444444444443
No 101
>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=36.58 E-value=62 Score=32.20 Aligned_cols=10 Identities=20% Similarity=0.272 Sum_probs=6.0
Q ss_pred HHHHHHHHHH
Q 013801 343 ALQRLKKFAA 352 (436)
Q Consensus 343 A~~~L~~Fl~ 352 (436)
..+.|++|.+
T Consensus 246 ~e~~l~~y~~ 255 (277)
T TIGR01544 246 VDELLEKYMD 255 (277)
T ss_pred HHHHHHHHHH
Confidence 4456777754
No 102
>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=36.54 E-value=52 Score=30.48 Aligned_cols=44 Identities=25% Similarity=0.407 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEe
Q 013801 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (436)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~ 225 (436)
+.++.++=+.|++.|+.+.+..+.....+..+++..++..++.+
T Consensus 87 ~~g~~~~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~~i~~~~~~ 130 (219)
T TIGR00338 87 TEGAEELVKTLKEKGYKVAVISGGFDLFAEHVKDKLGLDAAFAN 130 (219)
T ss_pred CCCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEee
Confidence 34555666666677777777766666666666666666665543
No 103
>COG0757 AroQ 3-dehydroquinate dehydratase II [Amino acid transport and metabolism]
Probab=35.72 E-value=3.3e+02 Score=24.44 Aligned_cols=69 Identities=14% Similarity=0.170 Sum_probs=46.1
Q ss_pred HHHHhCCCeEEEEECChHHHHHHHHHHhCC--CEEEEec-cCCchHHHHHHHHHHHHHhcCCcEEEeeCCeeeeCC
Q 013801 190 KNLQARGSDLVVRVGKPETVLVELAKAIGA--DAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLD 262 (436)
Q Consensus 190 ~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a--~~V~~~~-e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~Lv~p~ 262 (436)
+.=+++|+.+.++..+.+..|.+++.+-.- ..|+.|. .|+...+ .+++++..-.+++..++=.+++..+
T Consensus 36 ~~a~~~g~~v~~~QSN~Eg~Lid~Ihea~~~~~~IvINpga~THTSv----AlrDAi~av~iP~vEVHlSNihaRE 107 (146)
T COG0757 36 EEAAKLGVEVEFRQSNHEGELIDWIHEARGKAGDIVINPGAYTHTSV----ALRDAIAAVSIPVVEVHLSNIHARE 107 (146)
T ss_pred HHHHHcCceEEEEecCchHHHHHHHHHhhccCCeEEEcCccchhhHH----HHHHHHHhcCCCEEEEEecCchhcc
Confidence 334467999999998888777777765322 2255554 6676666 5566666678888887766665443
No 104
>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=35.39 E-value=3e+02 Score=25.53 Aligned_cols=71 Identities=13% Similarity=0.222 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEC--ChH--HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVG--KPE--TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G--~~~--~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|..+-+..+++.+++.|..+.+... +.. ..+.+.+...+++.|++... ... +.. .+.+.+.|+++..++.
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~-~~~----~~~-~~~l~~~~ipvV~~~~ 86 (265)
T cd06299 13 YFASLATAIQDAASAAGYSTIIGNSDENPETENRYLDNLLSQRVDGIIVVPH-EQS----AEQ-LEDLLKRGIPVVFVDR 86 (265)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHhcCCCEEEEcCC-CCC----hHH-HHHHHhCCCCEEEEec
Confidence 4455566777788899999988753 222 12233345668999887532 111 112 3455668999988765
Q ss_pred C
Q 013801 256 S 256 (436)
Q Consensus 256 ~ 256 (436)
.
T Consensus 87 ~ 87 (265)
T cd06299 87 E 87 (265)
T ss_pred c
Confidence 3
No 105
>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=35.18 E-value=92 Score=30.18 Aligned_cols=48 Identities=15% Similarity=0.192 Sum_probs=39.9
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 205 KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 205 ~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
.+...+.+.++..|++.|..- +||.....+.+++++++.|+++..+.+
T Consensus 106 t~~~A~~~AL~alg~~RIalv---TPY~~~v~~~~~~~l~~~G~eV~~~~~ 153 (239)
T TIGR02990 106 TPSSAAVDGLAALGVRRISLL---TPYTPETSRPMAQYFAVRGFEIVNFTC 153 (239)
T ss_pred CHHHHHHHHHHHcCCCEEEEE---CCCcHHHHHHHHHHHHhCCcEEeeeec
Confidence 467788888899999999994 566677788999999999999987654
No 106
>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=34.95 E-value=1.4e+02 Score=26.45 Aligned_cols=54 Identities=11% Similarity=0.254 Sum_probs=39.0
Q ss_pred HHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCC
Q 013801 189 RKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGI 248 (436)
Q Consensus 189 ~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI 248 (436)
=+.|++.|+.+.+..+.....+..+++..|+...+... .+. -+.+.++|++.|+
T Consensus 37 i~~Lk~~G~~i~IvTn~~~~~~~~~l~~~gi~~~~~~~--~~k----~~~~~~~~~~~~~ 90 (154)
T TIGR01670 37 IRCALKSGIEVAIITGRKAKLVEDRCKTLGITHLYQGQ--SNK----LIAFSDILEKLAL 90 (154)
T ss_pred HHHHHHCCCEEEEEECCCCHHHHHHHHHcCCCEEEecc--cch----HHHHHHHHHHcCC
Confidence 44567789999999998888888999999999877643 222 2345566666564
No 107
>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=34.59 E-value=3.3e+02 Score=25.48 Aligned_cols=72 Identities=14% Similarity=0.188 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEC--Ch--HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVG--KP--ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G--~~--~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|+.+-+..+.+.+++.|..+++... ++ .....+.+.+.+++.|++..... .. ..+.+.+.+.||++..++.
T Consensus 13 ~~~~~~~~i~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~-~~----~~~~~~~~~~~ipvV~i~~ 87 (269)
T cd06281 13 LLAQLFSGAEDRLRAAGYSLLIANSLNDPERELEILRSFEQRRMDGIIIAPGDE-RD----PELVDALASLDLPIVLLDR 87 (269)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCC-Cc----HHHHHHHHhCCCCEEEEec
Confidence 5556667778889999999988753 22 22333345556899888754221 11 1233456667999988864
Q ss_pred C
Q 013801 256 S 256 (436)
Q Consensus 256 ~ 256 (436)
.
T Consensus 88 ~ 88 (269)
T cd06281 88 D 88 (269)
T ss_pred c
Confidence 3
No 108
>PRK10671 copA copper exporting ATPase; Provisional
Probab=34.58 E-value=2e+02 Score=33.07 Aligned_cols=46 Identities=30% Similarity=0.302 Sum_probs=37.3
Q ss_pred HHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHH
Q 013801 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEV 233 (436)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~ 233 (436)
.+.-+.|++.|+.+.+..|+.......++++.|+..++.. ..|..+
T Consensus 656 ~~~i~~L~~~gi~v~~~Tgd~~~~a~~ia~~lgi~~~~~~--~~p~~K 701 (834)
T PRK10671 656 VAALQRLHKAGYRLVMLTGDNPTTANAIAKEAGIDEVIAG--VLPDGK 701 (834)
T ss_pred HHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcCCCEEEeC--CCHHHH
Confidence 3444677889999999999999999999999999998875 445543
No 109
>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=34.51 E-value=1.9e+02 Score=31.55 Aligned_cols=49 Identities=29% Similarity=0.407 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchH
Q 013801 181 LIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDE 232 (436)
Q Consensus 181 L~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~ 232 (436)
++..+.++=+.|++.|+.+.+..|+.......++++.|++ ++. +..|..
T Consensus 406 l~~~a~e~i~~Lk~~Gi~v~ilSgd~~~~a~~ia~~lgi~-~~~--~~~p~~ 454 (562)
T TIGR01511 406 LRPEAKEVIQALKRRGIEPVMLTGDNRKTAKAVAKELGIN-VRA--EVLPDD 454 (562)
T ss_pred ccHHHHHHHHHHHHcCCeEEEEcCCCHHHHHHHHHHcCCc-EEc--cCChHH
Confidence 3345566666788899999999999999999999999997 443 344543
No 110
>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=34.14 E-value=3.7e+02 Score=26.10 Aligned_cols=73 Identities=15% Similarity=0.126 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
.|+.+....+++.+++.|..+++...+ .. +.+.. +...+++.|+..... ....+..+ +.+.+.||++..+
T Consensus 11 ~~~~~~~~~i~~~a~~~g~~v~~~~~~~~~~~q~~~i~~-l~~~~vDgIIi~~~~---~~~~~~~l-~~~~~~~iPvV~~ 85 (302)
T TIGR02634 11 ERWQKDRDIFVAAAESLGAKVFVQSANGNEAKQISQIEN-LIARGVDVLVIIPQN---GQVLSNAV-QEAKDEGIKVVAY 85 (302)
T ss_pred hhHHHHHHHHHHHHHhcCCEEEEEeCCCCHHHHHHHHHH-HHHcCCCEEEEeCCC---hhHHHHHH-HHHHHCCCeEEEe
Confidence 588888899999999999999887532 22 33333 444689988875421 12223333 4567789999988
Q ss_pred eCC
Q 013801 254 WGS 256 (436)
Q Consensus 254 ~~~ 256 (436)
+..
T Consensus 86 d~~ 88 (302)
T TIGR02634 86 DRL 88 (302)
T ss_pred cCc
Confidence 653
No 111
>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=34.08 E-value=1.1e+02 Score=28.15 Aligned_cols=48 Identities=19% Similarity=0.328 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhC------CCEEEEeccC
Q 013801 181 LIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIG------ADAVYAHREV 228 (436)
Q Consensus 181 L~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~------a~~V~~~~e~ 228 (436)
++.++.++-+.|++.|+.+.+..+.....+...++..+ ++.|++..+.
T Consensus 88 l~~G~~~~L~~L~~~g~~~~ivT~~~~~~~~~~l~~~~l~~~~~f~~i~~~~~~ 141 (220)
T TIGR03351 88 ALPGAEEAFRSLRSSGIKVALTTGFDRDTAERLLEKLGWTVGDDVDAVVCPSDV 141 (220)
T ss_pred cCCCHHHHHHHHHHCCCEEEEEeCCchHHHHHHHHHhhhhhhccCCEEEcCCcC
Confidence 44456666777777777777777666655555555444 3445555543
No 112
>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=33.90 E-value=3.1e+02 Score=25.80 Aligned_cols=73 Identities=18% Similarity=0.213 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
.|+.+-++.+.+.+++.|..+.+... +.. +.+..+. ..+++.|+.... ... ..+..+ +.+.+.||++..+
T Consensus 12 ~~~~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~~-~~~--~~~~~i-~~~~~~~iPvV~~ 86 (273)
T cd06309 12 PWRTAETKSIKDAAEKRGFDLKFADAQQKQENQISAIRSFI-AQGVDVIILAPV-VET--GWDPVL-KEAKAAGIPVILV 86 (273)
T ss_pred HHHHHHHHHHHHHHHhcCCEEEEeCCCCCHHHHHHHHHHHH-HcCCCEEEEcCC-ccc--cchHHH-HHHHHCCCCEEEE
Confidence 47788889999999999999998753 222 3344443 457898877432 111 112233 4456789999988
Q ss_pred eCC
Q 013801 254 WGS 256 (436)
Q Consensus 254 ~~~ 256 (436)
+..
T Consensus 87 ~~~ 89 (273)
T cd06309 87 DRG 89 (273)
T ss_pred ecC
Confidence 753
No 113
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=33.59 E-value=1.7e+02 Score=27.00 Aligned_cols=54 Identities=19% Similarity=0.298 Sum_probs=32.0
Q ss_pred HHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCc
Q 013801 190 KNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIE 249 (436)
Q Consensus 190 ~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~ 249 (436)
.++++.|+.++|.....+.-+..++...|+.-|+...- |... .++++|++.+++
T Consensus 56 ~e~k~~gi~v~vvSNn~e~RV~~~~~~l~v~fi~~A~K--P~~~----~fr~Al~~m~l~ 109 (175)
T COG2179 56 AELKEAGIKVVVVSNNKESRVARAAEKLGVPFIYRAKK--PFGR----AFRRALKEMNLP 109 (175)
T ss_pred HHHHhcCCEEEEEeCCCHHHHHhhhhhcCCceeecccC--ccHH----HHHHHHHHcCCC
Confidence 35666777777776666666666777777776666543 3333 334444445554
No 114
>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=33.43 E-value=67 Score=31.05 Aligned_cols=85 Identities=22% Similarity=0.292 Sum_probs=47.2
Q ss_pred eeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEECC---hHHHHHHHHHHhCCCEEEEeccCC
Q 013801 153 LPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGK---PETVLVELAKAIGADAVYAHREVS 229 (436)
Q Consensus 153 l~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~---~~~~L~~L~~~~~a~~V~~~~e~~ 229 (436)
+.++|=.|-+.+ .+- -=++.|+.|++.|+.+|+.+.+.-.+ ..+.+.+|+....+.-|-.- +
T Consensus 105 ~~L~iEgP~d~g----------~r~--~QI~~l~~Lr~~L~~~g~~v~iVADEWCNT~eDI~~F~da~A~dmVQIK---t 169 (248)
T PF07476_consen 105 FKLRIEGPMDAG----------SRE--AQIEALAELREELDRRGINVEIVADEWCNTLEDIREFADAKAADMVQIK---T 169 (248)
T ss_dssp S-EEEE-SB--S----------SHH--HHHHHHHHHHHHHHHCT--EEEEE-TT--SHHHHHHHHHTT-SSEEEE----G
T ss_pred CeeeeeCCcCCC----------ChH--HHHHHHHHHHHHHHhcCCCCeEEeehhcCCHHHHHHHHhcCCcCEEEec---C
Confidence 578887775543 122 22578899999999999999888754 44556677765445555443 3
Q ss_pred chH--HHHHHHHHHHHHhcCCcEEE
Q 013801 230 HDE--VKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 230 p~~--~~rd~~l~~~l~~~gI~v~~ 252 (436)
|+- +..-....--|++.|+....
T Consensus 170 PDLGgi~ntieAvlyCk~~gvgaY~ 194 (248)
T PF07476_consen 170 PDLGGINNTIEAVLYCKEHGVGAYL 194 (248)
T ss_dssp GGGSSTHHHHHHHHHHHHTT-EEEE
T ss_pred CCccchhhHHHHHHHHHhcCCceee
Confidence 342 22222222369999998763
No 115
>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=33.31 E-value=3.6e+02 Score=25.10 Aligned_cols=71 Identities=13% Similarity=0.183 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--hH--HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--PE--TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~~--~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|+.+-+..+.+.+++.|..+.+..++ .. ....+.+...+++.|+...... . +..+ +.+.+.||++..++.
T Consensus 13 ~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~-~----~~~~-~~~~~~~iPvv~~~~ 86 (265)
T cd06285 13 VMATMYEGIEEAAAERGYSTFVANTGDNPDAQRRAIEMLLDRRVDGLILGDARS-D----DHFL-DELTRRGVPFVLVLR 86 (265)
T ss_pred cHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCC-C----hHHH-HHHHHcCCCEEEEcc
Confidence 55666788888899999998776542 21 2233344567899888754221 1 1223 445668999988765
Q ss_pred C
Q 013801 256 S 256 (436)
Q Consensus 256 ~ 256 (436)
.
T Consensus 87 ~ 87 (265)
T cd06285 87 H 87 (265)
T ss_pred C
Confidence 3
No 116
>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=33.05 E-value=2.9e+02 Score=26.91 Aligned_cols=71 Identities=21% Similarity=0.338 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEE-CChH--HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRV-GKPE--TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~-G~~~--~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~ 256 (436)
|+.+-+..+.+.+++.|..+++.. ++.. +...+.+.+.+++.|+.... ... +..+....+. |+++..++..
T Consensus 15 ff~~ii~gIe~~a~~~Gy~l~l~~t~~~~~~e~~i~~l~~~~vDGiI~~s~-~~~----~~~l~~~~~~-~iPvV~~~~~ 88 (279)
T PF00532_consen 15 FFAEIIRGIEQEAREHGYQLLLCNTGDDEEKEEYIELLLQRRVDGIILASS-END----DEELRRLIKS-GIPVVLIDRY 88 (279)
T ss_dssp HHHHHHHHHHHHHHHTTCEEEEEEETTTHHHHHHHHHHHHTTSSEEEEESS-SCT----CHHHHHHHHT-TSEEEEESS-
T ss_pred HHHHHHHHHHHHHHHcCCEEEEecCCCchHHHHHHHHHHhcCCCEEEEecc-cCC----hHHHHHHHHc-CCCEEEEEec
Confidence 788889999999999999998765 3221 13335567789999988732 222 2345444444 9999877654
No 117
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=32.86 E-value=3.2e+02 Score=25.41 Aligned_cols=72 Identities=14% Similarity=0.187 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEE-EC--Ch---HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 180 FLIESVSDLRKNLQARGSDLVVR-VG--KP---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~-~G--~~---~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
|..+..+.+++.++++|..+.+. .+ +. .+.+..++. .+++.|++.-- .+... ...+ +.+.+.||++..+
T Consensus 12 ~~~~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~-~~~d~Iiv~~~-~~~~~--~~~l-~~~~~~gIpvv~~ 86 (257)
T PF13407_consen 12 FWQQVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAIS-QGVDGIIVSPV-DPDSL--APFL-EKAKAAGIPVVTV 86 (257)
T ss_dssp HHHHHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHH-TTESEEEEESS-STTTT--HHHH-HHHHHTTSEEEEE
T ss_pred HHHHHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHH-hcCCEEEecCC-CHHHH--HHHH-HHHhhcCceEEEE
Confidence 77777888888999999999885 42 33 233334433 47998887642 22222 2333 4467789999988
Q ss_pred eCC
Q 013801 254 WGS 256 (436)
Q Consensus 254 ~~~ 256 (436)
+..
T Consensus 87 d~~ 89 (257)
T PF13407_consen 87 DSD 89 (257)
T ss_dssp SST
T ss_pred ecc
Confidence 766
No 118
>PLN02954 phosphoserine phosphatase
Probab=32.68 E-value=70 Score=29.70 Aligned_cols=38 Identities=26% Similarity=0.475 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCC
Q 013801 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~ 220 (436)
.++.++-+.|++.|+++.|..+.....+..+++..|+.
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 44455555555566666665555555555555555554
No 119
>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=32.65 E-value=3.5e+02 Score=25.38 Aligned_cols=73 Identities=15% Similarity=0.127 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEC---ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEE
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVG---KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G---~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~ 252 (436)
.|+.+-+..+++.+++.|..+.+... +.. +.+..+.. .+++.|+.... ... .....+ +.+.+.||++..
T Consensus 13 ~~~~~~~~g~~~~~~~~g~~v~~~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~-~~~--~~~~~l-~~~~~~~ipvV~ 87 (271)
T cd06312 13 PFWTVVKNGAEDAAKDLGVDVEYRGPETFDVADMARLIEAAIA-AKPDGIVVTIP-DPD--ALDPAI-KRAVAAGIPVIS 87 (271)
T ss_pred cHHHHHHHHHHHHHHHhCCEEEEECCCCCCHHHHHHHHHHHHH-hCCCEEEEeCC-ChH--HhHHHH-HHHHHCCCeEEE
Confidence 47778888899999999999988754 322 22333333 58998887542 211 122334 445678999988
Q ss_pred eeCC
Q 013801 253 FWGS 256 (436)
Q Consensus 253 ~~~~ 256 (436)
++..
T Consensus 88 ~~~~ 91 (271)
T cd06312 88 FNAG 91 (271)
T ss_pred eCCC
Confidence 7643
No 120
>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=32.51 E-value=3.5e+02 Score=25.03 Aligned_cols=69 Identities=13% Similarity=0.150 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--h--HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--P--ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~--~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|+.+-+..+++.+++.|..+++.... . ...+.+.+...+++.|+......+.. +.+.+. .||++..+++
T Consensus 13 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~------~~~~~~-~~ipvv~~~~ 85 (267)
T cd06284 13 FFSEILKGIEDEAREAGYGVLLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT------ALTALA-KLPPIVQACE 85 (267)
T ss_pred cHHHHHHHHHHHHHHcCCeEEEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH------HHHHHh-cCCCEEEEec
Confidence 55666678888999999999877632 2 22333455566899888754322221 222333 5899987753
No 121
>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=31.93 E-value=3e+02 Score=25.73 Aligned_cols=73 Identities=14% Similarity=0.164 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHH-HHHHHHHHHHHhcCCcEEEe
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEV-KSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~-~rd~~l~~~l~~~gI~v~~~ 253 (436)
|..+-+..+.+.+++.|..+.+... +.. +.+..+ ...+++.|++... ..... .....+ +.+.+.|+++..+
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l-~~~~vdgiIi~~~-~~~~~~~~~~~i-~~~~~~~ipvV~i 89 (273)
T cd06292 13 IFPAFAEAIEAALAQYGYTVLLCNTYRGGVSEADYVEDL-LARGVRGVVFISS-LHADTHADHSHY-ERLAERGLPVVLV 89 (273)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEEeCCCChHHHHHHHHHH-HHcCCCEEEEeCC-CCCcccchhHHH-HHHHhCCCCEEEE
Confidence 5566668888889999999877653 222 333333 4458998877431 11111 112223 3456689999887
Q ss_pred eC
Q 013801 254 WG 255 (436)
Q Consensus 254 ~~ 255 (436)
+.
T Consensus 90 ~~ 91 (273)
T cd06292 90 NG 91 (273)
T ss_pred cC
Confidence 64
No 122
>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=31.83 E-value=3.8e+02 Score=25.03 Aligned_cols=72 Identities=18% Similarity=0.219 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHh-CCCeEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 180 FLIESVSDLRKNLQA-RGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 180 FL~esL~~L~~~L~~-~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
|+.+-+..+.+.+++ .|..+++..+ +.. +.+..+. ..+++.|++...- . .....+.+.+.+.||++..+
T Consensus 13 ~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~-~---~~~~~~~~~l~~~~iPvv~~ 87 (272)
T cd06301 13 FLTLLRNAMKEHAKVLGGVELQFEDAKNDVATQLSQVENFI-AQGVDAIIVVPVD-T---AATAPIVKAANAAGIPLVYV 87 (272)
T ss_pred HHHHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHHHH-HcCCCEEEEecCc-h---hhhHHHHHHHHHCCCeEEEe
Confidence 566666777788888 8999998754 332 3334433 4589988774321 1 11223445567889999887
Q ss_pred eCC
Q 013801 254 WGS 256 (436)
Q Consensus 254 ~~~ 256 (436)
+.+
T Consensus 88 ~~~ 90 (272)
T cd06301 88 NRR 90 (272)
T ss_pred cCC
Confidence 653
No 123
>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=31.54 E-value=2.9e+02 Score=22.59 Aligned_cols=61 Identities=16% Similarity=0.186 Sum_probs=41.6
Q ss_pred HHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
..+++.++++|+++.+......+ +.+... +++.|+.. |.-.-..+.+++.+.+.|+++...
T Consensus 21 ~k~~~~~~~~gi~~~v~a~~~~~-~~~~~~--~~Dvill~----pqi~~~~~~i~~~~~~~~ipv~~I 81 (95)
T TIGR00853 21 NKMNKAAEEYGVPVKIAAGSYGA-AGEKLD--DADVVLLA----PQVAYMLPDLKKETDKKGIPVEVI 81 (95)
T ss_pred HHHHHHHHHCCCcEEEEEecHHH-HHhhcC--CCCEEEEC----chHHHHHHHHHHHhhhcCCCEEEe
Confidence 56677788999999887765444 333333 45666664 444445677888888889999854
No 124
>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=31.47 E-value=4e+02 Score=24.24 Aligned_cols=77 Identities=22% Similarity=0.402 Sum_probs=51.1
Q ss_pred HHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCC-EEEEecc-C-----------CchHHHHHHHHHHHHHhcCCc
Q 013801 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD-AVYAHRE-V-----------SHDEVKSEEKIEAAMKDEGIE 249 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~-~V~~~~e-~-----------~p~~~~rd~~l~~~l~~~gI~ 249 (436)
+.+..|+ .|++.|+.+.+..|.+...+..+.++.+.. -+++... + .+-....-..+.+.+.+.++.
T Consensus 19 ~~~~al~-~l~~~g~~~~i~TGR~~~~~~~~~~~~~~~~~~I~~nGa~i~~~~~~~l~~~~i~~~~~~~i~~~~~~~~~~ 97 (254)
T PF08282_consen 19 ETIEALK-ELQEKGIKLVIATGRSYSSIKRLLKELGIDDYFICSNGALIDDPKGKILYEKPIDSDDVKKILKYLKEHNIS 97 (254)
T ss_dssp HHHHHHH-HHHHTTCEEEEECSSTHHHHHHHHHHTTHCSEEEEGGGTEEEETTTEEEEEESB-HHHHHHHHHHHHHTTCE
T ss_pred HHHHHHH-hhcccceEEEEEccCcccccccccccccchhhhcccccceeeecccccchhhheeccchhheeehhhhcccc
Confidence 3344444 367789999999999998999999988766 3222211 1 011234456777888888988
Q ss_pred EEEeeCCeeee
Q 013801 250 VKYFWGSTLYH 260 (436)
Q Consensus 250 v~~~~~~~Lv~ 260 (436)
+..+....++-
T Consensus 98 ~~~~~~~~~~~ 108 (254)
T PF08282_consen 98 FFFYTDDDIYI 108 (254)
T ss_dssp EEEEESSEEEE
T ss_pred cccccceeeec
Confidence 88777665543
No 125
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.
Probab=31.42 E-value=2.3e+02 Score=27.24 Aligned_cols=81 Identities=19% Similarity=0.215 Sum_probs=49.3
Q ss_pred cCCceeeEEEeCCC--CcCCC-CCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEEC-ChHHHHHHHHHH---hCCC
Q 013801 148 ESVSVLPVYCFDPR--DYGKS-SSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG-KPETVLVELAKA---IGAD 220 (436)
Q Consensus 148 ~~~~vl~vyi~dp~--~~~~~-~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G-~~~~~L~~L~~~---~~a~ 220 (436)
...+-.+++|||.. .+... ...|...-+..-.-+.+-+..+++-|+..|++.+...| +..+++..+++. .|..
T Consensus 47 ~~~p~~~~~~fD~~~~~~R~~l~p~YK~~R~~~p~~l~~q~~~~~~~l~~~gi~~i~~~~~EADD~ia~la~~~~~~g~~ 126 (240)
T cd00008 47 EYKPTYVAVVFDAGGKTFRHELYPEYKANRKKMPEELREQIPLIKELLEALGIPVLEIEGYEADDVIGTLAKKAEAEGYK 126 (240)
T ss_pred hcCCCeEEEEEeCCCCcccccccHHHHcCCCCCCHHHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHHHHcCCe
Confidence 34466789999853 12110 00110000112245677889999999999999988877 677788877753 3445
Q ss_pred EEEEeccC
Q 013801 221 AVYAHREV 228 (436)
Q Consensus 221 ~V~~~~e~ 228 (436)
.+++..|.
T Consensus 127 ~~I~S~Dk 134 (240)
T cd00008 127 VVIVSGDK 134 (240)
T ss_pred EEEEeCCC
Confidence 56666553
No 126
>PRK11175 universal stress protein UspE; Provisional
Probab=31.31 E-value=4.9e+02 Score=25.16 Aligned_cols=121 Identities=12% Similarity=0.031 Sum_probs=65.2
Q ss_pred CCCccCcHHHHHHhh----cCCceeeEEEeCCCCcCCCCCCCCCCCH---HHHHH---HHHHHHHHHHHHHhCCCeEEE-
Q 013801 133 DLRVHDNESLNTANN----ESVSVLPVYCFDPRDYGKSSSGFDKTGP---YRASF---LIESVSDLRKNLQARGSDLVV- 201 (436)
Q Consensus 133 DLRl~DN~AL~~A~~----~~~~vl~vyi~dp~~~~~~~~~~~~~~~---~r~~F---L~esL~~L~~~L~~~Gi~L~v- 201 (436)
|+=-.+..||.+|.. .+..+..+++.++...... +...... .+... ..+.|....+.++..|+....
T Consensus 11 D~s~~~~~al~~a~~lA~~~~a~l~ll~v~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 88 (305)
T PRK11175 11 DPNQDDQPALRRAVYLAQRNGGKITAFLPIYDFSYEMT--TLLSPDEREAMRQGVISQRTAWIREQAKPYLDAGIPIEIK 88 (305)
T ss_pred CCCccccHHHHHHHHHHHhcCCCEEEEEeccCchhhhh--cccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEEE
Confidence 444456677777753 4556776776643211100 0000111 11111 223345555556667776643
Q ss_pred -E-ECChHHHHHHHHHHhCCCEEEEeccCCchHHHH--HHHHHHHHHhcCCcEEEeeC
Q 013801 202 -R-VGKPETVLVELAKAIGADAVYAHREVSHDEVKS--EEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 202 -~-~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~r--d~~l~~~l~~~gI~v~~~~~ 255 (436)
. .|++.+.|.+.+++.+++-|++...-.....+. .....+.+....+++..+..
T Consensus 89 v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~~ 146 (305)
T PRK11175 89 VVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVKD 146 (305)
T ss_pred EecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEecc
Confidence 3 489999999999999999999976532211111 11123445566788776554
No 127
>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=31.27 E-value=4.1e+02 Score=24.55 Aligned_cols=72 Identities=18% Similarity=0.169 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
.|..+-++.+++.+++.|..+.+... +.. +.+.. +...+++.|++..... .....+.+.+.+.||++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~~~-~~~~~~dgii~~~~~~----~~~~~~l~~l~~~~ipvv~~ 86 (268)
T cd06323 12 PFFVTLKDGAQKEAKELGYELTVLDAQNDAAKQLNDIED-LITRGVDAIIINPTDS----DAVVPAVKAANEAGIPVFTI 86 (268)
T ss_pred HHHHHHHHHHHHHHHHcCceEEecCCCCCHHHHHHHHHH-HHHcCCCEEEEcCCCh----HHHHHHHHHHHHCCCcEEEE
Confidence 37777888899999999999988753 332 33333 3345799877742211 11112234456679999887
Q ss_pred eC
Q 013801 254 WG 255 (436)
Q Consensus 254 ~~ 255 (436)
+.
T Consensus 87 ~~ 88 (268)
T cd06323 87 DR 88 (268)
T ss_pred cc
Confidence 65
No 128
>PF04900 Fcf1: Fcf1; InterPro: IPR006984 This family is comprises of uncharacterised eukaryotic proteins.
Probab=31.20 E-value=1.2e+02 Score=24.89 Aligned_cols=45 Identities=18% Similarity=0.397 Sum_probs=34.1
Q ss_pred CChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHH-hcCCcEEEeeCCee
Q 013801 204 GKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMK-DEGIEVKYFWGSTL 258 (436)
Q Consensus 204 G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~-~~gI~v~~~~~~~L 258 (436)
+++.+.|.+++.+.+. .++++. |+.++..+. ..||++.++..+.+
T Consensus 51 ~~addci~~~~~~~~~-~~VaT~---------D~~Lr~~lr~~~GvPvi~l~~~~~ 96 (101)
T PF04900_consen 51 GSADDCILDLAGKNNK-YIVATQ---------DKELRRRLRKIPGVPVIYLRRNVL 96 (101)
T ss_pred cCHHHHHHHHhccCCe-EEEEec---------CHHHHHHHhcCCCCCEEEEECCEE
Confidence 4678999999987776 666655 456777777 78999998886654
No 129
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=31.16 E-value=1.7e+02 Score=25.23 Aligned_cols=46 Identities=15% Similarity=0.182 Sum_probs=33.8
Q ss_pred HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 208 TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 208 ~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
+...+.+++-.+.-|+..+|.+|.+. ...+...|++.||++..+.+
T Consensus 33 ~e~~Kai~~g~a~LVviA~Dv~P~~~--~~~l~~lc~~~~vpyv~V~s 78 (116)
T COG1358 33 NEVTKAIERGKAKLVVIAEDVSPEEL--VKHLPALCEEKNVPYVYVGS 78 (116)
T ss_pred HHHHHHHHcCCCcEEEEecCCCHHHH--HHHHHHHHHhcCCCEEEeCC
Confidence 34445555567888899999888776 55778888889999886543
No 130
>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=31.12 E-value=4.4e+02 Score=25.52 Aligned_cols=72 Identities=11% Similarity=0.056 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEC--ChH---HHHHHHHHHh--CCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEE
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAI--GADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~--~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~ 251 (436)
.|..+.+..+++.+++.|..+++... +.. +.+..+ ... +++.|+.... .. . ...+.+.+.+.||++.
T Consensus 13 ~~~~~~~~gi~~~~~~~g~~v~~~~~~~~~~~~~~~i~~~-~~~~~~vdgiIi~~~-~~---~-~~~~~~~~~~~giPvV 86 (305)
T cd06324 13 PFWNSVARFMQAAADDLGIELEVLYAERDRFLMLQQARTI-LQRPDKPDALIFTNE-KS---V-APELLRLAEGAGVKLF 86 (305)
T ss_pred cHHHHHHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHH-HHhccCCCEEEEcCC-cc---c-hHHHHHHHHhCCCeEE
Confidence 36667778888899999999887753 222 223333 345 8999887432 11 1 2223345667899999
Q ss_pred EeeCC
Q 013801 252 YFWGS 256 (436)
Q Consensus 252 ~~~~~ 256 (436)
.++..
T Consensus 87 ~~~~~ 91 (305)
T cd06324 87 LVNSG 91 (305)
T ss_pred EEecC
Confidence 88754
No 131
>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=31.00 E-value=1.8e+02 Score=24.27 Aligned_cols=81 Identities=14% Similarity=0.154 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHh---CCCEEEEeccCC-chHHHHHHHHHHHHHhcCCcEEEe
Q 013801 178 ASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAI---GADAVYAHREVS-HDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 178 ~~FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~---~a~~V~~~~e~~-p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
..+|.++|..|.++ ......++|..+...+...++++++ +....+...+-. .....+...++.+- +=-+...
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 35788888888887 6667788877644333344445444 445445544432 33444444444332 2245556
Q ss_pred eCCeeeeCC
Q 013801 254 WGSTLYHLD 262 (436)
Q Consensus 254 ~~~~Lv~p~ 262 (436)
+++.+++++
T Consensus 86 d~D~~~~~~ 94 (169)
T PF00535_consen 86 DDDDIISPD 94 (169)
T ss_dssp ETTEEE-TT
T ss_pred CCCceEcHH
Confidence 777776654
No 132
>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=30.78 E-value=4.3e+02 Score=24.72 Aligned_cols=71 Identities=11% Similarity=0.147 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEC----ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEE
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVG----KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G----~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~ 252 (436)
|+.+-+..+++.+++.|..+.+... +.. +.+..+. ..+++.|+... .... ..+..+ +.+.+.||++..
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~-~~~~--~~~~~~-~~~~~~~iPvV~ 87 (275)
T cd06320 13 FWRSLKEGYENEAKKLGVSVDIQAAPSEGDQQGQLSIAENMI-NKGYKGLLFSP-ISDV--NLVPAV-ERAKKKGIPVVN 87 (275)
T ss_pred HHHHHHHHHHHHHHHhCCeEEEEccCCCCCHHHHHHHHHHHH-HhCCCEEEECC-CChH--HhHHHH-HHHHHCCCeEEE
Confidence 5666677888889999999988642 332 2233333 45899887642 2111 123333 455678999987
Q ss_pred eeC
Q 013801 253 FWG 255 (436)
Q Consensus 253 ~~~ 255 (436)
++.
T Consensus 88 ~~~ 90 (275)
T cd06320 88 VND 90 (275)
T ss_pred ECC
Confidence 764
No 133
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=30.72 E-value=1.4e+02 Score=29.30 Aligned_cols=48 Identities=15% Similarity=0.117 Sum_probs=40.4
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 206 PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 206 ~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
..+.+.+++++.+++.|+=.. .||+-+.-++..+.|++.||++..|.-
T Consensus 54 ~~e~l~~~l~e~~i~llIDAT--HPyAa~iS~Na~~aake~gipy~r~eR 101 (257)
T COG2099 54 GAEGLAAFLREEGIDLLIDAT--HPYAARISQNAARAAKETGIPYLRLER 101 (257)
T ss_pred CHHHHHHHHHHcCCCEEEECC--ChHHHHHHHHHHHHHHHhCCcEEEEEC
Confidence 357799999999999887664 489999999999999999999987653
No 134
>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=30.57 E-value=3.5e+02 Score=26.07 Aligned_cols=72 Identities=14% Similarity=0.152 Sum_probs=42.8
Q ss_pred HHHHHHHHhCCCeEEEEEC-ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCe
Q 013801 186 SDLRKNLQARGSDLVVRVG-KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGST 257 (436)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~G-~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~ 257 (436)
..|++-|++.+.-++.+-| -.-.++..++.+.|...+.++-++......-.+.+++.|++.||+.+.++-+.
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 4667778877665555554 34456667777766554434433321111223456778888999988776543
No 135
>PRK05265 pyridoxine 5'-phosphate synthase; Provisional
Probab=30.34 E-value=3.6e+02 Score=26.26 Aligned_cols=69 Identities=17% Similarity=0.223 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEecc-CC-------chHHHHHHHHHHHHHhcCCcEEE
Q 013801 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHRE-VS-------HDEVKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e-~~-------p~~~~rd~~l~~~l~~~gI~v~~ 252 (436)
+-|+..-+.|++.||++-++.... ..-.+.+++.|++.|-.+.. |. ..+..+-....+...+.|+.|..
T Consensus 113 ~~l~~~i~~L~~~gIrVSLFidP~-~~qi~~A~~~GAd~VELhTG~yA~a~~~~~~~el~~~~~aa~~a~~lGL~VnA 189 (239)
T PRK05265 113 DKLKPAIARLKDAGIRVSLFIDPD-PEQIEAAAEVGADRIELHTGPYADAKTEAEAAELERIAKAAKLAASLGLGVNA 189 (239)
T ss_pred HHHHHHHHHHHHCCCEEEEEeCCC-HHHHHHHHHhCcCEEEEechhhhcCCCcchHHHHHHHHHHHHHHHHcCCEEec
Confidence 556777788889999997776433 33447788999999866542 21 11223333333445566877763
No 136
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=30.31 E-value=4.2e+02 Score=25.74 Aligned_cols=70 Identities=10% Similarity=0.113 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--hH--HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--PE--TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~~--~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|+.+-+..+++.+++.|..+++...+ .. ..+.+.+...+++.|++..... +..+.+.+.+.|+++..++.
T Consensus 73 f~~~l~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~l~~~~vdGiIi~~~~~------~~~~~~~l~~~~iPvV~~~~ 146 (329)
T TIGR01481 73 YYAELARGIEDIATMYKYNIILSNSDEDPEKEVQVLNTLLSKQVDGIIFMGGTI------TEKLREEFSRSPVPVVLAGT 146 (329)
T ss_pred hHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCC------ChHHHHHHHhcCCCEEEEec
Confidence 55566677788899999999887532 21 1222334457899988753211 11233456667999987764
No 137
>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=29.76 E-value=2e+02 Score=27.54 Aligned_cols=74 Identities=20% Similarity=0.306 Sum_probs=51.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEE
Q 013801 173 TGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 173 ~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~ 252 (436)
.|+-|--|+.+-+..+.+.+++.|..+++...+..+ +..+..+++.|+..... .. +..+ +.+.+.++++..
T Consensus 14 ~~~~~~~~~~~~~~~i~~~~~~~gy~~~~~~~~~~~---~~l~~~~vdgiIi~~~~-~~----~~~~-~~l~~~~iPvV~ 84 (269)
T cd06287 14 GGPSRLGFMMEVAAAAAESALERGLALCLVPPHEAD---SPLDALDIDGAILVEPM-AD----DPQV-ARLRQRGIPVVS 84 (269)
T ss_pred CCcccCccHHHHHHHHHHHHHHCCCEEEEEeCCCch---hhhhccCcCeEEEecCC-CC----CHHH-HHHHHcCCCEEE
Confidence 367788899999999999999999999887543111 24456789988764311 11 1223 345667999988
Q ss_pred eeC
Q 013801 253 FWG 255 (436)
Q Consensus 253 ~~~ 255 (436)
++.
T Consensus 85 i~~ 87 (269)
T cd06287 85 IGR 87 (269)
T ss_pred eCC
Confidence 764
No 138
>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=29.67 E-value=3.8e+02 Score=26.19 Aligned_cols=71 Identities=15% Similarity=0.237 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHHHhC-----CCeEEEEECChHHHHHHHHHHhCCCEEEEe---ccCCchHHHHHHHHHHHHHhcCC
Q 013801 177 RASFLIESVSDLRKNLQAR-----GSDLVVRVGKPETVLVELAKAIGADAVYAH---REVSHDEVKSEEKIEAAMKDEGI 248 (436)
Q Consensus 177 r~~FL~esL~~L~~~L~~~-----Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~---~e~~p~~~~rd~~l~~~l~~~gI 248 (436)
+..=+.+.|..|.+.+++. |-.+++.+ +.+.-|++.+|...+... .+.+|.... -.++.+.+++.||
T Consensus 147 N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H----~af~Y~~~~~gl~~~~~~~~~~~~eps~~~-l~~l~~~ik~~~v 221 (282)
T cd01017 147 NAAAYAKKLEALDQEYRAKLAKAKGKTFVTQH----AAFGYLARRYGLKQIAIVGVSPEVEPSPKQ-LAELVEFVKKSDV 221 (282)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCeEEEec----ccHHHHHHHCCCeEEecccCCCCCCCCHHH-HHHHHHHHHHcCC
Confidence 3444556677777776652 44455544 478899999999977542 233444343 4567778899999
Q ss_pred cEEE
Q 013801 249 EVKY 252 (436)
Q Consensus 249 ~v~~ 252 (436)
.+..
T Consensus 222 ~~if 225 (282)
T cd01017 222 KYIF 225 (282)
T ss_pred CEEE
Confidence 9874
No 139
>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=29.58 E-value=96 Score=28.40 Aligned_cols=15 Identities=33% Similarity=0.563 Sum_probs=6.0
Q ss_pred HHHhCCCeEEEEECC
Q 013801 191 NLQARGSDLVVRVGK 205 (436)
Q Consensus 191 ~L~~~Gi~L~v~~G~ 205 (436)
.|++.|+.+.+..+.
T Consensus 86 ~L~~~g~~~~i~Sn~ 100 (205)
T TIGR01454 86 ELRADGVGTAIATGK 100 (205)
T ss_pred HHHHCCCeEEEEeCC
Confidence 333344444444333
No 140
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=29.45 E-value=1.8e+02 Score=23.56 Aligned_cols=33 Identities=12% Similarity=0.295 Sum_probs=17.5
Q ss_pred CCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 218 GADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 218 ~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
.+..||...|.++... ..+...|++.||++.++
T Consensus 29 ~~~~v~iA~Da~~~vv---~~l~~lceek~Ip~v~V 61 (84)
T PRK13600 29 QVTSLIIAEDVEVYLM---TRVLSQINQKNIPVSFF 61 (84)
T ss_pred CceEEEEeCCCCHHHH---HHHHHHHHHcCCCEEEE
Confidence 4555555555554422 35555566666665543
No 141
>KOG1014 consensus 17 beta-hydroxysteroid dehydrogenase type 3, HSD17B3 [Lipid transport and metabolism]
Probab=29.45 E-value=1.9e+02 Score=29.27 Aligned_cols=63 Identities=14% Similarity=0.231 Sum_probs=38.0
Q ss_pred HHHHHHHHhCCCeEEEEECChHHHHHHHHH----HhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcE
Q 013801 186 SDLRKNLQARGSDLVVRVGKPETVLVELAK----AIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEV 250 (436)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~----~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v 250 (436)
+.+.++|.++|..++ +.+...+.|..+++ ++++..=+...|++.... .-+++++.|....|.+
T Consensus 63 KayA~eLAkrG~nvv-LIsRt~~KL~~v~kEI~~~~~vev~~i~~Dft~~~~-~ye~i~~~l~~~~VgI 129 (312)
T KOG1014|consen 63 KAYARELAKRGFNVV-LISRTQEKLEAVAKEIEEKYKVEVRIIAIDFTKGDE-VYEKLLEKLAGLDVGI 129 (312)
T ss_pred HHHHHHHHHcCCEEE-EEeCCHHHHHHHHHHHHHHhCcEEEEEEEecCCCch-hHHHHHHHhcCCceEE
Confidence 567889999999954 55566666665554 466544444445654433 3356777776444443
No 142
>cd05855 Ig_TrkB_d5 Fifth domain (immunoglobulin-like) of Trk receptor TrkB. TrkB_d5: the fifth domain of Trk receptor TrkB, this is an immunoglobulin (Ig)-like domain which binds to neurotrophin. The Trk family of receptors are tyrosine kinase receptors, which mediate the trophic effects of the neurotrophin Nerve growth factor (NGF) family. The Trks are activated by dimerization, leading to autophosphorylation of intracellular tyrosine residues, and triggering the signal transduction pathway. TrkB shares significant sequence homology and domain organization with TrkA, and TrkC. The first three domains are leucine-rich domains. The fourth and fifth domains are Ig-like domains playing a part in ligand binding. TrKB is recognized by brain-derived neurotrophic factor (BDNF) and neurotrophin (NT)-4. In some cell systems NT-3 can activate TrkA and TrkB receptors. TrKB transcripts are found throughout multiple structures of the central and peripheral nervous systems.
Probab=29.08 E-value=30 Score=27.48 Aligned_cols=21 Identities=14% Similarity=0.502 Sum_probs=17.9
Q ss_pred CCCCCeEEEEEeCCCCccCcH
Q 013801 120 AAIRRASIVWFRNDLRVHDNE 140 (436)
Q Consensus 120 ~~~~~~~LvWfRrDLRl~DN~ 140 (436)
.|.+++.|.|||++-.|.+..
T Consensus 8 ~G~P~Pti~W~kng~~l~~~~ 28 (79)
T cd05855 8 KGNPKPTLQWFHEGAILNESE 28 (79)
T ss_pred eEeCCCceEEEECCEECCCCc
Confidence 477889999999999998764
No 143
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=29.03 E-value=2.1e+02 Score=25.64 Aligned_cols=81 Identities=14% Similarity=0.108 Sum_probs=50.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHhCCCeEEEEE--CChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEE
Q 013801 174 GPYRASFLIESVSDLRKNLQARGSDLVVRV--GKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 174 ~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~--G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~ 251 (436)
+.++..|+.. .|++.|++++..- -.+.+++.+ +-+.++..|....-+. .....-..+.+.|++.|+.-.
T Consensus 25 Hd~gakvia~-------~l~d~GfeVi~~g~~~tp~e~v~a-A~~~dv~vIgvSsl~g-~h~~l~~~lve~lre~G~~~i 95 (143)
T COG2185 25 HDRGAKVIAR-------ALADAGFEVINLGLFQTPEEAVRA-AVEEDVDVIGVSSLDG-GHLTLVPGLVEALREAGVEDI 95 (143)
T ss_pred cccchHHHHH-------HHHhCCceEEecCCcCCHHHHHHH-HHhcCCCEEEEEeccc-hHHHHHHHHHHHHHHhCCcce
Confidence 4566666544 4556798888753 345555554 4556788877665433 445566788899999999876
Q ss_pred EeeCCeeeeCCC
Q 013801 252 YFWGSTLYHLDD 263 (436)
Q Consensus 252 ~~~~~~Lv~p~~ 263 (436)
.+-.-..+++++
T Consensus 96 ~v~~GGvip~~d 107 (143)
T COG2185 96 LVVVGGVIPPGD 107 (143)
T ss_pred EEeecCccCchh
Confidence 633333334443
No 144
>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=29.03 E-value=4.9e+02 Score=24.41 Aligned_cols=72 Identities=14% Similarity=0.153 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
.|+..-+..+++.+++.|..+.+... +.. +.+.. +...+++.|++... .+.. ....+ +.+.+.||++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~i~~-~~~~~~Dgiii~~~-~~~~--~~~~i-~~~~~~~iPvV~~ 86 (282)
T cd06318 12 PFFAALTEAAKAHAKALGYELISTDAQGDLTKQIADVED-LLTRGVNVLIINPV-DPEG--LVPAV-AAAKAAGVPVVVV 86 (282)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHH-HHHcCCCEEEEecC-Cccc--hHHHH-HHHHHCCCCEEEe
Confidence 36777788889999999999988653 322 23333 34568998887532 1211 12233 4445689999887
Q ss_pred eC
Q 013801 254 WG 255 (436)
Q Consensus 254 ~~ 255 (436)
+.
T Consensus 87 ~~ 88 (282)
T cd06318 87 DS 88 (282)
T ss_pred cC
Confidence 64
No 145
>PRK10826 2-deoxyglucose-6-phosphatase; Provisional
Probab=29.01 E-value=77 Score=29.52 Aligned_cols=28 Identities=14% Similarity=0.137 Sum_probs=10.9
Q ss_pred HHHHHHhCCCeEEEEECChHHHHHHHHH
Q 013801 188 LRKNLQARGSDLVVRVGKPETVLVELAK 215 (436)
Q Consensus 188 L~~~L~~~Gi~L~v~~G~~~~~L~~L~~ 215 (436)
+=+.|+++|+++.+..+.....+..+++
T Consensus 100 ~l~~l~~~g~~~~i~S~~~~~~~~~~l~ 127 (222)
T PRK10826 100 ALALCKAQGLKIGLASASPLHMLEAVLT 127 (222)
T ss_pred HHHHHHHCCCeEEEEeCCcHHHHHHHHH
Confidence 3333444444444444333333333333
No 146
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=28.86 E-value=4.2e+02 Score=25.22 Aligned_cols=69 Identities=17% Similarity=0.282 Sum_probs=42.7
Q ss_pred HHHhCCCeEEEEECChHHHHHHHHHHhCCC-----EE------EEe---ccC---CchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 191 NLQARGSDLVVRVGKPETVLVELAKAIGAD-----AV------YAH---REV---SHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 191 ~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~-----~V------~~~---~e~---~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
.|++.|+.+.+-.|.+...+..++++.+.. .| +++ .++ .+-....-+.+.+.+++.++.+..+
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 367789999999999988888888887753 12 221 110 0001122344556667778877766
Q ss_pred eCCeee
Q 013801 254 WGSTLY 259 (436)
Q Consensus 254 ~~~~Lv 259 (436)
..+.++
T Consensus 111 ~~~~~~ 116 (270)
T PRK10513 111 DRNTLY 116 (270)
T ss_pred ECCEEE
Confidence 655544
No 147
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=28.77 E-value=1.2e+02 Score=25.28 Aligned_cols=41 Identities=32% Similarity=0.519 Sum_probs=30.5
Q ss_pred HHHHHHHHHhCCCeEEEE-ECChHHHHHHHHHHhC--CCEEEEecc
Q 013801 185 VSDLRKNLQARGSDLVVR-VGKPETVLVELAKAIG--ADAVYAHRE 227 (436)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~-~G~~~~~L~~L~~~~~--a~~V~~~~e 227 (436)
|.....+|++.|+.|+++ .|+... +.++++..+ .. ||++.+
T Consensus 2 L~~~~~~l~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~-ly~D~~ 45 (115)
T PF13911_consen 2 LSRRKPELEAAGVKLVVIGCGSPEG-IEKFCELTGFPFP-LYVDPE 45 (115)
T ss_pred hhHhHHHHHHcCCeEEEEEcCCHHH-HHHHHhccCCCCc-EEEeCc
Confidence 567788999999999876 466655 889996544 44 888763
No 148
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=28.72 E-value=3.6e+02 Score=23.59 Aligned_cols=62 Identities=16% Similarity=0.249 Sum_probs=43.0
Q ss_pred HHHHHHHHhCCCeEEEEE-CChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCC
Q 013801 186 SDLRKNLQARGSDLVVRV-GKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGI 248 (436)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~-G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI 248 (436)
.-+..-|+..|.+++++- .-+.+.+.+.+.+.+++.|....-.+...... +.+.+.|++.+.
T Consensus 21 ~iv~~~lr~~G~eVi~LG~~vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~-~~~~~~L~~~~~ 83 (137)
T PRK02261 21 KILDRALTEAGFEVINLGVMTSQEEFIDAAIETDADAILVSSLYGHGEIDC-RGLREKCIEAGL 83 (137)
T ss_pred HHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEcCccccCHHHH-HHHHHHHHhcCC
Confidence 334457788999998874 34678899999999999998876555443333 445566666644
No 149
>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=28.71 E-value=2.8e+02 Score=32.13 Aligned_cols=39 Identities=18% Similarity=0.343 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCC
Q 013801 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (436)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~ 220 (436)
.+.+.+.=+.|++.|+.+.+..||.......++++.|+.
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 466677777888999999999999999999999999986
No 150
>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=28.68 E-value=1.7e+02 Score=24.42 Aligned_cols=67 Identities=16% Similarity=0.170 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHHHhCC-CeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHH
Q 013801 177 RASFLIESVSDLRKNLQARG-SDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAM 243 (436)
Q Consensus 177 r~~FL~esL~~L~~~L~~~G-i~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l 243 (436)
+..+|.+-.......|++.| +.=.+..--..++...|++.+|-..||+-.........|+..|.+..
T Consensus 3 ~~e~l~~l~~~i~~~l~~~g~i~~~~a~~ig~~~~~~L~~~~gG~~iyiP~~~~~~~~~R~~~I~~~f 70 (108)
T PF08765_consen 3 WPELLSELADVIAAELERLGEIDAELAEIIGEEVALKLCRYFGGQQIYIPKCDRLLRALRNREIRREF 70 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHTS-S-----TTSHHHHHHHHHHHH-SS------SHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHHHHHHHCCEeEEeeCccHHHHHHHHHHHHHHh
Confidence 44677777788889999999 66444555577888999999999999986544333445566666543
No 151
>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=28.68 E-value=1e+02 Score=28.70 Aligned_cols=37 Identities=16% Similarity=0.227 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHh
Q 013801 181 LIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAI 217 (436)
Q Consensus 181 L~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~ 217 (436)
+..++.++-+.|++.|+++.|..+.....+..+++.+
T Consensus 71 l~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~ 107 (214)
T TIGR03333 71 IREGFREFVAFINEHGIPFYVISGGMDFFVYPLLEGI 107 (214)
T ss_pred ccccHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHhh
Confidence 3445566666666667776666666555555555543
No 152
>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=28.64 E-value=2.5e+02 Score=25.08 Aligned_cols=58 Identities=12% Similarity=0.095 Sum_probs=44.9
Q ss_pred CHHHHHHHHHHHHHHHHHHHhCCCeEEEEEC-----ChH---HHHHHHHHHhCCCEEEEeccCCch
Q 013801 174 GPYRASFLIESVSDLRKNLQARGSDLVVRVG-----KPE---TVLVELAKAIGADAVYAHREVSHD 231 (436)
Q Consensus 174 ~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G-----~~~---~~L~~L~~~~~a~~V~~~~e~~p~ 231 (436)
....+..+.+.|+.+.+.+++.|+.+.+-.. ... +.+.+++++.+-..|.+.-+..+.
T Consensus 103 ~~~~~~~~~~~l~~l~~~a~~~gv~i~lE~~~~~~~~~~~~~~~~~~~l~~~~~~~~~i~~D~~h~ 168 (213)
T PF01261_consen 103 TEENWERLAENLRELAEIAEEYGVRIALENHPGPFSETPFSVEEIYRLLEEVDSPNVGICFDTGHL 168 (213)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTSEEEEE-SSSSSSSEESSHHHHHHHHHHHTTTTEEEEEEHHHH
T ss_pred HHHHHHHHHHHHHHHHhhhhhhcceEEEecccCccccchhhHHHHHHHHhhcCCCcceEEEehHHH
Confidence 3567889999999999999999999887641 122 788999999988777777665433
No 153
>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=28.62 E-value=4.2e+02 Score=24.74 Aligned_cols=73 Identities=18% Similarity=0.266 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHhC---CC--eEEEEEC--Ch---HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCC
Q 013801 179 SFLIESVSDLRKNLQAR---GS--DLVVRVG--KP---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGI 248 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~---Gi--~L~v~~G--~~---~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI 248 (436)
.|+.+-+..+++.+++. |. .+++..+ +. .+.+..+.. .+++.|+.... ... ..+..+ +.+++.||
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 36777777888888888 97 5666653 32 233444444 48999988542 111 112233 45667899
Q ss_pred cEEEeeCC
Q 013801 249 EVKYFWGS 256 (436)
Q Consensus 249 ~v~~~~~~ 256 (436)
++..++..
T Consensus 87 Pvv~~~~~ 94 (272)
T cd06300 87 PVVSFDGT 94 (272)
T ss_pred eEEEEecC
Confidence 99988743
No 154
>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=28.32 E-value=2.3e+02 Score=25.26 Aligned_cols=41 Identities=15% Similarity=0.153 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCC
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~ 220 (436)
.++.++|..|.++-. ...+++|..+...+...+++++.+..
T Consensus 10 ~~l~~~l~sl~~q~~-~~~eiiivD~~s~d~t~~~~~~~~~~ 50 (202)
T cd04185 10 DLLKECLDALLAQTR-PPDHIIVIDNASTDGTAEWLTSLGDL 50 (202)
T ss_pred HHHHHHHHHHHhccC-CCceEEEEECCCCcchHHHHHHhcCC
Confidence 467778887765422 25678888766555666777766544
No 155
>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=28.13 E-value=4.9e+02 Score=24.22 Aligned_cols=70 Identities=13% Similarity=0.205 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC-----hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK-----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~-----~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|..+-+..+++.+++.|..+.+..+. ..+.+..+. ..+++.|++... .... ..+ +.+.+.|+++..++
T Consensus 13 ~~~~~~~g~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~~~-~~~vdgii~~~~-~~~~----~~~-~~~~~~~ipvV~~~ 85 (268)
T cd06270 13 FFGPLLSGVESVARKAGKHLIITAGHHSAEKEREAIEFLL-ERRCDALILHSK-ALSD----DEL-IELAAQVPPLVLIN 85 (268)
T ss_pred chHHHHHHHHHHHHHCCCEEEEEeCCCchHHHHHHHHHHH-HcCCCEEEEecC-CCCH----HHH-HHHhhCCCCEEEEe
Confidence 66677778888999999999887532 223333333 468998887532 1111 113 34456799998876
Q ss_pred CC
Q 013801 255 GS 256 (436)
Q Consensus 255 ~~ 256 (436)
..
T Consensus 86 ~~ 87 (268)
T cd06270 86 RH 87 (268)
T ss_pred cc
Confidence 53
No 156
>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=28.09 E-value=1.5e+02 Score=27.68 Aligned_cols=43 Identities=16% Similarity=0.213 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEe
Q 013801 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (436)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~ 225 (436)
+.+..++=+.|++.| ++.|.-|.....+..++++.|+..+++|
T Consensus 70 ~pga~ell~~lk~~~-~~~IVS~~~~~~~~~il~~lgi~~~~an 112 (203)
T TIGR02137 70 LEGAVEFVDWLRERF-QVVILSDTFYEFSQPLMRQLGFPTLLCH 112 (203)
T ss_pred CccHHHHHHHHHhCC-eEEEEeCChHHHHHHHHHHcCCchhhce
Confidence 345556666777754 7888888877778888888888877775
No 157
>COG3053 CitC Citrate lyase synthetase [Energy production and conversion]
Probab=28.01 E-value=4.3e+02 Score=26.82 Aligned_cols=108 Identities=13% Similarity=0.144 Sum_probs=70.7
Q ss_pred CCCCccCcHHHHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEECC------
Q 013801 132 NDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGK------ 205 (436)
Q Consensus 132 rDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~------ 205 (436)
+-+-+---.-...|++++ ..+-+||.....- - ..-..|+..+.+++.+|..---..|++.++-...
T Consensus 155 NPFTLGH~YLVEqAaaqc-DwlHLFvV~eD~S-----~--f~y~~R~~Lv~~G~~~l~Nvt~HsgsdYiISrATFP~YFi 226 (352)
T COG3053 155 NPFTLGHRYLVEQAAAQC-DWLHLFVVKEDSS-----L--FPYEDRLDLVKKGTADLPNVTVHSGSDYIISRATFPAYFI 226 (352)
T ss_pred CCccchhHHHHHHHHhhC-CEEEEEEEecccc-----c--CCHHHHHHHHHHhhccCCceEEecCCCeEEEecccchhhh
Confidence 455554444455677765 4677888743221 1 2235799999999999988777778888875421
Q ss_pred -------------hHHHHHH-HHHHhCCCEEEEeccCC-chHHHHHHHHHHHHHhcC
Q 013801 206 -------------PETVLVE-LAKAIGADAVYAHREVS-HDEVKSEEKIEAAMKDEG 247 (436)
Q Consensus 206 -------------~~~~L~~-L~~~~~a~~V~~~~e~~-p~~~~rd~~l~~~l~~~g 247 (436)
...++.+ ++...|+++=|+-.|.- +--...-++++.||.+.+
T Consensus 227 Keq~vv~~s~t~iDl~iFr~~iA~aLgIThRfVG~EP~c~vT~~YNq~M~~~L~~~~ 283 (352)
T COG3053 227 KEQSVVNDSQTEIDLKIFRKYIAPALGITHRFVGTEPFCRVTAIYNQQMRYWLEDPT 283 (352)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhCcceeeecCCCCcHHHHHHHHHHHHHHhccC
Confidence 2244555 66778999988877653 222344678888988766
No 158
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=27.97 E-value=1.3e+02 Score=30.95 Aligned_cols=52 Identities=12% Similarity=0.115 Sum_probs=36.8
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCchHHHHHH-HHHHHHHhcCCcEEEeeCCe
Q 013801 206 PETVLVELAKAIGADAVYAHREVSHDEVKSEE-KIEAAMKDEGIEVKYFWGST 257 (436)
Q Consensus 206 ~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~-~l~~~l~~~gI~v~~~~~~~ 257 (436)
-.+.|.+++++++++.|+.+..-..+....+. .|++.+++.||++-.++++.
T Consensus 301 R~~~i~~lv~~~~~DGVI~~~~kfC~~~~~e~~~lk~~l~e~GIP~L~iE~D~ 353 (377)
T TIGR03190 301 RYDHVLGLAKEYNVQGAIFLQQKFCDPHEGDYPDLKRHLEANGIPTLFLEFDI 353 (377)
T ss_pred HHHHHHHHHHHhCCCEEEEecccCCCcchhhhHHHHHHHHHCCCCEEEEecCC
Confidence 36778899999999999877644333333333 56777888999998776543
No 159
>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=27.53 E-value=5.3e+02 Score=24.35 Aligned_cols=70 Identities=21% Similarity=0.431 Sum_probs=45.0
Q ss_pred HHHHhCCCeEEEEECChHHHHHHHHHHhCCC-E-------EEEec--cC---CchHHHHHHHHHHHHHhcCCcEEEeeCC
Q 013801 190 KNLQARGSDLVVRVGKPETVLVELAKAIGAD-A-------VYAHR--EV---SHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (436)
Q Consensus 190 ~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~-~-------V~~~~--e~---~p~~~~rd~~l~~~l~~~gI~v~~~~~~ 256 (436)
+.|++.|+.+.+..|.....+..++++.+.. . ++++. .+ .+-....-+.+.+.+++.++.+..+.+.
T Consensus 26 ~~l~~~G~~~~iaTGR~~~~~~~~~~~~~~~~~~I~~NGa~i~~~~~~~i~~~~i~~~~~~~i~~~~~~~~~~~~~~~~~ 105 (256)
T TIGR00099 26 AKLREKGIKVVLATGRPYKEVKNILKELGLDTPFITANGAAVIDDQGEILYKKPLDLDLVEEILNFLKKHGLDVILYGDD 105 (256)
T ss_pred HHHHHCCCeEEEEeCCCHHHHHHHHHHcCCCCCEEEcCCcEEECCCCCEEeecCCCHHHHHHHHHHHHHcCcEEEEEeCC
Confidence 3467789999999999988888888887766 1 22211 10 1111234456677888888877665555
Q ss_pred eee
Q 013801 257 TLY 259 (436)
Q Consensus 257 ~Lv 259 (436)
..+
T Consensus 106 ~~~ 108 (256)
T TIGR00099 106 SIY 108 (256)
T ss_pred eEE
Confidence 443
No 160
>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=27.53 E-value=1.4e+02 Score=27.94 Aligned_cols=26 Identities=15% Similarity=0.316 Sum_probs=12.3
Q ss_pred HHHhCCCeEEEEECChHHHHHHHHHH
Q 013801 191 NLQARGSDLVVRVGKPETVLVELAKA 216 (436)
Q Consensus 191 ~L~~~Gi~L~v~~G~~~~~L~~L~~~ 216 (436)
.|++.|..+.|..+.+...+..+++.
T Consensus 106 ~l~~~G~~v~IvSas~~~~~~~ia~~ 131 (210)
T TIGR01545 106 YLESSDADIWLITGSPQPLVEAVYFD 131 (210)
T ss_pred HHHhCCCEEEEEcCCcHHHHHHHHHh
Confidence 34444555555554444444444443
No 161
>PF00289 CPSase_L_chain: Carbamoyl-phosphate synthase L chain, N-terminal domain; InterPro: IPR005481 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the N-terminal domain of the large subunit of carbamoyl phosphate synthase. This domain can also be found in certain other related proteins. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VA7_A 3OUU_A 3OUZ_B 1W96_B 1W93_A 1ULZ_A 3HB9_C 3HO8_A 3BG5_C 3HBL_A ....
Probab=27.48 E-value=1.2e+02 Score=25.66 Aligned_cols=58 Identities=24% Similarity=0.286 Sum_probs=29.1
Q ss_pred HHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccC-CchHHHHHHHHHHHHHhcCCcE
Q 013801 190 KNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREV-SHDEVKSEEKIEAAMKDEGIEV 250 (436)
Q Consensus 190 ~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~-~p~~~~rd~~l~~~l~~~gI~v 250 (436)
+.|+++|+..++++.++...-.. .. -++.+|+...- ....+-.-+.|.+.+++.|+..
T Consensus 19 ra~r~~Gi~tv~v~s~~d~~s~~-~~--~ad~~~~~~~~~~~~~yl~~e~I~~ia~~~g~~~ 77 (110)
T PF00289_consen 19 RALRELGIETVAVNSNPDTVSTH-VD--MADEAYFEPPGPSPESYLNIEAIIDIARKEGADA 77 (110)
T ss_dssp HHHHHTTSEEEEEEEGGGTTGHH-HH--HSSEEEEEESSSGGGTTTSHHHHHHHHHHTTESE
T ss_pred HHHHHhCCcceeccCchhccccc-cc--ccccceecCcchhhhhhccHHHHhhHhhhhcCcc
Confidence 45777899999887554332221 22 25566655411 1111112334555566665544
No 162
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=27.45 E-value=2e+02 Score=22.97 Aligned_cols=41 Identities=22% Similarity=0.223 Sum_probs=27.5
Q ss_pred HHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 211 VELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 211 ~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
.+-+++-.+.-|+...+.++. ..+.+...|++.+|++..+.
T Consensus 20 ~kai~~gkaklViiA~D~~~~---~~~~i~~~c~~~~Vp~~~~~ 60 (82)
T PRK13602 20 VKALKRGSVKEVVVAEDADPR---LTEKVEALANEKGVPVSKVD 60 (82)
T ss_pred HHHHHcCCeeEEEEECCCCHH---HHHHHHHHHHHcCCCEEEEC
Confidence 344455567778887777653 34567778888888887654
No 163
>TIGR01428 HAD_type_II 2-haloalkanoic acid dehalogenase, type II. Note that the Type I HAD enzymes have not yet been fully characterized, but clearly utilize a substantially different catalytic mechanism and are thus unlikely to be related.
Probab=27.45 E-value=1.2e+02 Score=27.64 Aligned_cols=35 Identities=26% Similarity=0.331 Sum_probs=17.0
Q ss_pred HHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhC
Q 013801 184 SVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIG 218 (436)
Q Consensus 184 sL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~ 218 (436)
++.++=+.|+++|+.+.+..+...+.+...++..|
T Consensus 96 ~~~~~L~~L~~~g~~~~i~Sn~~~~~~~~~l~~~g 130 (198)
T TIGR01428 96 DVPAGLRALKERGYRLAILSNGSPAMLKSLVKHAG 130 (198)
T ss_pred CHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHCC
Confidence 33344444555555555555444444444444444
No 164
>PRK00074 guaA GMP synthase; Reviewed
Probab=27.24 E-value=2.7e+02 Score=30.10 Aligned_cols=74 Identities=15% Similarity=0.273 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEE-E-CChHHHHHHHHHHh---CCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 180 FLIESVSDLRKNLQARGSDLVVR-V-GKPETVLVELAKAI---GADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~-~-G~~~~~L~~L~~~~---~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|+-+.++.|++.+++. .+++. - |-.-.++..++.+. ++.+|+++....+. ...++..+..|++.||+++.++
T Consensus 201 ~~~~~~~~l~~~v~~~--~vlva~SGGvDS~vll~ll~~~lg~~v~av~vd~g~~~~-~e~~~~~~~~a~~lgi~~~vvd 277 (511)
T PRK00074 201 FIEEAIEEIREQVGDK--KVILGLSGGVDSSVAAVLLHKAIGDQLTCVFVDHGLLRK-NEAEQVMEMFREHFGLNLIHVD 277 (511)
T ss_pred HHHHHHHHHHHhcCCC--cEEEEeCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCH-HHHHHHHHHHHHHcCCcEEEEc
Confidence 5566677777777753 34433 2 44455566666544 46677777665432 2334444345688999998766
Q ss_pred CC
Q 013801 255 GS 256 (436)
Q Consensus 255 ~~ 256 (436)
-.
T Consensus 278 ~~ 279 (511)
T PRK00074 278 AS 279 (511)
T ss_pred cH
Confidence 43
No 165
>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=27.21 E-value=4.8e+02 Score=24.05 Aligned_cols=70 Identities=19% Similarity=0.203 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|..+-+..+++.+++.|..+.+.... .. ..+..+. ..+++.|+....- ... ..+ +.+++.|+++..++
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 44556677888888999999876542 22 2223333 4588888775421 111 123 44567899999886
Q ss_pred CC
Q 013801 255 GS 256 (436)
Q Consensus 255 ~~ 256 (436)
..
T Consensus 86 ~~ 87 (267)
T cd06283 86 RK 87 (267)
T ss_pred CC
Confidence 54
No 166
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=27.12 E-value=1.8e+02 Score=29.65 Aligned_cols=13 Identities=31% Similarity=0.370 Sum_probs=9.5
Q ss_pred ccHHHHHHHHHHH
Q 013801 338 GGETEALQRLKKF 350 (436)
Q Consensus 338 gGe~~A~~~L~~F 350 (436)
.|...|.+.++.|
T Consensus 244 IG~ktA~kli~~~ 256 (338)
T TIGR03674 244 IGPKTALKLIKEH 256 (338)
T ss_pred ccHHHHHHHHHHc
Confidence 5777777777765
No 167
>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=27.03 E-value=2.2e+02 Score=27.58 Aligned_cols=39 Identities=21% Similarity=0.200 Sum_probs=16.4
Q ss_pred HHHHHHHHhCCCeEEEEE-CChHHHHHHHHHHhCCCEEEE
Q 013801 186 SDLRKNLQARGSDLVVRV-GKPETVLVELAKAIGADAVYA 224 (436)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~-G~~~~~L~~L~~~~~a~~V~~ 224 (436)
..+.+.+++.|+.+++.+ +.....+..++++.|+..|..
T Consensus 207 ~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~~l 246 (266)
T cd01018 207 KRLIDLAKEKGVRVVFVQPQFSTKSAEAIAREIGAKVVTI 246 (266)
T ss_pred HHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHcCCeEEEe
Confidence 334444444455444443 222333334444444444433
No 168
>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=27.02 E-value=2.5e+02 Score=32.74 Aligned_cols=73 Identities=19% Similarity=0.136 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCC---------------------------EEEEeccCCchHHH
Q 013801 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD---------------------------AVYAHREVSHDEVK 234 (436)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~---------------------------~V~~~~e~~p~~~~ 234 (436)
.+..++.=+.|++.|+.+.++.||....-..++++.|+. .||+ ...|.++
T Consensus 581 r~~~~~aI~~l~~aGI~v~miTGD~~~tA~~iA~~~GI~~~~~~vi~G~~~~~l~~~el~~~i~~~~Vfa--r~sPe~K- 657 (941)
T TIGR01517 581 RPGVREAVQECQRAGITVRMVTGDNIDTAKAIARNCGILTFGGLAMEGKEFRRLVYEEMDPILPKLRVLA--RSSPLDK- 657 (941)
T ss_pred chhHHHHHHHHHHCCCEEEEECCCChHHHHHHHHHcCCCCCCceEeeHHHhhhCCHHHHHHHhccCeEEE--ECCHHHH-
Confidence 456666777888899999999999999999999999985 3554 3567765
Q ss_pred HHHHHHHHHHhcCCcEEEeeCCeeee
Q 013801 235 SEEKIEAAMKDEGIEVKYFWGSTLYH 260 (436)
Q Consensus 235 rd~~l~~~l~~~gI~v~~~~~~~Lv~ 260 (436)
.++.+.+++.|-.+ ..-|+.+.+
T Consensus 658 --~~iV~~lq~~g~vV-am~GDGvND 680 (941)
T TIGR01517 658 --QLLVLMLKDMGEVV-AVTGDGTND 680 (941)
T ss_pred --HHHHHHHHHCCCEE-EEECCCCch
Confidence 34556677666533 444444443
No 169
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=26.88 E-value=4.6e+02 Score=25.62 Aligned_cols=70 Identities=16% Similarity=0.184 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEC--ChH--HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVG--KPE--TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G--~~~--~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|+.+-+..+.+.+++.|..+.+... +.. ....+.+...+++.|++..... . +..+ +.+.+.|+++..+++
T Consensus 77 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~-~----~~~~-~~l~~~~iPvV~~~~ 150 (331)
T PRK14987 77 VFAEVLRGIESVTDAHGYQTMLAHYGYKPEMEQERLESMLSWNIDGLILTERTH-T----PRTL-KMIEVAGIPVVELMD 150 (331)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEecCCCCHHHHHHHHHHHHhcCCCEEEEcCCCC-C----HHHH-HHHHhCCCCEEEEec
Confidence 6667788888999999999887642 222 1222334467899988853211 1 2223 445667999987643
No 170
>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=26.81 E-value=5.1e+02 Score=24.04 Aligned_cols=71 Identities=21% Similarity=0.189 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEC--ChHH--HHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVG--KPET--VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G--~~~~--~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|..+-+..+++.+++.|..+.+... +... .+.+.+...+++.|+........ . .++ .+.+.|+++..++.
T Consensus 13 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~-~----~~~-~~~~~~ipvV~~~~ 86 (264)
T cd06274 13 SFARIAKRLEALARERGYQLLIACSDDDPETERETVETLIARQVDALIVAGSLPPD-D----PYY-LCQKAGLPVVALDR 86 (264)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCch-H----HHH-HHHhcCCCEEEecC
Confidence 4445556667788899999888753 3322 22233445689988875432111 1 133 45667999988765
Q ss_pred C
Q 013801 256 S 256 (436)
Q Consensus 256 ~ 256 (436)
.
T Consensus 87 ~ 87 (264)
T cd06274 87 P 87 (264)
T ss_pred c
Confidence 4
No 171
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=26.61 E-value=4.8e+02 Score=26.79 Aligned_cols=71 Identities=20% Similarity=0.323 Sum_probs=50.9
Q ss_pred HHHHHHHHHHhCCCeEEEEECC-----hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCC
Q 013801 184 SVSDLRKNLQARGSDLVVRVGK-----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (436)
Q Consensus 184 sL~~L~~~L~~~Gi~L~v~~G~-----~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~ 256 (436)
++..|...|++.|-.+++--|| ..+.|..+.++.|+..|--...-+|..+.+|. |. ..+.+|+.+...|..
T Consensus 155 TIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaVafDA-i~-~Akar~~DvvliDTA 230 (340)
T COG0552 155 TIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAVAFDA-IQ-AAKARGIDVVLIDTA 230 (340)
T ss_pred HHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHHHHHH-HH-HHHHcCCCEEEEeCc
Confidence 5677888888899999888776 56788888888888766544444566776663 43 335678888765543
No 172
>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=26.38 E-value=2.6e+02 Score=24.26 Aligned_cols=25 Identities=24% Similarity=0.207 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEECC
Q 013801 181 LIESVSDLRKNLQARGSDLVVRVGK 205 (436)
Q Consensus 181 L~esL~~L~~~L~~~Gi~L~v~~G~ 205 (436)
++.++.++=+.|+++|+.+.+..+.
T Consensus 28 ~~~g~~~~l~~Lk~~g~~~~I~Sn~ 52 (147)
T TIGR01656 28 LRPGAVPALLTLRAAGYTVVVVTNQ 52 (147)
T ss_pred EcCChHHHHHHHHHCCCEEEEEeCC
Confidence 4677788888888999999888654
No 173
>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=26.31 E-value=4.9e+02 Score=24.94 Aligned_cols=67 Identities=22% Similarity=0.297 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCeEEEEECC-----hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHH
Q 013801 175 PYRASFLIESVSDLRKNLQARGSDLVVRVGK-----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAA 242 (436)
Q Consensus 175 ~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~-----~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~ 242 (436)
..|..+...+|.++-..|.+.|+.+-|+.+. --..|.+.+++.++..+|... +.-+..-.++.|+..
T Consensus 74 ~~R~~~a~~~l~dl~~~l~~~~G~VAI~DATN~T~~RR~~l~~~~~~~~~~vlFIEs-ic~D~~ii~~NI~~~ 145 (222)
T PF01591_consen 74 KLREQIAKEALEDLIEWLQEEGGQVAIFDATNSTRERRKMLVERFKEHGIKVLFIES-ICDDPEIIERNIREK 145 (222)
T ss_dssp HHHHHHHHHHHHHHHHHHHTS--SEEEEES---SHHHHHHHHHHHHHTT-EEEEEEE-E---HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHHcCCcEEEEEE-EeCCHHHHHHHHHHH
Confidence 4677899999999999999999999999875 235677788888865555543 444444445556554
No 174
>PRK10530 pyridoxal phosphate (PLP) phosphatase; Provisional
Probab=26.30 E-value=4.7e+02 Score=24.76 Aligned_cols=67 Identities=10% Similarity=0.211 Sum_probs=42.3
Q ss_pred HHHhCCCeEEEEECChHHHHHHHHHHhCCCE--------EEEe---ccC---CchHHHHHHHHHHHHHhcCCcEEEeeCC
Q 013801 191 NLQARGSDLVVRVGKPETVLVELAKAIGADA--------VYAH---REV---SHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (436)
Q Consensus 191 ~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~--------V~~~---~e~---~p~~~~rd~~l~~~l~~~gI~v~~~~~~ 256 (436)
.|++.|+.+.+-.|.+...+..++++.+... ++++ .++ .+-....-+.+.+.+++.++.+..+.+.
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 4777899999999998888888888876652 2221 111 1112233456667777778876555444
Q ss_pred e
Q 013801 257 T 257 (436)
Q Consensus 257 ~ 257 (436)
.
T Consensus 111 ~ 111 (272)
T PRK10530 111 A 111 (272)
T ss_pred c
Confidence 3
No 175
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=26.26 E-value=5.4e+02 Score=23.98 Aligned_cols=72 Identities=18% Similarity=0.157 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEE----CChHH---HHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEE
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRV----GKPET---VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~----G~~~~---~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~ 251 (436)
.|+.+-+..+++.+++.|..+.+.. ++... .+..+ ...+++.|+.... .....+..+ +.+.+.|+++.
T Consensus 12 ~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l-~~~~vdgvii~~~---~~~~~~~~l-~~~~~~~ipvV 86 (273)
T cd06310 12 DFWQAVKAGAEAAAKELGVKVTFQGPASETDVAGQVNLLENA-IARGPDAILLAPT---DAKALVPPL-KEAKDAGIPVV 86 (273)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEecCccCCCHHHHHHHHHHH-HHhCCCEEEEcCC---ChhhhHHHH-HHHHHCCCCEE
Confidence 3667778888889999999999874 23332 23333 3458998887421 111112333 44566899998
Q ss_pred EeeC
Q 013801 252 YFWG 255 (436)
Q Consensus 252 ~~~~ 255 (436)
.++.
T Consensus 87 ~~~~ 90 (273)
T cd06310 87 LIDS 90 (273)
T ss_pred EecC
Confidence 8754
No 176
>PLN02347 GMP synthetase
Probab=26.26 E-value=3.1e+02 Score=30.00 Aligned_cols=77 Identities=17% Similarity=0.189 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEC-ChHHHHHHHHHH-h--CCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVG-KPETVLVELAKA-I--GADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G-~~~~~L~~L~~~-~--~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
.|+.+.++++++.+++.+--++-+-| -.-.++..++.+ . ++.+|+++....+.. +.++.++..+++.||+++.++
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 35667788888887765543444444 445666677776 3 467778886665443 234444556678899998877
Q ss_pred CC
Q 013801 255 GS 256 (436)
Q Consensus 255 ~~ 256 (436)
-.
T Consensus 292 ~~ 293 (536)
T PLN02347 292 AS 293 (536)
T ss_pred Cc
Confidence 54
No 177
>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=26.12 E-value=5.3e+02 Score=24.14 Aligned_cols=70 Identities=14% Similarity=0.090 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEE-C--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRV-G--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~-G--~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
|+.+-+..+.+.+++.|..+.+.. . +.. +.+.. +...+++.|+.... .+ ...++.++. +.+ |+++..+
T Consensus 12 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~i~~-l~~~~vDgiIi~~~-~~--~~~~~~l~~-~~~-~ipvV~~ 85 (271)
T cd06314 12 FWKIAEAGVKAAGKELGVDVEFVVPQQGTVNAQLRMLED-LIAEGVDGIAISPI-DP--KAVIPALNK-AAA-GIKLITT 85 (271)
T ss_pred HHHHHHHHHHHHHHHcCCeEEEeCCCCCCHHHHHHHHHH-HHhcCCCEEEEecC-Ch--hHhHHHHHH-Hhc-CCCEEEe
Confidence 677888899999999999998874 2 222 22233 44568998887531 11 112334443 345 9999887
Q ss_pred eC
Q 013801 254 WG 255 (436)
Q Consensus 254 ~~ 255 (436)
+.
T Consensus 86 ~~ 87 (271)
T cd06314 86 DS 87 (271)
T ss_pred cC
Confidence 54
No 178
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR 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,
Probab=26.09 E-value=5.2e+02 Score=23.81 Aligned_cols=69 Identities=17% Similarity=0.238 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--h---HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--P---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~---~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|..+-+..+++.+++.|..+.+...+ . .+.+..+ ...+++.|++..... . + ...+.+.+.|+++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l-~~~~vdgiii~~~~~-~----~-~~~~~~~~~~ipvv~~~ 85 (268)
T cd01575 13 VFADVLQGISDVLEAAGYQLLLGNTGYSPEREEELLRTL-LSRRPAGLILTGLEH-T----E-RTRQLLRAAGIPVVEIM 85 (268)
T ss_pred hHHHHHHHHHHHHHHcCCEEEEecCCCCchhHHHHHHHH-HHcCCCEEEEeCCCC-C----H-HHHHHHHhcCCCEEEEe
Confidence 44555577788899999999887542 2 2333343 456899888754222 1 1 22344566799998775
Q ss_pred C
Q 013801 255 G 255 (436)
Q Consensus 255 ~ 255 (436)
+
T Consensus 86 ~ 86 (268)
T cd01575 86 D 86 (268)
T ss_pred c
Confidence 4
No 179
>PRK14976 5'-3' exonuclease; Provisional
Probab=25.97 E-value=3.7e+02 Score=26.69 Aligned_cols=80 Identities=18% Similarity=0.247 Sum_probs=49.3
Q ss_pred cCCceeeEEEeCCC--CcCC-CCCCCCCCCH-HHHHHHHHHHHHHHHHHHhCCCeEEEEEC-ChHHHHHHHHHHh---CC
Q 013801 148 ESVSVLPVYCFDPR--DYGK-SSSGFDKTGP-YRASFLIESVSDLRKNLQARGSDLVVRVG-KPETVLVELAKAI---GA 219 (436)
Q Consensus 148 ~~~~vl~vyi~dp~--~~~~-~~~~~~~~~~-~r~~FL~esL~~L~~~L~~~Gi~L~v~~G-~~~~~L~~L~~~~---~a 219 (436)
...|-.+++|||.. .+.. ...+| +.+. ..-.-+.+.+..+++-|+..|++.+...| ++.|++..++++. |.
T Consensus 52 ~~~p~~~~v~fD~~~~~~R~~l~p~Y-KanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDviatla~~~~~~g~ 130 (281)
T PRK14976 52 KLNPSYILIAFDAGRKTFRHQLYDEY-KQGRKKTPESLISQIPLLKKILKLAGIKWEEQPGYEADDLIGSLAKKLSKQNI 130 (281)
T ss_pred hcCCCEEEEEEECCCCcccccccHHH-hcCCCCCCHHHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHHHHCCC
Confidence 44566678888852 1111 01111 1111 11135667788888899999999999887 7778888887754 44
Q ss_pred CEEEEeccC
Q 013801 220 DAVYAHREV 228 (436)
Q Consensus 220 ~~V~~~~e~ 228 (436)
..+++..+.
T Consensus 131 ~v~IvS~Dk 139 (281)
T PRK14976 131 TVLIYSSDK 139 (281)
T ss_pred eEEEEeCCC
Confidence 555665553
No 180
>PRK08238 hypothetical protein; Validated
Probab=25.92 E-value=2e+02 Score=30.95 Aligned_cols=66 Identities=24% Similarity=0.349 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCC-CEEEEeccCCch--HHHHHHHHHHHHHhcCC
Q 013801 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGA-DAVYAHREVSHD--EVKSEEKIEAAMKDEGI 248 (436)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a-~~V~~~~e~~p~--~~~rd~~l~~~l~~~gI 248 (436)
.+.+.++=+++++.|.++.+..+.....+..+++..|+ +.|++.++...- +.+. +.+++++.+.|+
T Consensus 74 ~pga~e~L~~lk~~G~~v~LaTas~~~~a~~i~~~lGlFd~Vigsd~~~~~kg~~K~-~~l~~~l~~~~~ 142 (479)
T PRK08238 74 NEEVLDYLRAERAAGRKLVLATASDERLAQAVAAHLGLFDGVFASDGTTNLKGAAKA-AALVEAFGERGF 142 (479)
T ss_pred ChhHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHHHcCCCCEEEeCCCccccCCchHH-HHHHHHhCccCe
Confidence 35567777778999999999999999989999999895 888888765322 1122 345556554443
No 181
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=25.80 E-value=4.7e+02 Score=24.99 Aligned_cols=73 Identities=16% Similarity=0.264 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
.|+.+-+..+++.+++.|..+.+.... +. +.+..+. ..+++.|+.... .... ....+ +.+.+.|+++..+
T Consensus 12 ~~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~-~~~~--~~~~l-~~l~~~~ipvV~~ 86 (288)
T cd01538 12 ERWIRDRPNFEAALKELGAEVIVQNANGDPAKQISQIENMI-AKGVDVLVIAPV-DGEA--LASAV-EKAADAGIPVIAY 86 (288)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHH-HcCCCEEEEecC-Chhh--HHHHH-HHHHHCCCCEEEE
Confidence 366677778888999999999988642 32 3333433 468998887531 1111 12233 3456689999987
Q ss_pred eCC
Q 013801 254 WGS 256 (436)
Q Consensus 254 ~~~ 256 (436)
+..
T Consensus 87 ~~~ 89 (288)
T cd01538 87 DRL 89 (288)
T ss_pred CCC
Confidence 643
No 182
>PRK11590 hypothetical protein; Provisional
Probab=25.71 E-value=1.7e+02 Score=27.23 Aligned_cols=37 Identities=14% Similarity=0.189 Sum_probs=21.5
Q ss_pred HHHHhCCCeEEEEECChHHHHHHHHHHhC---CCEEEEec
Q 013801 190 KNLQARGSDLVVRVGKPETVLVELAKAIG---ADAVYAHR 226 (436)
Q Consensus 190 ~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~---a~~V~~~~ 226 (436)
+.|++.|..+.|..+.+...+..+++..+ +.+|++++
T Consensus 106 ~~l~~~G~~l~IvSas~~~~~~~il~~l~~~~~~~~i~t~ 145 (211)
T PRK11590 106 TYLLSSDADVWLITGSPQPLVEQVYFDTPWLPRVNLIASQ 145 (211)
T ss_pred HHHHhCCCEEEEEeCCcHHHHHHHHHHccccccCceEEEE
Confidence 44555666666666666666666666555 34555543
No 183
>PF08444 Gly_acyl_tr_C: Aralkyl acyl-CoA:amino acid N-acyltransferase, C-terminal region; InterPro: IPR013652 This entry represents mammalian-specific glycine N-acyltransferase (also called aralkyl acyl-CoA:amino acid N-acyltransferase; 2.3.1.13 from EC). Mitochondrial acyltransferases catalyse the transfer of an acyl group from acyl-CoA to the N terminus of glycine to produce N-acylglycine. These enzymes can conjugate a multitude of substrates to form a variety of N-acylglycines. The CoA derivatives of a number of aliphatic and aromatic acids, but not phenylacetyl-CoA or (indol-3-yl)acetyl-CoA, can act as donor [, ].
Probab=25.62 E-value=1e+02 Score=25.31 Aligned_cols=47 Identities=15% Similarity=0.160 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEE
Q 013801 176 YRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAV 222 (436)
Q Consensus 176 ~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V 222 (436)
|+.-++...+..+.+.|.++|++++....+.-+...++.+..|...+
T Consensus 32 R~~G~~~~v~~~~~~~L~~~g~P~Y~hv~~~N~~~~r~~~~lg~~~~ 78 (89)
T PF08444_consen 32 RGQGLMSQVMYHLAQYLHKLGFPFYGHVDEDNEASQRLSKSLGFIFM 78 (89)
T ss_pred hcCCHHHHHHHHHHHHHHHCCCCeEeehHhccHHHHHHHHHCCCeec
Confidence 44568888899999999999999999887777778888887776544
No 184
>TIGR01449 PGP_bact 2-phosphoglycolate phosphatase, prokaryotic. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolase enzymes (pfam00702).
Probab=25.61 E-value=1.6e+02 Score=26.84 Aligned_cols=9 Identities=22% Similarity=0.039 Sum_probs=3.6
Q ss_pred HhCCCEEEE
Q 013801 216 AIGADAVYA 224 (436)
Q Consensus 216 ~~~a~~V~~ 224 (436)
+.|+...++
T Consensus 99 ~~g~~~~i~ 107 (213)
T TIGR01449 99 AKGLRLGLV 107 (213)
T ss_pred HCCCeEEEE
Confidence 335443333
No 185
>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=25.61 E-value=1.8e+02 Score=28.47 Aligned_cols=62 Identities=15% Similarity=0.065 Sum_probs=38.7
Q ss_pred HHHHHhCCCeEEEEECC-----hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCC
Q 013801 189 RKNLQARGSDLVVRVGK-----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (436)
Q Consensus 189 ~~~L~~~Gi~L~v~~G~-----~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~ 256 (436)
.+.+++.|.+++.+.+. ..+.+.+++++.+.+.|+++. |.-.. ...+.++..+..+..++|-
T Consensus 46 ~~~i~~~g~~v~~~~~~~~~~~d~~~~~~~l~~~~~d~vV~D~-y~~~~-----~~~~~~k~~~~~l~~iDD~ 112 (279)
T TIGR03590 46 IDLLLSAGFPVYELPDESSRYDDALELINLLEEEKFDILIVDH-YGLDA-----DWEKLIKEFGRKILVIDDL 112 (279)
T ss_pred HHHHHHcCCeEEEecCCCchhhhHHHHHHHHHhcCCCEEEEcC-CCCCH-----HHHHHHHHhCCeEEEEecC
Confidence 45667889998877643 234577788887888777765 43222 2223344457777777763
No 186
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=25.53 E-value=4.4e+02 Score=26.48 Aligned_cols=72 Identities=11% Similarity=0.136 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEE---CChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRV---GKPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~---G~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
|+.+-...+++..++.|+.+.+.. ++.. +.+..+.. .+++.|+... . +....+..++ .+.+.||++..+
T Consensus 37 f~~~~~~Gi~~aa~~~G~~v~~~~~~~~d~~~q~~~i~~li~-~~vdgIiv~~-~--d~~al~~~l~-~a~~~gIpVV~~ 111 (336)
T PRK15408 37 FFTSGGNGAKEAGKELGVDVTYDGPTEPSVSGQVQLINNFVN-QGYNAIIVSA-V--SPDGLCPALK-RAMQRGVKVLTW 111 (336)
T ss_pred HHHHHHHHHHHHHHHhCCEEEEECCCCCCHHHHHHHHHHHHH-cCCCEEEEec-C--CHHHHHHHHH-HHHHCCCeEEEe
Confidence 666777788888999999998742 2222 33444443 5899988852 2 2233344444 456689999988
Q ss_pred eCC
Q 013801 254 WGS 256 (436)
Q Consensus 254 ~~~ 256 (436)
+..
T Consensus 112 d~~ 114 (336)
T PRK15408 112 DSD 114 (336)
T ss_pred CCC
Confidence 764
No 187
>COG3622 Hfi Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]
Probab=25.42 E-value=5.3e+02 Score=25.34 Aligned_cols=102 Identities=13% Similarity=0.177 Sum_probs=66.9
Q ss_pred CCCccCcHHHHHHhhcC-CceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEE-------C
Q 013801 133 DLRVHDNESLNTANNES-VSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV-------G 204 (436)
Q Consensus 133 DLRl~DN~AL~~A~~~~-~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~-------G 204 (436)
++|..=-.|+.+|...+ ..|-++-...|.-. .....+.-+.+.|+--.+.|...||.+++-. |
T Consensus 82 ~fr~~v~~a~~ya~aLg~~~vh~mag~~p~~~---------~~~~~~~t~venLr~aAd~l~~~gi~~liEplN~~d~PG 152 (260)
T COG3622 82 EFRLGVALAIEYATALGCKQVHCLAGIPPEGV---------DTEAMWATFVENLRYAADLLAAEGIRLLIEPLNLRDMPG 152 (260)
T ss_pred HHHhHHHHHHHHHHHhCCCceeeeecCCCCCc---------cHHHHHHHHHHHHHHHHHHHHhcCCEEEEecCCCCCCCC
Confidence 45555556788887765 45555555555332 2345666778999999999999999999843 1
Q ss_pred ---ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHH
Q 013801 205 ---KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMK 244 (436)
Q Consensus 205 ---~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~ 244 (436)
.....-.+++++++...|+.+-++- .....+-.+...|.
T Consensus 153 ~~l~~~~~al~li~~V~~~Nl~lq~D~Y-H~Q~~eGnL~~~lr 194 (260)
T COG3622 153 YFLTSQEQALALIDEVGRPNLFLQLDLY-HAQIMEGNLTRLLR 194 (260)
T ss_pred cccccHHHHHHHHHHhCCCCeEeehhHH-HHHHhccHHHHHHH
Confidence 1223455788888888888887642 23444555555544
No 188
>cd08181 PPD-like 1,3-propanediol dehydrogenase-like (PPD). 1,3-propanediol dehydrogenase-like (PPD). This family is a member of the iron-containing alcohol dehydrogenase superfamily, and exhibits a dehydroquinate synthase-like fold. Protein sequence similarity search and other biochemical evidences suggest that they are close to the iron-containing 1,3-propanediol dehydrogenase (EC 1.1.1.202). 1,3-propanediol dehydrogenase catalyzes the oxidation of propane-1,3-diol to 3-hydroxypropanal with the simultaneous reduction of NADP+ to NADPH. The protein structure of Thermotoga maritima TM0920 gene contains one NADP+ and one iron ion.
Probab=25.34 E-value=1.8e+02 Score=29.60 Aligned_cols=76 Identities=13% Similarity=0.073 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeEEEEECCh-------HHHHHHHHHHhCCCEEEEec-cCCchHHHHHHHHHHHHHhcC
Q 013801 176 YRASFLIESVSDLRKNLQARGSDLVVRVGKP-------ETVLVELAKAIGADAVYAHR-EVSHDEVKSEEKIEAAMKDEG 247 (436)
Q Consensus 176 ~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~~-------~~~L~~L~~~~~a~~V~~~~-e~~p~~~~rd~~l~~~l~~~g 247 (436)
.|+.|=..++.++.+.+++.|-+.+|..|.. .+.+.+.+++.|+...+++. +.+|.... -.++.+.+++.+
T Consensus 5 ~~i~~G~g~l~~l~~~~~~~g~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~-v~~~~~~~~~~~ 83 (357)
T cd08181 5 TKVYFGENCVEKHGEELAALGKRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEENPSLET-IMEAVEIAKKFN 83 (357)
T ss_pred CeEEECCCHHHHHHHHHHHcCCEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCcCHHH-HHHHHHHHHhcC
Confidence 3444545567788888888887887776542 24566667777776655532 33343333 334556677777
Q ss_pred CcEEE
Q 013801 248 IEVKY 252 (436)
Q Consensus 248 I~v~~ 252 (436)
+.+..
T Consensus 84 ~D~II 88 (357)
T cd08181 84 ADFVI 88 (357)
T ss_pred CCEEE
Confidence 76543
No 189
>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=25.32 E-value=79 Score=25.63 Aligned_cols=42 Identities=21% Similarity=0.125 Sum_probs=22.9
Q ss_pred HHHHHHHhCCCEEEEeccCCchHHH-HHHHHHHHHHhcCCcEE
Q 013801 210 LVELAKAIGADAVYAHREVSHDEVK-SEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 210 L~~L~~~~~a~~V~~~~e~~p~~~~-rd~~l~~~l~~~gI~v~ 251 (436)
+.+++++.+++-|+.+......... -...++..+.+.+|++.
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 6666776677755555432222222 35566667777777653
No 190
>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=25.22 E-value=4.8e+02 Score=25.65 Aligned_cols=71 Identities=18% Similarity=0.184 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHHHh-------CCCeEEEEECChHHHHHHHHHHhCCCEEEEe---ccCCchHHHHHHHHHHHHHhc
Q 013801 177 RASFLIESVSDLRKNLQA-------RGSDLVVRVGKPETVLVELAKAIGADAVYAH---REVSHDEVKSEEKIEAAMKDE 246 (436)
Q Consensus 177 r~~FL~esL~~L~~~L~~-------~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~---~e~~p~~~~rd~~l~~~l~~~ 246 (436)
+..-+.+-|.+|.+.+++ .|..+++.+ +.+.-|++.+|.+.+..- .+.+|... .-..+.+.+++.
T Consensus 151 N~~~~~~~L~~l~~~~~~~l~~~~~~~~~~v~~H----~af~Y~~~~yGl~~~~~~~~~~~~eps~~-~l~~l~~~ik~~ 225 (287)
T cd01137 151 NAAAYKAKLKALDEWAKAKFATIPAEKRKLVTSE----GAFSYFAKAYGLKEAYLWPINTEEEGTPK-QVATLIEQVKKE 225 (287)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCcccCEEEEec----ccHHHHHHHcCCeEeecccCCCCCCCCHH-HHHHHHHHHHHh
Confidence 344455667777775553 234455554 468899999999977542 23344433 345677788889
Q ss_pred CCcEEE
Q 013801 247 GIEVKY 252 (436)
Q Consensus 247 gI~v~~ 252 (436)
||.+..
T Consensus 226 ~v~~if 231 (287)
T cd01137 226 KVPAVF 231 (287)
T ss_pred CCCEEE
Confidence 999874
No 191
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member 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. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=25.20 E-value=5.3e+02 Score=24.96 Aligned_cols=72 Identities=17% Similarity=0.166 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHh--CCCeEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEE
Q 013801 180 FLIESVSDLRKNLQA--RGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 180 FL~esL~~L~~~L~~--~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~ 252 (436)
|+.+-+..+++.+++ .|..+.+..+. +. +.+..+ ...+++.|+... ..+. .....+ +.+++.||++..
T Consensus 13 ~~~~~~~gi~~~a~~~~~g~~~~~~~~~~~~~~q~~~i~~l-~~~~vdgiii~~-~~~~--~~~~~~-~~~~~~giPvV~ 87 (303)
T cd01539 13 FISLVRKNLEDIQKENGGKVEFTFYDAKNNQSTQNEQIDTA-LAKGVDLLAVNL-VDPT--AAQTVI-NKAKQKNIPVIF 87 (303)
T ss_pred HHHHHHHHHHHHHHhhCCCeeEEEecCCCCHHHHHHHHHHH-HHcCCCEEEEec-Cchh--hHHHHH-HHHHHCCCCEEE
Confidence 666667778888888 78887776643 22 334444 445899887642 1111 112333 445678999998
Q ss_pred eeCC
Q 013801 253 FWGS 256 (436)
Q Consensus 253 ~~~~ 256 (436)
++..
T Consensus 88 ~~~~ 91 (303)
T cd01539 88 FNRE 91 (303)
T ss_pred eCCC
Confidence 7654
No 192
>PF04007 DUF354: Protein of unknown function (DUF354); InterPro: IPR007152 Members of this family are around 350 amino acids in length. They are found in archaea and some bacteria and have no known function.
Probab=25.20 E-value=6.2e+02 Score=25.83 Aligned_cols=68 Identities=16% Similarity=0.276 Sum_probs=45.5
Q ss_pred CHHHHHHHHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCC-chH-----HHHHHHHHHHHHhc
Q 013801 174 GPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVS-HDE-----VKSEEKIEAAMKDE 246 (436)
Q Consensus 174 ~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~-p~~-----~~rd~~l~~~l~~~ 246 (436)
++.++.|+ +.+-++|+++|..++|..-+ .+.+.+|++.+|+..+..-.... ... ..|+.++.+..++.
T Consensus 9 ~p~hvhfF----k~~I~eL~~~GheV~it~R~-~~~~~~LL~~yg~~y~~iG~~g~~~~~Kl~~~~~R~~~l~~~~~~~ 82 (335)
T PF04007_consen 9 HPAHVHFF----KNIIRELEKRGHEVLITARD-KDETEELLDLYGIDYIVIGKHGDSLYGKLLESIERQYKLLKLIKKF 82 (335)
T ss_pred CchHHHHH----HHHHHHHHhCCCEEEEEEec-cchHHHHHHHcCCCeEEEcCCCCCHHHHHHHHHHHHHHHHHHHHhh
Confidence 46678887 55556677789999886533 36788999999999887765442 222 35555666666543
No 193
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=25.17 E-value=1.6e+02 Score=30.48 Aligned_cols=77 Identities=8% Similarity=-0.009 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCC-eEEEEECC------hHHHHHHHHHHhCCCEEEEec-cCCchHHHHHHHHHHHHHhc
Q 013801 175 PYRASFLIESVSDLRKNLQARGS-DLVVRVGK------PETVLVELAKAIGADAVYAHR-EVSHDEVKSEEKIEAAMKDE 246 (436)
Q Consensus 175 ~~r~~FL~esL~~L~~~L~~~Gi-~L~v~~G~------~~~~L~~L~~~~~a~~V~~~~-e~~p~~~~rd~~l~~~l~~~ 246 (436)
+.|+.|=..++.+|.+.+++.|. .+++..|. ..+.+.+.+++.++..++++. +.+|..-..+ +..+.+++.
T Consensus 9 p~~i~~G~g~~~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~-~~~~~~~~~ 87 (383)
T PRK09860 9 PSVNVIGADSLTDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVA-AGLKLLKEN 87 (383)
T ss_pred CCeEEECcCHHHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHH-HHHHHHHHc
Confidence 34455556678888888888884 55555543 234566666777877655554 2233333333 444566777
Q ss_pred CCcEEE
Q 013801 247 GIEVKY 252 (436)
Q Consensus 247 gI~v~~ 252 (436)
++.+..
T Consensus 88 ~~D~Ii 93 (383)
T PRK09860 88 NCDSVI 93 (383)
T ss_pred CCCEEE
Confidence 777654
No 194
>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=25.13 E-value=3.7e+02 Score=24.34 Aligned_cols=34 Identities=18% Similarity=0.339 Sum_probs=26.1
Q ss_pred HHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCC
Q 013801 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (436)
Q Consensus 187 ~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~ 220 (436)
++=+.|++.|+++.+..|.....+..+++..|..
T Consensus 113 ~~L~~l~~~g~~~~i~T~~~~~~~~~~l~~~gl~ 146 (197)
T TIGR01548 113 GLLRELHRAPKGMAVVTGRPRKDAAKFLTTHGLE 146 (197)
T ss_pred HHHHHHHHcCCcEEEECCCCHHHHHHHHHHcCch
Confidence 3335567789999999888888888888877754
No 195
>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=24.97 E-value=5.7e+02 Score=23.85 Aligned_cols=75 Identities=15% Similarity=0.212 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEC--Ch---HHHHHHHHHHhCCCEEEEeccCCchHHH-HHHHHHHHHHhcCCcEEE
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVG--KP---ETVLVELAKAIGADAVYAHREVSHDEVK-SEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G--~~---~~~L~~L~~~~~a~~V~~~~e~~p~~~~-rd~~l~~~l~~~gI~v~~ 252 (436)
.|+.+-+..+.+.++++|..+++... +. .+.+..+ ...+++.|++..... .... .+..+ +.+.+.||++..
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l-~~~~vdgii~~~~~~-~~~~~~~~~~-~~~~~~~ipvV~ 88 (273)
T cd01541 12 YIFPSIIRGIESVLSEKGYSLLLASTNNDPERERKCLENM-LSQGIDGLIIEPTKS-ALPNPNIDLY-LKLEKLGIPYVF 88 (273)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHH-HHcCCCEEEEecccc-ccccccHHHH-HHHHHCCCCEEE
Confidence 36667778888999999999988653 22 2344444 446899998753211 1101 11223 345667999988
Q ss_pred eeCC
Q 013801 253 FWGS 256 (436)
Q Consensus 253 ~~~~ 256 (436)
++..
T Consensus 89 ~~~~ 92 (273)
T cd01541 89 INAS 92 (273)
T ss_pred EecC
Confidence 7643
No 196
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=24.89 E-value=4.4e+02 Score=25.23 Aligned_cols=68 Identities=16% Similarity=0.186 Sum_probs=42.2
Q ss_pred HHhCCCeEEEEECChHHHHHHHHHHhCCCE--E------EEe--ccC---CchHHHHHHHHHHHHHhcCCcEEEeeCCee
Q 013801 192 LQARGSDLVVRVGKPETVLVELAKAIGADA--V------YAH--REV---SHDEVKSEEKIEAAMKDEGIEVKYFWGSTL 258 (436)
Q Consensus 192 L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~--V------~~~--~e~---~p~~~~rd~~l~~~l~~~gI~v~~~~~~~L 258 (436)
|++.|+.+.+-.|.+...+..++++.+... | +++ .++ .+-....-+.+.+.+.+.++.+..+.+..+
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 677899999999999888888988877652 2 221 110 011123334455566667777766655554
Q ss_pred e
Q 013801 259 Y 259 (436)
Q Consensus 259 v 259 (436)
+
T Consensus 111 ~ 111 (272)
T PRK15126 111 F 111 (272)
T ss_pred E
Confidence 4
No 197
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=24.78 E-value=5.4e+02 Score=23.53 Aligned_cols=72 Identities=15% Similarity=0.118 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEECC--h---HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVGK--P---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G~--~---~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
.|..+-+..+++.+++.|+.+.+...+ + .+.+.+++.. +++.|+...... ... + ...+.+.+.++++..+
T Consensus 12 ~~~~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~~~~l~~~-~vdgvi~~~~~~-~~~--~-~~~~~l~~~~ip~V~~ 86 (267)
T cd01536 12 PFWQAMNKGAEAAAKELGVELIVLDAQNDVSKQIQQIEDLIAQ-GVDGIIISPVDS-AAL--T-PALKKANAAGIPVVTV 86 (267)
T ss_pred HHHHHHHHHHHHHHHhcCceEEEECCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCc-hhH--H-HHHHHHHHCCCcEEEe
Confidence 366677777888888899999887642 2 2445555554 899887653211 111 1 1334556688999876
Q ss_pred eC
Q 013801 254 WG 255 (436)
Q Consensus 254 ~~ 255 (436)
+.
T Consensus 87 ~~ 88 (267)
T cd01536 87 DS 88 (267)
T ss_pred cC
Confidence 54
No 198
>COG4231 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]
Probab=24.75 E-value=3e+02 Score=30.56 Aligned_cols=62 Identities=26% Similarity=0.361 Sum_probs=46.3
Q ss_pred HHHHHHHhCCCeEEEEE-CC----hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 187 DLRKNLQARGSDLVVRV-GK----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 187 ~L~~~L~~~Gi~L~v~~-G~----~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
..++.|+++|+.+.++. |- +...+.++++ |.+.|+.-+|-+|. .++++++.+-+.|+.+...
T Consensus 261 yVkeAl~~lgl~~~~lklg~~~Plp~~~i~~F~~--g~~~vlVVEE~~P~---iE~qv~~~l~~~g~~v~v~ 327 (640)
T COG4231 261 YVKEALEDLGLDDELLKLGTPYPLPEQLIENFLK--GLERVLVVEEGEPF---IEEQVKALLYDAGLPVEVH 327 (640)
T ss_pred HHHHHHHHcCCCceeEEecCCcCCCHHHHHHHHh--cCcEEEEEecCCch---HHHHHHHHHHhcCCceEee
Confidence 44555666677776554 43 5688888888 78899998888873 5778999998899988754
No 199
>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=24.44 E-value=4.8e+02 Score=24.16 Aligned_cols=68 Identities=19% Similarity=0.285 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--hH--HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--PE--TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~~--~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|+.+-+..+++.+++.|..+.+...+ .. ..+.+.+...+++.|++... ... + +.+.+.|+++..++.
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~-~~~-------~-~~~~~~gipvv~~~~ 83 (265)
T cd06291 13 FFSELARAVEKELYKKGYKLILCNSDNDPEKEREYLEMLRQNQVDGIIAGTH-NLG-------I-EEYENIDLPIVSFDR 83 (265)
T ss_pred hHHHHHHHHHHHHHHCCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEEecC-CcC-------H-HHHhcCCCCEEEEeC
Confidence 55666677788999999999887542 22 12223455568998887542 111 1 133567999998876
Q ss_pred C
Q 013801 256 S 256 (436)
Q Consensus 256 ~ 256 (436)
.
T Consensus 84 ~ 84 (265)
T cd06291 84 Y 84 (265)
T ss_pred C
Confidence 5
No 200
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=24.07 E-value=3e+02 Score=31.23 Aligned_cols=48 Identities=19% Similarity=0.225 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHH
Q 013801 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEV 233 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~ 233 (436)
...++.=+.|++.|+++.++.|+.......++++.|+. +++ +..|.++
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 45566666788899999999999999999999999997 333 3556644
No 201
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=23.98 E-value=5.6e+02 Score=25.43 Aligned_cols=71 Identities=17% Similarity=0.163 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|..+.++.+++.+++.|..+.+..++ .. +.+..+ ...+++.|++... ... ..+..+ +.+.+.|+++..++
T Consensus 39 f~~~~~~gi~~~a~~~g~~l~i~~~~~~~~~~~~~i~~l-~~~~vDGiIi~~~-~~~--~~~~~l-~~~~~~~iPvV~id 113 (330)
T PRK10355 39 RWQKDRDIFVKKAESLGAKVFVQSANGNEETQMSQIENM-INRGVDVLVIIPY-NGQ--VLSNVI-KEAKQEGIKVLAYD 113 (330)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHH-HHcCCCEEEEeCC-Chh--hHHHHH-HHHHHCCCeEEEEC
Confidence 77888889999999999999987643 22 223333 3458999988642 111 112333 44567899998876
Q ss_pred C
Q 013801 255 G 255 (436)
Q Consensus 255 ~ 255 (436)
.
T Consensus 114 ~ 114 (330)
T PRK10355 114 R 114 (330)
T ss_pred C
Confidence 4
No 202
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=23.70 E-value=4.5e+02 Score=25.70 Aligned_cols=69 Identities=16% Similarity=0.175 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHh-cCCcEEEe
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKD-EGIEVKYF 253 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~-~gI~v~~~ 253 (436)
|+.+-+..+++.+++.|..+++... +.. +.+. .+...+++.|++...... + ...+.+.+ .|+++..+
T Consensus 73 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~-~l~~~~vdgiii~~~~~~-----~-~~~~~l~~~~~iPvV~~ 145 (341)
T PRK10703 73 YFAEIIEAVEKNCYQKGYTLILCNAWNNLEKQRAYLS-MLAQKRVDGLLVMCSEYP-----E-PLLAMLEEYRHIPMVVM 145 (341)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHH-HHHHcCCCEEEEecCCCC-----H-HHHHHHHhcCCCCEEEE
Confidence 5556667788889999999888753 222 3333 344568898876532111 1 12244555 69999887
Q ss_pred eC
Q 013801 254 WG 255 (436)
Q Consensus 254 ~~ 255 (436)
+.
T Consensus 146 d~ 147 (341)
T PRK10703 146 DW 147 (341)
T ss_pred ec
Confidence 64
No 203
>cd00003 PNPsynthase Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the biosynthesis of vitamin B6. PNP synthase, a homooctameric enzyme, catalyzes the final step in PNP biosynthesis, the condensation of 1-amino-acetone 3-phosphate and 1-deoxy-D-xylulose 5-phosphate. PNP synthase adopts a TIM barrel topology, intersubunit contacts are mediated by three ''extra'' helices, generating a tetramer of symmetric dimers with shared active sites; the open state has been proposed to accept substrates and to release products, while most of the catalytic events are likely to occur in the closed state; a hydrophilic channel running through the center of the barrel was identified as the essential structural feature that enables PNP synthase to release water molecules produced during the reaction from the closed,
Probab=23.62 E-value=5.4e+02 Score=24.99 Aligned_cols=43 Identities=26% Similarity=0.370 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEec
Q 013801 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHR 226 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ 226 (436)
+.|+..-+.|++.||.+-++.....+ -.+.+++.|++.|-.+.
T Consensus 110 ~~l~~~i~~l~~~gI~VSLFiDPd~~-qi~~A~~~GAd~VELhT 152 (234)
T cd00003 110 EKLKPIIERLKDAGIRVSLFIDPDPE-QIEAAKEVGADRVELHT 152 (234)
T ss_pred HHHHHHHHHHHHCCCEEEEEeCCCHH-HHHHHHHhCcCEEEEec
Confidence 55677777888999999777644333 34678889999986654
No 204
>cd06319 PBP1_ABC_sugar_binding_like_10 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=23.62 E-value=6e+02 Score=23.64 Aligned_cols=71 Identities=13% Similarity=0.023 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
|..+-+..+.+.+++.|..+.+..+ +.. +.+..+. ..+++.|+.... ... ..+ .+.+.+.+.|+++..++
T Consensus 13 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~-~~~~dgiii~~~-~~~--~~~-~~l~~~~~~~ipvV~~~ 87 (277)
T cd06319 13 FWQIMGRGVKSKAKALGYDAVELSAENSAKKELENLRTAI-DKGVSGIIISPT-NSS--AAV-TLLKLAAQAKIPVVIAD 87 (277)
T ss_pred HHHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHHH-hcCCCEEEEcCC-chh--hhH-HHHHHHHHCCCCEEEEe
Confidence 6677778888889999999988753 332 3344443 368898876432 111 112 23345667899998776
Q ss_pred C
Q 013801 255 G 255 (436)
Q Consensus 255 ~ 255 (436)
.
T Consensus 88 ~ 88 (277)
T cd06319 88 I 88 (277)
T ss_pred c
Confidence 3
No 205
>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=23.51 E-value=1.8e+02 Score=29.90 Aligned_cols=76 Identities=17% Similarity=0.247 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeEEEEECChH-------HHHHHHHHHhCCCEEEEec-cCCchHHHHHHHHHHHHHhcC
Q 013801 176 YRASFLIESVSDLRKNLQARGSDLVVRVGKPE-------TVLVELAKAIGADAVYAHR-EVSHDEVKSEEKIEAAMKDEG 247 (436)
Q Consensus 176 ~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~~~-------~~L~~L~~~~~a~~V~~~~-e~~p~~~~rd~~l~~~l~~~g 247 (436)
.|+.|=..++.+|.+.+++.|-+.+|+.|... +.+.+.+++.+++..+++. +.+|..... +++.+.+++.+
T Consensus 5 ~~i~fG~g~l~~l~~~~~~~g~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v-~~~~~~~~~~~ 83 (380)
T cd08185 5 TKIVFGAGKLNELGEEALKPGKKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNPTTTTV-MEGAALAREEG 83 (380)
T ss_pred CeEEECcCHHHHHHHHHHhcCCeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCCCHHHH-HHHHHHHHHcC
Confidence 34445556778888888887877877775422 4455666667777654432 223333333 34445667777
Q ss_pred CcEEE
Q 013801 248 IEVKY 252 (436)
Q Consensus 248 I~v~~ 252 (436)
+.+..
T Consensus 84 ~D~Ii 88 (380)
T cd08185 84 CDFVV 88 (380)
T ss_pred CCEEE
Confidence 76654
No 206
>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=23.51 E-value=1.8e+02 Score=24.90 Aligned_cols=39 Identities=23% Similarity=0.210 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC-hHHHHHHHHHHhC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK-PETVLVELAKAIG 218 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~-~~~~L~~L~~~~~ 218 (436)
-++.++.++=+.|++.|+.+.+..+. ..+....+.+..+
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 46789999999999999999998877 6666666666555
No 207
>PRK06683 hypothetical protein; Provisional
Probab=23.38 E-value=2.7e+02 Score=22.29 Aligned_cols=40 Identities=13% Similarity=-0.031 Sum_probs=24.7
Q ss_pred HHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 212 ELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 212 ~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
+-++.-.+.-|+...+.++. .-+.+...|+..+|++..+.
T Consensus 21 kaik~gkaklViiA~Da~~~---~~~~i~~~~~~~~Vpv~~~~ 60 (82)
T PRK06683 21 EAIKNGIVKEVVIAEDADMR---LTHVIIRTALQHNIPITKVE 60 (82)
T ss_pred HHHHcCCeeEEEEECCCCHH---HHHHHHHHHHhcCCCEEEEC
Confidence 33444567777777766544 23556677777777776543
No 208
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=23.32 E-value=2.2e+02 Score=28.08 Aligned_cols=51 Identities=16% Similarity=0.060 Sum_probs=39.3
Q ss_pred eEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEE
Q 013801 198 DLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 198 ~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~ 252 (436)
++.+..|. +.+..+++.-.+.-|+...|++|.+. ...+...|++.||++..
T Consensus 130 p~~LvsG~--n~VtkaIekkKAkLVIIA~DVsPie~--vk~LpaLCrk~~VPY~i 180 (263)
T PTZ00222 130 PLAVVTGL--QEVTRAIEKKQARMVVIANNVDPVEL--VLWMPNLCRANKIPYAI 180 (263)
T ss_pred CCeeccCH--HHHHHHHHcCCceEEEEeCCCCHHHH--HHHHHHHHHhcCCCEEE
Confidence 45566664 56667888888999999999987766 34578899999999875
No 209
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Probab=23.29 E-value=5.6e+02 Score=25.73 Aligned_cols=91 Identities=18% Similarity=0.189 Sum_probs=50.9
Q ss_pred HHHHhhcCCceeeEEEeCCCCcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHH--hCC
Q 013801 142 LNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKA--IGA 219 (436)
Q Consensus 142 L~~A~~~~~~vl~vyi~dp~~~~~~~~~~~~~~~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~--~~a 219 (436)
|..|.+.+.. .-|||.+.+=. .++ +.+.++|.+.|++..+...+..-.+..-+.. .|+
T Consensus 137 l~~A~~~~k~-~~V~v~EsrP~------------------~~G-~~~a~~L~~~GI~vtlI~Dsav~~~m~~vd~VivGA 196 (310)
T PRK08535 137 IKTAHEQGKD-IEVIATETRPR------------------NQG-HITAKELAEYGIPVTLIVDSAVRYFMKDVDKVVVGA 196 (310)
T ss_pred HHHHHHCCCe-EEEEEecCCch------------------hhH-HHHHHHHHHCCCCEEEEehhHHHHHHHhCCEEEECc
Confidence 3445555443 66788765321 134 4567788999999998876554433221211 355
Q ss_pred CEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 220 DAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 220 ~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
+.|+.|-.+- .+---..++-.++..++++..+-
T Consensus 197 d~v~~nG~v~--nkiGT~~~A~~Ak~~~vPv~V~a 229 (310)
T PRK08535 197 DAITANGAVI--NKIGTSQIALAAHEARVPFMVAA 229 (310)
T ss_pred cEEecCCCEE--eHHhHHHHHHHHHHhCCCEEEec
Confidence 5565554321 11122345556677899998653
No 210
>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=23.25 E-value=6e+02 Score=23.46 Aligned_cols=70 Identities=11% Similarity=0.109 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC---h---HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK---P---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~---~---~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
|..+-+..+++.+++.|..+.+...+ . .+.+.. +...+++.|++........ .+.. ..+.||++..+
T Consensus 13 ~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~~vdgiii~~~~~~~~-----~~~~-~~~~~ipvv~~ 85 (264)
T cd01574 13 GPSSTLAAIESAAREAGYAVTLSMLAEADEEALRAAVRR-LLAQRVDGVIVNAPLDDAD-----AALA-AAPADVPVVFV 85 (264)
T ss_pred cHHHHHHHHHHHHHHCCCeEEEEeCCCCchHHHHHHHHH-HHhcCCCEEEEeCCCCChH-----HHHH-HHhcCCCEEEE
Confidence 55666788888999999999887642 1 122333 4455799988754322222 1222 24578999988
Q ss_pred eCC
Q 013801 254 WGS 256 (436)
Q Consensus 254 ~~~ 256 (436)
+..
T Consensus 86 ~~~ 88 (264)
T cd01574 86 DGS 88 (264)
T ss_pred ecc
Confidence 754
No 211
>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=23.21 E-value=67 Score=30.64 Aligned_cols=33 Identities=21% Similarity=0.270 Sum_probs=17.8
Q ss_pred HHHHHHHHHHhCCCeEEEEECChHHHHHHHHHH
Q 013801 184 SVSDLRKNLQARGSDLVVRVGKPETVLVELAKA 216 (436)
Q Consensus 184 sL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~ 216 (436)
++.++=+.|++.|+++.|..+...+.+..+++.
T Consensus 103 g~~e~L~~L~~~g~~l~IvT~~~~~~~~~~l~~ 135 (253)
T TIGR01422 103 GVIEVIAYLRARGIKIGSTTGYTREMMDVVAPE 135 (253)
T ss_pred CHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHH
Confidence 444555555556666666555555555444443
No 212
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=23.16 E-value=5.5e+02 Score=27.30 Aligned_cols=47 Identities=23% Similarity=0.126 Sum_probs=35.7
Q ss_pred HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCC
Q 013801 208 TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (436)
Q Consensus 208 ~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~ 256 (436)
+.+.+++++++++.|+...+... ..+-+++.+.|++.+++++...+-
T Consensus 193 ~dL~~~v~~~~IdeViIAip~~~--~~~l~ell~~~~~~~v~V~ivP~l 239 (463)
T PRK10124 193 QQLVEDAKAGKIHNVYIAMSMCD--GARVKKLVRQLADTTCSVLLIPDV 239 (463)
T ss_pred HHHHHHHHhCCCCEEEEeCCCcc--hHHHHHHHHHHHHcCCeEEEecch
Confidence 56888999999999999875432 233456778899999999877654
No 213
>PRK13223 phosphoglycolate phosphatase; Provisional
Probab=23.12 E-value=2.3e+02 Score=27.61 Aligned_cols=13 Identities=15% Similarity=0.355 Sum_probs=6.7
Q ss_pred cCHHHHHHHHHHH
Q 013801 388 LSPRSMFDELKKT 400 (436)
Q Consensus 388 ISpR~V~~~v~k~ 400 (436)
++-|..+-+..+.
T Consensus 252 ~~~~~~~~~~~~~ 264 (272)
T PRK13223 252 VVTRKLWMKVIKA 264 (272)
T ss_pred eehHHHHHHHHHH
Confidence 4555555555443
No 214
>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=22.91 E-value=1.6e+02 Score=24.14 Aligned_cols=61 Identities=23% Similarity=0.324 Sum_probs=37.8
Q ss_pred HHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
+.++.+.+++ ..|+|..|+-.+++...+. .++..|+......+ ++.+.+.+++.||++-..
T Consensus 31 ~~~~~~~~~~--~~lvIt~gdR~di~~~a~~-~~i~~iIltg~~~~-----~~~v~~la~~~~i~vi~t 91 (105)
T PF07085_consen 31 LSDFLEYLKP--GDLVITPGDREDIQLAAIE-AGIACIILTGGLEP-----SEEVLELAKELGIPVIST 91 (105)
T ss_dssp HHHHHHCHHT--TEEEEEETT-HHHHHHHCC-TTECEEEEETT---------HHHHHHHHHHT-EEEE-
T ss_pred HHHHHhhcCC--CeEEEEeCCcHHHHHHHHH-hCCCEEEEeCCCCC-----CHHHHHHHHHCCCEEEEE
Confidence 4555555555 5788887988887766554 46888888765443 456777778888887643
No 215
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=22.64 E-value=5.8e+02 Score=23.67 Aligned_cols=72 Identities=14% Similarity=0.117 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEC--ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G--~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
.|..+-+..+++.+++.|..+.+... +.. +.+..+ ...+++.|+...... . .....+ +.+.+.||++..+
T Consensus 13 ~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l-~~~~vdgiii~~~~~-~--~~~~~l-~~~~~~~iPvV~~ 87 (275)
T cd06317 13 SYQTTYNKAFQAAAEEDGVEVIVLDANGDVARQAAQVEDL-IAQKVDGIILWPTDG-Q--AYIPGL-RKAKQAGIPVVIT 87 (275)
T ss_pred HHHHHHHHHHHHHHHhcCCEEEEEcCCcCHHHHHHHHHHH-HHcCCCEEEEecCCc-c--ccHHHH-HHHHHCCCcEEEe
Confidence 36677778888888899999988753 222 223333 345899887753211 1 112233 4456789999877
Q ss_pred eC
Q 013801 254 WG 255 (436)
Q Consensus 254 ~~ 255 (436)
+.
T Consensus 88 ~~ 89 (275)
T cd06317 88 NS 89 (275)
T ss_pred CC
Confidence 64
No 216
>COG0546 Gph Predicted phosphatases [General function prediction only]
Probab=22.48 E-value=96 Score=29.12 Aligned_cols=40 Identities=33% Similarity=0.404 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCE
Q 013801 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADA 221 (436)
Q Consensus 182 ~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~ 221 (436)
+.++.++-..|+++|+.|.|..+.+...+..+++.+|...
T Consensus 91 ~~gv~e~L~~L~~~g~~l~i~T~k~~~~~~~~l~~~gl~~ 130 (220)
T COG0546 91 FPGVKELLAALKSAGYKLGIVTNKPERELDILLKALGLAD 130 (220)
T ss_pred CCCHHHHHHHHHhCCCeEEEEeCCcHHHHHHHHHHhCCcc
Confidence 4455566666777777777777776676777777666543
No 217
>PLN02512 acetylglutamate kinase
Probab=22.38 E-value=4.7e+02 Score=26.16 Aligned_cols=68 Identities=18% Similarity=0.215 Sum_probs=44.8
Q ss_pred HHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEe-ccCCchHH----------HHHHHHHHHHHhcCCcEEEe
Q 013801 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH-REVSHDEV----------KSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~-~e~~p~~~----------~rd~~l~~~l~~~gI~v~~~ 253 (436)
+.++. .|++.|.++++.+|-. ..+.++++++++..-+.+ ..++..+. +.-..+.+.|.+.|+....+
T Consensus 69 ~~di~-~l~~~g~~iVlVHGgG-~~i~~~~~~~gi~~~~~~G~rvT~~~~lei~~~~l~g~ln~~lv~~L~~~Gv~av~l 146 (309)
T PLN02512 69 IRDLV-LLSCVGLRPVLVHGGG-PEINSWLKKVGIEPQFKNGLRVTDAETMEVVEMVLVGKVNKSLVSLINKAGGTAVGL 146 (309)
T ss_pred HHHHH-HHHHCCCCEEEEECCc-HHHHHHHHHcCCCCcCCCCCcCCCHHHHHHHHHHHhhHHHHHHHHHHHHcCCCeEEe
Confidence 34444 6778999999999843 357788888887754432 12232221 34556788899999988776
Q ss_pred e
Q 013801 254 W 254 (436)
Q Consensus 254 ~ 254 (436)
.
T Consensus 147 ~ 147 (309)
T PLN02512 147 S 147 (309)
T ss_pred e
Confidence 4
No 218
>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=22.25 E-value=5.3e+02 Score=23.04 Aligned_cols=70 Identities=14% Similarity=0.215 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHh--CCCeEEEEECC-----hHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEE
Q 013801 180 FLIESVSDLRKNLQA--RGSDLVVRVGK-----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 180 FL~esL~~L~~~L~~--~Gi~L~v~~G~-----~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~ 252 (436)
|..+.+..++..+++ .|+.+.+.... ..+.+.+++.+ ++..|+..... ... ..+.+.+.+.||++..
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 444445556666666 78888877542 33445555544 78888775422 111 1155667788999987
Q ss_pred eeC
Q 013801 253 FWG 255 (436)
Q Consensus 253 ~~~ 255 (436)
+..
T Consensus 88 ~~~ 90 (269)
T cd01391 88 LDA 90 (269)
T ss_pred ecC
Confidence 654
No 219
>COG1778 Low specificity phosphatase (HAD superfamily) [General function prediction only]
Probab=22.16 E-value=3.4e+02 Score=24.92 Aligned_cols=54 Identities=17% Similarity=0.283 Sum_probs=40.3
Q ss_pred HHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcE
Q 013801 191 NLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEV 250 (436)
Q Consensus 191 ~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v 250 (436)
.|.+.|+.+-++.|.....+..=+++.|++.||--.. .-.....+.+++.++..
T Consensus 46 ~l~~~Gi~vAIITGr~s~ive~Ra~~LGI~~~~qG~~------dK~~a~~~L~~~~~l~~ 99 (170)
T COG1778 46 LLLKSGIKVAIITGRDSPIVEKRAKDLGIKHLYQGIS------DKLAAFEELLKKLNLDP 99 (170)
T ss_pred HHHHcCCeEEEEeCCCCHHHHHHHHHcCCceeeechH------hHHHHHHHHHHHhCCCH
Confidence 3456799999999999999999999999999998542 12334455566666654
No 220
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=22.12 E-value=5.5e+02 Score=22.61 Aligned_cols=62 Identities=18% Similarity=0.244 Sum_probs=42.8
Q ss_pred HHHHHHHHhCCCeEEEEE-CChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCC
Q 013801 186 SDLRKNLQARGSDLVVRV-GKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGI 248 (436)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~-G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI 248 (436)
.-+..-|+..|..++.+- .-+.+.+.+-+++++++.|-...-.+..... -+.+.+.|++.|+
T Consensus 19 ~iv~~~l~~~GfeVi~LG~~v~~e~~v~aa~~~~adiVglS~l~~~~~~~-~~~~~~~l~~~gl 81 (134)
T TIGR01501 19 KILDHAFTNAGFNVVNLGVLSPQEEFIKAAIETKADAILVSSLYGHGEID-CKGLRQKCDEAGL 81 (134)
T ss_pred HHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEecccccCHHH-HHHHHHHHHHCCC
Confidence 344556788999988764 2356777788888899999877655433322 3456777888876
No 221
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=22.11 E-value=1.4e+02 Score=27.76 Aligned_cols=35 Identities=11% Similarity=0.186 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHh
Q 013801 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAI 217 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~ 217 (436)
.++.++=+.|++.|+++.|..+.....+..+++..
T Consensus 77 pG~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~ 111 (219)
T PRK09552 77 EGFHEFVQFVKENNIPFYVVSGGMDFFVYPLLQGL 111 (219)
T ss_pred cCHHHHHHHHHHcCCeEEEECCCcHHHHHHHHHHh
Confidence 34555555555566666555555544555555443
No 222
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=22.10 E-value=2.9e+02 Score=24.49 Aligned_cols=14 Identities=14% Similarity=-0.061 Sum_probs=6.4
Q ss_pred HHHHHHHhcCCcEE
Q 013801 238 KIEAAMKDEGIEVK 251 (436)
Q Consensus 238 ~l~~~l~~~gI~v~ 251 (436)
.|+..|-+.||++.
T Consensus 97 ~IRR~Av~~~IP~~ 110 (142)
T PRK05234 97 ALLRLADVWNIPVA 110 (142)
T ss_pred HHHHHHHHcCCCEE
Confidence 44444444444443
No 223
>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=21.98 E-value=3.2e+02 Score=23.14 Aligned_cols=43 Identities=14% Similarity=0.024 Sum_probs=20.9
Q ss_pred HHHHHHHhCCCEEEEeccC-CchH-HHHHHHHHHHHHhcCCcEEE
Q 013801 210 LVELAKAIGADAVYAHREV-SHDE-VKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 210 L~~L~~~~~a~~V~~~~e~-~p~~-~~rd~~l~~~l~~~gI~v~~ 252 (436)
+.++++...++-|+...+. .... ..-...|+..|-+.+|++.+
T Consensus 62 i~~~i~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~T 106 (115)
T cd01422 62 IGALIAEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLAT 106 (115)
T ss_pred HHHHHHcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEEE
Confidence 5555555555555554332 2222 22244555666666666543
No 224
>PF12048 DUF3530: Protein of unknown function (DUF3530); InterPro: IPR022529 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 272 to 336 amino acids in length. These proteins are distantly related to alpa/beta hydrolases so they may act as enzymes.
Probab=21.95 E-value=6e+02 Score=25.43 Aligned_cols=130 Identities=10% Similarity=0.054 Sum_probs=80.7
Q ss_pred CCCCeEEEEEeCCCCccCcHHHHHHhhcCCc-----eeeEEEeC------------CCCcCCCC-CCCC-----------
Q 013801 121 AIRRASIVWFRNDLRVHDNESLNTANNESVS-----VLPVYCFD------------PRDYGKSS-SGFD----------- 171 (436)
Q Consensus 121 ~~~~~~LvWfRrDLRl~DN~AL~~A~~~~~~-----vl~vyi~d------------p~~~~~~~-~~~~----------- 171 (436)
+..+.+++.+-.+=...|++.+..-.+.+.+ .+.+-+=+ +....... ....
T Consensus 84 ~~~~G~vIilp~~g~~~d~p~~i~~LR~~L~~~GW~Tlsit~P~~~~~~~p~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ 163 (310)
T PF12048_consen 84 AKPQGAVIILPDWGEHPDWPGLIAPLRRELPDHGWATLSITLPDPAPPASPNRATEAEEVPSAGDQQLSQPSDEPSPASA 163 (310)
T ss_pred CCCceEEEEecCCCCCCCcHhHHHHHHHHhhhcCceEEEecCCCcccccCCccCCCCCCCCCCCCCCcCCCCCCCccccc
Confidence 4556667777778888999888777653221 22222222 10000000 0000
Q ss_pred ---CCCHHHHHHHHHHHHHHHHHHHhCCCe--EEEEECChHHHHHHHHHHhC---CCEEEEeccCCchHHHHHHHHHHHH
Q 013801 172 ---KTGPYRASFLIESVSDLRKNLQARGSD--LVVRVGKPETVLVELAKAIG---ADAVYAHREVSHDEVKSEEKIEAAM 243 (436)
Q Consensus 172 ---~~~~~r~~FL~esL~~L~~~L~~~Gi~--L~v~~G~~~~~L~~L~~~~~---a~~V~~~~e~~p~~~~rd~~l~~~l 243 (436)
..-.....++.+.|..+-.-++++|.. ++|-+|.....+.+++.+.. ++.+++-.-|.+.... ...|.+.+
T Consensus 164 ~~~~~~~~~~~~~~ari~Aa~~~~~~~~~~~ivlIg~G~gA~~~~~~la~~~~~~~daLV~I~a~~p~~~~-n~~l~~~l 242 (310)
T PF12048_consen 164 QEAEAREAYEERLFARIEAAIAFAQQQGGKNIVLIGHGTGAGWAARYLAEKPPPMPDALVLINAYWPQPDR-NPALAEQL 242 (310)
T ss_pred cHhHHhHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeChhHHHHHHHHhcCCCcccCeEEEEeCCCCcchh-hhhHHHHh
Confidence 011245578999999999999999987 55567988888888887765 5577777666655443 45677777
Q ss_pred HhcCCcEE
Q 013801 244 KDEGIEVK 251 (436)
Q Consensus 244 ~~~gI~v~ 251 (436)
.+.++++-
T Consensus 243 a~l~iPvL 250 (310)
T PF12048_consen 243 AQLKIPVL 250 (310)
T ss_pred hccCCCEE
Confidence 77666663
No 225
>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=21.95 E-value=5.3e+02 Score=25.13 Aligned_cols=19 Identities=21% Similarity=0.357 Sum_probs=9.5
Q ss_pred HHHHHHHhCCCEEEEeccC
Q 013801 210 LVELAKAIGADAVYAHREV 228 (436)
Q Consensus 210 L~~L~~~~~a~~V~~~~e~ 228 (436)
+.+++++.++.+|+++..+
T Consensus 212 l~~~ik~~~v~~if~e~~~ 230 (282)
T cd01017 212 LVEFVKKSDVKYIFFEENA 230 (282)
T ss_pred HHHHHHHcCCCEEEEeCCC
Confidence 3344455555555555443
No 226
>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=21.92 E-value=3.3e+02 Score=27.65 Aligned_cols=76 Identities=13% Similarity=0.099 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEECChHHHHH-------HHHHHhCCCEEEEec--cCCchHHHH-HHHHHHHHHhcC
Q 013801 178 ASFLIESVSDLRKNLQARGSDLVVRVGKPETVLV-------ELAKAIGADAVYAHR--EVSHDEVKS-EEKIEAAMKDEG 247 (436)
Q Consensus 178 ~~FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~-------~L~~~~~a~~V~~~~--e~~p~~~~r-d~~l~~~l~~~g 247 (436)
..=+.+.++.|.+.+++++-+++++-....+.+. ..+..+.++.||++. .+...+++. .+.++ .+++.|
T Consensus 186 ~~~m~~~i~~Ia~~ar~~~P~~~II~NnG~eil~~~~g~~~~~idgV~~Eslf~~~~~~~~e~dr~~~l~~L~-~~~~~G 264 (315)
T TIGR01370 186 AAEMIAFVCEIAAYARAQNPQFVIIPQNGEELLRDDHGGLAATVSGWAVEELFYYAANRPTEAERQRRLLALY-RLWQQG 264 (315)
T ss_pred HHHHHHHHHHHHHHHHHHCCCEEEEecCchhhhhccccchhhhceEEEecceEEcCCCCCCHHHHHHHHHHHH-HHHHCC
Confidence 3446666777777779998888775433334443 344445677788764 222223322 33343 455669
Q ss_pred CcEEEee
Q 013801 248 IEVKYFW 254 (436)
Q Consensus 248 I~v~~~~ 254 (436)
+.|...+
T Consensus 265 ~~Vl~ID 271 (315)
T TIGR01370 265 KFVLTVD 271 (315)
T ss_pred CcEEEEE
Confidence 9887543
No 227
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=21.92 E-value=7e+02 Score=23.81 Aligned_cols=72 Identities=17% Similarity=0.182 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEC--ChHHH--HHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVG--KPETV--LVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G--~~~~~--L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|..+-+..+++.+++.|+.+++... ++... +.+.+...+++.|+.... .... ....+ +.+++.|+++..++.
T Consensus 40 f~~~~~~~i~~~~~~~G~~~~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~-~~~~--~~~~l-~~~~~~~ipvV~~~~ 115 (295)
T PRK10653 40 FFVSLKDGAQKEADKLGYNLVVLDSQNNPAKELANVQDLTVRGTKILLINPT-DSDA--VGNAV-KMANQANIPVITLDR 115 (295)
T ss_pred HHHHHHHHHHHHHHHcCCeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCC-ChHH--HHHHH-HHHHHCCCCEEEEcc
Confidence 6677788899999999999988642 33221 122233457887776432 1111 11223 455678999988764
No 228
>TIGR00559 pdxJ pyridoxine 5'-phosphate synthase. PdxJ is required in the biosynthesis of pyridoxine (vitamin B6), a precursor to the enzyme cofactor pyridoxal phosphate. ECOCYC describes the predicted reaction equation as 1-amino-propan-2-one-3-phosphate + deoxyxylulose-5-phosphate = pyridoxine-5'-phosphate. The product of that reaction is oxidized by PdxH to pyridoxal 5'-phosphate.
Probab=21.81 E-value=6.2e+02 Score=24.67 Aligned_cols=43 Identities=21% Similarity=0.406 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEec
Q 013801 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHR 226 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~ 226 (436)
+-|+..-+.|++.||++-++.....+ -.+.+++.|++.|-.+.
T Consensus 110 ~~l~~~i~~l~~~gI~VSLFiDP~~~-qi~~A~~~GAd~VELhT 152 (237)
T TIGR00559 110 DKLCELVKRFHAAGIEVSLFIDADKD-QISAAAEVGADRIEIHT 152 (237)
T ss_pred HHHHHHHHHHHHCCCEEEEEeCCCHH-HHHHHHHhCcCEEEEec
Confidence 55677777788899999777643333 34678899999996654
No 229
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=21.76 E-value=1.3e+02 Score=28.20 Aligned_cols=59 Identities=20% Similarity=0.331 Sum_probs=35.0
Q ss_pred HHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEE
Q 013801 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~ 251 (436)
..|.+.|.++|...+++.||.... .|++..| +.++---+-.+|...|++.+.+.|+-+.
T Consensus 41 ~ale~~L~~~G~~~y~LDGDnvR~--gL~~dLg-----Fs~edR~eniRRvaevAkll~daG~ivi 99 (197)
T COG0529 41 NALEEKLFAKGYHVYLLDGDNVRH--GLNRDLG-----FSREDRIENIRRVAEVAKLLADAGLIVI 99 (197)
T ss_pred HHHHHHHHHcCCeEEEecChhHhh--cccCCCC-----CChHHHHHHHHHHHHHHHHHHHCCeEEE
Confidence 356789999999999999975432 2333333 1111111224556666677777776553
No 230
>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=21.70 E-value=4.8e+02 Score=25.41 Aligned_cols=68 Identities=15% Similarity=0.157 Sum_probs=41.8
Q ss_pred HHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCC
Q 013801 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (436)
Q Consensus 187 ~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~ 256 (436)
.|.+.|+++|....+..-+....+.+.+++.|...+....+-.+. +-...+.+.+++.+..+..++..
T Consensus 22 ~LA~~l~~~g~~v~f~~~~~~~~~~~~i~~~g~~v~~~~~~~~~~--~d~~~~~~~l~~~~~d~vV~D~y 89 (279)
T TIGR03590 22 TLARALHAQGAEVAFACKPLPGDLIDLLLSAGFPVYELPDESSRY--DDALELINLLEEEKFDILIVDHY 89 (279)
T ss_pred HHHHHHHHCCCEEEEEeCCCCHHHHHHHHHcCCeEEEecCCCchh--hhHHHHHHHHHhcCCCEEEEcCC
Confidence 466678888999888876555666678888888755554332211 11123566676666666655543
No 231
>PF00107 ADH_zinc_N: Zinc-binding dehydrogenase; InterPro: IPR013149 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of alcohols to their corresponding acetaldehyde or ketone with the concomitant reduction of NAD: alcohol + NAD = aldehyde or ketone + NADH Currently three structurally and catalytically different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Zinc-containing ADH's [, ] are dimeric or tetrameric enzymes that bind two atoms of zinc per subunit. One of the zinc atom is essential for catalytic activity while the other is not. Both zinc atoms are coordinated by either cysteine or histidine residues; the catalytic zinc is coordinated by two cysteines and one histidine. Zinc-containing ADH's are found in bacteria, mammals, plants, and in fungi. In many species there is more than one isozyme (for example, humans have at least six isozymes, yeast have three, etc.). A number of other zinc-dependent dehydrogenases are closely related to zinc ADH [] and are included in this family. Sorbitol dehydrogenase (1.1.1.14 from EC) L-threonine 3-dehydrogenase (1.1.1.103 from EC) Glutathione-dependent formaldehyde dehydrogenase (1.1.1.284 from EC) Mannitol dehydrogenase (1.1.1.255 from EC) In addition, this family includes NADP-dependent quinone oxidoreductase (1.6.5.5 from EC), an enzyme found in bacteria (gene qor), in yeast and in mammals where, in some species such as rodents, it has been recruited as an eye lens protein and is known as zeta-crystallin []. The sequence of quinone oxidoreductase is distantly related to that other zinc-containing alcohol dehydrogenases and it lacks the zinc-ligand residues. The torpedo fish and mammalian synaptic vesicle membrane protein vat-1 is related to qor. This entry represents the cofactor-binding domain of these enzymes, which is normally found towards the C terminus. Structural studies indicate that it forms a classical Rossman fold that reversibly binds NAD(H) [, , ].; GO: 0008270 zinc ion binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3PI7_A 3COS_D 1VJ1_A 2ZB3_A 1PIW_B 1Q1N_A 1PS0_A 2EER_B 3KRT_A 1ZSY_A ....
Probab=21.61 E-value=3.2e+02 Score=22.58 Aligned_cols=53 Identities=28% Similarity=0.384 Sum_probs=36.4
Q ss_pred HHhCCCeEEEEECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEE
Q 013801 192 LQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (436)
Q Consensus 192 L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~ 251 (436)
++..|..+++..++... .+++++.|++.++...+.. ..+++++.....|+.+.
T Consensus 10 ak~~G~~vi~~~~~~~k--~~~~~~~Ga~~~~~~~~~~-----~~~~i~~~~~~~~~d~v 62 (130)
T PF00107_consen 10 AKAMGAKVIATDRSEEK--LELAKELGADHVIDYSDDD-----FVEQIRELTGGRGVDVV 62 (130)
T ss_dssp HHHTTSEEEEEESSHHH--HHHHHHTTESEEEETTTSS-----HHHHHHHHTTTSSEEEE
T ss_pred HHHcCCEEEEEECCHHH--HHHHHhhcccccccccccc-----cccccccccccccceEE
Confidence 45678888888776543 5889999999998765543 45667766655456554
No 232
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=21.54 E-value=6.8e+02 Score=23.48 Aligned_cols=70 Identities=21% Similarity=0.176 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC----hH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEE
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK----PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~----~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~ 252 (436)
|+.+-+..+++.+++.|..+++.... .. +.+..+. ..+++.|+... ..... .+ .+. .+.+.||++..
T Consensus 13 f~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~~i~~~~-~~~vdgiI~~~-~~~~~--~~-~~~-~~~~~giPvV~ 86 (268)
T cd06306 13 YWLSVNYGMVEEAKRLGVSLKLLEAGGYPNLAKQIAQLEDCA-AWGADAILLGA-VSPDG--LN-EIL-QQVAASIPVIA 86 (268)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHH-HcCCCEEEEcC-CChhh--HH-HHH-HHHHCCCCEEE
Confidence 66677788889999999999887532 11 2333333 46899988753 22121 12 233 34568999987
Q ss_pred eeC
Q 013801 253 FWG 255 (436)
Q Consensus 253 ~~~ 255 (436)
++.
T Consensus 87 ~~~ 89 (268)
T cd06306 87 LVN 89 (268)
T ss_pred ecc
Confidence 754
No 233
>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=21.53 E-value=5.2e+02 Score=26.03 Aligned_cols=73 Identities=18% Similarity=0.347 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHhCCCeEEE-EE-CChHHHHHHHHHH-h--CCCEEEEeccCCchHHHHHHHHHHHHH-hcCCcEEEe
Q 013801 180 FLIESVSDLRKNLQARGSDLVV-RV-GKPETVLVELAKA-I--GADAVYAHREVSHDEVKSEEKIEAAMK-DEGIEVKYF 253 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v-~~-G~~~~~L~~L~~~-~--~a~~V~~~~e~~p~~~~rd~~l~~~l~-~~gI~v~~~ 253 (436)
|+-+.+..+++.+++ -.+++ +- |-.-.++..++.+ . ++.+|+++....+. .-.+.+++.+. +.||+++.+
T Consensus 2 ~~~~~~~~l~~~v~~--~kVvValSGGVDSsvla~ll~~~~G~~v~av~vd~G~~~~--~E~e~~~~~~~~~lgi~~~vv 77 (311)
T TIGR00884 2 FIEEAVEEIREQVGD--AKVIIALSGGVDSSVAAVLAHRAIGDRLTCVFVDHGLLRK--GEAEQVVKTFGDRLGLNLVYV 77 (311)
T ss_pred hHHHHHHHHHHHhCC--CcEEEEecCChHHHHHHHHHHHHhCCCEEEEEEeCCCCCh--HHHHHHHHHHHHHcCCcEEEE
Confidence 677788889988876 33443 33 4344555566654 3 45667777655432 22344555544 789999887
Q ss_pred eCC
Q 013801 254 WGS 256 (436)
Q Consensus 254 ~~~ 256 (436)
+-.
T Consensus 78 d~~ 80 (311)
T TIGR00884 78 DAK 80 (311)
T ss_pred eCc
Confidence 654
No 234
>COG1751 Uncharacterized conserved protein [Function unknown]
Probab=21.51 E-value=2.7e+02 Score=25.46 Aligned_cols=72 Identities=14% Similarity=0.201 Sum_probs=47.3
Q ss_pred HHHHHHHHHhCCCeEEEEE---CChHHHHHHHHHHhCCCEEEEeccC---CchHHHHHHHHHHHHHhcCCcEEEeeCCee
Q 013801 185 VSDLRKNLQARGSDLVVRV---GKPETVLVELAKAIGADAVYAHREV---SHDEVKSEEKIEAAMKDEGIEVKYFWGSTL 258 (436)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~---G~~~~~L~~L~~~~~a~~V~~~~e~---~p~~~~rd~~l~~~l~~~gI~v~~~~~~~L 258 (436)
|+---+.-+++||.-+|.. |.....+.+.++. +.+.|.+.-.+ +++...+|..+++.|++.|..+.+ .+|.|
T Consensus 16 le~a~erA~elgik~~vVAS~tG~tA~k~lemveg-~lkvVvVthh~Gf~e~g~~e~~~E~~~~L~erGa~v~~-~sHal 93 (186)
T COG1751 16 LEIAVERAKELGIKHIVVASSTGYTALKALEMVEG-DLKVVVVTHHAGFEEKGTQEMDEEVRKELKERGAKVLT-QSHAL 93 (186)
T ss_pred HHHHHHHHHhcCcceEEEEecccHHHHHHHHhccc-CceEEEEEeecccccCCceecCHHHHHHHHHcCceeee-ehhhh
Confidence 3444455567899887764 6666666666664 25556555544 345578899999999999998753 44444
No 235
>TIGR01662 HAD-SF-IIIA HAD-superfamily hydrolase, subfamily IIIA. In the case of histidinol phosphatase and PNK-3'-phosphatase, this model represents a domain of a bifunctional system. In the histidinol phosphatase HisB, a C-terminal domain is an imidazoleglycerol-phosphate dehydratase which catalyzes a related step in histidine biosynthesis. In PNK-3'-phosphatase, N- and C-terminal domains constitute the polynucleotide kinase and DNA-binding components of the enzyme.
Probab=21.45 E-value=2.5e+02 Score=23.52 Aligned_cols=42 Identities=17% Similarity=0.272 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEECCh--------HHHHHHHHHHhCCC
Q 013801 179 SFLIESVSDLRKNLQARGSDLVVRVGKP--------ETVLVELAKAIGAD 220 (436)
Q Consensus 179 ~FL~esL~~L~~~L~~~Gi~L~v~~G~~--------~~~L~~L~~~~~a~ 220 (436)
.-++..+.++=+.|++.|+.+.+..+.. .+.+..+++..+..
T Consensus 24 ~~~~~~v~~~l~~L~~~g~~l~i~Sn~~~~~~~~~~~~~~~~~l~~~~l~ 73 (132)
T TIGR01662 24 RILYPEVPDALAELKEAGYKVVIVTNQSGIGRGKFSSGRVARRLEELGVP 73 (132)
T ss_pred heeCCCHHHHHHHHHHCCCEEEEEECCccccccHHHHHHHHHHHHHCCCC
Confidence 3456777777788888999999998766 55566666666654
No 236
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. 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-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=21.44 E-value=2.1e+02 Score=29.32 Aligned_cols=76 Identities=12% Similarity=0.069 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHHHHHhCC-CeEEEEECC------hHHHHHHHHHHhCCCEEEEec-cCCchHHHHHHHHHHHHHhcC
Q 013801 176 YRASFLIESVSDLRKNLQARG-SDLVVRVGK------PETVLVELAKAIGADAVYAHR-EVSHDEVKSEEKIEAAMKDEG 247 (436)
Q Consensus 176 ~r~~FL~esL~~L~~~L~~~G-i~L~v~~G~------~~~~L~~L~~~~~a~~V~~~~-e~~p~~~~rd~~l~~~l~~~g 247 (436)
.|+.|=..++++|.+.|++.| ..++|..|. ..+.+.+.+++.|+...+++. +.+|.... .+++.+.+++.+
T Consensus 5 ~~i~~G~g~l~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~-v~~~~~~~~~~~ 83 (374)
T cd08189 5 PKLFVGSGSLAQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPDPTIEN-VEAGLALYRENG 83 (374)
T ss_pred ceEEECcCHHHHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCCcCHHH-HHHHHHHHHhcC
Confidence 344455567888888888888 466666543 234455556666776554433 22233222 334556666677
Q ss_pred CcEEE
Q 013801 248 IEVKY 252 (436)
Q Consensus 248 I~v~~ 252 (436)
+.+..
T Consensus 84 ~d~II 88 (374)
T cd08189 84 CDAIL 88 (374)
T ss_pred CCEEE
Confidence 76543
No 237
>PRK09701 D-allose transporter subunit; Provisional
Probab=21.43 E-value=7.6e+02 Score=24.00 Aligned_cols=72 Identities=8% Similarity=0.041 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEC----Ch---HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEE
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVG----KP---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G----~~---~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~ 252 (436)
|+.+-+..+++.+++.|..+.+..+ +. .+.+..+. ..+++.|+.... .+. ..+..+.+ +.+.||++..
T Consensus 38 f~~~~~~gi~~~a~~~g~~v~~~~~~~~~~~~~~~~~i~~l~-~~~vDgiIi~~~-~~~--~~~~~l~~-~~~~giPvV~ 112 (311)
T PRK09701 38 FWVDMKKGIEDEAKTLGVSVDIFASPSEGDFQSQLQLFEDLS-NKNYKGIAFAPL-SSV--NLVMPVAR-AWKKGIYLVN 112 (311)
T ss_pred HHHHHHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHH-HcCCCEEEEeCC-ChH--HHHHHHHH-HHHCCCcEEE
Confidence 7777788888899999999987632 22 23343443 457898887532 121 12233433 3568999998
Q ss_pred eeCC
Q 013801 253 FWGS 256 (436)
Q Consensus 253 ~~~~ 256 (436)
++..
T Consensus 113 ~~~~ 116 (311)
T PRK09701 113 LDEK 116 (311)
T ss_pred eCCC
Confidence 8753
No 238
>PRK02090 phosphoadenosine phosphosulfate reductase; Provisional
Probab=21.37 E-value=4.5e+02 Score=25.16 Aligned_cols=70 Identities=16% Similarity=0.222 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHhCCCeEEEE--ECChHHHHHHHHHHh--CCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEee
Q 013801 183 ESVSDLRKNLQARGSDLVVR--VGKPETVLVELAKAI--GADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (436)
Q Consensus 183 esL~~L~~~L~~~Gi~L~v~--~G~~~~~L~~L~~~~--~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~ 254 (436)
+++.-++..+++.|-.+.|- -|....++..|+.+. .+..||++..++..+. .+.+.+..++.|+.++.+.
T Consensus 27 ~~~e~i~~a~~~~~~~i~vs~SGGKDS~vlL~L~~~~~~~i~vvfiDTG~~~pet--~e~~~~~~~~~gl~l~v~~ 100 (241)
T PRK02090 27 SAQERLAWALENFGGRLALVSSFGAEDAVLLHLVAQVDPDIPVIFLDTGYLFPET--YRFIDELTERLLLNLKVYR 100 (241)
T ss_pred CHHHHHHHHHHHcCCCEEEEecCCHHHHHHHHHHHhcCCCCcEEEecCCCCCHHH--HHHHHHHHHHhCCCEEEEC
Confidence 35556677777777666654 366778888888876 4778888887764433 3344445555688887654
No 239
>PF00578 AhpC-TSA: AhpC/TSA family; InterPro: IPR000866 Peroxiredoxins (Prxs) are a ubiquitous family of antioxidant enzymes that also control cytokine-induced peroxide levels which mediate signal transduction in mammalian cells. Prxs can be regulated by changes to phosphorylation, redox and possibly oligomerisation states. Prxs are divided into three classes: typical 2-Cys Prxs; atypical 2-Cys Prxs; and 1-Cys Prxs. All Prxs share the same basic catalytic mechanism, in which an active-site cysteine (the peroxidatic cysteine) is oxidised to a sulphenic acid by the peroxide substrate. The recycling of the sulphenic acid back to a thiol is what distinguishes the three enzyme classes. Using crystal structures, a detailed catalytic cycle has been derived for typical 2-Cys Prxs, including a model for the redox-regulated oligomeric state proposed to control enzyme activity []. Alkyl hydroperoxide reductase (AhpC) is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defence against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.; GO: 0016209 antioxidant activity, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QMV_A 1PRX_B 3HJP_C 3HA9_A 2V41_G 2V32_C 2V2G_C 3LWA_A 3IA1_B 1ZYE_G ....
Probab=21.34 E-value=2.4e+02 Score=23.05 Aligned_cols=51 Identities=12% Similarity=0.267 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCeEEEEECChHHHHHHHHHHhCCC-EEEEec
Q 013801 175 PYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD-AVYAHR 226 (436)
Q Consensus 175 ~~r~~FL~esL~~L~~~L~~~Gi~L~v~~G~~~~~L~~L~~~~~a~-~V~~~~ 226 (436)
+.+.. .+..|.++.+++++.|+.++.+.-+..+.+.+++++++.. .|+++.
T Consensus 39 ~~c~~-~l~~l~~~~~~~~~~~~~vi~is~d~~~~~~~~~~~~~~~~~~~~D~ 90 (124)
T PF00578_consen 39 PFCQA-ELPELNELYKKYKDKGVQVIGISTDDPEEIKQFLEEYGLPFPVLSDP 90 (124)
T ss_dssp HHHHH-HHHHHHHHHHHHHTTTEEEEEEESSSHHHHHHHHHHHTCSSEEEEET
T ss_pred ccccc-chhHHHHHhhhhccceEEeeecccccccchhhhhhhhccccccccCc
Confidence 34443 3455888889999999999999888888899999998855 555553
No 240
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=21.25 E-value=6.7e+02 Score=23.31 Aligned_cols=72 Identities=14% Similarity=0.118 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHh--CCCeEEEEEC--ChHH--HHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEe
Q 013801 180 FLIESVSDLRKNLQA--RGSDLVVRVG--KPET--VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 180 FL~esL~~L~~~L~~--~Gi~L~v~~G--~~~~--~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~ 253 (436)
|+.+-+..+++.+++ .|..+++..+ +... .+.+.+...+++.|++.. . +....+..++ .+.+.|+++..+
T Consensus 13 ~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~-~--~~~~~~~~i~-~~~~~~ipvv~~ 88 (271)
T cd06321 13 FFVALAKGAEAAAKKLNPGVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNA-V--DSKGIAPAVK-RAQAAGIVVVAV 88 (271)
T ss_pred HHHHHHHHHHHHHHHhCCCeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeC-C--ChhHhHHHHH-HHHHCCCeEEEe
Confidence 566777788888888 6666665543 3322 222223456888888753 1 1112234444 445679999888
Q ss_pred eC
Q 013801 254 WG 255 (436)
Q Consensus 254 ~~ 255 (436)
+.
T Consensus 89 ~~ 90 (271)
T cd06321 89 DV 90 (271)
T ss_pred cC
Confidence 64
No 241
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=21.02 E-value=4.7e+02 Score=21.40 Aligned_cols=62 Identities=18% Similarity=0.197 Sum_probs=43.9
Q ss_pred HHHHHHHHHHhCCCeEEEEECCh-HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhc
Q 013801 184 SVSDLRKNLQARGSDLVVRVGKP-ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDE 246 (436)
Q Consensus 184 sL~~L~~~L~~~Gi~L~v~~G~~-~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~ 246 (436)
++.-+..-|++.|.++.++..+. .+.+.+.+++.+.+.|.+..-+++.... ..++.+..++.
T Consensus 16 Gl~~la~~l~~~G~~v~~~d~~~~~~~l~~~~~~~~pd~V~iS~~~~~~~~~-~~~l~~~~k~~ 78 (121)
T PF02310_consen 16 GLLYLAAYLRKAGHEVDILDANVPPEELVEALRAERPDVVGISVSMTPNLPE-AKRLARAIKER 78 (121)
T ss_dssp HHHHHHHHHHHTTBEEEEEESSB-HHHHHHHHHHTTCSEEEEEESSSTHHHH-HHHHHHHHHTT
T ss_pred HHHHHHHHHHHCCCeEEEECCCCCHHHHHHHHhcCCCcEEEEEccCcCcHHH-HHHHHHHHHhc
Confidence 56677788888999998886553 5778888888899999887755544433 34555555544
No 242
>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=21.01 E-value=5.3e+02 Score=24.58 Aligned_cols=78 Identities=13% Similarity=0.163 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhC-----CCeEEEEECChHHHHHHHHHHhCCCEEEEe--ccCCchHHHHHHHHHHHHHhcC
Q 013801 175 PYRASFLIESVSDLRKNLQAR-----GSDLVVRVGKPETVLVELAKAIGADAVYAH--REVSHDEVKSEEKIEAAMKDEG 247 (436)
Q Consensus 175 ~~r~~FL~esL~~L~~~L~~~-----Gi~L~v~~G~~~~~L~~L~~~~~a~~V~~~--~e~~p~~~~rd~~l~~~l~~~g 247 (436)
..+..=+.+.|.+|.+.+++. +..+++.+ +.+..|++.+|+..+... .+-..-.-+.-.++.+.+++.+
T Consensus 124 ~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~h----~~~~Y~~~~~gl~~~~~~~~~~~~~ps~~~l~~l~~~ik~~~ 199 (256)
T PF01297_consen 124 EKNAEKYLKELDELDAEIKEKLAKLPGRPVVVYH----DAFQYFAKRYGLKVIGVIEISPGEEPSPKDLAELIKLIKENK 199 (256)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTSSGGEEEEEE----STTHHHHHHTT-EEEEEESSSSSSSS-HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccCCeEEEEC----hHHHHHHHhcCCceeeeeccccccCCCHHHHHHHHHHhhhcC
Q ss_pred CcEEEeeCC
Q 013801 248 IEVKYFWGS 256 (436)
Q Consensus 248 I~v~~~~~~ 256 (436)
|.+..++..
T Consensus 200 v~~i~~e~~ 208 (256)
T PF01297_consen 200 VKCIFTEPQ 208 (256)
T ss_dssp -SEEEEETT
T ss_pred CcEEEecCC
No 243
>TIGR03191 benz_CoA_bzdO benzoyl-CoA reductase, bzd-type, O subunit. Members of this family are the O subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=20.91 E-value=2.3e+02 Score=29.91 Aligned_cols=51 Identities=16% Similarity=0.230 Sum_probs=36.8
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCC--chHHHHHHHHHHHHHhcCCcEEEeeCCe
Q 013801 206 PETVLVELAKAIGADAVYAHREVS--HDEVKSEEKIEAAMKDEGIEVKYFWGST 257 (436)
Q Consensus 206 ~~~~L~~L~~~~~a~~V~~~~e~~--p~~~~rd~~l~~~l~~~gI~v~~~~~~~ 257 (436)
-.+.+.+++++++++.|+.+..-. ++....- .+++.+++.||++-.++++.
T Consensus 349 R~~~l~~li~e~~vDGVI~~~~~~C~~~s~e~~-~ik~~l~~~GIP~L~ietD~ 401 (430)
T TIGR03191 349 KSEMMLNIARDWNVDGCMLHLNRGCEGLSIGIM-ENRLAIAKAGIPIMTFEGNM 401 (430)
T ss_pred HHHHHHHHHHHHCCCEEEEcCCCCCccchHhHH-HHHHHHHHcCCCEEEEECCC
Confidence 468889999999999998876443 3322222 35677788999998877663
No 244
>TIGR03023 WcaJ_sugtrans Undecaprenyl-phosphate glucose phosphotransferase. Colanic acid biosynthesis utilizes a glucose-undecaprenyl carrier, knockout of EpsB abolishes incorporation of UDP-glucose into the lipid phase and the C-terminal portion of GumD has been shown to be responsible for the glucosyl-1-transferase activity.
Probab=20.76 E-value=6.4e+02 Score=26.37 Aligned_cols=47 Identities=19% Similarity=0.194 Sum_probs=35.1
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 207 ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 207 ~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
.+.+.+++++++++.|+........ ..-+.+.+.|++.|++++...+
T Consensus 180 ~~dl~~~i~~~~vd~ViIA~p~~~~--~~~~~ll~~~~~~gv~V~vvP~ 226 (451)
T TIGR03023 180 LDDLEELIREGEVDEVYIALPLAAE--DRILELLDALEDLTVDVRLVPD 226 (451)
T ss_pred HHHHHHHHHhcCCCEEEEeeCcccH--HHHHHHHHHHHhcCCEEEEeCc
Confidence 3568889999999999998754322 3345677889999999887654
No 245
>cd06315 PBP1_ABC_sugar_binding_like_6 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=20.71 E-value=7.3e+02 Score=23.50 Aligned_cols=72 Identities=17% Similarity=0.212 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEECC--hH--HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeC
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVGK--PE--TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G~--~~--~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~ 255 (436)
|+.+-+..+.+.+++.|..+++..+. .. ..+.+.+...+++.|+... ..+. ..+..+ +.+.+.||++..++.
T Consensus 14 ~~~~~~~gi~~~a~~~gy~~~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~-~~~~--~~~~~~-~~~~~~~iPvV~~d~ 89 (280)
T cd06315 14 GILGVGEGVREAAKAIGWNLRILDGRGSEAGQAAALNQAIALKPDGIVLGG-VDAA--ELQAEL-ELAQKAGIPVVGWHA 89 (280)
T ss_pred HHHHHHHHHHHHHHHcCcEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEcC-CCHH--HHHHHH-HHHHHCCCCEEEecC
Confidence 66777889999999999999887543 22 1233345567899988853 2111 112333 345667999988764
No 246
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=20.66 E-value=7.9e+02 Score=24.39 Aligned_cols=71 Identities=20% Similarity=0.217 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEC----ChH---HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEE
Q 013801 180 FLIESVSDLRKNLQARGSDLVVRVG----KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (436)
Q Consensus 180 FL~esL~~L~~~L~~~Gi~L~v~~G----~~~---~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~ 252 (436)
|+...+..+++.+++.|..+.+..+ +.. +.+..+ ...+++.|++.. ..+.. ....+ .+.+.||++..
T Consensus 60 f~~~~~~gi~~aa~~~G~~l~i~~~~~~~~~~~q~~~i~~l-~~~~vdgIIl~~-~~~~~--~~~~l--~~~~~giPvV~ 133 (343)
T PRK10936 60 YWLSVNYGMVEEAKRLGVDLKVLEAGGYYNLAKQQQQLEQC-VAWGADAILLGA-VTPDG--LNPDL--ELQAANIPVIA 133 (343)
T ss_pred HHHHHHHHHHHHHHHhCCEEEEEcCCCCCCHHHHHHHHHHH-HHhCCCEEEEeC-CChHH--hHHHH--HHHHCCCCEEE
Confidence 6667778888899999999998853 222 223333 345899888753 22222 12334 44568999987
Q ss_pred eeCC
Q 013801 253 FWGS 256 (436)
Q Consensus 253 ~~~~ 256 (436)
+++.
T Consensus 134 ~~~~ 137 (343)
T PRK10936 134 LVNG 137 (343)
T ss_pred ecCC
Confidence 7543
No 247
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=20.65 E-value=6.7e+02 Score=23.78 Aligned_cols=56 Identities=16% Similarity=0.156 Sum_probs=42.6
Q ss_pred EECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHHHhcCCcEEEeeCCe
Q 013801 202 RVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGST 257 (436)
Q Consensus 202 ~~G~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~rd~~l~~~l~~~gI~v~~~~~~~ 257 (436)
+...+.---.+-+++.|+..++.+..--+....+|+.+.+.+.+.++.+....+..
T Consensus 34 isd~~~A~~lerA~~~gIpt~~~~~k~~~~r~~~d~~l~~~l~~~~~dlvvLAGyM 89 (200)
T COG0299 34 ISDKADAYALERAAKAGIPTVVLDRKEFPSREAFDRALVEALDEYGPDLVVLAGYM 89 (200)
T ss_pred EeCCCCCHHHHHHHHcCCCEEEeccccCCCHHHHHHHHHHHHHhcCCCEEEEcchH
Confidence 44444445567889999999887765555667789999999999999998766554
No 248
>cd02064 FAD_synthetase_N FAD synthetase, N-terminal domain of the bifunctional enzyme. FAD synthetase_N. N-terminal domain of the bifunctional riboflavin biosynthesis protein riboflavin kinase/FAD synthetase. These enzymes have both ATP:riboflavin 5'-phosphotransferase and ATP:FMN-adenylyltransferase activities. The N-terminal domain is believed to play a role in the adenylylation reaction of FAD synthetases. The C-terminal domain is thought to have kinase activity. FAD synthetase is present among all kingdoms of life. However, the bifunctional enzyme is not found in mammals, which use separate enzymes for FMN and FAD formation.
Probab=20.23 E-value=3.7e+02 Score=24.42 Aligned_cols=69 Identities=19% Similarity=0.227 Sum_probs=44.7
Q ss_pred HHHHHHHHHhCCCeEEEEEC--------ChHHHHHHHHHHhCCCEEEEeccCCchHHHH--HHHHHHHHHhcCCcEEEe
Q 013801 185 VSDLRKNLQARGSDLVVRVG--------KPETVLVELAKAIGADAVYAHREVSHDEVKS--EEKIEAAMKDEGIEVKYF 253 (436)
Q Consensus 185 L~~L~~~L~~~Gi~L~v~~G--------~~~~~L~~L~~~~~a~~V~~~~e~~p~~~~r--d~~l~~~l~~~gI~v~~~ 253 (436)
..+=.+-|++.|++.++... ++.+-+..++...+++.|++-.++.....+. ...+++.+++.|+.+..+
T Consensus 58 ~e~R~~~l~~l~vd~v~~~~f~~~~~~~s~~~Fi~~il~~~~~~~ivvG~Df~FG~~~~g~~~~L~~~~~~~g~~v~~v 136 (180)
T cd02064 58 LEEKLELLESLGVDYLLVLPFDKEFASLSAEEFVEDLLVKLNAKHVVVGFDFRFGKGRSGDAELLKELGKKYGFEVTVV 136 (180)
T ss_pred HHHHHHHHHHcCCCEEEEeCCCHHHHcCCHHHHHHHHHhhcCCeEEEEccCCCCCCCCCCCHHHHHHhhhhcCcEEEEe
Confidence 34444556777887766532 3555555666555899999999886432211 234677888889888754
No 249
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=20.09 E-value=3.4e+02 Score=22.34 Aligned_cols=18 Identities=28% Similarity=0.348 Sum_probs=10.5
Q ss_pred HHHHHHHHhCCCeEEEEE
Q 013801 186 SDLRKNLQARGSDLVVRV 203 (436)
Q Consensus 186 ~~L~~~L~~~Gi~L~v~~ 203 (436)
..+-+.|.++|..|+--.
T Consensus 16 ~~~~~~l~~~G~~l~aT~ 33 (110)
T cd01424 16 VEIAKRLAELGFKLVATE 33 (110)
T ss_pred HHHHHHHHHCCCEEEEch
Confidence 355555666677776443
Done!