Query 012338
Match_columns 465
No_of_seqs 227 out of 1242
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 01:35:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012338.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012338hhsearch_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 1.2E-54 2.7E-59 456.0 32.9 304 124-455 1-307 (429)
2 TIGR03556 photolyase_8HDF deox 100.0 3.2E-53 7E-58 449.2 31.8 294 125-450 2-300 (471)
3 COG0415 PhrB Deoxyribodipyrimi 100.0 2.2E-53 4.7E-58 439.7 28.5 284 124-450 2-287 (461)
4 TIGR02766 crypt_chrom_pln cryp 100.0 9.9E-52 2.1E-56 439.0 28.0 294 127-449 1-297 (475)
5 PRK10674 deoxyribodipyrimidine 100.0 1E-50 2.3E-55 430.2 31.4 290 126-458 4-301 (472)
6 TIGR00591 phr2 photolyase PhrI 100.0 4.7E-50 1E-54 424.0 28.2 298 116-459 15-322 (454)
7 PF00875 DNA_photolyase: DNA p 100.0 2.8E-37 6E-42 283.8 15.1 164 126-294 1-164 (165)
8 KOG0133 Deoxyribodipyrimidine 100.0 6.5E-35 1.4E-39 304.9 10.4 301 122-448 3-311 (531)
9 COG3046 Uncharacterized protei 99.8 4.7E-19 1E-23 177.5 21.5 292 124-450 2-323 (505)
10 PF03441 FAD_binding_7: FAD bi 99.8 7.1E-19 1.5E-23 174.8 6.1 100 341-457 1-100 (277)
11 KOG0133 Deoxyribodipyrimidine 98.9 1.7E-10 3.7E-15 122.0 -2.9 409 16-464 69-499 (531)
12 PF04244 DPRP: Deoxyribodipyri 98.5 2.3E-07 4.9E-12 89.5 8.0 147 127-284 1-156 (224)
13 PRK12652 putative monovalent c 90.6 2.6 5.7E-05 43.7 11.3 107 139-252 19-148 (357)
14 TIGR00289 conserved hypothetic 90.0 2.3 5E-05 41.1 9.6 97 139-251 14-115 (222)
15 cd01994 Alpha_ANH_like_IV This 89.6 2.8 6.1E-05 39.6 9.8 96 140-251 14-118 (194)
16 COG2102 Predicted ATPases of P 87.3 4.9 0.00011 38.7 9.7 99 138-251 13-116 (223)
17 TIGR00290 MJ0570_dom MJ0570-re 85.5 7.9 0.00017 37.5 10.3 97 139-251 14-115 (223)
18 PRK09982 universal stress prot 85.2 19 0.00042 31.5 12.1 112 139-252 17-136 (142)
19 cd01988 Na_H_Antiporter_C The 83.1 16 0.00035 30.7 10.4 84 139-227 13-103 (132)
20 cd00293 USP_Like Usp: Universa 82.5 18 0.00038 29.8 10.3 75 147-226 25-101 (130)
21 cd01989 STK_N The N-terminal d 82.5 19 0.0004 31.3 10.8 90 138-227 12-112 (146)
22 PRK15005 universal stress prot 79.7 30 0.00065 29.8 11.1 87 140-227 19-116 (144)
23 TIGR03679 arCOG00187 arCOG0018 76.8 24 0.00053 33.8 10.3 96 140-251 12-116 (218)
24 cd01987 USP_OKCHK USP domain i 76.3 33 0.00072 28.8 10.1 77 139-227 13-94 (124)
25 PRK10116 universal stress prot 76.2 50 0.0011 28.4 13.4 115 137-253 15-137 (142)
26 PF01902 ATP_bind_4: ATP-bindi 73.1 4.9 0.00011 38.7 4.4 97 139-251 14-115 (218)
27 TIGR01490 HAD-SF-IB-hyp1 HAD-s 72.4 21 0.00046 32.9 8.5 45 181-225 88-132 (202)
28 TIGR01088 aroQ 3-dehydroquinat 68.5 25 0.00055 31.5 7.5 66 193-262 38-106 (141)
29 PRK13015 3-dehydroquinate dehy 68.5 30 0.00064 31.3 8.0 67 192-262 39-108 (146)
30 PF00582 Usp: Universal stress 68.4 57 0.0012 26.9 9.7 55 198-252 82-138 (140)
31 PRK15118 universal stress glob 68.3 78 0.0017 27.3 13.3 66 186-252 68-136 (144)
32 PRK15456 universal stress prot 66.6 73 0.0016 27.5 10.3 87 140-226 19-113 (142)
33 PF13167 GTP-bdg_N: GTP-bindin 65.6 55 0.0012 27.3 8.6 62 182-250 7-83 (95)
34 COG2217 ZntA Cation transport 64.7 21 0.00046 40.4 7.8 61 186-251 543-603 (713)
35 PF10087 DUF2325: Uncharacteri 64.1 46 0.00099 27.4 7.9 66 185-254 12-82 (97)
36 PRK10490 sensor protein KdpD; 62.8 52 0.0011 38.4 10.8 117 122-254 249-373 (895)
37 COG1139 Uncharacterized conser 62.8 28 0.00061 36.8 7.7 65 185-253 67-133 (459)
38 COG2205 KdpD Osmosensitive K+ 62.0 1.2E+02 0.0027 34.8 12.9 120 121-255 246-374 (890)
39 PF00702 Hydrolase: haloacid d 61.8 25 0.00055 32.3 6.7 40 182-221 129-168 (215)
40 COG0560 SerB Phosphoserine pho 60.9 22 0.00048 33.9 6.2 65 185-249 82-159 (212)
41 PRK14010 potassium-transportin 60.7 35 0.00075 38.5 8.5 63 183-250 444-506 (673)
42 PRK01122 potassium-transportin 59.9 38 0.00082 38.3 8.7 61 183-248 448-508 (679)
43 TIGR01497 kdpB K+-transporting 59.3 53 0.0012 37.1 9.7 62 182-248 448-509 (675)
44 PRK14719 bifunctional RNAse/5- 58.9 23 0.00051 36.8 6.4 61 191-251 37-99 (360)
45 COG0299 PurN Folate-dependent 55.6 92 0.002 29.6 9.1 99 138-254 39-140 (200)
46 PRK05395 3-dehydroquinate dehy 53.4 1.3E+02 0.0029 27.1 9.4 66 193-262 40-108 (146)
47 cd00466 DHQase_II Dehydroquina 51.6 1.4E+02 0.003 26.8 9.2 68 192-263 37-107 (140)
48 PF08218 Citrate_ly_lig: Citra 51.0 78 0.0017 29.6 7.7 107 139-253 15-143 (182)
49 TIGR01488 HAD-SF-IB Haloacid D 50.3 20 0.00044 32.1 3.9 43 183-225 76-118 (177)
50 PF01220 DHquinase_II: Dehydro 50.1 1.3E+02 0.0028 27.0 8.7 76 183-262 25-107 (140)
51 COG0589 UspA Universal stress 49.9 1.4E+02 0.003 25.3 9.1 46 181-226 72-121 (154)
52 TIGR00273 iron-sulfur cluster- 49.2 36 0.00078 36.3 6.0 66 183-252 51-118 (432)
53 cd06279 PBP1_LacI_like_3 Ligan 48.0 1.3E+02 0.0028 29.1 9.5 72 179-256 17-88 (283)
54 PRK10517 magnesium-transportin 47.2 98 0.0021 36.3 9.6 39 182-220 552-590 (902)
55 TIGR01512 ATPase-IB2_Cd heavy 46.8 74 0.0016 34.8 8.2 47 180-226 362-409 (536)
56 PRK15122 magnesium-transportin 45.8 99 0.0021 36.2 9.4 64 182-250 552-640 (903)
57 PF05368 NmrA: NmrA-like famil 45.1 89 0.0019 29.4 7.6 65 187-253 35-100 (233)
58 PF12710 HAD: haloacid dehalog 45.0 48 0.001 30.0 5.6 41 187-227 96-138 (192)
59 TIGR01491 HAD-SF-IB-PSPlk HAD- 44.7 42 0.00091 30.7 5.2 43 183-225 83-125 (201)
60 TIGR01525 ATPase-IB_hvy heavy 44.5 1.2E+02 0.0025 33.4 9.3 45 181-225 385-430 (556)
61 cd06294 PBP1_ycjW_transcriptio 44.3 1.3E+02 0.0028 28.5 8.7 71 180-256 18-92 (270)
62 PRK09484 3-deoxy-D-manno-octul 44.1 63 0.0014 29.8 6.3 57 183-249 55-111 (183)
63 TIGR01524 ATPase-IIIB_Mg magne 43.9 1.1E+02 0.0024 35.7 9.4 39 182-220 517-555 (867)
64 cd01427 HAD_like Haloacid deha 43.5 69 0.0015 26.3 6.0 49 180-228 24-76 (139)
65 PRK11175 universal stress prot 43.3 2.2E+02 0.0047 28.0 10.4 42 185-226 225-269 (305)
66 TIGR02199 rfaE_dom_II rfaE bif 42.3 1.1E+02 0.0024 27.2 7.2 106 133-254 21-128 (144)
67 TIGR01647 ATPase-IIIA_H plasma 41.6 1.1E+02 0.0025 34.9 8.9 39 183-221 445-483 (755)
68 PF07476 MAAL_C: Methylasparta 41.1 1.1E+02 0.0024 29.8 7.3 86 153-251 105-193 (248)
69 COG2179 Predicted hydrolase of 40.7 1E+02 0.0022 28.6 6.7 56 190-251 56-111 (175)
70 PF06415 iPGM_N: BPG-independe 40.6 1.3E+02 0.0029 29.1 7.9 74 183-256 14-104 (223)
71 cd06277 PBP1_LacI_like_1 Ligan 39.6 1.7E+02 0.0038 27.7 8.8 70 180-256 16-89 (268)
72 PRK09590 celB cellobiose phosp 39.3 2.3E+02 0.0049 23.9 8.3 67 179-253 15-81 (104)
73 cd06542 GH18_EndoS-like Endo-b 39.2 3.6E+02 0.0078 26.0 11.3 63 125-204 2-72 (255)
74 TIGR01544 HAD-SF-IE haloacid d 39.1 52 0.0011 32.9 5.1 34 185-218 126-159 (277)
75 PF13727 CoA_binding_3: CoA-bi 39.1 56 0.0012 28.9 5.0 44 208-253 131-174 (175)
76 KOG0207 Cation transport ATPas 39.0 1E+02 0.0022 35.7 7.8 59 190-253 733-791 (951)
77 TIGR02990 ectoine_eutA ectoine 37.5 79 0.0017 30.9 6.0 48 205-255 106-153 (239)
78 TIGR00338 serB phosphoserine p 37.3 47 0.001 31.1 4.3 44 182-225 87-130 (219)
79 KOG1615 Phosphoserine phosphat 36.6 46 0.001 31.7 3.9 35 185-219 93-127 (227)
80 cd01545 PBP1_SalR Ligand-bindi 36.5 2.5E+02 0.0055 26.4 9.4 72 180-256 13-89 (270)
81 PF02571 CbiJ: Precorrin-6x re 36.2 1.7E+02 0.0036 28.8 8.0 58 197-256 43-102 (249)
82 cd06547 GH85_ENGase Endo-beta- 35.8 3E+02 0.0066 28.3 10.2 111 128-266 38-158 (339)
83 TIGR01670 YrbI-phosphatas 3-de 35.6 1.2E+02 0.0027 27.0 6.6 54 189-248 37-90 (154)
84 cd06295 PBP1_CelR Ligand bindi 35.0 3.2E+02 0.0069 25.9 9.9 70 180-255 24-95 (275)
85 PRK08057 cobalt-precorrin-6x r 34.9 2.8E+02 0.0062 27.2 9.4 47 207-255 54-100 (248)
86 PRK10671 copA copper exporting 34.4 2E+02 0.0044 33.3 9.6 44 187-232 657-700 (834)
87 TIGR01511 ATPase-IB1_Cu copper 34.3 2E+02 0.0043 31.7 9.1 41 183-224 408-448 (562)
88 PRK10343 RNA-binding protein Y 34.2 2.4E+02 0.0052 23.6 7.5 67 189-258 8-82 (97)
89 cd06267 PBP1_LacI_sugar_bindin 33.8 3.1E+02 0.0066 25.4 9.4 70 180-256 13-87 (264)
90 cd06297 PBP1_LacI_like_12 Liga 33.7 2.6E+02 0.0056 26.7 9.0 71 179-255 12-86 (269)
91 cd06322 PBP1_ABC_sugar_binding 32.8 3.7E+02 0.0079 25.3 9.9 72 179-255 12-88 (267)
92 cd01540 PBP1_arabinose_binding 32.4 3.1E+02 0.0068 26.2 9.5 72 180-256 13-88 (289)
93 cd01018 ZntC Metal binding pro 32.0 2.7E+02 0.0058 27.3 8.8 73 176-253 145-223 (266)
94 PLN02954 phosphoserine phospha 32.0 70 0.0015 30.0 4.6 38 183-220 87-124 (224)
95 cd06313 PBP1_ABC_sugar_binding 31.3 3.3E+02 0.0073 26.0 9.4 73 179-256 12-89 (272)
96 COG1412 Uncharacterized protei 31.0 1.5E+02 0.0033 26.4 6.2 48 203-260 83-130 (136)
97 cd01542 PBP1_TreR_like Ligand- 30.9 4E+02 0.0088 24.8 9.8 69 180-255 13-86 (259)
98 TIGR03333 salvage_mtnX 2-hydro 30.7 87 0.0019 29.4 5.0 37 181-217 71-107 (214)
99 PF13911 AhpC-TSA_2: AhpC/TSA 30.5 99 0.0021 25.9 4.8 41 185-227 2-45 (115)
100 TIGR01545 YfhB_g-proteo haloac 30.4 1.1E+02 0.0025 28.9 5.7 29 188-216 103-131 (210)
101 PRK11175 universal stress prot 30.0 5.3E+02 0.012 25.2 12.6 71 185-255 71-146 (305)
102 TIGR02634 xylF D-xylose ABC tr 30.0 4.3E+02 0.0094 25.9 10.1 74 178-256 10-88 (302)
103 cd06272 PBP1_hexuronate_repres 29.8 4.4E+02 0.0095 24.7 9.8 72 179-256 12-83 (261)
104 PRK11590 hypothetical protein; 28.9 1.3E+02 0.0028 28.3 5.8 39 188-226 104-145 (211)
105 cd06296 PBP1_CatR_like Ligand- 28.3 4.2E+02 0.0092 24.8 9.5 70 180-256 13-87 (270)
106 TIGR00253 RNA_bind_YhbY putati 28.2 3.3E+02 0.0071 22.7 7.3 67 189-258 6-80 (95)
107 TIGR00268 conserved hypothetic 28.0 4E+02 0.0087 25.9 9.3 70 186-257 3-75 (252)
108 TIGR01522 ATPase-IIA2_Ca golgi 28.0 3E+02 0.0066 32.1 9.7 39 182-220 530-568 (884)
109 cd06305 PBP1_methylthioribose_ 27.6 3.8E+02 0.0083 25.2 9.1 72 180-256 13-89 (273)
110 cd06273 PBP1_GntR_like_1 This 27.6 4.8E+02 0.01 24.4 9.7 69 180-255 13-86 (268)
111 cd01537 PBP1_Repressors_Sugar_ 27.4 4.7E+02 0.01 24.0 9.5 71 180-256 13-88 (264)
112 TIGR01517 ATPase-IIB_Ca plasma 27.4 2.5E+02 0.0055 33.1 8.9 39 182-220 581-619 (941)
113 cd06299 PBP1_LacI_like_13 Liga 27.3 5E+02 0.011 24.3 9.7 71 180-256 13-87 (265)
114 cd06271 PBP1_AglR_RafR_like Li 26.8 3.4E+02 0.0074 25.4 8.5 70 180-255 17-90 (268)
115 PRK10826 2-deoxyglucose-6-phos 26.5 81 0.0017 29.6 3.9 33 186-218 98-130 (222)
116 TIGR02137 HSK-PSP phosphoserin 25.8 73 0.0016 30.1 3.5 42 183-225 71-112 (203)
117 PF00578 AhpC-TSA: AhpC/TSA fa 25.8 1.7E+02 0.0036 24.2 5.5 46 180-225 43-89 (124)
118 TIGR00099 Cof-subfamily Cof su 25.7 4E+02 0.0086 25.5 8.8 69 191-259 27-108 (256)
119 PRK02090 phosphoadenosine phos 25.7 3.1E+02 0.0067 26.5 8.0 70 183-254 27-100 (241)
120 TIGR00715 precor6x_red precorr 25.7 5.5E+02 0.012 25.2 9.7 45 208-254 55-99 (256)
121 COG1778 Low specificity phosph 25.6 2.5E+02 0.0055 25.9 6.6 55 191-251 46-100 (170)
122 PF05889 SLA_LP_auto_ag: Solub 25.4 7.3E+02 0.016 26.2 10.9 116 125-263 102-231 (389)
123 PRK11033 zntA zinc/cadmium/mer 25.2 2.7E+02 0.0059 31.8 8.5 48 183-233 571-618 (741)
124 PF08282 Hydrolase_3: haloacid 25.1 5.4E+02 0.012 23.6 9.8 70 191-260 26-108 (254)
125 PLN02770 haloacid dehalogenase 25.1 2.3E+02 0.0051 27.2 7.0 34 185-218 113-146 (248)
126 cd06281 PBP1_LacI_like_5 Ligan 25.0 5.5E+02 0.012 24.2 9.6 72 180-256 13-88 (269)
127 PF06574 FAD_syn: FAD syntheta 24.9 37 0.00081 30.8 1.2 75 180-254 59-144 (157)
128 cd06284 PBP1_LacI_like_6 Ligan 24.8 5.3E+02 0.011 24.0 9.4 69 180-255 13-85 (267)
129 PF08765 Mor: Mor transcriptio 24.5 2.6E+02 0.0057 23.5 6.3 66 178-243 4-70 (108)
130 PRK13223 phosphoglycolate phos 24.4 1.5E+02 0.0031 29.3 5.4 36 184-219 105-140 (272)
131 PF13419 HAD_2: Haloacid dehal 24.3 1.7E+02 0.0036 25.4 5.4 8 206-213 82-89 (176)
132 PLN02347 GMP synthetase 24.2 4E+02 0.0088 29.3 9.2 77 179-256 213-293 (536)
133 COG5018 KapD Inhibitor of the 24.2 71 0.0015 29.7 2.8 28 430-463 79-106 (210)
134 PRK10530 pyridoxal phosphate ( 24.0 5E+02 0.011 24.8 9.2 68 191-258 31-112 (272)
135 PF13407 Peripla_BP_4: Peripla 23.9 5.4E+02 0.012 24.0 9.3 72 180-256 12-89 (257)
136 COG1609 PurR Transcriptional r 23.8 4.9E+02 0.011 26.3 9.4 72 179-256 71-146 (333)
137 cd06324 PBP1_ABC_sugar_binding 23.8 5.7E+02 0.012 24.9 9.7 72 179-256 13-91 (305)
138 COG0656 ARA1 Aldo/keto reducta 23.6 3.2E+02 0.0069 27.5 7.6 43 209-253 147-189 (280)
139 cd06312 PBP1_ABC_sugar_binding 23.3 6.4E+02 0.014 23.8 10.0 73 179-256 13-91 (271)
140 cd01017 AdcA Metal binding pro 23.3 6E+02 0.013 24.9 9.7 72 177-253 147-226 (282)
141 cd06309 PBP1_YtfQ_like Peripla 23.2 4.3E+02 0.0094 25.0 8.5 73 179-256 12-89 (273)
142 KOG3167 Box H/ACA snoRNP compo 23.1 1.4E+02 0.0031 26.7 4.4 44 181-224 60-108 (153)
143 cd01541 PBP1_AraR Ligand-bindi 23.1 5.2E+02 0.011 24.4 9.0 76 179-256 12-92 (273)
144 TIGR01454 AHBA_synth_RP 3-amin 23.1 1.3E+02 0.0028 27.7 4.6 9 277-285 136-144 (205)
145 cd06292 PBP1_LacI_like_10 Liga 23.0 4.9E+02 0.011 24.5 8.8 74 180-255 13-91 (273)
146 PRK15126 thiamin pyrimidine py 22.8 4.7E+02 0.01 25.2 8.7 68 192-259 31-111 (272)
147 KOG1014 17 beta-hydroxysteroid 22.7 2.9E+02 0.0064 28.1 7.1 63 186-250 63-129 (312)
148 cd06285 PBP1_LacI_like_7 Ligan 22.6 6.4E+02 0.014 23.6 10.0 71 180-256 13-87 (265)
149 PF00532 Peripla_BP_1: Peripla 22.6 5.7E+02 0.012 25.0 9.3 72 179-256 14-88 (279)
150 TIGR03674 fen_arch flap struct 22.2 2.6E+02 0.0055 28.8 6.9 13 341-353 244-256 (338)
151 TIGR01428 HAD_type_II 2-haloal 22.2 2.3E+02 0.0049 25.9 6.0 32 187-218 99-130 (198)
152 cd06314 PBP1_tmGBP Periplasmic 22.1 6.5E+02 0.014 23.8 9.5 71 179-255 11-87 (271)
153 PRK11133 serB phosphoserine ph 22.0 1.6E+02 0.0035 30.0 5.4 41 185-225 186-226 (322)
154 cd01137 PsaA Metal binding pro 22.0 6.1E+02 0.013 25.1 9.5 72 177-253 151-232 (287)
155 COG2873 MET17 O-acetylhomoseri 22.0 1.8E+02 0.0038 30.6 5.5 64 187-251 117-181 (426)
156 PRK09701 D-allose transporter 21.8 7.5E+02 0.016 24.3 10.1 73 179-256 37-116 (311)
157 PRK05265 pyridoxine 5'-phospha 21.7 6.7E+02 0.015 24.6 9.1 69 182-251 112-188 (239)
158 PF01591 6PF2K: 6-phosphofruct 21.6 6.2E+02 0.014 24.4 9.0 68 174-242 73-145 (222)
159 PRK08384 thiamine biosynthesis 21.6 4.2E+02 0.0092 27.8 8.4 70 175-244 18-97 (381)
160 PRK08238 hypothetical protein; 21.6 2.5E+02 0.0055 30.4 7.0 46 183-228 75-121 (479)
161 cd06287 PBP1_LacI_like_8 Ligan 21.5 3.2E+02 0.0069 26.3 7.2 74 173-255 14-87 (269)
162 cd04185 GT_2_like_b Subfamily 21.5 3.6E+02 0.0077 24.3 7.2 42 178-220 9-50 (202)
163 COG0757 AroQ 3-dehydroquinate 21.4 6.1E+02 0.013 22.9 9.2 68 190-261 36-106 (146)
164 cd03018 PRX_AhpE_like Peroxire 21.4 2.8E+02 0.006 23.8 6.2 45 181-225 47-91 (149)
165 cd03017 PRX_BCP Peroxiredoxin 21.3 3.2E+02 0.007 23.1 6.5 43 182-224 43-85 (140)
166 TIGR00884 guaA_Cterm GMP synth 21.1 5.2E+02 0.011 26.2 8.8 73 180-256 2-80 (311)
167 cd06310 PBP1_ABC_sugar_binding 20.9 7E+02 0.015 23.4 10.2 72 179-255 12-90 (273)
168 PRK09552 mtnX 2-hydroxy-3-keto 20.9 1.5E+02 0.0033 27.8 4.6 35 183-217 77-111 (219)
169 PF02630 SCO1-SenC: SCO1/SenC; 20.7 6.1E+02 0.013 23.0 8.5 47 180-226 70-122 (174)
170 PF02142 MGS: MGS-like domain 20.7 1.2E+02 0.0026 24.8 3.3 41 210-250 52-93 (95)
171 PF00289 CPSase_L_chain: Carba 20.6 2.1E+02 0.0045 24.3 4.9 58 190-250 19-77 (110)
172 PRK10513 sugar phosphate phosp 20.5 6.9E+02 0.015 23.9 9.4 69 191-259 31-116 (270)
173 TIGR00853 pts-lac PTS system, 20.3 4.9E+02 0.011 21.4 8.4 61 186-253 21-81 (95)
174 cd06323 PBP1_ribose_binding Pe 20.2 6.7E+02 0.014 23.3 9.1 73 179-256 12-89 (268)
175 cd06274 PBP1_FruR Ligand bindi 20.2 7.2E+02 0.016 23.2 9.5 71 180-256 13-87 (264)
176 cd06320 PBP1_allose_binding Pe 20.1 7.4E+02 0.016 23.3 9.8 71 180-255 13-90 (275)
177 PF00535 Glycos_transf_2: Glyc 20.0 3.5E+02 0.0075 22.7 6.5 81 178-262 10-94 (169)
178 cd05565 PTS_IIB_lactose PTS_II 20.0 5.2E+02 0.011 21.6 7.9 66 178-253 13-78 (99)
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=1.2e-54 Score=455.98 Aligned_cols=304 Identities=43% Similarity=0.792 Sum_probs=237.6
Q ss_pred CeEEEEEeCCCCccccHHHHHHhhcCCceeeEEEeCCCccCC-CCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEE
Q 012338 124 RASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGK-SSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVR 202 (465)
Q Consensus 124 ~~~LvWFRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~-~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~ 202 (465)
+.+|||||||||++||+||.+|++.+.+|+||||+||.++.. +..+....|++|..||++||.+|+++|+++|++|+|+
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 468999999999999999999998888999999999988762 1111224789999999999999999999999999999
Q ss_pred eCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeeeCCCCCCCCCCCCCCchHHHHHH
Q 012338 203 VGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKV 282 (465)
Q Consensus 203 ~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~l~~~~g~~~~~ft~Frk~~ 282 (465)
.|++.++|.+|+++++|++||+|++|++++++||++|++.|++.||.++.+++++|++|+++++..|++|++|++|+++|
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 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred Hh-ccccccchhhccCCCCCCCCCCCCCCCCCccccCCCchhhhhhcccCCCCCCCCCCCcHHHHHHHHHHHHHH-HhcC
Q 012338 283 KG-VEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQVWHGGKPAANSMKGGETEALQRLKKFAAE-YQAQ 360 (465)
Q Consensus 283 ~~-l~~~~~l~~p~~l~~~p~~~~~~~~~ip~l~~l~~~~~~~~~~~w~~~~~~~~~~~gGE~~Al~~L~~Fl~~-~l~~ 360 (465)
.+ ....++++.|..+...+.. .....+|.++++++... .......|+|||++|+++|++|+.+ ++..
T Consensus 161 ~~~~~~~~~~~~p~~~~~~~~~--~~~~~~~~l~~~~~~~~---------~~~~~~~~~gGe~~A~~~L~~Fl~~~~l~~ 229 (429)
T TIGR02765 161 EAKCSIRPPLPAPEKLPPLPSV--DDPGWIPTLEDLGEESS---------EVDRGLPFVGGETAGLARLKEYFWSKDLKS 229 (429)
T ss_pred HhhCCCCCCCCCcccCCCCccc--ccccCCCChhhcCCCcc---------cccccCCcCchHHHHHHHHHHHHhhccHhh
Confidence 75 2323333333322211110 00011233333332210 0001124899999999999999984 5777
Q ss_pred CCCCCCCCCCCCCCCCCCcccChhhhccCcCCHHHHHHHHHHhhhhhhccccCCCCCCCCCCcchHHHHHHHHHHHHHHH
Q 012338 361 PPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRF 440 (465)
Q Consensus 361 Y~~~~~~~~Rn~~~~~~~TS~LSPYL~~G~ISpR~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~EL~WREF~~~ 440 (465)
|.+ +||.+++.++||+|||||+|||||||+|++++.+..... +...+..|+++||+|||||++
T Consensus 230 Y~~-----~R~~~~~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~------------~~~~~~~~~~~eL~WRef~~~ 292 (429)
T TIGR02765 230 YKE-----TRNGMLGPDYSTKFSPWLALGCVSPRQIYEELQRYETER------------GANDSTYWVIFELLWRDYFRF 292 (429)
T ss_pred hhh-----ccCcccCCCCcCccCHHHhCCcccHHHHHHHHHHHHhhc------------ccCCCcHHHHHHHHHHHHHHH
Confidence 765 477656678899999999999999999999997742211 112245578789999999999
Q ss_pred HHHhCCccccccccc
Q 012338 441 ITKKYSSAKKVVEAV 455 (465)
Q Consensus 441 i~~~~P~~~~~~~~~ 455 (465)
++++||......+.+
T Consensus 293 ~~~~~~~~~~~~~~~ 307 (429)
T TIGR02765 293 YALKYGNRLFRFGGL 307 (429)
T ss_pred HHHHcCCcccccCCC
Confidence 999998532334444
No 2
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=100.00 E-value=3.2e-53 Score=449.23 Aligned_cols=294 Identities=26% Similarity=0.466 Sum_probs=237.3
Q ss_pred eEEEEEeCCCCccccHHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEeC
Q 012338 125 ASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG 204 (465)
Q Consensus 125 ~~LvWFRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~G 204 (465)
.+|||||||||++||+||.+|++.+.+|+||||+||.++..+ ..|.+|.+||++||.+|+++|+++|++|+|+.|
T Consensus 2 ~vl~WfRrDLRl~DN~AL~~A~~~~~~vl~vfi~dp~~~~~~-----~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G 76 (471)
T TIGR03556 2 LILFWHRRDLRLSDNIGLAAARQQSAKVVGLFCLDPNILQAD-----DMAPARVAYLIGCLQELQQRYQQAGSQLLILQG 76 (471)
T ss_pred CEEEEeCCCCCcchHHHHHHHHhcCCCEEEEEEEchhhhccc-----cCCHHHHHHHHHHHHHHHHHHHHCCCCeEEEEC
Confidence 589999999999999999999988889999999999887543 468899999999999999999999999999999
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeeeCCCCCCCCCCCCCCchHHHHHHHh
Q 012338 205 KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKG 284 (465)
Q Consensus 205 ~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~l~~~~g~~~~~ft~Frk~~~~ 284 (465)
++.++|.+|+++++|++||+|++|++++++||++|++.|++.||.++.+++++|++|+++..+.|++|++||+|+++|.+
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 99999999999999999999999999999999999999999999999999999999999998889999999999999977
Q ss_pred ccccccchhhccCCCCCCC-----CCCCCCCCCCccccCCCchhhhhhcccCCCCCCCCCCCcHHHHHHHHHHHHHHHhc
Q 012338 285 VEIRKTIEALDQLKGLPSR-----GDVEPGDIPSLLDLGLSQSAAMSQVWHGGKPAANSMKGGETEALQRLKKFAAEYQA 359 (465)
Q Consensus 285 l~~~~~l~~p~~l~~~p~~-----~~~~~~~ip~l~~l~~~~~~~~~~~w~~~~~~~~~~~gGE~~Al~~L~~Fl~~~l~ 359 (465)
.....+++.|..+...+.. ..+....+|.++++++. +.. ...|+|||++|+++|++|+++++.
T Consensus 157 ~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~--------~~~----~~~~~gGe~~A~~~L~~f~~~~l~ 224 (471)
T TIGR03556 157 LPKPTPVATPTELEGLTEAELEAAAPLGVIALPTAKDLGFD--------WDG----DLILEPGETAAQARLEEFCDRAIA 224 (471)
T ss_pred ccccCCCCCccccccCCccccccccccccccCCcccccccc--------ccc----ccCCCCcHHHHHHHHHHHHHHHHH
Confidence 5433344444333221100 00111123333333222 101 114899999999999999999999
Q ss_pred CCCCCCCCCCCCCCCCCCCcccChhhhccCcCCHHHHHHHHHHhhhhhhccccCCCCCCCCCCcchHHHHHHHHHHHHHH
Q 012338 360 QPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFR 439 (465)
Q Consensus 360 ~Y~~~~~~~~Rn~~~~~~~TS~LSPYL~~G~ISpR~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~EL~WREF~~ 439 (465)
+|... ||. ++.++||+|||||+|||||+|+||+++.+...... +.....+...| ++||+|||||+
T Consensus 225 ~Y~~~-----r~~-p~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~~--------~~~~~~~~~~f-~~eL~WRef~~ 289 (471)
T TIGR03556 225 DYQEQ-----RNF-PALDGTSQLSPALKFGVIGIRTVWQATQEAHENSR--------SEEARNSIRTW-QQELAWREFYQ 289 (471)
T ss_pred Hhhhc-----cCC-CCCCCCCCCChhhcCCcccHHHHHHHHHHHHhhcc--------cccccccHHHH-HHHHHHHHHHH
Confidence 99873 665 67789999999999999999999999977543210 00011233445 58999999999
Q ss_pred HHHHhCCcccc
Q 012338 440 FITKKYSSAKK 450 (465)
Q Consensus 440 ~i~~~~P~~~~ 450 (465)
++++++|++..
T Consensus 290 ~~~~~~p~~~~ 300 (471)
T TIGR03556 290 HALYHFPELAD 300 (471)
T ss_pred HHHHHCcchhc
Confidence 99999998754
No 3
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=100.00 E-value=2.2e-53 Score=439.69 Aligned_cols=284 Identities=30% Similarity=0.545 Sum_probs=238.6
Q ss_pred CeEEEEEeCCCCccccHHHHHHhhcCCc-eeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEE
Q 012338 124 RASIVWFRNDLRVHDNESLNTANNESVS-VLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVR 202 (465)
Q Consensus 124 ~~~LvWFRrDLRl~DN~AL~~A~~~~~~-vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~ 202 (465)
+.+|||||||||+.||.||.+|++.+.+ +++|||++|.++. ..|+++..||.++|++|+++|+++|++|+|.
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 5789999999999999999999998877 5699999999885 3689999999999999999999999999999
Q ss_pred eCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeeeCCCCCCCCCCCCCCchHHHHHH
Q 012338 203 VGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKV 282 (465)
Q Consensus 203 ~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~l~~~~g~~~~~ft~Frk~~ 282 (465)
.|++.+++.+++++++++.||+|.+|+.+++.||.+|+..|.+.||.++.|++.+|++|+++.+..|++|++||+|+++|
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-ccccchhhccCCCCCCCCCCCCCCCCCccccCCCchhhhhhcccCCCCCCCCCCCcHHHHHHHHHHHHHHHhcCC
Q 012338 283 KGVE-IRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQVWHGGKPAANSMKGGETEALQRLKKFAAEYQAQP 361 (465)
Q Consensus 283 ~~l~-~~~~l~~p~~l~~~p~~~~~~~~~ip~l~~l~~~~~~~~~~~w~~~~~~~~~~~gGE~~Al~~L~~Fl~~~l~~Y 361 (465)
.+.. ..++++.|..+..+... .. .+. ...+ + + |... ....|.|||++|+++|++|+.+++..|
T Consensus 155 ~~~~~~~~~~~~p~~~~~~~~~---~~--~~~--~~~~-P-----~-~~~~--~~~~~~~Ge~aA~~~l~~F~~~~l~~Y 218 (461)
T COG0415 155 RDRLRILRPVPAPDVLDALRDE---EP--PPE--EISL-P-----D-FSKF--DVLLFTGGEKAALARLQDFLAEGLDDY 218 (461)
T ss_pred HHhcccCCCCCCcchhcccccc---cc--Ccc--cccC-C-----c-cccc--cccCCCchHHHHHHHHHHHHHHHHHHH
Confidence 8753 23444444332222110 00 000 0000 0 0 1001 123689999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCCCcccChhhhccCcCCHHHHHHHHHHhhhhhhccccCCCCCCCCCCcchHHHHHHHHHHHHHHHH
Q 012338 362 PKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRFI 441 (465)
Q Consensus 362 ~~~~~~~~Rn~~~~~~~TS~LSPYL~~G~ISpR~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~EL~WREF~~~i 441 (465)
+. +|| +|+.++||+|||||+||+||||+||+++.+.... .+++..++++||+|||||+|+
T Consensus 219 ~~-----~Rd-~p~~~~TS~LSpyL~~G~IS~r~v~~~~~~~~~~--------------~~~~~~~~~~eL~WREFy~h~ 278 (461)
T COG0415 219 ER-----TRD-FPALDGTSRLSPYLAFGVISPREVYAALLAAESD--------------AREGTAALINELIWREFYQHL 278 (461)
T ss_pred HH-----hcC-CcccccccccCHHHHcCCcCHHHHHHHHHHhhhc--------------ccchHHHHHHHHHHHHHHHHH
Confidence 86 478 6999999999999999999999999999887532 134566777999999999999
Q ss_pred HHhCCcccc
Q 012338 442 TKKYSSAKK 450 (465)
Q Consensus 442 ~~~~P~~~~ 450 (465)
+.+||++++
T Consensus 279 ~~~~p~~~~ 287 (461)
T COG0415 279 LYHYPSLSR 287 (461)
T ss_pred HHhCCcccc
Confidence 999999955
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=9.9e-52 Score=439.05 Aligned_cols=294 Identities=22% Similarity=0.331 Sum_probs=225.1
Q ss_pred EEEEeCCCCccccHHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEe-CC
Q 012338 127 IVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV-GK 205 (465)
Q Consensus 127 LvWFRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~-G~ 205 (465)
|||||||||++||+||.+|++.+ +|+||||+||.++..+ ..+.++.+||++||.+|+++|+++|++|+|+. |+
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 69999999999999999999876 8999999999887542 35678888999999999999999999999984 89
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeeeCCCCCCCCCCCCCCchHHHHHHHhc
Q 012338 206 PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGV 285 (465)
Q Consensus 206 ~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~l~~~~g~~~~~ft~Frk~~~~l 285 (465)
++++|.+|+++++|++||+|++|++++++||++|++.|++.||+++.+++++|++|+++..+.|++|++|++|+++|.+.
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 99999999999999999999999999999999999999999999999999999999999988889999999999998653
Q ss_pred ccc--ccchhhccCCCCCCCCCCCCCCCCCccccCCCchhhhhhcccCCCCCCCCCCCcHHHHHHHHHHHHHHHhcCCCC
Q 012338 286 EIR--KTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQVWHGGKPAANSMKGGETEALQRLKKFAAEYQAQPPK 363 (465)
Q Consensus 286 ~~~--~~l~~p~~l~~~p~~~~~~~~~ip~l~~l~~~~~~~~~~~w~~~~~~~~~~~gGE~~Al~~L~~Fl~~~l~~Y~~ 363 (465)
... .+.+.|..+. . .....+.++++++.+... +.........|+|||++|+++|++|+++++..|.+
T Consensus 155 ~~~~~~~~~~p~~~~---~----~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~~~~Y~~ 223 (475)
T TIGR02766 155 PYDPESPLLPPKKII---S----GDVSKCSADDLGFEDDSE----KGSNALLARAWSPGWSNADKALTEFINGPLLEYSK 223 (475)
T ss_pred cCCCCCCCCCccccC---C----CccccCChhhcCCCCccc----ccccccccccCCCccHHHHHHHHHHHHHHHHHHhh
Confidence 211 1122222111 0 000001112233321100 00000011248999999999999999999988876
Q ss_pred CCCCCCCCCCCCCCCcccChhhhccCcCCHHHHHHHHHHhhhhhhccccCCCCCCCCCCcchHHHHHHHHHHHHHHHHHH
Q 012338 364 GNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRFITK 443 (465)
Q Consensus 364 ~~~~~~Rn~~~~~~~TS~LSPYL~~G~ISpR~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~EL~WREF~~~i~~ 443 (465)
+||. ++.++||+|||||+|||||||+||+++.+...... .. +....+.+.++|++||+|||||+++++
T Consensus 224 -----~Rd~-p~~~~tS~LSPyL~~G~ISpR~v~~~~~~~~~~~~-----~~-~~~~~~~s~~~f~~eL~WRef~~~~~~ 291 (475)
T TIGR02766 224 -----NRKK-ADSATTSLLSPYLHFGEVSVRKVFHLVRMKQIAWA-----NE-GNSAGEESVNLFLRSIGLREYSRYISF 291 (475)
T ss_pred -----cCCC-CCCCCCCCCCcccccCcccHHHHHHHHHhhhhhhh-----hc-ccCCCcccHHHHHHHHHHHHHHHHHHH
Confidence 3675 55689999999999999999999999863210000 00 000112344556689999999999999
Q ss_pred hCCccc
Q 012338 444 KYSSAK 449 (465)
Q Consensus 444 ~~P~~~ 449 (465)
++|.+.
T Consensus 292 ~~p~~~ 297 (475)
T TIGR02766 292 NHPFSH 297 (475)
T ss_pred hCCccc
Confidence 999763
No 5
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=1e-50 Score=430.21 Aligned_cols=290 Identities=23% Similarity=0.351 Sum_probs=227.6
Q ss_pred EEEEEeCCCCccccHHHHHHhhcC-CceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEeC
Q 012338 126 SIVWFRNDLRVHDNESLNTANNES-VSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG 204 (465)
Q Consensus 126 ~LvWFRrDLRl~DN~AL~~A~~~~-~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~G 204 (465)
+|||||||||++||+||.+|++.+ .+|+||||+||.++... ..|.+|++||++||.+|+++|+++|++|+|+.|
T Consensus 4 ~l~WfRrDLRl~DN~aL~~A~~~~~~~vlpvyv~dp~~~~~~-----~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g 78 (472)
T PRK10674 4 HLVWFRNDLRLHDNLALAAACRDPSARVLALFIATPAQWAAH-----DMAPRQAAFINAQLNALQIALAEKGIPLLFHEV 78 (472)
T ss_pred eEEEECCCCCcchHHHHHHHHhCCCCCEEEEEEECchhhccC-----CCCHHHHHHHHHHHHHHHHHHHHcCCceEEEec
Confidence 599999999999999999999876 47999999999876532 468999999999999999999999999999975
Q ss_pred ----ChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeeeCCCCCCCCCCCCCCchHHHH
Q 012338 205 ----KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFRE 280 (465)
Q Consensus 205 ----~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~l~~~~g~~~~~ft~Frk 280 (465)
++.++|.+|+++++|+.||+|++|++++++||++|++.|. ||.++.+++++|++++.+.++.+++|++||+|++
T Consensus 79 ~~~g~~~~vl~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~--~i~~~~~~~~~l~~~~~i~~~~~~~y~~ft~f~~ 156 (472)
T PRK10674 79 DDFAASVEWLKQFCQQHQVTHLFYNYQYEVNERQRDAAVERALR--NVVCQGFDDSVLLPPGSVMTGNHEMYKVFTPFKN 156 (472)
T ss_pred CCcCCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHcC--CCEEEEecCceEeCccccccCCCCCCCcccHHHH
Confidence 7999999999999999999999999999999999999996 8999999999999999999888999999999999
Q ss_pred HHHhcccc---ccchhhccCCCCCCCCCCCCCCCCCccccCCCchhhhhhcccCCCCCCCCCCCcHHHHHHHHHHHHHHH
Q 012338 281 KVKGVEIR---KTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQVWHGGKPAANSMKGGETEALQRLKKFAAEY 357 (465)
Q Consensus 281 ~~~~l~~~---~~l~~p~~l~~~p~~~~~~~~~ip~l~~l~~~~~~~~~~~w~~~~~~~~~~~gGE~~Al~~L~~Fl~~~ 357 (465)
+|++.... ..++.|... +. .....+.+..++... .......|+|||++|+++|++|++++
T Consensus 157 ~~~~~~~~~~p~~~~~p~~~---~~----~~~~~~~~~~~~~~~----------~~~~~~~~~gGe~~A~~~L~~f~~~~ 219 (472)
T PRK10674 157 AFLKRLREGDPECVPAPKVR---SS----GAIEPLPPIPFNYPQ----------QSFDTALFPVGEKAAIAQLRQFCQQG 219 (472)
T ss_pred HHHHhhcccCCccCCCCccc---cc----cccCCCCcccccCcc----------cccccCCCCCCHHHHHHHHHHHHHHH
Confidence 99763211 111111110 00 000011111111110 00011248999999999999999999
Q ss_pred hcCCCCCCCCCCCCCCCCCCCcccChhhhccCcCCHHHHHHHHHHhhhhhhccccCCCCCCCCCCcchHHHHHHHHHHHH
Q 012338 358 QAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDF 437 (465)
Q Consensus 358 l~~Y~~~~~~~~Rn~~~~~~~TS~LSPYL~~G~ISpR~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~EL~WREF 437 (465)
+.+|.+. ||. ++.++||+|||||+|||||||+||+++.+..+... ...++..|+ +||+||||
T Consensus 220 l~~Y~~~-----r~~-p~~~~tS~LSPyL~~G~iS~r~v~~~~~~~~~~~~-----------~~~~~~~fl-~eL~WRef 281 (472)
T PRK10674 220 AGEYEQQ-----RDF-PAVDGTSRLSAYLATGVLSPRQCLHRLLAEQPQAL-----------DGGAGSVWL-NELIWREF 281 (472)
T ss_pred HHHhccc-----cCC-CCccCCCCcChhhccCcCCHHHHHHHHHHHhhhhh-----------ccCchhHHH-HHHHHHHH
Confidence 9999873 664 66789999999999999999999999977433210 012234566 89999999
Q ss_pred HHHHHHhCCcccccccccccc
Q 012338 438 FRFITKKYSSAKKVVEAVPAT 458 (465)
Q Consensus 438 ~~~i~~~~P~~~~~~~~~p~~ 458 (465)
|+++++++|++++ .+.++.|
T Consensus 282 ~~~~~~~~p~~~~-~~~~~~~ 301 (472)
T PRK10674 282 YRHLMVAYPSLCK-HRPFIAW 301 (472)
T ss_pred HHHHHHhCCchhh-ccCcchh
Confidence 9999999999754 3344443
No 6
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=4.7e-50 Score=424.00 Aligned_cols=298 Identities=14% Similarity=0.114 Sum_probs=228.8
Q ss_pred CCCCCCCCCeEEEEEeCCCCccccHHHHHHhh--c--CCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q 012338 116 PNNGAAIRRASIVWFRNDLRVHDNESLNTANN--E--SVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKN 191 (465)
Q Consensus 116 ~~~~~~~~~~~LvWFRrDLRl~DN~AL~~A~~--~--~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~ 191 (465)
|......+..+|||||||||++||+||.+|++ . +.+|+||||+||.++. .|.+|.+||++||.+|+++
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 44556777889999999999999999999975 2 6789999999998764 3789999999999999999
Q ss_pred HHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeeeCCCCCCCCCCC
Q 012338 192 LQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEM 271 (465)
Q Consensus 192 L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~l~~~~g~~ 271 (465)
|+++|++|+|+.|++.++|.+|+++++|++||+|++|++++++||+.|++.|++ +|.++.+++++|++++.+..+ .+
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 999999999999999999999999999999999999999999999999999966 999999999999999887655 58
Q ss_pred CCCchHHHHHHHhccccccchh-hccCCCCCCCCCCCCC--CCCC-ccccCCCchhhhhhcccCCCCCCCCC-CCcHHHH
Q 012338 272 PTNYGGFREKVKGVEIRKTIEA-LDQLKGLPSRGDVEPG--DIPS-LLDLGLSQSAAMSQVWHGGKPAANSM-KGGETEA 346 (465)
Q Consensus 272 ~~~ft~Frk~~~~l~~~~~l~~-p~~l~~~p~~~~~~~~--~ip~-l~~l~~~~~~~~~~~w~~~~~~~~~~-~gGE~~A 346 (465)
|++|+.|++. ++... ..+.. +.. ...+.+....+. .++. ++.+++. .. .....| +|||++|
T Consensus 164 y~~ft~~~k~-~~~~~-~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~-~~~~~~~~gGe~aA 229 (454)
T TIGR00591 164 YAARTIRGKI-RKLLP-EYLTEFPRV-LKHPSPLDLEAGPVDWDAVRDSLAVE----------RS-VEEVVWAKPGTTAG 229 (454)
T ss_pred eeeecHHHHH-HHhCh-hhccccCCC-ccCCcccccccCcCCHHHHHHhccCc----------CC-cCCcCCCCCcHHHH
Confidence 8888877665 43221 11110 100 000100000000 0000 0000000 01 111237 9999999
Q ss_pred HHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCcccChhhhccCcCCHHHHHHHHHHhhhhhhccccCCCCCCCCCCcchH
Q 012338 347 LQRLKKFAAEYQAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSN 426 (465)
Q Consensus 347 l~~L~~Fl~~~l~~Y~~~~~~~~Rn~~~~~~~TS~LSPYL~~G~ISpR~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (465)
+++|++|+++++..|.+ +||. |+.++||+|||||+||+||||+|++++.+.... ..++..
T Consensus 230 ~~~L~~F~~~~l~~Y~~-----~Rn~-p~~~~tS~LSPyL~~G~IS~R~i~~~~~~~~~~--------------~~~~~~ 289 (454)
T TIGR00591 230 LIMLESFIEKRLCFFRT-----RRND-PNNDALSMLSPWLHFGQLSAQRAARAVERARGN--------------AGESVE 289 (454)
T ss_pred HHHHHHHHHHHHHHHHH-----hcCC-cccccccccchHHhcCcccHHHHHHHHHHhccC--------------CchHHH
Confidence 99999999999999986 4775 677999999999999999999999998653211 012233
Q ss_pred HHHHHHHHH-HHHHHHHHhCCccccccccccccc
Q 012338 427 WLMFELLWR-DFFRFITKKYSSAKKVVEAVPATA 459 (465)
Q Consensus 427 ~l~~EL~WR-EF~~~i~~~~P~~~~~~~~~p~~~ 459 (465)
.|++||+|| |||+|+++++|++.. +...|.|+
T Consensus 290 ~fl~EL~WR~ef~~~~~~~~p~~~~-~~~~~~w~ 322 (454)
T TIGR00591 290 FFEEELVVRRELADNFCFYNPYYDS-LCGAYWWA 322 (454)
T ss_pred HHHHHHHHHHHHHhHhhhcCCCccc-cccchHHH
Confidence 455899999 899999999999966 77778887
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=2.8e-37 Score=283.78 Aligned_cols=164 Identities=41% Similarity=0.648 Sum_probs=137.2
Q ss_pred EEEEEeCCCCccccHHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEeCC
Q 012338 126 SIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGK 205 (465)
Q Consensus 126 ~LvWFRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~G~ 205 (465)
+|||||||||++||+||++|++.+.+|+||||+||..... ...|.+|.+|+++||.+|+++|+++|++|+|+.|+
T Consensus 1 ~l~Wfr~DLRl~DN~aL~~A~~~~~~v~~vfv~d~~~~~~-----~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~ 75 (165)
T PF00875_consen 1 VLVWFRRDLRLHDNPALHAAAQNGDPVLPVFVFDPEEFHP-----YRIGPRRRRFLLESLADLQESLRKLGIPLLVLRGD 75 (165)
T ss_dssp EEEEESS--SSTT-HHHHHHHHTTSEEEEEEEE-HHGGTT-----CSSCHHHHHHHHHHHHHHHHHHHHTTS-EEEEESS
T ss_pred CEEEEcCCCchhhhHHHHHHHHcCCCeEEEEEeccccccc-----ccCcchHHHHHHHHHHHHHHHHHhcCcceEEEecc
Confidence 6999999999999999999999999999999999983221 13589999999999999999999999999999999
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeeeCCCCCCCCCCCCCCchHHHHHHHhc
Q 012338 206 PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGV 285 (465)
Q Consensus 206 ~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~l~~~~g~~~~~ft~Frk~~~~l 285 (465)
+.++|.+|+++++|++||+|++|++++++||++|++.|.+.||.++.+++++|++++++.++.|++|++||+|+|+|++.
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 99999999999999999999999999999999999999999999999999999999999999999999999999999984
Q ss_pred cccccchhh
Q 012338 286 EIRKTIEAL 294 (465)
Q Consensus 286 ~~~~~l~~p 294 (465)
..++|+++|
T Consensus 156 ~~~~p~p~p 164 (165)
T PF00875_consen 156 LLEEPLPAP 164 (165)
T ss_dssp CSC------
T ss_pred CCCCCCCCC
Confidence 434555544
No 8
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=100.00 E-value=6.5e-35 Score=304.93 Aligned_cols=301 Identities=27% Similarity=0.355 Sum_probs=222.9
Q ss_pred CCCeEEEEEeCCCCccccHHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEE
Q 012338 122 IRRASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVV 201 (465)
Q Consensus 122 ~~~~~LvWFRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v 201 (465)
.+..+|+|||+|||++||+||.+|.+.+.+|+||||+||+..+.+ ..|..|++|+.|+|++|+++|+++|++|.+
T Consensus 3 ~~~~~v~wfr~~lR~~dnpal~~a~~~~~~~~~v~i~d~~~~~~~-----~~g~~~~~~l~qsL~~ld~sl~~l~~~L~v 77 (531)
T KOG0133|consen 3 TGSKSVHWFRKGLRLHDNPALLAAAAGKEPVRPVFILDPEEAGSS-----NVGRNRWRFLLQSLEDLDQSLRELNSRLFV 77 (531)
T ss_pred CccceEEecccCcccccChhhHHHhccCCCceeEEEeCHhHhhcc-----ccchhHHHHHHHHHHHHHHHHHHhCCceEE
Confidence 466789999999999999999888887789999999999987653 688999999999999999999999999999
Q ss_pred EeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeeeCCCCCC-CCCCCCCCchHHHH
Q 012338 202 RVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPF-KLGEMPTNYGGFRE 280 (465)
Q Consensus 202 ~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~l~~-~~g~~~~~ft~Frk 280 (465)
++|.|..+|..+.++.+++.|.++-.++|+.+.||..++..+.+.|+.+....+++++.++.+.- +.|++|..|..|+.
T Consensus 78 ~~~~p~~vl~~~~~~~~~~~l~~~~~~~p~~~vrD~~~~~~a~~l~i~v~s~~s~~~~~~~~~i~~n~~k~pls~~~~~~ 157 (531)
T KOG0133|consen 78 FRGHPIAVLSRLLEQVGVQKLKFEYDMEPDGKVRDATIKSLATELGLSVVSPVSHTLYLPDKIIEANGGKPPLSYKTFRG 157 (531)
T ss_pred EeCCchHHHhhhhhccceeEEEEEEeccCccccccHHHHHHHHHhhhhhcccCchhhhcHHHHHHhcCCCCccccccccc
Confidence 99999999999999999999999999999999999999999999999999999999999888754 35788888999998
Q ss_pred HHHhccccccchhh---ccCCCCCCCCC-C-CCCCCCCccccCCCchhhhhhcccCCCCCCCCCCCcHHHHHHHHHHHHH
Q 012338 281 KVKGVEIRKTIEAL---DQLKGLPSRGD-V-EPGDIPSLLDLGLSQSAAMSQVWHGGKPAANSMKGGETEALQRLKKFAA 355 (465)
Q Consensus 281 ~~~~l~~~~~l~~p---~~l~~~p~~~~-~-~~~~ip~l~~l~~~~~~~~~~~w~~~~~~~~~~~gGE~~Al~~L~~Fl~ 355 (465)
....+........+ ......+.... . ....+|+++.+.+.+.. .....|.||++.|+.+|++|+.
T Consensus 158 ~~~~~~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~~----------~~~~~~~~g~s~al~~l~~~l~ 227 (531)
T KOG0133|consen 158 VCQSMSAPKIPALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPSN----------YGEVVWRGGESEALKRLDAHLK 227 (531)
T ss_pred cccccccccccccccccccCCCChhhhhhcccccccCCchhhccCccc----------ccccccCCcccchhHHHHHHhh
Confidence 87664321100000 00011110000 0 01124555555554321 1122499999999999999998
Q ss_pred HHhcCCCCCCCCCCCCCCCCCCCcccChhhhccCcCCHHHHHH--HHHHhhhhhhccccCCCCCCCCCCcchHHHHHHHH
Q 012338 356 EYQAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFD--ELKKTATSISAASKWNDGESGSSGAGSNWLMFELL 433 (465)
Q Consensus 356 ~~l~~Y~~~~~~~~Rn~~~~~~~TS~LSPYL~~G~ISpR~v~~--~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~EL~ 433 (465)
..+-.++....+..++.+ ....++.|||||+|||||.|.+++ .+.+...+.. ++ ....++-+..||+
T Consensus 228 ~~~~~an~~~~~~~~~~~-~~~s~~~Ls~yL~fg~~svr~~~~~~~~k~V~~~~~----~~------s~~~es~~~~qv~ 296 (531)
T KOG0133|consen 228 VPLWVANLELRYSNANSR-VKISTTVLSPYLKFGCLSVRYFYRCVRLKQVKWKAK----KN------SLPPESLFLGQVA 296 (531)
T ss_pred HHHHHhhhhccccccchh-cCCCccccccceeeccceeEeehhHhHHHHHHHhhh----cc------cCCccccccceee
Confidence 774433332222234432 224567999999999999999996 2222222211 11 0111223568999
Q ss_pred HHHHHHHHHHhCCcc
Q 012338 434 WRDFFRFITKKYSSA 448 (465)
Q Consensus 434 WREF~~~i~~~~P~~ 448 (465)
||||||++...+|..
T Consensus 297 Wre~~y~~~~n~p~~ 311 (531)
T KOG0133|consen 297 WREFFYTAAFNTPYF 311 (531)
T ss_pred eechhhHhhcCCccc
Confidence 999999999998884
No 9
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=99.83 E-value=4.7e-19 Score=177.48 Aligned_cols=292 Identities=16% Similarity=0.184 Sum_probs=195.9
Q ss_pred CeEEEEEeCCCCccccHHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEe
Q 012338 124 RASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV 203 (465)
Q Consensus 124 ~~~LvWFRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~ 203 (465)
+.+++|.-.|.-.+++.||.. ..+ . ..|.+++...... ..+.++.++.+++.+|+++.+.|+..|..+.+..
T Consensus 2 ~~~~~lvLgdQL~~~~~al~~--d~~-~-~~vllvE~~~~a~----~~r~HkqKl~lv~aAMR~Fad~LraeG~~V~Y~~ 73 (505)
T COG3046 2 MSSVVLVLGDQLSEDHSALGD--DRS-Q-DGVLLVESAAEAR----YRRHHKQKLVLVFAAMRHFADELRAEGLKVRYER 73 (505)
T ss_pred CceEEEEeccccccccchhcc--Ccc-c-CcEEEehhHhHhh----hhhcchhhhHHHHHHHHHHHHHHhhCCceeEEEE
Confidence 457899999999999999876 211 1 2333444332221 1356788999999999999999999999997765
Q ss_pred CC---hHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCC-eeeeCCCCC-CCCCCCCCCchHH
Q 012338 204 GK---PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS-TLYHLDDLP-FKLGEMPTNYGGF 278 (465)
Q Consensus 204 G~---~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~-~L~~p~~l~-~~~g~~~~~ft~F 278 (465)
-+ ....|...++.++.++|++.+ |.+.+.+..+++.--..||++..+.+. .|.++.++. +..++.+-.+..|
T Consensus 74 ~~~~~~~~~l~~~l~~~~~d~~~~~~---p~~~~l~~~m~~L~~~~g~~i~~~~~~~Fl~s~a~f~~w~~~~k~~lme~F 150 (505)
T COG3046 74 ADDNSFGGELRRALEAYPGDRVQVQE---PGDHRLEARMKSLSMALGIEITEVENPHFLCSRAEFDAWAGDRKPLLMESF 150 (505)
T ss_pred cCCcccchHHHHHHHhcCCCeEEEec---CcchhHHHHHHhhhhhcCceeEEecCcceecCHHHhhhhhccCcchhhHHH
Confidence 43 456788899999999999864 455555555665555679999999887 688888775 3334455567889
Q ss_pred HHHHHh----cccc-ccchhh-----ccCCCCCCCCCCCCCCCCCccccCCCchh-----------hhhhcccCCCCCCC
Q 012338 279 REKVKG----VEIR-KTIEAL-----DQLKGLPSRGDVEPGDIPSLLDLGLSQSA-----------AMSQVWHGGKPAAN 337 (465)
Q Consensus 279 rk~~~~----l~~~-~~l~~p-----~~l~~~p~~~~~~~~~ip~l~~l~~~~~~-----------~~~~~w~~~~~~~~ 337 (465)
|+..++ ++.. .|..-- +.-++.| .++.+ | +.+.|.+.+ .+...| |....+
T Consensus 151 Yr~mRkr~g~LM~~dqP~GGrWnFDaeNR~~~~--pdL~~---P--~pl~fppd~~vq~v~e~Ve~~f~~~~--G~~e~F 221 (505)
T COG3046 151 YRRMRKRTGILMEDDQPEGGRWNFDAENRKKLP--PDLLP---P--KPLKFPPDEIVQEVKERVERLFPDNF--GQVEGF 221 (505)
T ss_pred HHHHHHhhceeccCCCCCCCcCCcCcccccCCC--CcCCC---C--CCCCCCCcchhHHHHHHHHhhCCCCC--CccccC
Confidence 999887 3322 121100 0000111 00100 0 111121110 111112 234456
Q ss_pred CCCCcHHHHHHHHHHHHHHHhcCC---CCCCCCCCCCCCCCCCCcccChhhhccCcCCHHHHHHHHHHhhhhhhccccCC
Q 012338 338 SMKGGETEALQRLKKFAAEYQAQP---PKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWN 414 (465)
Q Consensus 338 ~~~gGE~~Al~~L~~Fl~~~l~~Y---~~~~~~~~Rn~~~~~~~TS~LSPYL~~G~ISpR~v~~~l~~~~~~~~~~~~~~ 414 (465)
.|+...++|.+.|++||++++.++ .+.+. ++. + -..+|.||+||+.|.|+|++|+.++.+.+...
T Consensus 222 ~wpvtr~~A~~~L~~Fi~~~L~nFG~yQDam~---~d~-~-~L~HSllS~alNigLL~PleVi~Aa~~Ay~~g------- 289 (505)
T COG3046 222 GWPVTRTQALRALKHFIADRLPNFGSYQDAMS---ADD-P-HLWHSLLSFALNIGLLTPLEVIRAALKAYREG------- 289 (505)
T ss_pred CCCCCHHHHHHHHHHHHHHhhhcCCcHHHHHh---cCC-c-hhHHHHHHHHhhccCCCHHHHHHHHHHhhccC-------
Confidence 899999999999999999998754 44432 221 1 14699999999999999999999998876542
Q ss_pred CCCCCCCCcchHHHHHHHHHHHHHHHHHHhC-Ccccc
Q 012338 415 DGESGSSGAGSNWLMFELLWRDFFRFITKKY-SSAKK 450 (465)
Q Consensus 415 ~~~~~~~~~~~~~l~~EL~WREF~~~i~~~~-P~~~~ 450 (465)
.-+.|+.++++++.|+||||.++||+.. |++..
T Consensus 290 ---~ipLN~VEGFvRQiiGWREfmRgiY~~~~P~y~t 323 (505)
T COG3046 290 ---DIPLNSVEGFVRQIIGWREFMRGIYWLKMPDYAT 323 (505)
T ss_pred ---CCchHHHHHHHHHHhhHHHHHHHhhhhcCCchhh
Confidence 1256777889988889999999999977 76644
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=99.75 E-value=7.1e-19 Score=174.84 Aligned_cols=100 Identities=31% Similarity=0.569 Sum_probs=76.8
Q ss_pred CcHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCcccChhhhccCcCCHHHHHHHHHHhhhhhhccccCCCCCCCC
Q 012338 341 GGETEALQRLKKFAAEYQAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGS 420 (465)
Q Consensus 341 gGE~~Al~~L~~Fl~~~l~~Y~~~~~~~~Rn~~~~~~~TS~LSPYL~~G~ISpR~v~~~l~~~~~~~~~~~~~~~~~~~~ 420 (465)
|||++|+++|++|+++++..|.+. ||. ++.++||+|||||+|||||||+|++++.+... ... .
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-PAADGTSRLSPYLNFGCLSPREVYRAVKKAQE-AND----------A 63 (277)
T ss_dssp SSHHHHHHHHHHHHHHCGGGHHHH-----TT--TTSTTS---HHHHHTTSS-HHHHHHHHHHHHH-CHT----------C
T ss_pred CcHHHHHHHHHHHHHHHHHhhchh-----ccC-CCcCCcCcccHHHhCCCcCHHHHHHHHHHHhh-hcc----------c
Confidence 899999999999999999999873 675 57789999999999999999999999998765 100 0
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHhCCccccccccccc
Q 012338 421 SGAGSNWLMFELLWRDFFRFITKKYSSAKKVVEAVPA 457 (465)
Q Consensus 421 ~~~~~~~l~~EL~WREF~~~i~~~~P~~~~~~~~~p~ 457 (465)
...+.+.|++||+|||||+++++++|++.......|.
T Consensus 64 ~~~~~~~f~~eL~WRef~~~~~~~~p~~~~~~~~~~~ 100 (277)
T PF03441_consen 64 HSESAEKFIRELIWREFYRQLLYHNPNLDMFENFNPK 100 (277)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHSGGCTCSSTSSTT
T ss_pred ccchHHHHHHHHHHHHHHHHHHHhCCcchhhhhccHH
Confidence 1235567779999999999999999998644444443
No 11
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=98.86 E-value=1.7e-10 Score=121.97 Aligned_cols=409 Identities=22% Similarity=0.144 Sum_probs=245.2
Q ss_pred ccccCccccccCCCccceeeeeeecccccCCCccccCCCcccc----ccCCCCCCcCCcccccceeeeeccCCCCCCCcc
Q 012338 16 NEEQNPLATIPSQSPFATLSLSFSLPQVLPANTFFIQPKISTL----FSHQPNKVKVPTQASTLTHISLSASSTLSPSKI 91 (465)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (465)
.+.+.+|.++-+. |. .+|+.++ .|.+...+ +++++.+++.+++.+.++|++++.-++-+.---
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 012338 92 SFKSTLSANPLQSPLSLGPHRPLDPNNGAAIRRASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSS--SG 169 (465)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LvWFRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~--~g 169 (465)
.++..+.+|+.+.+++..+++...+.-+..... .++|++++++.++|.....++....+++..+.++++.++... .|
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 777889999999999999999999998888887 799999999999999887777777788888888887665432 34
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCe
Q 012338 170 FDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIE 249 (465)
Q Consensus 170 ~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~ 249 (465)
......+.-.|+... .+..++...+....++.+....+|..++....++..+++......+...+..+...-.+.++.
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 334444555666655 557777888888888877777788888888777777776522222222111111111111122
Q ss_pred EEEeeCCeeeeCCCCCCCCCCCCCCchHHHHHHHhccccc--c-ch-hhccCCCCCCCCCCCCCCCCCccccCCCchhhh
Q 012338 250 VKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVEIRK--T-IE-ALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAM 325 (465)
Q Consensus 250 v~~~~~~~L~~p~~l~~~~g~~~~~ft~Frk~~~~l~~~~--~-l~-~p~~l~~~p~~~~~~~~~ip~l~~l~~~~~~~~ 325 (465)
....|....++.........+++ +.+.+.+....+ + +. .-+.... +|.+...-. . ..
T Consensus 293 ~qv~Wre~~y~~~~n~p~~~~m~-----~n~~~~~ipw~~n~~~~~aw~~G~tG-----------~P~ida~m~-~--l~ 353 (531)
T KOG0133|consen 293 GQVAWREFFYTAAFNTPYFDDMP-----GNKILLQIPWDKNPPKLAAWLEGLTG-----------YPWLDAGMR-Q--LL 353 (531)
T ss_pred ceeeeechhhHhhcCCccccccc-----cccccccCCcccChhhhHHHHcCCCC-----------CCchhHHHH-H--HH
Confidence 23334444443322211111111 111111100000 0 00 0001111 232221100 0 00
Q ss_pred hhcccCCC--------CCCCCCCCcHHHHHHHHHHHHHHHhcCCCCC--CCCCCCCCCCCCCCcccChhhhccCcCCHHH
Q 012338 326 SQVWHGGK--------PAANSMKGGETEALQRLKKFAAEYQAQPPKG--NKDGNHDSIYGANFSCKISPWLAMGCLSPRS 395 (465)
Q Consensus 326 ~~~w~~~~--------~~~~~~~gGE~~Al~~L~~Fl~~~l~~Y~~~--~~~~~Rn~~~~~~~TS~LSPYL~~G~ISpR~ 395 (465)
...|.... ......-+++.++++.+.+|+.+.-..-+.+ ... +-++..+..+...-||.+--|-++|+-
T Consensus 354 ~~gw~h~~~R~~vasf~tr~~L~i~w~eg~~~F~~~llD~D~~~~agnW~~~-S~~s~f~~~~~~~ysp~~~~kk~dP~g 432 (531)
T KOG0133|consen 354 ASGWEHHRSRTIVASFLTRGDLLISWREGLDVFMEYLLDADSSKNAGNWMWL-SSTSHFFDQFDRVYSPVALGKKLDPDG 432 (531)
T ss_pred HHHHHhcccchhhHhHhhccceeeeHHHHHHHHHHHhcchhhhcCCCcccee-ccccccccccccccCHHHHhCcCCcch
Confidence 00110000 0111345788999999999886542111110 000 001112234455789999999999999
Q ss_pred HHHHHHHhhhhh-hcc-ccCCCCCCCCCCcchHHHHHHHHHHHHHHHHHHhCCcccccccccccccccccC
Q 012338 396 MFDELKKTATSI-SAA-SKWNDGESGSSGAGSNWLMFELLWRDFFRFITKKYSSAKKVVEAVPATACTGAL 464 (465)
Q Consensus 396 v~~~l~~~~~~~-~~~-~~~~~~~~~~~~~~~~~l~~EL~WREF~~~i~~~~P~~~~~~~~~p~~~~~~~~ 464 (465)
.|.+..--.-.. ... +. ..-....+..|...|++|++|.+-+..+.-.-.++.|+.++..|+|+.
T Consensus 433 ~yir~~lp~l~~~p~~~i~----~pW~~p~~~~~~~~~~lg~~Yp~~iv~~~~a~k~~~e~~~~~~~~~~~ 499 (531)
T KOG0133|consen 433 LYIRQWLPELRSGPMHFIY----EPWAAPEGVQTAAGELLGVDYPKPIVKLASAAKRNMEAMGCMWSIGAV 499 (531)
T ss_pred hhHHHHhHHHhcCCcceec----cCCCCcHHHhhhhhhhhhcccchhhhhhHHhhHhHHHHHHHHHhhccc
Confidence 988754322111 000 00 000112334466789999999999999999998999999999999875
No 12
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=98.53 E-value=2.3e-07 Score=89.49 Aligned_cols=147 Identities=13% Similarity=0.163 Sum_probs=87.7
Q ss_pred EEEEeCCCCccccHHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEeC--
Q 012338 127 IVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG-- 204 (465)
Q Consensus 127 LvWFRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~G-- 204 (465)
|+|.-.|.-..++++|.. ...+ ..|++++...... ....+..|+.+++.||+++.+.|++.|..+.++.-
T Consensus 1 L~lIlgdQL~~~~~~l~~-~~~~---~~v~mvE~~~~~~----~~~~HkqKl~l~~saMRhfa~~L~~~G~~V~Y~~~~~ 72 (224)
T PF04244_consen 1 LRLILGDQLFEDHPALRD-DPAD---DRVLMVEVPEEFT----YVPHHKQKLVLFFSAMRHFADELRAKGFRVHYIELDD 72 (224)
T ss_dssp EEE--TT---TT-HHHHT--TTT----EEEEE--HHHHH----SS---HHHHHHHHHHHHHHHHHHHHTT--EEEE-TT-
T ss_pred CeEeccCCCCCccccccc-CCCC---CEEEEEEchHHhC----cCcccHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCCC
Confidence 578888988999999976 3333 3555655433321 13578899999999999999999999999988763
Q ss_pred -----ChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCCe-eeeCCCCC-CCCCCCCCCchH
Q 012338 205 -----KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGST-LYHLDDLP-FKLGEMPTNYGG 277 (465)
Q Consensus 205 -----~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~-L~~p~~l~-~~~g~~~~~ft~ 277 (465)
+..+.|.+++++++++.|.+ ++|.+.+.+++++++|++.||++..+.+.. |.+++++. +..|+....|..
T Consensus 73 ~~~~~s~~~~L~~~~~~~~~~~~~~---~~P~d~~l~~~l~~~~~~~~i~~~~~~~~~Fl~s~~~f~~~~~~~k~~~Me~ 149 (224)
T PF04244_consen 73 PENTQSFEDALARALKQHGIDRLHV---MEPGDYRLEQRLESLAQQLGIPLEVLEDPHFLTSREEFAEWFEGRKRLRMEY 149 (224)
T ss_dssp TT--SSHHHHHHHHHHHH----EEE---E--S-HHHHHHHHH----SSS-EEEE--TTSSS-HHHHHHHHTT-SS--HHH
T ss_pred ccccccHHHHHHHHHHHcCCCEEEE---ECCCCHHHHHHHHhhhcccCCceEEeCCCCccCCHHHHHHHHccCCceeHHH
Confidence 34688999999999999998 567888889999999999999999998874 55555542 333455567899
Q ss_pred HHHHHHh
Q 012338 278 FREKVKG 284 (465)
Q Consensus 278 Frk~~~~ 284 (465)
||+.+++
T Consensus 150 FYR~mRk 156 (224)
T PF04244_consen 150 FYREMRK 156 (224)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 9999987
No 13
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=90.63 E-value=2.6 Score=43.69 Aligned_cols=107 Identities=16% Similarity=0.138 Sum_probs=67.9
Q ss_pred cHHHHHHhh----c--CCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh------CCCcEEEEe---
Q 012338 139 NESLNTANN----E--SVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQA------RGSDLVVRV--- 203 (465)
Q Consensus 139 N~AL~~A~~----~--~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~------~Gi~L~v~~--- 203 (465)
..|+.+|++ . +..|..||+.++..... ....-..---+-+++..+.+++ .|++.....
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 346666652 2 35788899988643211 1110001112234444444443 477764433
Q ss_pred -------CChHHHHHHHHHHhCCCEEEEeccCChhHHH-HHHHHHHHHHhcCCeEEE
Q 012338 204 -------GKPETVLVELAKAIGADAVYAHREVSHDEVK-SEEKIEAAMKDEGIEVKY 252 (465)
Q Consensus 204 -------G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~-rd~~v~~~l~~~gI~v~~ 252 (465)
|++.+.|.+.+++++++.|+...+|.|.... .-+-++..|.+.||++..
T Consensus 92 ~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 (357)
T PRK12652 92 DEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAPMLQPLERELARAGITYEE 148 (357)
T ss_pred cccccCCCCHHHHHHHHHHHcCCCEEEECCCCCCCCCCcccchHHHHHHhcCCceec
Confidence 8999999999999999999999999887642 345567777788888764
No 14
>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=89.95 E-value=2.3 Score=41.12 Aligned_cols=97 Identities=14% Similarity=0.069 Sum_probs=63.1
Q ss_pred cHHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEe--CC---hHHHHHHH
Q 012338 139 NESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV--GK---PETVLVEL 213 (465)
Q Consensus 139 N~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~--G~---~~~vL~~L 213 (465)
.-||+.|.+. ..|.+++..-+...+ +..|.-..+..++.+-+.+|++|+... |. -.+.+.+.
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 4577778776 567788877665321 223333355666777788999997765 32 33444455
Q ss_pred HHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEE
Q 012338 214 AKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 214 ~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
+++.+++.|++-.-...+.+.| +++.|++.|++..
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 5677999999877666665554 5666677788765
No 15
>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=89.62 E-value=2.8 Score=39.59 Aligned_cols=96 Identities=21% Similarity=0.202 Sum_probs=59.3
Q ss_pred HHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEe--C---ChHH----HH
Q 012338 140 ESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV--G---KPET----VL 210 (465)
Q Consensus 140 ~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~--G---~~~~----vL 210 (465)
-+|+.|.+.|..|+++++..+.... +..|....+..+++..+++|+++++.. + +-.+ .|
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 4667777778788999988664321 111222345666677788999998875 2 1222 33
Q ss_pred HHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEE
Q 012338 211 VELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 211 ~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
.++.++ |++.|++-.-..-+.+.| +++.|.+.|++..
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 334444 688888776655554444 5666777788765
No 16
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=87.30 E-value=4.9 Score=38.71 Aligned_cols=99 Identities=19% Similarity=0.165 Sum_probs=67.3
Q ss_pred ccHHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEe--C---ChHHHHHH
Q 012338 138 DNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV--G---KPETVLVE 212 (465)
Q Consensus 138 DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~--G---~~~~vL~~ 212 (465)
-+-||+.|.+.|-.|..+.++-|...+ ++-|..-++.-....-+..|++++... | .-.+.+.+
T Consensus 13 S~~Al~~a~~~G~eV~~Ll~~~p~~~d------------S~m~H~~n~~~~~~~Ae~~gi~l~~~~~~g~~e~eve~L~~ 80 (223)
T COG2102 13 SFYALYLALEEGHEVVYLLTVKPENGD------------SYMFHTPNLELAELQAEAMGIPLVTFDTSGEEEREVEELKE 80 (223)
T ss_pred HHHHHHHHHHcCCeeEEEEEEecCCCC------------eeeeeccchHHHHHHHHhcCCceEEEecCccchhhHHHHHH
Confidence 378999999999889998888775431 111222333333334466799987765 3 23466777
Q ss_pred HHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEE
Q 012338 213 LAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 213 L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
+++..+++.|++-.-+..+.+.| ++..|++.|+.+.
T Consensus 81 ~l~~l~~d~iv~GaI~s~yqk~r---ve~lc~~lGl~~~ 116 (223)
T COG2102 81 ALRRLKVDGIVAGAIASEYQKER---VERLCEELGLKVY 116 (223)
T ss_pred HHHhCcccEEEEchhhhHHHHHH---HHHHHHHhCCEEe
Confidence 78888999999988777776665 5666676788775
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=85.50 E-value=7.9 Score=37.48 Aligned_cols=97 Identities=16% Similarity=0.103 Sum_probs=61.8
Q ss_pred cHHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEe--C---ChHHHHHHH
Q 012338 139 NESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV--G---KPETVLVEL 213 (465)
Q Consensus 139 N~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~--G---~~~~vL~~L 213 (465)
+-||+.|.+. ..|+++..+-|.... +..|..-.+.-++.+-+.+|++|+... + +-.+.+.++
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 5688888887 667777666554221 112221233444555577899997643 2 344666677
Q ss_pred HHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEE
Q 012338 214 AKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 214 ~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
+++.|++.|++-.-...+.+.| +++.|++.|++..
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 7778999999887666665554 5566666788765
No 18
>PRK09982 universal stress protein UspD; Provisional
Probab=85.23 E-value=19 Score=31.49 Aligned_cols=112 Identities=13% Similarity=0.065 Sum_probs=60.5
Q ss_pred cHHHHHHh----hcCCceeeEEEeCCCccCCCCCCCCCCCH---HHHHHHHHHHHHHHHHHHhCCCcEEEEeCChHHHHH
Q 012338 139 NESLNTAN----NESVSVLPVYCFDPRDYGKSSSGFDKTGP---YRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLV 211 (465)
Q Consensus 139 N~AL~~A~----~~~~~vl~vyi~dp~~~~~~~~g~~~~~~---~r~~FllesL~dL~~~L~~~Gi~L~v~~G~~~~vL~ 211 (465)
..||..|. ..+..|..+++.++.........+..... .......+.|+++.+.+...++...+..|+|.+.|.
T Consensus 17 ~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~G~p~~~I~ 96 (142)
T PRK09982 17 ALLVNKALELARHNDAHLTLIHIDDGLSELYPGIYFPATEDILQLLKNKSDNKLYKLTKNIQWPKTKLRIERGEMPETLL 96 (142)
T ss_pred HHHHHHHHHHHHHhCCeEEEEEEccCcchhchhhhccchHHHHHHHHHHHHHHHHHHHHhcCCCcceEEEEecCHHHHHH
Confidence 35665554 34567888999875321100000000001 111122233444444444345667888899999999
Q ss_pred HHHHHhCCCEEEEeccCChhHHHH-HHHHHHHHHhcCCeEEE
Q 012338 212 ELAKAIGADAVYAHREVSHDEVKS-EEKIEAAMKDEGIEVKY 252 (465)
Q Consensus 212 ~L~~~~~a~~V~~n~e~~p~e~~r-d~~v~~~l~~~gI~v~~ 252 (465)
+++++.+++-|++-.. .....+ --.-.+.++...|+|-.
T Consensus 97 ~~A~~~~aDLIVmG~~--~~~~~~~~~va~~V~~~s~~pVLv 136 (142)
T PRK09982 97 EIMQKEQCDLLVCGHH--HSFINRLMPAYRGMINKMSADLLI 136 (142)
T ss_pred HHHHHcCCCEEEEeCC--hhHHHHHHHHHHHHHhcCCCCEEE
Confidence 9999999999998754 222221 12223344555666653
No 19
>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=83.14 E-value=16 Score=30.71 Aligned_cols=84 Identities=10% Similarity=0.053 Sum_probs=54.8
Q ss_pred cHHHHHHhh----cCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEE---eCChHHHHH
Q 012338 139 NESLNTANN----ESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVR---VGKPETVLV 211 (465)
Q Consensus 139 N~AL~~A~~----~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~---~G~~~~vL~ 211 (465)
..+|..|.. .+.+|..++++++...... ........-..+.+..+.+.+++.|++.... .|++.+.|.
T Consensus 13 ~~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~ 87 (132)
T cd01988 13 RDLLELAAALARAQNGEIIPLNVIEVPNHSSP-----SQLEVNVQRARKLLRQAERIAASLGVPVHTIIRIDHDIASGIL 87 (132)
T ss_pred HHHHHHHHHHhhcCCCeEEEEEEEecCCCCCc-----chhHHHHHHHHHHHHHHHHHhhhcCCceEEEEEecCCHHHHHH
Confidence 345655542 4567889999886432100 0011223345567777777788888886533 378889999
Q ss_pred HHHHHhCCCEEEEecc
Q 012338 212 ELAKAIGADAVYAHRE 227 (465)
Q Consensus 212 ~L~~~~~a~~V~~n~e 227 (465)
+++++++++-|++-..
T Consensus 88 ~~a~~~~~dlIV~G~~ 103 (132)
T cd01988 88 RTAKERQADLIIMGWH 103 (132)
T ss_pred HHHHhcCCCEEEEecC
Confidence 9999999999987654
No 20
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=82.52 E-value=18 Score=29.81 Aligned_cols=75 Identities=20% Similarity=0.275 Sum_probs=49.8
Q ss_pred hcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcE--EEEeCChHHHHHHHHHHhCCCEEEE
Q 012338 147 NESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDL--VVRVGKPETVLVELAKAIGADAVYA 224 (465)
Q Consensus 147 ~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L--~v~~G~~~~vL~~L~~~~~a~~V~~ 224 (465)
..+.++..+|+.++..... .........-..+.|.++...+...|+++ .+..|++.+.+.+.+++.+++.|+.
T Consensus 25 ~~~~~i~~l~v~~~~~~~~-----~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvi 99 (130)
T cd00293 25 RLGAELVLLHVVDPPPSSA-----AELAELLEEEARALLEALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVM 99 (130)
T ss_pred hcCCEEEEEEEecCCCCcc-----hhHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEE
Confidence 4567899999987643210 00011223344566777777666678876 4456888889999999999999987
Q ss_pred ec
Q 012338 225 HR 226 (465)
Q Consensus 225 n~ 226 (465)
-.
T Consensus 100 g~ 101 (130)
T cd00293 100 GS 101 (130)
T ss_pred cC
Confidence 64
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=82.45 E-value=19 Score=31.31 Aligned_cols=90 Identities=18% Similarity=0.084 Sum_probs=50.9
Q ss_pred ccHHHHHHhh----cCCceeeEEEeCCCccCCCCCCCC-CCCH---HHHHHHHHHHHHHHHHHHhCCCcE--EEEeC-Ch
Q 012338 138 DNESLNTANN----ESVSVLPVYCFDPRDYGKSSSGFD-KTGP---YRASFLIESVSDLRKNLQARGSDL--VVRVG-KP 206 (465)
Q Consensus 138 DN~AL~~A~~----~~~~vl~vyi~dp~~~~~~~~g~~-~~~~---~r~~FllesL~dL~~~L~~~Gi~L--~v~~G-~~ 206 (465)
-..||..|++ .+.++..+|+.++........+.. .... ....-..+-|+...+.+++.|.+. .+..| ++
T Consensus 12 s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~g~~~ 91 (146)
T cd01989 12 SKNALKWALDNLATKGQTIVLVHVHPPITSIPSSSGKLEVASAYKQEEDKEAKELLLPYRCFCSRKGVQCEDVVLEDDDV 91 (146)
T ss_pred cHHHHHHHHHhccCCCCcEEEEEeccCcccCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCeEEEEEEeCCcH
Confidence 3456666653 356788999987643321100000 0000 001122334444555555566654 44555 88
Q ss_pred HHHHHHHHHHhCCCEEEEecc
Q 012338 207 ETVLVELAKAIGADAVYAHRE 227 (465)
Q Consensus 207 ~~vL~~L~~~~~a~~V~~n~e 227 (465)
.+.|.+.+++++++.|++-..
T Consensus 92 ~~~I~~~a~~~~~dlIV~Gs~ 112 (146)
T cd01989 92 AKAIVEYVADHGITKLVMGAS 112 (146)
T ss_pred HHHHHHHHHHcCCCEEEEecc
Confidence 999999999999999987643
No 22
>PRK15005 universal stress protein F; Provisional
Probab=79.74 E-value=30 Score=29.85 Aligned_cols=87 Identities=18% Similarity=0.221 Sum_probs=49.2
Q ss_pred HHHHHHh----hcCCceeeEEEeCCCccCCCCCCCC--CCCHHH---HHHHHHHHHHHHHHHHhCCC--cEEEEeCChHH
Q 012338 140 ESLNTAN----NESVSVLPVYCFDPRDYGKSSSGFD--KTGPYR---ASFLIESVSDLRKNLQARGS--DLVVRVGKPET 208 (465)
Q Consensus 140 ~AL~~A~----~~~~~vl~vyi~dp~~~~~~~~g~~--~~~~~r---~~FllesL~dL~~~L~~~Gi--~L~v~~G~~~~ 208 (465)
.||..|. ..+.+|..++++++...... .+.. ...... ..-..+.|+++.+.+...|. ..++..|++.+
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 4555444 34567888888875321100 0000 000111 11122344444444443443 56778899999
Q ss_pred HHHHHHHHhCCCEEEEecc
Q 012338 209 VLVELAKAIGADAVYAHRE 227 (465)
Q Consensus 209 vL~~L~~~~~a~~V~~n~e 227 (465)
.|.+.+++.+++-|++-..
T Consensus 98 ~I~~~a~~~~~DLIV~Gs~ 116 (144)
T PRK15005 98 RILELAKKIPADMIIIASH 116 (144)
T ss_pred HHHHHHHHcCCCEEEEeCC
Confidence 9999999999999988644
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=76.78 E-value=24 Score=33.81 Aligned_cols=96 Identities=22% Similarity=0.197 Sum_probs=54.5
Q ss_pred HHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEeCC-----hH----HHH
Q 012338 140 ESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGK-----PE----TVL 210 (465)
Q Consensus 140 ~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~G~-----~~----~vL 210 (465)
-+|+.|.+.|..|++++.+.+.... + . .+-...+..++...+.+|+++++..-+ .. ..+
T Consensus 12 ~al~~a~~~G~~v~~l~~~~~~~~~-~------~-----~~~~~~~~~~~~~A~~lgip~~~i~~~~~~~~~~~~l~~~l 79 (218)
T TIGR03679 12 YALYKALEEGHEVRCLITVVPENEE-S------Y-----MFHTPNIELTRLQAEALGIPLVKIETSGEKEKEVEDLKGAL 79 (218)
T ss_pred HHHHHHHHcCCEEEEEEEeccCCCC-c------c-----ccCCCCHHHHHHHHHHhCCCEEEEECCCCChHHHHHHHHHH
Confidence 4566777777777777666553211 0 0 000113455566667889999887632 22 233
Q ss_pred HHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEE
Q 012338 211 VELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 211 ~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
.++.++ |++.|++-.-..-+. +..+++.|.+.|+++.
T Consensus 80 ~~~~~~-g~~~vv~G~i~sd~~---~~~~e~v~~~~gl~~~ 116 (218)
T TIGR03679 80 KELKRE-GVEGIVTGAIASRYQ---KSRIERICEELGLKVF 116 (218)
T ss_pred HHHHHc-CCCEEEECCcccHhH---HHHHHHHHHhCCCeEE
Confidence 333343 899988766554333 3445566777787764
No 24
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=76.26 E-value=33 Score=28.75 Aligned_cols=77 Identities=13% Similarity=0.152 Sum_probs=49.6
Q ss_pred cHHHHHHh----hcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEE-eCChHHHHHHH
Q 012338 139 NESLNTAN----NESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVR-VGKPETVLVEL 213 (465)
Q Consensus 139 N~AL~~A~----~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~-~G~~~~vL~~L 213 (465)
..+|..|+ ..+..+..+++.++.... .. .+.. +-|..+.+.+++.|++..+. .|++.+.|.+.
T Consensus 13 ~~al~~a~~la~~~~~~l~ll~v~~~~~~~--------~~-~~~~---~~l~~~~~~~~~~~~~~~~~~~~~~~~~I~~~ 80 (124)
T cd01987 13 ERLIRRAARLADRLKAPWYVVYVETPRLNR--------LS-EAER---RRLAEALRLAEELGAEVVTLPGDDVAEAIVEF 80 (124)
T ss_pred HHHHHHHHHHHHHhCCCEEEEEEecCcccc--------CC-HHHH---HHHHHHHHHHHHcCCEEEEEeCCcHHHHHHHH
Confidence 45555554 346678889998764321 11 1111 23455555666678776554 46788999999
Q ss_pred HHHhCCCEEEEecc
Q 012338 214 AKAIGADAVYAHRE 227 (465)
Q Consensus 214 ~~~~~a~~V~~n~e 227 (465)
+++++++.|+.-..
T Consensus 81 ~~~~~~dllviG~~ 94 (124)
T cd01987 81 AREHNVTQIVVGKS 94 (124)
T ss_pred HHHcCCCEEEeCCC
Confidence 99999999987654
No 25
>PRK10116 universal stress protein UspC; Provisional
Probab=76.25 E-value=50 Score=28.41 Aligned_cols=115 Identities=11% Similarity=0.039 Sum_probs=60.9
Q ss_pred cccHHHHHHhh----cCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCc---EEEEeCChHHH
Q 012338 137 HDNESLNTANN----ESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSD---LVVRVGKPETV 209 (465)
Q Consensus 137 ~DN~AL~~A~~----~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~---L~v~~G~~~~v 209 (465)
..+.+|..|.. .+..|..++++++...... .+.......+....-+..+.|++...+.|++ ..+..|++.+.
T Consensus 15 ~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~G~~~~~ 93 (142)
T PRK10116 15 ESQQLLAKAVSIARPVNGKISLITLASDPEMYNQ-FAAPMLEDLRSVMQEETQSFLDKLIQDADYPIEKTFIAYGELSEH 93 (142)
T ss_pred chHHHHHHHHHHHHHhCCEEEEEEEccCcccchh-hhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEecCCHHHH
Confidence 34577777653 3567777888765321100 0000000111122222223344334455654 45567999999
Q ss_pred HHHHHHHhCCCEEEEeccCChhHHHHHHHH-HHHHHhcCCeEEEe
Q 012338 210 LVELAKAIGADAVYAHREVSHDEVKSEEKI-EAAMKDEGIEVKYF 253 (465)
Q Consensus 210 L~~L~~~~~a~~V~~n~e~~p~e~~rd~~v-~~~l~~~gI~v~~~ 253 (465)
+.+.+++.+++-|+....-. ....+.-.+ .+.+.+.+++|-.+
T Consensus 94 I~~~a~~~~~DLiV~g~~~~-~~~~~~~s~a~~v~~~~~~pVLvv 137 (142)
T PRK10116 94 ILEVCRKHHFDLVICGNHNH-SFFSRASCSAKRVIASSEVDVLLV 137 (142)
T ss_pred HHHHHHHhCCCEEEEcCCcc-hHHHHHHHHHHHHHhcCCCCEEEE
Confidence 99999999999999855432 222221122 34456667777544
No 26
>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=73.10 E-value=4.9 Score=38.74 Aligned_cols=97 Identities=16% Similarity=0.063 Sum_probs=51.6
Q ss_pred cHHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEe-----CChHHHHHHH
Q 012338 139 NESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV-----GKPETVLVEL 213 (465)
Q Consensus 139 N~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~-----G~~~~vL~~L 213 (465)
.-||+.|.+. ..|.++..+-|...... ..+... +.-++.+-+.+|++|+... .+-.+.+.++
T Consensus 14 ~lAl~~a~~~-~~v~~L~t~~~~~~~s~-----~~H~~~-------~~~~~~qA~algipl~~~~~~g~~~~~~~~l~~~ 80 (218)
T PF01902_consen 14 CLALYRALRQ-HEVVCLLTMVPEEEDSY-----MFHGVN-------IELIEAQAEALGIPLIEIPTSGDEEDYVEDLKEA 80 (218)
T ss_dssp HHHHHHHHHT--EEEEEEEEEESTTT-S-----SS-STT-------GTCHHHHHHHHT--EEEEEE---CCCHHHHHHHH
T ss_pred HHHHHHHHHh-CCccEEEEeccCCCCcc-----cccccC-------HHHHHHHHHHCCCCEEEEEccCccchhhHHHHHH
Confidence 4678888887 67777666554322110 011111 2233344466799998754 3344667777
Q ss_pred HHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEE
Q 012338 214 AKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 214 ~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
+++.+++.|++-.-..-+.+. .+++.|.+.|++..
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 788899999887655444444 45666777788775
No 27
>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=72.36 E-value=21 Score=32.89 Aligned_cols=45 Identities=22% Similarity=0.313 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEe
Q 012338 181 LIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (465)
Q Consensus 181 llesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n 225 (465)
+...+.++-+.|++.|.++.|..+.+...+..+++..|++.++.+
T Consensus 88 ~~~~~~~~l~~l~~~g~~v~ivS~s~~~~v~~~~~~lg~~~~~~~ 132 (202)
T TIGR01490 88 LYPEARDLIRWHKAEGHTIVLVSASLTILVKPLARILGIDNAIGT 132 (202)
T ss_pred ccHHHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHcCCcceEec
Confidence 455666776778899999999999999999999999999988765
No 28
>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=68.49 E-value=25 Score=31.51 Aligned_cols=66 Identities=14% Similarity=0.137 Sum_probs=47.7
Q ss_pred HhCCCcEEEEeCChHHHHHHHHHHh--CCCEEEEec-cCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeeeCC
Q 012338 193 QARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLD 262 (465)
Q Consensus 193 ~~~Gi~L~v~~G~~~~vL~~L~~~~--~a~~V~~n~-e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~ 262 (465)
+++|+.+.++..+.+..|.+.+++. +++.|+.|- .|+.... ++++.++.-++++..++-..++..+
T Consensus 38 ~~~g~~v~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtSi----Al~DAl~~~~~P~vEVHiSNi~aRE 106 (141)
T TIGR01088 38 AQLNVELEFFQSNSEGQLIDKIHEAEGQYDGIIINPGALTHTSV----ALRDALAAVSLPVVEVHLSNVHARE 106 (141)
T ss_pred HHcCCEEEEEeeCcHHHHHHHHHhccccCCEEEEcChHHhhhHH----HHHHHHHcCCCCEEEEEcCCccccc
Confidence 4569999999988887777777664 357788874 4555555 4566677779999988777766544
No 29
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=68.48 E-value=30 Score=31.28 Aligned_cols=67 Identities=16% Similarity=0.172 Sum_probs=47.4
Q ss_pred HHhCCCcEEEEeCChHHHHHHHHHHh--CCCEEEEec-cCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeeeCC
Q 012338 192 LQARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLD 262 (465)
Q Consensus 192 L~~~Gi~L~v~~G~~~~vL~~L~~~~--~a~~V~~n~-e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~ 262 (465)
.+++|..+.++..+.+..|.+.+++. +++.|+.|- .|+.+.. .+++.++..++++..++-..++..+
T Consensus 39 a~~~g~~~~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtSi----Al~DAl~~~~~P~VEVHiSNi~aRE 108 (146)
T PRK13015 39 AEALGLEVEFRQSNHEGELIDWIHEARGDVAGIVINPGAYTHTSV----AIRDALAALELPVIEVHISNVHARE 108 (146)
T ss_pred HHHcCCEEEEEeeCcHHHHHHHHHHhhhcCCEEEEcchHHhhhHH----HHHHHHHcCCCCEEEEEcCCccccc
Confidence 34569999999988887777766653 467788884 4555555 4566667779999988776666544
No 30
>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=68.38 E-value=57 Score=26.88 Aligned_cols=55 Identities=18% Similarity=0.166 Sum_probs=36.0
Q ss_pred cEEEEeCChHHHHHHHHHHhCCCEEEEeccC-ChhHH-HHHHHHHHHHHhcCCeEEE
Q 012338 198 DLVVRVGKPETVLVELAKAIGADAVYAHREV-SHDEV-KSEEKIEAAMKDEGIEVKY 252 (465)
Q Consensus 198 ~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~-~p~e~-~rd~~v~~~l~~~gI~v~~ 252 (465)
...+..|++.+.+.+++++.+++.|++...- ..... -.-....+.+....++|..
T Consensus 82 ~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~~~~~~pVlv 138 (140)
T PF00582_consen 82 EVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLLRHAPCPVLV 138 (140)
T ss_dssp EEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHHHHTSSEEEE
T ss_pred EEEEEeeccchhhhhccccccceeEEEeccCCCCccCCCcCCHHHHHHHcCCCCEEE
Confidence 3455679999999999999999999987654 22221 1122334444555676654
No 31
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=68.32 E-value=78 Score=27.30 Aligned_cols=66 Identities=15% Similarity=0.095 Sum_probs=39.9
Q ss_pred HHHHHHHHhCCCcE---EEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEE
Q 012338 186 SDLRKNLQARGSDL---VVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (465)
Q Consensus 186 ~dL~~~L~~~Gi~L---~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~ 252 (465)
+.|++.+++.|+.. ++..|++.+.|.+.+++.+++-|+.-..-. .....-....+.++...|+|-.
T Consensus 68 ~~l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~~~-~~~~lgSva~~v~~~a~~pVLv 136 (144)
T PRK15118 68 HALTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHHQD-FWSKLMSSARQLINTVHVDMLI 136 (144)
T ss_pred HHHHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCccc-HHHHHHHHHHHHHhhCCCCEEE
Confidence 33444445567653 345799999999999999999999865522 2122222222334445566543
No 32
>PRK15456 universal stress protein UspG; Provisional
Probab=66.63 E-value=73 Score=27.54 Aligned_cols=87 Identities=15% Similarity=0.088 Sum_probs=47.8
Q ss_pred HHHHHHhh---cCCceeeEEEeCCCccCCCCCCCCCCCHH---HHHHHHHHHHHHHHHHHhCCC--cEEEEeCChHHHHH
Q 012338 140 ESLNTANN---ESVSVLPVYCFDPRDYGKSSSGFDKTGPY---RASFLIESVSDLRKNLQARGS--DLVVRVGKPETVLV 211 (465)
Q Consensus 140 ~AL~~A~~---~~~~vl~vyi~dp~~~~~~~~g~~~~~~~---r~~FllesL~dL~~~L~~~Gi--~L~v~~G~~~~vL~ 211 (465)
.||.+|.. ....+..++++++................ ...-..+.|.++.+.+...|. ..++..|++.+.|.
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 23468888888764221100000000011 112223345555554443344 45667899999999
Q ss_pred HHHHHhCCCEEEEec
Q 012338 212 ELAKAIGADAVYAHR 226 (465)
Q Consensus 212 ~L~~~~~a~~V~~n~ 226 (465)
+++++++++-|++-.
T Consensus 99 ~~a~~~~~DLIVmG~ 113 (142)
T PRK15456 99 ELAEELGADVVVIGS 113 (142)
T ss_pred HHHhhcCCCEEEEcC
Confidence 999999999998754
No 33
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=65.56 E-value=55 Score=27.33 Aligned_cols=62 Identities=29% Similarity=0.427 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHhCCCcEEEE--e-------------CChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhc
Q 012338 182 IESVSDLRKNLQARGSDLVVR--V-------------GKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDE 246 (465)
Q Consensus 182 lesL~dL~~~L~~~Gi~L~v~--~-------------G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~ 246 (465)
-++|.+|..-.+..|+.++-. . |. .+.|.+++++.+++.|+++.+.+|...+ .+++.+
T Consensus 7 ~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK-~eei~~~~~~~~~d~vvfd~~Lsp~Q~r---NLe~~~--- 79 (95)
T PF13167_consen 7 EESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGK-VEEIKELIEELDADLVVFDNELSPSQQR---NLEKAL--- 79 (95)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhH-HHHHHHHHhhcCCCEEEECCCCCHHHHH---HHHHHH---
Confidence 467888888888889876421 1 33 3668889999999999999999887654 355554
Q ss_pred CCeE
Q 012338 247 GIEV 250 (465)
Q Consensus 247 gI~v 250 (465)
|++|
T Consensus 80 ~~~V 83 (95)
T PF13167_consen 80 GVKV 83 (95)
T ss_pred CCee
Confidence 5554
No 34
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=64.66 E-value=21 Score=40.45 Aligned_cols=61 Identities=25% Similarity=0.346 Sum_probs=46.1
Q ss_pred HHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEE
Q 012338 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 186 ~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
.+.-+.|+++|++++++.||....-..++++.|+++|+.+ ..|+++.. +-+.+++.|-.|-
T Consensus 543 ~~aI~~L~~~Gi~~~mLTGDn~~~A~~iA~~lGId~v~Ae--llPedK~~---~V~~l~~~g~~Va 603 (713)
T COG2217 543 KEAIAALKALGIKVVMLTGDNRRTAEAIAKELGIDEVRAE--LLPEDKAE---IVRELQAEGRKVA 603 (713)
T ss_pred HHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcChHhhecc--CCcHHHHH---HHHHHHhcCCEEE
Confidence 3444567888999999999999999999999999999885 56776642 3444556664443
No 35
>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=64.07 E-value=46 Score=27.40 Aligned_cols=66 Identities=23% Similarity=0.251 Sum_probs=44.8
Q ss_pred HHHHHHHHHhCCCcEEEE---eCChHH--HHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 185 VSDLRKNLQARGSDLVVR---VGKPET--VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 185 L~dL~~~L~~~Gi~L~v~---~G~~~~--vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
...+++.+++.|..+.+. .|.... .|...++ +++.|++-.++--... -..+++.|++.|+++....
T Consensus 12 ~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~--~aD~VIv~t~~vsH~~--~~~vk~~akk~~ip~~~~~ 82 (97)
T PF10087_consen 12 ERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIK--KADLVIVFTDYVSHNA--MWKVKKAAKKYGIPIIYSR 82 (97)
T ss_pred HHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcC--CCCEEEEEeCCcChHH--HHHHHHHHHHcCCcEEEEC
Confidence 467788889999999988 232222 3665555 4677777666643332 2468888999999998654
No 36
>PRK10490 sensor protein KdpD; Provisional
Probab=62.84 E-value=52 Score=38.44 Aligned_cols=117 Identities=15% Similarity=0.170 Sum_probs=69.0
Q ss_pred CCCeEEEEEeCCCCccccHHHHH-----HhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCC
Q 012338 122 IRRASIVWFRNDLRVHDNESLNT-----ANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARG 196 (465)
Q Consensus 122 ~~~~~LvWFRrDLRl~DN~AL~~-----A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~G 196 (465)
.+..+||=.-.+ ..+..|.. |...+.++++|||-++..- ........-+.+.++ |. +++|
T Consensus 249 ~~eriLV~v~~~---~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~--------~~~~~~~~~l~~~~~-lA---~~lG 313 (895)
T PRK10490 249 TRDAILLCIGHN---TGSEKLVRTAARLAARLGSVWHAVYVETPRLH--------RLPEKKRRAILSALR-LA---QELG 313 (895)
T ss_pred cCCeEEEEECCC---cchHHHHHHHHHHHHhcCCCEEEEEEecCCcC--------cCCHHHHHHHHHHHH-HH---HHcC
Confidence 344456655544 33445532 2334678999999876421 122333334445552 44 4569
Q ss_pred CcEEEEeC-ChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHH-HHH-hcCCeEEEee
Q 012338 197 SDLVVRVG-KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEA-AMK-DEGIEVKYFW 254 (465)
Q Consensus 197 i~L~v~~G-~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~-~l~-~~gI~v~~~~ 254 (465)
..++++.| +..+.|.+++++.|++.|+.-+.-...... ...+.+ .++ ..+|.++.+.
T Consensus 314 a~~~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~~~-~~s~~~~l~r~~~~idi~iv~ 373 (895)
T PRK10490 314 AETATLSDPAEEKAVLRYAREHNLGKIIIGRRASRRWWR-RESFADRLARLGPDLDLVIVA 373 (895)
T ss_pred CEEEEEeCCCHHHHHHHHHHHhCCCEEEECCCCCCCCcc-CCCHHHHHHHhCCCCCEEEEe
Confidence 99877776 688999999999999999998764322111 112222 222 2478888764
No 37
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=62.79 E-value=28 Score=36.83 Aligned_cols=65 Identities=15% Similarity=0.304 Sum_probs=51.8
Q ss_pred HHHHHHHHHhCCCcEEEEeC--ChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 185 VSDLRKNLQARGSDLVVRVG--KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 185 L~dL~~~L~~~Gi~L~v~~G--~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
|..+.+++.++|+.+++-.. +..+++.+++.+.+++.|+-.+...-+|. .+.+.|++.|+++..-
T Consensus 67 l~~~~~~v~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKSmvseEI----gln~~Le~~G~ev~ET 133 (459)
T COG1139 67 LEQLEENVTRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKSMVSEEI----GLNHYLEEKGIEVWET 133 (459)
T ss_pred HHHHHHHHHHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecchhHHHh----hhHHHHHHcCCeEEEc
Confidence 45566777889999998864 56689999999999999999988766666 4677778889988754
No 38
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=62.01 E-value=1.2e+02 Score=34.83 Aligned_cols=120 Identities=18% Similarity=0.160 Sum_probs=72.9
Q ss_pred CCCCeEEEEEeCCCCccccHHHHH-----HhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhC
Q 012338 121 AIRRASIVWFRNDLRVHDNESLNT-----ANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQAR 195 (465)
Q Consensus 121 ~~~~~~LvWFRrDLRl~DN~AL~~-----A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~ 195 (465)
..+...+|=+-.+ ..|+.|.. |.+.+.+..+|||-.|+.... +.....-+.+ ...|.++ +
T Consensus 246 ~~~e~ilvcI~~~---~~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~~--------~~~~~~~l~~-~~~Lae~---l 310 (890)
T COG2205 246 AARERILVCISGS---PGSEKLIRRAARLASRLHAKWTAVYVETPELHRL--------SEKEARRLHE-NLRLAEE---L 310 (890)
T ss_pred cccceEEEEECCC---CchHHHHHHHHHHHHHhCCCeEEEEEeccccccc--------cHHHHHHHHH-HHHHHHH---h
Confidence 3344445554433 24666643 334567899999999876432 2223333333 3445554 4
Q ss_pred CCcEEEEeC-ChHHHHHHHHHHhCCCEEEEeccCChhHHHH-HHHHHHHHH--hcCCeEEEeeC
Q 012338 196 GSDLVVRVG-KPETVLVELAKAIGADAVYAHREVSHDEVKS-EEKIEAAMK--DEGIEVKYFWG 255 (465)
Q Consensus 196 Gi~L~v~~G-~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~r-d~~v~~~l~--~~gI~v~~~~~ 255 (465)
|..+.++.| +..+.+.++|+++++++|+.-+.-...++++ ...+...+. ..+|.++.+..
T Consensus 311 Gae~~~l~~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~ 374 (890)
T COG2205 311 GAEIVTLYGGDVAKAIARYAREHNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVAL 374 (890)
T ss_pred CCeEEEEeCCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeC
Confidence 999998885 6678999999999999999987654444322 233443332 34677775543
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=61.80 E-value=25 Score=32.30 Aligned_cols=40 Identities=18% Similarity=0.281 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCE
Q 012338 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADA 221 (465)
Q Consensus 182 lesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~ 221 (465)
+..+.++=+.|++.|+++.++.||.......++++.|+..
T Consensus 129 ~~~~~~~l~~L~~~Gi~~~i~TGD~~~~a~~~~~~lgi~~ 168 (215)
T PF00702_consen 129 RPGAKEALQELKEAGIKVAILTGDNESTASAIAKQLGIFD 168 (215)
T ss_dssp HTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTTSCS
T ss_pred hhhhhhhhhhhhccCcceeeeecccccccccccccccccc
Confidence 3445666677888899999999999999999999999965
No 40
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=60.91 E-value=22 Score=33.93 Aligned_cols=65 Identities=22% Similarity=0.284 Sum_probs=51.0
Q ss_pred HHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChh-------------HHHHHHHHHHHHHhcCCe
Q 012338 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHD-------------EVKSEEKIEAAMKDEGIE 249 (465)
Q Consensus 185 L~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~-------------e~~rd~~v~~~l~~~gI~ 249 (465)
..+|-+.|++.|..+.|..|.+...+..+++..|++.++.|.-...+ ...-.+++.+++++.|+.
T Consensus 82 a~elv~~lk~~G~~v~iiSgg~~~lv~~ia~~lg~d~~~an~l~~~dG~ltG~v~g~~~~~~~K~~~l~~~~~~~g~~ 159 (212)
T COG0560 82 AEELVAALKAAGAKVVIISGGFTFLVEPIAERLGIDYVVANELEIDDGKLTGRVVGPICDGEGKAKALRELAAELGIP 159 (212)
T ss_pred HHHHHHHHHHCCCEEEEEcCChHHHHHHHHHHhCCchheeeEEEEeCCEEeceeeeeecCcchHHHHHHHHHHHcCCC
Confidence 77888999999999999999999999999999999887776522111 112356777888888887
No 41
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=60.68 E-value=35 Score=38.55 Aligned_cols=63 Identities=19% Similarity=0.276 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeE
Q 012338 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEV 250 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v 250 (465)
...++.=++|++.|++.+++.||....-..++++.|++.+|+. ..|+++.+ +.+.++++|-.|
T Consensus 444 ~~a~e~I~~Lr~~GI~vvMiTGDn~~TA~aIA~elGI~~v~A~--~~PedK~~---iV~~lQ~~G~~V 506 (673)
T PRK14010 444 DGLVERFRELREMGIETVMCTGDNELTAATIAKEAGVDRFVAE--CKPEDKIN---VIREEQAKGHIV 506 (673)
T ss_pred HHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCceEEcC--CCHHHHHH---HHHHHHhCCCEE
Confidence 4445556678889999999999999999999999999998874 56776643 445566666433
No 42
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=59.91 E-value=38 Score=38.28 Aligned_cols=61 Identities=16% Similarity=0.230 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCC
Q 012338 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGI 248 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI 248 (465)
...++.=++|++.|++++++.||....-..++++.|++.++++ ..|+++.+ +.+.+++.|-
T Consensus 448 ~~~~eai~~Lr~~GI~vvMiTGDn~~TA~aIA~elGId~v~A~--~~PedK~~---iV~~lQ~~G~ 508 (679)
T PRK01122 448 PGIKERFAELRKMGIKTVMITGDNPLTAAAIAAEAGVDDFLAE--ATPEDKLA---LIRQEQAEGR 508 (679)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCcEEEcc--CCHHHHHH---HHHHHHHcCC
Confidence 3445555678889999999999999999999999999998775 56776643 4445555663
No 43
>TIGR01497 kdpB K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR.
Probab=59.29 E-value=53 Score=37.10 Aligned_cols=62 Identities=16% Similarity=0.239 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCC
Q 012338 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGI 248 (465)
Q Consensus 182 lesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI 248 (465)
.....+.=+.|++.|+++.++.||.......++++.|++.++++ ..|+++.. .|+++ ++.|-
T Consensus 448 Rp~a~eaI~~l~~~Gi~v~miTGD~~~ta~~iA~~lGI~~v~a~--~~PedK~~--~v~~l-q~~g~ 509 (675)
T TIGR01497 448 KGGIKERFAQLRKMGIKTIMITGDNRLTAAAIAAEAGVDDFIAE--ATPEDKIA--LIRQE-QAEGK 509 (675)
T ss_pred hhHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCCEEEcC--CCHHHHHH--HHHHH-HHcCC
Confidence 34556666678889999999999999999999999999998874 56666532 34444 44443
No 44
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=58.93 E-value=23 Score=36.75 Aligned_cols=61 Identities=13% Similarity=0.147 Sum_probs=42.4
Q ss_pred HHHhCCC--cEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEE
Q 012338 191 NLQARGS--DLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 191 ~L~~~Gi--~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
+|+++|+ ..+++.+.|.-...+.+-+.|+.+|+.-.|..+.....-+++.+.|++.||+|.
T Consensus 37 ~l~~lgi~g~~i~~s~~p~~~cad~ii~~gi~rVVi~~D~d~~G~~~~~~~~~~L~~aGi~V~ 99 (360)
T PRK14719 37 SLKNLKINANFITVSNTPVFQIADDLIAENISEVILLTDFDRAGRVYAKNIMEEFQSRGIKVN 99 (360)
T ss_pred HHHHcCCCCcEEEEeCCchHHHHHHHHHcCCCEEEEEECCCCCCCccchHHHHHHHHCCCEEE
Confidence 5777887 466666766655555555568888877667766544444567788899999984
No 45
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=55.57 E-value=92 Score=29.62 Aligned_cols=99 Identities=23% Similarity=0.317 Sum_probs=64.1
Q ss_pred ccHHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHh
Q 012338 138 DNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAI 217 (465)
Q Consensus 138 DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~ 217 (465)
|=.+|..|.+.| +|.+++++..+. .|..|= ++|.+.|++.+.+|+|+-|-..-.=+.|++.+
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 457888888877 577888876542 244453 56778889999999999985432225677776
Q ss_pred CCCEEEEeccCChh---HHHHHHHHHHHHHhcCCeEEEee
Q 012338 218 GADAVYAHREVSHD---EVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 218 ~a~~V~~n~e~~p~---e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
.-.-|-.|-..-|. -..-.+.++.-.+..|++|+.++
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 55444444443322 12334456666667899998775
No 46
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=53.43 E-value=1.3e+02 Score=27.14 Aligned_cols=66 Identities=20% Similarity=0.215 Sum_probs=48.0
Q ss_pred HhCCCcEEEEeCChHHHHHHHHHHh--CCCEEEEec-cCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeeeCC
Q 012338 193 QARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLD 262 (465)
Q Consensus 193 ~~~Gi~L~v~~G~~~~vL~~L~~~~--~a~~V~~n~-e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~ 262 (465)
+++|+.+.++..+.+..|.+.+++. +++.|+.|- .|+.... .+++.++.-++++..++-..++.++
T Consensus 40 ~~~g~~v~~~QSN~EGelId~I~~a~~~~dgiiINpga~THtSi----Al~DAl~~~~~P~VEVHiSNi~aRE 108 (146)
T PRK05395 40 AELGVELEFFQSNHEGELIDRIHEARDGADGIIINPGAYTHTSV----ALRDALAAVSIPVIEVHLSNIHARE 108 (146)
T ss_pred HHcCCEEEEEeeCcHHHHHHHHHhcccCCcEEEECchHHHHHHH----HHHHHHHcCCCCEEEEecCCccccc
Confidence 4569999999988887777777654 578888884 4455544 4666677779999988777776544
No 47
>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=51.64 E-value=1.4e+02 Score=26.81 Aligned_cols=68 Identities=16% Similarity=0.211 Sum_probs=48.3
Q ss_pred HHhCCCcEEEEeCChHHHHHHHHHHh--CCCEEEEec-cCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeeeCCC
Q 012338 192 LQARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDD 263 (465)
Q Consensus 192 L~~~Gi~L~v~~G~~~~vL~~L~~~~--~a~~V~~n~-e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~ 263 (465)
-+++|+.+.++..+.+..|.+.+++. +++.|+.|- .|+.... ++++.++.-++++..++-..++..++
T Consensus 37 a~~~g~~v~~~QSN~Egelid~I~~a~~~~dgiIINpga~THtSv----Ai~DAl~~~~~P~VEVHiSNi~aRE~ 107 (140)
T cd00466 37 AAELGVEVEFFQSNHEGELIDWIHEARDGADGIIINPGAYTHTSI----ALRDALAAVSIPVIEVHISNIHAREE 107 (140)
T ss_pred HHHcCCEEEEEeeCcHHHHHHHHHHhhccCcEEEEcchHHHHHHH----HHHHHHHcCCCCEEEEecCCcccccc
Confidence 34569999999988887777766653 467888884 4444544 46667777789999888777766543
No 48
>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=51.04 E-value=78 Score=29.62 Aligned_cols=107 Identities=20% Similarity=0.192 Sum_probs=66.8
Q ss_pred cHHHH-HHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEeC--------Ch---
Q 012338 139 NESLN-TANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG--------KP--- 206 (465)
Q Consensus 139 N~AL~-~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~G--------~~--- 206 (465)
|.-|. .|++.+ ..+-||+++.+.-. -.-.-|...+.++.++|..=---.|++.+|-.. +.
T Consensus 15 H~yLiE~Aa~~~-d~l~vFVV~eD~S~-------Fpf~~R~~LVk~G~~~L~NV~V~~~g~YiIS~aTFPsYFlK~~~~~ 86 (182)
T PF08218_consen 15 HRYLIEQAAKEC-DWLHVFVVSEDRSL-------FPFADRYELVKEGTADLPNVTVHPGGDYIISSATFPSYFLKDEDDV 86 (182)
T ss_pred HHHHHHHHHHhC-CEEEEEEEccccCc-------CCHHHHHHHHHHHhCcCCCEEEEcCCCeeeecccChhhhccchhHH
Confidence 34453 455554 56778888764321 224578999999999986543334555555321 11
Q ss_pred --------HHHHHH-HHHHhCCCEEEEeccCC-hhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 207 --------ETVLVE-LAKAIGADAVYAHREVS-HDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 207 --------~~vL~~-L~~~~~a~~V~~n~e~~-p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
..++.+ ++...||+.-|+-.|+- +--..--+.++++|.+.||++...
T Consensus 87 ~~~~~~lD~~iF~~~IAp~L~It~RfVG~EP~~~vT~~YN~~M~~~Lp~~gi~v~ei 143 (182)
T PF08218_consen 87 IKAQAELDATIFKKYIAPALGITKRFVGEEPFSPVTRIYNEAMKEILPPYGIEVVEI 143 (182)
T ss_pred HHHHHHHHHHHHHHHhhHhcCcccceeCCCCCCHHHHHHHHHHHHhccccCCEEEEE
Confidence 133444 66678999998887763 323333567888999999999854
No 49
>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=50.27 E-value=20 Score=32.13 Aligned_cols=43 Identities=28% Similarity=0.422 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEe
Q 012338 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n 225 (465)
.++.++-+.|++.|.++.|..+.....+..+++.+|+..++.+
T Consensus 76 ~g~~~~l~~l~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~~~ 118 (177)
T TIGR01488 76 PGARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVFAN 118 (177)
T ss_pred cCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCchheee
Confidence 4556666677778888888888777777777777777766654
No 50
>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=50.12 E-value=1.3e+02 Score=27.04 Aligned_cols=76 Identities=16% Similarity=0.216 Sum_probs=50.0
Q ss_pred HHHHHHHHHH----HhCCCcEEEEeCChHHHHHHHHHHh--CCCEEEEec-cCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 183 ESVSDLRKNL----QARGSDLVVRVGKPETVLVELAKAI--GADAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 183 esL~dL~~~L----~~~Gi~L~v~~G~~~~vL~~L~~~~--~a~~V~~n~-e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
.+|.++.+.| +++|+.+.++..+.+..|.+.+++. .++.|+.|- .|+.... ++++.++.-++++..++-
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 3445544444 4568999999999888887777765 478888884 4555555 456677777899999887
Q ss_pred CeeeeCC
Q 012338 256 STLYHLD 262 (465)
Q Consensus 256 ~~L~~p~ 262 (465)
..++.++
T Consensus 101 SNi~~RE 107 (140)
T PF01220_consen 101 SNIHARE 107 (140)
T ss_dssp S-GGGS-
T ss_pred CCccccc
Confidence 7776654
No 51
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=49.90 E-value=1.4e+02 Score=25.28 Aligned_cols=46 Identities=24% Similarity=0.268 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHhCCCc---EEEEeCCh-HHHHHHHHHHhCCCEEEEec
Q 012338 181 LIESVSDLRKNLQARGSD---LVVRVGKP-ETVLVELAKAIGADAVYAHR 226 (465)
Q Consensus 181 llesL~dL~~~L~~~Gi~---L~v~~G~~-~~vL~~L~~~~~a~~V~~n~ 226 (465)
..+.+..+++.+++.|+. ..+..|++ .+.+..++.+.+++.|++-.
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~ 121 (154)
T COG0589 72 AEELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGS 121 (154)
T ss_pred HHHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECC
Confidence 356777888888888866 46677999 68999999999999988754
No 52
>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=49.23 E-value=36 Score=36.31 Aligned_cols=66 Identities=17% Similarity=0.303 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHhCCCcEEEEeC--ChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEE
Q 012338 183 ESVSDLRKNLQARGSDLVVRVG--KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~G--~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~ 252 (465)
+=|..+.+++++.|..+++... +..+.+.++++++|+..|.........|. .+.+.|++.|+++..
T Consensus 51 ~~l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS~~~eei----gl~~~L~~~g~~~~e 118 (432)
T TIGR00273 51 FYLDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSKSMVSEEI----GLNEVLEKIGIEVWE 118 (432)
T ss_pred HHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcCchHHHHh----CCHHHHHhCCCeeee
Confidence 3445567778888998888764 45578889999999999998876655544 456677778887653
No 53
>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=48.00 E-value=1.3e+02 Score=29.10 Aligned_cols=72 Identities=17% Similarity=0.139 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCC
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~ 256 (465)
.|..+-+..+.+.+++.|..+.+...+......+.+...+++.|+..-... . +. ..+.+++.|+++..++..
T Consensus 17 ~~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~-~----~~-~~~~~~~~~ipvV~~~~~ 88 (283)
T cd06279 17 PVASQFLAGVAEVLDAAGVNLLLLPASSEDSDSALVVSALVDGFIVYGVPR-D----DP-LVAALLRRGLPVVVVDQP 88 (283)
T ss_pred ccHHHHHHHHHHHHHHCCCEEEEecCccHHHHHHHHHhcCCCEEEEeCCCC-C----hH-HHHHHHHcCCCEEEEecC
Confidence 366667777888999999999888765433333445567899888754321 1 12 233456679999988653
No 54
>PRK10517 magnesium-transporting ATPase MgtA; Provisional
Probab=47.18 E-value=98 Score=36.29 Aligned_cols=39 Identities=26% Similarity=0.400 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCC
Q 012338 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (465)
Q Consensus 182 lesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~ 220 (465)
.+...+.-+.|++.|+++.++.||....-..++++.|+.
T Consensus 552 R~~a~~aI~~l~~aGI~v~miTGD~~~tA~~IA~~lGI~ 590 (902)
T PRK10517 552 KETTAPALKALKASGVTVKILTGDSELVAAKVCHEVGLD 590 (902)
T ss_pred hhhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 556677777888999999999999999999999999996
No 55
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=46.83 E-value=74 Score=34.79 Aligned_cols=47 Identities=23% Similarity=0.269 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHhCCC-cEEEEeCChHHHHHHHHHHhCCCEEEEec
Q 012338 180 FLIESVSDLRKNLQARGS-DLVVRVGKPETVLVELAKAIGADAVYAHR 226 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi-~L~v~~G~~~~vL~~L~~~~~a~~V~~n~ 226 (465)
=+.....++=+.|++.|+ ++.+..|++......++++.|+..+|.+.
T Consensus 362 ~l~~~~~e~i~~L~~~Gi~~v~vvTgd~~~~a~~i~~~lgi~~~f~~~ 409 (536)
T TIGR01512 362 EPRPDAAEAIAELKALGIEKVVMLTGDRRAVAERVARELGIDEVHAEL 409 (536)
T ss_pred cchHHHHHHHHHHHHcCCCcEEEEcCCCHHHHHHHHHHcCChhhhhcc
Confidence 356677777888889999 99999999999999999999999887643
No 56
>PRK15122 magnesium-transporting ATPase; Provisional
Probab=45.75 E-value=99 Score=36.25 Aligned_cols=64 Identities=20% Similarity=0.345 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCC-------------------------EEEEeccCChhHHHHH
Q 012338 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD-------------------------AVYAHREVSHDEVKSE 236 (465)
Q Consensus 182 lesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~-------------------------~V~~n~e~~p~e~~rd 236 (465)
.+...+.-++|++.|++++++.||....-..++++.|+. .||+. ..|+.+.
T Consensus 552 R~~a~~aI~~l~~aGI~v~miTGD~~~tA~aIA~~lGI~~~~vi~G~el~~~~~~el~~~v~~~~VfAr--~sPe~K~-- 627 (903)
T PRK15122 552 KESAAPAIAALRENGVAVKVLTGDNPIVTAKICREVGLEPGEPLLGTEIEAMDDAALAREVEERTVFAK--LTPLQKS-- 627 (903)
T ss_pred HHHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCCCCCccchHhhhhCCHHHHHHHhhhCCEEEE--eCHHHHH--
Confidence 455667777888999999999999999999999999996 56654 5666664
Q ss_pred HHHHHHHHhcCCeE
Q 012338 237 EKIEAAMKDEGIEV 250 (465)
Q Consensus 237 ~~v~~~l~~~gI~v 250 (465)
++.+.|++.|-.|
T Consensus 628 -~iV~~Lq~~G~vV 640 (903)
T PRK15122 628 -RVLKALQANGHTV 640 (903)
T ss_pred -HHHHHHHhCCCEE
Confidence 3666677777433
No 57
>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=45.08 E-value=89 Score=29.45 Aligned_cols=65 Identities=28% Similarity=0.308 Sum_probs=42.8
Q ss_pred HHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCC-hhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVS-HDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 187 dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~-p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
+..++|++.|..++...-+..+.|.+.++ |++.|++..... +.+......+.+++++.||+...+
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 34556777888655322233455666555 899999987755 566777778888888889877643
No 58
>PF12710 HAD: haloacid dehalogenase-like hydrolase; PDB: 3P96_A 3N28_A 3FVV_A 1RKU_A 1RKV_A 1Y8A_A 2FEA_B 3KD3_B.
Probab=45.03 E-value=48 Score=29.96 Aligned_cols=41 Identities=24% Similarity=0.531 Sum_probs=35.4
Q ss_pred HHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCE--EEEecc
Q 012338 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIGADA--VYAHRE 227 (465)
Q Consensus 187 dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~--V~~n~e 227 (465)
++=+.|++.|.+++|+.|.+...+..+++..++.. |++++-
T Consensus 96 e~i~~~~~~~~~v~IvS~~~~~~i~~~~~~~~i~~~~v~~~~~ 138 (192)
T PF12710_consen 96 ELIRELKDNGIKVVIVSGSPDEIIEPIAERLGIDDDNVIGNEL 138 (192)
T ss_dssp HHHHHHHHTTSEEEEEEEEEHHHHHHHHHHTTSSEGGEEEEEE
T ss_pred HHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEEEEEee
Confidence 55566788899999999999999999999999987 888776
No 59
>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=44.72 E-value=42 Score=30.66 Aligned_cols=43 Identities=19% Similarity=0.327 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEe
Q 012338 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n 225 (465)
..+.++=+.|++.|+++.|..+.....+..+++.+|+..++.+
T Consensus 83 ~g~~e~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~g~~~~~~~ 125 (201)
T TIGR01491 83 DYAEELVRWLKEKGLKTAIVSGGIMCLAKKVAEKLNPDYVYSN 125 (201)
T ss_pred ccHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHhCCCeEEEE
Confidence 3445555566666777777776666666666666666655543
No 60
>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=44.48 E-value=1.2e+02 Score=33.40 Aligned_cols=45 Identities=24% Similarity=0.316 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHhCC-CcEEEEeCChHHHHHHHHHHhCCCEEEEe
Q 012338 181 LIESVSDLRKNLQARG-SDLVVRVGKPETVLVELAKAIGADAVYAH 225 (465)
Q Consensus 181 llesL~dL~~~L~~~G-i~L~v~~G~~~~vL~~L~~~~~a~~V~~n 225 (465)
++....++=+.|++.| +++.+..|++......++++.|++.+|..
T Consensus 385 ~~~g~~e~l~~L~~~g~i~v~ivTgd~~~~a~~i~~~lgi~~~f~~ 430 (556)
T TIGR01525 385 LRPEAKEAIAALKRAGGIKLVMLTGDNRSAAEAVAAELGIDEVHAE 430 (556)
T ss_pred chHhHHHHHHHHHHcCCCeEEEEeCCCHHHHHHHHHHhCCCeeecc
Confidence 5667777777888999 99999999999999999999999998875
No 61
>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=44.30 E-value=1.3e+02 Score=28.46 Aligned_cols=71 Identities=15% Similarity=0.191 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeCC-h---HHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVGK-P---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G~-~---~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
|..+-+..+++.+++.|..+.+..++ . .+.+..++...+++.|+..-.... ..+.+.+.+.||++..++.
T Consensus 18 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~------~~~~~~~~~~~ipvV~~~~ 91 (270)
T cd06294 18 FFIEVLRGISAVANENGYDISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED------DPIIDYLKEEKFPFVVIGK 91 (270)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC------cHHHHHHHhcCCCEEEECC
Confidence 55566677888888899999876542 2 234455555667888877532211 1234455678999998865
Q ss_pred C
Q 012338 256 S 256 (465)
Q Consensus 256 ~ 256 (465)
.
T Consensus 92 ~ 92 (270)
T cd06294 92 P 92 (270)
T ss_pred C
Confidence 3
No 62
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=44.12 E-value=63 Score=29.78 Aligned_cols=57 Identities=11% Similarity=0.204 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCe
Q 012338 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIE 249 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~ 249 (465)
.+++.|+ ++|+++.|..|.+...+..++++.++..++...+. . -..+.++|++.|+.
T Consensus 55 ~~i~~L~----~~Gi~v~I~T~~~~~~v~~~l~~lgl~~~f~g~~~----k--~~~l~~~~~~~gl~ 111 (183)
T PRK09484 55 YGIRCLL----TSGIEVAIITGRKSKLVEDRMTTLGITHLYQGQSN----K--LIAFSDLLEKLAIA 111 (183)
T ss_pred HHHHHHH----HCCCEEEEEeCCCcHHHHHHHHHcCCceeecCCCc----H--HHHHHHHHHHhCCC
Confidence 3555544 57999999999988888999999999877753221 1 25677777777764
No 63
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=43.91 E-value=1.1e+02 Score=35.69 Aligned_cols=39 Identities=26% Similarity=0.360 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCC
Q 012338 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (465)
Q Consensus 182 lesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~ 220 (465)
.+...+.-++|++.|+++.++.||....-..++++.|+.
T Consensus 517 R~~~~~aI~~l~~aGI~vvmiTGD~~~tA~aIA~~lGI~ 555 (867)
T TIGR01524 517 KESTKEAIAALFKNGINVKVLTGDNEIVTARICQEVGID 555 (867)
T ss_pred chhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 455566677788899999999999999999999999997
No 64
>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=43.49 E-value=69 Score=26.33 Aligned_cols=49 Identities=24% Similarity=0.371 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCC----CEEEEeccC
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGA----DAVYAHREV 228 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a----~~V~~n~e~ 228 (465)
-+.+.+.++-+.|++.|..++++.+.....+..+++..++ ..++.....
T Consensus 24 ~~~~~~~~~l~~l~~~g~~i~ivS~~~~~~~~~~~~~~~~~~~~~~i~~~~~~ 76 (139)
T cd01427 24 ELYPGVKEALKELKEKGIKLALATNKSRREVLELLEELGLDDYFDPVITSNGA 76 (139)
T ss_pred CcCcCHHHHHHHHHHCCCeEEEEeCchHHHHHHHHHHcCCchhhhheeccchh
Confidence 3455566666777888999999999888888888888876 456554433
No 65
>PRK11175 universal stress protein UspE; Provisional
Probab=43.29 E-value=2.2e+02 Score=27.99 Aligned_cols=42 Identities=29% Similarity=0.340 Sum_probs=31.5
Q ss_pred HHHHHHHHHhCCCc---EEEEeCChHHHHHHHHHHhCCCEEEEec
Q 012338 185 VSDLRKNLQARGSD---LVVRVGKPETVLVELAKAIGADAVYAHR 226 (465)
Q Consensus 185 L~dL~~~L~~~Gi~---L~v~~G~~~~vL~~L~~~~~a~~V~~n~ 226 (465)
...+++-+++.|++ .++..|++.+.|.+.+++.+++-|++-.
T Consensus 225 ~~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~ 269 (305)
T PRK11175 225 LLAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGT 269 (305)
T ss_pred HHHHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECC
Confidence 34445545555664 5667899999999999999999998754
No 66
>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=42.30 E-value=1.1e+02 Score=27.21 Aligned_cols=106 Identities=17% Similarity=0.047 Sum_probs=61.8
Q ss_pred CCCccccHHHHH-HhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCC-CcEEEEeCChHHHH
Q 012338 133 DLRVHDNESLNT-ANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARG-SDLVVRVGKPETVL 210 (465)
Q Consensus 133 DLRl~DN~AL~~-A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~G-i~L~v~~G~~~~vL 210 (465)
|.==.-|-.|.. |.+.+..++.++.+||.... . + +.. ..+-++.+=.+.|+++| ++.++.. +.. .-
T Consensus 21 DgvH~GH~~ll~~a~~~~~~~~v~v~~d~~~~~-~-----k-~~~---~~l~~~eeR~~~l~~~~~VD~vi~f-~~~-~~ 88 (144)
T TIGR02199 21 DILHAGHVSYLQQARALGDRLVVGVNSDASVKR-L-----K-GET---RPINPEEDRAEVLAALSSVDYVVIF-DED-TP 88 (144)
T ss_pred cccCHHHHHHHHHHHHhCCccEEEEECCcCHHH-h-----C-CCC---CCcCCHHHHHHHHHhcCCCCEEEEC-CCC-CH
Confidence 444344555544 44556667777888875331 0 0 000 11335566666777885 8876652 221 23
Q ss_pred HHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 211 VELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 211 ~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
.++++.++++.|++-.++.....+ -.+.+++.|..+..++
T Consensus 89 ~~fi~~l~~~~vv~G~d~~~~~~~----~~~~~~~~g~~v~~~~ 128 (144)
T TIGR02199 89 EELIGELKPDILVKGGDYKVETLV----GAELVESYGGQVVLLP 128 (144)
T ss_pred HHHHHHhCCCEEEECCCCCCCcch----hHHHHHHcCCEEEEEe
Confidence 456678999999999988764321 1245667788887654
No 67
>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=41.60 E-value=1.1e+02 Score=34.95 Aligned_cols=39 Identities=13% Similarity=0.228 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCE
Q 012338 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADA 221 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~ 221 (465)
+...+.-+.|++.|+++.++.||....-..++++.|+..
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 445566667888899999999999999999999999864
No 68
>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=41.14 E-value=1.1e+02 Score=29.77 Aligned_cols=86 Identities=19% Similarity=0.244 Sum_probs=46.6
Q ss_pred eeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEeC---ChHHHHHHHHHHhCCCEEEEeccCC
Q 012338 153 LPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG---KPETVLVELAKAIGADAVYAHREVS 229 (465)
Q Consensus 153 l~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~G---~~~~vL~~L~~~~~a~~V~~n~e~~ 229 (465)
+.++|=.|-..+ .+ .=-++.|..|++.|+++|+++.+.-. +..+-+..|+.. ++.+++--+-+.
T Consensus 105 ~~L~iEgP~d~g----------~r--~~QI~~l~~Lr~~L~~~g~~v~iVADEWCNT~eDI~~F~da-~A~dmVQIKtPD 171 (248)
T PF07476_consen 105 FKLRIEGPMDAG----------SR--EAQIEALAELREELDRRGINVEIVADEWCNTLEDIREFADA-KAADMVQIKTPD 171 (248)
T ss_dssp S-EEEE-SB--S----------SH--HHHHHHHHHHHHHHHHCT--EEEEE-TT--SHHHHHHHHHT-T-SSEEEE-GGG
T ss_pred CeeeeeCCcCCC----------Ch--HHHHHHHHHHHHHHHhcCCCCeEEeehhcCCHHHHHHHHhc-CCcCEEEecCCC
Confidence 578888776543 11 22358899999999999999988875 455667777775 444444433332
Q ss_pred hhHHHHHHHHHHHHHhcCCeEE
Q 012338 230 HDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 230 p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
-.....-....-.|+++|+...
T Consensus 172 LGgi~ntieAvlyCk~~gvgaY 193 (248)
T PF07476_consen 172 LGGINNTIEAVLYCKEHGVGAY 193 (248)
T ss_dssp GSSTHHHHHHHHHHHHTT-EEE
T ss_pred ccchhhHHHHHHHHHhcCCcee
Confidence 2233222222335788887654
No 69
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=40.68 E-value=1e+02 Score=28.63 Aligned_cols=56 Identities=18% Similarity=0.280 Sum_probs=41.2
Q ss_pred HHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEE
Q 012338 190 KNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 190 ~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
.++++.|+.++|...+.+..+..+++..|+.-|+...-+ ..+ .++++|++.+++..
T Consensus 56 ~e~k~~gi~v~vvSNn~e~RV~~~~~~l~v~fi~~A~KP--~~~----~fr~Al~~m~l~~~ 111 (175)
T COG2179 56 AELKEAGIKVVVVSNNKESRVARAAEKLGVPFIYRAKKP--FGR----AFRRALKEMNLPPE 111 (175)
T ss_pred HHHHhcCCEEEEEeCCCHHHHHhhhhhcCCceeecccCc--cHH----HHHHHHHHcCCChh
Confidence 456778999999988888888889999999888776543 333 45556666676544
No 70
>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=40.58 E-value=1.3e+02 Score=29.13 Aligned_cols=74 Identities=24% Similarity=0.370 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHhCCCcEEEEe----C------ChHHHHHHHHHHhCCCEEEEe-----ccCChh-HHHHHHHHHHHHHhc
Q 012338 183 ESVSDLRKNLQARGSDLVVRV----G------KPETVLVELAKAIGADAVYAH-----REVSHD-EVKSEEKIEAAMKDE 246 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~----G------~~~~vL~~L~~~~~a~~V~~n-----~e~~p~-e~~rd~~v~~~l~~~ 246 (465)
+.|.++-+.+++.|+.|+++- | +-.-.|.+++++.|+..||.| +++.|. ...--+++.+.|++.
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 466777777888899998862 2 234567788889999988776 455555 345567788888887
Q ss_pred CC-eEEEeeCC
Q 012338 247 GI-EVKYFWGS 256 (465)
Q Consensus 247 gI-~v~~~~~~ 256 (465)
|+ ++-++-|.
T Consensus 94 ~~g~IAsv~GR 104 (223)
T PF06415_consen 94 GIGRIASVSGR 104 (223)
T ss_dssp TCTEEEEEEEC
T ss_pred CCceEEEEece
Confidence 65 66665544
No 71
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=39.65 E-value=1.7e+02 Score=27.66 Aligned_cols=70 Identities=16% Similarity=0.161 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeCChH-H---HHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVGKPE-T---VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G~~~-~---vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
|..+-+..+++.+++.|..+.+...+.. + .+.+.+.+.+++.|+..... .. .. .+.+.+.||++..++.
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 5666677788899999999988764322 1 22333445689999875422 11 11 3345667999988764
Q ss_pred C
Q 012338 256 S 256 (465)
Q Consensus 256 ~ 256 (465)
.
T Consensus 89 ~ 89 (268)
T cd06277 89 Y 89 (268)
T ss_pred C
Confidence 3
No 72
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=39.29 E-value=2.3e+02 Score=23.95 Aligned_cols=67 Identities=18% Similarity=0.106 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
.++.+.+ ++.++++|+++.+-.....+ +.......+++.|.. +|.-+-+.+.+++.+.+.|+++...
T Consensus 15 Slla~k~---k~~~~e~gi~~~i~a~~~~e-~~~~~~~~~~DvIll----~PQi~~~~~~i~~~~~~~~ipv~~I 81 (104)
T PRK09590 15 SMMAKKT---TEYLKEQGKDIEVDAITATE-GEKAIAAAEYDLYLV----SPQTKMYFKQFEEAGAKVGKPVVQI 81 (104)
T ss_pred HHHHHHH---HHHHHHCCCceEEEEecHHH-HHHhhccCCCCEEEE----ChHHHHHHHHHHHHhhhcCCCEEEe
Confidence 3665555 66778899998887665443 444444345666655 4555666788999998889998753
No 73
>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=39.22 E-value=3.6e+02 Score=25.95 Aligned_cols=63 Identities=17% Similarity=0.265 Sum_probs=39.6
Q ss_pred eEEEEEeCC--------CCccccHHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCC
Q 012338 125 ASIVWFRND--------LRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARG 196 (465)
Q Consensus 125 ~~LvWFRrD--------LRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~G 196 (465)
..+.||++- .++.+-| .+..++.+|--.+..-. ..+ ..|+.+...+..+.|+++|
T Consensus 2 ~~~~y~~~~~~~~~~~~~~l~~~p-------ds~D~v~lf~~~~~~~~-------~~~---~~~~~~~~~~~i~~l~~kG 64 (255)
T cd06542 2 ISFGYFEVWDDKGASLQESLLNLP-------DSVDMVSLFAANINLDA-------ATA---VQFLLTNKETYIRPLQAKG 64 (255)
T ss_pred eEEEEEEecCCcCcccccccccCC-------CcceEEEEcccccCccc-------ccc---hhhhhHHHHHHHHHHhhCC
Confidence 356788853 4444433 44456666554444211 111 5688888899999999999
Q ss_pred CcEEEEeC
Q 012338 197 SDLVVRVG 204 (465)
Q Consensus 197 i~L~v~~G 204 (465)
+++++-.|
T Consensus 65 ~KVl~sig 72 (255)
T cd06542 65 TKVLLSIL 72 (255)
T ss_pred CEEEEEEC
Confidence 99987553
No 74
>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=39.13 E-value=52 Score=32.95 Aligned_cols=34 Identities=18% Similarity=0.215 Sum_probs=16.1
Q ss_pred HHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhC
Q 012338 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIG 218 (465)
Q Consensus 185 L~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~ 218 (465)
..+|=+.|+++|+++.|..|.....+..++++.+
T Consensus 126 ~~efl~~L~~~GIpv~IvS~G~~~~Ie~vL~~lg 159 (277)
T TIGR01544 126 YENFFDKLQQHSIPVFIFSAGIGNVLEEVLRQAG 159 (277)
T ss_pred HHHHHHHHHHCCCcEEEEeCCcHHHHHHHHHHcC
Confidence 3344444445555555555444444444444433
No 75
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=39.10 E-value=56 Score=28.92 Aligned_cols=44 Identities=20% Similarity=0.268 Sum_probs=29.6
Q ss_pred HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 208 TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 208 ~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
+.+.+++++++++.|+..-.. .+.+.-+++.+.|++.||+++..
T Consensus 131 ~~l~~~~~~~~id~v~ial~~--~~~~~i~~ii~~~~~~~v~v~~v 174 (175)
T PF13727_consen 131 DDLPELVREHDIDEVIIALPW--SEEEQIKRIIEELENHGVRVRVV 174 (175)
T ss_dssp GGHHHHHHHHT--EEEE--TT--S-HHHHHHHHHHHHTTT-EEEE-
T ss_pred HHHHHHHHhCCCCEEEEEcCc--cCHHHHHHHHHHHHhCCCEEEEe
Confidence 558889999999999987544 34455678888999999998753
No 76
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=38.99 E-value=1e+02 Score=35.73 Aligned_cols=59 Identities=27% Similarity=0.429 Sum_probs=43.4
Q ss_pred HHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 190 KNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 190 ~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
..|+++|++++.+.||........+++.|++.||++ ..|.++. +.|++. ++.+-.+-.+
T Consensus 733 ~~Lk~~Gi~v~mLTGDn~~aA~svA~~VGi~~V~ae--v~P~~K~--~~Ik~l-q~~~~~VaMV 791 (951)
T KOG0207|consen 733 AELKSMGIKVVMLTGDNDAAARSVAQQVGIDNVYAE--VLPEQKA--EKIKEI-QKNGGPVAMV 791 (951)
T ss_pred HHHHhcCceEEEEcCCCHHHHHHHHHhhCcceEEec--cCchhhH--HHHHHH-HhcCCcEEEE
Confidence 466788999999999999999999999999999996 5566553 234444 4444444444
No 77
>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=37.47 E-value=79 Score=30.88 Aligned_cols=48 Identities=15% Similarity=0.218 Sum_probs=40.4
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 205 KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 205 ~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
.+...+.+.++..|+++|.. .+||.....+.+++++++.|++|..+.+
T Consensus 106 t~~~A~~~AL~alg~~RIal---vTPY~~~v~~~~~~~l~~~G~eV~~~~~ 153 (239)
T TIGR02990 106 TPSSAAVDGLAALGVRRISL---LTPYTPETSRPMAQYFAVRGFEIVNFTC 153 (239)
T ss_pred CHHHHHHHHHHHcCCCEEEE---ECCCcHHHHHHHHHHHHhCCcEEeeeec
Confidence 46678888888999999988 5677777888999999999999987755
No 78
>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=37.28 E-value=47 Score=31.06 Aligned_cols=44 Identities=25% Similarity=0.407 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEe
Q 012338 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (465)
Q Consensus 182 lesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n 225 (465)
..++.++=+.|++.|.++.+..+.....+..+++..++..++.+
T Consensus 87 ~~g~~~~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~~i~~~~~~ 130 (219)
T TIGR00338 87 TEGAEELVKTLKEKGYKVAVISGGFDLFAEHVKDKLGLDAAFAN 130 (219)
T ss_pred CCCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEee
Confidence 34555666677777888888777776777777777777666543
No 79
>KOG1615 consensus Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=36.57 E-value=46 Score=31.70 Aligned_cols=35 Identities=23% Similarity=0.444 Sum_probs=16.0
Q ss_pred HHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCC
Q 012338 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGA 219 (465)
Q Consensus 185 L~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a 219 (465)
+++|-..|+++|..|++..|-....+.-++.+.|+
T Consensus 93 i~eLv~~L~~~~~~v~liSGGF~~~i~~Va~~Lgi 127 (227)
T KOG1615|consen 93 IRELVSRLHARGTQVYLISGGFRQLIEPVAEQLGI 127 (227)
T ss_pred HHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHhCC
Confidence 34444444555555555554444443333444443
No 80
>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=36.47 E-value=2.5e+02 Score=26.37 Aligned_cols=72 Identities=13% Similarity=0.139 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeCC--h---HHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVGK--P---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G~--~---~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
|..+-+.-+++.+++.|..+.+...+ . ...+.+.+...+++.|+..-..... ..+.+.+.+.|+++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~-----~~~~~~~~~~~ipvv~i~ 87 (270)
T cd01545 13 YVSEIQLGALDACRDTGYQLVIEPCDSGSPDLAERVRALLQRSRVDGVILTPPLSDN-----PELLDLLDEAGVPYVRIA 87 (270)
T ss_pred cHHHHHHHHHHHHHhCCCeEEEEeCCCCchHHHHHHHHHHHHCCCCEEEEeCCCCCc-----cHHHHHHHhcCCCEEEEe
Confidence 56666677777888999998887543 2 2345555656789988875321111 122344566799998876
Q ss_pred CC
Q 012338 255 GS 256 (465)
Q Consensus 255 ~~ 256 (465)
..
T Consensus 88 ~~ 89 (270)
T cd01545 88 PG 89 (270)
T ss_pred cC
Confidence 43
No 81
>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=36.17 E-value=1.7e+02 Score=28.79 Aligned_cols=58 Identities=28% Similarity=0.289 Sum_probs=45.6
Q ss_pred CcEEEEeCC--hHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCC
Q 012338 197 SDLVVRVGK--PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (465)
Q Consensus 197 i~L~v~~G~--~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~ 256 (465)
..+.++.|. ..+.+.+++++++++.|+=- .-|+..+.-+.+.+.|++.||++..|.-.
T Consensus 43 ~~~~v~~G~lg~~~~l~~~l~~~~i~~vIDA--THPfA~~is~na~~a~~~~~ipylR~eRp 102 (249)
T PF02571_consen 43 PGLEVRVGRLGDEEGLAEFLRENGIDAVIDA--THPFAAEISQNAIEACRELGIPYLRFERP 102 (249)
T ss_pred CCceEEECCCCCHHHHHHHHHhCCCcEEEEC--CCchHHHHHHHHHHHHhhcCcceEEEEcC
Confidence 345666665 46789999999999988632 34788999999999999999999887543
No 82
>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=35.80 E-value=3e+02 Score=28.32 Aligned_cols=111 Identities=22% Similarity=0.264 Sum_probs=61.6
Q ss_pred EEEeCCCCccccHHHHHHhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh-CCCcEEEEeCCh
Q 012338 128 VWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQA-RGSDLVVRVGKP 206 (465)
Q Consensus 128 vWFRrDLRl~DN~AL~~A~~~~~~vl~vyi~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~-~Gi~L~v~~G~~ 206 (465)
+|=-.-.++-.-..+.+|-++|.+|++.++++.. + +.. + +++-|++ .... -..
T Consensus 38 ywsh~~~~iPp~~~idaAHknGV~Vlgti~~e~~--~---------~~~---~-------~~~lL~~~~~~~-----~~~ 91 (339)
T cd06547 38 YFSHSAVTIPPADWINAAHRNGVPVLGTFIFEWT--G---------QVE---W-------LEDFLKKDEDGS-----FPV 91 (339)
T ss_pred cccCccccCCCcHHHHHHHhcCCeEEEEEEecCC--C---------chH---H-------HHHHhccCcccc-----hHH
Confidence 3333444555545556666789999999988753 1 111 1 1111221 1111 124
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCh-h--HHHH----HHHHHHHHHhc--CCeEEEeeCCeeeeCCCCCC
Q 012338 207 ETVLVELAKAIGADAVYAHREVSH-D--EVKS----EEKIEAAMKDE--GIEVKYFWGSTLYHLDDLPF 266 (465)
Q Consensus 207 ~~vL~~L~~~~~a~~V~~n~e~~p-~--e~~r----d~~v~~~l~~~--gI~v~~~~~~~L~~p~~l~~ 266 (465)
.+.|.++|+.+|.+-+..|.|... . ...+ .+.+.+.+++. +..+..|++.+- .+.+.+
T Consensus 92 a~kLv~lak~yGfDGw~iN~E~~~~~~~~~~~l~~F~~~L~~~~~~~~~~~~v~WYDs~t~--~G~l~w 158 (339)
T cd06547 92 ADKLVEVAKYYGFDGWLINIETELGDAEKAKRLIAFLRYLKAKLHENVPGSLVIWYDSMTE--DGKLSW 158 (339)
T ss_pred HHHHHHHHHHhCCCceEeeeeccCCcHHHHHHHHHHHHHHHHHHhhcCCCcEEEEEecCCC--CCccch
Confidence 578999999999999999999876 2 2222 23333333332 566666665432 444443
No 83
>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=35.56 E-value=1.2e+02 Score=26.99 Aligned_cols=54 Identities=9% Similarity=0.242 Sum_probs=38.8
Q ss_pred HHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCC
Q 012338 189 RKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGI 248 (465)
Q Consensus 189 ~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI 248 (465)
=+.|++.|+.+.|..+.+......+++.+|+...+.... +. -+.+.+++++.|+
T Consensus 37 i~~Lk~~G~~i~IvTn~~~~~~~~~l~~~gi~~~~~~~~--~k----~~~~~~~~~~~~~ 90 (154)
T TIGR01670 37 IRCALKSGIEVAIITGRKAKLVEDRCKTLGITHLYQGQS--NK----LIAFSDILEKLAL 90 (154)
T ss_pred HHHHHHCCCEEEEEECCCCHHHHHHHHHcCCCEEEeccc--ch----HHHHHHHHHHcCC
Confidence 345667899999999998888889999999998776431 11 2345666666564
No 84
>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=34.95 E-value=3.2e+02 Score=25.91 Aligned_cols=70 Identities=16% Similarity=0.221 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeCC--hHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVGK--PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G~--~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
|..+-++.+.+.+++.|..+.+...+ ..+.+.+.+...+++.|+...... .. ..+ +.+.+.||++..++.
T Consensus 24 ~~~~~~~gi~~~~~~~g~~~~v~~~~~~~~~~~~~~l~~~~~dgiii~~~~~-~~----~~~-~~~~~~~ipvV~~~~ 95 (275)
T cd06295 24 FFLSLLGGIADALAERGYDLLLSFVSSPDRDWLARYLASGRADGVILIGQHD-QD----PLP-ERLAETGLPFVVWGR 95 (275)
T ss_pred hHHHHHHHHHHHHHHcCCEEEEEeCCchhHHHHHHHHHhCCCCEEEEeCCCC-Ch----HHH-HHHHhCCCCEEEECC
Confidence 55556666778899999998887533 234555556567899887643211 11 123 345678999998754
No 85
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=34.86 E-value=2.8e+02 Score=27.15 Aligned_cols=47 Identities=17% Similarity=0.085 Sum_probs=39.3
Q ss_pred HHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 207 ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 207 ~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
.+.+.+++++.+++.|+=- .-|+..+.-+.+.+.|++.||++..|.-
T Consensus 54 ~~~l~~~l~~~~i~~VIDA--THPfA~~is~~a~~ac~~~~ipyiR~eR 100 (248)
T PRK08057 54 AEGLAAYLREEGIDLVIDA--THPYAAQISANAAAACRALGIPYLRLER 100 (248)
T ss_pred HHHHHHHHHHCCCCEEEEC--CCccHHHHHHHHHHHHHHhCCcEEEEeC
Confidence 4789999999999988632 3478888889999999999999988864
No 86
>PRK10671 copA copper exporting ATPase; Provisional
Probab=34.35 E-value=2e+02 Score=33.25 Aligned_cols=44 Identities=32% Similarity=0.336 Sum_probs=36.0
Q ss_pred HHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhH
Q 012338 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDE 232 (465)
Q Consensus 187 dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e 232 (465)
+.-+.|++.|+++.++.|+.......++++.|+..++.. ..|.+
T Consensus 657 ~~i~~L~~~gi~v~~~Tgd~~~~a~~ia~~lgi~~~~~~--~~p~~ 700 (834)
T PRK10671 657 AALQRLHKAGYRLVMLTGDNPTTANAIAKEAGIDEVIAG--VLPDG 700 (834)
T ss_pred HHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcCCCEEEeC--CCHHH
Confidence 333566888999999999999999999999999998875 34554
No 87
>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=34.28 E-value=2e+02 Score=31.70 Aligned_cols=41 Identities=24% Similarity=0.382 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEE
Q 012338 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYA 224 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~ 224 (465)
....++=+.|++.|+++.+..|+.......++++.|++ ++.
T Consensus 408 ~~a~e~i~~Lk~~Gi~v~ilSgd~~~~a~~ia~~lgi~-~~~ 448 (562)
T TIGR01511 408 PEAKEVIQALKRRGIEPVMLTGDNRKTAKAVAKELGIN-VRA 448 (562)
T ss_pred HHHHHHHHHHHHcCCeEEEEcCCCHHHHHHHHHHcCCc-EEc
Confidence 44455556678889999999999999999999999997 444
No 88
>PRK10343 RNA-binding protein YhbY; Provisional
Probab=34.21 E-value=2.4e+02 Score=23.65 Aligned_cols=67 Identities=27% Similarity=0.344 Sum_probs=39.1
Q ss_pred HHHHHhCCCcE--EEEeCC---hHHHHHHHHHHhCCC---EEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCCee
Q 012338 189 RKNLQARGSDL--VVRVGK---PETVLVELAKAIGAD---AVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTL 258 (465)
Q Consensus 189 ~~~L~~~Gi~L--~v~~G~---~~~vL~~L~~~~~a~---~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L 258 (465)
++.|+.++..| +|..|. ...++.++-+..... .|-+... +. ..+.+.+.+.+++.|.++...-|+++
T Consensus 8 r~~LR~~ah~l~Pvv~IGk~Glt~~vi~ei~~aL~~hELIKvkv~~~-~~--~~~~e~~~~i~~~~~ae~Vq~IG~~~ 82 (97)
T PRK10343 8 KQHLKGLAHPLKPVVLLGSNGLTEGVLAEIEQALEHHELIKVKIATE-DR--ETKTLIVEAIVRETGACNVQVIGKTL 82 (97)
T ss_pred HHHHHHhcCCCCCeEEECCCCCCHHHHHHHHHHHHHCCcEEEEecCC-Ch--hHHHHHHHHHHHHHCCEEEeeeCcEE
Confidence 34556555544 666553 445555555544443 3333322 22 33456677788888999999988863
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=33.80 E-value=3.1e+02 Score=25.35 Aligned_cols=70 Identities=16% Similarity=0.163 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeCC--h---HHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVGK--P---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G~--~---~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
|..+-.+-+++.++++|+.+.+...+ + .+.+..+.. .+++.|+........ .. ...+.+.||++..+.
T Consensus 13 ~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~-~~~d~iii~~~~~~~-~~-----~~~~~~~~ipvv~~~ 85 (264)
T cd06267 13 FFAELLRGIEEAAREAGYSVLLCNSDEDPEKEREALELLLS-RRVDGIILAPSRLDD-EL-----LEELAALGIPVVLVD 85 (264)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHH-cCcCEEEEecCCcch-HH-----HHHHHHcCCCEEEec
Confidence 44555566777778889999887653 2 234444444 478888775433221 11 334567899998876
Q ss_pred CC
Q 012338 255 GS 256 (465)
Q Consensus 255 ~~ 256 (465)
..
T Consensus 86 ~~ 87 (264)
T cd06267 86 RP 87 (264)
T ss_pred cc
Confidence 54
No 90
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=33.71 E-value=2.6e+02 Score=26.68 Aligned_cols=71 Identities=13% Similarity=0.016 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeCCh----HHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVGKP----ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G~~----~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
.|..+-+..+.+.++++|..+++...+. .+.+..++...+++.|+.... ... ..+.+.+++.|+++..++
T Consensus 12 ~~~~~~~~~i~~~~~~~gy~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~-~~~-----~~~~~~l~~~~iPvv~~~ 85 (269)
T cd06297 12 EFYRRLLEGIEGALLEQRYDLALFPLLSLARLKRYLESTTLAYLTDGLLLASY-DLT-----ERLAERRLPTERPVVLVD 85 (269)
T ss_pred hhHHHHHHHHHHHHHHCCCEEEEEeCCCcHHHHHHHHHHHHhcCCCEEEEecC-ccC-----hHHHHHHhhcCCCEEEEc
Confidence 3666677888889999999998876432 233444455678998887642 112 123344567899998886
Q ss_pred C
Q 012338 255 G 255 (465)
Q Consensus 255 ~ 255 (465)
.
T Consensus 86 ~ 86 (269)
T cd06297 86 A 86 (269)
T ss_pred c
Confidence 5
No 91
>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=32.82 E-value=3.7e+02 Score=25.30 Aligned_cols=72 Identities=18% Similarity=0.221 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeC--ChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G--~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
.|..+-++.+.+.+++.|..+.+..+ ++. +.+..+. ..+++.|+..-. .....+..+. .+++.||++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~~~-~~~vdgiii~~~---~~~~~~~~~~-~~~~~~ipvV~~ 86 (267)
T cd06322 12 PFYIELANAMKEEAKKQKVNLIVSIANQDLNKQLSDVEDFI-TKKVDAIVLSPV---DSKGIRAAIA-KAKKAGIPVITV 86 (267)
T ss_pred HHHHHHHHHHHHHHHhcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC---ChhhhHHHHH-HHHHCCCCEEEE
Confidence 47778888899999999999988754 332 3333433 458998887422 1111122343 356679999888
Q ss_pred eC
Q 012338 254 WG 255 (465)
Q Consensus 254 ~~ 255 (465)
+.
T Consensus 87 ~~ 88 (267)
T cd06322 87 DI 88 (267)
T ss_pred cc
Confidence 64
No 92
>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=32.43 E-value=3.1e+02 Score=26.19 Aligned_cols=72 Identities=21% Similarity=0.103 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeC-ChHHH---HHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVG-KPETV---LVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G-~~~~v---L~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
|..+-++.+.+.+++.|..+.+... ++.+. +..+ ...+++.|+..-. +. .....+.+.+.+.||++..++.
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~i~~~-~~~~~dgiii~~~---~~-~~~~~~~~~~~~~~iPvV~~~~ 87 (289)
T cd01540 13 WFQTEWKFAKKAAKEKGFTVVKIDVPDGEKVLSAIDNL-GAQGAKGFVICVP---DV-KLGPAIVAKAKAYNMKVVAVDD 87 (289)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEccCCCHHHHHHHHHHH-HHcCCCEEEEccC---ch-hhhHHHHHHHHhCCCeEEEecC
Confidence 5566777888899999999888754 33322 2233 2467888887431 11 1112334456678999998864
Q ss_pred C
Q 012338 256 S 256 (465)
Q Consensus 256 ~ 256 (465)
.
T Consensus 88 ~ 88 (289)
T cd01540 88 R 88 (289)
T ss_pred C
Confidence 4
No 93
>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=32.03 E-value=2.7e+02 Score=27.29 Aligned_cols=73 Identities=11% Similarity=0.174 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHHHHhC-----CCcEEEEeCChHHHHHHHHHHhCCCEEEEe-ccCChhHHHHHHHHHHHHHhcCCe
Q 012338 176 YRASFLIESVSDLRKNLQAR-----GSDLVVRVGKPETVLVELAKAIGADAVYAH-REVSHDEVKSEEKIEAAMKDEGIE 249 (465)
Q Consensus 176 ~r~~FllesL~dL~~~L~~~-----Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n-~e~~p~e~~rd~~v~~~l~~~gI~ 249 (465)
.+..-+.+.|.+|++.+++. +..+++.+ +.+.-|++.+|.+.+... .+-+|.. +.-.++.+.+++.+|.
T Consensus 145 ~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H----~af~Y~~~~ygl~~~~~~~~~~eps~-~~l~~l~~~ik~~~v~ 219 (266)
T cd01018 145 ANLDALLAELDALDSEIRTILSKLKQRAFMVYH----PAWGYFARDYGLTQIPIEEEGKEPSP-ADLKRLIDLAKEKGVR 219 (266)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCeEEEEC----chhHHHHHHcCCEEEecCCCCCCCCH-HHHHHHHHHHHHcCCC
Confidence 34555666677777766543 22334333 468889999999877542 2223333 3345677788889998
Q ss_pred EEEe
Q 012338 250 VKYF 253 (465)
Q Consensus 250 v~~~ 253 (465)
+..+
T Consensus 220 ~if~ 223 (266)
T cd01018 220 VVFV 223 (266)
T ss_pred EEEE
Confidence 8754
No 94
>PLN02954 phosphoserine phosphatase
Probab=32.02 E-value=70 Score=29.98 Aligned_cols=38 Identities=26% Similarity=0.475 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCC
Q 012338 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~ 220 (465)
.++.++-+.|++.|+++.|..+.....+..+++.+|+.
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 44555555666666666666666666666666666654
No 95
>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=31.30 E-value=3.3e+02 Score=26.01 Aligned_cols=73 Identities=14% Similarity=0.067 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeC--ChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G--~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
-|..+-+..+.+.+++.|..+.+... ++. +.+..+. ..+++.|+..-. +....+..+ +.+.+.||++..+
T Consensus 12 ~f~~~~~~gi~~~~~~~G~~~~~~~~~~d~~~~~~~i~~~~-~~~vdgiii~~~---~~~~~~~~i-~~~~~~~iPvV~~ 86 (272)
T cd06313 12 TWCAQGKQAADEAGKLLGVDVTWYGGALDAVKQVAAIENMA-SQGWDFIAVDPL---GIGTLTEAV-QKAIARGIPVIDM 86 (272)
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC---ChHHhHHHH-HHHHHCCCcEEEe
Confidence 47778888899999999999988864 333 3334444 468888887421 111122233 4455679999988
Q ss_pred eCC
Q 012338 254 WGS 256 (465)
Q Consensus 254 ~~~ 256 (465)
+..
T Consensus 87 ~~~ 89 (272)
T cd06313 87 GTL 89 (272)
T ss_pred CCC
Confidence 653
No 96
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=31.00 E-value=1.5e+02 Score=26.41 Aligned_cols=48 Identities=19% Similarity=0.248 Sum_probs=35.4
Q ss_pred eCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeee
Q 012338 203 VGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYH 260 (465)
Q Consensus 203 ~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~ 260 (465)
.+++.+.|.+.+.+++-..|.+| |+.+++.+.+.||++.++.+...+-
T Consensus 83 ~~~aDe~i~~~a~~~~~~iVaTn----------D~eLk~rlr~~GIPvi~lr~r~~~~ 130 (136)
T COG1412 83 GRYADECLLEAALKHGRYIVATN----------DKELKRRLRENGIPVITLRQRKLLI 130 (136)
T ss_pred CCChHHHHHHHHHHcCCEEEEeC----------CHHHHHHHHHcCCCEEEEeCCeEEE
Confidence 45677899999999994444444 4567777878899999998665443
No 97
>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=30.92 E-value=4e+02 Score=24.81 Aligned_cols=69 Identities=16% Similarity=0.106 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeCC--hH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G~--~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
|..+-+..+++.++++|..+.+...+ +. +.+.++. ..+++.|+..-.... ..+.+.+++.|+++..++
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 55667788888999999999887642 33 3344443 358898887533211 124445566789998875
Q ss_pred C
Q 012338 255 G 255 (465)
Q Consensus 255 ~ 255 (465)
.
T Consensus 86 ~ 86 (259)
T cd01542 86 Q 86 (259)
T ss_pred c
Confidence 4
No 98
>TIGR03333 salvage_mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase. Members of this family are the methionine salvage enzyme MnxX, a member of the HAD-superfamily hydrolases, subfamily IB (see TIGR01488). Members are found in Bacillus subtilis and related species, paired with MtnW (TIGR03332). In most species that recycle methionine from methylthioadenosine, the single protein MtnC replaces the MtnW/MtnX pair. In B. subtilis, mtnX was first known as ykrX.
Probab=30.73 E-value=87 Score=29.45 Aligned_cols=37 Identities=16% Similarity=0.227 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHh
Q 012338 181 LIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAI 217 (465)
Q Consensus 181 llesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~ 217 (465)
+..++.++-+.|++.|+++.|..+.....+..+++.+
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 3345566666667777777777776666666666554
No 99
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=30.47 E-value=99 Score=25.90 Aligned_cols=41 Identities=32% Similarity=0.519 Sum_probs=30.3
Q ss_pred HHHHHHHHHhCCCcEEEE-eCChHHHHHHHHHHhC--CCEEEEecc
Q 012338 185 VSDLRKNLQARGSDLVVR-VGKPETVLVELAKAIG--ADAVYAHRE 227 (465)
Q Consensus 185 L~dL~~~L~~~Gi~L~v~-~G~~~~vL~~L~~~~~--a~~V~~n~e 227 (465)
|.....+|++.|++|+++ .|++.. +.++++..+ .. ||++.+
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 567788899999999776 466655 888996543 44 887653
No 100
>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=30.37 E-value=1.1e+02 Score=28.88 Aligned_cols=29 Identities=21% Similarity=0.400 Sum_probs=18.4
Q ss_pred HHHHHHhCCCcEEEEeCChHHHHHHHHHH
Q 012338 188 LRKNLQARGSDLVVRVGKPETVLVELAKA 216 (465)
Q Consensus 188 L~~~L~~~Gi~L~v~~G~~~~vL~~L~~~ 216 (465)
|++.|++.|.++.|..+.+...+..+++.
T Consensus 103 L~~~l~~~G~~v~IvSas~~~~~~~ia~~ 131 (210)
T TIGR01545 103 LRQYLESSDADIWLITGSPQPLVEAVYFD 131 (210)
T ss_pred HHHHHHhCCCEEEEEcCCcHHHHHHHHHh
Confidence 33455556777777777766666666655
No 101
>PRK11175 universal stress protein UspE; Provisional
Probab=30.03 E-value=5.3e+02 Score=25.16 Aligned_cols=71 Identities=14% Similarity=0.052 Sum_probs=44.5
Q ss_pred HHHHHHHHHhCCCcEE--EE-eCChHHHHHHHHHHhCCCEEEEeccCChh-HHHH-HHHHHHHHHhcCCeEEEeeC
Q 012338 185 VSDLRKNLQARGSDLV--VR-VGKPETVLVELAKAIGADAVYAHREVSHD-EVKS-EEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 185 L~dL~~~L~~~Gi~L~--v~-~G~~~~vL~~L~~~~~a~~V~~n~e~~p~-e~~r-d~~v~~~l~~~gI~v~~~~~ 255 (465)
|++..+.++..|++.. +. .|++.+.|.+.+++.+++-|++-..-... .... --...+.+....|++..+..
T Consensus 71 l~~~~~~~~~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~~ 146 (305)
T PRK11175 71 IREQAKPYLDAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVKD 146 (305)
T ss_pred HHHHHHHHhhcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEecc
Confidence 4444445556677664 33 58999999999999999999987543211 1111 11223455666788876654
No 102
>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=29.98 E-value=4.3e+02 Score=25.88 Aligned_cols=74 Identities=15% Similarity=0.118 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHHHHhCCCcEEEEeC--ChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEE
Q 012338 178 ASFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (465)
Q Consensus 178 ~~FllesL~dL~~~L~~~Gi~L~v~~G--~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~ 252 (465)
..|+.+....+++.+++.|..+++... +.. +.+.. +...+++.|+..... ....+..+ +.+++.||+|..
T Consensus 10 ~~~~~~~~~~i~~~a~~~g~~v~~~~~~~~~~~q~~~i~~-l~~~~vDgIIi~~~~---~~~~~~~l-~~~~~~~iPvV~ 84 (302)
T TIGR02634 10 LERWQKDRDIFVAAAESLGAKVFVQSANGNEAKQISQIEN-LIARGVDVLVIIPQN---GQVLSNAV-QEAKDEGIKVVA 84 (302)
T ss_pred hhhHHHHHHHHHHHHHhcCCEEEEEeCCCCHHHHHHHHHH-HHHcCCCEEEEeCCC---hhHHHHHH-HHHHHCCCeEEE
Confidence 458888889999999999999988754 232 33333 344588888875322 12122333 445678999998
Q ss_pred eeCC
Q 012338 253 FWGS 256 (465)
Q Consensus 253 ~~~~ 256 (465)
++..
T Consensus 85 ~d~~ 88 (302)
T TIGR02634 85 YDRL 88 (302)
T ss_pred ecCc
Confidence 8653
No 103
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=29.79 E-value=4.4e+02 Score=24.70 Aligned_cols=72 Identities=17% Similarity=0.109 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCC
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~ 256 (465)
.|..+-+..+.+.+++.|..+.+......+...+.....+++.|+....- ... ..+ ..+.+.|+++..++..
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~l~~~~vdgii~~~~~-~~~----~~~-~~~~~~~ipvV~~~~~ 83 (261)
T cd06272 12 VALTELVTGINQAISKNGYNMNVSITPSLAEAEDLFKENRFDGVIIFGES-ASD----VEY-LYKIKLAIPVVSYGVD 83 (261)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEEecccHHHHHHHHHHcCcCEEEEeCCC-CCh----HHH-HHHHHcCCCEEEEccc
Confidence 46677778888888999999888754323333445556689988765321 111 122 3345679999887653
No 104
>PRK11590 hypothetical protein; Provisional
Probab=28.92 E-value=1.3e+02 Score=28.29 Aligned_cols=39 Identities=15% Similarity=0.212 Sum_probs=26.2
Q ss_pred HHHHHHhCCCcEEEEeCChHHHHHHHHHHhC---CCEEEEec
Q 012338 188 LRKNLQARGSDLVVRVGKPETVLVELAKAIG---ADAVYAHR 226 (465)
Q Consensus 188 L~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~---a~~V~~n~ 226 (465)
|++.|++.|..+.|..+.+...+..+++..+ +.+|++++
T Consensus 104 L~~~l~~~G~~l~IvSas~~~~~~~il~~l~~~~~~~~i~t~ 145 (211)
T PRK11590 104 LTTYLLSSDADVWLITGSPQPLVEQVYFDTPWLPRVNLIASQ 145 (211)
T ss_pred HHHHHHhCCCEEEEEeCCcHHHHHHHHHHccccccCceEEEE
Confidence 3355666777888888777777777777766 35565554
No 105
>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=28.32 E-value=4.2e+02 Score=24.84 Aligned_cols=70 Identities=19% Similarity=0.165 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeCC--hH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVGK--PE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G~--~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
|..+-+..+++.+++.|..+.+...+ .. +.+..+ .+.+++.|++.... ... . ..+.+.+.|+++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l-~~~~~dgiii~~~~-~~~----~-~~~~~~~~~ipvV~i~ 85 (270)
T cd06296 13 WASEVLRGVEEAAAAAGYDVVLSESGRRTSPERQWVERL-SARRTDGVILVTPE-LTS----A-QRAALRRTGIPFVVVD 85 (270)
T ss_pred cHHHHHHHHHHHHHHcCCeEEEecCCCchHHHHHHHHHH-HHcCCCEEEEecCC-CCh----H-HHHHHhcCCCCEEEEe
Confidence 55566677777888899999887643 22 223333 34588888764321 121 1 2344566799999886
Q ss_pred CC
Q 012338 255 GS 256 (465)
Q Consensus 255 ~~ 256 (465)
..
T Consensus 86 ~~ 87 (270)
T cd06296 86 PA 87 (270)
T ss_pred cc
Confidence 53
No 106
>TIGR00253 RNA_bind_YhbY putative RNA-binding protein, YhbY family. A combination of crystal structure, molecular modeling, and bioinformatic data together suggest that members of this family, including YhbY of E. coli, are RNA binding proteins.
Probab=28.19 E-value=3.3e+02 Score=22.71 Aligned_cols=67 Identities=28% Similarity=0.329 Sum_probs=38.7
Q ss_pred HHHHHhCCCcE--EEEeCC---hHHHHHHHHHHh---CCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCCee
Q 012338 189 RKNLQARGSDL--VVRVGK---PETVLVELAKAI---GADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTL 258 (465)
Q Consensus 189 ~~~L~~~Gi~L--~v~~G~---~~~vL~~L~~~~---~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L 258 (465)
++.|+.++..| +|..|. ...++.++-+.. ..-.|-+.... ...+.+...+.+++.|..+...-|+++
T Consensus 6 r~~Lr~~ah~l~p~v~IGK~Glt~~vi~ei~~aL~~hELIKVkvl~~~---~~~~~e~a~~i~~~~~a~~Vq~iG~~~ 80 (95)
T TIGR00253 6 KRHLRGKAHHLKPVVLVGKNGLTEGVIKEIEQALEHRELIKVKVATED---REDKTLIAEALVKETGACNVQVIGKTI 80 (95)
T ss_pred HHHHHHHhCCCCCeEEECCCCCCHHHHHHHHHHHHhCCcEEEEecCCC---hhHHHHHHHHHHHHHCCEEEEEEccEE
Confidence 34555555444 555543 445555555544 44444444332 223455666777778999999989863
No 107
>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=28.02 E-value=4e+02 Score=25.85 Aligned_cols=70 Identities=16% Similarity=0.195 Sum_probs=42.1
Q ss_pred HHHHHHHHhCCCcEEEEeCCh-HHHHHHHHHHhCCC--EEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeCCe
Q 012338 186 SDLRKNLQARGSDLVVRVGKP-ETVLVELAKAIGAD--AVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGST 257 (465)
Q Consensus 186 ~dL~~~L~~~Gi~L~v~~G~~-~~vL~~L~~~~~a~--~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~ 257 (465)
+.|++-|++.+.-++.+.|-. ..++..++.+.|.. .|+++....+. +-.+.+++.+++.||+++.++.+.
T Consensus 3 ~~l~~~l~~~~~vlVa~SGGvDSs~ll~la~~~g~~v~av~~~~~~~~~--~e~~~a~~~a~~lgi~~~ii~~~~ 75 (252)
T TIGR00268 3 ENLRNFLKEFKKVLIAYSGGVDSSLLAAVCSDAGTEVLAITVVSPSISP--RELEDAIIIAKEIGVNHEFVKIDK 75 (252)
T ss_pred HHHHHHHHhcCCEEEEecCcHHHHHHHHHHHHhCCCEEEEEecCCCCCH--HHHHHHHHHHHHcCCCEEEEEcHH
Confidence 567777887776666677643 34566677666544 44444322222 122456777888899988776543
No 108
>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=28.00 E-value=3e+02 Score=32.12 Aligned_cols=39 Identities=18% Similarity=0.343 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCC
Q 012338 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (465)
Q Consensus 182 lesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~ 220 (465)
.+...+.-+.|++.|+++.++.||....-..++++.|+.
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 455666777788899999999999999999999999986
No 109
>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=27.65 E-value=3.8e+02 Score=25.19 Aligned_cols=72 Identities=18% Similarity=0.103 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeC--ChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G--~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
|..+-+..+.+.++++|..+.+... ++. +.+..+.. .+++.|+..-. .. ...+. +.+.+++.||++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~l~~~~~-~~vdgii~~~~-~~--~~~~~-~i~~~~~~~ipvV~~~ 87 (273)
T cd06305 13 FDQAYLAGTKAEAEALGGDLRVYDAGGDDAKQADQIDQAIA-QKVDAIIIQHG-RA--EVLKP-WVKRALDAGIPVVAFD 87 (273)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHH-cCCCEEEEecC-Ch--hhhHH-HHHHHHHcCCCEEEec
Confidence 6666777888899999999988753 343 33344444 48999888532 11 11122 2334567899998886
Q ss_pred CC
Q 012338 255 GS 256 (465)
Q Consensus 255 ~~ 256 (465)
..
T Consensus 88 ~~ 89 (273)
T cd06305 88 VD 89 (273)
T ss_pred CC
Confidence 54
No 110
>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=27.56 E-value=4.8e+02 Score=24.42 Aligned_cols=69 Identities=14% Similarity=0.230 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeC--ChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G--~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
|..+-+..+.+.+++.|..+++... ++. +.+..+.. .+++.|++..... . ..+.+.+++.||++..++
T Consensus 13 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~-~~vdgiii~~~~~-~-----~~~~~~l~~~~iPvv~~~ 85 (268)
T cd06273 13 IFARVIQAFQETLAAHGYTLLVASSGYDLDREYAQARKLLE-RGVDGLALIGLDH-S-----PALLDLLARRGVPYVATW 85 (268)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEecCCCCHHHHHHHHHHHHh-cCCCEEEEeCCCC-C-----HHHHHHHHhCCCCEEEEc
Confidence 4556667788899999999988753 233 33444444 4788887643221 1 122345667899998875
Q ss_pred C
Q 012338 255 G 255 (465)
Q Consensus 255 ~ 255 (465)
.
T Consensus 86 ~ 86 (268)
T cd06273 86 N 86 (268)
T ss_pred C
Confidence 4
No 111
>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=27.44 E-value=4.7e+02 Score=23.96 Aligned_cols=71 Identities=15% Similarity=0.217 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeCC--h---HHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVGK--P---ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G~--~---~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
|..+-..-+++.++++|+.+.+.... + .+.+.++++. +++.|++..... ... . ..+.+.+.|+++..++
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 55566677777788899999887542 2 2444555544 888888754221 111 1 3455667899998775
Q ss_pred CC
Q 012338 255 GS 256 (465)
Q Consensus 255 ~~ 256 (465)
..
T Consensus 87 ~~ 88 (264)
T cd01537 87 RD 88 (264)
T ss_pred cC
Confidence 54
No 112
>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=27.42 E-value=2.5e+02 Score=33.05 Aligned_cols=39 Identities=15% Similarity=0.136 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCC
Q 012338 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (465)
Q Consensus 182 lesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~ 220 (465)
.+...+.-+.|++.|++++++.||....-..++++.|+.
T Consensus 581 r~~~~~aI~~l~~aGI~v~miTGD~~~tA~~iA~~~GI~ 619 (941)
T TIGR01517 581 RPGVREAVQECQRAGITVRMVTGDNIDTAKAIARNCGIL 619 (941)
T ss_pred chhHHHHHHHHHHCCCEEEEECCCChHHHHHHHHHcCCC
Confidence 345566667788889999999999999999999999985
No 113
>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=27.33 E-value=5e+02 Score=24.27 Aligned_cols=71 Identities=14% Similarity=0.258 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeC--ChHH--HHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVG--KPET--VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G--~~~~--vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
|..+-+..+.+.++++|..+.+... ++.. .+.+.+...+++.|+..-. .... ..+ +.+.+.|+++..++.
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~-~~~~----~~~-~~l~~~~ipvV~~~~ 86 (265)
T cd06299 13 YFASLATAIQDAASAAGYSTIIGNSDENPETENRYLDNLLSQRVDGIIVVPH-EQSA----EQL-EDLLKRGIPVVFVDR 86 (265)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHhcCCCEEEEcCC-CCCh----HHH-HHHHhCCCCEEEEec
Confidence 4455566677778889999888753 2321 2223344568998887532 1111 123 445567999988765
Q ss_pred C
Q 012338 256 S 256 (465)
Q Consensus 256 ~ 256 (465)
.
T Consensus 87 ~ 87 (265)
T cd06299 87 E 87 (265)
T ss_pred c
Confidence 3
No 114
>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=26.81 E-value=3.4e+02 Score=25.37 Aligned_cols=70 Identities=24% Similarity=0.287 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeCC----hHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVGK----PETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G~----~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
|..+-+..+.+.+++.|+.+.+...+ ..+.+.+++.+.+++.|+....... +..+ +.+.+.++++..++.
T Consensus 17 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~-----~~~~-~~~~~~~ipvV~~~~ 90 (268)
T cd06271 17 FFAEFLSGLSEALAEHGYDLVLLPVDPDEDPLEVYRRLVESGLVDGVIISRTRPD-----DPRV-ALLLERGFPFVTHGR 90 (268)
T ss_pred cHHHHHHHHHHHHHHCCceEEEecCCCcHHHHHHHHHHHHcCCCCEEEEecCCCC-----ChHH-HHHHhcCCCEEEECC
Confidence 44555667778888899999887643 2345566666667888887543211 1122 345567999988754
No 115
>PRK10826 2-deoxyglucose-6-phosphatase; Provisional
Probab=26.49 E-value=81 Score=29.64 Aligned_cols=33 Identities=12% Similarity=0.145 Sum_probs=14.3
Q ss_pred HHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhC
Q 012338 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKAIG 218 (465)
Q Consensus 186 ~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~ 218 (465)
.++=+.|++.|+++.+..+.....+..+++..+
T Consensus 98 ~~~l~~l~~~g~~~~i~S~~~~~~~~~~l~~~~ 130 (222)
T PRK10826 98 REALALCKAQGLKIGLASASPLHMLEAVLTMFD 130 (222)
T ss_pred HHHHHHHHHCCCeEEEEeCCcHHHHHHHHHhCc
Confidence 333344444455554444444443444444333
No 116
>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=25.78 E-value=73 Score=30.07 Aligned_cols=42 Identities=17% Similarity=0.196 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEe
Q 012338 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n 225 (465)
.+..++=+.|++.| ++.|..|.....+..++++.|+..+++|
T Consensus 71 pga~ell~~lk~~~-~~~IVS~~~~~~~~~il~~lgi~~~~an 112 (203)
T TIGR02137 71 EGAVEFVDWLRERF-QVVILSDTFYEFSQPLMRQLGFPTLLCH 112 (203)
T ss_pred ccHHHHHHHHHhCC-eEEEEeCChHHHHHHHHHHcCCchhhce
Confidence 34455566666654 7888888777777778888888777765
No 117
>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=25.75 E-value=1.7e+02 Score=24.20 Aligned_cols=46 Identities=11% Similarity=0.203 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCC-EEEEe
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD-AVYAH 225 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~-~V~~n 225 (465)
-.+..|.++.+++++.|+.++.+.-+..+.+.+++++++.. .++++
T Consensus 43 ~~l~~l~~~~~~~~~~~~~vi~is~d~~~~~~~~~~~~~~~~~~~~D 89 (124)
T PF00578_consen 43 AELPELNELYKKYKDKGVQVIGISTDDPEEIKQFLEEYGLPFPVLSD 89 (124)
T ss_dssp HHHHHHHHHHHHHHTTTEEEEEEESSSHHHHHHHHHHHTCSSEEEEE
T ss_pred cchhHHHHHhhhhccceEEeeecccccccchhhhhhhhccccccccC
Confidence 34456888899999999999999888888899999998865 45554
No 118
>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=25.71 E-value=4e+02 Score=25.46 Aligned_cols=69 Identities=20% Similarity=0.417 Sum_probs=43.9
Q ss_pred HHHhCCCcEEEEeCChHHHHHHHHHHhCCC--E------EEEecc--C---ChhHHHHHHHHHHHHHhcCCeEEEeeCCe
Q 012338 191 NLQARGSDLVVRVGKPETVLVELAKAIGAD--A------VYAHRE--V---SHDEVKSEEKIEAAMKDEGIEVKYFWGST 257 (465)
Q Consensus 191 ~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~--~------V~~n~e--~---~p~e~~rd~~v~~~l~~~gI~v~~~~~~~ 257 (465)
.|++.|+.+.+..|.+...+..++++.+.. . ++++.+ + .+-....-+.+.+.+++.++.+..+.+..
T Consensus 27 ~l~~~G~~~~iaTGR~~~~~~~~~~~~~~~~~~I~~NGa~i~~~~~~~i~~~~i~~~~~~~i~~~~~~~~~~~~~~~~~~ 106 (256)
T TIGR00099 27 KLREKGIKVVLATGRPYKEVKNILKELGLDTPFITANGAAVIDDQGEILYKKPLDLDLVEEILNFLKKHGLDVILYGDDS 106 (256)
T ss_pred HHHHCCCeEEEEeCCCHHHHHHHHHHcCCCCCEEEcCCcEEECCCCCEEeecCCCHHHHHHHHHHHHHcCcEEEEEeCCe
Confidence 456679999999999988888888887765 1 222211 0 11112334556677778888776665554
Q ss_pred ee
Q 012338 258 LY 259 (465)
Q Consensus 258 L~ 259 (465)
.+
T Consensus 107 ~~ 108 (256)
T TIGR00099 107 IY 108 (256)
T ss_pred EE
Confidence 44
No 119
>PRK02090 phosphoadenosine phosphosulfate reductase; Provisional
Probab=25.70 E-value=3.1e+02 Score=26.48 Aligned_cols=70 Identities=16% Similarity=0.222 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHhCCCcEEEE--eCChHHHHHHHHHHh--CCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 183 ESVSDLRKNLQARGSDLVVR--VGKPETVLVELAKAI--GADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~--~G~~~~vL~~L~~~~--~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
++++-++..+++.|.++.|. -|....++..|+.+. .+..||++..+...+. .+.+.+..++.|++++.+.
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 35556677777777776664 266667888888876 4677888777654443 2344555556688887653
No 120
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=25.66 E-value=5.5e+02 Score=25.24 Aligned_cols=45 Identities=20% Similarity=0.110 Sum_probs=37.2
Q ss_pred HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 208 TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 208 ~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
+.+.+++++.+++.|+-. ..|+..+.-+.+.+.|++.||++..|.
T Consensus 55 ~~l~~~l~~~~i~~VIDA--tHPfA~~is~~a~~a~~~~~ipylR~e 99 (256)
T TIGR00715 55 QELREFLKRHSIDILVDA--THPFAAQITTNATAVCKELGIPYVRFE 99 (256)
T ss_pred HHHHHHHHhcCCCEEEEc--CCHHHHHHHHHHHHHHHHhCCcEEEEE
Confidence 458889999999877643 457888888999999999999998885
No 121
>COG1778 Low specificity phosphatase (HAD superfamily) [General function prediction only]
Probab=25.56 E-value=2.5e+02 Score=25.87 Aligned_cols=55 Identities=16% Similarity=0.299 Sum_probs=41.4
Q ss_pred HHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEE
Q 012338 191 NLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 191 ~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
.|.+.|+++-|+.|....++..=+++.|+++||--.. . -.....+.+++.++...
T Consensus 46 ~l~~~Gi~vAIITGr~s~ive~Ra~~LGI~~~~qG~~----d--K~~a~~~L~~~~~l~~e 100 (170)
T COG1778 46 LLLKSGIKVAIITGRDSPIVEKRAKDLGIKHLYQGIS----D--KLAAFEELLKKLNLDPE 100 (170)
T ss_pred HHHHcCCeEEEEeCCCCHHHHHHHHHcCCceeeechH----h--HHHHHHHHHHHhCCCHH
Confidence 4567799999999998889999999999999987432 1 23456666777676543
No 122
>PF05889 SLA_LP_auto_ag: Soluble liver antigen/liver pancreas antigen (SLA/LP autoantigen); InterPro: IPR008829 This family consists of several eukaryotic and archaeal proteins which are related to the Homo sapiens soluble liver antigen/liver pancreas antigen (SLA/LP autoantigen). Autoantibodies are a hallmark of autoimmune hepatitis, but most are not disease specific. Autoantibodies to soluble liver antigen (SLA) and to liver and pancreas antigen (LP) have been described as disease specific, occurring in about 30% of all patients with autoimmune hepatitis []. The function of SLA/LP is unknown, however, it has been suggested that the protein may function as a serine hydroxymethyltransferase and may be an important enzyme in the thus far poorly understood selenocysteine pathway []. The archaeal sequences Q8TXK0 from SWISSPROT and Q8TYR3 from SWISSPROT are annotated as being pyridoxal phosphate-dependent enzymes.; GO: 0016740 transferase activity; PDB: 2E7J_B 2E7I_B 2Z67_C 3HL2_D 3BC8_A 3BCA_A 3BCB_A.
Probab=25.45 E-value=7.3e+02 Score=26.17 Aligned_cols=116 Identities=11% Similarity=0.167 Sum_probs=65.5
Q ss_pred eEEEEEeCCCCccccHHHHHHhhcCCceeeEEE-eCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCc--EEE
Q 012338 125 ASIVWFRNDLRVHDNESLNTANNESVSVLPVYC-FDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSD--LVV 201 (465)
Q Consensus 125 ~~LvWFRrDLRl~DN~AL~~A~~~~~~vl~vyi-~dp~~~~~~~~g~~~~~~~r~~FllesL~dL~~~L~~~Gi~--L~v 201 (465)
..++|-|-| -+..+.++...|..++.|-. .+++... .+ +..+++.+++.|-. |.|
T Consensus 102 ~~Viw~rid----qkSc~kai~~AGl~~~vV~~~~~~d~l~---------td---------~~~ie~~i~~~G~~~iLcv 159 (389)
T PF05889_consen 102 KYVIWPRID----QKSCFKAIERAGLEPVVVENVLEGDELI---------TD---------LEAIEAKIEELGADNILCV 159 (389)
T ss_dssp -EEEEEEEE----THHHHHHHHHTT-EEEEE-EEEETTEEE---------EH---------HHHHHHHHHHHCGGGEEEE
T ss_pred ceEEEeecc----ccchHHHHHhcCCeEEEeeccCCCCeee---------cc---------HHHHHHHHHHhCCCCeEEE
Confidence 568999877 46788777777754444432 2333321 11 23444444555544 333
Q ss_pred Ee---------CChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCe--EEEeeCCeeeeCCC
Q 012338 202 RV---------GKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIE--VKYFWGSTLYHLDD 263 (465)
Q Consensus 202 ~~---------G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~--v~~~~~~~L~~p~~ 263 (465)
+. -|..+.+.++|+++++-+|+ |-.|+....+--..|.+.++...++ +...+-+.+++.+.
T Consensus 160 ltttscfapr~~D~i~~IakiC~~~~IPhlv-NnAYgvQ~~~~~~~i~~a~~~GRvda~vqS~dkNF~VPvGg 231 (389)
T PF05889_consen 160 LTTTSCFAPRLPDDIEEIAKICKEYDIPHLV-NNAYGVQSSKCMHLIQQAWRVGRVDAFVQSTDKNFMVPVGG 231 (389)
T ss_dssp EEESSTTTTB----HHHHHHHHHHHT--EEE-EGTTTTT-HHHHHHHHHHHHHSTCSEEEEEHHHHHCEESSH
T ss_pred EEecCccCCCCCccHHHHHHHHHHcCCceEE-ccchhhhHHHHHHHHHHHHhcCCcceeeeecCCCEEecCCC
Confidence 32 24456889999999999885 5568876666667777777654444 44555567777653
No 123
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=25.18 E-value=2.7e+02 Score=31.81 Aligned_cols=48 Identities=19% Similarity=0.225 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHH
Q 012338 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEV 233 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~ 233 (465)
....+.-+.|+++|+++.++.||.......++++.|+. .++ +..|.++
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 44456666788899999999999999999999999997 333 3445544
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=25.10 E-value=5.4e+02 Score=23.62 Aligned_cols=70 Identities=21% Similarity=0.376 Sum_probs=47.2
Q ss_pred HHHhCCCcEEEEeCChHHHHHHHHHHhCCC-EEEE-eccC-----------ChhHHHHHHHHHHHHHhcCCeEEEeeCCe
Q 012338 191 NLQARGSDLVVRVGKPETVLVELAKAIGAD-AVYA-HREV-----------SHDEVKSEEKIEAAMKDEGIEVKYFWGST 257 (465)
Q Consensus 191 ~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~-~V~~-n~e~-----------~p~e~~rd~~v~~~l~~~gI~v~~~~~~~ 257 (465)
.|++.|+.+.+..|.+...+..+..+++.. -+++ |-.+ .+-....-..+.+.+.+.++.+..+....
T Consensus 26 ~l~~~g~~~~i~TGR~~~~~~~~~~~~~~~~~~I~~nGa~i~~~~~~~l~~~~i~~~~~~~i~~~~~~~~~~~~~~~~~~ 105 (254)
T PF08282_consen 26 ELQEKGIKLVIATGRSYSSIKRLLKELGIDDYFICSNGALIDDPKGKILYEKPIDSDDVKKILKYLKEHNISFFFYTDDD 105 (254)
T ss_dssp HHHHTTCEEEEECSSTHHHHHHHHHHTTHCSEEEEGGGTEEEETTTEEEEEESB-HHHHHHHHHHHHHTTCEEEEEESSE
T ss_pred hhcccceEEEEEccCcccccccccccccchhhhcccccceeeecccccchhhheeccchhheeehhhhccccccccccee
Confidence 356689999999999998899999988765 2211 1110 11223445677778888888888877665
Q ss_pred eee
Q 012338 258 LYH 260 (465)
Q Consensus 258 L~~ 260 (465)
++-
T Consensus 106 ~~~ 108 (254)
T PF08282_consen 106 IYI 108 (254)
T ss_dssp EEE
T ss_pred eec
Confidence 553
No 125
>PLN02770 haloacid dehalogenase-like hydrolase family protein
Probab=25.10 E-value=2.3e+02 Score=27.22 Aligned_cols=34 Identities=18% Similarity=0.263 Sum_probs=17.8
Q ss_pred HHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhC
Q 012338 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIG 218 (465)
Q Consensus 185 L~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~ 218 (465)
+.++=+.|+++|+++.|..+.....+...++..+
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 4444445555555555555555555555555444
No 126
>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=25.03 E-value=5.5e+02 Score=24.17 Aligned_cols=72 Identities=15% Similarity=0.201 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeC--ChH--HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVG--KPE--TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G--~~~--~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
|+.+-+..+.+.++++|..+++... ++. ....+.+.+.+++.|+..-..... ..+.+.+++.+|++..++.
T Consensus 13 ~~~~~~~~i~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~-----~~~~~~~~~~~ipvV~i~~ 87 (269)
T cd06281 13 LLAQLFSGAEDRLRAAGYSLLIANSLNDPERELEILRSFEQRRMDGIIIAPGDERD-----PELVDALASLDLPIVLLDR 87 (269)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCc-----HHHHHHHHhCCCCEEEEec
Confidence 5555566677888889999887753 232 222233455688888875322111 1234456667999988864
Q ss_pred C
Q 012338 256 S 256 (465)
Q Consensus 256 ~ 256 (465)
.
T Consensus 88 ~ 88 (269)
T cd06281 88 D 88 (269)
T ss_pred c
Confidence 3
No 127
>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=24.95 E-value=37 Score=30.84 Aligned_cols=75 Identities=19% Similarity=0.273 Sum_probs=50.3
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEe--------CChHHHHHHHHH-HhCCCEEEEeccCChhHHH--HHHHHHHHHHhcCC
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRV--------GKPETVLVELAK-AIGADAVYAHREVSHDEVK--SEEKIEAAMKDEGI 248 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~--------G~~~~vL~~L~~-~~~a~~V~~n~e~~p~e~~--rd~~v~~~l~~~gI 248 (465)
..+-++.+=.+.|+++|++.++.. -++++-+..++. ..++..|++-.++.....+ --+.+++.+++.|+
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 346677777888899999976653 245566666555 8999999999988544322 13567888888899
Q ss_pred eEEEee
Q 012338 249 EVKYFW 254 (465)
Q Consensus 249 ~v~~~~ 254 (465)
.+..++
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 128
>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=24.82 E-value=5.3e+02 Score=24.02 Aligned_cols=69 Identities=13% Similarity=0.140 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeC--ChH--HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVG--KPE--TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G--~~~--~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
|+.+-+..+++.+++.|..+++... ++. ..+.+.+...+++.|+......... +.+.+ ..||++..+.+
T Consensus 13 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~------~~~~~-~~~ipvv~~~~ 85 (267)
T cd06284 13 FFSEILKGIEDEAREAGYGVLLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT------ALTAL-AKLPPIVQACE 85 (267)
T ss_pred cHHHHHHHHHHHHHHcCCeEEEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH------HHHHH-hcCCCEEEEec
Confidence 5566667788888999999987763 232 2333445556899888754322221 22233 34899987753
No 129
>PF08765 Mor: Mor transcription activator family; InterPro: IPR014875 Mor (Middle operon regulator) is a sequence specific DNA binding protein. It mediates transcription activation through its interactions with the C-terminal domains of the alpha and sigma subunits of bacterial RNA polymerase. The N-terminal region of Mor is the dimerisation region, and the C-terminal contains a helix-turn-helix motif which binds DNA []. ; PDB: 1RR7_A.
Probab=24.52 E-value=2.6e+02 Score=23.47 Aligned_cols=66 Identities=17% Similarity=0.180 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHHHhCC-CcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHH
Q 012338 178 ASFLIESVSDLRKNLQARG-SDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAM 243 (465)
Q Consensus 178 ~~FllesL~dL~~~L~~~G-i~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l 243 (465)
..+|-+-...+...|++.| +.=.+..--..++...|++.+|-..||.-.........|+..|.+..
T Consensus 4 ~e~l~~l~~~i~~~l~~~g~i~~~~a~~ig~~~~~~L~~~~gG~~iyiP~~~~~~~~~R~~~I~~~f 70 (108)
T PF08765_consen 4 PELLSELADVIAAELERLGEIDAELAEIIGEEVALKLCRYFGGQQIYIPKCDRLLRALRNREIRREF 70 (108)
T ss_dssp HHHHHHHHHHHHHHHHHTS-S-----TTSHHHHHHHHHHHH-SS------SHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHHHHHHHCCEeEEeeCccHHHHHHHHHHHHHHh
Confidence 4556666666788888888 65444444566888999999999999886655444556676666654
No 130
>PRK13223 phosphoglycolate phosphatase; Provisional
Probab=24.39 E-value=1.5e+02 Score=29.27 Aligned_cols=36 Identities=25% Similarity=0.385 Sum_probs=19.1
Q ss_pred HHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCC
Q 012338 184 SVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGA 219 (465)
Q Consensus 184 sL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a 219 (465)
++.++-+.|++.|+++.|..+.+...+..+++..++
T Consensus 105 g~~e~L~~Lk~~g~~l~ivTn~~~~~~~~~l~~~~i 140 (272)
T PRK13223 105 GVRDTLKWLKKQGVEMALITNKPERFVAPLLDQMKI 140 (272)
T ss_pred CHHHHHHHHHHCCCeEEEEECCcHHHHHHHHHHcCc
Confidence 334444455555666666666555555555554443
No 131
>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=24.28 E-value=1.7e+02 Score=25.38 Aligned_cols=8 Identities=25% Similarity=0.285 Sum_probs=3.5
Q ss_pred hHHHHHHH
Q 012338 206 PETVLVEL 213 (465)
Q Consensus 206 ~~~vL~~L 213 (465)
..+.|.+|
T Consensus 82 ~~~~L~~l 89 (176)
T PF13419_consen 82 VRELLERL 89 (176)
T ss_dssp HHHHHHHH
T ss_pred hhhhhhhc
Confidence 34444444
No 132
>PLN02347 GMP synthetase
Probab=24.21 E-value=4e+02 Score=29.28 Aligned_cols=77 Identities=17% Similarity=0.189 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeC-ChHHHHHHHHHH-h--CCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVG-KPETVLVELAKA-I--GADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G-~~~~vL~~L~~~-~--~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
.|+.+.++++++.+.+.|.-++-+.| -...++..++.+ . ++..|+.+....+.. +.++.++..+++.||+++.++
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 46677888888887765544555565 334566777776 4 456677775554332 233444556677899998776
Q ss_pred CC
Q 012338 255 GS 256 (465)
Q Consensus 255 ~~ 256 (465)
-.
T Consensus 292 ~~ 293 (536)
T PLN02347 292 AS 293 (536)
T ss_pred Cc
Confidence 55
No 133
>COG5018 KapD Inhibitor of the KinA pathway to sporulation, predicted exonuclease [General function prediction only]
Probab=24.20 E-value=71 Score=29.71 Aligned_cols=28 Identities=21% Similarity=0.382 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHhCCccccccccccccccccc
Q 012338 430 FELLWRDFFRFITKKYSSAKKVVEAVPATACTGA 463 (465)
Q Consensus 430 ~EL~WREF~~~i~~~~P~~~~~~~~~p~~~~~~~ 463 (465)
+-..|-||++++..|-|+. .|+|||-|-
T Consensus 79 fs~v~E~f~r~L~~h~Pr~------~~~wa~wG~ 106 (210)
T COG5018 79 FSMVFEDFIRKLNEHDPRK------NSTWATWGN 106 (210)
T ss_pred HHHHHHHHHHHHHhcCccc------CCccccccc
Confidence 4678999999999999887 349999874
No 134
>PRK10530 pyridoxal phosphate (PLP) phosphatase; Provisional
Probab=23.96 E-value=5e+02 Score=24.81 Aligned_cols=68 Identities=10% Similarity=0.221 Sum_probs=42.1
Q ss_pred HHHhCCCcEEEEeCChHHHHHHHHHHhCCC--------EEEEe---ccC---ChhHHHHHHHHHHHHHhcCCeEEEeeCC
Q 012338 191 NLQARGSDLVVRVGKPETVLVELAKAIGAD--------AVYAH---REV---SHDEVKSEEKIEAAMKDEGIEVKYFWGS 256 (465)
Q Consensus 191 ~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~--------~V~~n---~e~---~p~e~~rd~~v~~~l~~~gI~v~~~~~~ 256 (465)
.|++.|+.+.+..|.+...+..++++.+.. +++++ .++ .+-..+.-..+.+.+++.++.+..+.+.
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 366789999999999888788888887654 12221 111 1112233445667777778876655544
Q ss_pred ee
Q 012338 257 TL 258 (465)
Q Consensus 257 ~L 258 (465)
..
T Consensus 111 ~~ 112 (272)
T PRK10530 111 AM 112 (272)
T ss_pred ce
Confidence 43
No 135
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=23.89 E-value=5.4e+02 Score=24.03 Aligned_cols=72 Identities=15% Similarity=0.200 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEE-eC--ChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 180 FLIESVSDLRKNLQARGSDLVVR-VG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~-~G--~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
|..+-.+-+++.++++|..+.+. .+ ++. +.+.+++. .+++.|+..--- +... ...+ +.+++.||+|..+
T Consensus 12 ~~~~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~-~~~d~Iiv~~~~-~~~~--~~~l-~~~~~~gIpvv~~ 86 (257)
T PF13407_consen 12 FWQQVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAIS-QGVDGIIVSPVD-PDSL--APFL-EKAKAAGIPVVTV 86 (257)
T ss_dssp HHHHHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHH-TTESEEEEESSS-TTTT--HHHH-HHHHHTTSEEEEE
T ss_pred HHHHHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHH-hcCCEEEecCCC-HHHH--HHHH-HHHhhcCceEEEE
Confidence 77777788888899999999885 42 333 23333333 378988876321 1111 1223 4466789999998
Q ss_pred eCC
Q 012338 254 WGS 256 (465)
Q Consensus 254 ~~~ 256 (465)
+..
T Consensus 87 d~~ 89 (257)
T PF13407_consen 87 DSD 89 (257)
T ss_dssp SST
T ss_pred ecc
Confidence 776
No 136
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=23.83 E-value=4.9e+02 Score=26.33 Aligned_cols=72 Identities=17% Similarity=0.183 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeCCh----HHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVGKP----ETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G~~----~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
-|..+-++-+.+.+++.|..+++...+. ++...+...+.+++.|+..-.. . +....+.+.+.++++..++
T Consensus 71 ~~~~~i~~gi~~~~~~~gy~~~l~~~~~~~~~e~~~~~~l~~~~vdGiIi~~~~-~-----~~~~~~~l~~~~~P~V~i~ 144 (333)
T COG1609 71 PFFAEILKGIEEAAREAGYSLLLANTDDDPEKEREYLETLLQKRVDGLILLGER-P-----NDSLLELLAAAGIPVVVID 144 (333)
T ss_pred chHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCC-C-----CHHHHHHHHhcCCCEEEEe
Confidence 4888889999999999999999986543 2344556667799999886511 1 1234455666799998876
Q ss_pred CC
Q 012338 255 GS 256 (465)
Q Consensus 255 ~~ 256 (465)
..
T Consensus 145 ~~ 146 (333)
T COG1609 145 RS 146 (333)
T ss_pred CC
Confidence 53
No 137
>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=23.79 E-value=5.7e+02 Score=24.94 Aligned_cols=72 Identities=11% Similarity=0.048 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeC--ChH---HHHHHHHHHh--CCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEE
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAI--GADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G--~~~---~vL~~L~~~~--~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
.|..+-+..+++.++++|..+.+... +.. +.+..+ ... +++.|+..... . . ...+.+.+.+.||++.
T Consensus 13 ~~~~~~~~gi~~~~~~~g~~v~~~~~~~~~~~~~~~i~~~-~~~~~~vdgiIi~~~~-~---~-~~~~~~~~~~~giPvV 86 (305)
T cd06324 13 PFWNSVARFMQAAADDLGIELEVLYAERDRFLMLQQARTI-LQRPDKPDALIFTNEK-S---V-APELLRLAEGAGVKLF 86 (305)
T ss_pred cHHHHHHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHH-HHhccCCCEEEEcCCc-c---c-hHHHHHHHHhCCCeEE
Confidence 36667778888889999999887753 232 223333 345 89988874321 1 1 1223345667899999
Q ss_pred EeeCC
Q 012338 252 YFWGS 256 (465)
Q Consensus 252 ~~~~~ 256 (465)
.++..
T Consensus 87 ~~~~~ 91 (305)
T cd06324 87 LVNSG 91 (305)
T ss_pred EEecC
Confidence 88654
No 138
>COG0656 ARA1 Aldo/keto reductases, related to diketogulonate reductase [General function prediction only]
Probab=23.63 E-value=3.2e+02 Score=27.47 Aligned_cols=43 Identities=19% Similarity=0.140 Sum_probs=22.9
Q ss_pred HHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 209 VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 209 vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
.+.++.+..++.-++-.-+|.|+-++.+ +..+|+++||.+..+
T Consensus 147 ~L~~l~~~~~~~p~~NQIe~hp~~~q~e--l~~~~~~~gI~v~Ay 189 (280)
T COG0656 147 HLEELLSLAKVKPAVNQIEYHPYLRQPE--LLPFCQRHGIAVEAY 189 (280)
T ss_pred HHHHHHHhcCCCCceEEEEeccCCCcHH--HHHHHHHcCCEEEEE
Confidence 3444444433333333335555544433 777888888877654
No 139
>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=23.35 E-value=6.4e+02 Score=23.81 Aligned_cols=73 Identities=15% Similarity=0.127 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeC---ChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEE
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVG---KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G---~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~ 252 (465)
.|+.+-+..+.+.+++.|..+.+... ++. +.+..+.. .+++.|+..-. ... .....+ +.+.+.||++..
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 47777888888899999999988764 333 23333443 48888877532 111 112233 344667999988
Q ss_pred eeCC
Q 012338 253 FWGS 256 (465)
Q Consensus 253 ~~~~ 256 (465)
++..
T Consensus 88 ~~~~ 91 (271)
T cd06312 88 FNAG 91 (271)
T ss_pred eCCC
Confidence 8643
No 140
>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=23.25 E-value=6e+02 Score=24.94 Aligned_cols=72 Identities=17% Similarity=0.266 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHHHhC-----CCcEEEEeCChHHHHHHHHHHhCCCEEEEe---ccCChhHHHHHHHHHHHHHhcCC
Q 012338 177 RASFLIESVSDLRKNLQAR-----GSDLVVRVGKPETVLVELAKAIGADAVYAH---REVSHDEVKSEEKIEAAMKDEGI 248 (465)
Q Consensus 177 r~~FllesL~dL~~~L~~~-----Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n---~e~~p~e~~rd~~v~~~l~~~gI 248 (465)
+..=+.+.|.+|++.+++. |-.+++.+ +.+.-|++.+|...+... .+.+|.... -.++.+.+++.||
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 3444555677777776553 33444443 468889999999977542 233444333 4567778899999
Q ss_pred eEEEe
Q 012338 249 EVKYF 253 (465)
Q Consensus 249 ~v~~~ 253 (465)
.+..+
T Consensus 222 ~~if~ 226 (282)
T cd01017 222 KYIFF 226 (282)
T ss_pred CEEEE
Confidence 88743
No 141
>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=23.17 E-value=4.3e+02 Score=24.99 Aligned_cols=73 Identities=18% Similarity=0.220 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeC--ChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G--~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
.|..+-++.+.+.++++|..+.+... +.. +.+..+.. .+++.|+..-.. .. ..+..+ +.+.+.||++..+
T Consensus 12 ~~~~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~~-~~--~~~~~i-~~~~~~~iPvV~~ 86 (273)
T cd06309 12 PWRTAETKSIKDAAEKRGFDLKFADAQQKQENQISAIRSFIA-QGVDVIILAPVV-ET--GWDPVL-KEAKAAGIPVILV 86 (273)
T ss_pred HHHHHHHHHHHHHHHhcCCEEEEeCCCCCHHHHHHHHHHHHH-cCCCEEEEcCCc-cc--cchHHH-HHHHHCCCCEEEE
Confidence 57788889999999999999999753 332 33444444 578888774221 11 112223 3456679999988
Q ss_pred eCC
Q 012338 254 WGS 256 (465)
Q Consensus 254 ~~~ 256 (465)
+..
T Consensus 87 ~~~ 89 (273)
T cd06309 87 DRG 89 (273)
T ss_pred ecC
Confidence 753
No 142
>KOG3167 consensus Box H/ACA snoRNP component, involved in ribosomal RNA pseudouridinylation [RNA processing and modification]
Probab=23.11 E-value=1.4e+02 Score=26.70 Aligned_cols=44 Identities=27% Similarity=0.433 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHhCCCcEEEEeCC--hHHHH---HHHHHHhCCCEEEE
Q 012338 181 LIESVSDLRKNLQARGSDLVVRVGK--PETVL---VELAKAIGADAVYA 224 (465)
Q Consensus 181 llesL~dL~~~L~~~Gi~L~v~~G~--~~~vL---~~L~~~~~a~~V~~ 224 (465)
|.+++++.++.+++---.|.|+.|| |.+++ +.||++.++--||.
T Consensus 60 lrrGvKevqK~vrkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~vPYvy~ 108 (153)
T KOG3167|consen 60 LRRGVKEVQKRVRKGEKGLCVLAGDTSPIDVITHLPALCEDRGVPYVYT 108 (153)
T ss_pred HHHHHHHHHHHHhcCCcceEEEecCCccHHHHhccchhhhccCCCcccc
Confidence 8899999999999866678999886 55554 78999888876654
No 143
>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=23.09 E-value=5.2e+02 Score=24.39 Aligned_cols=76 Identities=16% Similarity=0.228 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeC--ChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G--~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
.|+.+-+..+.+.++++|..+.+... ++. +.+..+.+ .+++.|+...... .....+....+.+.+.||++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgii~~~~~~-~~~~~~~~~~~~~~~~~ipvV~~ 89 (273)
T cd01541 12 YIFPSIIRGIESVLSEKGYSLLLASTNNDPERERKCLENMLS-QGIDGLIIEPTKS-ALPNPNIDLYLKLEKLGIPYVFI 89 (273)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHH-cCCCEEEEecccc-ccccccHHHHHHHHHCCCCEEEE
Confidence 36666677778899999999988753 332 34444444 5899988743211 00011112223346679999887
Q ss_pred eCC
Q 012338 254 WGS 256 (465)
Q Consensus 254 ~~~ 256 (465)
+..
T Consensus 90 ~~~ 92 (273)
T cd01541 90 NAS 92 (273)
T ss_pred ecC
Confidence 643
No 144
>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=23.05 E-value=1.3e+02 Score=27.74 Aligned_cols=9 Identities=22% Similarity=0.202 Sum_probs=3.9
Q ss_pred HHHHHHHhc
Q 012338 277 GFREKVKGV 285 (465)
Q Consensus 277 ~Frk~~~~l 285 (465)
.|.+.++++
T Consensus 136 ~~~~~~~~~ 144 (205)
T TIGR01454 136 IVREALRLL 144 (205)
T ss_pred HHHHHHHHc
Confidence 344444443
No 145
>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=22.99 E-value=4.9e+02 Score=24.49 Aligned_cols=74 Identities=12% Similarity=0.151 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeC--ChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEee
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFW 254 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G--~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~ 254 (465)
|..+-+..+.+.+++.|..+.+... +.. +.+..+.. .+++.|+.... ............+.+.+.|+++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~-~~~~~~~~~~~i~~~~~~~ipvV~i~ 90 (273)
T cd06292 13 IFPAFAEAIEAALAQYGYTVLLCNTYRGGVSEADYVEDLLA-RGVRGVVFISS-LHADTHADHSHYERLAERGLPVVLVN 90 (273)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEEeCCCChHHHHHHHHHHHH-cCCCEEEEeCC-CCCcccchhHHHHHHHhCCCCEEEEc
Confidence 5566667788888889999877653 222 33444444 58888876421 11111111122233456799998876
Q ss_pred C
Q 012338 255 G 255 (465)
Q Consensus 255 ~ 255 (465)
.
T Consensus 91 ~ 91 (273)
T cd06292 91 G 91 (273)
T ss_pred C
Confidence 4
No 146
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=22.78 E-value=4.7e+02 Score=25.24 Aligned_cols=68 Identities=16% Similarity=0.186 Sum_probs=41.6
Q ss_pred HHhCCCcEEEEeCChHHHHHHHHHHhCCCE--E------EEe--ccC---ChhHHHHHHHHHHHHHhcCCeEEEeeCCee
Q 012338 192 LQARGSDLVVRVGKPETVLVELAKAIGADA--V------YAH--REV---SHDEVKSEEKIEAAMKDEGIEVKYFWGSTL 258 (465)
Q Consensus 192 L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~--V------~~n--~e~---~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L 258 (465)
|++.|+.+.+..|.+...+..++++.+... | +++ .+. .+-..+.-+.+.+.+++.++.+..+.++..
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 567899999999999888888888877641 2 221 110 011122234455556667777776655555
Q ss_pred e
Q 012338 259 Y 259 (465)
Q Consensus 259 ~ 259 (465)
+
T Consensus 111 ~ 111 (272)
T PRK15126 111 F 111 (272)
T ss_pred E
Confidence 4
No 147
>KOG1014 consensus 17 beta-hydroxysteroid dehydrogenase type 3, HSD17B3 [Lipid transport and metabolism]
Probab=22.66 E-value=2.9e+02 Score=28.14 Aligned_cols=63 Identities=13% Similarity=0.224 Sum_probs=36.9
Q ss_pred HHHHHHHHhCCCcEEEEeCChHHHHH----HHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeE
Q 012338 186 SDLRKNLQARGSDLVVRVGKPETVLV----ELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEV 250 (465)
Q Consensus 186 ~dL~~~L~~~Gi~L~v~~G~~~~vL~----~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v 250 (465)
+++..+|+++|.++++. +...+-|. ++.++++++.=+...|++-... .-+++++.|....|.+
T Consensus 63 KayA~eLAkrG~nvvLI-sRt~~KL~~v~kEI~~~~~vev~~i~~Dft~~~~-~ye~i~~~l~~~~VgI 129 (312)
T KOG1014|consen 63 KAYARELAKRGFNVVLI-SRTQEKLEAVAKEIEEKYKVEVRIIAIDFTKGDE-VYEKLLEKLAGLDVGI 129 (312)
T ss_pred HHHHHHHHHcCCEEEEE-eCCHHHHHHHHHHHHHHhCcEEEEEEEecCCCch-hHHHHHHHhcCCceEE
Confidence 56778999999995554 44444444 4556677443334445654433 3356777776444433
No 148
>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=22.64 E-value=6.4e+02 Score=23.60 Aligned_cols=71 Identities=13% Similarity=0.183 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeCC--hH--HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVGK--PE--TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G~--~~--~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
|+.+-+..+.+.++++|..+.+..++ .. ....+.+...+++.|+...... . +..+ +.+.+.||++..++.
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 55666778888889999998776542 22 2223344557899888754221 1 1223 344667999988765
Q ss_pred C
Q 012338 256 S 256 (465)
Q Consensus 256 ~ 256 (465)
.
T Consensus 87 ~ 87 (265)
T cd06285 87 H 87 (265)
T ss_pred C
Confidence 3
No 149
>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=22.59 E-value=5.7e+02 Score=24.98 Aligned_cols=72 Identities=21% Similarity=0.331 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEe-C-ChH-HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRV-G-KPE-TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~-G-~~~-~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
-|..+-+..+.+.+++.|..+++.. + +.. +...+.+.+.+++.|+... ...+ +..+....+. |+++..++.
T Consensus 14 pff~~ii~gIe~~a~~~Gy~l~l~~t~~~~~~e~~i~~l~~~~vDGiI~~s-~~~~----~~~l~~~~~~-~iPvV~~~~ 87 (279)
T PF00532_consen 14 PFFAEIIRGIEQEAREHGYQLLLCNTGDDEEKEEYIELLLQRRVDGIILAS-SEND----DEELRRLIKS-GIPVVLIDR 87 (279)
T ss_dssp HHHHHHHHHHHHHHHHTTCEEEEEEETTTHHHHHHHHHHHHTTSSEEEEES-SSCT----CHHHHHHHHT-TSEEEEESS
T ss_pred cHHHHHHHHHHHHHHHcCCEEEEecCCCchHHHHHHHHHHhcCCCEEEEec-ccCC----hHHHHHHHHc-CCCEEEEEe
Confidence 3778888999999999999998765 2 222 1333456677999988763 2222 2345555554 999987754
Q ss_pred C
Q 012338 256 S 256 (465)
Q Consensus 256 ~ 256 (465)
.
T Consensus 88 ~ 88 (279)
T PF00532_consen 88 Y 88 (279)
T ss_dssp -
T ss_pred c
Confidence 4
No 150
>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=22.23 E-value=2.6e+02 Score=28.78 Aligned_cols=13 Identities=31% Similarity=0.370 Sum_probs=11.0
Q ss_pred CcHHHHHHHHHHH
Q 012338 341 GGETEALQRLKKF 353 (465)
Q Consensus 341 gGE~~Al~~L~~F 353 (465)
.|...|.+.+++|
T Consensus 244 IG~ktA~kli~~~ 256 (338)
T TIGR03674 244 IGPKTALKLIKEH 256 (338)
T ss_pred ccHHHHHHHHHHc
Confidence 5999999988876
No 151
>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=22.16 E-value=2.3e+02 Score=25.87 Aligned_cols=32 Identities=25% Similarity=0.317 Sum_probs=15.1
Q ss_pred HHHHHHHhCCCcEEEEeCChHHHHHHHHHHhC
Q 012338 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIG 218 (465)
Q Consensus 187 dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~ 218 (465)
++=+.|+++|+++.+..+.+.+.+...++..|
T Consensus 99 ~~L~~L~~~g~~~~i~Sn~~~~~~~~~l~~~g 130 (198)
T TIGR01428 99 AGLRALKERGYRLAILSNGSPAMLKSLVKHAG 130 (198)
T ss_pred HHHHHHHHCCCeEEEEeCCCHHHHHHHHHHCC
Confidence 33334444555555555444444444444444
No 152
>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=22.06 E-value=6.5e+02 Score=23.75 Aligned_cols=71 Identities=15% Similarity=0.106 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEe-C--ChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEE
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRV-G--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~-G--~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~ 252 (465)
.|..+-+..+.+.++++|..+.+.. . +.. +.+.. +...+++.|+.... .+ ...++.+++. .+ ||++..
T Consensus 11 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~i~~-l~~~~vDgiIi~~~-~~--~~~~~~l~~~-~~-~ipvV~ 84 (271)
T cd06314 11 PFWKIAEAGVKAAGKELGVDVEFVVPQQGTVNAQLRMLED-LIAEGVDGIAISPI-DP--KAVIPALNKA-AA-GIKLIT 84 (271)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEeCCCCCCHHHHHHHHHH-HHhcCCCEEEEecC-Ch--hHhHHHHHHH-hc-CCCEEE
Confidence 3667778888899999999998874 2 332 22333 34458998887531 11 1112334443 45 999988
Q ss_pred eeC
Q 012338 253 FWG 255 (465)
Q Consensus 253 ~~~ 255 (465)
++.
T Consensus 85 ~~~ 87 (271)
T cd06314 85 TDS 87 (271)
T ss_pred ecC
Confidence 754
No 153
>PRK11133 serB phosphoserine phosphatase; Provisional
Probab=22.03 E-value=1.6e+02 Score=29.99 Aligned_cols=41 Identities=24% Similarity=0.226 Sum_probs=21.3
Q ss_pred HHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEe
Q 012338 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (465)
Q Consensus 185 L~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n 225 (465)
+.++=+.|++.|+++.|..|........+.++.++..+++|
T Consensus 186 a~elL~~Lk~~G~~~aIvSgg~~~~~~~l~~~Lgld~~~an 226 (322)
T PRK11133 186 LTELVLKLQALGWKVAIASGGFTYFADYLRDKLRLDAAVAN 226 (322)
T ss_pred HHHHHHHHHHcCCEEEEEECCcchhHHHHHHHcCCCeEEEe
Confidence 34444555555666655555544444444455555555543
No 154
>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=21.96 E-value=6.1e+02 Score=25.11 Aligned_cols=72 Identities=18% Similarity=0.192 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHHHhC-------CCcEEEEeCChHHHHHHHHHHhCCCEEEEe---ccCChhHHHHHHHHHHHHHhc
Q 012338 177 RASFLIESVSDLRKNLQAR-------GSDLVVRVGKPETVLVELAKAIGADAVYAH---REVSHDEVKSEEKIEAAMKDE 246 (465)
Q Consensus 177 r~~FllesL~dL~~~L~~~-------Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n---~e~~p~e~~rd~~v~~~l~~~ 246 (465)
+..=+.+-|++|++.+++. |..+++.+ +.+.-|++.+|.+.+..- .+.+|... +-.++.+.+++.
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 4444566678777755542 23344444 468889999999977532 23334433 345677888889
Q ss_pred CCeEEEe
Q 012338 247 GIEVKYF 253 (465)
Q Consensus 247 gI~v~~~ 253 (465)
||.+..+
T Consensus 226 ~v~~if~ 232 (287)
T cd01137 226 KVPAVFV 232 (287)
T ss_pred CCCEEEE
Confidence 9988743
No 155
>COG2873 MET17 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]
Probab=21.95 E-value=1.8e+02 Score=30.62 Aligned_cols=64 Identities=13% Similarity=0.055 Sum_probs=45.2
Q ss_pred HHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHH-HHHHHHHHHhcCCeEE
Q 012338 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKS-EEKIEAAMKDEGIEVK 251 (465)
Q Consensus 187 dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~r-d~~v~~~l~~~gI~v~ 251 (465)
-+...|+++||...+..++..+.+.+.+++ +-..||.+.---|...-. -++|.+.+.++||++.
T Consensus 117 lf~~tl~~~Gi~v~fvd~~d~~~~~~aI~~-nTkavf~EtigNP~~~v~Die~ia~iAh~~gvpli 181 (426)
T COG2873 117 LFSHTLKRLGIEVRFVDPDDPENFEAAIDE-NTKAVFAETIGNPGLDVLDIEAIAEIAHRHGVPLI 181 (426)
T ss_pred HHHHHHHhcCcEEEEeCCCCHHHHHHHhCc-ccceEEEEeccCCCccccCHHHHHHHHHHcCCcEE
Confidence 345567889999999988777888887776 567787764333332222 2578888999999875
No 156
>PRK09701 D-allose transporter subunit; Provisional
Probab=21.79 E-value=7.5e+02 Score=24.26 Aligned_cols=73 Identities=10% Similarity=0.091 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeC----ChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEE
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVG----KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G----~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
.|+.+-+..+++.+++.|..+.+..+ +.. +.+..+. ..+++.|+..-.. + ...+..+.+. .+.||++.
T Consensus 37 ~f~~~~~~gi~~~a~~~g~~v~~~~~~~~~~~~~~~~~i~~l~-~~~vDgiIi~~~~-~--~~~~~~l~~~-~~~giPvV 111 (311)
T PRK09701 37 PFWVDMKKGIEDEAKTLGVSVDIFASPSEGDFQSQLQLFEDLS-NKNYKGIAFAPLS-S--VNLVMPVARA-WKKGIYLV 111 (311)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHH-HcCCCEEEEeCCC-h--HHHHHHHHHH-HHCCCcEE
Confidence 36677778888889999999987632 222 2344443 3478888775321 1 1122234433 46799999
Q ss_pred EeeCC
Q 012338 252 YFWGS 256 (465)
Q Consensus 252 ~~~~~ 256 (465)
.++..
T Consensus 112 ~~~~~ 116 (311)
T PRK09701 112 NLDEK 116 (311)
T ss_pred EeCCC
Confidence 88654
No 157
>PRK05265 pyridoxine 5'-phosphate synthase; Provisional
Probab=21.66 E-value=6.7e+02 Score=24.60 Aligned_cols=69 Identities=19% Similarity=0.296 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEec-cCC-------hhHHHHHHHHHHHHHhcCCeEE
Q 012338 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHR-EVS-------HDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 182 lesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~-e~~-------p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
.+-|+..-+.|++.||++-++.. |...-.+.+++.|++.|=.+. .|. ..+.++-....+...+.|+.|.
T Consensus 112 ~~~l~~~i~~L~~~gIrVSLFid-P~~~qi~~A~~~GAd~VELhTG~yA~a~~~~~~~el~~~~~aa~~a~~lGL~Vn 188 (239)
T PRK05265 112 FDKLKPAIARLKDAGIRVSLFID-PDPEQIEAAAEVGADRIELHTGPYADAKTEAEAAELERIAKAAKLAASLGLGVN 188 (239)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeC-CCHHHHHHHHHhCcCEEEEechhhhcCCCcchHHHHHHHHHHHHHHHHcCCEEe
Confidence 35567777788889999988874 444445688999999884332 221 1122222333334456787775
No 158
>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=21.64 E-value=6.2e+02 Score=24.37 Aligned_cols=68 Identities=22% Similarity=0.286 Sum_probs=41.9
Q ss_pred CHHHHHHHHHHHHHHHHHHHhCCCcEEEEeCChH-----HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHH
Q 012338 174 GPYRASFLIESVSDLRKNLQARGSDLVVRVGKPE-----TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAA 242 (465)
Q Consensus 174 ~~~r~~FllesL~dL~~~L~~~Gi~L~v~~G~~~-----~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~ 242 (465)
...|..+...+|+++-+-|.+-|+.+-|+.+.-. ..|.+.+++.++.-+|.+. +.-++.-.+..|...
T Consensus 73 ~~~R~~~a~~~l~dl~~~l~~~~G~VAI~DATN~T~~RR~~l~~~~~~~~~~vlFIEs-ic~D~~ii~~NI~~~ 145 (222)
T PF01591_consen 73 KKLREQIAKEALEDLIEWLQEEGGQVAIFDATNSTRERRKMLVERFKEHGIKVLFIES-ICDDPEIIERNIREK 145 (222)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTS--SEEEEES---SHHHHHHHHHHHHHTT-EEEEEEE-E---HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHHcCCcEEEEEE-EeCCHHHHHHHHHHH
Confidence 3467889999999999999988999999987422 5666777777755555443 333333334445444
No 159
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=21.62 E-value=4.2e+02 Score=27.76 Aligned_cols=70 Identities=16% Similarity=0.249 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCc----------EEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHH
Q 012338 175 PYRASFLIESVSDLRKNLQARGSD----------LVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMK 244 (465)
Q Consensus 175 ~~r~~FllesL~dL~~~L~~~Gi~----------L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~ 244 (465)
..|..|...=+++++..|+..|+. ++|...++.+++..|.+-.|+..+.--..++.+-....+.+.+.++
T Consensus 18 ~~R~~fe~~L~~Ni~~~l~~~~~~~~~v~~~~~ri~v~~~~~~~~~~~l~~vfGI~~~s~~~~~~~~~~~i~~~~~~~~~ 97 (381)
T PRK08384 18 QTRRWFENILMNNIREALVSEGIEFKKVEAKHGRILVKTNRAEEAVEVLTRVFGIVSLSPAMEIDAELEKINRTALKLFR 97 (381)
T ss_pred chHHHHHHHHHHHHHHHHHhcCCccceEEEECCEEEEEcCCHHHHHHHHhhCCCceeEEEEEEeCCCHHHHHHHHHHHHH
Confidence 348889999999999999988733 4444344445677777778998775444444433333333444443
No 160
>PRK08238 hypothetical protein; Validated
Probab=21.61 E-value=2.5e+02 Score=30.35 Aligned_cols=46 Identities=28% Similarity=0.395 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCC-CEEEEeccC
Q 012338 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGA-DAVYAHREV 228 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a-~~V~~n~e~ 228 (465)
+.+.++=+++++.|.++.+..+.+...+..+++..|+ +.|++.++.
T Consensus 75 pga~e~L~~lk~~G~~v~LaTas~~~~a~~i~~~lGlFd~Vigsd~~ 121 (479)
T PRK08238 75 EEVLDYLRAERAAGRKLVLATASDERLAQAVAAHLGLFDGVFASDGT 121 (479)
T ss_pred hhHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHHHcCCCCEEEeCCCc
Confidence 4456666677889999999999999989999999996 888887654
No 161
>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=21.46 E-value=3.2e+02 Score=26.30 Aligned_cols=74 Identities=20% Similarity=0.306 Sum_probs=50.5
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEE
Q 012338 173 TGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (465)
Q Consensus 173 ~~~~r~~FllesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~ 252 (465)
.|+.|.-|..+-+..+.+.+++.|..+++...+..+ ......+++.|+..... .. +..+ +.+.+.++++..
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 23456789988764311 11 1223 335567999988
Q ss_pred eeC
Q 012338 253 FWG 255 (465)
Q Consensus 253 ~~~ 255 (465)
++.
T Consensus 85 i~~ 87 (269)
T cd06287 85 IGR 87 (269)
T ss_pred eCC
Confidence 754
No 162
>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=21.45 E-value=3.6e+02 Score=24.26 Aligned_cols=42 Identities=14% Similarity=0.140 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCC
Q 012338 178 ASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGAD 220 (465)
Q Consensus 178 ~~FllesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~ 220 (465)
-.++.++|+.|.++-. ....++|..+...+...+++++.+..
T Consensus 9 ~~~l~~~l~sl~~q~~-~~~eiiivD~~s~d~t~~~~~~~~~~ 50 (202)
T cd04185 9 LDLLKECLDALLAQTR-PPDHIIVIDNASTDGTAEWLTSLGDL 50 (202)
T ss_pred HHHHHHHHHHHHhccC-CCceEEEEECCCCcchHHHHHHhcCC
Confidence 3567788888765432 24578888765555555666665543
No 163
>COG0757 AroQ 3-dehydroquinate dehydratase II [Amino acid transport and metabolism]
Probab=21.44 E-value=6.1e+02 Score=22.87 Aligned_cols=68 Identities=15% Similarity=0.159 Sum_probs=45.4
Q ss_pred HHHHhCCCcEEEEeCChHHHHHHHHHHhCC--CEEEEec-cCChhHHHHHHHHHHHHHhcCCeEEEeeCCeeeeC
Q 012338 190 KNLQARGSDLVVRVGKPETVLVELAKAIGA--DAVYAHR-EVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHL 261 (465)
Q Consensus 190 ~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a--~~V~~n~-e~~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p 261 (465)
+.-+++|+.+.++..+.+..|.+.+.+-.- ..|+.|- .|+..... +++++..-.+++..++=..++..
T Consensus 36 ~~a~~~g~~v~~~QSN~Eg~Lid~Ihea~~~~~~IvINpga~THTSvA----lrDAi~av~iP~vEVHlSNihaR 106 (146)
T COG0757 36 EEAAKLGVEVEFRQSNHEGELIDWIHEARGKAGDIVINPGAYTHTSVA----LRDAIAAVSIPVVEVHLSNIHAR 106 (146)
T ss_pred HHHHHcCceEEEEecCchHHHHHHHHHhhccCCeEEEcCccchhhHHH----HHHHHHhcCCCEEEEEecCchhc
Confidence 344567999999998888777777765322 2266663 56666654 55666666889988876666543
No 164
>cd03018 PRX_AhpE_like Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater similarity to 2-cys PRXs than 1-cys PRXs. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. The first step of catalysis is the nucleophilic attack by the peroxidatic cysteine on the peroxide leading to the formation of a cysteine sulfenic acid intermediate. The absence of a resolving cysteine suggests that functional AhpE is regenerated by an external reductant. The solution behavior and crystal structure of AhpE show that it forms dimers and octamers.
Probab=21.41 E-value=2.8e+02 Score=23.84 Aligned_cols=45 Identities=13% Similarity=0.054 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEe
Q 012338 181 LIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAH 225 (465)
Q Consensus 181 llesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n 225 (465)
-+..|+++.+++++.|+.++.+..++.+.+.+++++++..-.+..
T Consensus 47 ~~~~l~~~~~~~~~~~v~vi~vs~d~~~~~~~~~~~~~~~~~~~~ 91 (149)
T cd03018 47 ELCALRDSLELFEAAGAEVLGISVDSPFSLRAWAEENGLTFPLLS 91 (149)
T ss_pred HHHHHHHHHHHHHhCCCEEEEecCCCHHHHHHHHHhcCCCceEec
Confidence 556778888888888999888777777788889988877654443
No 165
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w
Probab=21.32 E-value=3.2e+02 Score=23.07 Aligned_cols=43 Identities=14% Similarity=0.098 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEE
Q 012338 182 IESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYA 224 (465)
Q Consensus 182 lesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~ 224 (465)
+..|..+.+.+++.|+.++.+.-+..+.+.++++++++.-.+.
T Consensus 43 ~~~l~~~~~~~~~~~~~vv~is~d~~~~~~~~~~~~~~~~~~l 85 (140)
T cd03017 43 ACDFRDLYEEFKALGAVVIGVSPDSVESHAKFAEKYGLPFPLL 85 (140)
T ss_pred HHHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHhCCCceEE
Confidence 4567888888888899888877677788889998887754443
No 166
>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=21.07 E-value=5.2e+02 Score=26.22 Aligned_cols=73 Identities=18% Similarity=0.350 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHHHhCCCcEEE-EeCC-hHHHHHHHHHH-h--CCCEEEEeccCChhHHHHHHHHHHHHH-hcCCeEEEe
Q 012338 180 FLIESVSDLRKNLQARGSDLVV-RVGK-PETVLVELAKA-I--GADAVYAHREVSHDEVKSEEKIEAAMK-DEGIEVKYF 253 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v-~~G~-~~~vL~~L~~~-~--~a~~V~~n~e~~p~e~~rd~~v~~~l~-~~gI~v~~~ 253 (465)
|+-+.++.|++.+.+ .+++| +.|- ...++..++.+ . ++..|+++....+. ...+.+.+.+. +.||+++.+
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 777888999988865 34444 4553 33455566644 3 45566776554432 22344555544 689999877
Q ss_pred eCC
Q 012338 254 WGS 256 (465)
Q Consensus 254 ~~~ 256 (465)
+-.
T Consensus 78 d~~ 80 (311)
T TIGR00884 78 DAK 80 (311)
T ss_pred eCc
Confidence 655
No 167
>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=20.91 E-value=7e+02 Score=23.40 Aligned_cols=72 Identities=18% Similarity=0.163 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEe----CChHH---HHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEE
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRV----GKPET---VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVK 251 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~----G~~~~---vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~ 251 (465)
.|+.+-+..+.+.++++|..+.+.. +++.. .+..+. ..+++.|+.... .....+..+ +.+.+.|+++.
T Consensus 12 ~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgvii~~~---~~~~~~~~l-~~~~~~~ipvV 86 (273)
T cd06310 12 DFWQAVKAGAEAAAKELGVKVTFQGPASETDVAGQVNLLENAI-ARGPDAILLAPT---DAKALVPPL-KEAKDAGIPVV 86 (273)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEecCccCCCHHHHHHHHHHHH-HhCCCEEEEcCC---ChhhhHHHH-HHHHHCCCCEE
Confidence 4666777888888899999998874 34433 233333 358898887421 111112233 44456799998
Q ss_pred EeeC
Q 012338 252 YFWG 255 (465)
Q Consensus 252 ~~~~ 255 (465)
.++.
T Consensus 87 ~~~~ 90 (273)
T cd06310 87 LIDS 90 (273)
T ss_pred EecC
Confidence 8754
No 168
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=20.87 E-value=1.5e+02 Score=27.83 Aligned_cols=35 Identities=11% Similarity=0.186 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHh
Q 012338 183 ESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAI 217 (465)
Q Consensus 183 esL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~ 217 (465)
.++.++=+.|++.|+++.|..+.....+..+++.+
T Consensus 77 pG~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~ 111 (219)
T PRK09552 77 EGFHEFVQFVKENNIPFYVVSGGMDFFVYPLLQGL 111 (219)
T ss_pred cCHHHHHHHHHHcCCeEEEECCCcHHHHHHHHHHh
Confidence 34455555556666666666655555555555543
No 169
>PF02630 SCO1-SenC: SCO1/SenC; InterPro: IPR003782 This family is involved in biogenesis of respiratory and photosynthetic systems. In yeast the SCO1 protein is specifically required for a post-translational step in the accumulation of subunits 1 and 2 of cytochrome c oxidase (COXI and COX-II) []. It is a mitochondrion-associated cytochrome c oxidase assembly factor. The purple nonsulphur photosynthetic eubacterium Rhodobacter capsulatus is a versatile organism that can obtain cellular energy by several means, including the capture of light energy for photosynthesis as well as the use of light-independent respiration, in which molecular oxygen serves as a terminal electron acceptor. The SenC protein is required for optimal cytochrome c oxidase activity in aerobically grown R. capsulatus cells and is involved in the induction of structural polypeptides of the light-harvesting and reaction centre complexes [].; PDB: 2K6V_A 3ME8_A 3ME7_A 2GT6_A 2GQL_A 2GQK_A 2GGT_B 1WP0_C 2HRN_A 2GQM_A ....
Probab=20.71 E-value=6.1e+02 Score=23.02 Aligned_cols=47 Identities=26% Similarity=0.316 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHhCCCcEEE--Ee----CChHHHHHHHHHHhCCCEEEEec
Q 012338 180 FLIESVSDLRKNLQARGSDLVV--RV----GKPETVLVELAKAIGADAVYAHR 226 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v--~~----G~~~~vL~~L~~~~~a~~V~~n~ 226 (465)
-++..|.++.++|.+.|.++.+ +. -|..++|.++++.++..-+.+.-
T Consensus 70 ~~l~~l~~~~~~l~~~~~~v~~v~ISvDP~~DTp~~L~~Y~~~~~~~~~~ltg 122 (174)
T PF02630_consen 70 TTLANLSQLQKQLGEEGKDVQFVFISVDPERDTPEVLKKYAKKFGPDFIGLTG 122 (174)
T ss_dssp HHHHHHHHHHHHHHHTTTTEEEEEEESSTTTC-HHHHHHHHHCHTTTCEEEEE
T ss_pred HHHHHHHHHHHHhhhccCceEEEEEEeCCCCCCHHHHHHHHHhcCCCcceeEe
Confidence 3455567777777766655543 43 24558999999999988776643
No 170
>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=20.70 E-value=1.2e+02 Score=24.75 Aligned_cols=41 Identities=22% Similarity=0.155 Sum_probs=19.9
Q ss_pred HHHHHHHhCCCEEEEeccCChhHHH-HHHHHHHHHHhcCCeE
Q 012338 210 LVELAKAIGADAVYAHREVSHDEVK-SEEKIEAAMKDEGIEV 250 (465)
Q Consensus 210 L~~L~~~~~a~~V~~n~e~~p~e~~-rd~~v~~~l~~~gI~v 250 (465)
+.+++++.+++-|+.+......... -...+++.+.+.+|++
T Consensus 52 i~~~i~~~~IdlVIn~~~~~~~~~~~dg~~irr~a~~~~Ip~ 93 (95)
T PF02142_consen 52 IMDLIKNGKIDLVINTPYPFSDQEHTDGYKIRRAAVEYNIPL 93 (95)
T ss_dssp HHHHHHTTSEEEEEEE--THHHHHTHHHHHHHHHHHHTTSHE
T ss_pred HHHHHHcCCeEEEEEeCCCCcccccCCcHHHHHHHHHcCCCC
Confidence 5556666666655554433222221 3455566666666654
No 171
>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=20.64 E-value=2.1e+02 Score=24.34 Aligned_cols=58 Identities=22% Similarity=0.263 Sum_probs=30.2
Q ss_pred HHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCC-hhHHHHHHHHHHHHHhcCCeE
Q 012338 190 KNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVS-HDEVKSEEKIEAAMKDEGIEV 250 (465)
Q Consensus 190 ~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~-p~e~~rd~~v~~~l~~~gI~v 250 (465)
+.|+++|+..+++..++..+-. ..+ -++++|+...-. ....-.-+.|.+.+++.|+..
T Consensus 19 ra~r~~Gi~tv~v~s~~d~~s~-~~~--~ad~~~~~~~~~~~~~yl~~e~I~~ia~~~g~~~ 77 (110)
T PF00289_consen 19 RALRELGIETVAVNSNPDTVST-HVD--MADEAYFEPPGPSPESYLNIEAIIDIARKEGADA 77 (110)
T ss_dssp HHHHHTTSEEEEEEEGGGTTGH-HHH--HSSEEEEEESSSGGGTTTSHHHHHHHHHHTTESE
T ss_pred HHHHHhCCcceeccCchhcccc-ccc--ccccceecCcchhhhhhccHHHHhhHhhhhcCcc
Confidence 4567889999988866644322 222 266666654111 111111234555555555544
No 172
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=20.48 E-value=6.9e+02 Score=23.89 Aligned_cols=69 Identities=16% Similarity=0.272 Sum_probs=42.5
Q ss_pred HHHhCCCcEEEEeCChHHHHHHHHHHhCCC-----EEEEeccC------------ChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 191 NLQARGSDLVVRVGKPETVLVELAKAIGAD-----AVYAHREV------------SHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 191 ~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~-----~V~~n~e~------------~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
.|++.|+.+.+..|.+...+..++++.+.. .|.+|-.+ .+-....-+.+.+.+++.++.+..+
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 356789999999999888888888887753 12222110 0001122234556667778877776
Q ss_pred eCCeee
Q 012338 254 WGSTLY 259 (465)
Q Consensus 254 ~~~~L~ 259 (465)
..+.++
T Consensus 111 ~~~~~~ 116 (270)
T PRK10513 111 DRNTLY 116 (270)
T ss_pred ECCEEE
Confidence 666554
No 173
>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=20.31 E-value=4.9e+02 Score=21.36 Aligned_cols=61 Identities=16% Similarity=0.196 Sum_probs=41.3
Q ss_pred HHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 186 ~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
..+++.++++|+++.+......+ +.+... +++.|+. +|.-+-..+.+++.+.+.|+++...
T Consensus 21 ~k~~~~~~~~gi~~~v~a~~~~~-~~~~~~--~~Dvill----~pqi~~~~~~i~~~~~~~~ipv~~I 81 (95)
T TIGR00853 21 NKMNKAAEEYGVPVKIAAGSYGA-AGEKLD--DADVVLL----APQVAYMLPDLKKETDKKGIPVEVI 81 (95)
T ss_pred HHHHHHHHHCCCcEEEEEecHHH-HHhhcC--CCCEEEE----CchHHHHHHHHHHHhhhcCCCEEEe
Confidence 45666788899999888766544 333333 3555555 3444555677888888889998754
No 174
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=20.21 E-value=6.7e+02 Score=23.31 Aligned_cols=73 Identities=19% Similarity=0.207 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeC--ChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 179 SFLIESVSDLRKNLQARGSDLVVRVG--KPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 179 ~FllesL~dL~~~L~~~Gi~L~v~~G--~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
.|..+-++.+.+.+++.|..+++... ++. +.+.++. ..+++.|++.-. ... ....+.+.+.+.||++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~-~~~~dgii~~~~---~~~-~~~~~l~~l~~~~ipvv~~ 86 (268)
T cd06323 12 PFFVTLKDGAQKEAKELGYELTVLDAQNDAAKQLNDIEDLI-TRGVDAIIINPT---DSD-AVVPAVKAANEAGIPVFTI 86 (268)
T ss_pred HHHHHHHHHHHHHHHHcCceEEecCCCCCHHHHHHHHHHHH-HcCCCEEEEcCC---ChH-HHHHHHHHHHHCCCcEEEE
Confidence 37777788888899999999988753 333 3333333 357888776321 111 1112333456679999888
Q ss_pred eCC
Q 012338 254 WGS 256 (465)
Q Consensus 254 ~~~ 256 (465)
+..
T Consensus 87 ~~~ 89 (268)
T cd06323 87 DRE 89 (268)
T ss_pred ccC
Confidence 553
No 175
>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=20.15 E-value=7.2e+02 Score=23.23 Aligned_cols=71 Identities=21% Similarity=0.189 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEeC--ChHH--HHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEeeC
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRVG--KPET--VLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWG 255 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~G--~~~~--vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~~~ 255 (465)
|..+-+..+.+.+++.|..+.+... ++.. .+.+.+...+++.|+..-..... . .+. .+.+.|+++..++.
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 4444456666778889999888754 3332 22233345689988765332111 1 133 35567999988855
Q ss_pred C
Q 012338 256 S 256 (465)
Q Consensus 256 ~ 256 (465)
.
T Consensus 87 ~ 87 (264)
T cd06274 87 P 87 (264)
T ss_pred c
Confidence 4
No 176
>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=20.06 E-value=7.4e+02 Score=23.32 Aligned_cols=71 Identities=13% Similarity=0.180 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHhCCCcEEEEe----CChH---HHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEE
Q 012338 180 FLIESVSDLRKNLQARGSDLVVRV----GKPE---TVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKY 252 (465)
Q Consensus 180 FllesL~dL~~~L~~~Gi~L~v~~----G~~~---~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~ 252 (465)
|+.+-+..+++.++++|..+.+.. +++. +.+..+.. .+++.|+... .... ..+..+ +.+.+.||++..
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~-~~~~--~~~~~~-~~~~~~~iPvV~ 87 (275)
T cd06320 13 FWRSLKEGYENEAKKLGVSVDIQAAPSEGDQQGQLSIAENMIN-KGYKGLLFSP-ISDV--NLVPAV-ERAKKKGIPVVN 87 (275)
T ss_pred HHHHHHHHHHHHHHHhCCeEEEEccCCCCCHHHHHHHHHHHHH-hCCCEEEECC-CChH--HhHHHH-HHHHHCCCeEEE
Confidence 555666778888889999998874 2333 22333433 5889877642 1111 112333 345678999987
Q ss_pred eeC
Q 012338 253 FWG 255 (465)
Q Consensus 253 ~~~ 255 (465)
++.
T Consensus 88 ~~~ 90 (275)
T cd06320 88 VND 90 (275)
T ss_pred ECC
Confidence 754
No 177
>PF00535 Glycos_transf_2: Glycosyl transferase family 2; InterPro: IPR001173 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. This domain is found in a diverse family of glycosyl transferases that transfer the sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; PDB: 2Z87_A 2Z86_B 2D7R_A 2D7I_A 3CKN_A 3CKQ_A 3CKJ_A 3CKV_A 3CKO_A 2FFU_A ....
Probab=20.04 E-value=3.5e+02 Score=22.69 Aligned_cols=81 Identities=14% Similarity=0.141 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHh---CCCEEEEeccC-ChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 178 ASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAI---GADAVYAHREV-SHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 178 ~~FllesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~---~a~~V~~n~e~-~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
..++.++|..|.++ ......++|......+...++++++ +..-.+.+.+- ......+...++..- +=-+...
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 45788888888887 5556777777654433334444444 33434444332 233344444444432 2244556
Q ss_pred eCCeeeeCC
Q 012338 254 WGSTLYHLD 262 (465)
Q Consensus 254 ~~~~L~~p~ 262 (465)
+++..++++
T Consensus 86 d~D~~~~~~ 94 (169)
T PF00535_consen 86 DDDDIISPD 94 (169)
T ss_dssp ETTEEE-TT
T ss_pred CCCceEcHH
Confidence 777777654
No 178
>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=20.02 E-value=5.2e+02 Score=21.57 Aligned_cols=66 Identities=17% Similarity=0.208 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHHHhCCCcEEEEeCChHHHHHHHHHHhCCCEEEEeccCChhHHHHHHHHHHHHHhcCCeEEEe
Q 012338 178 ASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYF 253 (465)
Q Consensus 178 ~~FllesL~dL~~~L~~~Gi~L~v~~G~~~~vL~~L~~~~~a~~V~~n~e~~p~e~~rd~~v~~~l~~~gI~v~~~ 253 (465)
-.++.+ .+++.++++|+++.+......+ +..... +++.|.. +|.-+-+-..+++.+...||++...
T Consensus 13 Ss~la~---km~~~a~~~gi~~~i~a~~~~e-~~~~~~--~~Dvill----~PQv~~~~~~i~~~~~~~~ipv~~I 78 (99)
T cd05565 13 SGLLAN---ALNKGAKERGVPLEAAAGAYGS-HYDMIP--DYDLVIL----APQMASYYDELKKDTDRLGIKLVTT 78 (99)
T ss_pred HHHHHH---HHHHHHHHCCCcEEEEEeeHHH-HHHhcc--CCCEEEE----cChHHHHHHHHHHHhhhcCCCEEEe
Confidence 345554 4555668899998887654433 444444 3454544 4555666678999998889999754
Done!