Query psy17033
Match_columns 148
No_of_seqs 169 out of 1045
Neff 6.0
Searched_HMMs 46136
Date Fri Aug 16 20:07:00 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17033.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17033hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK08931 5'-methylthioadenosin 100.0 1.9E-45 4.2E-50 306.4 16.4 121 1-121 129-249 (289)
2 PRK07432 5'-methylthioadenosin 100.0 9E-45 1.9E-49 302.5 16.4 126 1-126 129-257 (290)
3 PRK08564 5'-methylthioadenosin 100.0 8.6E-44 1.9E-48 293.7 16.2 120 1-122 133-253 (267)
4 COG0005 Pnp Purine nucleoside 100.0 1.3E-43 2.8E-48 291.3 13.4 117 1-119 145-262 (262)
5 PRK07823 5'-methylthioadenosin 100.0 3.9E-43 8.5E-48 289.4 15.4 117 1-122 129-245 (264)
6 TIGR01698 PUNP purine nucleoti 100.0 1.4E-42 2.9E-47 282.4 14.1 111 1-117 127-237 (237)
7 KOG3985|consensus 100.0 5.7E-42 1.2E-46 276.3 13.4 144 1-144 140-283 (283)
8 TIGR01699 XAPA xanthosine phos 100.0 1.6E-38 3.5E-43 259.9 14.7 115 1-117 134-248 (248)
9 PRK09136 5'-methylthioadenosin 100.0 3.7E-38 8.1E-43 257.3 14.8 117 1-117 127-243 (245)
10 KOG3984|consensus 100.0 1.4E-37 3.1E-42 252.0 11.0 119 1-120 162-285 (286)
11 PRK08666 5'-methylthioadenosin 100.0 8.7E-34 1.9E-38 232.4 15.8 121 1-122 127-247 (261)
12 PRK08202 purine nucleoside pho 100.0 1.4E-33 2.9E-38 233.0 15.1 117 1-119 156-272 (272)
13 TIGR01700 PNPH purine nucleosi 100.0 8.5E-31 1.8E-35 213.8 14.6 115 1-117 134-249 (249)
14 TIGR01697 PNPH-PUNA-XAPA inosi 99.9 2.9E-26 6.4E-31 186.7 14.6 114 2-117 135-248 (248)
15 TIGR01694 MTAP 5'-deoxy-5'-met 99.9 1.5E-25 3.2E-30 181.6 14.8 116 2-118 126-241 (241)
16 PF01048 PNP_UDP_1: Phosphoryl 99.5 4.3E-13 9.4E-18 105.9 12.3 112 4-117 123-234 (234)
17 TIGR03468 HpnG hopanoid-associ 99.4 1.2E-11 2.6E-16 98.7 11.7 121 3-133 80-201 (212)
18 PRK05584 5'-methylthioadenosin 98.9 2.1E-08 4.6E-13 79.9 12.6 107 4-119 120-229 (230)
19 TIGR01704 MTA/SAH-Nsdase 5'-me 97.5 0.0032 6.9E-08 50.5 12.1 106 5-119 120-228 (228)
20 TIGR01721 AMN-like AMP nucleos 97.4 0.0024 5.2E-08 53.2 11.4 78 6-84 134-212 (266)
21 TIGR00107 deoD purine-nucleosi 97.4 0.0069 1.5E-07 48.9 13.1 105 6-118 127-231 (232)
22 PRK07115 AMP nucleosidase; Pro 97.3 0.0067 1.4E-07 50.2 12.3 77 6-83 133-210 (258)
23 PRK05819 deoD purine nucleosid 97.1 0.023 5E-07 45.9 13.2 79 6-85 130-208 (235)
24 TIGR03664 fut_nucase futalosin 97.0 0.0062 1.4E-07 48.8 9.1 78 5-84 120-198 (222)
25 PLN02584 5'-methylthioadenosin 96.9 0.013 2.9E-07 48.0 10.3 89 27-121 154-243 (249)
26 PRK13374 purine nucleoside pho 96.8 0.043 9.2E-07 44.4 12.3 79 6-85 131-209 (233)
27 COG0813 DeoD Purine-nucleoside 96.4 0.11 2.3E-06 42.7 12.4 87 5-96 130-217 (236)
28 TIGR01719 euk_UDPppase uridine 96.4 0.097 2.1E-06 43.9 12.6 105 5-118 159-283 (287)
29 PRK07077 hypothetical protein; 96.4 0.077 1.7E-06 43.5 11.7 108 4-113 89-208 (238)
30 PRK14697 bifunctional 5'-methy 96.2 0.21 4.5E-06 40.3 13.2 107 6-121 119-229 (233)
31 PRK06714 S-adenosylhomocystein 96.2 0.12 2.7E-06 41.9 11.8 104 6-120 124-229 (236)
32 PRK06698 bifunctional 5'-methy 96.1 0.14 3E-06 45.0 12.5 106 6-120 119-228 (459)
33 TIGR01718 Uridine-psphlse urid 95.7 0.35 7.7E-06 39.3 12.2 76 6-82 126-214 (245)
34 PRK07164 5'-methylthioadenosin 95.3 0.39 8.3E-06 38.7 11.2 83 32-119 134-218 (218)
35 COG2099 CobK Precorrin-6x redu 94.4 0.32 6.9E-06 40.6 8.4 78 17-103 166-250 (257)
36 PRK11178 uridine phosphorylase 94.3 1.1 2.4E-05 36.7 11.6 76 6-82 131-220 (251)
37 TIGR01705 MTA/SAH-nuc-hyp 5'-m 94.2 0.77 1.7E-05 37.2 10.2 98 5-121 110-207 (212)
38 TIGR01717 AMP-nucleosdse AMP n 93.4 2.9 6.3E-05 37.8 13.3 77 6-83 337-423 (477)
39 PRK05634 nucleosidase; Provisi 93.0 0.75 1.6E-05 36.0 8.1 51 32-83 107-158 (185)
40 PRK06026 5'-methylthioadenosin 92.8 1.7 3.7E-05 35.1 10.0 67 48-119 139-205 (212)
41 COG1363 FrvX Cellulase M and r 92.4 1 2.2E-05 39.2 8.7 87 2-123 264-350 (355)
42 TIGR00715 precor6x_red precorr 92.1 0.57 1.2E-05 38.7 6.7 60 14-77 164-230 (256)
43 PRK08236 hypothetical protein; 91.8 2.6 5.6E-05 33.8 10.0 75 6-83 110-187 (212)
44 PRK08292 AMP nucleosidase; Pro 91.4 5.7 0.00012 36.1 12.6 110 7-120 350-469 (489)
45 COG0775 Pfs Nucleoside phospho 90.7 6.2 0.00014 32.0 11.3 106 6-119 125-233 (234)
46 PF02571 CbiJ: Precorrin-6x re 90.5 0.57 1.2E-05 38.5 5.1 50 27-77 171-226 (249)
47 COG2820 Udp Uridine phosphoryl 88.9 5.8 0.00013 33.0 9.7 79 4-83 129-219 (248)
48 PRK08057 cobalt-precorrin-6x r 88.7 1.1 2.4E-05 36.9 5.5 50 27-77 167-222 (248)
49 COG2200 Rtn c-di-GMP phosphodi 82.6 3.1 6.7E-05 33.9 5.3 44 3-55 188-231 (256)
50 cd06284 PBP1_LacI_like_6 Ligan 81.2 6.3 0.00014 30.4 6.4 70 1-77 9-84 (267)
51 PF14791 DNA_pol_B_thumb: DNA 81.0 1 2.2E-05 29.7 1.5 49 7-55 9-57 (64)
52 TIGR03107 glu_aminopep glutamy 78.5 15 0.00031 31.8 8.2 84 2-121 260-343 (350)
53 cd06320 PBP1_allose_binding Pe 78.2 10 0.00023 29.6 6.8 71 1-77 9-89 (275)
54 PRK15408 autoinducer 2-binding 77.5 12 0.00027 31.4 7.4 69 2-77 34-112 (336)
55 cd06296 PBP1_CatR_like Ligand- 75.0 14 0.0003 28.6 6.7 72 2-78 10-86 (270)
56 PRK09864 putative peptidase; P 74.1 29 0.00062 30.1 8.9 85 2-121 259-343 (356)
57 PF05343 Peptidase_M42: M42 gl 72.8 12 0.00026 31.4 6.1 72 3-101 219-290 (292)
58 cd06295 PBP1_CelR Ligand bindi 71.1 24 0.00052 27.5 7.2 70 2-77 21-94 (275)
59 PRK09701 D-allose transporter 70.5 18 0.00039 29.4 6.6 74 2-78 35-115 (311)
60 PRK09961 exoaminopeptidase; Pr 70.4 19 0.00042 30.7 7.0 85 2-121 251-335 (344)
61 TIGR03106 trio_M42_hydro hydro 68.8 21 0.00045 30.6 6.8 79 2-116 261-339 (343)
62 cd06309 PBP1_YtfQ_like Peripla 67.0 34 0.00073 26.7 7.3 71 1-78 9-88 (273)
63 TIGR02637 RhaS rhamnose ABC tr 66.8 44 0.00096 26.7 8.1 70 2-77 9-88 (302)
64 cd06291 PBP1_Qymf_like Ligand 66.2 18 0.00039 27.9 5.6 70 2-78 10-83 (265)
65 PF13289 SIR2_2: SIR2-like dom 64.7 22 0.00047 25.2 5.4 46 6-55 98-143 (143)
66 PRK13561 putative diguanylate 64.3 13 0.00028 33.6 5.0 41 6-55 589-629 (651)
67 cd06297 PBP1_LacI_like_12 Liga 62.9 41 0.0009 26.3 7.1 72 1-77 9-85 (269)
68 smart00052 EAL Putative diguan 60.8 19 0.00042 27.5 4.8 41 6-55 188-228 (241)
69 cd06313 PBP1_ABC_sugar_binding 60.5 51 0.0011 25.9 7.3 71 1-78 9-88 (272)
70 PF13728 TraF: F plasmid trans 60.2 7.1 0.00015 31.3 2.3 30 2-35 131-160 (215)
71 cd01538 PBP1_ABC_xylose_bindin 60.2 26 0.00057 27.8 5.6 71 2-77 10-87 (288)
72 cd01541 PBP1_AraR Ligand-bindi 60.1 36 0.00077 26.5 6.2 71 1-78 9-91 (273)
73 cd06278 PBP1_LacI_like_2 Ligan 59.3 48 0.001 25.4 6.8 72 2-78 10-85 (266)
74 PRK10653 D-ribose transporter 58.7 36 0.00078 27.2 6.2 72 2-78 37-115 (295)
75 PF01081 Aldolase: KDPG and KH 58.5 11 0.00024 30.1 3.0 41 6-56 86-126 (196)
76 cd06294 PBP1_ycjW_transcriptio 58.3 48 0.001 25.5 6.6 71 2-77 15-90 (270)
77 cd06302 PBP1_LsrB_Quorum_Sensi 58.1 60 0.0013 26.0 7.4 69 2-77 10-88 (298)
78 TIGR01210 conserved hypothetic 57.3 41 0.00089 28.3 6.5 47 5-56 152-206 (313)
79 cd06272 PBP1_hexuronate_repres 57.2 70 0.0015 24.6 7.4 69 2-78 10-82 (261)
80 PRK11596 cyclic-di-GMP phospho 57.1 25 0.00054 28.1 5.0 39 8-55 196-234 (255)
81 PRK07922 N-acetylglutamate syn 56.9 40 0.00087 25.4 5.8 52 6-69 88-139 (169)
82 PRK13703 conjugal pilus assemb 56.5 69 0.0015 26.5 7.5 82 2-105 154-241 (248)
83 cd01536 PBP1_ABC_sugar_binding 56.5 28 0.00061 26.5 5.0 70 2-78 10-88 (267)
84 PRK15404 leucine ABC transport 56.2 46 0.001 28.0 6.7 68 3-73 171-243 (369)
85 PRK10060 RNase II stability mo 55.6 22 0.00048 32.7 4.9 44 3-55 593-636 (663)
86 cd06348 PBP1_ABC_ligand_bindin 54.7 44 0.00094 27.3 6.1 68 3-73 147-219 (344)
87 cd06312 PBP1_ABC_sugar_binding 54.4 85 0.0018 24.4 7.5 70 2-77 11-89 (271)
88 cd06267 PBP1_LacI_sugar_bindin 54.4 41 0.00089 25.3 5.6 71 2-79 10-87 (264)
89 PRK07094 biotin synthase; Prov 54.2 34 0.00073 28.4 5.4 51 7-58 164-215 (323)
90 PRK05481 lipoyl synthase; Prov 53.6 34 0.00074 28.5 5.4 57 1-62 173-235 (289)
91 cd01540 PBP1_arabinose_binding 53.4 39 0.00084 26.5 5.5 71 2-77 10-86 (289)
92 cd06305 PBP1_methylthioribose_ 53.3 92 0.002 24.0 7.5 70 2-78 10-88 (273)
93 PF01380 SIS: SIS domain SIS d 53.2 9.4 0.0002 26.6 1.7 40 30-69 59-98 (131)
94 PRK06552 keto-hydroxyglutarate 53.2 20 0.00042 28.8 3.7 41 7-57 95-135 (213)
95 cd06279 PBP1_LacI_like_3 Ligan 53.1 83 0.0018 24.7 7.4 68 2-77 15-86 (283)
96 PRK07315 fructose-bisphosphate 53.1 35 0.00077 28.7 5.4 49 10-60 119-177 (293)
97 PRK11829 biofilm formation reg 53.0 27 0.00058 31.6 5.0 41 6-55 594-634 (660)
98 TIGR01501 MthylAspMutase methy 52.9 61 0.0013 24.3 6.1 55 12-74 20-84 (134)
99 cd01306 PhnM PhnM is believed 52.9 67 0.0015 27.4 7.1 22 3-24 158-179 (325)
100 cd06317 PBP1_ABC_sugar_binding 52.7 47 0.001 25.6 5.8 68 2-76 11-87 (275)
101 cd06271 PBP1_AglR_RafR_like Li 52.6 66 0.0014 24.6 6.6 69 2-76 14-88 (268)
102 cd02640 R3H_NRF R3H domain of 52.5 18 0.0004 23.4 2.9 26 3-28 23-49 (60)
103 cd06306 PBP1_TorT-like TorT-li 52.0 63 0.0014 25.3 6.5 70 2-76 10-87 (268)
104 PRK06015 keto-hydroxyglutarate 51.9 21 0.00045 28.6 3.6 41 6-56 82-122 (201)
105 cd06277 PBP1_LacI_like_1 Ligan 51.9 1.1E+02 0.0023 23.7 7.7 69 2-77 13-87 (268)
106 cd06355 PBP1_FmdD_like Peripla 51.8 33 0.00071 28.4 5.0 67 3-72 143-214 (348)
107 cd01545 PBP1_SalR Ligand-bindi 51.7 78 0.0017 24.3 6.9 71 2-78 10-88 (270)
108 COG2185 Sbm Methylmalonyl-CoA 51.4 35 0.00076 26.1 4.6 46 30-75 41-96 (143)
109 cd06274 PBP1_FruR Ligand bindi 51.1 81 0.0017 24.3 6.9 70 2-78 10-86 (264)
110 PRK06806 fructose-bisphosphate 50.7 45 0.00098 27.9 5.6 48 10-57 117-172 (281)
111 PRK11059 regulatory protein Cs 50.1 33 0.00072 31.3 5.1 43 4-55 586-628 (640)
112 PF00563 EAL: EAL domain; Int 49.7 27 0.00059 26.5 4.0 41 6-55 188-228 (236)
113 PRK10355 xylF D-xylose transpo 49.7 59 0.0013 27.0 6.2 71 1-76 35-112 (330)
114 cd01539 PBP1_GGBP Periplasmic 49.7 82 0.0018 25.3 6.9 69 2-77 10-89 (303)
115 cd06346 PBP1_ABC_ligand_bindin 49.5 72 0.0016 25.8 6.6 70 2-74 146-220 (312)
116 cd01575 PBP1_GntR Ligand-bindi 49.3 1.1E+02 0.0024 23.3 7.4 70 2-78 10-86 (268)
117 cd06281 PBP1_LacI_like_5 Ligan 48.9 81 0.0018 24.4 6.6 70 2-78 10-87 (269)
118 cd08564 GDPD_GsGDE_like Glycer 48.8 61 0.0013 26.2 6.0 39 12-55 214-252 (265)
119 COG0794 GutQ Predicted sugar p 48.7 11 0.00024 30.4 1.6 53 28-82 88-143 (202)
120 PRK10936 TMAO reductase system 48.3 66 0.0014 26.7 6.3 70 2-76 57-134 (343)
121 cd06316 PBP1_ABC_sugar_binding 48.1 83 0.0018 24.9 6.7 70 2-77 10-88 (294)
122 COG1184 GCD2 Translation initi 47.7 1E+02 0.0022 26.4 7.3 77 2-82 125-233 (301)
123 cd06335 PBP1_ABC_ligand_bindin 47.4 92 0.002 25.6 7.0 68 3-73 148-220 (347)
124 PF12170 DNA_pol3_tau_5: DNA p 47.2 48 0.001 25.0 4.8 40 3-45 64-105 (142)
125 cd06319 PBP1_ABC_sugar_binding 47.2 75 0.0016 24.6 6.1 69 2-77 10-87 (277)
126 cd06270 PBP1_GalS_like Ligand 47.0 1.1E+02 0.0024 23.6 7.1 70 2-78 10-86 (268)
127 cd06318 PBP1_ABC_sugar_binding 46.8 64 0.0014 25.1 5.7 71 2-77 10-87 (282)
128 cd06299 PBP1_LacI_like_13 Liga 46.6 1.1E+02 0.0023 23.5 7.0 69 2-77 10-85 (265)
129 cd06327 PBP1_SBP_like_1 Peripl 46.6 49 0.0011 26.9 5.2 67 2-71 144-215 (334)
130 PRK10490 sensor protein KdpD; 46.3 1.3E+02 0.0029 28.9 8.7 71 3-75 260-341 (895)
131 cd06329 PBP1_SBP_like_3 Peripl 46.2 72 0.0016 26.1 6.2 68 3-73 153-228 (342)
132 PRK10703 DNA-binding transcrip 46.2 90 0.002 25.3 6.7 71 2-77 70-146 (341)
133 cd06358 PBP1_NHase Type I peri 46.1 52 0.0011 26.8 5.3 68 3-73 142-214 (333)
134 cd06322 PBP1_ABC_sugar_binding 45.5 57 0.0012 25.1 5.2 70 2-78 10-88 (267)
135 cd06289 PBP1_MalI_like Ligand- 45.3 72 0.0016 24.4 5.7 69 2-77 10-86 (268)
136 PRK09776 putative diguanylate 44.8 40 0.00087 32.1 5.0 42 5-55 1028-1069(1092)
137 COG2168 DsrH Uncharacterized c 44.5 5.6 0.00012 28.6 -0.6 37 3-39 8-45 (96)
138 cd06315 PBP1_ABC_sugar_binding 44.5 89 0.0019 24.6 6.3 71 1-78 10-89 (280)
139 cd06308 PBP1_sensor_kinase_lik 44.3 91 0.002 24.1 6.2 69 2-77 10-88 (270)
140 PRK10551 phage resistance prot 44.3 41 0.00088 30.3 4.7 42 5-55 451-492 (518)
141 cd06342 PBP1_ABC_LIVBP_like Ty 44.2 75 0.0016 25.4 5.9 69 3-74 145-218 (334)
142 TIGR03407 urea_ABC_UrtA urea A 44.1 38 0.00082 28.2 4.2 67 3-72 144-215 (359)
143 TIGR01182 eda Entner-Doudoroff 44.0 34 0.00073 27.4 3.7 36 10-55 90-125 (204)
144 TIGR03863 PQQ_ABC_bind ABC tra 43.9 1.5E+02 0.0032 25.1 7.8 128 2-133 137-284 (347)
145 cd01537 PBP1_Repressors_Sugar_ 43.8 71 0.0015 23.9 5.4 74 3-81 11-90 (264)
146 cd02646 R3H_G-patch R3H domain 43.7 46 0.00099 21.0 3.7 26 3-28 22-47 (58)
147 TIGR01417 PTS_I_fam phosphoeno 43.6 51 0.0011 30.3 5.3 54 2-59 473-526 (565)
148 PF13407 Peripla_BP_4: Peripla 43.4 84 0.0018 24.2 5.9 69 2-76 9-86 (257)
149 cd06324 PBP1_ABC_sugar_binding 42.9 1.1E+02 0.0023 24.6 6.6 70 2-78 11-90 (305)
150 PF14258 DUF4350: Domain of un 42.4 89 0.0019 19.8 5.6 30 26-55 34-67 (70)
151 PRK05718 keto-hydroxyglutarate 42.3 35 0.00076 27.4 3.6 35 42-76 99-134 (212)
152 COG0469 PykF Pyruvate kinase [ 42.3 45 0.00097 30.3 4.6 55 28-109 7-61 (477)
153 cd06338 PBP1_ABC_ligand_bindin 41.5 1.1E+02 0.0024 24.7 6.6 71 2-75 150-225 (345)
154 TIGR01949 AroFGH_arch predicte 41.4 1.5E+02 0.0033 23.9 7.3 67 11-80 126-202 (258)
155 PRK14987 gluconate operon tran 40.9 98 0.0021 25.0 6.1 68 2-76 74-148 (331)
156 PF13458 Peripla_BP_6: Peripla 40.9 53 0.0012 26.4 4.5 68 3-73 145-217 (343)
157 PRK12928 lipoyl synthase; Prov 40.7 67 0.0015 26.9 5.2 54 2-60 182-241 (290)
158 cd06314 PBP1_tmGBP Periplasmic 40.7 1.2E+02 0.0025 23.6 6.4 69 2-77 9-86 (271)
159 cd06007 R3H_DEXH_helicase R3H 40.3 35 0.00077 22.0 2.7 25 5-29 25-49 (59)
160 PRK11359 cyclic-di-GMP phospho 40.1 51 0.0011 30.2 4.7 42 5-55 732-773 (799)
161 cd06328 PBP1_SBP_like_2 Peripl 40.1 1.3E+02 0.0029 24.5 6.8 57 2-61 145-201 (333)
162 PF13192 Thioredoxin_3: Thiore 39.6 23 0.00049 23.2 1.8 22 3-24 10-31 (76)
163 PRK09454 ugpQ cytoplasmic glyc 39.1 57 0.0012 26.1 4.4 15 40-54 219-233 (249)
164 COG1879 RbsB ABC-type sugar tr 39.1 1.9E+02 0.0041 23.4 7.6 78 2-82 44-128 (322)
165 PRK07114 keto-hydroxyglutarate 39.0 42 0.00092 27.2 3.6 38 8-55 99-136 (222)
166 cd06275 PBP1_PurR Ligand-bindi 38.7 1.8E+02 0.0039 22.3 7.2 70 2-78 10-87 (269)
167 cd02641 R3H_Smubp-2_like R3H d 38.5 65 0.0014 20.7 3.8 26 3-28 23-49 (60)
168 TIGR02634 xylF D-xylose ABC tr 38.2 1.3E+02 0.0029 24.2 6.5 70 2-78 9-87 (302)
169 cd01574 PBP1_LacI Ligand-bindi 36.9 1.9E+02 0.0041 22.1 7.5 72 2-79 10-88 (264)
170 cd01948 EAL EAL domain. This d 36.9 79 0.0017 24.0 4.8 41 6-55 187-227 (240)
171 cd06273 PBP1_GntR_like_1 This 36.8 1.5E+02 0.0034 22.6 6.4 69 2-77 10-85 (268)
172 cd06360 PBP1_alkylbenzenes_lik 36.4 76 0.0017 25.5 4.8 66 3-71 144-214 (336)
173 cd06282 PBP1_GntR_like_2 Ligan 36.1 1.9E+02 0.0042 21.9 7.5 69 2-77 10-86 (266)
174 cd06357 PBP1_AmiC Periplasmic 35.8 1.1E+02 0.0023 25.5 5.7 67 3-72 142-215 (360)
175 PRK10481 hypothetical protein; 35.2 2.2E+02 0.0048 23.2 7.2 65 4-74 137-210 (224)
176 cd06321 PBP1_ABC_sugar_binding 35.2 1.9E+02 0.0042 22.2 6.8 71 2-77 10-89 (271)
177 PRK08652 acetylornithine deace 34.9 2.1E+02 0.0045 23.3 7.2 93 7-105 237-338 (347)
178 cd08563 GDPD_TtGDE_like Glycer 34.7 93 0.002 24.3 4.9 17 39-55 209-225 (230)
179 TIGR00640 acid_CoA_mut_C methy 34.6 72 0.0016 23.5 4.0 33 30-62 31-64 (132)
180 PF13817 DDE_Tnp_IS66_C: IS66 34.5 52 0.0011 19.5 2.6 33 97-130 2-34 (39)
181 cd08579 GDPD_memb_like Glycero 34.4 97 0.0021 24.0 5.0 16 40-55 200-215 (220)
182 cd08555 PI-PLCc_GDPD_SF Cataly 34.1 85 0.0019 23.7 4.5 38 10-55 138-175 (179)
183 cd06298 PBP1_CcpA_like Ligand- 33.9 1.5E+02 0.0032 22.6 5.9 70 2-78 10-86 (268)
184 TIGR02370 pyl_corrinoid methyl 33.8 1.2E+02 0.0026 23.6 5.4 39 13-58 155-193 (197)
185 cd07938 DRE_TIM_HMGL 3-hydroxy 33.5 2.7E+02 0.0059 22.9 8.7 104 3-109 15-124 (274)
186 PF00532 Peripla_BP_1: Peripla 33.5 1.2E+02 0.0025 24.6 5.5 74 1-79 11-88 (279)
187 PF00391 PEP-utilizers: PEP-ut 33.5 35 0.00076 22.7 2.0 35 40-74 20-57 (80)
188 cd08601 GDPD_SaGlpQ_like Glyce 33.4 90 0.002 24.9 4.7 41 12-62 209-249 (256)
189 cd06285 PBP1_LacI_like_7 Ligan 33.4 2.1E+02 0.0046 21.9 6.8 70 1-77 9-85 (265)
190 COG0826 Collagenase and relate 33.3 2.8E+02 0.0061 23.9 8.0 95 5-104 46-159 (347)
191 cd02071 MM_CoA_mut_B12_BD meth 33.3 1.5E+02 0.0033 21.0 5.5 37 28-66 81-118 (122)
192 cd06815 PLPDE_III_AR_like_1 Ty 33.3 75 0.0016 26.9 4.4 40 38-77 37-78 (353)
193 cd06340 PBP1_ABC_ligand_bindin 33.2 1.4E+02 0.0031 24.4 6.0 68 3-73 154-226 (347)
194 PRK13011 formyltetrahydrofolat 33.0 92 0.002 26.1 4.9 71 7-77 64-144 (286)
195 PRK02412 aroD 3-dehydroquinate 33.0 1.9E+02 0.0041 23.5 6.6 71 8-80 122-207 (253)
196 cd08567 GDPD_SpGDE_like Glycer 33.0 79 0.0017 25.0 4.3 16 40-55 241-256 (263)
197 cd06323 PBP1_ribose_binding Pe 32.7 1.6E+02 0.0035 22.4 5.9 69 2-77 10-87 (268)
198 cd06293 PBP1_LacI_like_11 Liga 32.6 2.3E+02 0.005 21.8 7.1 71 2-77 10-85 (269)
199 cd06334 PBP1_ABC_ligand_bindin 32.5 2.3E+02 0.0051 23.5 7.3 68 2-72 149-221 (351)
200 PRK06512 thiamine-phosphate py 32.5 2.6E+02 0.0056 22.3 8.8 43 35-79 94-140 (221)
201 cd06310 PBP1_ABC_sugar_binding 32.4 2E+02 0.0042 22.2 6.4 71 1-77 9-89 (273)
202 cd06356 PBP1_Amide_Urea_BP_lik 32.4 1.5E+02 0.0033 24.2 6.1 66 3-71 142-212 (334)
203 TIGR02318 phosphono_phnM phosp 32.2 1.7E+02 0.0037 25.1 6.5 61 5-74 206-267 (376)
204 PF00356 LacI: Bacterial regul 32.2 54 0.0012 20.0 2.5 20 4-23 25-44 (46)
205 cd00408 DHDPS-like Dihydrodipi 32.1 96 0.0021 25.1 4.7 32 28-59 68-100 (281)
206 TIGR01428 HAD_type_II 2-haloal 32.0 2.2E+02 0.0047 21.3 6.6 21 54-75 170-190 (198)
207 PRK06529 amidase; Provisional 31.9 31 0.00068 30.6 2.0 25 40-64 97-121 (482)
208 cd06343 PBP1_ABC_ligand_bindin 31.7 2.6E+02 0.0056 22.8 7.3 67 3-72 154-225 (362)
209 TIGR00977 LeuA_rel 2-isopropyl 31.5 3.3E+02 0.0073 24.8 8.5 100 4-111 19-134 (526)
210 cd02069 methionine_synthase_B1 31.5 62 0.0013 25.8 3.4 36 46-81 111-150 (213)
211 cd06341 PBP1_ABC_ligand_bindin 31.4 2.4E+02 0.0052 22.8 7.0 70 4-76 144-218 (341)
212 cd05014 SIS_Kpsf KpsF-like pro 31.4 35 0.00076 23.9 1.8 44 27-70 48-93 (128)
213 PRK07139 amidase; Provisional 31.2 43 0.00093 29.4 2.7 26 39-64 69-94 (439)
214 PRK09250 fructose-bisphosphate 31.2 85 0.0018 27.4 4.4 41 15-58 186-237 (348)
215 COG1254 AcyP Acylphosphatases 30.9 76 0.0017 22.3 3.4 32 8-39 18-54 (92)
216 PRK07226 fructose-bisphosphate 30.9 2.7E+02 0.0058 22.6 7.2 65 13-80 131-206 (267)
217 TIGR00126 deoC deoxyribose-pho 30.8 31 0.00066 27.7 1.6 31 32-64 180-210 (211)
218 TIGR00411 redox_disulf_1 small 30.8 1.2E+02 0.0025 19.1 4.1 32 3-38 11-42 (82)
219 PRK11303 DNA-binding transcrip 30.6 1.8E+02 0.0038 23.3 6.1 69 2-77 72-148 (328)
220 PF00070 Pyr_redox: Pyridine n 30.6 91 0.002 20.1 3.6 23 3-25 36-58 (80)
221 cd08574 GDPD_GDE_2_3_6 Glycero 30.4 76 0.0016 25.6 3.8 19 39-57 211-229 (252)
222 PF01425 Amidase: Amidase; In 30.4 24 0.00053 29.4 1.0 26 39-64 80-105 (441)
223 cd02071 MM_CoA_mut_B12_BD meth 30.2 76 0.0016 22.6 3.4 34 27-60 26-59 (122)
224 cd06311 PBP1_ABC_sugar_binding 30.0 1.9E+02 0.0042 22.3 6.0 76 1-78 9-93 (274)
225 PRK10014 DNA-binding transcrip 30.0 2.8E+02 0.0061 22.3 7.2 71 2-77 75-151 (342)
226 cd00950 DHDPS Dihydrodipicolin 29.9 84 0.0018 25.5 4.1 50 6-57 51-101 (284)
227 cd08602 GDPD_ScGlpQ1_like Glyc 29.8 1.3E+02 0.0029 25.1 5.3 40 12-55 257-304 (309)
228 cd00452 KDPG_aldolase KDPG and 29.8 1.2E+02 0.0025 23.4 4.6 32 45-76 91-123 (190)
229 TIGR03128 RuMP_HxlA 3-hexulose 29.3 2.3E+02 0.005 21.6 6.3 34 43-76 94-132 (206)
230 TIGR03249 KdgD 5-dehydro-4-deo 29.2 74 0.0016 26.3 3.6 32 29-61 77-108 (296)
231 TIGR02955 TMAO_TorT TMAO reduc 28.9 2.6E+02 0.0056 22.2 6.7 70 2-76 10-87 (295)
232 TIGR02370 pyl_corrinoid methyl 28.9 75 0.0016 24.8 3.5 53 29-81 88-146 (197)
233 PF08734 GYD: GYD domain; Int 28.8 1.2E+02 0.0027 20.8 4.2 72 7-101 19-90 (91)
234 cd06307 PBP1_uncharacterized_s 28.7 1.7E+02 0.0037 22.6 5.6 71 2-77 10-90 (275)
235 PRK00012 gatA aspartyl/glutamy 28.5 38 0.00081 29.8 1.8 25 40-64 89-113 (459)
236 cd06283 PBP1_RegR_EndR_KdgR_li 28.5 2.5E+02 0.0055 21.3 6.4 70 2-78 10-86 (267)
237 PRK13937 phosphoheptose isomer 28.5 49 0.0011 25.5 2.3 39 31-69 113-151 (188)
238 cd08583 PI-PLCc_GDPD_SF_unchar 28.4 1.3E+02 0.0027 23.8 4.7 15 40-54 215-229 (237)
239 cd00947 TBP_aldolase_IIB Tagat 28.4 2.2E+02 0.0047 23.9 6.3 54 4-59 104-169 (276)
240 cd06290 PBP1_LacI_like_9 Ligan 28.4 2.7E+02 0.0059 21.2 6.6 69 2-77 10-84 (265)
241 PRK05962 amidase; Validated 28.2 40 0.00087 29.4 2.0 25 40-64 80-104 (424)
242 cd08575 GDPD_GDE4_like Glycero 28.1 1.1E+02 0.0025 24.7 4.5 36 11-55 221-256 (264)
243 PRK05718 keto-hydroxyglutarate 27.8 1.3E+02 0.0029 24.0 4.8 24 36-61 113-136 (212)
244 cd06300 PBP1_ABC_sugar_binding 27.7 2.8E+02 0.0062 21.3 7.0 72 1-77 9-92 (272)
245 TIGR03190 benz_CoA_bzdN benzoy 27.7 1.7E+02 0.0037 25.2 5.7 34 26-59 227-260 (377)
246 PRK13209 L-xylulose 5-phosphat 27.6 3.2E+02 0.0068 21.8 8.1 12 66-77 66-77 (283)
247 cd02639 R3H_RRM R3H domain of 27.6 85 0.0018 20.3 3.0 27 3-29 24-50 (60)
248 PRK08057 cobalt-precorrin-6x r 27.4 57 0.0012 26.8 2.6 24 2-25 73-96 (248)
249 cd08573 GDPD_GDE1 Glycerophosp 27.3 1.1E+02 0.0025 24.7 4.4 20 39-58 216-235 (258)
250 PRK07476 eutB threonine dehydr 27.0 1.3E+02 0.0029 25.0 4.9 36 15-57 84-119 (322)
251 PRK02261 methylaspartate mutas 27.0 89 0.0019 23.1 3.4 33 27-59 30-62 (137)
252 cd05008 SIS_GlmS_GlmD_1 SIS (S 27.0 59 0.0013 22.6 2.4 45 27-71 47-93 (126)
253 TIGR01418 PEP_synth phosphoeno 26.7 1.4E+02 0.0031 28.5 5.5 53 3-59 714-767 (782)
254 cd08612 GDPD_GDE4 Glycerophosp 26.5 1.1E+02 0.0024 25.3 4.2 43 11-63 251-293 (300)
255 cd00956 Transaldolase_FSA Tran 26.3 1.6E+02 0.0036 23.3 5.0 27 31-57 158-184 (211)
256 PRK00962 hypothetical protein; 26.3 1.7E+02 0.0037 23.0 4.9 49 69-117 107-159 (165)
257 PF14106 DUF4279: Domain of un 26.2 2.3E+02 0.0049 19.6 5.4 45 10-54 68-116 (118)
258 PRK06027 purU formyltetrahydro 26.2 1.5E+02 0.0032 24.8 5.0 72 7-78 64-145 (286)
259 cd06336 PBP1_ABC_ligand_bindin 26.1 1.3E+02 0.0027 24.8 4.5 68 2-72 147-220 (347)
260 cd06288 PBP1_sucrose_transcrip 26.1 3E+02 0.0064 20.9 6.4 71 2-79 11-87 (269)
261 TIGR00339 sopT ATP sulphurylas 26.1 1.5E+02 0.0032 26.0 5.1 34 27-60 150-192 (383)
262 TIGR02715 amido_AtzE amidohydr 26.0 45 0.00098 29.3 1.9 26 40-65 99-124 (452)
263 cd00959 DeoC 2-deoxyribose-5-p 25.8 53 0.0012 25.6 2.1 20 5-24 128-147 (203)
264 PRK07486 amidase; Provisional 25.7 47 0.001 29.5 2.0 26 39-64 110-135 (484)
265 COG1830 FbaB DhnA-type fructos 25.7 2E+02 0.0042 24.3 5.5 47 13-62 135-192 (265)
266 PRK04149 sat sulfate adenylylt 25.6 1.5E+02 0.0033 26.1 5.1 75 27-104 153-242 (391)
267 TIGR03669 urea_ABC_arch urea A 25.6 1.8E+02 0.004 24.6 5.5 68 3-73 143-215 (374)
268 cd00141 NT_POLXc Nucleotidyltr 25.6 92 0.002 26.2 3.6 47 7-53 254-300 (307)
269 cd08580 GDPD_Rv2277c_like Glyc 25.6 1.4E+02 0.003 24.6 4.6 36 11-55 219-255 (263)
270 cd02067 B12-binding B12 bindin 25.5 1.1E+02 0.0023 21.4 3.5 34 27-60 26-59 (119)
271 PRK07235 amidase; Provisional 25.5 44 0.00096 30.0 1.8 29 36-65 118-146 (502)
272 smart00292 BRCT breast cancer 25.3 1.3E+02 0.0028 18.0 3.5 30 27-56 4-35 (80)
273 COG0069 GltB Glutamate synthas 25.3 2.3E+02 0.005 25.9 6.3 51 12-66 361-411 (485)
274 PRK00507 deoxyribose-phosphate 25.2 72 0.0016 25.7 2.8 27 38-64 188-214 (221)
275 TIGR00510 lipA lipoate synthas 25.2 1.9E+02 0.0041 24.5 5.4 55 3-59 186-243 (302)
276 cd06811 PLPDE_III_yhfX_like Ty 25.1 2.8E+02 0.006 23.9 6.6 33 41-73 67-99 (382)
277 PRK00278 trpC indole-3-glycero 25.1 1.7E+02 0.0037 23.9 5.0 31 46-76 155-186 (260)
278 COG1246 ArgA N-acetylglutamate 24.8 1.7E+02 0.0036 22.7 4.6 48 7-65 84-131 (153)
279 PRK14447 acylphosphatase; Prov 24.8 76 0.0016 22.1 2.5 28 9-36 19-52 (95)
280 PLN02428 lipoic acid synthase 24.8 1.9E+02 0.0041 25.2 5.4 43 13-60 236-284 (349)
281 PRK07042 amidase; Provisional 24.7 50 0.0011 29.1 1.9 26 39-64 104-129 (464)
282 TIGR02417 fruct_sucro_rep D-fr 24.7 3.7E+02 0.0079 21.5 7.0 69 2-77 71-147 (327)
283 PF13419 HAD_2: Haloacid dehal 24.3 2.5E+02 0.0055 19.5 6.9 62 14-76 108-176 (176)
284 cd06345 PBP1_ABC_ligand_bindin 24.2 1.7E+02 0.0037 23.8 4.9 67 3-72 154-225 (344)
285 cd06292 PBP1_LacI_like_10 Liga 24.2 3.3E+02 0.0072 20.8 7.5 72 2-78 10-91 (273)
286 cd01391 Periplasmic_Binding_Pr 24.2 2.9E+02 0.0063 20.2 6.1 77 3-81 12-93 (269)
287 PRK07487 amidase; Provisional 24.0 52 0.0011 29.1 1.9 26 39-64 105-130 (469)
288 TIGR01859 fruc_bis_ald_ fructo 23.9 2.2E+02 0.0048 23.7 5.6 48 9-58 116-173 (282)
289 cd05006 SIS_GmhA Phosphoheptos 23.9 63 0.0014 24.3 2.1 42 30-71 107-148 (177)
290 PRK06464 phosphoenolpyruvate s 23.9 1.8E+02 0.0038 28.1 5.5 53 3-59 721-774 (795)
291 cd00419 Ferrochelatase_C Ferro 23.8 2.6E+02 0.0056 20.5 5.4 22 2-23 36-57 (135)
292 cd08556 GDPD Glycerophosphodie 23.8 1.3E+02 0.0029 22.0 3.9 36 11-55 150-185 (189)
293 PRK12470 amidase; Provisional 23.7 51 0.0011 29.1 1.8 26 39-64 104-129 (462)
294 cd06354 PBP1_BmpA_PnrA_like Pe 23.7 3.5E+02 0.0075 21.2 6.5 71 2-77 13-88 (265)
295 TIGR02991 ectoine_eutB ectoine 23.7 1.5E+02 0.0033 24.8 4.6 38 15-59 84-121 (317)
296 PRK08310 amidase; Provisional 23.7 55 0.0012 28.3 2.0 26 39-64 60-85 (395)
297 PRK08227 autoinducer 2 aldolas 23.7 2.3E+02 0.005 23.6 5.6 76 15-106 134-217 (264)
298 smart00393 R3H Putative single 23.7 96 0.0021 20.5 2.8 26 3-28 42-67 (79)
299 PF02571 CbiJ: Precorrin-6x re 23.7 62 0.0013 26.6 2.2 23 2-24 74-96 (249)
300 PRK08185 hypothetical protein; 23.6 2.9E+02 0.0063 23.2 6.2 47 9-57 110-168 (283)
301 TIGR00132 gatA glutamyl-tRNA(G 23.5 51 0.0011 29.0 1.8 27 39-65 88-114 (460)
302 cd06337 PBP1_ABC_ligand_bindin 23.4 2.4E+02 0.0053 23.3 5.8 68 3-73 155-230 (357)
303 PRK06852 aldolase; Validated 23.2 1.5E+02 0.0033 25.3 4.5 40 15-57 161-207 (304)
304 PF01729 QRPTase_C: Quinolinat 23.2 2.3E+02 0.0051 21.8 5.2 51 4-61 108-158 (169)
305 cd00958 DhnA Class I fructose- 23.1 3.4E+02 0.0074 21.2 6.3 45 12-59 113-164 (235)
306 PRK06102 hypothetical protein; 23.0 54 0.0012 28.8 1.8 26 39-64 103-128 (452)
307 COG5001 Predicted signal trans 23.0 98 0.0021 28.4 3.4 44 3-55 585-628 (663)
308 cd02325 R3H R3H domain. The na 23.0 1.1E+02 0.0024 17.9 2.8 23 3-25 23-45 (59)
309 cd06366 PBP1_GABAb_receptor Li 22.9 2.2E+02 0.0048 23.1 5.4 68 3-72 145-218 (350)
310 cd06350 PBP1_GPCR_family_C_lik 22.9 2.1E+02 0.0046 23.1 5.2 67 3-71 170-242 (348)
311 PRK06061 amidase; Provisional 22.9 55 0.0012 29.1 1.8 27 39-65 113-139 (483)
312 TIGR00655 PurU formyltetrahydr 22.6 1.6E+02 0.0036 24.5 4.5 71 7-77 58-139 (280)
313 cd00430 PLPDE_III_AR Type III 22.5 98 0.0021 26.0 3.3 44 29-72 28-73 (367)
314 PF10384 Scm3: Centromere prot 22.5 1.7E+02 0.0036 18.9 3.6 28 95-122 1-28 (58)
315 cd06286 PBP1_CcpB_like Ligand- 22.5 2.1E+02 0.0045 21.8 4.9 70 2-77 10-84 (260)
316 cd06363 PBP1_Taste_receptor Li 22.5 1.4E+02 0.003 25.3 4.2 70 3-72 186-260 (410)
317 cd01542 PBP1_TreR_like Ligand- 22.4 3.5E+02 0.0076 20.5 6.1 69 2-77 10-85 (259)
318 cd06826 PLPDE_III_AR2 Type III 22.3 96 0.0021 26.4 3.2 44 29-72 28-73 (365)
319 PRK06222 ferredoxin-NADP(+) re 22.3 1.3E+02 0.0028 24.6 3.8 12 29-40 234-245 (281)
320 cd06825 PLPDE_III_VanT Type II 22.2 99 0.0021 26.5 3.2 30 43-72 44-73 (368)
321 TIGR00511 ribulose_e2b2 ribose 22.2 4.6E+02 0.01 22.0 7.2 77 3-83 122-230 (301)
322 cd08562 GDPD_EcUgpQ_like Glyce 22.2 2.2E+02 0.0048 21.9 5.0 18 40-57 188-205 (229)
323 PRK13340 alanine racemase; Rev 22.1 98 0.0021 26.8 3.2 45 29-73 67-113 (406)
324 COG0182 Predicted translation 22.1 90 0.002 27.2 2.9 61 41-101 219-298 (346)
325 PRK09358 adenosine deaminase; 22.0 3.6E+02 0.0077 22.4 6.5 63 4-73 178-246 (340)
326 PRK07056 amidase; Provisional 22.0 77 0.0017 27.9 2.6 26 40-65 106-131 (454)
327 PRK13210 putative L-xylulose 5 21.8 4.1E+02 0.0088 21.0 7.1 12 12-23 20-31 (284)
328 PF02630 SCO1-SenC: SCO1/SenC; 21.7 3.6E+02 0.0078 20.4 6.9 69 5-76 67-141 (174)
329 PRK07998 gatY putative fructos 21.6 2.7E+02 0.0058 23.5 5.6 54 4-59 109-174 (283)
330 TIGR01093 aroD 3-dehydroquinat 21.6 1.7E+02 0.0036 23.2 4.3 52 8-61 105-158 (228)
331 cd08610 GDPD_GDE6 Glycerophosp 21.5 1.4E+02 0.0029 25.4 3.9 43 38-83 232-275 (316)
332 cd06304 PBP1_BmpA_like Peripla 21.5 3.4E+02 0.0073 21.0 6.0 72 2-78 12-88 (260)
333 cd06333 PBP1_ABC-type_HAAT_lik 21.4 4.2E+02 0.0091 21.0 6.8 70 4-76 144-218 (312)
334 PRK06608 threonine dehydratase 21.4 2.8E+02 0.006 23.5 5.8 42 15-63 89-130 (338)
335 cd08582 GDPD_like_2 Glyceropho 21.2 2.5E+02 0.0054 21.9 5.2 17 39-55 189-205 (233)
336 PF00708 Acylphosphatase: Acyl 21.0 93 0.002 21.0 2.3 29 9-37 19-52 (91)
337 cd00517 ATPS ATP-sulfurylase. 21.0 2.1E+02 0.0046 24.8 5.0 73 27-103 123-213 (353)
338 PRK08198 threonine dehydratase 20.9 2E+02 0.0044 24.7 4.9 43 15-64 87-130 (404)
339 PF04236 Transp_Tc5_C: Tc5 tra 20.9 52 0.0011 21.7 1.0 20 27-46 3-22 (63)
340 cd06325 PBP1_ABC_uncharacteriz 20.8 3.9E+02 0.0085 20.5 8.1 77 1-78 8-89 (281)
341 cd01562 Thr-dehyd Threonine de 20.8 2.2E+02 0.0049 23.0 5.0 39 14-59 81-119 (304)
342 PRK00053 alr alanine racemase; 20.7 1.1E+02 0.0024 25.8 3.3 44 29-72 30-75 (363)
343 cd02072 Glm_B12_BD B12 binding 20.7 2.6E+02 0.0057 20.7 4.9 54 12-73 18-81 (128)
344 cd00331 IGPS Indole-3-glycerol 20.7 4E+02 0.0088 20.5 7.4 28 48-75 118-146 (217)
345 TIGR02739 TraF type-F conjugat 20.6 1.4E+02 0.003 24.8 3.6 83 2-106 161-249 (256)
346 PRK11750 gltB glutamate syntha 20.6 8.8E+02 0.019 25.5 9.7 65 13-81 1055-1123(1485)
347 cd08570 GDPD_YPL206cp_fungi Gl 20.5 2.1E+02 0.0046 22.4 4.6 21 40-60 193-213 (234)
348 cd06349 PBP1_ABC_ligand_bindin 20.4 2.4E+02 0.0052 22.8 5.1 68 3-73 145-217 (340)
349 PRK07488 indole acetimide hydr 20.3 90 0.0019 27.6 2.7 27 39-65 106-132 (472)
350 PLN02746 hydroxymethylglutaryl 20.3 5.7E+02 0.012 22.1 9.1 106 4-111 64-174 (347)
351 PF00218 IGPS: Indole-3-glycer 20.2 2.1E+02 0.0045 23.7 4.6 45 4-58 141-185 (254)
352 PRK07709 fructose-bisphosphate 20.2 3.5E+02 0.0075 22.8 6.0 54 4-59 112-177 (285)
353 PRK06267 hypothetical protein; 20.1 2.6E+02 0.0056 23.8 5.4 72 11-103 156-229 (350)
354 TIGR03127 RuMP_HxlB 6-phospho 20.1 94 0.002 23.3 2.4 47 27-73 73-121 (179)
355 PRK03620 5-dehydro-4-deoxygluc 20.1 1.6E+02 0.0035 24.4 4.0 28 29-56 79-106 (303)
356 PRK09201 amidase; Provisional 20.1 70 0.0015 28.3 1.9 27 39-65 105-131 (465)
357 TIGR00492 alr alanine racemase 20.1 1.4E+02 0.0031 25.2 3.7 44 29-72 29-74 (367)
358 PF01012 ETF: Electron transfe 20.0 1.4E+02 0.003 22.0 3.3 45 3-53 14-60 (164)
No 1
>PRK08931 5'-methylthioadenosine phosphorylase; Provisional
Probab=100.00 E-value=1.9e-45 Score=306.40 Aligned_cols=121 Identities=37% Similarity=0.673 Sum_probs=116.5
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeee
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMAT 80 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VT 80 (148)
|++|||++||++++++|+++|+++|++|||+|++|||||||||+||||+||||+||||++||+++|||+||||++||+||
T Consensus 129 m~~~y~~~Lr~~l~~~a~~~~~~~~~~GvYv~~~GPrfET~AEir~~r~~GaDvVGMStvPEvilAre~Gl~~a~is~VT 208 (289)
T PRK08931 129 MAHPVCPRLGDRLAAAARAEGITVHRGGTYLCMEGPQFSTLAESKLYRSWGCDVIGMTNMPEAKLAREAEICYATVAMVT 208 (289)
T ss_pred CCcccCHHHHHHHHHHHHHcCCeEecceEEEEeeCCCCCCHHHHHHHHHcCCCEeccCccHHHHHHHHcCCceEEEEEEe
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q psy17033 81 DYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAA 121 (148)
Q Consensus 81 N~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~~ 121 (148)
||++|....+++||+||+++++++.+++++||.++|+++++
T Consensus 209 N~a~g~~~~~~~t~eeV~~~~~~~~~~~~~ll~~~i~~l~~ 249 (289)
T PRK08931 209 DYDCWHPDHDAVTVDAVIAVLLANADKARALVARLAPDLGA 249 (289)
T ss_pred cccccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 99999744578999999999999999999999999999954
No 2
>PRK07432 5'-methylthioadenosine phosphorylase; Provisional
Probab=100.00 E-value=9e-45 Score=302.46 Aligned_cols=126 Identities=36% Similarity=0.658 Sum_probs=118.5
Q ss_pred CCcccCHHHHHHHHHHHHHhCC---ceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEE
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGF---KFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVA 77 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi---~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is 77 (148)
|++|||++||+.++++|+++|+ .+|++|||++++|||||||||+||||+||||+||||++||+++|||+||||++||
T Consensus 129 ~~~~y~~~Lr~~l~~~a~~~~~~~~~~~~~GvYv~~~GPrfET~AEir~~r~~GaDvVGMS~vPEvilAre~Gl~~a~ls 208 (290)
T PRK07432 129 FGDPICPALAGVLADAIASLNLPDVTLHRGGTYVCMEGPAFSTKAESNLYRSWGATVIGMTNLPEAKLAREAEIAYATLA 208 (290)
T ss_pred CCCCcCHHHHHHHHHHHHHcCCCccceeCCeEEEEeeCCCCCcHHHHHHHHHcCCCEeccCchHHHHHHHhCCCcEEEEE
Confidence 6899999999999999999887 6888999999999999999999999999999999999999999999999999999
Q ss_pred eeeccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhccccCchH
Q psy17033 78 MATDYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAAKDWTN 126 (148)
Q Consensus 78 ~VTN~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~~~~~~~ 126 (148)
+|||||+|....+++||+||+++++++++++++||.++|+++.+.+|+.
T Consensus 209 ~VTN~a~g~~~~~~~s~eeV~~~~~~~~~~~~~ll~~~i~~l~~~~~~~ 257 (290)
T PRK07432 209 LVTDYDCWHPDHDSVTVEMVIGNLHKNAVNAQKVIQETVRRLSANPPVS 257 (290)
T ss_pred EEeecccccCcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCC
Confidence 9999999975457899999999999999999999999999997755544
No 3
>PRK08564 5'-methylthioadenosine phosphorylase II; Reviewed
Probab=100.00 E-value=8.6e-44 Score=293.66 Aligned_cols=120 Identities=48% Similarity=0.816 Sum_probs=115.2
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHc-CCCeeecccchHHHHHHHcCCceeEEEee
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSW-NAHLVNMTLVPEVVLAKEAGLLYAAVAMA 79 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~-GaDvVGMStvPEvilAre~Gm~~~~is~V 79 (148)
|++|||++||+.+.++|+++|+++|++|||+|++|||||||||+||||+| |||+||||++||+++|||+||||++||+|
T Consensus 133 ~~~~y~~~Lr~~l~~aA~~~g~~~~~~GvY~~~~GP~fET~AEir~~r~~~GaD~VGMS~vpEvilAre~g~~~~~is~V 212 (267)
T PRK08564 133 MADPFCPELRKIIIETAKELGIRTHEKGTYICIEGPRFSTRAESRMWREVFKADIIGMTLVPEVNLACELGMCYATIAMV 212 (267)
T ss_pred CCcccCHHHHHHHHHHHHHcCCceecceEEEEeeCCCcCCHHHHHHHHHccCCCEeccCccHHHHHHHHcCCceEEEEEE
Confidence 67999999999999999999999998899999999999999999999996 99999999999999999999999999999
Q ss_pred eccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q psy17033 80 TDYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAAK 122 (148)
Q Consensus 80 TN~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~~~ 122 (148)
|||++|. .+++||+||+++++++++++++||.++|+.++.+
T Consensus 213 tN~a~g~--~~~~t~~ev~~~~~~~~~~~~~ll~~~i~~l~~~ 253 (267)
T PRK08564 213 TDYDVWA--EKPVTAEEVTRVMAENTEKAKKLLYEAIPRIPEE 253 (267)
T ss_pred eccccCC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 9999993 4889999999999999999999999999999753
No 4
>COG0005 Pnp Purine nucleoside phosphorylase [Nucleotide transport and metabolism]
Probab=100.00 E-value=1.3e-43 Score=291.25 Aligned_cols=117 Identities=40% Similarity=0.647 Sum_probs=109.6
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceec-ceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEee
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHD-KGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMA 79 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~-~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~V 79 (148)
|++|||++||+.+.++|+++.+.+.. +|||+|++||+||||||+||||+||||+||||++||++||||+||||++||+|
T Consensus 145 ~s~~y~~~lr~~l~~~a~~~~~~~~~~~GvYv~~eGP~feT~AEirm~r~~GaDvVGMS~vPEv~lARe~~l~ya~is~v 224 (262)
T COG0005 145 MSDPYDPELREALAEAAKELRLGHPLQEGVYVCVEGPRFETPAEIRMFRSLGADVVGMSTVPEVILARELGLCVAALSLV 224 (262)
T ss_pred CCCcCCHHHHHHHHHHHhhcccCcccCceEEEEecCCCcCCHHHHHHHHHhCCCcccCcCCcHHHHhHhhCCcEEEEEEe
Confidence 68999999999999999965444322 89999999999999999999999999999999999999999999999999999
Q ss_pred eccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy17033 80 TDYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKI 119 (148)
Q Consensus 80 TN~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l 119 (148)
||||+|. .+++||+||++.++++..++.++|.++|+++
T Consensus 225 Tn~aag~--~~~lt~eEV~~~~~~~~~~~~~l~~~~i~~~ 262 (262)
T COG0005 225 TNYAAGI--GQPLTHEEVLEVAKENAEKIAKLLAAAIAKL 262 (262)
T ss_pred ehhhccC--CCCcCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 9999999 5899999999999999999999999999864
No 5
>PRK07823 5'-methylthioadenosine phosphorylase; Validated
Probab=100.00 E-value=3.9e-43 Score=289.42 Aligned_cols=117 Identities=37% Similarity=0.540 Sum_probs=111.1
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeee
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMAT 80 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VT 80 (148)
|++|||++||+.+.++|+ .+++|||+|++|||||||||+||||+||||+||||++||+++|||+||||++||+||
T Consensus 129 m~~~y~~~Lr~~l~~~a~-----~~~~GvY~~~~GP~fET~AEir~~r~~GaDvVGMS~vPEvilAre~gl~~~~is~VT 203 (264)
T PRK07823 129 FADPYCPTLRAAALGLPG-----VVDGGTMVVVQGPRFSTRAESRWFAAQGWSLVNMTGYPEAVLARELELCYAAIALVT 203 (264)
T ss_pred CCcccCHHHHHHHHHHHh-----hcCCeEEEEeeCCCCCCHHHHHHHHHcCCCEeccCccHHHHHHHHCCCceEEEEEEe
Confidence 789999999999999998 356999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q psy17033 81 DYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAAK 122 (148)
Q Consensus 81 N~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~~~ 122 (148)
||++|..+.++++|+||+++++++++++++||.++|++++.+
T Consensus 204 N~a~g~~~~~~~~~eev~~~~~~~~~~~~~ll~~~i~~~~~~ 245 (264)
T PRK07823 204 DLDAGVEAGEGVKAVDVFAEFGRNIERLKRLVRDAIAAVPAE 245 (264)
T ss_pred ccccCcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 999998545799999999999999999999999999999765
No 6
>TIGR01698 PUNP purine nucleotide phosphorylase. methylthioadenosine.
Probab=100.00 E-value=1.4e-42 Score=282.45 Aligned_cols=111 Identities=22% Similarity=0.324 Sum_probs=105.0
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeee
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMAT 80 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VT 80 (148)
|++|||++|| ++|++.|++++ +|||+|++|||||||||+||||+||||+||||++||+++|||+||||++||+||
T Consensus 127 ~~~~yd~~Lr----~~a~~~~~~~~-~GvY~~~~GP~fET~AEir~~r~~GaD~VGMS~vpEvilAre~g~~~a~is~Vt 201 (237)
T TIGR01698 127 LTDAYSPRLR----ELAERVDPPLA-EGVYAWFPGPHYETPAEIRMAGILGADLVGMSTVPETIAARFCGLEVLGVSLVT 201 (237)
T ss_pred CCcccCHHHH----HHHHHcCCCcc-CEEEEEecCCCcCCHHHHHHHHHcCCCEeccCchHHHHHHHHCCCcEEEEEEEe
Confidence 6899999999 56778889877 999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Q psy17033 81 DYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVP 117 (148)
Q Consensus 81 N~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~ 117 (148)
|+|+|.. .+++||+||+++++++.+++++||.++|+
T Consensus 202 N~a~g~~-~~~~th~ev~~~~~~~~~~~~~ll~~~i~ 237 (237)
T TIGR01698 202 NLAAGIT-GTPLSHAEVKAAGAAAGTRLAALLADIIK 237 (237)
T ss_pred ccccCCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 9999985 57899999999999999999999999874
No 7
>KOG3985|consensus
Probab=100.00 E-value=5.7e-42 Score=276.29 Aligned_cols=144 Identities=49% Similarity=0.824 Sum_probs=141.0
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeee
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMAT 80 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VT 80 (148)
|.+|||+++|+++.+.|++++++.|+.|+.+|++||||+|+||+.|||+||||+|+||++||++||||+||+|..+|++|
T Consensus 140 ~~~pf~~k~reil~~~a~~l~~~~hd~~tvVciEGPrFStRAES~mfR~wGa~vINMt~iPE~~LAkEagi~Y~~iamaT 219 (283)
T KOG3985|consen 140 FGPPFSQKLREILISTAKELTNPHHDDGTVVCIEGPRFSTRAESKMFRSWGASVINMTVIPEAKLAKEAGIPYQMIAMAT 219 (283)
T ss_pred CCCCcCHHHHHHHHHHHHHhcCCcCCceeEEEeeCCccchHHHHHHHHHhccceeeeeechHHHHHHhcCcchhhheecc
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhccccCchHHHHHHHhhhHhccCCCCC
Q psy17033 81 DYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAAKDWTNEITELKSVVETSNMSPQS 144 (148)
Q Consensus 81 N~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 144 (148)
||+||...+++||.+.|++++..|..+.+.|+.+++.+|.+++|+.++..||..+++|+|++.+
T Consensus 220 DYDcWr~~ee~Vtve~Vm~~~~~N~~kak~ll~~av~~i~k~~ws~~~~nlk~~v~~si~~~~~ 283 (283)
T KOG3985|consen 220 DYDCWRMEEEPVTVETVMKTLANNVRKAKILLLEAVGSIAKEDWSETGLNLKGSVQNSIMTKPE 283 (283)
T ss_pred chhhhhccCCCccHHHHHHHHHhhhHHHHHHHHHHHHHhcccchhHHHHHHHHHHHhhcccCCC
Confidence 9999998789999999999999999999999999999999999999999999999999999864
No 8
>TIGR01699 XAPA xanthosine phosphorylase. (TIGR01698, TIGR01700).
Probab=100.00 E-value=1.6e-38 Score=259.94 Aligned_cols=115 Identities=25% Similarity=0.375 Sum_probs=110.6
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeee
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMAT 80 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VT 80 (148)
|++|||++||+.++++|+++|++++ +|||++++||||||+||+||+|+||||+||||++||+++|||+||||++||+||
T Consensus 134 ~~~~yd~~Lr~~~~~~a~~~~~~~~-~Gvy~~~~GP~FeT~AE~r~~~~~Gad~VgMs~vpEa~~A~~~g~~~~~i~~Vt 212 (248)
T TIGR01699 134 LANAYDAEYRALLQKVAKEEGFPLT-EGVFVSYPGPNFETAAEIRMMQIIGGDVVGMSVVPEVISARHCDLKVVAVSAIT 212 (248)
T ss_pred CCCccCHHHHHHHHHHHHHcCCcee-eEEEEEeeCCCcCCHHHHHHHHHcCCcEEccchhHHHHHHHHCCCcEEEEEEEe
Confidence 6899999999999999999999987 999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Q psy17033 81 DYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVP 117 (148)
Q Consensus 81 N~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~ 117 (148)
|++.|.. ..++||+||+++++++.+++++||.++|.
T Consensus 213 n~a~g~~-~~~lt~~ev~~~~~~~~~~~~~ll~~~~~ 248 (248)
T TIGR01699 213 NMAEGLS-DVKLSHAQTLAAAELSKQNFINLICGFLR 248 (248)
T ss_pred ecCcCcC-CCCCCHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 9998875 57899999999999999999999999874
No 9
>PRK09136 5'-methylthioadenosine phosphorylase; Validated
Probab=100.00 E-value=3.7e-38 Score=257.25 Aligned_cols=117 Identities=24% Similarity=0.436 Sum_probs=111.0
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeee
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMAT 80 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VT 80 (148)
|++|||++||+.++++|+++|+++|++|||++++||+|||+||+|+||+||||+||||++||+++|||+||||++||+||
T Consensus 127 ~~~~~d~~L~~~~~~~a~~~~~~~~~~Gvy~~~~GP~feT~AE~r~lr~~Gad~VgMs~~pEa~~A~~~gi~~~~i~~Vt 206 (245)
T PRK09136 127 FTHPYSPMLRQRLLAAARAAGVSLVDGGVYAATQGPRLETAAEIARLERDGCDLVGMTGMPEAALARELGLPYACLALVA 206 (245)
T ss_pred CcccCCHHHHHHHHHHHHHcCCcEEeccEEEEeeCCCcCCHHHHHHHHHcCCCEEcCcHHHHHHHHHHcCCCEEEEEEEe
Confidence 57899999999999999999999998899999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Q psy17033 81 DYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVP 117 (148)
Q Consensus 81 N~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~ 117 (148)
|+++|.....++||+||+++++++++++++||.++|.
T Consensus 207 n~a~g~~~~~~~~~~ev~~~~~~~~~~~~~l~~~~i~ 243 (245)
T PRK09136 207 NWAAGRGDSAEITMAEIEAALDAAMGRVRELLERLVR 243 (245)
T ss_pred ecccCcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 9999986323399999999999999999999999875
No 10
>KOG3984|consensus
Probab=100.00 E-value=1.4e-37 Score=251.96 Aligned_cols=119 Identities=29% Similarity=0.501 Sum_probs=111.0
Q ss_pred CCcccCHHHHHHHHHHHHHhCCc--eecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEe
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFK--FHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAM 78 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~--~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~ 78 (148)
|+++||.+||+++.+++|++|+. +| +|||+|+.||.|||+||+||+|.+|+|+||||||||||+|||||++|+++|+
T Consensus 162 ~sdAYd~~lr~~a~~~~K~m~iqr~lh-eGvy~~vgGP~~eT~AE~rmlr~mg~dAVGMStvpEVivArHcG~kVlafsl 240 (286)
T KOG3984|consen 162 LSDAYDKDLRQKALEIGKAMGIQRTLH-EGVYACVGGPIFETRAESRMLRTMGADAVGMSTVPEVIVARHCGLKVLAFSL 240 (286)
T ss_pred hhhhhhHHHHHHHHHHHHHhcccchhh-cceEEEecCCccccHHHHHHHHHhCcccccccccchheeeccCCcEEEEEEE
Confidence 57999999999999999999985 67 9999999999999999999999999999999999999999999999999999
Q ss_pred eeccccccCC---CCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q psy17033 79 ATDYDCWRDT---GNKVCVADVLKTFKENVEKITKLFVHIVPKIA 120 (148)
Q Consensus 79 VTN~a~~~~~---~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~ 120 (148)
|||.+.-..+ +.+++|+||+++.+.+++++++++..++..|.
T Consensus 241 ITn~~~~d~s~sa~~ev~h~evl~v~~~a~~~~~~lVs~lm~~i~ 285 (286)
T KOG3984|consen 241 ITNKAVVDESASADVEVDHDEVLEVGKQAAQACSDLVSRLMYEIH 285 (286)
T ss_pred EeccccccCchhccccCCHHHHHhhhHHHHHHHHHHHHHHHhhcc
Confidence 9999876532 36899999999999999999999999998764
No 11
>PRK08666 5'-methylthioadenosine phosphorylase; Validated
Probab=100.00 E-value=8.7e-34 Score=232.41 Aligned_cols=121 Identities=36% Similarity=0.606 Sum_probs=115.3
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeee
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMAT 80 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VT 80 (148)
|+++||++||+.++++|+++|+++|++|||++++||+|||+||+|++|+||+|+||||++||+++|||+||+|++|++||
T Consensus 127 ~~~~~d~~L~~~~~~~a~~~g~~~~~ggvy~~~~Gp~fet~ae~~~~~~~gad~V~Me~~~e~~~A~~~gi~~~~i~~vs 206 (261)
T PRK08666 127 FTDPYCPELRKALITAARELGLTYHPGGTYVCTEGPRFETAAEIRMFRILGGDLVGMTQVPEAVLARELEMCYATVAIVT 206 (261)
T ss_pred CCcccCHHHHHHHHHHHHHCCCceEeccEEEEeeCCCcCCHHHHHHHHHcCCCEEccchHHHHHHHHHCCCcEEEEEEEe
Confidence 46799999999999999999999998899999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q psy17033 81 DYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAAK 122 (148)
Q Consensus 81 N~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~~~ 122 (148)
|++.|.. +.+++|+++++.+++++.++.+||.+++++++.+
T Consensus 207 n~a~~~~-~~~~~~~e~~~~~~~~~~~~~~ll~~~~~~~~~~ 247 (261)
T PRK08666 207 NYAAGIS-PTKLTHSEVVELMAQNSENIKKLIMKAIELIPKE 247 (261)
T ss_pred eccccCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcC
Confidence 9998875 5789999999999999999999999999999754
No 12
>PRK08202 purine nucleoside phosphorylase; Provisional
Probab=100.00 E-value=1.4e-33 Score=232.98 Aligned_cols=117 Identities=26% Similarity=0.455 Sum_probs=111.4
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeee
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMAT 80 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VT 80 (148)
|+++||++||+.+.++|++.|+++| +|+|++++||+|||+||+|++|+||||+||||++||+++|||+||||++|++||
T Consensus 156 ~~~~~d~~L~~~l~~~a~~~~~~~~-~G~y~~~~Gp~feT~aE~~~~~~~Gad~VgMe~~~ea~lA~~~gi~~~~i~~Vs 234 (272)
T PRK08202 156 MSDAYDPELRALAKKVAKELGIPLQ-EGVYVGVSGPSYETPAEIRMLRTLGADAVGMSTVPEVIVARHCGLKVLGISCIT 234 (272)
T ss_pred CCcccCHHHHHHHHHHHHHcCCcee-eEEEEEeeCCCcCCHHHHHHHHHcCCcEEecChHHHHHHHHHCCCcEEEEEEEe
Confidence 4689999999999999999999998 999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy17033 81 DYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKI 119 (148)
Q Consensus 81 N~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l 119 (148)
|+++|.. .++++|++|+++++++.+++++||.++|+++
T Consensus 235 d~a~~~~-~~~~~~~ev~~~~~~~~~~~~~l~~~~i~~~ 272 (272)
T PRK08202 235 NLAAGIS-DEPLSHEEVLEVAERAAPKFGRLVKAILARL 272 (272)
T ss_pred ccCcCCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 9998864 4789999999999999999999999998763
No 13
>TIGR01700 PNPH purine nucleoside phosphorylase I, inosine and guanosine-specific. Several metazoan enzymes (PNPH) are well characterized including the human and bovine enzymes which have been crystallized.
Probab=99.97 E-value=8.5e-31 Score=213.85 Aligned_cols=115 Identities=27% Similarity=0.425 Sum_probs=108.7
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeee
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMAT 80 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VT 80 (148)
|+++||++||+.+.++++++|++++ +|+|++++||+|+|+||++++|++|||+|||+++||+.+|+|+|++|++|++||
T Consensus 134 ~~~~~d~~L~~~~~~~a~~~~~~~~-~G~y~~~sGp~F~t~aE~~~~~~~gad~V~Me~aaea~~A~~~gv~~~~i~~vs 212 (249)
T TIGR01700 134 MSDAYDRDLRQKAHSIAKQLNIPLQ-EGVYVMLGGPSYETPAEVRLLRTLGADAVGMSTVPEVIVARHCGLRVFGFSLIT 212 (249)
T ss_pred CCcccCHHHHHHHHHHHHHcCCccc-eEEEEEeeCCCcCCHHHHHHHHHcCCCEEecchHHHHHHHHHcCCcEEEEEEEe
Confidence 4678999999999999999999987 999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCC-HHHHHHHHHHHHHHHHHHHHHHHh
Q psy17033 81 DYDCWRDTGNKVC-VADVLKTFKENVEKITKLFVHIVP 117 (148)
Q Consensus 81 N~a~~~~~~~~v~-~eeVl~~~~~~~~~~~~ll~~~i~ 117 (148)
|+++|.. ..+++ |++|.++++++++.+.+||.++|.
T Consensus 213 d~a~~~~-~~~~~~~~~v~~~~~~~~~~~~~ll~~~i~ 249 (249)
T TIGR01700 213 NKAAGIL-DYELSVHEEVMEAAKQAAEKLEKFVSLLIA 249 (249)
T ss_pred ecccccC-cCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 9999874 36789 999999999999999999999863
No 14
>TIGR01697 PNPH-PUNA-XAPA inosine guanosine and xanthosine phosphorylase family. Sequences from Clostridium and Thermotoga fall between these last two clades and are uncharacterized with respect to substrate range and operon.
Probab=99.94 E-value=2.9e-26 Score=186.68 Aligned_cols=114 Identities=29% Similarity=0.476 Sum_probs=107.3
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeec
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATD 81 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN 81 (148)
.++||++|++.+.++|++.|+++| .|+|++++||+|+|++|.++++++|+|+|+|+++||+.+|+++|++|++|++|||
T Consensus 135 ~~~~d~~L~~~l~~~a~~~~~~~~-~G~~~~~~G~~f~t~~e~~~~~~~g~~~VeME~aa~a~lA~~~gv~~~~i~~Vsd 213 (248)
T TIGR01697 135 SNAYDRELRKLAQDVAKELGFPLT-EGVYVMVSGPSYETPAEIRMLRILGADAVGMSTVPEVIVARHCGIKVLAVSLITN 213 (248)
T ss_pred CcccCHHHHHHHHHHHHHcCCcee-eEEEEEEECCCcCCHHHHHHHHHcCCeEEccChHHHHHHHHHCCCcEEEEEEEEe
Confidence 457999999999999999999988 9999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Q psy17033 82 YDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVP 117 (148)
Q Consensus 82 ~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~ 117 (148)
++.|.. ..+++++++.+.++++++.+.++|.++|+
T Consensus 214 ~a~g~~-~~~~~~~~~~~~~~~~~~~~~~ll~~~~~ 248 (248)
T TIGR01697 214 MAAGIT-DVPLSHEEVLAAAAAAAERFISLLEDIIA 248 (248)
T ss_pred cCcccC-CCCCCHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 998864 46799999999999999999999998864
No 15
>TIGR01694 MTAP 5'-deoxy-5'-methylthioadenosine phosphorylase. In between the trusted and noise cutoffs are: 1) several archaeal sequences which appear to contain several residues characteristic of phosphorylases which act on guanosine or inosine (according to the crystal structure of MTAP and alignments). In any case, these residues are not conserved. 2) sequences from Mycobacterium tuberculosis and Streptomyces coelicolor which have better, although not perfect retention of the active site residues, but considering the general observation that bacteria utilize the MTA/SAH nucleotidase enzyme and a kinase to do this reaction, these have been excluded pending stronger evidence of their function, and 3) a sequence from Drosophila which appears to be a recent divergence (long branch in neighbor-joining trees) and lacks some of the conserved active site residues.
Probab=99.93 E-value=1.5e-25 Score=181.64 Aligned_cols=116 Identities=47% Similarity=0.836 Sum_probs=109.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeec
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATD 81 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN 81 (148)
..+||++|++.+.++|+++|+++|++|+|+++.||+|+|++|.++++++|+|+|+|+++||+++|+++|+++++|++|||
T Consensus 126 ~~~~d~~L~~~l~~~a~~~~~~~~~~G~~~~~~G~~f~t~~e~~~~~~~Ga~aVeME~aa~~~vA~~~gv~~~~i~~Vsd 205 (241)
T TIGR01694 126 GDPYCEDLRQRLIESLRRLGLTVHDGGTYVCTEGPRFSTRAESRMFKSWGADIVGMTGVPEAVLARELELCYATLALVTD 205 (241)
T ss_pred CCCCCHHHHHHHHHHHHHcCCcEEeceEEEeCcCCCcCCHHHHHHHHHcCCeEEeccHHHHHHHHHHCCCCEEEEEEEee
Confidence 35699999999999999999999878999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy17033 82 YDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPK 118 (148)
Q Consensus 82 ~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~ 118 (148)
++.+.. .++++++++.+.++++.+.+.+||.++|++
T Consensus 206 ~a~~~~-~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~ 241 (241)
T TIGR01694 206 YDCWIS-ADHVTAEEVEEVMGENVEKAKRILLEAIKK 241 (241)
T ss_pred ccccCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 988864 578999999999999999999999999863
No 16
>PF01048 PNP_UDP_1: Phosphorylase superfamily; InterPro: IPR000845 Phosphorylases in this entry include: Purine nucleoside phosphorylase (2.4.2.1 from EC) (PNP) from most bacteria (gene deoD), which catalyses the cleavage of guanosine or inosine to respective bases and sugar-1-phosphate molecules []. Uridine phosphorylase (2.4.2.3 from EC) (UdRPase) from bacteria (gene udp) and mammals, which catalyses the cleavage of uridine into uracil and ribose-1-phosphate, the products of the reaction are used either as carbon and energy sources or in the rescue of pyrimidine bases for nucleotide synthesis []. 5'-methylthioadenosine phosphorylase (2.4.2.28 from EC) (MTA phosphorylase) from Sulfolobus solfataricus []. Purine nucleoside phosphorylase (2.4.2.1 from EC) (PNP) from mammals as well as from some bacteria (gene deoD). This enzyme catalyzes the cleavage of guanosine or inosine to respective bases and sugar-1-phosphate molecules []. 5'-methylthioadenosine phosphorylase (2.4.2.28 from EC) (MTA phosphorylase) from eukaryotes []. ; GO: 0003824 catalytic activity, 0009116 nucleoside metabolic process; PDB: 3OZE_A 1K27_A 1CB0_A 1CG6_A 1SD1_A 3LN5_C 3OZD_B 3OZC_A 1SD2_A 1U1G_C ....
Probab=99.49 E-value=4.3e-13 Score=105.86 Aligned_cols=112 Identities=19% Similarity=0.280 Sum_probs=102.1
Q ss_pred ccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeeccc
Q psy17033 4 AFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYD 83 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a 83 (148)
++|+.|++.+.+.+++.+++++ .|++++..++.+++++|.+.++.+|++++.|.+.+++.+|++.|+++++|-.|+|+.
T Consensus 123 ~~~~~l~~~~~~~~~~~~~~~~-~G~~~s~~~~~~~~~~~~~~~~~~g~~~vdME~aa~~~~a~~~~ip~~~i~~isD~~ 201 (234)
T PF01048_consen 123 PADPDLREALKEAAKALGIPVH-EGPIASGDSFYRETEAEIELLQKFGADAVDMESAAVAQAARERGIPFIAIRGISDYA 201 (234)
T ss_dssp ESHHHHHHHHHHHHHHTTSTEE-EEEEEEESSSSGSHHHHHHHHHHTTEEEEESSHHHHHHHHHHTT-EEEEEEEEEEET
T ss_pred ccCHHHHHHHHHhhhccccccc-cceEEEEeeeccchhhHHHHHHhcccccccchHHHHHHHHHHcCCCEEEEEEEEcCC
Confidence 4899999999999999999999 799999999999999999999999999999999999999999999999999999986
Q ss_pred cccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Q psy17033 84 CWRDTGNKVCVADVLKTFKENVEKITKLFVHIVP 117 (148)
Q Consensus 84 ~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~ 117 (148)
.... .++.++++..+..+.++..+.+++.++|+
T Consensus 202 ~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~l~ 234 (234)
T PF01048_consen 202 DGGD-DDEWTFEEFKEFLQLAAENAAAILEELLK 234 (234)
T ss_dssp TTTS-SSSSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 5333 46677889999999999999999999874
No 17
>TIGR03468 HpnG hopanoid-associated phosphorylase. The sequences in this family are members of the pfam01048 family of phosphorylases typically acting on nucleotide-sugar substrates. The genes of the family modeled here are generally in the same locus with genes involved in the biosynthesis and elaboration of hopene, the cyclization product of the polyisoprenoid squalene. This gene is adjacent to the genes PhnA-E and squalene-hopene cyclase (which would be HpnF) in Zymomonas mobilis and their association with hopene biosynthesis has been noted in the literature. Extending the gene symbol sequence, we suggest the symbol HpnG for the product of this gene. Hopanoids are known to be components of the plasma membrane and to have polar sugar head groups in Z. mobilis and other species.
Probab=99.35 E-value=1.2e-11 Score=98.68 Aligned_cols=121 Identities=17% Similarity=0.177 Sum_probs=95.6
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHH-HHcCCCeeecccchHHHHHHHcCCceeEEEeeec
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLF-RSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATD 81 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~-r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN 81 (148)
.|||++|.+.+.+.++ .+++++ .|+|++..+|. +|++|.+.+ +.+|+|+|+|.+.+++.+|++.|++++.|.+|||
T Consensus 80 ~~~d~~l~~~l~~~l~-~~~~~~-~G~~~t~d~~~-~~~~~~~~l~~~~ga~aVdMEsaava~va~~~gip~~~ir~ISD 156 (212)
T TIGR03468 80 FPTDPAWRRRLLEALP-AGLRVH-RGVLAASDTVV-STAAAKAALARATGAAAVDMESGAVAAVAAAAGLPFAVIRVISD 156 (212)
T ss_pred ecCCHHHHHHHHHHHH-hCCCeE-EEEEEEeCeEe-cCHHHHHHHHHhcCCcEEeChHHHHHHHHHHcCCCEEEEEEEee
Confidence 4789999999988877 577888 89999999995 789998877 7899999999999999999999999999999999
Q ss_pred cccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhccccCchHHHHHHHh
Q psy17033 82 YDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAAKDWTNEITELKS 133 (148)
Q Consensus 82 ~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~~~~~~~~~~~~~~ 133 (148)
.+... .+... .....+....++.+|+..++.+= ..+.+.|+..+.
T Consensus 157 ~a~~~---~~~~~--~~~~~~~g~~~~~~ll~~l~~~p--~~~~~l~~l~~~ 201 (212)
T TIGR03468 157 PADRA---LPRAA--LDALRPDGSTALAALLRGLLRRP--LRLPALIRLARD 201 (212)
T ss_pred cCCCc---CchhH--HHhcCcccCccHHHHHHHHHhCc--chhHHHHHHHHH
Confidence 86332 22222 33333666777788888887753 456777766653
No 18
>PRK05584 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated
Probab=98.94 E-value=2.1e-08 Score=79.89 Aligned_cols=107 Identities=18% Similarity=0.262 Sum_probs=86.9
Q ss_pred ccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCC-CHHHHHHHHH-c-CCCeeecccchHHHHHHHcCCceeEEEeee
Q psy17033 4 AFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFS-SRAESNLFRS-W-NAHLVNMTLVPEVVLAKEAGLLYAAVAMAT 80 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fE-T~AE~r~~r~-~-GaDvVGMStvPEvilAre~Gm~~~~is~VT 80 (148)
++|++|++.+.+.+++.+++++ .|.++ +|++|. ++.+.+.++. + |++++.|-+.+.+.+|++.|+++++|-.|+
T Consensus 120 ~~d~~L~~~~~~~~~~~~~~~~-~G~~~--s~d~f~~~~~~~~~l~~~~~~~~~veME~aa~a~va~~~~vp~~~ir~vS 196 (230)
T PRK05584 120 KADEKLVALAEKAAKELNLNVH-RGLIA--SGDQFIAGAEKVAAIRAEFPDALAVEMEGAAIAQVCHEFGVPFVVVRAIS 196 (230)
T ss_pred eCCHHHHHHHHHHHHhcCCcEE-EEEEE--EcchhcCCHHHHHHHHHhCCCCeEEechHHHHHHHHHHcCCCEEEEEEec
Confidence 4799999999999999999998 88866 688886 7888888876 6 999999999999999999999999999999
Q ss_pred ccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy17033 81 DYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKI 119 (148)
Q Consensus 81 N~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l 119 (148)
|.+.+. ...+.++.++.+.++.. +++..+|..+
T Consensus 197 d~~~~~---~~~~~~~~~~~a~~~~~---~~~~~~~~~~ 229 (230)
T PRK05584 197 DTADDE---AHVSFDEFLAVAAKYSA---NILKRMLEKL 229 (230)
T ss_pred cCCCCc---ccccHHHHHHHHHHHHH---HHHHHHHHhc
Confidence 986432 33467777665555444 6777776654
No 19
>TIGR01704 MTA/SAH-Nsdase 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase. There are homologs of this enzyme in plants, some of which score between trusted and noise cutoffs here, but there is no experimental evidence to validate this function at this time.
Probab=97.47 E-value=0.0032 Score=50.48 Aligned_cols=106 Identities=13% Similarity=0.184 Sum_probs=78.7
Q ss_pred cCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCH-HHHHHH-HHc-CCCeeecccchHHHHHHHcCCceeEEEeeec
Q psy17033 5 FDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSR-AESNLF-RSW-NAHLVNMTLVPEVVLAKEAGLLYAAVAMATD 81 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~-AE~r~~-r~~-GaDvVGMStvPEvilAre~Gm~~~~is~VTN 81 (148)
-|++|.+.+.+.+++++.+++ .|. +.+|-.|-+- .+.+.+ +.+ |+++|-|=+..=+.+|+..|++++.|=.|+|
T Consensus 120 ~d~~L~~~~~~~~~~~~~~~~-~G~--i~T~d~f~~~~~~~~~l~~~~~~~~~vdME~aAva~va~~~~ip~~~iR~ISD 196 (228)
T TIGR01704 120 ADDKLIAAAEACIAELNLNAV-RGL--IVSGDAFINGSVGLAKIRHNFPQAIAVEMEATAIAHVCHNFNVPFVVVRAISD 196 (228)
T ss_pred CCHHHHHHHHHHHHhcCCCeE-EEE--EEEcChhcCCHHHHHHHHHHCCcccEecccHHHHHHHHHHhCCCEEEEEEecc
Confidence 488999999999999998888 775 4456666544 334444 455 8999999999999999999999999999999
Q ss_pred cccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy17033 82 YDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKI 119 (148)
Q Consensus 82 ~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l 119 (148)
.+... ...+.++.++.+. ....+++..+|+++
T Consensus 197 ~a~~~---~~~~~~~~~~~aa---~~~~~~~~~~~~~~ 228 (228)
T TIGR01704 197 VADQQ---SHLSFDEFLAVAA---KQSSLMVESLVQKL 228 (228)
T ss_pred cCCCc---cccCHHHHHHHHH---HHHHHHHHHHHHhC
Confidence 86322 2345666654444 44447777777653
No 20
>TIGR01721 AMN-like AMP nucleosidase, putative. The sequences in the clade represented by this model are most closely related to the AMP nucleosidase found in TIGR01717. These sequences are found only in Chlamydia and Porphyromonas and differ sufficiently from the characterized AMP nucleosidase to put some doubt on assignment of this name.
Probab=97.44 E-value=0.0024 Score=53.22 Aligned_cols=78 Identities=14% Similarity=0.111 Sum_probs=69.6
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH-HHHHcCCCeeecccchHHHHHHHcCCceeEEEeeecccc
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN-LFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDC 84 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r-~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a~ 84 (148)
|++|.+.+.++++++|++++ .|+-....+.-+||..+.+ .++..|+.+|=|=+..=..+|+..|+++++|-+|+|...
T Consensus 134 d~~l~~~l~~a~~~~g~~~~-~G~v~TtD~~F~e~~~~~~~~~~~~ga~aVEMEsAAL~ava~~~~vp~~~il~VSD~~~ 212 (266)
T TIGR01721 134 NFVVQKAITSALENKGKDYH-IGITHTTNIRFWEFNKKFRDKLYETKAQGVEMECATLFTAGYRRNLPXGALLLISDLPL 212 (266)
T ss_pred CHHHHHHHHHHHHHcCCCeE-EEEEEcCCCcEeCCcHHHHHHHHHcCCEEEehhHHHHHHHHHHcCCCeEEEEEECCCCC
Confidence 67899999999999999998 8988888888899877655 458899999999999999999999999999999999753
No 21
>TIGR00107 deoD purine-nucleoside phosphorylase, family 1 (deoD). Purine nucleoside phosphorylase (also called inosine phosphorylase) is a purine salvage enzyme. Purine nucleosides, such as guanosine, inosine, or xanthosine, plus orthophosphate, can be converted to their respective purine bases (guanine, hypoxanthine, or xanthine) plus ribose-1-phosphate. This family of purine nucleoside phosphorylase is restricted to the bacteria.
Probab=97.38 E-value=0.0069 Score=48.94 Aligned_cols=105 Identities=15% Similarity=0.190 Sum_probs=77.4
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeeccccc
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCW 85 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a~~ 85 (148)
|++|.+.+.+.++++++++| .|.-+...+.-=++..-.+.++..|+..+=|=+.-=+.+|+..|++.++|..|+|....
T Consensus 127 d~~l~~~l~~~~~~~~~~~~-~G~~~S~D~f~~~~~~~~~~~~~~g~~~vEME~aal~~va~~~~~~~~~i~~vsd~~~~ 205 (232)
T TIGR00107 127 DFELVELAYQTAKALGLDFH-VGNVFSADAFYQPDKDVFDLMAKYGILAVEMEAAALYANAAELGAKALTILTVSDHLVT 205 (232)
T ss_pred CHHHHHHHHHHHHHCCCCeE-EEEEeEcCcccCCCHHHHHHHHHcCCeEEehhHHHHHHHHHHcCCcEEEEEEEEeeccc
Confidence 89999999999999999998 78765555543345544677899999999999999999999999999999999997543
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy17033 86 RDTGNKVCVADVLKTFKENVEKITKLFVHIVPK 118 (148)
Q Consensus 86 ~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~ 118 (148)
. +..+.++ ..++.+++-++..+.+.+
T Consensus 206 ~---~~~~~~~----~~~~~~~~~~~al~~~~~ 231 (232)
T TIGR00107 206 H---EALTAEE----RQTTFKDMIILALEMVSQ 231 (232)
T ss_pred C---CCCChHH----HHHHHHHHHHHHHHHHhc
Confidence 2 2233344 334444444555554443
No 22
>PRK07115 AMP nucleosidase; Provisional
Probab=97.30 E-value=0.0067 Score=50.21 Aligned_cols=77 Identities=10% Similarity=0.162 Sum_probs=67.1
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH-HHHHcCCCeeecccchHHHHHHHcCCceeEEEeeeccc
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN-LFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYD 83 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r-~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a 83 (148)
|.+|.+.+.++++++|+++| .|+-......-++|..+.+ .++.+|+++|=|=+..=..+|+..|+++++|-.|+|..
T Consensus 133 d~~l~~~l~~~~~~~~~~~~-~G~v~StD~ff~~~~~~~~~~~~~~g~~avEME~AAl~~va~~~gv~~~~i~~isD~~ 210 (258)
T PRK07115 133 NFVLQKAVSSIIRDKGLDYW-TGTVYTTNRRFWEHDKEFKEYLYETRAQAIDMETATLFAAGFANNIPTGALLLISDLP 210 (258)
T ss_pred CHHHHHHHHHHHHHcCCCeE-EEEEEecCCCccCCcHHHHHHHHHcCCeEEehhHHHHHHHHHHcCCcEEEEEEEeccc
Confidence 56799999999999999998 8887777777777776654 56689999999999999999999999999999999975
No 23
>PRK05819 deoD purine nucleoside phosphorylase; Reviewed
Probab=97.08 E-value=0.023 Score=45.92 Aligned_cols=79 Identities=16% Similarity=0.092 Sum_probs=65.4
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeeccccc
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCW 85 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a~~ 85 (148)
|++|.+.+.+.+++.++++| .|.-+...+.-=++..-.+.++..|+..|=|=+.-=+.+|+..|++.++|..|+|....
T Consensus 130 d~~l~~~~~~~~~~~~~~~~-~G~v~T~D~f~~~~~~~~~~~~~~g~~~vEME~aAva~va~~~~ip~~~i~~isd~~~~ 208 (235)
T PRK05819 130 DFDLLRKAYDAAKEKGITVH-VGNVFSADLFYNPDPEMFDVLEKYGVLGVEMEAAALYGLAAKYGVKALTILTVSDHIVT 208 (235)
T ss_pred CHHHHHHHHHHHHHCCCcEE-EEEEEecCcccCCCHHHHHHHHHcCCeEEeccHHHHHHHHHHhCCCEEEEEEEeeeccc
Confidence 78999999999999999988 78655544333245545667889999999999999999999999999999999997543
No 24
>TIGR03664 fut_nucase futalosine nucleosidase. This enzyme catalyzes the conversion of futalosine to de-hypoxanthine futalosine in a pathway for the biosynthesis of menaquinone distinct from the pathway observed in E. coli.
Probab=97.00 E-value=0.0062 Score=48.84 Aligned_cols=78 Identities=17% Similarity=0.213 Sum_probs=66.0
Q ss_pred cCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHH-HHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeeccc
Q psy17033 5 FDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAES-NLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYD 83 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~-r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a 83 (148)
.|++|.+.+.+.++..+++++ .|.-+...... .|..+. ..++.+|+++|-|=+..=+.+|+..|++++.|=.|+|.+
T Consensus 120 ~d~~L~~~~~~~~~~~~~~~~-~G~i~T~d~~~-~~~~~~~~l~~~~~a~aveMEsaava~va~~~~vP~~~IR~ISD~~ 197 (222)
T TIGR03664 120 LDPDLVERAVQLLRALGLPVA-RGPFLTVSTVS-GTAARAEALARRFGAVAENMEGFAVALAALRYGVPFLELRGISNLV 197 (222)
T ss_pred CCHHHHHHHHHHhhccCccee-Eeeeeeeccee-CCHHHHHHHHHhcchHHHHhhHHHHHHHHHHhCCCEEEEEeeccCC
Confidence 389999999999999999888 78777766654 345454 466789999999999999999999999999999999996
Q ss_pred c
Q psy17033 84 C 84 (148)
Q Consensus 84 ~ 84 (148)
.
T Consensus 198 ~ 198 (222)
T TIGR03664 198 G 198 (222)
T ss_pred C
Confidence 3
No 25
>PLN02584 5'-methylthioadenosine nucleosidase
Probab=96.89 E-value=0.013 Score=48.03 Aligned_cols=89 Identities=12% Similarity=0.118 Sum_probs=73.9
Q ss_pred ceEEEEeCCCCC-CCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeeccccccCCCCCCCHHHHHHHHHHHH
Q psy17033 27 KGTAVCIEGPRF-SSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLKTFKENV 105 (148)
Q Consensus 27 ~GvY~~~~GP~f-ET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a~~~~~~~~v~~eeVl~~~~~~~ 105 (148)
.|.. .+|.+| .++.+.+.++.+|+++|-|=+..=+.+|+..|++++.|=.|+|.+.. +..+.++..+.+..+.
T Consensus 154 ~G~i--~SgD~F~~~~~~~~~~~~~~a~~vDME~aAia~va~~~gvp~~~IR~ISD~~~~----~~~~~~ef~~~~~~a~ 227 (249)
T PLN02584 154 EGVL--STGNSLDMTEQDEESIKANDATVKDMEGAAVAYVADLLKVPAIFVKAVTDIVDG----DKPTAEEFLENLSAAA 227 (249)
T ss_pred EEEE--EEeCEEeCCHHHHHHHHHcCCcEEechHHHHHHHHHHhCCCEEEEEEEeecCCC----CCCCHHHHHHHHHHHH
Confidence 5654 579999 56666667788999999999999999999999999999999997532 2237888999999999
Q ss_pred HHHHHHHHHHHhhccc
Q psy17033 106 EKITKLFVHIVPKIAA 121 (148)
Q Consensus 106 ~~~~~ll~~~i~~l~~ 121 (148)
..+.+.|..++.-|..
T Consensus 228 ~~~~~~l~~~~~~~~~ 243 (249)
T PLN02584 228 AALQGAVPKVLDFISG 243 (249)
T ss_pred HHHHHHHHHHHHHhcC
Confidence 9999999988887754
No 26
>PRK13374 purine nucleoside phosphorylase; Provisional
Probab=96.78 E-value=0.043 Score=44.43 Aligned_cols=79 Identities=14% Similarity=0.041 Sum_probs=64.8
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeeccccc
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCW 85 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a~~ 85 (148)
|++|.+.+.+.+++.|++++ .|.-+....--=++..-.+.++..|+..|=|=+..=+.+|+..|+++++|..|+|....
T Consensus 131 d~~l~~~~~~~~~~~~~~~~-~G~i~T~D~F~~~~~~~~~~~~~~g~~~vEME~aAl~~va~~~gip~~~i~~isD~~~~ 209 (233)
T PRK13374 131 DYQLLEKAVETAREKGVPVK-VGNVFSSDLFYDPDEDAIEAMERFGILGVDMEVAGLYGLAAYLGAEALAILTVSDHIIT 209 (233)
T ss_pred CHHHHHHHHHHHHHcCCCeE-EEEEEEcCcccCCChHHHHHHHHcCCeEEehhHHHHHHHHHHcCCCEEEEEEEEeeecc
Confidence 77899999999999999988 77755555432234444567788999999999999999999999999999999998643
No 27
>COG0813 DeoD Purine-nucleoside phosphorylase [Nucleotide transport and metabolism]
Probab=96.45 E-value=0.11 Score=42.74 Aligned_cols=87 Identities=17% Similarity=0.121 Sum_probs=69.0
Q ss_pred cCHHHHHHHHHHHHHhCCceecceEEEE-eCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeeccc
Q psy17033 5 FDNSTRQIIIDSLKELGFKFHDKGTAVC-IEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYD 83 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~-~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a 83 (148)
=|.+|.+.+.++|+++|+++| .|...+ -.=++.+ +--...++.+|...|-|-+.-=-.+|+++|-+-++|..|+|.-
T Consensus 130 ad~~Ll~~a~~~A~e~gi~~h-vgnv~ssD~FY~~~-~~~~~~~~~~gvlaVeMEaaalY~~A~~~~~~Al~ilTVSD~l 207 (236)
T COG0813 130 ADFELLEKAYETAKELGIDTH-VGNVFSSDLFYNPD-TEMFDLMAKYGVLAVEMEAAALYAVAAEYGKKALTILTVSDHL 207 (236)
T ss_pred CCHHHHHHHHHHHHHhCCcee-eeeeeeeecccCCC-HHHHHHHHHhCCcEEEeeHHHHHHHHHHhCcceEEEEEeeccc
Confidence 378999999999999999999 554444 4445556 4456677899999999999888899999999999999999963
Q ss_pred cccCCCCCCCHHH
Q psy17033 84 CWRDTGNKVCVAD 96 (148)
Q Consensus 84 ~~~~~~~~v~~ee 96 (148)
.. .+.++.+|
T Consensus 208 --~t-~E~~s~ee 217 (236)
T COG0813 208 --VT-GEETSAEE 217 (236)
T ss_pred --cC-cccCCHHH
Confidence 22 35566665
No 28
>TIGR01719 euk_UDPppase uridine phosphorylase. This model represents a clade of mainly eucaryotic uridine phosphorylases. Genes from human and mouse have been characterized. This enzyme is a member of the PHP/UDP subfamily (pfam01048) and is closely related to the bacterial uridine (TIGR01718) and inosine (TIGR00107) phosphorylase equivalogs. In addition to the eukaryotes, a gene from Mycobacterium leprae is included in this equivalog and may have resulted from lateral gene transfer.
Probab=96.43 E-value=0.097 Score=43.88 Aligned_cols=105 Identities=15% Similarity=0.085 Sum_probs=70.3
Q ss_pred cCHHHHHHHHHHHHH--hCCceecceEEEEeCCCCCCC-----------------HHHHHHHHHcCCCeeecccchHHHH
Q psy17033 5 FDNSTRQIIIDSLKE--LGFKFHDKGTAVCIEGPRFSS-----------------RAESNLFRSWNAHLVNMTLVPEVVL 65 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~--~gi~~~~~GvY~~~~GP~fET-----------------~AE~r~~r~~GaDvVGMStvPEvil 65 (148)
-|++|.+.+.++|++ .|+++| .|. .++|..|=. +..++.+..+|+..|=|=+..=..+
T Consensus 159 aD~~L~~~l~~aa~~~~~~~~~~-~G~--i~S~D~Fy~~q~r~~~~~~~~~~~~~~~~i~~~~~~gv~~vEMEsaal~~v 235 (287)
T TIGR01719 159 LDEALVQELLLCGAEGLDEFTTV-SGN--TMCTDDFYEGQGRLDGAFCEYTEKDKMAYLRKLYALGVRNIEMESSMFAAM 235 (287)
T ss_pred CCHHHHHHHHHHHHhhcCCCCeE-EEE--EccCCcccCCCCcccccccccchhhhHHHHHHHHHcCCeEEehhHHHHHHH
Confidence 389999999999999 788877 554 334444433 3444555567999999999999999
Q ss_pred HHHcCCceeEEE-eeeccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy17033 66 AKEAGLLYAAVA-MATDYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPK 118 (148)
Q Consensus 66 Are~Gm~~~~is-~VTN~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~ 118 (148)
|+..|++.++|+ ++.|...+.. ...+ ++. ..+...+..+++.++|.+
T Consensus 236 a~~~gv~a~~I~~~i~~r~~~~~--~~~~-~~~---~~~~~~~~~~~~~~~i~~ 283 (287)
T TIGR01719 236 TSRAGFKAAVVCVTLLNRLEGDQ--ITIT-RDQ---LHEFEQRPQRLVSRYIKK 283 (287)
T ss_pred HHHcCCcEEEEEEeeeccccCCc--cccc-hhH---HHHHHHHHHHHHHHHHHH
Confidence 999999999998 5566533221 1112 222 234445555666665554
No 29
>PRK07077 hypothetical protein; Provisional
Probab=96.43 E-value=0.077 Score=43.54 Aligned_cols=108 Identities=18% Similarity=0.181 Sum_probs=76.6
Q ss_pred ccCHHHHHHHHHHHHHh--CCceecceEEEEeCCCCCCCHHHHH-HHHHcCCCeeecccchHHHHHHHcCCceeEEEeee
Q psy17033 4 AFDNSTRQIIIDSLKEL--GFKFHDKGTAVCIEGPRFSSRAESN-LFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMAT 80 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~--gi~~~~~GvY~~~~GP~fET~AE~r-~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VT 80 (148)
+.|+.+.+.+.+..... +.+++ .|..+...-+-- |.++.+ ..+..|+++|-|=+..=+-+|.+.|++++.|=.|+
T Consensus 89 ~~d~~l~~~l~~~l~~~~~~~~v~-~G~i~T~D~~v~-~~~~k~~L~~~~gA~aVDMEsaAvA~va~~~giPf~viR~IS 166 (238)
T PRK07077 89 DTDARWSARLAAALELTPVARRVV-RGGLAGVEAPVV-GAAAKAALHRATGALAVDMESHIAAAFAAARGLPFAACRVIV 166 (238)
T ss_pred cCCHHHHHHHHHHHHhccCCCceE-EEEEEecCeeec-CHHHHHHHHHhCCCEEEehhHHHHHHHHHHcCCCEEEEEEEE
Confidence 46888988888877654 34666 776655555544 445544 45679999999999998999999999999999999
Q ss_pred cccc---------ccCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q psy17033 81 DYDC---------WRDTGNKVCVADVLKTFKENVEKITKLFV 113 (148)
Q Consensus 81 N~a~---------~~~~~~~v~~eeVl~~~~~~~~~~~~ll~ 113 (148)
|.+. +...+..++...++..+-+.-..+..|+.
T Consensus 167 D~a~~~LP~~~~~~~~~~g~~~~~~~l~~l~r~P~~i~~Ll~ 208 (238)
T PRK07077 167 DPAWRTLPAAATAGLRDDGSTDILPILRGLARQPSQLGALLQ 208 (238)
T ss_pred eccCccCchhHHhhcCCCcCcCHHHHHHHHHhChHHHHHHHH
Confidence 9864 11123456677777666666555555553
No 30
>PRK14697 bifunctional 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase/phosphatase; Provisional
Probab=96.25 E-value=0.21 Score=40.34 Aligned_cols=107 Identities=13% Similarity=0.193 Sum_probs=77.5
Q ss_pred CHHHHHHHHHHHHH--hCCceecceEEEEeCCCCCC-CHHHHH-HHHHcCCCeeecccchHHHHHHHcCCceeEEEeeec
Q psy17033 6 DNSTRQIIIDSLKE--LGFKFHDKGTAVCIEGPRFS-SRAESN-LFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATD 81 (148)
Q Consensus 6 d~~Lr~~~~~~a~~--~gi~~~~~GvY~~~~GP~fE-T~AE~r-~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN 81 (148)
|.+|.+.+.+.+.. .+++++ .|.- .+|-+|= ++.+.. .++.+|+++|=|=+..=+.+|+..|++++.|=.|+|
T Consensus 119 ~~~l~~~~~~~~~~~~~~~~~~-~G~i--~SgD~fi~~~~~~~~l~~~~~~~~vdME~aAva~v~~~~~vpfl~iR~ISD 195 (233)
T PRK14697 119 SKELVELARKACNSSSLHIEIH-EGRI--VSGECFVEDSKLKAKLIDEYAPHCTEMEGAAIGHVAYINEVPFLVIRCISD 195 (233)
T ss_pred CHHHHHHHHHHhhhccCCccEE-EeEE--EEcCeecCCHHHHHHHHHhcCCeEEEehHHHHHHHHHHcCCCEEEEEEecc
Confidence 77888888777654 356666 5654 4477776 455544 457899999999999999999999999999999999
Q ss_pred cccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q psy17033 82 YDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAA 121 (148)
Q Consensus 82 ~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~~ 121 (148)
.+.. ....+.++..+ ..+.+..+++.+++.++..
T Consensus 196 ~a~~---~~~~~~~~~~~---~aa~~~~~~~~~~l~~~~~ 229 (233)
T PRK14697 196 SADD---EAQISYDDFAK---TAANYCSEIIVEMLKNISS 229 (233)
T ss_pred CCCC---CCcCCHHHHHH---HHHHHHHHHHHHHHHHhhh
Confidence 8632 23456677664 4445555777777776643
No 31
>PRK06714 S-adenosylhomocysteine nucleosidase; Validated
Probab=96.21 E-value=0.12 Score=41.92 Aligned_cols=104 Identities=13% Similarity=0.029 Sum_probs=75.4
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH--HHHHcCCCeeecccchHHHHHHHcCCceeEEEeeeccc
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN--LFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYD 83 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r--~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a 83 (148)
|++|...+.+... +.+++ .|.- .+|-+|-+-.|.+ .++..|+++|-|=+..=+-+|...|++++.|=.|+|.+
T Consensus 124 ~~~l~~~~~~~~~--~~~~~-~G~i--~SgD~Fv~~~~~~~~l~~~~~a~~vdME~aAvA~vc~~~~vP~l~IR~ISD~a 198 (236)
T PRK06714 124 TKSLVRRIKKIRS--YDPIH-FGTF--LSGDQRIRSSEMRYLLHTVYGALAVDQEVAAFAYVCQINKKPFLCLKAASDQA 198 (236)
T ss_pred CHHHHHHHHHHhc--cCCeE-EeEE--EecCeecCCHHHHHHHHHHCCCeEEEehHHHHHHHHHHhCCCEEEEEEeccCC
Confidence 5677776665533 33455 5644 4699998655544 45789999999999999999999999999999999975
Q ss_pred cccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q psy17033 84 CWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIA 120 (148)
Q Consensus 84 ~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~ 120 (148)
. . ....+.++.+..+.++ ..+++.++|+++.
T Consensus 199 ~-~--~~~~~~~~f~~~aa~~---sa~~~~~~l~~~~ 229 (236)
T PRK06714 199 N-D--KTKEEQKIFKMLACER---ACEHLIAFLRVYE 229 (236)
T ss_pred C-C--ccccCHHHHHHHHHHH---HHHHHHHHHHHhH
Confidence 3 2 2345667666555555 4477888887764
No 32
>PRK06698 bifunctional 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase/phosphatase; Validated
Probab=96.12 E-value=0.14 Score=44.97 Aligned_cols=106 Identities=14% Similarity=0.188 Sum_probs=77.1
Q ss_pred CHHHHHHHHHHHHHh--CCceecceEEEEeCCCCCCCH-HHHH-HHHHcCCCeeecccchHHHHHHHcCCceeEEEeeec
Q psy17033 6 DNSTRQIIIDSLKEL--GFKFHDKGTAVCIEGPRFSSR-AESN-LFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATD 81 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~--gi~~~~~GvY~~~~GP~fET~-AE~r-~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN 81 (148)
|.+|.+.+.+.++.. +..++ .|.-+ +|-+|=+- .+.. .++.+|+++|=|=+..=+-+|...|++++.|=.|+|
T Consensus 119 d~~l~~~~~~~~~~~~~~~~~~-~G~i~--sgd~f~~~~~~~~~l~~~~~a~~veME~aava~va~~~~vp~~~iR~iSD 195 (459)
T PRK06698 119 SKELVELARKACNSSSLHMEIH-EGRIV--SGECFVEDSKLKAKLIDEYAPHCTEMEGAAIGHVAYINEVPFLVIRCISD 195 (459)
T ss_pred CHHHHHHHHHHHHhccCCccEE-EeeEE--ecCeecCCHHHHHHHHHHcCCcEEehhhHHHHHHHHHcCCCEEEEEEecc
Confidence 678888888888764 44566 56543 48888764 4444 467899999999999999999999999999999999
Q ss_pred cccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q psy17033 82 YDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIA 120 (148)
Q Consensus 82 ~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~ 120 (148)
.+. . ....+.++..+.+. ....+++.++|.++.
T Consensus 196 ~a~-~--~~~~~~~~~~~~a~---~~~~~~v~~~l~~~~ 228 (459)
T PRK06698 196 SAD-D--EAQISYDDFAKTAA---NYCSEIIVEMLKTIS 228 (459)
T ss_pred CCC-C--CCccCHHHHHHHHH---HHHHHHHHHHHHHhc
Confidence 753 2 24556777664443 334467777777663
No 33
>TIGR01718 Uridine-psphlse uridine phosphorylase. Sequences from Clostridium, Streptomyces, Treponema, Halobacterium and Pyrobaculum were included above trusted on the basis of sequence homology and a PAM-based neighbor-joining tree. A clade including second sequences from Halobacterium and Vibrio was somewhat more distantly related and may represent a slightly different substrate specificity - these were placed below the noise cutoff. More distantly related is a clade of archaeal sequences which as related to the DeoD family of inosine phosphorylases (TIGR00107) as they are to these uridine phosphorylases. This clade includes a characterized protein from Sulfolobus solfataricus which has been mis-named as a methylthioadenosine phosphorylase, but which acts on inosine and guanosine - it is unclear whether uridine has been evaluated as a substrate.
Probab=95.66 E-value=0.35 Score=39.31 Aligned_cols=76 Identities=13% Similarity=0.140 Sum_probs=58.8
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCC-------------CCHHHHHHHHHcCCCeeecccchHHHHHHHcCCc
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRF-------------SSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLL 72 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~f-------------ET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~ 72 (148)
|.++.+.+.+.++++|++++ .|+-+...+.-- +++...+.++..|++.|=|=+..=..+|+..|++
T Consensus 126 d~~l~~~l~~~~~~~~~~~~-~G~v~T~D~F~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~vEME~aal~~va~~~gi~ 204 (245)
T TIGR01718 126 DFEVTTALVEAAESIGVRHH-VGVVASSDTFYPGQERDTYSGRVVRHFKGSMEAWQAMGVLNYEMESATLFTLCSSQGLR 204 (245)
T ss_pred CHHHHHHHHHHHHHcCCCeE-EEEEEECCcCcCCCCccccccccchhHHHHHHHHHHcCceEehhhHHHHHHHHHHcCCc
Confidence 78899999999999999988 776544433211 2233344666789999999999999999999999
Q ss_pred eeEEEeeecc
Q psy17033 73 YAAVAMATDY 82 (148)
Q Consensus 73 ~~~is~VTN~ 82 (148)
..+++++.+.
T Consensus 205 ~~~v~~~~~~ 214 (245)
T TIGR01718 205 AGMVAGVIVN 214 (245)
T ss_pred EEEEEEEEec
Confidence 9999876664
No 34
>PRK07164 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional
Probab=95.32 E-value=0.39 Score=38.72 Aligned_cols=83 Identities=10% Similarity=0.139 Sum_probs=65.6
Q ss_pred EeCCCCCCC-HHHHHHHHHc-CCCeeecccchHHHHHHHcCCceeEEEeeeccccccCCCCCCCHHHHHHHHHHHHHHHH
Q psy17033 32 CIEGPRFSS-RAESNLFRSW-NAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLKTFKENVEKIT 109 (148)
Q Consensus 32 ~~~GP~fET-~AE~r~~r~~-GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a~~~~~~~~v~~eeVl~~~~~~~~~~~ 109 (148)
..+|.+|=. +.+...++.+ |+++|=|=+..=+-+|+..|++++.|=.|+|.+ . +..+.++.-+..++.+....
T Consensus 134 i~SgD~Fi~~~~~~~~l~~~~~a~~vDME~aAiaqv~~~~~vpf~~ir~ISD~~-~----~~~~~~~~~~~~~~a~~~~~ 208 (218)
T PRK07164 134 LGSSNSFIFDLDKLKIIKDFIFVSFFDMEAFALAQVCFKNKVKFYCIKYVSDFI-E----NNSDIEIVNNNIKKGSKKAL 208 (218)
T ss_pred EEeCCccCCCHHHHHHHHhcCCCcEEEchHHHHHHHHHHcCCCEEEEEEEccCC-C----CCCCHHHHHHHHHHHHHHHH
Confidence 457888875 4555566777 999999999999999999999999999999986 2 23456666677777777777
Q ss_pred HHHHHHHhhc
Q psy17033 110 KLFVHIVPKI 119 (148)
Q Consensus 110 ~ll~~~i~~l 119 (148)
+++.++++++
T Consensus 209 ~~v~~~l~~~ 218 (218)
T PRK07164 209 EFIFELLENI 218 (218)
T ss_pred HHHHHHHhhC
Confidence 8888887764
No 35
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=94.36 E-value=0.32 Score=40.58 Aligned_cols=78 Identities=19% Similarity=0.339 Sum_probs=56.3
Q ss_pred HHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee-----ecc--cchHHHHHHHcCCceeEEEeeeccccccCCC
Q psy17033 17 LKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV-----NMT--LVPEVVLAKEAGLLYAAVAMATDYDCWRDTG 89 (148)
Q Consensus 17 a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV-----GMS--tvPEvilAre~Gm~~~~is~VTN~a~~~~~~ 89 (148)
+.++|++ .+.+++..|| |....|..+++++++|+| |=+ +..=+..|+++|++|..|.=-.||-++..
T Consensus 166 ~~~~~~p---~~~Iia~~GP-fs~~~n~all~q~~id~vItK~SG~~Gg~~~Ki~aA~eLgi~VI~I~Rp~~~~~~~~-- 239 (257)
T COG2099 166 CEDLGVP---PARIIAMRGP-FSEEDNKALLEQYRIDVVVTKNSGGAGGTYEKIEAARELGIPVIMIERPIDYPAGFG-- 239 (257)
T ss_pred HHhcCCC---hhhEEEecCC-cChHHHHHHHHHhCCCEEEEccCCcccCcHHHHHHHHHcCCcEEEEecCCcCCcccc--
Confidence 4445655 5689999999 999999999999999998 333 34446679999999999987766643332
Q ss_pred CCCCHHHHHHHHHH
Q psy17033 90 NKVCVADVLKTFKE 103 (148)
Q Consensus 90 ~~v~~eeVl~~~~~ 103 (148)
+..++.+....
T Consensus 240 ---~v~~~~~~l~~ 250 (257)
T COG2099 240 ---DVTDLDAALAQ 250 (257)
T ss_pred ---hhhHHHHHHHH
Confidence 34455544443
No 36
>PRK11178 uridine phosphorylase; Provisional
Probab=94.34 E-value=1.1 Score=36.66 Aligned_cols=76 Identities=14% Similarity=0.180 Sum_probs=59.5
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCC-----CC---------CCHHHHHHHHHcCCCeeecccchHHHHHHHcCC
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGP-----RF---------SSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGL 71 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP-----~f---------ET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm 71 (148)
|.++...+.+.++++++++| .|+-+...+- +. +++...+.++..|+..|=|=+.-=+.+|...|+
T Consensus 131 ~~~~~~~L~~~~~~~~~~~~-~G~i~S~D~Fy~~~~~~~~~~~~i~~~~~~~~~~~~~~g~~avEMEsAAla~va~~~gv 209 (251)
T PRK11178 131 DFECTTALVEAAKSIGATTH-VGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGL 209 (251)
T ss_pred CHHHHHHHHHHHHHcCCCEE-EEEEeecCcccCCCCccccccccchhhHHHHHHHHHHcCCeEEehhHHHHHHHHHHcCC
Confidence 67788888999999999988 7764433322 11 235566778888999999999999999999999
Q ss_pred ceeEEEeeecc
Q psy17033 72 LYAAVAMATDY 82 (148)
Q Consensus 72 ~~~~is~VTN~ 82 (148)
+..+++.+-..
T Consensus 210 ~a~~v~~~~~~ 220 (251)
T PRK11178 210 RAGMVAGVIVN 220 (251)
T ss_pred cEEEEEEEEec
Confidence 99999777665
No 37
>TIGR01705 MTA/SAH-nuc-hyp 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative. This enzyme is involved in the recycling of the components of S-adenosylmethionine after it has donated one of its two non-ribose sulfur ligands to an acceptor. In the case of 5'-methylthioadenosine this represents the first step of the methionine salvage pathway in bacteria. This enzyme is widely distributed in bacteria.
Probab=94.18 E-value=0.77 Score=37.19 Aligned_cols=98 Identities=13% Similarity=0.065 Sum_probs=65.5
Q ss_pred cCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeecccc
Q psy17033 5 FDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDC 84 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a~ 84 (148)
-+..|.+.+.+.+.. ...+ .|.+ ++|.+| +.+++++|-|=+..=+-+|+..|++++.|=.|+|.+.
T Consensus 110 ~~~~l~~~~~~~~~~--~~~~-~g~~--vSgd~f---------~~~~a~~vdME~aAia~vc~~~~vpf~~iR~ISD~a~ 175 (212)
T TIGR01705 110 AEAALPFRIPDIAEA--RLST-GGAI--ISGAAY---------DAIAADMVDMETFACLRACQLFDVPLIGLRGISDGAA 175 (212)
T ss_pred chhhHHHHHHHHHhc--cCcc-eeEE--EECcch---------hhCCceEEechHHHHHHHHHHcCCCEEEEEEEecCCC
Confidence 455666666665543 1122 4543 456666 3568999999999999999999999999999999754
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q psy17033 85 WRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAA 121 (148)
Q Consensus 85 ~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~~ 121 (148)
... ...+.++.++.+. .+..+++.++++.+.+
T Consensus 176 ~~~--~~~df~~f~~~aa---~~sa~~v~~ll~~~~~ 207 (212)
T TIGR01705 176 DLN--HVDDWTAYLDIID---EKLADAVDRLCQAIED 207 (212)
T ss_pred Ccc--chhhHHHHHHHHH---HHHHHHHHHHHHHHhc
Confidence 321 2223555554444 4444777777777643
No 38
>TIGR01717 AMP-nucleosdse AMP nucleosidase. This model represents the AMP nucleosidase from proteobacteria but also including a sequence from Corynebacterium, a gram-positive organism. The species from E. coli has been most well studied.
Probab=93.41 E-value=2.9 Score=37.80 Aligned_cols=77 Identities=13% Similarity=0.130 Sum_probs=59.2
Q ss_pred CHHHHHHHHHHHHHh--------CCceecceEEEEeCCC--CCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeE
Q psy17033 6 DNSTRQIIIDSLKEL--------GFKFHDKGTAVCIEGP--RFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAA 75 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~--------gi~~~~~GvY~~~~GP--~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~ 75 (148)
+.++...+.+++++. +.++| .|+-+....- -..+....+.++..|+.+|=|=+.-=+.+|...|+++.+
T Consensus 337 ~~~l~~aL~~Aa~~~~g~~g~el~~~~h-~G~V~StD~F~~el~~~~~~~~l~~~gAlAVEMESAALaava~~~gVP~ga 415 (477)
T TIGR01717 337 IAEVQRALEDAVAEVTGRPGEELKRRLR-TGTVLTTDDRNWELRYSASALRLNLSRAIAVDMESATIAAQGYRFRVPYGT 415 (477)
T ss_pred cHHHHHHHHHHHHHhhcccccccCCceE-EEEEEecCcCcccCCCHHHHHHHHhCCCEEEehhHHHHHHHHHHhCCCEEE
Confidence 456777777777653 45677 7877666642 113566667778889999999999888999999999999
Q ss_pred EEeeeccc
Q psy17033 76 VAMATDYD 83 (148)
Q Consensus 76 is~VTN~a 83 (148)
|-+|+|..
T Consensus 416 Lr~VSD~~ 423 (477)
T TIGR01717 416 LLCVSDKP 423 (477)
T ss_pred EEEEEEcC
Confidence 99999975
No 39
>PRK05634 nucleosidase; Provisional
Probab=92.98 E-value=0.75 Score=36.02 Aligned_cols=51 Identities=24% Similarity=0.240 Sum_probs=43.4
Q ss_pred EeCCCCCCCHHHHH-HHHHcCCCeeecccchHHHHHHHcCCceeEEEeeeccc
Q psy17033 32 CIEGPRFSSRAESN-LFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYD 83 (148)
Q Consensus 32 ~~~GP~fET~AE~r-~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a 83 (148)
+..|.+|-+-.|.+ .++. ++++|-|=+..=+-+|++.|++++.|=.|||.+
T Consensus 107 i~sgD~fvs~~~~~~~l~~-~a~~vDME~aAva~va~~~~vPf~~iR~ISD~a 158 (185)
T PRK05634 107 LATGDAFISDTATRDRLAQ-RADLVDMEGYAVAAVAAEFGVPCRLVKHVSDSA 158 (185)
T ss_pred EecCCceecCHHHHHHHhc-cCeEEecHHHHHHHHHHHhCCCEEEEEEeccCC
Confidence 46788888776654 4554 789999999999999999999999999999985
No 40
>PRK06026 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated
Probab=92.75 E-value=1.7 Score=35.11 Aligned_cols=67 Identities=10% Similarity=0.075 Sum_probs=48.1
Q ss_pred HHcCCCeeecccchHHHHHHHcCCceeEEEeeeccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy17033 48 RSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKI 119 (148)
Q Consensus 48 r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l 119 (148)
+++|+++|-|=+..=+-+|...|++++.|=.|||.+. .+ ....+.++.+..+.++. .+++.+++..+
T Consensus 139 ~~~~a~~vdMEgaAvAqVc~~~~vPfl~iR~ISD~a~-~~-a~~~df~~f~~~aa~~s---a~~v~~~~~~~ 205 (212)
T PRK06026 139 DAIDADMVDMETYAVLRACQAFGVPLIGLRGISDGAA-EL-KHVGDWTEYLHVIDEKL---AGAVDRLERAL 205 (212)
T ss_pred hhcCCeEEechHHHHHHHHHHcCCCEEEEEEEecCCC-cc-cchhhHHHHHHHHHHHH---HHHHHHHHHHH
Confidence 5679999999999999999999999999999999753 22 12223566555554443 35566655544
No 41
>COG1363 FrvX Cellulase M and related proteins [Carbohydrate transport and metabolism]
Probab=92.35 E-value=1 Score=39.23 Aligned_cols=87 Identities=15% Similarity=0.231 Sum_probs=58.7
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeec
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATD 81 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN 81 (148)
+-+|++.||+.+.++|++++|+++ .++ .|.|-|=|-.-.+ -| -|++.+.||+-+.
T Consensus 264 ~~~~~~~l~~~L~~~A~~~~Ip~Q---~~v---~~~ggTDA~a~~~--~g-----------------~gvpta~Igip~r 318 (355)
T COG1363 264 SGIYHPKLRKFLLELAEKNNIPYQ---VDV---SPGGGTDAGAAHL--TG-----------------GGVPTALIGIPTR 318 (355)
T ss_pred CCCCCHHHHHHHHHHHHHcCCCeE---EEe---cCCCCccHHHHHH--cC-----------------CCCceEEEecccc
Confidence 358999999999999999999987 222 2335565543322 22 3789999999999
Q ss_pred cccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhccccC
Q psy17033 82 YDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAAKD 123 (148)
Q Consensus 82 ~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~~~~ 123 (148)
|-... .+-++.+++ ....+||.+++..+..+.
T Consensus 319 y~Hs~--~e~~~~~D~--------~~~~~Ll~~~i~~~~~~~ 350 (355)
T COG1363 319 YIHSP--VEVAHLDDL--------EATVKLLVAYLESLDRET 350 (355)
T ss_pred cccCc--ceeecHHHH--------HHHHHHHHHHHHhcchhh
Confidence 96542 233444444 345567777777775543
No 42
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=92.12 E-value=0.57 Score=38.69 Aligned_cols=60 Identities=27% Similarity=0.403 Sum_probs=46.2
Q ss_pred HHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee-----ecc-cchH-HHHHHHcCCceeEEE
Q psy17033 14 IDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV-----NMT-LVPE-VVLAKEAGLLYAAVA 77 (148)
Q Consensus 14 ~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV-----GMS-tvPE-vilAre~Gm~~~~is 77 (148)
.+.+.++|++ ..-+++++|| |+.-.|..+|+.+|+|++ |-+ ...| +..|+++||+++-|.
T Consensus 164 l~~~~~~G~~---~~~iia~~gP-fs~e~n~al~~~~~i~~lVtK~SG~~Gg~~eKi~AA~~lgi~vivI~ 230 (256)
T TIGR00715 164 LAQALKLGFP---SDRIIAMRGP-FSEELEKALLREYRIDAVVTKASGEQGGELEKVKAAEALGINVIRIA 230 (256)
T ss_pred hHHHHHcCCC---hhcEEEEeCC-CCHHHHHHHHHHcCCCEEEEcCCCCccchHHHHHHHHHcCCcEEEEe
Confidence 3456677776 4458999998 778899999999999998 555 4445 456899999998664
No 43
>PRK08236 hypothetical protein; Provisional
Probab=91.84 E-value=2.6 Score=33.76 Aligned_cols=75 Identities=12% Similarity=0.065 Sum_probs=59.4
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCC-CHHHHHHH-HHc-CCCeeecccchHHHHHHHcCCceeEEEeeecc
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFS-SRAESNLF-RSW-NAHLVNMTLVPEVVLAKEAGLLYAAVAMATDY 82 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fE-T~AE~r~~-r~~-GaDvVGMStvPEvilAre~Gm~~~~is~VTN~ 82 (148)
|++|.+.+.+...+.+++++ .|..+. |-+|- |+++.+.+ +++ ++.++-|=+.-=+-+|...|++++.|=.|+|.
T Consensus 110 d~~l~~~~~~~l~~~~~~~~-~G~i~T--gd~~v~~~~~~~~l~~~~~~a~~vdMEgaAvA~vc~~~~vPf~~iR~ISD~ 186 (212)
T PRK08236 110 DPALVRQLTEALLAAALGAT-AGPVLT--VSTVTGTAETAAALAARHPDAVAEAMEGFGVAEAAAAAGLPVLELRAISNP 186 (212)
T ss_pred CHHHHHHHHHHHHhcCCCeE-EeeEEe--cCeEeCCHHHHHHHHHHCCCceeehhHHHHHHHHHHHhCCCEEEEEEecCC
Confidence 78888888877777677766 565544 44454 67776755 457 78899999999999999999999999999999
Q ss_pred c
Q psy17033 83 D 83 (148)
Q Consensus 83 a 83 (148)
+
T Consensus 187 ~ 187 (212)
T PRK08236 187 V 187 (212)
T ss_pred C
Confidence 6
No 44
>PRK08292 AMP nucleosidase; Provisional
Probab=91.37 E-value=5.7 Score=36.07 Aligned_cols=110 Identities=11% Similarity=0.121 Sum_probs=65.5
Q ss_pred HHHHHHHHHHHHHh--------CCceecceEEEEeCCCCCC-C-HHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEE
Q psy17033 7 NSTRQIIIDSLKEL--------GFKFHDKGTAVCIEGPRFS-S-RAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAV 76 (148)
Q Consensus 7 ~~Lr~~~~~~a~~~--------gi~~~~~GvY~~~~GP~fE-T-~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~i 76 (148)
.++...+.+++++. |+++| .|+-+...-=..+ . ..-.+.|++.|+.+|=|=+..=+.+|...|+++++|
T Consensus 350 ~el~~aL~~aa~ev~~~~g~elg~~~h-~G~V~SgD~F~~e~~~~~l~~~~~~~gAlAVEMESAALa~va~~~gVP~gaI 428 (489)
T PRK08292 350 AEVQVALEDAVAEVTGLPGEELKRRMR-TGTVVTTDDRNWELRYSASALRFNQSRAVALDMESATIAANGYRFRVPYGTL 428 (489)
T ss_pred HHHHHHHHHHHHHHhhhcccccCCceE-EEEEEecCcCCCcCchHHHHHHhhhcCCEEEehhHHHHHHHHHHhCCCEEEE
Confidence 45556666666543 67777 7876655532111 2 223456777799999999998889999999999999
Q ss_pred EeeeccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q psy17033 77 AMATDYDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIA 120 (148)
Q Consensus 77 s~VTN~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~ 120 (148)
=+|+|...-.+-..+...+++ ........-++-.+.+..|-
T Consensus 429 r~VSD~~~~~E~k~~~~a~~~---~~~~~~~hi~igi~A~~~L~ 469 (489)
T PRK08292 429 LCVSDKPLHGEIKLPGQANAF---YEGAVSQHLQIGIRAIELLR 469 (489)
T ss_pred EEEEecCCCCCccCcchhHHH---HHHHHHHHHHHHHHHHHHHH
Confidence 777765422111112223333 33344444444455555443
No 45
>COG0775 Pfs Nucleoside phosphorylase [Nucleotide transport and metabolism]
Probab=90.73 E-value=6.2 Score=31.98 Aligned_cols=106 Identities=15% Similarity=0.184 Sum_probs=76.5
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHH-HHHH-Hc-CCCeeecccchHHHHHHHcCCceeEEEeeecc
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAES-NLFR-SW-NAHLVNMTLVPEVVLAKEAGLLYAAVAMATDY 82 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~-r~~r-~~-GaDvVGMStvPEvilAre~Gm~~~~is~VTN~ 82 (148)
++++.....+.+.+.+..++ .|.-+.. =+|=+-.+. +.++ .+ ++-.|-|=..-=+..|...++++..|=.|+|.
T Consensus 125 ~~~~~~~~~~~~~~~~~~~~-~Gli~tg--d~fv~~~~~~~~~~~~~~~a~aveME~aaia~v~~~~~vP~~~ir~ISD~ 201 (234)
T COG0775 125 DEELLDLAGEVAGEGKLRLR-TGLIVTG--DRFVTLGEPVAKLRKAFPDALAVEMEGAAIAQVCYRFGVPFLVLRAISDI 201 (234)
T ss_pred cHHHHHHHHHHHHhcCccee-EEEEEcc--hhhhhcchhHHHHHHHCCCcEEEEecHHHHHHHHHHhCCCEEEEEEeccC
Confidence 56778888888877666777 7754443 388776664 3333 34 78889998888889999999999999999999
Q ss_pred ccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhc
Q psy17033 83 DCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKI 119 (148)
Q Consensus 83 a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l 119 (148)
+... ..+.+.+++++.+.++.. .++.++++.+
T Consensus 202 a~~~--~~~~~~~~f~~~aa~~s~---~~~~~~~~~l 233 (234)
T COG0775 202 ADGG--ADPVSFDEFLAEAAKQSA---LVLLSALEKL 233 (234)
T ss_pred CCCc--CCcccHHHHHHHHHHHHH---HHHHHHHHhc
Confidence 6443 355788998887755554 5555555544
No 46
>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=90.50 E-value=0.57 Score=38.54 Aligned_cols=50 Identities=22% Similarity=0.434 Sum_probs=40.2
Q ss_pred ceEEEEeCCCCCCCHHHHHHHHHcCCCee-----ecccchH-HHHHHHcCCceeEEE
Q psy17033 27 KGTAVCIEGPRFSSRAESNLFRSWNAHLV-----NMTLVPE-VVLAKEAGLLYAAVA 77 (148)
Q Consensus 27 ~GvY~~~~GP~fET~AE~r~~r~~GaDvV-----GMStvPE-vilAre~Gm~~~~is 77 (148)
.+-.++++|| |+.-.|..+||++|+|+| |-+...| +.+|+++||+++-|-
T Consensus 171 ~~~iia~~GP-fs~e~n~al~~~~~i~~lVtK~SG~~g~~eKi~AA~~lgi~vivI~ 226 (249)
T PF02571_consen 171 PKNIIAMQGP-FSKELNRALFRQYGIDVLVTKESGGSGFDEKIEAARELGIPVIVIK 226 (249)
T ss_pred hhhEEEEeCC-CCHHHHHHHHHHcCCCEEEEcCCCchhhHHHHHHHHHcCCeEEEEe
Confidence 5678888888 788899999999999998 4444444 556999999998664
No 47
>COG2820 Udp Uridine phosphorylase [Nucleotide transport and metabolism]
Probab=88.87 E-value=5.8 Score=32.99 Aligned_cols=79 Identities=14% Similarity=0.130 Sum_probs=61.9
Q ss_pred ccCHHHHHHHHHHHHHhCCceecceEEEEeCC----------CC-CCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCc
Q psy17033 4 AFDNSTRQIIIDSLKELGFKFHDKGTAVCIEG----------PR-FSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLL 72 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~G----------P~-fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~ 72 (148)
..|.++-..+.++|++.|+++| -|+-++-.. |. -|++.=...++.+|.-.+=|=..-=..++++.|++
T Consensus 129 v~d~~~t~al~~aa~~~~~~~~-vG~v~S~D~FYgQ~r~~~~~~~~e~~~~~~~W~~~gv~~~EMEsAtlftl~~~~G~r 207 (248)
T COG2820 129 VADFELTNALVEAAESLGVTVH-VGVVASSDAFYGQERYYSGFVTPEFKESWEEWQDLGVLNIEMESATLFTLGSLRGLR 207 (248)
T ss_pred CCCHHHHHHHHHHHHhcCCceE-EEEEeecccccccccccccccCcchHHHHHHHHHcCchhhHHHHHHHHHHHHHcCcc
Confidence 4688999999999999998877 565544333 22 34555566788889888999999999999999999
Q ss_pred eeEEEe-eeccc
Q psy17033 73 YAAVAM-ATDYD 83 (148)
Q Consensus 73 ~~~is~-VTN~a 83 (148)
..+++. |.|.-
T Consensus 208 ag~V~~vi~n~~ 219 (248)
T COG2820 208 AGAVLGVIANRT 219 (248)
T ss_pred cccEEEEEcccc
Confidence 999988 77764
No 48
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=88.72 E-value=1.1 Score=36.90 Aligned_cols=50 Identities=24% Similarity=0.387 Sum_probs=39.8
Q ss_pred ceEEEEeCCCCCCCHHHHHHHHHcCCCee-----ecccchHHH-HHHHcCCceeEEE
Q psy17033 27 KGTAVCIEGPRFSSRAESNLFRSWNAHLV-----NMTLVPEVV-LAKEAGLLYAAVA 77 (148)
Q Consensus 27 ~GvY~~~~GP~fET~AE~r~~r~~GaDvV-----GMStvPEvi-lAre~Gm~~~~is 77 (148)
.+-++++.|| |+.-.|..+||++|+|+| |-+...|-+ +|+++|++++-|.
T Consensus 167 ~~~iiam~gP-fs~e~n~aL~~~~~i~~lVtK~SG~~g~~eKi~AA~~lgi~vivI~ 222 (248)
T PRK08057 167 RAEIIALRGP-FSLELERALLRQHRIDVVVTKNSGGAGTEAKLEAARELGIPVVMIA 222 (248)
T ss_pred hhhEEEeeCC-CCHHHHHHHHHHcCCCEEEEcCCCchhhHHHHHHHHHcCCeEEEEe
Confidence 4567888877 889999999999999998 444556644 5899999998765
No 49
>COG2200 Rtn c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]
Probab=82.62 E-value=3.1 Score=33.86 Aligned_cols=44 Identities=18% Similarity=0.334 Sum_probs=37.6
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
+.-+..+-+.+...|+++|+.+.-||| ||+.+.++++.+|+|.+
T Consensus 188 ~~~~~~iv~~iv~la~~l~~~vvaEGV---------Et~~ql~~L~~~G~~~~ 231 (256)
T COG2200 188 DARDQAIVRAIVALAHKLGLTVVAEGV---------ETEEQLDLLRELGCDYL 231 (256)
T ss_pred CcchHHHHHHHHHHHHHCCCEEEEeec---------CCHHHHHHHHHcCCCeE
Confidence 344556788889999999999877897 99999999999999964
No 50
>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=81.22 E-value=6.3 Score=30.39 Aligned_cols=70 Identities=17% Similarity=0.094 Sum_probs=44.9
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH---HHHHHHcCCCe-eecccc-hHH-HHHHHcCCcee
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE---SNLFRSWNAHL-VNMTLV-PEV-VLAKEAGLLYA 74 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~GaDv-VGMStv-PEv-ilAre~Gm~~~ 74 (148)
++++|...+.+-+.+++++.|+.+. +.. +.++...| ++++.+.++|. |.++.. +.. ..+...|++++
T Consensus 9 ~~~~~~~~~~~~i~~~~~~~g~~~~----~~~---~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~ipvv 81 (267)
T cd06284 9 IANPFFSEILKGIEDEAREAGYGVL----LGD---TRSDPEREQEYLDLLRRKQADGIILLDGSLPPTALTALAKLPPIV 81 (267)
T ss_pred CCCccHHHHHHHHHHHHHHcCCeEE----Eec---CCCChHHHHHHHHHHHHcCCCEEEEecCCCCHHHHHHHhcCCCEE
Confidence 3578999999999999999988654 222 23333223 34566678884 444443 322 23455699998
Q ss_pred EEE
Q psy17033 75 AVA 77 (148)
Q Consensus 75 ~is 77 (148)
.+.
T Consensus 82 ~~~ 84 (267)
T cd06284 82 QAC 84 (267)
T ss_pred EEe
Confidence 775
No 51
>PF14791 DNA_pol_B_thumb: DNA polymerase beta thumb ; PDB: 1HUZ_A 3K75_D 1HUO_A 2BPC_A 1RPL_A 1NOM_A 1ZQX_A 1ZQU_A 1ZQZ_A 1ZQV_A ....
Probab=81.01 E-value=1 Score=29.73 Aligned_cols=49 Identities=14% Similarity=0.202 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 7 NSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 7 ~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
......++..|++.|+.+...|.|-...|=..++..|-..|+.+|-+-|
T Consensus 9 ~~fnr~lR~~A~~~g~~L~~~Gl~~~~~~~~~~~~~E~dif~~Lgl~yi 57 (64)
T PF14791_consen 9 KEFNRDLRQYAKKKGMKLSEYGLFKRETGELVPVESEEDIFDALGLPYI 57 (64)
T ss_dssp HHHHHHHHHHHHHTTEEEESSEEEETTCEEEEE-SSHHHHHHHTTS---
T ss_pred HHHHHHHHHHHHHcCCeeCcccccccccceeecCCCHHHHHHHcCCCCC
Confidence 3455666777888899998889998777777888889999999886543
No 52
>TIGR03107 glu_aminopep glutamyl aminopeptidase. This model represents the M42.001 clade within MEROPS family M42. M42 includes glutamyl aminopeptidase as in the present model, deblocking aminopeptidases as from Pyrococcus horikoshii and related species, and endo-1,4-beta-glucanase (cellulase M) as from Clostridium thermocellum. The current family includes
Probab=78.47 E-value=15 Score=31.77 Aligned_cols=84 Identities=14% Similarity=0.235 Sum_probs=55.5
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeec
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATD 81 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN 81 (148)
+.+|+++|++.+.++|++.||+++ |....| -|=| -.+.+++ .|++.+.||+-+-
T Consensus 260 ~~i~~~~l~~~l~~~A~~~~I~~Q----~~~~~g---GtDa------------------~~~~~~~-~Gvpt~~i~ip~R 313 (350)
T TIGR03107 260 GHIMLPRMKDFLLTTAEEAGIKYQ----YYVAKG---GTDA------------------GAAHLKN-SGVPSTTIGVCAR 313 (350)
T ss_pred CCCCCHHHHHHHHHHHHHcCCCcE----EecCCC---CchH------------------HHHHHhC-CCCcEEEEccCcc
Confidence 468999999999999999999977 322222 2221 2222332 3899999999998
Q ss_pred cccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q psy17033 82 YDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAA 121 (148)
Q Consensus 82 ~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~~ 121 (148)
|..-. .+-++.+++ +...+|+.+++..+.+
T Consensus 314 y~Hs~--~e~i~~~D~--------~~~~~Ll~~~i~~l~~ 343 (350)
T TIGR03107 314 YIHSH--QTLYSIDDF--------LAAQAFLQAIVKKLDR 343 (350)
T ss_pred cccCh--hheeeHHHH--------HHHHHHHHHHHHhcCH
Confidence 86432 355666655 4455677777777643
No 53
>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=78.21 E-value=10 Score=29.57 Aligned_cols=71 Identities=17% Similarity=0.196 Sum_probs=44.6
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCH-HH---HHHHHHcCCCeeecccc------hHHHHHHHcC
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSR-AE---SNLFRSWNAHLVNMTLV------PEVVLAKEAG 70 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~-AE---~r~~r~~GaDvVGMStv------PEvilAre~G 70 (148)
+.++|-..+.+-+.+.+++.|+.+. ++. .+...++ .| ++.+...+.|.+-+... +....+++.|
T Consensus 9 ~~~~~~~~~~~gi~~~~~~~g~~~~---~~~---~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~~~~~ 82 (275)
T cd06320 9 LSNEFWRSLKEGYENEAKKLGVSVD---IQA---APSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVERAKKKG 82 (275)
T ss_pred CCCHHHHHHHHHHHHHHHHhCCeEE---EEc---cCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHHHHHCC
Confidence 3578888999999999999888754 221 1222233 23 33455678886544332 2234567789
Q ss_pred CceeEEE
Q psy17033 71 LLYAAVA 77 (148)
Q Consensus 71 m~~~~is 77 (148)
++++.+.
T Consensus 83 iPvV~~~ 89 (275)
T cd06320 83 IPVVNVN 89 (275)
T ss_pred CeEEEEC
Confidence 9998774
No 54
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=77.54 E-value=12 Score=31.44 Aligned_cols=69 Identities=20% Similarity=0.190 Sum_probs=49.3
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHH-H---HHHHHHcCCCeeeccc------chHHHHHHHcCC
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRA-E---SNLFRSWNAHLVNMTL------VPEVVLAKEAGL 71 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~A-E---~r~~r~~GaDvVGMSt------vPEvilAre~Gm 71 (148)
.+||-..+.+-+.+.|+++|+.+. +.+|.-.+.+ + ++.+...|.|.|-.+. .|...-|++.|+
T Consensus 34 ~~pf~~~~~~Gi~~aa~~~G~~v~-------~~~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~l~~a~~~gI 106 (336)
T PRK15408 34 GVGFFTSGGNGAKEAGKELGVDVT-------YDGPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPALKRAMQRGV 106 (336)
T ss_pred CCHHHHHHHHHHHHHHHHhCCEEE-------EECCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHHHHHHHHCCC
Confidence 478889999999999998876543 3356544443 3 3456678999988865 344555889999
Q ss_pred ceeEEE
Q psy17033 72 LYAAVA 77 (148)
Q Consensus 72 ~~~~is 77 (148)
+|+.+-
T Consensus 107 pVV~~d 112 (336)
T PRK15408 107 KVLTWD 112 (336)
T ss_pred eEEEeC
Confidence 998864
No 55
>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=75.04 E-value=14 Score=28.60 Aligned_cols=72 Identities=7% Similarity=0.060 Sum_probs=46.0
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCH-HHHHHHHHcCCCeeecc-cc---hHHHHHHHcCCceeEE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSR-AESNLFRSWNAHLVNMT-LV---PEVVLAKEAGLLYAAV 76 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~-AE~r~~r~~GaDvVGMS-tv---PEvilAre~Gm~~~~i 76 (148)
.++|..++.+-+.+.+++.|+.+. +....+.. +.- .=++.+.+.++|.|-.. .. +....+.+.|++++.+
T Consensus 10 ~~~~~~~~~~gi~~~~~~~g~~~~----~~~~~~~~-~~~~~~i~~l~~~~~dgiii~~~~~~~~~~~~~~~~~ipvV~i 84 (270)
T cd06296 10 DSPWASEVLRGVEEAAAAAGYDVV----LSESGRRT-SPERQWVERLSARRTDGVILVTPELTSAQRAALRRTGIPFVVV 84 (270)
T ss_pred CCccHHHHHHHHHHHHHHcCCeEE----EecCCCch-HHHHHHHHHHHHcCCCEEEEecCCCChHHHHHHhcCCCCEEEE
Confidence 578999999999999999887654 22223222 222 22456677788965433 22 2234456778998887
Q ss_pred Ee
Q psy17033 77 AM 78 (148)
Q Consensus 77 s~ 78 (148)
--
T Consensus 85 ~~ 86 (270)
T cd06296 85 DP 86 (270)
T ss_pred ec
Confidence 54
No 56
>PRK09864 putative peptidase; Provisional
Probab=74.10 E-value=29 Score=30.14 Aligned_cols=85 Identities=9% Similarity=0.070 Sum_probs=57.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeec
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATD 81 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN 81 (148)
+..++++|++.++++|++.||+++ |-...| .-|=| ..+...| .|++.+.||+-+=
T Consensus 259 ~~i~~~~l~~~l~~~A~~~~Ip~Q----~~~~~~--ggTDa--~~i~~~~-----------------~Gvpt~~isiP~R 313 (356)
T PRK09864 259 RYFPNQKLVAALKSCAAHNDLPLQ----FSTMKT--GATDG--GRYNVMG-----------------GGRPVVALCLPTR 313 (356)
T ss_pred CccCCHHHHHHHHHHHHHcCCCce----EEEcCC--CCchH--HHHHHhC-----------------CCCcEEEEeeccC
Confidence 356899999999999999999987 323331 13322 2233333 4899999999999
Q ss_pred cccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q psy17033 82 YDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAA 121 (148)
Q Consensus 82 ~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~~ 121 (148)
|-... .+-++.+++. ...+||..++.++.+
T Consensus 314 Y~Hs~--~e~~~~~D~e--------~~~~Ll~~~~~~l~~ 343 (356)
T PRK09864 314 YLHAN--SGMISKADYD--------ALLTLIRDFLTTLTA 343 (356)
T ss_pred cCCCc--ceEeEHHHHH--------HHHHHHHHHHHhcch
Confidence 96433 4667777764 344677777776644
No 57
>PF05343 Peptidase_M42: M42 glutamyl aminopeptidase; InterPro: IPR008007 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M42 (glutamyl aminopeptidase family, clan MH). For members of this family and family M28 the predicted metal ligands occur in the same order in the sequence: H, D, E, D/E, H; and the active site residues occur in the motifs HXD and EE. ; PDB: 2WYR_C 2CF4_A 1VHO_A 3ISX_A 3KL9_G 1YLO_F 3CPX_C 1VHE_A 2GRE_F 1XFO_A ....
Probab=72.76 E-value=12 Score=31.37 Aligned_cols=72 Identities=10% Similarity=0.092 Sum_probs=49.8
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeecc
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDY 82 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~ 82 (148)
-.|+++|++.++++|++.||+++.+ ++ +.+.| +...++..| .|++.+.||+-+.|
T Consensus 219 ~i~~~~l~~~l~~~A~~~~Ip~Q~~-~~-----~~ggT--Da~~~~~~~-----------------~Gi~t~~i~iP~ry 273 (292)
T PF05343_consen 219 MIPNPKLVDKLREIAEENGIPYQRE-VF-----SGGGT--DAGAIQLSG-----------------GGIPTAVISIPCRY 273 (292)
T ss_dssp EESHHHHHHHHHHHHHHTT--EEEE-EE-----SSSSS--THHHHHTST-----------------TSSEEEEEEEEEBS
T ss_pred CCCCHHHHHHHHHHHHHcCCCeEEE-ec-----CCccc--HHHHHHHcC-----------------CCCCEEEEeccccc
Confidence 4689999999999999999999743 22 12222 344444444 59999999999999
Q ss_pred ccccCCCCCCCHHHHHHHH
Q psy17033 83 DCWRDTGNKVCVADVLKTF 101 (148)
Q Consensus 83 a~~~~~~~~v~~eeVl~~~ 101 (148)
.... .+-++.+++..+.
T Consensus 274 ~Hs~--~e~~~~~Di~~~~ 290 (292)
T PF05343_consen 274 MHSP--VEVIDLDDIEATI 290 (292)
T ss_dssp TTST--TEEEEHHHHHHHH
T ss_pred CCCc--ceEEEHHHHHHHh
Confidence 7543 3567777776654
No 58
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=71.12 E-value=24 Score=27.49 Aligned_cols=70 Identities=19% Similarity=0.066 Sum_probs=44.0
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeeccc--chH--HHHHHHcCCceeEEE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTL--VPE--VVLAKEAGLLYAAVA 77 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMSt--vPE--vilAre~Gm~~~~is 77 (148)
.++|...+.+-+.+.+++.|+.+. +.. .++. +-..-.+++.+.++|.|=... .++ ...++..|++++.+.
T Consensus 21 ~~~~~~~~~~gi~~~~~~~g~~~~----v~~-~~~~-~~~~~~~~l~~~~~dgiii~~~~~~~~~~~~~~~~~ipvV~~~ 94 (275)
T cd06295 21 SDPFFLSLLGGIADALAERGYDLL----LSF-VSSP-DRDWLARYLASGRADGVILIGQHDQDPLPERLAETGLPFVVWG 94 (275)
T ss_pred CCchHHHHHHHHHHHHHHcCCEEE----EEe-CCch-hHHHHHHHHHhCCCCEEEEeCCCCChHHHHHHHhCCCCEEEEC
Confidence 578999999999999999988754 222 3333 211222345567788654322 223 344677899998764
No 59
>PRK09701 D-allose transporter subunit; Provisional
Probab=70.50 E-value=18 Score=29.44 Aligned_cols=74 Identities=16% Similarity=0.099 Sum_probs=45.6
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH-HHHHHHcCCCeeeccc-c-----hHHHHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE-SNLFRSWNAHLVNMTL-V-----PEVVLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE-~r~~r~~GaDvVGMSt-v-----PEvilAre~Gm~~~ 74 (148)
.+||...+.+-+.+.+++.|+.+. ++..-..+..+...+ ++.+...|+|.+-... . |....+++.|++++
T Consensus 35 ~~~f~~~~~~gi~~~a~~~g~~v~---~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~~~giPvV 111 (311)
T PRK09701 35 SNPFWVDMKKGIEDEAKTLGVSVD---IFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVMPVARAWKKGIYLV 111 (311)
T ss_pred CCHHHHHHHHHHHHHHHHcCCeEE---EecCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCCcEE
Confidence 578999999999999999887765 221112222222222 3455566888664322 2 33345678899998
Q ss_pred EEEe
Q psy17033 75 AVAM 78 (148)
Q Consensus 75 ~is~ 78 (148)
.+.-
T Consensus 112 ~~~~ 115 (311)
T PRK09701 112 NLDE 115 (311)
T ss_pred EeCC
Confidence 8854
No 60
>PRK09961 exoaminopeptidase; Provisional
Probab=70.36 E-value=19 Score=30.72 Aligned_cols=85 Identities=14% Similarity=0.101 Sum_probs=52.8
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeec
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATD 81 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN 81 (148)
+.++++.+++.++++|++.++++.. .++ . .+- |..-....++ .|++.+.|++-+-
T Consensus 251 ~~i~~~~l~~~l~~~A~~~~Ip~Q~-~~~---~--ggG------------------TDa~~~~~~~-~Giptv~ig~p~r 305 (344)
T PRK09961 251 SLIAPPKLTAWIETVAAEIGIPLQA-DMF---S--NGG------------------TDGGAVHLTG-TGVPTVVMGPATR 305 (344)
T ss_pred CcCCCHHHHHHHHHHHHHcCCCcEE-Eec---C--CCc------------------chHHHHHHhC-CCCCEEEechhhh
Confidence 4678999999999999999998762 111 1 011 2222222322 4788888888766
Q ss_pred cccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q psy17033 82 YDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAA 121 (148)
Q Consensus 82 ~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i~~l~~ 121 (148)
|.... .+-++.+++..+ .+|+.+++..+.+
T Consensus 306 y~Hs~--~E~v~~~D~~~~--------~~Ll~~~i~~l~~ 335 (344)
T PRK09961 306 HGHCA--ASIADCRDILQM--------IQLLSALIQRLTR 335 (344)
T ss_pred cccCh--hheEEHHHHHHH--------HHHHHHHHHHcCH
Confidence 64332 456777766433 3566676666643
No 61
>TIGR03106 trio_M42_hydro hydrolase, peptidase M42 family. This model describes a subfamily of MEROPS peptidase family M42, a glutamyl aminopeptidase family that also includes the cellulase CelM from Clostridium thermocellum and deblocking aminopeptidases that can remove acylated amino acids. Members of this family occur in a three gene cassette with an amidotransferase (TIGR03104)in the asparagine synthase (glutamine-hydrolyzing) family, and a probable acetyltransferase (TIGR03103) in the GNAT family.
Probab=68.80 E-value=21 Score=30.62 Aligned_cols=79 Identities=15% Similarity=0.142 Sum_probs=53.2
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeec
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATD 81 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN 81 (148)
+-+|+++|++.+.++|++.||+++ |-... .+-|=|-. +...| .|++.+.||+-+-
T Consensus 261 ~~~~~~~l~~~l~~~A~~~~Ip~Q----~~~~~--~~gtDa~~--~~~~~-----------------~Gi~t~~i~iP~R 315 (343)
T TIGR03106 261 SGPFDYHLTRKLIRLCQDHGIPHR----RDVFR--YYRSDAAS--AVEAG-----------------HDIRTALVTFGLD 315 (343)
T ss_pred CCCCCHHHHHHHHHHHHHcCCCcE----EEecC--CCCChHHH--HHHcC-----------------CCCCEEEeecccc
Confidence 457999999999999999999987 32222 23454332 33333 4899999999999
Q ss_pred cccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q psy17033 82 YDCWRDTGNKVCVADVLKTFKENVEKITKLFVHIV 116 (148)
Q Consensus 82 ~a~~~~~~~~v~~eeVl~~~~~~~~~~~~ll~~~i 116 (148)
|... -+-++.+++-. ..+||.+++
T Consensus 316 y~Hs---~e~~~~~D~~~--------~~~Ll~~~~ 339 (343)
T TIGR03106 316 ASHG---YERTHIDALEA--------LANLLVAYA 339 (343)
T ss_pred chhh---hhhccHHHHHH--------HHHHHHHHh
Confidence 9655 25566666543 334666555
No 62
>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=67.04 E-value=34 Score=26.69 Aligned_cols=71 Identities=17% Similarity=0.224 Sum_probs=46.9
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHH---HHHHHcCCCeeeccc------chHHHHHHHcCC
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAES---NLFRSWNAHLVNMTL------VPEVVLAKEAGL 71 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~---r~~r~~GaDvVGMSt------vPEvilAre~Gm 71 (148)
+++||..++.+-+.+.|++.|+.+. + ..+..+...|. +.+...++|.+=.+. -+....+++.|+
T Consensus 9 ~~~~~~~~~~~~~~~~a~~~g~~~~----~---~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~i 81 (273)
T cd06309 9 AESPWRTAETKSIKDAAEKRGFDLK----F---ADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGI 81 (273)
T ss_pred CCCHHHHHHHHHHHHHHHhcCCEEE----E---eCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCC
Confidence 4678999999999999999888754 2 22333444453 345556788653322 233446778899
Q ss_pred ceeEEEe
Q psy17033 72 LYAAVAM 78 (148)
Q Consensus 72 ~~~~is~ 78 (148)
+++.+.-
T Consensus 82 PvV~~~~ 88 (273)
T cd06309 82 PVILVDR 88 (273)
T ss_pred CEEEEec
Confidence 9988763
No 63
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=66.85 E-value=44 Score=26.68 Aligned_cols=70 Identities=14% Similarity=0.218 Sum_probs=44.6
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCC-CCCCHHHHHHHH---HcCCCeeecccc-hH-----HHHHHHcCC
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGP-RFSSRAESNLFR---SWNAHLVNMTLV-PE-----VVLAKEAGL 71 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP-~fET~AE~r~~r---~~GaDvVGMStv-PE-----vilAre~Gm 71 (148)
.++|...+.+-+.+.++++|.. .+.+.+| .+....+...++ ..|+|.|-+... ++ ...+++.|+
T Consensus 9 ~~~f~~~~~~gi~~~a~~~g~~------~~i~~~~~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~gi 82 (302)
T TIGR02637 9 GNPFFEAANKGAEEAAKELGSV------YIIYTGPTGTTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGI 82 (302)
T ss_pred CCHHHHHHHHHHHHHHHHhCCe------eEEEECCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCC
Confidence 5789999999999999987741 1122233 344444444444 468997777554 23 233677899
Q ss_pred ceeEEE
Q psy17033 72 LYAAVA 77 (148)
Q Consensus 72 ~~~~is 77 (148)
+++.+.
T Consensus 83 PvV~~~ 88 (302)
T TIGR02637 83 KVVTWD 88 (302)
T ss_pred EEEEeC
Confidence 988764
No 64
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=66.18 E-value=18 Score=27.95 Aligned_cols=70 Identities=10% Similarity=0.049 Sum_probs=45.0
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH---HHHHHHcCCCeeecccc-hHHHHHHHcCCceeEEE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE---SNLFRSWNAHLVNMTLV-PEVVLAKEAGLLYAAVA 77 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~GaDvVGMStv-PEvilAre~Gm~~~~is 77 (148)
.++|...+.+-+.+.+++.|+.+. +.... .....| ++.+...++|.|=.... ++..-+++.|++++.+-
T Consensus 10 ~~~~~~~~~~gi~~~~~~~g~~~~----~~~~~---~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~gipvv~~~ 82 (265)
T cd06291 10 SNPFFSELARAVEKELYKKGYKLI----LCNSD---NDPEKEREYLEMLRQNQVDGIIAGTHNLGIEEYENIDLPIVSFD 82 (265)
T ss_pred CChhHHHHHHHHHHHHHHCCCeEE----EecCC---ccHHHHHHHHHHHHHcCCCEEEEecCCcCHHHHhcCCCCEEEEe
Confidence 468889999999999999887654 22222 122223 33556678886654443 34446677899988775
Q ss_pred e
Q psy17033 78 M 78 (148)
Q Consensus 78 ~ 78 (148)
.
T Consensus 83 ~ 83 (265)
T cd06291 83 R 83 (265)
T ss_pred C
Confidence 4
No 65
>PF13289 SIR2_2: SIR2-like domain
Probab=64.70 E-value=22 Score=25.21 Aligned_cols=46 Identities=17% Similarity=0.371 Sum_probs=35.7
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
|+.++.++.++.+..+- .....|+.+.+|. ...+.++++..|..+|
T Consensus 98 D~~i~~~l~~~~~~~~~--~~~~~~~v~~~~~--~~~~~~~~~~~~i~~I 143 (143)
T PF13289_consen 98 DPDIRQLLRSALENSGK--SRPRHYIVIPDPD--DENEREFLEKYGIEVI 143 (143)
T ss_pred CHHHHHHHHHHHHhccC--CCccEEEEEcCCc--hHHHHHHHHHcCCEEC
Confidence 67788888787776654 2357899999988 7788889999998764
No 66
>PRK13561 putative diguanylate cyclase; Provisional
Probab=64.32 E-value=13 Score=33.65 Aligned_cols=41 Identities=17% Similarity=0.229 Sum_probs=35.1
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
|+.+.+.+.+.|+.+|+++.-+|| ||.++.++++.+|+|.+
T Consensus 589 ~~~~v~~i~~~a~~l~i~viAegV---------E~~~~~~~l~~~g~d~~ 629 (651)
T PRK13561 589 DDSMVAAIIMLAQSLNLQVIAEGV---------ETEAQRDWLLKAGVGIA 629 (651)
T ss_pred CHHHHHHHHHHHHHCCCcEEEecC---------CCHHHHHHHHhcCCCEE
Confidence 456777888999999999876776 99999999999999875
No 67
>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=62.87 E-value=41 Score=26.28 Aligned_cols=72 Identities=7% Similarity=-0.080 Sum_probs=44.2
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH-HHHHcCCCeeecccc---hH-HHHHHHcCCceeE
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN-LFRSWNAHLVNMTLV---PE-VVLAKEAGLLYAA 75 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r-~~r~~GaDvVGMStv---PE-vilAre~Gm~~~~ 75 (148)
+.+||..++.+-+.+.+++.|+.+. +.....+. +....++ .+....+|-|=.+.. ++ +..+++.|++++.
T Consensus 9 ~~~~~~~~~~~~i~~~~~~~gy~~~----~~~~~~~~-~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~l~~~~iPvv~ 83 (269)
T cd06297 9 VATEFYRRLLEGIEGALLEQRYDLA----LFPLLSLA-RLKRYLESTTLAYLTDGLLLASYDLTERLAERRLPTERPVVL 83 (269)
T ss_pred CcChhHHHHHHHHHHHHHHCCCEEE----EEeCCCcH-HHHHHHHHHHHhcCCCEEEEecCccChHHHHHHhhcCCCEEE
Confidence 3578999999999999999998765 33333332 1122332 455666664333322 22 2445678999887
Q ss_pred EE
Q psy17033 76 VA 77 (148)
Q Consensus 76 is 77 (148)
+-
T Consensus 84 ~~ 85 (269)
T cd06297 84 VD 85 (269)
T ss_pred Ec
Confidence 74
No 68
>smart00052 EAL Putative diguanylate phosphodiesterase. Putative diguanylate phosphodiesterase, present in a variety of bacteria.
Probab=60.77 E-value=19 Score=27.48 Aligned_cols=41 Identities=24% Similarity=0.388 Sum_probs=31.7
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
...+.+.+.+.++..|+.+.-+|| ||+++..+++.+|+|.+
T Consensus 188 ~~~~l~~l~~~~~~~~~~via~gV---------e~~~~~~~l~~~Gi~~~ 228 (241)
T smart00052 188 DEAIVQSIIELAQKLGLQVVAEGV---------ETPEQLDLLRSLGCDYG 228 (241)
T ss_pred HHHHHHHHHHHHHHCCCeEEEecC---------CCHHHHHHHHHcCCCEE
Confidence 345566777788888887654664 99999999999998864
No 69
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=60.53 E-value=51 Score=25.91 Aligned_cols=71 Identities=14% Similarity=0.129 Sum_probs=47.1
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH---HHHHcCCCeeecccc-----hH-HHHHHHcCC
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN---LFRSWNAHLVNMTLV-----PE-VVLAKEAGL 71 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r---~~r~~GaDvVGMStv-----PE-vilAre~Gm 71 (148)
+.+||...+.+-+.+.++++|+.+. +..+..+...+.. .+.+.++|.|=+... .+ ..-+.+.|+
T Consensus 9 ~~~~f~~~~~~gi~~~~~~~G~~~~-------~~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~i 81 (272)
T cd06313 9 LQATWCAQGKQAADEAGKLLGVDVT-------WYGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGI 81 (272)
T ss_pred cCChHHHHHHHHHHHHHHHcCCEEE-------EecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCC
Confidence 4679999999999999998877654 2234444444544 344577886666432 22 344677899
Q ss_pred ceeEEEe
Q psy17033 72 LYAAVAM 78 (148)
Q Consensus 72 ~~~~is~ 78 (148)
+++.+--
T Consensus 82 PvV~~~~ 88 (272)
T cd06313 82 PVIDMGT 88 (272)
T ss_pred cEEEeCC
Confidence 9988743
No 70
>PF13728 TraF: F plasmid transfer operon protein
Probab=60.19 E-value=7.1 Score=31.27 Aligned_cols=30 Identities=17% Similarity=0.367 Sum_probs=26.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCC
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEG 35 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~G 35 (148)
..+||.....++...+++.|+.+. ++.+.|
T Consensus 131 ~C~~C~~~~pil~~~~~~yg~~v~----~vs~DG 160 (215)
T PF13728_consen 131 DCPYCQQQAPILQQFADKYGFSVI----PVSLDG 160 (215)
T ss_pred CCchhHHHHHHHHHHHHHhCCEEE----EEecCC
Confidence 368999999999999999999876 788887
No 71
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=60.17 E-value=26 Score=27.85 Aligned_cols=71 Identities=15% Similarity=0.071 Sum_probs=45.5
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCH-HHHHHHHHcCCCeeecccc-----hHH-HHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSR-AESNLFRSWNAHLVNMTLV-----PEV-VLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~-AE~r~~r~~GaDvVGMStv-----PEv-ilAre~Gm~~~ 74 (148)
.++|-..+.+-+.+.+++.|+.+. ++-. +...++. .-++.+...+.|.|-.... ++. ..+++.|++++
T Consensus 10 ~~~~~~~~~~gi~~~a~~~g~~~~---~~~~--~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l~~~~ipvV 84 (288)
T cd01538 10 TEERWIRDRPNFEAALKELGAEVI---VQNA--NGDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKAADAGIPVI 84 (288)
T ss_pred CcHHHHHHHHHHHHHHHHcCCEEE---EECC--CCCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHHHHCCCCEE
Confidence 578889999999999999988765 2211 1121221 2344566788996665432 233 35678899998
Q ss_pred EEE
Q psy17033 75 AVA 77 (148)
Q Consensus 75 ~is 77 (148)
.+-
T Consensus 85 ~~~ 87 (288)
T cd01538 85 AYD 87 (288)
T ss_pred EEC
Confidence 774
No 72
>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=60.08 E-value=36 Score=26.48 Aligned_cols=71 Identities=13% Similarity=0.040 Sum_probs=47.2
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH---HHHHHHcCCCeeecccc---------hHHHHHHH
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE---SNLFRSWNAHLVNMTLV---------PEVVLAKE 68 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~GaDvVGMStv---------PEvilAre 68 (148)
+.++|...+.+-+.+.++++|+.+. + +.. .++...| ++.+...++|.+-+... +....+++
T Consensus 9 ~~~~~~~~~~~gi~~~~~~~g~~~~---~--~~~--~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~~~~ 81 (273)
T cd01541 9 ISDYIFPSIIRGIESVLSEKGYSLL---L--AST--NNDPERERKCLENMLSQGIDGLIIEPTKSALPNPNIDLYLKLEK 81 (273)
T ss_pred ccchhHHHHHHHHHHHHHHcCCEEE---E--EeC--CCCHHHHHHHHHHHHHcCCCEEEEeccccccccccHHHHHHHHH
Confidence 3578999999999999999988764 1 112 3343333 34566788888875321 22344678
Q ss_pred cCCceeEEEe
Q psy17033 69 AGLLYAAVAM 78 (148)
Q Consensus 69 ~Gm~~~~is~ 78 (148)
.|++++.+.-
T Consensus 82 ~~ipvV~~~~ 91 (273)
T cd01541 82 LGIPYVFINA 91 (273)
T ss_pred CCCCEEEEec
Confidence 8999887753
No 73
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=59.34 E-value=48 Score=25.35 Aligned_cols=72 Identities=10% Similarity=0.091 Sum_probs=45.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeeccc-ch---HHHHHHHcCCceeEEE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTL-VP---EVVLAKEAGLLYAAVA 77 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMSt-vP---EvilAre~Gm~~~~is 77 (148)
.++|-..+.+-+.+.+++.|+.+. +....... +-..=++.+.+.|+|.+=... -+ ....+++.|++++.+.
T Consensus 10 ~~~~~~~~~~~i~~~~~~~g~~~~----~~~~~~~~-~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ipvV~~~ 84 (266)
T cd06278 10 DNPFYSELLEALSRALQARGYQPL----LINTDDDE-DLDAALRQLLQYRVDGVIVTSGTLSSELAEECRRNGIPVVLIN 84 (266)
T ss_pred CCchHHHHHHHHHHHHHHCCCeEE----EEcCCCCH-HHHHHHHHHHHcCCCEEEEecCCCCHHHHHHHhhcCCCEEEEC
Confidence 578888899999999999998754 33333222 211113355677888665532 22 2345777899998885
Q ss_pred e
Q psy17033 78 M 78 (148)
Q Consensus 78 ~ 78 (148)
.
T Consensus 85 ~ 85 (266)
T cd06278 85 R 85 (266)
T ss_pred C
Confidence 4
No 74
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=58.66 E-value=36 Score=27.15 Aligned_cols=72 Identities=11% Similarity=0.078 Sum_probs=44.8
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH-HHHHHHcCCC-eeecccchH-----HHHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE-SNLFRSWNAH-LVNMTLVPE-----VVLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE-~r~~r~~GaD-vVGMStvPE-----vilAre~Gm~~~ 74 (148)
.++|-.++.+-+.+.+++.|+.+. +. ..+..-+...+ ++.+...++| +|-++.-++ ...+++.|++++
T Consensus 37 ~~~f~~~~~~~i~~~~~~~G~~~~----~~-~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV 111 (295)
T PRK10653 37 NNPFFVSLKDGAQKEADKLGYNLV----VL-DSQNNPAKELANVQDLTVRGTKILLINPTDSDAVGNAVKMANQANIPVI 111 (295)
T ss_pred CChHHHHHHHHHHHHHHHcCCeEE----Ee-cCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHHCCCCEE
Confidence 578999999999999999998764 21 12211111111 2344567888 444444333 356777899998
Q ss_pred EEEe
Q psy17033 75 AVAM 78 (148)
Q Consensus 75 ~is~ 78 (148)
.+.-
T Consensus 112 ~~~~ 115 (295)
T PRK10653 112 TLDR 115 (295)
T ss_pred EEcc
Confidence 8864
No 75
>PF01081 Aldolase: KDPG and KHG aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4.1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related []. They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VCR_A 1FQ0_A 1EUN_A 1EUA_B 1FWR_A 2C0A_B 1WBH_A 1WAU_A 2YW3_B 2YW4_A ....
Probab=58.48 E-value=11 Score=30.06 Aligned_cols=41 Identities=17% Similarity=0.194 Sum_probs=28.7
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeee
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVN 56 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVG 56 (148)
+|.+...+.+.+++.|+.+. -|+ -||.|+.....+|+|+|=
T Consensus 86 SP~~~~~v~~~~~~~~i~~i-PG~---------~TptEi~~A~~~G~~~vK 126 (196)
T PF01081_consen 86 SPGFDPEVIEYAREYGIPYI-PGV---------MTPTEIMQALEAGADIVK 126 (196)
T ss_dssp ESS--HHHHHHHHHHTSEEE-EEE---------SSHHHHHHHHHTT-SEEE
T ss_pred CCCCCHHHHHHHHHcCCccc-CCc---------CCHHHHHHHHHCCCCEEE
Confidence 34445556667778888877 455 499999999999999884
No 76
>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=58.33 E-value=48 Score=25.50 Aligned_cols=71 Identities=11% Similarity=0.091 Sum_probs=42.7
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHH-HHHHHcCCCeeecccc----hHHHHHHHcCCceeEE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAES-NLFRSWNAHLVNMTLV----PEVVLAKEAGLLYAAV 76 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~-r~~r~~GaDvVGMStv----PEvilAre~Gm~~~~i 76 (148)
+++|-..+.+-+.+.+++.|+.+. +....++. +...++ +++.+.++|.|-+... +-.-.+.+.|++++.+
T Consensus 15 ~~~~~~~~~~~~~~~~~~~g~~~~----~~~~~~~~-~~~~~~~~~~~~~~~dgiii~~~~~~~~~~~~~~~~~ipvV~~ 89 (270)
T cd06294 15 QNPFFIEVLRGISAVANENGYDIS----LATGKNEE-ELLEEVKKMIQQKRVDGFILLYSREDDPIIDYLKEEKFPFVVI 89 (270)
T ss_pred CCCCHHHHHHHHHHHHHHCCCEEE----EecCCCcH-HHHHHHHHHHHHcCcCEEEEecCcCCcHHHHHHHhcCCCEEEE
Confidence 578889999999999999987754 22222221 111122 2345566786555321 2233467789998877
Q ss_pred E
Q psy17033 77 A 77 (148)
Q Consensus 77 s 77 (148)
-
T Consensus 90 ~ 90 (270)
T cd06294 90 G 90 (270)
T ss_pred C
Confidence 4
No 77
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=58.07 E-value=60 Score=26.02 Aligned_cols=69 Identities=17% Similarity=0.225 Sum_probs=44.9
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCC-CCCHHHHHHHH---HcCCCeeecccc-h----H-HHHHHHcCC
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPR-FSSRAESNLFR---SWNAHLVNMTLV-P----E-VVLAKEAGL 71 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~-fET~AE~r~~r---~~GaDvVGMStv-P----E-vilAre~Gm 71 (148)
++||-..+.+-+.+.|++.|+.+. +.+|. +....+.+.++ ..++|.|-...+ | + ...++..|+
T Consensus 10 ~~~f~~~i~~gi~~~a~~~g~~v~-------~~~~~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~~~~~i 82 (298)
T cd06302 10 GIPYFNRMEEGAKEAAKELGVDAI-------YVGPTTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKAREAGI 82 (298)
T ss_pred CChHHHHHHHHHHHHHHHhCCeEE-------EECCCCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHHHHCCC
Confidence 578999999999999998876543 11222 33444555554 468897766543 2 2 234677899
Q ss_pred ceeEEE
Q psy17033 72 LYAAVA 77 (148)
Q Consensus 72 ~~~~is 77 (148)
+++.+-
T Consensus 83 PvV~v~ 88 (298)
T cd06302 83 KVVTHD 88 (298)
T ss_pred eEEEEc
Confidence 988774
No 78
>TIGR01210 conserved hypothetical protein TIGR01210. This family of exclusively archaeal proteins has no characterized close homologs. Several rounds of PSI-BLAST with a stringent cutoff of 1e-8 shows apparent similarity of the central region of this family to the central regions of the oxygen-independent coproporphyrinogen III dehydrogenase HemN and to other enzymes.
Probab=57.28 E-value=41 Score=28.31 Aligned_cols=47 Identities=13% Similarity=0.037 Sum_probs=28.8
Q ss_pred cCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH--------HHHHHHcCCCeee
Q psy17033 5 FDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE--------SNLFRSWNAHLVN 56 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE--------~r~~r~~GaDvVG 56 (148)
++.+--..+.+.+++.|+.+. .|+.+.+| ++|+.| ++....++ |-|.
T Consensus 152 ~t~~~~~~ai~~~~~~Gi~v~---~~~i~G~P-~~se~ea~ed~~~ti~~~~~l~-~~vs 206 (313)
T TIGR01210 152 STFEDFIRAAELARKYGAGVK---AYLLFKPP-FLSEKEAIADMISSIRKCIPVT-DTVS 206 (313)
T ss_pred CCHHHHHHHHHHHHHcCCcEE---EEEEecCC-CCChhhhHHHHHHHHHHHHhcC-CcEE
Confidence 344444456677888899865 67777666 655543 44555566 6555
No 79
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=57.21 E-value=70 Score=24.59 Aligned_cols=69 Identities=10% Similarity=0.051 Sum_probs=45.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccc--hHH--HHHHHcCCceeEEE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLV--PEV--VLAKEAGLLYAAVA 77 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStv--PEv--ilAre~Gm~~~~is 77 (148)
.++|-.++.+-+.+.+++.|+.+. +... . +...-.+.++.++.|.|-+... +.. ..+++.|++++.+.
T Consensus 10 ~~~~~~~~~~gi~~~~~~~g~~~~----~~~~-~---~~~~~~~~l~~~~vdgii~~~~~~~~~~~~~~~~~~ipvV~~~ 81 (261)
T cd06272 10 SRVALTELVTGINQAISKNGYNMN----VSIT-P---SLAEAEDLFKENRFDGVIIFGESASDVEYLYKIKLAIPVVSYG 81 (261)
T ss_pred CchhHHHHHHHHHHHHHHcCCEEE----EEec-c---cHHHHHHHHHHcCcCEEEEeCCCCChHHHHHHHHcCCCEEEEc
Confidence 578999999999999999887654 1111 1 2233455678888996654432 222 34567899988774
Q ss_pred e
Q psy17033 78 M 78 (148)
Q Consensus 78 ~ 78 (148)
-
T Consensus 82 ~ 82 (261)
T cd06272 82 V 82 (261)
T ss_pred c
Confidence 3
No 80
>PRK11596 cyclic-di-GMP phosphodiesterase; Provisional
Probab=57.08 E-value=25 Score=28.08 Aligned_cols=39 Identities=8% Similarity=-0.041 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 8 STRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 8 ~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
.+-+.+...|+++|..+.-+|| ||.++..+++.+|+|.+
T Consensus 196 ~~~~~lv~~a~~~~~~viAeGV---------Et~eq~~~l~~lG~d~~ 234 (255)
T PRK11596 196 NLFSQLLHLMNRYCRGVIVEGV---------ETPEEWRDVQRSPAFAA 234 (255)
T ss_pred HHHHHHHHHHHHcCCeEEEEeC---------CCHHHHHHHHHCCCCEe
Confidence 3445557778888877655664 99999999999999854
No 81
>PRK07922 N-acetylglutamate synthase; Validated
Probab=56.89 E-value=40 Score=25.36 Aligned_cols=52 Identities=21% Similarity=0.184 Sum_probs=39.0
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHc
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEA 69 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~ 69 (148)
-..|.+.+.+.|++.|+.. +|+.+. ++++|+++|-..+|.+..|+.+.+.-+
T Consensus 88 G~~Ll~~~~~~a~~~g~~~----l~~~~~--------~~~fY~k~GF~~~~~~~~~~~~~~~~~ 139 (169)
T PRK07922 88 GHAIVERLLDVARELGLSR----VFVLTF--------EVEFFARHGFVEIDGTPVTPEVYAELL 139 (169)
T ss_pred HHHHHHHHHHHHHHcCCCE----EEEEec--------cHHHHHHCCCEECccccCChHHHHHHH
Confidence 3567778888888888653 344432 268999999999999999987777554
No 82
>PRK13703 conjugal pilus assembly protein TraF; Provisional
Probab=56.50 E-value=69 Score=26.50 Aligned_cols=82 Identities=20% Similarity=0.228 Sum_probs=47.2
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCC---CCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEe
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEG---PRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAM 78 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~G---P~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~ 78 (148)
..|||..+.-++...+++.|+.+. -+.+.| |.|..+ .|+.-.|..+|+.+.---+
T Consensus 154 ~Cp~C~~~aPil~~fa~~yg~~v~----~VS~DG~~~p~fp~~------------------~~d~gqa~~l~v~~~PAl~ 211 (248)
T PRK13703 154 QDPIDGQLAQVINDFRDTYGLSVI----PVSVDGVINPLLPDS------------------RTDQGQAQRLGVKYFPALM 211 (248)
T ss_pred CCchhHHHHHHHHHHHHHhCCeEE----EEecCCCCCCCCCCC------------------ccChhHHHhcCCcccceEE
Confidence 368999999999999999998765 345555 666554 1222344445554433333
Q ss_pred eecccccc---CCCCCCCHHHHHHHHHHHH
Q psy17033 79 ATDYDCWR---DTGNKVCVADVLKTFKENV 105 (148)
Q Consensus 79 VTN~a~~~---~~~~~v~~eeVl~~~~~~~ 105 (148)
..|...+. -+-..++.+++.+.+....
T Consensus 212 Lv~~~t~~~~pv~~G~iS~deL~~Ri~~v~ 241 (248)
T PRK13703 212 LVDPKSGSVRPLSYGFITQDDLAKRFLNVS 241 (248)
T ss_pred EEECCCCcEEEEeeccCCHHHHHHHHHHHH
Confidence 33443321 1134567777766555443
No 83
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=56.48 E-value=28 Score=26.48 Aligned_cols=70 Identities=13% Similarity=0.088 Sum_probs=41.9
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHH---HHHcCCCee-ecccchH-----HHHHHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNL---FRSWNAHLV-NMTLVPE-----VVLAKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~---~r~~GaDvV-GMStvPE-----vilAre~Gm~ 72 (148)
.++|..++++-+.+.+++.|+.+. +....+ ....+.+. +...+.|.| ..+.-++ ....++.|++
T Consensus 10 ~~~~~~~~~~~~~~~a~~~g~~~~----~~~~~~---~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~l~~~~ip 82 (267)
T cd01536 10 NNPFWQAMNKGAEAAAKELGVELI----VLDAQN---DVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKKANAAGIP 82 (267)
T ss_pred cCHHHHHHHHHHHHHHHhcCceEE----EECCCC---CHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHHHHHCCCc
Confidence 367888999999999998877654 222222 22223333 334578844 4543322 2345678888
Q ss_pred eeEEEe
Q psy17033 73 YAAVAM 78 (148)
Q Consensus 73 ~~~is~ 78 (148)
++.+..
T Consensus 83 ~V~~~~ 88 (267)
T cd01536 83 VVTVDS 88 (267)
T ss_pred EEEecC
Confidence 888754
No 84
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=56.15 E-value=46 Score=28.01 Aligned_cols=68 Identities=21% Similarity=0.158 Sum_probs=48.4
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchH-HH----HHHHcCCce
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPE-VV----LAKEAGLLY 73 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPE-vi----lAre~Gm~~ 73 (148)
++|...+.+.+++.+++.|.++. .-+++-..-+.|. +.+..++.-|+|+|-+...++ .+ -+++.|+..
T Consensus 171 ~~~g~~~~~~~~~~~~~~G~~v~-~~~~~~~g~~D~~--~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~ 243 (369)
T PRK15404 171 QQYGEGLARSVKDGLKKAGANVV-FFEGITAGDKDFS--ALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKT 243 (369)
T ss_pred CchhHHHHHHHHHHHHHcCCEEE-EEEeeCCCCCchH--HHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCC
Confidence 46778889999999999999886 3334433334443 477888999999998766543 33 366888774
No 85
>PRK10060 RNase II stability modulator; Provisional
Probab=55.60 E-value=22 Score=32.69 Aligned_cols=44 Identities=11% Similarity=0.169 Sum_probs=37.2
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
++-+..+.+.+...|+.+|+++.-+|| ||.++..+++.+|+|.+
T Consensus 593 ~~~~~~~v~~ii~~a~~lg~~viAeGV---------Et~~q~~~l~~~G~d~~ 636 (663)
T PRK10060 593 QPVSQSLVRAIVAVAQALNLQVIAEGV---------ETAKEDAFLTKNGVNER 636 (663)
T ss_pred CcchHHHHHHHHHHHHHCCCcEEEecC---------CCHHHHHHHHHcCCCEE
Confidence 455667778888999999999876886 99999999999999875
No 86
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=54.67 E-value=44 Score=27.27 Aligned_cols=68 Identities=18% Similarity=0.172 Sum_probs=48.2
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHH-----HHHcCCce
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVL-----AKEAGLLY 73 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvil-----Are~Gm~~ 73 (148)
++|...+.+.+++.+++.|+++.....| -..-+.|. ..++.++..|+|+|-....++-.. |++.|+..
T Consensus 147 ~~~g~~~~~~~~~~~~~~g~~v~~~~~~-~~~~~d~~--~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~ 219 (344)
T cd06348 147 DAFSVSETEIFQKALRDQGLNLVTVQTF-QTGDTDFQ--AQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNG 219 (344)
T ss_pred chHHHHHHHHHHHHHHHcCCEEEEEEee-CCCCCCHH--HHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCC
Confidence 3588899999999999999998733333 22334443 567788999999988887664332 67778764
No 87
>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=54.43 E-value=85 Score=24.40 Aligned_cols=70 Identities=19% Similarity=0.153 Sum_probs=44.3
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHH---HHHcCCCeeecccc-h----H-HHHHHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNL---FRSWNAHLVNMTLV-P----E-VVLAKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~---~r~~GaDvVGMStv-P----E-vilAre~Gm~ 72 (148)
.++|-..+.+-+.+.+++.|+.+. +....+ +....+... +...|+|.+=.... + + .-.+++.|++
T Consensus 11 ~~~~~~~~~~g~~~~~~~~g~~v~----~~~~~~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~~~~~~~ip 84 (271)
T cd06312 11 GDPFWTVVKNGAEDAAKDLGVDVE----YRGPET--FDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIKRAVAAGIP 84 (271)
T ss_pred CCcHHHHHHHHHHHHHHHhCCEEE----EECCCC--CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHHHHHCCCe
Confidence 478999999999999999877653 222221 344445444 44578885554332 2 2 2346778999
Q ss_pred eeEEE
Q psy17033 73 YAAVA 77 (148)
Q Consensus 73 ~~~is 77 (148)
++.+-
T Consensus 85 vV~~~ 89 (271)
T cd06312 85 VISFN 89 (271)
T ss_pred EEEeC
Confidence 88774
No 88
>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=54.42 E-value=41 Score=25.34 Aligned_cols=71 Identities=13% Similarity=0.026 Sum_probs=45.7
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCC---HHHHHHHHHcCCCeee-cccchHH---HHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSS---RAESNLFRSWNAHLVN-MTLVPEV---VLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET---~AE~r~~r~~GaDvVG-MStvPEv---ilAre~Gm~~~ 74 (148)
.++|...+.+-+++.++++|+.+. ++- ..+.. ..-++.+...|.|.|- +..-+.. ..+...|++++
T Consensus 10 ~~~~~~~~~~g~~~~~~~~g~~~~---~~~----~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~~~~~~~~~ipvv 82 (264)
T cd06267 10 SNPFFAELLRGIEEAAREAGYSVL---LCN----SDEDPEKEREALELLLSRRVDGIILAPSRLDDELLEELAALGIPVV 82 (264)
T ss_pred CCHHHHHHHHHHHHHHHHcCCEEE---EEc----CCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHHHHHHHHcCCCEE
Confidence 468889999999999999887754 221 12221 2334455567888544 4444443 45778899998
Q ss_pred EEEee
Q psy17033 75 AVAMA 79 (148)
Q Consensus 75 ~is~V 79 (148)
.+..-
T Consensus 83 ~~~~~ 87 (264)
T cd06267 83 LVDRP 87 (264)
T ss_pred Eeccc
Confidence 88654
No 89
>PRK07094 biotin synthase; Provisional
Probab=54.19 E-value=34 Score=28.38 Aligned_cols=51 Identities=20% Similarity=0.384 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH-HHHHHHcCCCeeecc
Q psy17033 7 NSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE-SNLFRSWNAHLVNMT 58 (148)
Q Consensus 7 ~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE-~r~~r~~GaDvVGMS 58 (148)
.+-+....+.+++.|+.+. -+.-+...|-++|...| +++++.++.|.++++
T Consensus 164 ~~~~~~~i~~l~~~Gi~v~-~~~iiGlpget~ed~~~~l~~l~~l~~~~v~~~ 215 (323)
T PRK07094 164 FENRIACLKDLKELGYEVG-SGFMVGLPGQTLEDLADDILFLKELDLDMIGIG 215 (323)
T ss_pred HHHHHHHHHHHHHcCCeec-ceEEEECCCCCHHHHHHHHHHHHhCCCCeeeee
Confidence 3344445666777787754 44444444555555544 446666777666653
No 90
>PRK05481 lipoyl synthase; Provisional
Probab=53.55 E-value=34 Score=28.48 Aligned_cols=57 Identities=19% Similarity=0.314 Sum_probs=41.5
Q ss_pred CCcccCHHHHHHHHHHHHHh--CCceecceEEEEeCCCCCCCHHHH----HHHHHcCCCeeecccchH
Q psy17033 1 MEPAFDNSTRQIIIDSLKEL--GFKFHDKGTAVCIEGPRFSSRAES----NLFRSWNAHLVNMTLVPE 62 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~--gi~~~~~GvY~~~~GP~fET~AE~----r~~r~~GaDvVGMStvPE 62 (148)
|...|+.+-+-.+.+.+++. |+.+. .+.-+.. | ||..+. ++++.+|.|.+++....-
T Consensus 173 m~r~~t~e~~le~i~~ar~~~pgi~~~-t~~IvGf-G---ET~ed~~~tl~~lrel~~d~v~if~Ys~ 235 (289)
T PRK05481 173 VRPGADYERSLELLKRAKELHPGIPTK-SGLMVGL-G---ETDEEVLEVMDDLRAAGVDILTIGQYLQ 235 (289)
T ss_pred hCCCCCHHHHHHHHHHHHHhCCCCeEe-eeeEEEC-C---CCHHHHHHHHHHHHhcCCCEEEEEccCC
Confidence 44567888888888889999 98876 5555555 5 566554 478899999999865443
No 91
>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=53.39 E-value=39 Score=26.50 Aligned_cols=71 Identities=15% Similarity=0.136 Sum_probs=45.3
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccc-----hHH-HHHHHcCCceeE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLV-----PEV-VLAKEAGLLYAA 75 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStv-----PEv-ilAre~Gm~~~~ 75 (148)
.+||-.++.+-+.+.+++.|+.+. +.....|.- -...++.+...++|.|=++.. ++. ..++..|++++.
T Consensus 10 ~~~~~~~~~~gi~~~~~~~g~~~~----~~~~~~~~~-~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~~~~~iPvV~ 84 (289)
T cd01540 10 EEPWFQTEWKFAKKAAKEKGFTVV----KIDVPDGEK-VLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKAKAYNMKVVA 84 (289)
T ss_pred CCcHHHHHHHHHHHHHHHcCCEEE----EccCCCHHH-HHHHHHHHHHcCCCEEEEccCchhhhHHHHHHHHhCCCeEEE
Confidence 468889999999999999887654 211111210 112334455688887766542 343 457788999998
Q ss_pred EE
Q psy17033 76 VA 77 (148)
Q Consensus 76 is 77 (148)
+.
T Consensus 85 ~~ 86 (289)
T cd01540 85 VD 86 (289)
T ss_pred ec
Confidence 74
No 92
>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=53.25 E-value=92 Score=23.99 Aligned_cols=70 Identities=11% Similarity=0.086 Sum_probs=46.7
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHH---HcCCCeeeccc-----chHH-HHHHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFR---SWNAHLVNMTL-----VPEV-VLAKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r---~~GaDvVGMSt-----vPEv-ilAre~Gm~ 72 (148)
.++|-..+.+-+.+.+++.|+.+. +. . ..++...+...++ ..+.|.|-... .++. ..+++.|++
T Consensus 10 ~~~~~~~~~~gi~~~~~~~g~~~~----~~--~-~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~~~~~ip 82 (273)
T cd06305 10 SGDFDQAYLAGTKAEAEALGGDLR----VY--D-AGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRALDAGIP 82 (273)
T ss_pred CCcHHHHHHHHHHHHHHHcCCEEE----EE--C-CCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHHHHcCCC
Confidence 467888999999999999988755 11 1 2455555555444 45888765532 2343 457888999
Q ss_pred eeEEEe
Q psy17033 73 YAAVAM 78 (148)
Q Consensus 73 ~~~is~ 78 (148)
++.+--
T Consensus 83 vV~~~~ 88 (273)
T cd06305 83 VVAFDV 88 (273)
T ss_pred EEEecC
Confidence 887743
No 93
>PF01380 SIS: SIS domain SIS domain web page.; InterPro: IPR001347 The SIS (Sugar ISomerase) domain is a phosphosugar-binding domain [] found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars possibly by binding to the end-product of the pathway.; GO: 0005529 sugar binding, 0005975 carbohydrate metabolic process; PDB: 3TBF_C 2V4M_A 2ZJ4_A 2ZJ3_A 3FKJ_A 3ODP_A 3EUA_H 1VIV_A 1M3S_B 1TZB_A ....
Probab=53.21 E-value=9.4 Score=26.64 Aligned_cols=40 Identities=18% Similarity=0.093 Sum_probs=35.9
Q ss_pred EEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHc
Q psy17033 30 AVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEA 69 (148)
Q Consensus 30 Y~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~ 69 (148)
.+..+|...|+....+.+|+.|+.+|..|.-++-.+++..
T Consensus 59 ~is~sg~~~~~~~~~~~ak~~g~~vi~iT~~~~~~l~~~a 98 (131)
T PF01380_consen 59 IISYSGETRELIELLRFAKERGAPVILITSNSESPLARLA 98 (131)
T ss_dssp EEESSSTTHHHHHHHHHHHHTTSEEEEEESSTTSHHHHHS
T ss_pred eeeccccchhhhhhhHHHHhcCCeEEEEeCCCCCchhhhC
Confidence 3445788899999999999999999999999999999997
No 94
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=53.20 E-value=20 Score=28.81 Aligned_cols=41 Identities=10% Similarity=0.012 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeec
Q psy17033 7 NSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNM 57 (148)
Q Consensus 7 ~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGM 57 (148)
|.+...+.+.+++.|+.+. |--.||.|+....++|+|.|+.
T Consensus 95 P~~~~~v~~~~~~~~i~~i----------PG~~T~~E~~~A~~~Gad~vkl 135 (213)
T PRK06552 95 PSFNRETAKICNLYQIPYL----------PGCMTVTEIVTALEAGSEIVKL 135 (213)
T ss_pred CCCCHHHHHHHHHcCCCEE----------CCcCCHHHHHHHHHcCCCEEEE
Confidence 3344445556777888776 3346999999999999999997
No 95
>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=53.13 E-value=83 Score=24.74 Aligned_cols=68 Identities=15% Similarity=0.038 Sum_probs=44.0
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeeccc-c---hHHHHHHHcCCceeEEE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTL-V---PEVVLAKEAGLLYAAVA 77 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMSt-v---PEvilAre~Gm~~~~is 77 (148)
.+||-..+.+-+.+.|++.|+.+. +.. .+ ++- .=++.+...++|.+=... - |-...+++.|++++.+-
T Consensus 15 ~~~~~~~~~~gi~~~a~~~g~~~~----~~~--~~-~~~-~~~~~~~~~~~dgiii~~~~~~~~~~~~~~~~~ipvV~~~ 86 (283)
T cd06279 15 SDPVASQFLAGVAEVLDAAGVNLL----LLP--AS-SED-SDSALVVSALVDGFIVYGVPRDDPLVAALLRRGLPVVVVD 86 (283)
T ss_pred cCccHHHHHHHHHHHHHHCCCEEE----Eec--Cc-cHH-HHHHHHHhcCCCEEEEeCCCCChHHHHHHHHcCCCEEEEe
Confidence 578889999999999999887754 111 11 121 223456678888554432 2 33445788899988774
No 96
>PRK07315 fructose-bisphosphate aldolase; Provisional
Probab=53.08 E-value=35 Score=28.68 Aligned_cols=49 Identities=6% Similarity=0.154 Sum_probs=33.4
Q ss_pred HHHHHHHHHHhCCceecceEEEEeCC-------C-CCCCHHHHHHHHHcCCCeeecc--cc
Q psy17033 10 RQIIIDSLKELGFKFHDKGTAVCIEG-------P-RFSSRAESNLFRSWNAHLVNMT--LV 60 (148)
Q Consensus 10 r~~~~~~a~~~gi~~~~~GvY~~~~G-------P-~fET~AE~r~~r~~GaDvVGMS--tv 60 (148)
-+.+.+.|+..|+.+ ++-...+.| - .|.+|.|.+.|...|+|.++.+ ++
T Consensus 119 t~~v~~~a~~~gv~v--E~ElG~i~g~ed~~~g~s~~t~peea~~f~~tgvD~LAv~iG~v 177 (293)
T PRK07315 119 AKEVVEKAHAKGISV--EAEVGTIGGEEDGIIGKGELAPIEDAKAMVETGIDFLAAGIGNI 177 (293)
T ss_pred HHHHHHHHHHcCCEE--EEecCcccCcCccccCccCCCCHHHHHHHHHcCCCEEeeccccc
Confidence 345566677777765 222223322 2 2799999998889999999999 66
No 97
>PRK11829 biofilm formation regulator HmsP; Provisional
Probab=52.95 E-value=27 Score=31.60 Aligned_cols=41 Identities=12% Similarity=0.145 Sum_probs=34.7
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
+..+.+.+...|+.+|+++.-+|| ||.++..+++.+|+|.+
T Consensus 594 ~~~~~~~i~~~a~~l~~~viaegV---------Et~~~~~~l~~~g~d~~ 634 (660)
T PRK11829 594 DDAIARIISCVSDVLKVRVMAEGV---------ETEEQRQWLLEHGIQCG 634 (660)
T ss_pred CHHHHHHHHHHHHHcCCeEEEecC---------CCHHHHHHHHHcCCCEE
Confidence 466778888899999998766775 99999999999998865
No 98
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=52.94 E-value=61 Score=24.27 Aligned_cols=55 Identities=20% Similarity=0.202 Sum_probs=36.6
Q ss_pred HHHHHHHHhCCceecceEEEEeCCCCCCCHHH-HHHHHHcCCCeeeccc--------chHHH-HHHHcCCcee
Q psy17033 12 IIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE-SNLFRSWNAHLVNMTL--------VPEVV-LAKEAGLLYA 74 (148)
Q Consensus 12 ~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE-~r~~r~~GaDvVGMSt--------vPEvi-lAre~Gm~~~ 74 (148)
++....+..|+++.+-| + +-|+.| ++..+.-++|+||+|. +++++ ..++.|++-.
T Consensus 20 iv~~~l~~~GfeVi~LG-------~-~v~~e~~v~aa~~~~adiVglS~l~~~~~~~~~~~~~~l~~~gl~~~ 84 (134)
T TIGR01501 20 ILDHAFTNAGFNVVNLG-------V-LSPQEEFIKAAIETKADAILVSSLYGHGEIDCKGLRQKCDEAGLEGI 84 (134)
T ss_pred HHHHHHHHCCCEEEECC-------C-CCCHHHHHHHHHHcCCCEEEEecccccCHHHHHHHHHHHHHCCCCCC
Confidence 44455566677665333 3 334444 4577889999999998 67777 6788888543
No 99
>cd01306 PhnM PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage of alkylphosphonates, which are utilized as sole phosphorus sources by many bacteria.
Probab=52.91 E-value=67 Score=27.40 Aligned_cols=22 Identities=14% Similarity=0.279 Sum_probs=17.3
Q ss_pred cccCHHHHHHHHHHHHHhCCce
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKF 24 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~ 24 (148)
.-|+.+.++.+.+.|++.|+++
T Consensus 158 ~~~~~~~~~~iv~~A~~~gl~v 179 (325)
T cd01306 158 AAYAPANRSELAALARARGIPL 179 (325)
T ss_pred hhcCHHHHHHHHHHHHHCCCcE
Confidence 3466677888888999999875
No 100
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=52.69 E-value=47 Score=25.62 Aligned_cols=68 Identities=10% Similarity=0.056 Sum_probs=44.5
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHH---HHHcCCCeeeccc-c-----hHHHHHHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNL---FRSWNAHLVNMTL-V-----PEVVLAKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~---~r~~GaDvVGMSt-v-----PEvilAre~Gm~ 72 (148)
+++|...+++-+.+.+++.|+.+. ++ . ..+....|.+. +.+.++|.|-+.. . +-...+++.|++
T Consensus 11 ~~~~~~~~~~g~~~~~~~~g~~~~---~~--~--~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~~~~iP 83 (275)
T cd06317 11 SHSYQTTYNKAFQAAAEEDGVEVI---VL--D--ANGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRKAKQAGIP 83 (275)
T ss_pred CCHHHHHHHHHHHHHHHhcCCEEE---EE--c--CCcCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHHHHHCCCc
Confidence 578999999999999999887654 22 1 23455555444 4467899664432 2 223446788999
Q ss_pred eeEE
Q psy17033 73 YAAV 76 (148)
Q Consensus 73 ~~~i 76 (148)
++.+
T Consensus 84 vV~~ 87 (275)
T cd06317 84 VVIT 87 (275)
T ss_pred EEEe
Confidence 8855
No 101
>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=52.65 E-value=66 Score=24.59 Aligned_cols=69 Identities=17% Similarity=0.127 Sum_probs=42.3
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHH-HHH-HHHHcCCCeeecc----cchHHHHHHHcCCceeE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRA-ESN-LFRSWNAHLVNMT----LVPEVVLAKEAGLLYAA 75 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~A-E~r-~~r~~GaDvVGMS----tvPEvilAre~Gm~~~~ 75 (148)
+++|...+.+-+.+.+++.|+.+. +..... .+... ..+ ++.+.++|.+-.. ..+....+.+.|++++.
T Consensus 14 ~~~~~~~~~~~i~~~~~~~g~~~~----~~~~~~--~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ipvV~ 87 (268)
T cd06271 14 GDPFFAEFLSGLSEALAEHGYDLV----LLPVDP--DEDPLEVYRRLVESGLVDGVIISRTRPDDPRVALLLERGFPFVT 87 (268)
T ss_pred CCccHHHHHHHHHHHHHHCCceEE----EecCCC--cHHHHHHHHHHHHcCCCCEEEEecCCCCChHHHHHHhcCCCEEE
Confidence 479999999999999999988754 332222 12221 122 3444567744332 22444556788999887
Q ss_pred E
Q psy17033 76 V 76 (148)
Q Consensus 76 i 76 (148)
+
T Consensus 88 ~ 88 (268)
T cd06271 88 H 88 (268)
T ss_pred E
Confidence 7
No 102
>cd02640 R3H_NRF R3H domain of the NF-kappaB-repression factor (NRF). NRF is a nuclear inhibitor of NF-kappaB proteins that can silence the IFNbeta promoter via binding to a negative regulatory element (NRE). Beside R3H NRF also contains a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=52.52 E-value=18 Score=23.43 Aligned_cols=26 Identities=23% Similarity=0.429 Sum_probs=22.4
Q ss_pred cc-cCHHHHHHHHHHHHHhCCceecce
Q psy17033 3 PA-FDNSTRQIIIDSLKELGFKFHDKG 28 (148)
Q Consensus 3 ~~-Yd~~Lr~~~~~~a~~~gi~~~~~G 28 (148)
+| +++.-|..+.++|+++|+.....|
T Consensus 23 ~p~lt~~eR~~vH~~a~~~gL~s~S~G 49 (60)
T cd02640 23 SPEFSKEERALIHQIAQKYGLKSRSYG 49 (60)
T ss_pred CCCCCHHHHHHHHHHHHHcCCceeeEe
Confidence 46 899999999999999999876555
No 103
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=51.96 E-value=63 Score=25.26 Aligned_cols=70 Identities=16% Similarity=0.201 Sum_probs=44.5
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHH---HHHcCCCeeecccch-H----HHHHHHcCCce
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNL---FRSWNAHLVNMTLVP-E----VVLAKEAGLLY 73 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~---~r~~GaDvVGMStvP-E----vilAre~Gm~~ 73 (148)
.++|-.++..-+.+.+++.|+.+. +....++ -+...|.+. +...++|.|-+.... + ...++..|+++
T Consensus 10 ~~~f~~~~~~gi~~~a~~~g~~~~----~~~~~~~-~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~~~~giPv 84 (268)
T cd06306 10 KDAYWLSVNYGMVEEAKRLGVSLK----LLEAGGY-PNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQVAASIPV 84 (268)
T ss_pred CCHHHHHHHHHHHHHHHHcCCEEE----EecCCCC-CCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHHHHCCCCE
Confidence 578888999999999998887653 2222221 122334444 446899977665431 1 34567789999
Q ss_pred eEE
Q psy17033 74 AAV 76 (148)
Q Consensus 74 ~~i 76 (148)
+.+
T Consensus 85 V~~ 87 (268)
T cd06306 85 IAL 87 (268)
T ss_pred EEe
Confidence 877
No 104
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=51.92 E-value=21 Score=28.62 Aligned_cols=41 Identities=12% Similarity=0.158 Sum_probs=29.2
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeee
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVN 56 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVG 56 (148)
+|.+...+.+.+++.|+.+. -| --||.|+....++|+|+|=
T Consensus 82 SP~~~~~vi~~a~~~~i~~i-PG---------~~TptEi~~A~~~Ga~~vK 122 (201)
T PRK06015 82 SPGTTQELLAAANDSDVPLL-PG---------AATPSEVMALREEGYTVLK 122 (201)
T ss_pred CCCCCHHHHHHHHHcCCCEe-CC---------CCCHHHHHHHHHCCCCEEE
Confidence 34444455566777788766 33 4599999999999998874
No 105
>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=51.90 E-value=1.1e+02 Score=23.65 Aligned_cols=69 Identities=16% Similarity=0.237 Sum_probs=44.2
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHH---HHHHHcCCCeeec-ccchH--HHHHHHcCCceeE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAES---NLFRSWNAHLVNM-TLVPE--VVLAKEAGLLYAA 75 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~---r~~r~~GaDvVGM-StvPE--vilAre~Gm~~~~ 75 (148)
.++|...+.+-+.+.+++.|+.+. +. ..+.. ...+. +.+...++|.|-. +..+. ...+++.|++++.
T Consensus 13 ~~~~~~~~~~~i~~~~~~~g~~~~----~~-~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~ipvV~ 85 (268)
T cd06277 13 SPAFYSEIYRAIEEEAKKYGYNLI----LK-FVSDE--DEEEFELPSFLEDGKVDGIILLGGISTEYIKEIKELGIPFVL 85 (268)
T ss_pred cCCcHHHHHHHHHHHHHHcCCEEE----EE-eCCCC--hHHHHHHHHHHHHCCCCEEEEeCCCChHHHHHHhhcCCCEEE
Confidence 578999999999999998887643 22 22322 22333 2355678888775 43333 2346778999887
Q ss_pred EE
Q psy17033 76 VA 77 (148)
Q Consensus 76 is 77 (148)
+.
T Consensus 86 ~~ 87 (268)
T cd06277 86 VD 87 (268)
T ss_pred Ec
Confidence 64
No 106
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=51.76 E-value=33 Score=28.42 Aligned_cols=67 Identities=18% Similarity=0.218 Sum_probs=46.5
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchH-HH----HHHHcCCc
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPE-VV----LAKEAGLL 72 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPE-vi----lAre~Gm~ 72 (148)
++|...+.+.+.+.+++.|+++..+ .+.-..-+.|. +++.-++..|+|+|-....+. ++ -+|+.|+.
T Consensus 143 ~~~g~~~~~~~~~~~~~~G~~vv~~-~~~~~~~~D~~--~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~ 214 (348)
T cd06355 143 YVYPRTANKILKAQLESLGGEVVGE-EYLPLGHTDFQ--SIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGIT 214 (348)
T ss_pred chHHHHHHHHHHHHHHHcCCeEEee-EEecCChhhHH--HHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCC
Confidence 4677888999999999999987632 33333344454 567788889999987765543 33 36777874
No 107
>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=51.73 E-value=78 Score=24.27 Aligned_cols=71 Identities=18% Similarity=0.255 Sum_probs=44.0
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHH---HHHHHcCCCeee-ccc---chH-HHHHHHcCCce
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAES---NLFRSWNAHLVN-MTL---VPE-VVLAKEAGLLY 73 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~---r~~r~~GaDvVG-MSt---vPE-vilAre~Gm~~ 73 (148)
.++|...+.+-+.+.+++.|+.+. +....+ ..++ .|. +.++..++|.|= .+. .++ .-.+++.|+++
T Consensus 10 ~~~~~~~~~~gi~~~~~~~g~~~~----~~~~~~-~~~~-~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipv 83 (270)
T cd01545 10 SPGYVSEIQLGALDACRDTGYQLV----IEPCDS-GSPD-LAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEAGVPY 83 (270)
T ss_pred CcccHHHHHHHHHHHHHhCCCeEE----EEeCCC-CchH-HHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhcCCCE
Confidence 578899999999999998887654 222221 1121 232 345567888543 322 223 34567889999
Q ss_pred eEEEe
Q psy17033 74 AAVAM 78 (148)
Q Consensus 74 ~~is~ 78 (148)
+.+.-
T Consensus 84 v~i~~ 88 (270)
T cd01545 84 VRIAP 88 (270)
T ss_pred EEEec
Confidence 88753
No 108
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=51.43 E-value=35 Score=26.12 Aligned_cols=46 Identities=20% Similarity=0.184 Sum_probs=33.6
Q ss_pred EEEeCCCCCCCHHHHHHHH-HcCCCeeeccc--------chHHH-HHHHcCCceeE
Q psy17033 30 AVCIEGPRFSSRAESNLFR-SWNAHLVNMTL--------VPEVV-LAKEAGLLYAA 75 (148)
Q Consensus 30 Y~~~~GP~fET~AE~r~~r-~~GaDvVGMSt--------vPEvi-lAre~Gm~~~~ 75 (148)
|=.+.+|.|.||.|+-... +-.+|+||+|. +|+++ ..|+.|..-.-
T Consensus 41 feVi~~g~~~tp~e~v~aA~~~dv~vIgvSsl~g~h~~l~~~lve~lre~G~~~i~ 96 (143)
T COG2185 41 FEVINLGLFQTPEEAVRAAVEEDVDVIGVSSLDGGHLTLVPGLVEALREAGVEDIL 96 (143)
T ss_pred ceEEecCCcCCHHHHHHHHHhcCCCEEEEEeccchHHHHHHHHHHHHHHhCCcceE
Confidence 4445678999999988766 67789999886 45554 46787776544
No 109
>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=51.13 E-value=81 Score=24.30 Aligned_cols=70 Identities=16% Similarity=0.194 Sum_probs=45.7
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHH---HHHcCCCeeecccc--hH--HHHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNL---FRSWNAHLVNMTLV--PE--VVLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~---~r~~GaDvVGMStv--PE--vilAre~Gm~~~ 74 (148)
.++|-.++.+-+.+.+++.|+.+. +.+.. .+...|.++ +...++|.|-.... +. ...+++.|++++
T Consensus 10 ~~~~~~~~~~~~~~~~~~~g~~~~----~~~~~---~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ipvV 82 (264)
T cd06274 10 ENRSFARIAKRLEALARERGYQLL----IACSD---DDPETERETVETLIARQVDALIVAGSLPPDDPYYLCQKAGLPVV 82 (264)
T ss_pred cCchHHHHHHHHHHHHHHCCCEEE----EEeCC---CCHHHHHHHHHHHHHcCCCEEEEcCCCCchHHHHHHHhcCCCEE
Confidence 468889999999999999887654 23322 233445554 45678997665543 22 344567799988
Q ss_pred EEEe
Q psy17033 75 AVAM 78 (148)
Q Consensus 75 ~is~ 78 (148)
.+.-
T Consensus 83 ~~~~ 86 (264)
T cd06274 83 ALDR 86 (264)
T ss_pred EecC
Confidence 7743
No 110
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=50.67 E-value=45 Score=27.87 Aligned_cols=48 Identities=15% Similarity=0.115 Sum_probs=33.9
Q ss_pred HHHHHHHHHHhCCceecceEEEE-------eCCCCCCCHHHHHHHH-HcCCCeeec
Q psy17033 10 RQIIIDSLKELGFKFHDKGTAVC-------IEGPRFSSRAESNLFR-SWNAHLVNM 57 (148)
Q Consensus 10 r~~~~~~a~~~gi~~~~~GvY~~-------~~GP~fET~AE~r~~r-~~GaDvVGM 57 (148)
-+.+.+.+++.|+++--++..+. ..|=+|-||.|.+.|- ..|+|.++-
T Consensus 117 t~~v~~~a~~~gv~veaE~ghlG~~d~~~~~~g~s~t~~eea~~f~~~tg~DyLAv 172 (281)
T PRK06806 117 TKEIVELAKQYGATVEAEIGRVGGSEDGSEDIEMLLTSTTEAKRFAEETDVDALAV 172 (281)
T ss_pred HHHHHHHHHHcCCeEEEEeeeECCccCCcccccceeCCHHHHHHHHHhhCCCEEEE
Confidence 45567778888988755665553 2244578999987764 569998888
No 111
>PRK11059 regulatory protein CsrD; Provisional
Probab=50.06 E-value=33 Score=31.27 Aligned_cols=43 Identities=9% Similarity=0.029 Sum_probs=35.4
Q ss_pred ccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 4 AFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
+-+..+.+.+.+.|+.+|+.+.-+|| ||.+|.++++.+|+|.+
T Consensus 586 ~~~~~~v~sli~~a~~~~i~viAegV---------Et~~~~~~l~~lGvd~~ 628 (640)
T PRK11059 586 TENQLFVRSLVGACAGTETQVFATGV---------ESREEWQTLQELGVSGG 628 (640)
T ss_pred chhHHHHHHHHHHHHHCCCeEEEEEe---------CCHHHHHHHHHhCCCee
Confidence 33455667788889999998876776 99999999999999875
No 112
>PF00563 EAL: EAL domain; InterPro: IPR001633 This domain is found in diverse bacterial signalling proteins. It is called EAL after its conserved residues. The EAL domain is a good candidate for a diguanylate phosphodiesterase function []. The domain contains many conserved acidic residues that could participate in metal binding and might form the phosphodiesterase active site. It often but not always occurs along with IPR000014 from INTERPRO and IPR000160 from INTERPRO domains that are also found in many signalling proteins.; PDB: 3PJU_A 3PJX_A 3PJW_A 3PJT_B 3KZP_B 3U2E_B 3S83_A 2R6O_B 3N3T_B 3GG1_A ....
Probab=49.74 E-value=27 Score=26.55 Aligned_cols=41 Identities=24% Similarity=0.366 Sum_probs=31.5
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
...+.+.+...++++|+.+.-+|| ||.++..+++.+|+|.+
T Consensus 188 ~~~~l~~l~~~~~~~~~~via~gV---------e~~~~~~~l~~~G~~~~ 228 (236)
T PF00563_consen 188 AQSLLQSLINLAKSLGIKVIAEGV---------ESEEQLELLKELGVDYI 228 (236)
T ss_dssp HHHHHHHHHHHHHHTT-EEEEECE----------SHHHHHHHHHTTESEE
T ss_pred HHHHHHHHHHHhhccccccceeec---------CCHHHHHHHHHcCCCEE
Confidence 455666677888988888765675 99999999999999965
No 113
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=49.74 E-value=59 Score=26.97 Aligned_cols=71 Identities=14% Similarity=0.102 Sum_probs=46.3
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH-HHHHHHcCCCeeecccc------hHHHHHHHcCCce
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE-SNLFRSWNAHLVNMTLV------PEVVLAKEAGLLY 73 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE-~r~~r~~GaDvVGMStv------PEvilAre~Gm~~ 73 (148)
+.++|-..+.+-+.+.|++.|+.+. ++......+...+ ++.+.+.+.|.|-+... +....+++.|+++
T Consensus 35 ~~~~f~~~~~~gi~~~a~~~g~~l~-----i~~~~~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l~~~~~~~iPv 109 (330)
T PRK10355 35 LRLERWQKDRDIFVKKAESLGAKVF-----VQSANGNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVIKEAKQEGIKV 109 (330)
T ss_pred CCchHHHHHHHHHHHHHHHcCCEEE-----EECCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHHHHHHHCCCeE
Confidence 3578899999999999999887654 2222222222212 34566678997766542 3456677889998
Q ss_pred eEE
Q psy17033 74 AAV 76 (148)
Q Consensus 74 ~~i 76 (148)
+.+
T Consensus 110 V~i 112 (330)
T PRK10355 110 LAY 112 (330)
T ss_pred EEE
Confidence 877
No 114
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=49.65 E-value=82 Score=25.33 Aligned_cols=69 Identities=14% Similarity=0.143 Sum_probs=42.9
Q ss_pred CcccCHHHHHHHHHHHHHh--CCceecceEEEEeCCCCCCCHHH---HHHHHHcCCCeeecc-cch-----HHHHHHHcC
Q psy17033 2 EPAFDNSTRQIIIDSLKEL--GFKFHDKGTAVCIEGPRFSSRAE---SNLFRSWNAHLVNMT-LVP-----EVVLAKEAG 70 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~--gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~GaDvVGMS-tvP-----EvilAre~G 70 (148)
.++|...+++-+.+.|+++ |+.+. +..+..+...+ ++.+...++|.+-+. +-| ....|++.|
T Consensus 10 ~~~~~~~~~~gi~~~a~~~~~g~~~~-------~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~g 82 (303)
T cd01539 10 DDTFISLVRKNLEDIQKENGGKVEFT-------FYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVINKAKQKN 82 (303)
T ss_pred CChHHHHHHHHHHHHHHhhCCCeeEE-------EecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHHHHHHHCC
Confidence 5789999999999999984 43332 22233332223 445667888966543 222 335567789
Q ss_pred CceeEEE
Q psy17033 71 LLYAAVA 77 (148)
Q Consensus 71 m~~~~is 77 (148)
++++.+-
T Consensus 83 iPvV~~~ 89 (303)
T cd01539 83 IPVIFFN 89 (303)
T ss_pred CCEEEeC
Confidence 9988763
No 115
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=49.53 E-value=72 Score=25.75 Aligned_cols=70 Identities=16% Similarity=0.096 Sum_probs=48.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchH-HHH----HHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPE-VVL----AKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPE-vil----Are~Gm~~~ 74 (148)
.++|...+.+.+++.+++.|+++... .+.-..-..|. +.++.++..++|+|-+...+. ... +++.|+..-
T Consensus 146 ~~~~g~~~~~~~~~~~~~~G~~vv~~-~~~~~~~~d~~--~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~ 220 (312)
T cd06346 146 NNDYGVGLADAFTKAFEALGGTVTNV-VAHEEGKSSYS--SEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFDK 220 (312)
T ss_pred cCchhhHHHHHHHHHHHHcCCEEEEE-EeeCCCCCCHH--HHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCCc
Confidence 35788899999999999999988622 22222223333 578889999999998876654 332 567788543
No 116
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=49.27 E-value=1.1e+02 Score=23.28 Aligned_cols=70 Identities=17% Similarity=0.117 Sum_probs=43.6
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHH---HHHHHcCCCeeecccc----hHHHHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAES---NLFRSWNAHLVNMTLV----PEVVLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~---r~~r~~GaDvVGMStv----PEvilAre~Gm~~~ 74 (148)
.++|..++.+-+.+.+++.|+.+. +... .+....|. +.+.+.++|.|=+... +....+...|++++
T Consensus 10 ~~~~~~~~~~gi~~~~~~~g~~~~----~~~~---~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ipvv 82 (268)
T cd01575 10 SNSVFADVLQGISDVLEAAGYQLL----LGNT---GYSPEREEELLRTLLSRRPAGLILTGLEHTERTRQLLRAAGIPVV 82 (268)
T ss_pred cchhHHHHHHHHHHHHHHcCCEEE----EecC---CCCchhHHHHHHHHHHcCCCEEEEeCCCCCHHHHHHHHhcCCCEE
Confidence 467888999999999999887653 2111 22222233 3455568886644332 22345678899999
Q ss_pred EEEe
Q psy17033 75 AVAM 78 (148)
Q Consensus 75 ~is~ 78 (148)
.+.-
T Consensus 83 ~~~~ 86 (268)
T cd01575 83 EIMD 86 (268)
T ss_pred EEec
Confidence 8743
No 117
>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=48.92 E-value=81 Score=24.43 Aligned_cols=70 Identities=10% Similarity=-0.040 Sum_probs=44.1
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH---HHHHcCCCeeecccc--h-HH--HHHHHcCCce
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN---LFRSWNAHLVNMTLV--P-EV--VLAKEAGLLY 73 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r---~~r~~GaDvVGMStv--P-Ev--ilAre~Gm~~ 73 (148)
.++|..++.+-+.+.|++.|+.+. ++ . ..+....|.+ .+...+.|.|=+... + +. ..+++.|+++
T Consensus 10 ~~~~~~~~~~~i~~~a~~~g~~~~---~~--~--~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~~ipv 82 (269)
T cd06281 10 TNPLLAQLFSGAEDRLRAAGYSLL---IA--N--SLNDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALASLDLPI 82 (269)
T ss_pred ccccHHHHHHHHHHHHHHcCCEEE---EE--e--CCCChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHHhCCCCE
Confidence 578999999999999999887643 12 1 2233333433 455667786554332 1 22 2456779998
Q ss_pred eEEEe
Q psy17033 74 AAVAM 78 (148)
Q Consensus 74 ~~is~ 78 (148)
+.+--
T Consensus 83 V~i~~ 87 (269)
T cd06281 83 VLLDR 87 (269)
T ss_pred EEEec
Confidence 87753
No 118
>cd08564 GDPD_GsGDE_like Glycerophosphodiester phosphodiesterase domain of putative Galdieria sulphuraria glycerophosphodiester phosphodiesterase and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in putative Galdieria sulphuraria glycerophosphodiester phosphodiesterase (GsGDE, EC 3.1.4.46) and its uncharacterized eukaryotic homologs. Members in this family show high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=48.82 E-value=61 Score=26.17 Aligned_cols=39 Identities=10% Similarity=0.243 Sum_probs=20.4
Q ss_pred HHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 12 IIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 12 ~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
.+.+.+++.|+.+ ++++.++-..++++.+.+..+|+|.|
T Consensus 214 ~~v~~~~~~Gl~v-----~~wT~~~~~n~~~~~~~l~~~Gvdgi 252 (265)
T cd08564 214 EFVKKAHENGLKV-----MTYFDEPVNDNEEDYKVYLELGVDCI 252 (265)
T ss_pred HHHHHHHHcCCEE-----EEecCCCCCCCHHHHHHHHHcCCCEE
Confidence 3344455555442 33344444455666666666666643
No 119
>COG0794 GutQ Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]
Probab=48.74 E-value=11 Score=30.40 Aligned_cols=53 Identities=21% Similarity=0.343 Sum_probs=35.9
Q ss_pred eEEEEeCCCCCCCH---HHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeecc
Q psy17033 28 GTAVCIEGPRFSSR---AESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDY 82 (148)
Q Consensus 28 GvY~~~~GP~fET~---AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~ 82 (148)
-+.+.++|.= ||. .=+...|+.|+.+|+||.-|+-.||+...+- +-+..-+-.
T Consensus 88 DvviaiS~SG-eT~el~~~~~~aK~~g~~liaiT~~~~SsLak~aDvv-l~ip~~~e~ 143 (202)
T COG0794 88 DVVIAISGSG-ETKELLNLAPKAKRLGAKLIAITSNPDSSLAKAADVV-LVIPVKTEA 143 (202)
T ss_pred CEEEEEeCCC-cHHHHHHHHHHHHHcCCcEEEEeCCCCChHHHhcCeE-EEccCcccc
Confidence 3444444432 443 2234678999999999999999999998763 344444544
No 120
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=48.30 E-value=66 Score=26.66 Aligned_cols=70 Identities=16% Similarity=0.245 Sum_probs=44.2
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH---HHHHHHcCCCeeecccc-h----HHHHHHHcCCce
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE---SNLFRSWNAHLVNMTLV-P----EVVLAKEAGLLY 73 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~GaDvVGMStv-P----EvilAre~Gm~~ 73 (148)
.++|...+.+-+.+.+++.|+.+. +....+ ..+...+ ++.+...|+|.|=.... + +.+.+++.|+++
T Consensus 57 ~~~f~~~~~~gi~~aa~~~G~~l~----i~~~~~-~~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l~~~~~giPv 131 (343)
T PRK10936 57 KDSYWLSVNYGMVEEAKRLGVDLK----VLEAGG-YYNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDLELQAANIPV 131 (343)
T ss_pred CchHHHHHHHHHHHHHHHhCCEEE----EEcCCC-CCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHHHHCCCCE
Confidence 478889999999999999887644 222211 2332323 45566788886655432 2 222578889998
Q ss_pred eEE
Q psy17033 74 AAV 76 (148)
Q Consensus 74 ~~i 76 (148)
+.+
T Consensus 132 V~~ 134 (343)
T PRK10936 132 IAL 134 (343)
T ss_pred EEe
Confidence 765
No 121
>cd06316 PBP1_ABC_sugar_binding_like_7 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=48.10 E-value=83 Score=24.91 Aligned_cols=70 Identities=16% Similarity=0.165 Sum_probs=45.5
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHH---HcCCCeeecccc------hHHHHHHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFR---SWNAHLVNMTLV------PEVVLAKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r---~~GaDvVGMStv------PEvilAre~Gm~ 72 (148)
.+||..++.+-+.+.+++.|+.+. |+.. ..++...|.+.++ ..++|.|-.... +-+..+++.|++
T Consensus 10 ~~~~~~~~~~gi~~~a~~~g~~~~----~~~~--~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~~~~~~iP 83 (294)
T cd06316 10 GSDWSNAQVRGAKDEFAKLGIEVV----ATTD--AQFDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKKVAEAGIK 83 (294)
T ss_pred CChHHHHHHHHHHHHHHHcCCEEE----EecC--CCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHHHHHcCCc
Confidence 467888999999999998887654 3322 2344445655554 467886655332 224567888999
Q ss_pred eeEEE
Q psy17033 73 YAAVA 77 (148)
Q Consensus 73 ~~~is 77 (148)
++.+.
T Consensus 84 vV~~~ 88 (294)
T cd06316 84 LVFMD 88 (294)
T ss_pred EEEec
Confidence 98764
No 122
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=47.69 E-value=1e+02 Score=26.38 Aligned_cols=77 Identities=18% Similarity=0.280 Sum_probs=55.1
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCe-------------------ee------
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHL-------------------VN------ 56 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDv-------------------VG------ 56 (148)
+.-|+..+.+.++.++ +.|.++. ||+.=+-|++|-..=.+-|+++|-++ ||
T Consensus 125 Th~~S~~v~~~l~~A~-~~~k~~~---V~VtESRP~~eG~~~ak~L~~~gI~~~~I~Dsa~~~~~~~vd~VivGad~I~~ 200 (301)
T COG1184 125 THSFSKTVLEVLKTAA-DRGKRFK---VIVTESRPRGEGRIMAKELRQSGIPVTVIVDSAVGAFMSRVDKVLVGADAILA 200 (301)
T ss_pred EecCcHHHHHHHHHhh-hcCCceE---EEEEcCCCcchHHHHHHHHHHcCCceEEEechHHHHHHHhCCEEEECccceec
Confidence 3446666666655544 4444444 89999999999999999999998322 22
Q ss_pred -------cccchHHHHHHHcCCceeEEEeeecc
Q psy17033 57 -------MTLVPEVVLAKEAGLLYAAVAMATDY 82 (148)
Q Consensus 57 -------MStvPEvilAre~Gm~~~~is~VTN~ 82 (148)
--|.|=+.+|||+|.++..++-.=-.
T Consensus 201 nG~lvnkiGT~~lA~~A~e~~~Pf~v~aesyKf 233 (301)
T COG1184 201 NGALVNKIGTSPLALAARELRVPFYVVAESYKF 233 (301)
T ss_pred CCcEEeccchHHHHHHHHHhCCCEEEEeeeecc
Confidence 23678899999999999988765433
No 123
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=47.40 E-value=92 Score=25.58 Aligned_cols=68 Identities=12% Similarity=-0.034 Sum_probs=46.5
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchH-HH----HHHHcCCce
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPE-VV----LAKEAGLLY 73 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPE-vi----lAre~Gm~~ 73 (148)
.+|...+.+.+++.+++.|+.+.....| -...+.| ...++-++..|+|+|-+...++ .+ -+++.|+..
T Consensus 148 ~~~g~~~~~~~~~~~~~~G~~v~~~~~~-~~~~~d~--s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~ 220 (347)
T cd06335 148 TGWGRSNRKDLTAALAARGLKPVAVEWF-NWGDKDM--TAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKV 220 (347)
T ss_pred CchhhhHHHHHHHHHHHcCCeeEEEeee-cCCCccH--HHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCC
Confidence 5688889999999999999987633333 2222333 3578888899999887665553 32 156678864
No 124
>PF12170 DNA_pol3_tau_5: DNA polymerase III tau subunit V interacting with alpha; InterPro: IPR021029 This domain family is found in bacteria, and is approximately 140 amino acids in length. The family is found in association with PF00004 from PFAM. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. The extreme C-terminal region of this domain 5 is the part which interacts with the alpha subunit of the DNA polymerase III holoenzyme [, ]. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 2AYA_A.
Probab=47.20 E-value=48 Score=25.02 Aligned_cols=40 Identities=18% Similarity=0.199 Sum_probs=23.3
Q ss_pred cccCHHHHHHHHHHHHH-hCCceecceEEEEeC-CCCCCCHHHHH
Q psy17033 3 PAFDNSTRQIIIDSLKE-LGFKFHDKGTAVCIE-GPRFSSRAESN 45 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~-~gi~~~~~GvY~~~~-GP~fET~AE~r 45 (148)
+-.++..++.+.++..+ +|-++. +++... .|.-+||+|+|
T Consensus 64 HL~~~~a~~~L~~ALs~~~g~~i~---L~I~~~~~~~~~TP~e~r 105 (142)
T PF12170_consen 64 HLNNDSAQEQLQQALSEYLGEPIK---LSIEEGDNPARETPLEIR 105 (142)
T ss_dssp TT--HHHHHHHHHHHHHHHSS--E---EEEEE---TTS--HHHHH
T ss_pred hhCCHHHHHHHHHHHHHHhCCCEE---EEEEECCCCCCCCHHHHH
Confidence 34567777777777655 577765 666554 48899999997
No 125
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=47.20 E-value=75 Score=24.56 Aligned_cols=69 Identities=13% Similarity=0.049 Sum_probs=44.0
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHH---HHHcCCCeeecccc------hHHHHHHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNL---FRSWNAHLVNMTLV------PEVVLAKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~---~r~~GaDvVGMStv------PEvilAre~Gm~ 72 (148)
.++|-..+.+-+.+.+++.|+.+. + ..+. .....+.+. +...+.|.|-.... +....+++.|++
T Consensus 10 ~~~~~~~~~~~i~~~~~~~g~~~~----~--~~~~-~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~~~~~ip 82 (277)
T cd06319 10 RIPFWQIMGRGVKSKAKALGYDAV----E--LSAE-NSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLLKLAAQAKIP 82 (277)
T ss_pred CchHHHHHHHHHHHHHHhcCCeEE----E--ecCC-CCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHHHHCCCC
Confidence 578999999999999999887653 1 1222 233334333 34578887744322 223467788999
Q ss_pred eeEEE
Q psy17033 73 YAAVA 77 (148)
Q Consensus 73 ~~~is 77 (148)
++.+-
T Consensus 83 vV~~~ 87 (277)
T cd06319 83 VVIAD 87 (277)
T ss_pred EEEEe
Confidence 98764
No 126
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=47.03 E-value=1.1e+02 Score=23.55 Aligned_cols=70 Identities=6% Similarity=-0.003 Sum_probs=47.9
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHH---HHHcCCCeeecccc--hH--HHHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNL---FRSWNAHLVNMTLV--PE--VVLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~---~r~~GaDvVGMStv--PE--vilAre~Gm~~~ 74 (148)
.++|-.++.+-+.+.|+++|+.+. ++ . ..+....|.+. +.+.++|.|-.... +. ...++..|++++
T Consensus 10 ~~~~~~~~~~g~~~~a~~~g~~~~---~~---~-~~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~~~~~~~~~~ipvV 82 (268)
T cd06270 10 DGPFFGPLLSGVESVARKAGKHLI---IT---A-GHHSAEKEREAIEFLLERRCDALILHSKALSDDELIELAAQVPPLV 82 (268)
T ss_pred cCcchHHHHHHHHHHHHHCCCEEE---EE---e-CCCchHHHHHHHHHHHHcCCCEEEEecCCCCHHHHHHHhhCCCCEE
Confidence 578999999999999999988764 21 1 23454555454 44578997766442 22 456778899988
Q ss_pred EEEe
Q psy17033 75 AVAM 78 (148)
Q Consensus 75 ~is~ 78 (148)
.+--
T Consensus 83 ~~~~ 86 (268)
T cd06270 83 LINR 86 (268)
T ss_pred EEec
Confidence 8743
No 127
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=46.77 E-value=64 Score=25.09 Aligned_cols=71 Identities=20% Similarity=0.263 Sum_probs=44.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCH-HHHHHHHHcCCCeeecccc-hH-----HHHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSR-AESNLFRSWNAHLVNMTLV-PE-----VVLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~-AE~r~~r~~GaDvVGMStv-PE-----vilAre~Gm~~~ 74 (148)
+++|-..+.+-+.+.+++.|+.+. + +..+...+.. .-++.+...++|.|=.+.. ++ +..+++.|++++
T Consensus 10 ~~~~~~~~~~~i~~~~~~~g~~v~----~-~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~~~~~iPvV 84 (282)
T cd06318 10 NSPFFAALTEAAKAHAKALGYELI----S-TDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAAKAAGVPVV 84 (282)
T ss_pred cCHHHHHHHHHHHHHHHHcCCEEE----E-EcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHHHHCCCCEE
Confidence 578888999999999999887654 1 2111121111 1244566788886655432 22 355678899998
Q ss_pred EEE
Q psy17033 75 AVA 77 (148)
Q Consensus 75 ~is 77 (148)
.+-
T Consensus 85 ~~~ 87 (282)
T cd06318 85 VVD 87 (282)
T ss_pred Eec
Confidence 774
No 128
>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=46.63 E-value=1.1e+02 Score=23.46 Aligned_cols=69 Identities=12% Similarity=0.005 Sum_probs=44.0
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH---HHHHHHcCCCeeecccc----hHHHHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE---SNLFRSWNAHLVNMTLV----PEVVLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~GaDvVGMStv----PEvilAre~Gm~~~ 74 (148)
.++|-.++.+-+.+.+++.|+.+. ++. +.+....| ++.+...|+|.|=.+.. +.+.-+++.|++++
T Consensus 10 ~~~~~~~~~~gi~~~~~~~g~~~~----~~~---~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~l~~~~ipvV 82 (265)
T cd06299 10 RNPYFASLATAIQDAASAAGYSTI----IGN---SDENPETENRYLDNLLSQRVDGIIVVPHEQSAEQLEDLLKRGIPVV 82 (265)
T ss_pred CCccHHHHHHHHHHHHHHcCCEEE----EEe---CCCCHHHHHHHHHHHHhcCCCEEEEcCCCCChHHHHHHHhCCCCEE
Confidence 467888999999999999887654 221 12333334 33455678886554432 23445677899987
Q ss_pred EEE
Q psy17033 75 AVA 77 (148)
Q Consensus 75 ~is 77 (148)
.+.
T Consensus 83 ~~~ 85 (265)
T cd06299 83 FVD 85 (265)
T ss_pred EEe
Confidence 664
No 129
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=46.56 E-value=49 Score=26.89 Aligned_cols=67 Identities=19% Similarity=0.076 Sum_probs=46.0
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHH-----HHHHcCC
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVV-----LAKEAGL 71 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvi-----lAre~Gm 71 (148)
.++|...+.+.+++.+++.|+++.....| -...+.|. +.++-++..++|+|=+...+.-. -+++.|+
T Consensus 144 ~~~~g~~~~~~~~~~~~~~G~~vv~~~~~-~~~~~d~~--~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~ 215 (334)
T cd06327 144 DYAFGHSLERDARKVVKANGGKVVGSVRH-PLGTSDFS--SYLLQAQASGADVLVLANAGADTVNAIKQAAEFGL 215 (334)
T ss_pred chHHhHHHHHHHHHHHHhcCCEEcCcccC-CCCCccHH--HHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCC
Confidence 35788888999999999999887644444 23344555 46777788888888777655433 2566676
No 130
>PRK10490 sensor protein KdpD; Provisional
Probab=46.34 E-value=1.3e+02 Score=28.95 Aligned_cols=71 Identities=15% Similarity=0.056 Sum_probs=50.4
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH-------HHHHcCCCeeeccc--chHHHH--HHHcCC
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN-------LFRSWNAHLVNMTL--VPEVVL--AKEAGL 71 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r-------~~r~~GaDvVGMSt--vPEvil--Are~Gm 71 (148)
.|.+..|.+.....|++++-+++ -+|+...+...-+.++.+ .-+++||.++-... +++.++ ||+.|+
T Consensus 260 ~~~~~~lIr~~~rlA~~~~a~~~--~l~V~~~~~~~~~~~~~~~l~~~~~lA~~lGa~~~~~~~~dva~~i~~~A~~~~v 337 (895)
T PRK10490 260 NTGSEKLVRTAARLAARLGSVWH--AVYVETPRLHRLPEKKRRAILSALRLAQELGAETATLSDPAEEKAVLRYAREHNL 337 (895)
T ss_pred CcchHHHHHHHHHHHHhcCCCEE--EEEEecCCcCcCCHHHHHHHHHHHHHHHHcCCEEEEEeCCCHHHHHHHHHHHhCC
Confidence 57788899999999999888876 789888777665554442 44568988665543 677776 666666
Q ss_pred ceeE
Q psy17033 72 LYAA 75 (148)
Q Consensus 72 ~~~~ 75 (148)
.-+-
T Consensus 338 t~IV 341 (895)
T PRK10490 338 GKII 341 (895)
T ss_pred CEEE
Confidence 4433
No 131
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=46.21 E-value=72 Score=26.10 Aligned_cols=68 Identities=13% Similarity=0.068 Sum_probs=46.9
Q ss_pred cccCHHHHHHHHHHHHH--hCCceecceEEEEeCC-CCCCCHHHHHHHHHcCCCeeecccchH-HH----HHHHcCCce
Q psy17033 3 PAFDNSTRQIIIDSLKE--LGFKFHDKGTAVCIEG-PRFSSRAESNLFRSWNAHLVNMTLVPE-VV----LAKEAGLLY 73 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~--~gi~~~~~GvY~~~~G-P~fET~AE~r~~r~~GaDvVGMStvPE-vi----lAre~Gm~~ 73 (148)
.+|...+.+.+.+.+++ .|+++..+ .+.-... +.|.+ .+..+++-|+|+|=+...+. +. -+++.|+..
T Consensus 153 ~~~g~~~~~~~~~~~~~~~~G~~vv~~-~~~~~~~~~d~~~--~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~ 228 (342)
T cd06329 153 YSWGQDVAAAFKAMLAAKRPDIQIVGE-DLHPLGKVKDFSP--YVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKL 228 (342)
T ss_pred hHHHHHHHHHHHHHHHhhcCCcEEece-eccCCCCCCchHH--HHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCc
Confidence 56888899999999999 88887633 3444444 55554 46778899999998866553 22 256667763
No 132
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=46.15 E-value=90 Score=25.29 Aligned_cols=71 Identities=8% Similarity=0.143 Sum_probs=43.9
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCH-HHHHHHHHcCCCeeecccc--h-H-HHHHHH-cCCceeE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSR-AESNLFRSWNAHLVNMTLV--P-E-VVLAKE-AGLLYAA 75 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~-AE~r~~r~~GaDvVGMStv--P-E-vilAre-~Gm~~~~ 75 (148)
.++|...+.+-+.+.++++|+.+. ++..+-..+.. .-++.+...++|.|-.... + + ....++ .|++++.
T Consensus 70 ~~~~~~~~~~gi~~~~~~~g~~~~-----~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~l~~~~~iPvV~ 144 (341)
T PRK10703 70 EAPYFAEIIEAVEKNCYQKGYTLI-----LCNAWNNLEKQRAYLSMLAQKRVDGLLVMCSEYPEPLLAMLEEYRHIPMVV 144 (341)
T ss_pred CCchHHHHHHHHHHHHHHCCCEEE-----EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCHHHHHHHHhcCCCCEEE
Confidence 468889999999999999997643 33222122221 2244667778887654332 2 3 233456 6998886
Q ss_pred EE
Q psy17033 76 VA 77 (148)
Q Consensus 76 is 77 (148)
+-
T Consensus 145 ~d 146 (341)
T PRK10703 145 MD 146 (341)
T ss_pred Ee
Confidence 63
No 133
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=46.09 E-value=52 Score=26.77 Aligned_cols=68 Identities=19% Similarity=0.110 Sum_probs=45.9
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccch-HHH----HHHHcCCce
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVP-EVV----LAKEAGLLY 73 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvP-Evi----lAre~Gm~~ 73 (148)
.+|...+.+.+.+.+++.|+.+..+..|- ..-+.| .+.+.-++..|+|+|-.+..+ +.+ .+++.|+..
T Consensus 142 ~~~g~~~~~~~~~~~~~~G~~v~~~~~~~-~~~~d~--~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~ 214 (333)
T cd06358 142 YVWPRGSLAAAKRYIAELGGEVVGEEYVP-LGTTDF--TSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRD 214 (333)
T ss_pred chhhHHHHHHHHHHHHHcCCEEeeeeeec-CChHHH--HHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCc
Confidence 45677888888888999999887443332 333445 456778888999999775554 222 256778864
No 134
>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=45.52 E-value=57 Score=25.13 Aligned_cols=70 Identities=13% Similarity=0.146 Sum_probs=43.9
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH---HHHHcCCCeeecc-cc----hH-HHHHHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN---LFRSWNAHLVNMT-LV----PE-VVLAKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r---~~r~~GaDvVGMS-tv----PE-vilAre~Gm~ 72 (148)
.++|..++.+-+.+.+++.|+.+. ++ .. .+...-|.. .+.+.++|.|=.. +- ++ ...+++.|++
T Consensus 10 ~~~~~~~~~~~i~~~~~~~g~~~~---i~--~~--~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~~ip 82 (267)
T cd06322 10 QHPFYIELANAMKEEAKKQKVNLI---VS--IA--NQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKAKKAGIP 82 (267)
T ss_pred ccHHHHHHHHHHHHHHHhcCCEEE---Ee--cC--CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHHCCCC
Confidence 478999999999999998887653 11 11 122223333 3456788866443 22 22 3456778999
Q ss_pred eeEEEe
Q psy17033 73 YAAVAM 78 (148)
Q Consensus 73 ~~~is~ 78 (148)
++.+-.
T Consensus 83 vV~~~~ 88 (267)
T cd06322 83 VITVDI 88 (267)
T ss_pred EEEEcc
Confidence 988853
No 135
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=45.34 E-value=72 Score=24.39 Aligned_cols=69 Identities=16% Similarity=0.206 Sum_probs=43.5
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHH---HHHcCCCeeecc-cc---hH-HHHHHHcCCce
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNL---FRSWNAHLVNMT-LV---PE-VVLAKEAGLLY 73 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~---~r~~GaDvVGMS-tv---PE-vilAre~Gm~~ 73 (148)
.++|...+.+-+.+.|+++|+.+. +...+ +....|.+. +...|+|.|-.. .. ++ ...++..|+++
T Consensus 10 ~~~~~~~~~~g~~~~a~~~g~~~~-----~~~~~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~ipv 82 (268)
T cd06289 10 TNPFFAELAAGLEEVLEEAGYTVF-----LANSG--EDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLAESGIPV 82 (268)
T ss_pred CcchHHHHHHHHHHHHHHcCCeEE-----EecCC--CChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHHhcCCCE
Confidence 578999999999999999987643 22222 223334444 555678855432 22 22 23567789999
Q ss_pred eEEE
Q psy17033 74 AAVA 77 (148)
Q Consensus 74 ~~is 77 (148)
+.+-
T Consensus 83 V~~~ 86 (268)
T cd06289 83 VLVA 86 (268)
T ss_pred EEEe
Confidence 8874
No 136
>PRK09776 putative diguanylate cyclase; Provisional
Probab=44.84 E-value=40 Score=32.07 Aligned_cols=42 Identities=17% Similarity=0.124 Sum_probs=35.1
Q ss_pred cCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 5 FDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
-+..+-+.+.+.|+++|+++.-+|| ||..+..+++.+|+|.+
T Consensus 1028 ~~~~~~~~i~~~~~~~~~~~iaegV---------Et~~~~~~l~~~g~~~~ 1069 (1092)
T PRK09776 1028 MDEMLISIIQGHAQRLGMKTIAGPV---------ELPLVLDTLSGIGVDLA 1069 (1092)
T ss_pred hhHHHHHHHHHHHHHcCCcEEeccc---------CCHHHHHHHHHcCCCEE
Confidence 3456677788889999998876886 99999999999999875
No 137
>COG2168 DsrH Uncharacterized conserved protein involved in oxidation of intracellular sulfur [Inorganic ion transport and metabolism]
Probab=44.53 E-value=5.6 Score=28.56 Aligned_cols=37 Identities=8% Similarity=0.130 Sum_probs=22.0
Q ss_pred ccc-CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCC
Q psy17033 3 PAF-DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFS 39 (148)
Q Consensus 3 ~~Y-d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fE 39 (148)
.|| ...+-..++-+-++-++-+...|||+++.||+|-
T Consensus 8 sp~~~~~l~~~l~~l~~~D~vlL~qdGV~aAl~~~~~~ 45 (96)
T COG2168 8 SPYPLTDLDLLLRLLTEGDAVLLLQDGVYAALKGNRYL 45 (96)
T ss_pred CCCCccCHHHHHHHhcccCeEEEEcccchhhhcCcHHH
Confidence 355 2233333333333344556669999999999873
No 138
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=44.48 E-value=89 Score=24.64 Aligned_cols=71 Identities=17% Similarity=0.161 Sum_probs=45.8
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHH---HHHHHcCCCeeecccc------hHHHHHHHcCC
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAES---NLFRSWNAHLVNMTLV------PEVVLAKEAGL 71 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~---r~~r~~GaDvVGMStv------PEvilAre~Gm 71 (148)
+.+||..++.+-+.+.+++.|+.+. +. . + ...+--|. +.+.+.+.|.|=.... +.+..+++.|+
T Consensus 10 ~~~~~~~~~~~gi~~~a~~~gy~~~----~~-~-~-~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~~~~~~~i 82 (280)
T cd06315 10 LKNGGILGVGEGVREAAKAIGWNLR----IL-D-G-RGSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELELAQKAGI 82 (280)
T ss_pred cCCcHHHHHHHHHHHHHHHcCcEEE----EE-C-C-CCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHHHHCCC
Confidence 3578999999999999999887643 21 1 1 22333233 3555678885554332 33456778899
Q ss_pred ceeEEEe
Q psy17033 72 LYAAVAM 78 (148)
Q Consensus 72 ~~~~is~ 78 (148)
+++.+.-
T Consensus 83 PvV~~d~ 89 (280)
T cd06315 83 PVVGWHA 89 (280)
T ss_pred CEEEecC
Confidence 9988754
No 139
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=44.26 E-value=91 Score=24.14 Aligned_cols=69 Identities=9% Similarity=0.048 Sum_probs=43.2
Q ss_pred CcccCHHHHHHHHHHHHHh-CCceecceEEEEeCCCCCCCHHHHHHHH---HcCCCeeecccc-----hH-HHHHHHcCC
Q psy17033 2 EPAFDNSTRQIIIDSLKEL-GFKFHDKGTAVCIEGPRFSSRAESNLFR---SWNAHLVNMTLV-----PE-VVLAKEAGL 71 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~-gi~~~~~GvY~~~~GP~fET~AE~r~~r---~~GaDvVGMStv-----PE-vilAre~Gm 71 (148)
.+||-..+.+.+.+.+++. |+.+. ++ ........|...++ ..++|.|-+... ++ ...+++.|+
T Consensus 10 ~~~~~~~~~~~i~~~~~~~~g~~~~-----~~--~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~~i 82 (270)
T cd06308 10 ADPWRAAMNDEIQREASNYPDVELI-----IA--DAADDNSKQVADIENFIRQGVDLLIISPNEAAPLTPVVEEAYRAGI 82 (270)
T ss_pred CCHHHHHHHHHHHHHHHhcCCcEEE-----EE--cCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhchHHHHHHHHCCC
Confidence 5678888899998888875 66654 11 22233334444444 578887655432 22 345678899
Q ss_pred ceeEEE
Q psy17033 72 LYAAVA 77 (148)
Q Consensus 72 ~~~~is 77 (148)
+++.+.
T Consensus 83 pvV~~~ 88 (270)
T cd06308 83 PVILLD 88 (270)
T ss_pred CEEEeC
Confidence 998774
No 140
>PRK10551 phage resistance protein; Provisional
Probab=44.25 E-value=41 Score=30.30 Aligned_cols=42 Identities=10% Similarity=0.214 Sum_probs=35.1
Q ss_pred cCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 5 FDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
.+..+.+.+.+.|+++|+.+.-+|| ||..+..+++.+|+|.+
T Consensus 451 ~~~~il~~ii~la~~lgi~vVAEGV---------Et~~q~~~L~~~Gv~~~ 492 (518)
T PRK10551 451 VTSPVLDAVLTLAKRLNMLTVAEGV---------ETPEQARWLRERGVNFL 492 (518)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEEeC---------CcHHHHHHHHHcCCCEE
Confidence 3455777888999999998766886 99999999999998865
No 141
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=44.17 E-value=75 Score=25.44 Aligned_cols=69 Identities=16% Similarity=0.081 Sum_probs=46.2
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchH-H----HHHHHcCCcee
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPE-V----VLAKEAGLLYA 74 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPE-v----ilAre~Gm~~~ 74 (148)
.+|...+.+.+++.+++.|+++.... ++-...+.| ...++.++.-|+|+|=+...++ . ..+++.|+.+.
T Consensus 145 ~~~g~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~d~--~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~~ 218 (334)
T cd06342 145 TAYGQGLADEFKKALKAAGGKVVARE-GTTDGATDF--SAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLKAP 218 (334)
T ss_pred cchhhHHHHHHHHHHHHcCCEEEEEe-cCCCCCccH--HHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCCCc
Confidence 56788888899999998898876222 222222334 3457778889999997765554 2 23677788753
No 142
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=44.13 E-value=38 Score=28.22 Aligned_cols=67 Identities=22% Similarity=0.206 Sum_probs=46.6
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccch-HH----HHHHHcCCc
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVP-EV----VLAKEAGLL 72 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvP-Ev----ilAre~Gm~ 72 (148)
++|.....+.+.+.+++.|+++. ...++-..-+.|. +++..++..|+|+|=..... +. .-+++.|+.
T Consensus 144 ~~~g~~~~~~~~~~~~~~G~~vv-~~~~~~~~~~D~s--~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~ 215 (359)
T TIGR03407 144 YVFPRTANKIIKAYLKSLGGTVV-GEDYTPLGHTDFQ--TIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGIT 215 (359)
T ss_pred cHHHHHHHHHHHHHHHHcCCEEE-eeEEecCChHhHH--HHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCC
Confidence 45777888889999999999887 3444444556665 67888999999997554333 32 225777874
No 143
>TIGR01182 eda Entner-Doudoroff aldolase. 2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida
Probab=44.05 E-value=34 Score=27.44 Aligned_cols=36 Identities=11% Similarity=0.127 Sum_probs=24.8
Q ss_pred HHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 10 RQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 10 r~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
...+.+.+++.|+.+. -| --||.|+.....+|+|+|
T Consensus 90 ~~~v~~~~~~~~i~~i-PG---------~~TptEi~~A~~~Ga~~v 125 (204)
T TIGR01182 90 TPELAKHAQDHGIPII-PG---------VATPSEIMLALELGITAL 125 (204)
T ss_pred CHHHHHHHHHcCCcEE-CC---------CCCHHHHHHHHHCCCCEE
Confidence 3345556667777665 23 458888888888888876
No 144
>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are putative substrate-binding proteins of an ABC transporter family that associates, in gene neighborhood and phylogenomic profile, with pyrroloquinoline-quinone (PQQ)-dependent degradation of certain alcohols, such as 2-phenylethanol in Pseudomonas putida U.
Probab=43.88 E-value=1.5e+02 Score=25.12 Aligned_cols=128 Identities=13% Similarity=-0.007 Sum_probs=65.0
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCC----CCCCHHHHHHHHHcCCCeeecccc-hHHHHHH----HcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGP----RFSSRAESNLFRSWNAHLVNMTLV-PEVVLAK----EAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP----~fET~AE~r~~r~~GaDvVGMStv-PEvilAr----e~Gm~ 72 (148)
...|+..+.+.+.+.+++.|+++. .-++.-..+. .|...+ ...+.+|+|+|-.... .|....- -.++.
T Consensus 137 ~~~~g~~~~~~~~~~~~~~G~~vv-~~~~~~~~~~~~~~d~s~~~--~~~~~s~pDvv~~~~~~~~~~~~~~~~~~~~~~ 213 (347)
T TIGR03863 137 PLPADALYADAFRRSAKRFGAKIV-AERPFTFSGDPRRTDQSEVP--LFTQGADYDVVVVADEAGEFARYLPYATWLPRP 213 (347)
T ss_pred CCcccHHHHHHHHHHHHHCCCEEE-EeEEeccCCchhhhhcccCc--eeecCCCCCEEEEecchhhHhhhcccccccccc
Confidence 357999999999999999999887 3333333322 232212 2334589998876432 2221111 01112
Q ss_pred eeEEEeeeccccccCCCCCCCHHHHHHHHHHH-----------HHHHHHHHHHHHhhccccCchHHHHHHHh
Q psy17033 73 YAAVAMATDYDCWRDTGNKVCVADVLKTFKEN-----------VEKITKLFVHIVPKIAAKDWTNEITELKS 133 (148)
Q Consensus 73 ~~~is~VTN~a~~~~~~~~v~~eeVl~~~~~~-----------~~~~~~ll~~~i~~l~~~~~~~~~~~~~~ 133 (148)
+.+..-+. ...|..+...-...++.+..++. ......++...|++-...+-..-++.|++
T Consensus 214 ~~g~~G~~-~~~~~~~~~~~~~~~f~~~f~~~~g~~p~~~~a~aY~av~~~a~Ai~~AGs~d~~aV~~aL~~ 284 (347)
T TIGR03863 214 VAGSAGLV-PTAWHRAWERWGATQLQSRFEKLAGRPMTELDYAAWLAVRAVGEAVTRTRSADPATLRDYLLS 284 (347)
T ss_pred cccccCcc-ccccCCcccchhHHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHcC
Confidence 22211111 11122111111234556655543 34556777778887766655555555554
No 145
>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=43.84 E-value=71 Score=23.94 Aligned_cols=74 Identities=14% Similarity=0.090 Sum_probs=43.7
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH-HHHHHHcCCC-eeecccchH----HHHHHHcCCceeEE
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE-SNLFRSWNAH-LVNMTLVPE----VVLAKEAGLLYAAV 76 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE-~r~~r~~GaD-vVGMStvPE----vilAre~Gm~~~~i 76 (148)
.+|..++++-+++++++.|+.+. +....+ ..++-.+ ++.+.+.|+| +|+.+.-++ .-.+.+.|++++.+
T Consensus 11 ~~~~~~~~~g~~~~~~~~g~~l~----~~~~~~-~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~ 85 (264)
T cd01537 11 NPFFAQVLKGIEEAAKAAGYQVL----LANSQN-DAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLARKAGIPVVLV 85 (264)
T ss_pred ChHHHHHHHHHHHHHHHcCCeEE----EEeCCC-CHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHhhhcCCCEEEe
Confidence 57888999999999999887653 222221 1111111 2334456888 444443333 34456778999887
Q ss_pred Eeeec
Q psy17033 77 AMATD 81 (148)
Q Consensus 77 s~VTN 81 (148)
....+
T Consensus 86 ~~~~~ 90 (264)
T cd01537 86 DRDIP 90 (264)
T ss_pred ccCCC
Confidence 65543
No 146
>cd02646 R3H_G-patch R3H domain of a group of fungal and plant proteins with unknown function, who also contain a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the R3H domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=43.66 E-value=46 Score=21.02 Aligned_cols=26 Identities=23% Similarity=0.377 Sum_probs=22.9
Q ss_pred cccCHHHHHHHHHHHHHhCCceecce
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKG 28 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~G 28 (148)
+|.++.=|..+.+.|...|+.-...|
T Consensus 22 ppm~~~~R~~vH~lA~~~~L~S~S~G 47 (58)
T cd02646 22 PPMDKHGRKTIHKLANCYNLKSKSRG 47 (58)
T ss_pred CCCCHHHHHHHHHHHHHcCCcccccc
Confidence 68999999999999999999866566
No 147
>TIGR01417 PTS_I_fam phosphoenolpyruvate-protein phosphotransferase. This model recognizes a distinct clade of phophoenolpyruvate (PEP)-dependent enzymes. Most members are known or deduced to function as the phosphoenolpyruvate-protein phosphotransferase (or enzyme I) of PTS sugar transport systems. However, some species with both a member of this family and a homolog of the phosphocarrier protein HPr lack a IIC component able to serve as a permease. An HPr homolog designated NPr has been implicated in the regulation of nitrogen assimilation, which demonstrates that not all phosphotransferase system components are associated directly with PTS transport.
Probab=43.64 E-value=51 Score=30.28 Aligned_cols=54 Identities=11% Similarity=0.118 Sum_probs=38.5
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeeccc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTL 59 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMSt 59 (148)
.++++|.+.+.+..+++.. +..|+.+++-|=--.+|..+..+..+|.+.+.|+.
T Consensus 473 ~~~~hPaV~~~i~~vi~~a----~~~g~~v~vCGe~a~~p~~~~~l~~~G~~~lsv~~ 526 (565)
T TIGR01417 473 YQPYNPAVLRLIKLVIDAA----KAEGIWVGMCGEMAGDERAIPLLLGLGLRELSMSA 526 (565)
T ss_pred cCCCCHHHHHHHHHHHHHH----HHcCCeEEEeCCcCCCHHHHHHHHHCCCCEEEECh
Confidence 4678888888877776543 23456666655444678899999999999887753
No 148
>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=43.43 E-value=84 Score=24.16 Aligned_cols=69 Identities=19% Similarity=0.195 Sum_probs=47.2
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHH---cCCCeeecc------cchHHHHHHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRS---WNAHLVNMT------LVPEVVLAKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~---~GaDvVGMS------tvPEvilAre~Gm~ 72 (148)
.++|-..+.+-+.+.++++|+.+. ++.. ..+....+...+++ .|+|.|-.+ +.|-+.-|++.|++
T Consensus 9 ~~~~~~~~~~g~~~~a~~~g~~~~----~~~~--~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~~~~gIp 82 (257)
T PF13407_consen 9 DNPFWQQVIKGAKAAAKELGYEVE----IVFD--AQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKAKAAGIP 82 (257)
T ss_dssp SSHHHHHHHHHHHHHHHHHTCEEE----EEEE--STTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHHHHTTSE
T ss_pred CCHHHHHHHHHHHHHHHHcCCEEE----EeCC--CCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHHhhcCce
Confidence 467888899999999999988654 2212 22333556666665 499977654 23456668888998
Q ss_pred eeEE
Q psy17033 73 YAAV 76 (148)
Q Consensus 73 ~~~i 76 (148)
|+.+
T Consensus 83 vv~~ 86 (257)
T PF13407_consen 83 VVTV 86 (257)
T ss_dssp EEEE
T ss_pred EEEE
Confidence 8874
No 149
>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=42.88 E-value=1.1e+02 Score=24.63 Aligned_cols=70 Identities=19% Similarity=0.196 Sum_probs=45.7
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH---HHHHHHc--CCCeeecccc----hH-HHHHHHcCC
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE---SNLFRSW--NAHLVNMTLV----PE-VVLAKEAGL 71 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~--GaDvVGMStv----PE-vilAre~Gm 71 (148)
.++|-..+.+-+.+.+++.|+.+. +. -+.++...+ ++.+... |+|.|-.... ++ ...+++.|+
T Consensus 11 ~~~~~~~~~~gi~~~~~~~g~~v~----~~---~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~~~~~~gi 83 (305)
T cd06324 11 DEPFWNSVARFMQAAADDLGIELE----VL---YAERDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLRLAEGAGV 83 (305)
T ss_pred CCcHHHHHHHHHHHHHHhcCCeEE----EE---eCCCCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHHHHHhCCC
Confidence 578888999999999998877643 11 223444444 3355556 8987665432 23 345678899
Q ss_pred ceeEEEe
Q psy17033 72 LYAAVAM 78 (148)
Q Consensus 72 ~~~~is~ 78 (148)
+++.+--
T Consensus 84 PvV~~~~ 90 (305)
T cd06324 84 KLFLVNS 90 (305)
T ss_pred eEEEEec
Confidence 9988753
No 150
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=42.35 E-value=89 Score=19.85 Aligned_cols=30 Identities=27% Similarity=0.197 Sum_probs=19.2
Q ss_pred cceEEEEeCCCCCCC-HHHHHHHHH---cCCCee
Q psy17033 26 DKGTAVCIEGPRFSS-RAESNLFRS---WNAHLV 55 (148)
Q Consensus 26 ~~GvY~~~~GP~fET-~AE~r~~r~---~GaDvV 55 (148)
..++|+.+..-..-+ +.|.+.++. -|.++|
T Consensus 34 ~~~tll~i~~~~~~~~~~~~~~l~~~v~~G~~lv 67 (70)
T PF14258_consen 34 DDGTLLVIGPDLRLSEPEEAEALLEWVEAGNTLV 67 (70)
T ss_pred CCCEEEEEeCCCCCCchHHHHHHHHHHHcCCEEE
Confidence 477887666553444 677777765 466665
No 151
>PRK05718 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=42.35 E-value=35 Score=27.38 Aligned_cols=35 Identities=17% Similarity=0.115 Sum_probs=18.4
Q ss_pred HHHHHHHHcCCCee-ecccchHHHHHHHcCCceeEE
Q psy17033 42 AESNLFRSWNAHLV-NMTLVPEVVLAKEAGLLYAAV 76 (148)
Q Consensus 42 AE~r~~r~~GaDvV-GMStvPEvilAre~Gm~~~~i 76 (148)
.=++..++.|.+.+ |-.|..|+.-|.++|..++-+
T Consensus 99 ~vi~~a~~~~i~~iPG~~TptEi~~a~~~Ga~~vKl 134 (212)
T PRK05718 99 PLLKAAQEGPIPLIPGVSTPSELMLGMELGLRTFKF 134 (212)
T ss_pred HHHHHHHHcCCCEeCCCCCHHHHHHHHHCCCCEEEE
Confidence 33444445555555 555555555555555555444
No 152
>COG0469 PykF Pyruvate kinase [Carbohydrate transport and metabolism]
Probab=42.34 E-value=45 Score=30.31 Aligned_cols=55 Identities=15% Similarity=0.155 Sum_probs=41.5
Q ss_pred eEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeeccccccCCCCCCCHHHHHHHHHHHHHH
Q psy17033 28 GTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLKTFKENVEK 107 (148)
Q Consensus 28 GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a~~~~~~~~v~~eeVl~~~~~~~~~ 107 (148)
---+|+-||.-+++.-++-+-..|.+++.+ |.+.|.. -.|..+++.+++..++
T Consensus 7 TKIVaTiGPas~s~e~l~~li~aG~nV~Rl-----------------------NfSHG~~----e~h~~~i~~vR~~~~~ 59 (477)
T COG0469 7 TKIVATLGPATESEEMLEKLIEAGMNVVRL-----------------------NFSHGDH----EEHKKRIDNVREAAEK 59 (477)
T ss_pred ceEEEEECCCCCCHHHHHHHHHccCcEEEE-----------------------ecCCCCh----HHHHHHHHHHHHHHHH
Confidence 346899999999999999999999888887 6665542 2567777777776665
Q ss_pred HH
Q psy17033 108 IT 109 (148)
Q Consensus 108 ~~ 109 (148)
+.
T Consensus 60 ~~ 61 (477)
T COG0469 60 LG 61 (477)
T ss_pred hC
Confidence 53
No 153
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=41.52 E-value=1.1e+02 Score=24.70 Aligned_cols=71 Identities=14% Similarity=-0.002 Sum_probs=47.1
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHH-H----HHHHcCCceeE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEV-V----LAKEAGLLYAA 75 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEv-i----lAre~Gm~~~~ 75 (148)
.++|...+.+.+.+.+++.|+++...-.| -...+.|. +.++-++..++|+|=+...++- . -+++.|+..-.
T Consensus 150 ~~~~g~~~~~~~~~~~~~~g~~v~~~~~~-~~~~~d~~--~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~~ 225 (345)
T cd06338 150 DDPFSQDVAEGAREKAEAAGLEVVYDETY-PPGTADLS--PLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPKA 225 (345)
T ss_pred CCcccHHHHHHHHHHHHHcCCEEEEEecc-CCCccchH--HHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCCE
Confidence 35788889999999999999987632222 22234554 3567788899999876665543 2 24666876433
No 154
>TIGR01949 AroFGH_arch predicted phospho-2-dehydro-3-deoxyheptonate aldolase. Together these two genes appear to perform the synthesis of 3-dehydroquinate. It is presumed that the substrates and the chemical transformations involved are identical, but this has not yet been proven experimentally.
Probab=41.36 E-value=1.5e+02 Score=23.93 Aligned_cols=67 Identities=13% Similarity=0.121 Sum_probs=39.1
Q ss_pred HHHHHHHHHhCCceecceEEEEeCCCCC-----CCHHH-HHHHHHcCCCeeecccch--HHH--HHHHcCCceeEEEeee
Q psy17033 11 QIIIDSLKELGFKFHDKGTAVCIEGPRF-----SSRAE-SNLFRSWNAHLVNMTLVP--EVV--LAKEAGLLYAAVAMAT 80 (148)
Q Consensus 11 ~~~~~~a~~~gi~~~~~GvY~~~~GP~f-----ET~AE-~r~~r~~GaDvVGMStvP--Evi--lAre~Gm~~~~is~VT 80 (148)
..+.+.+++.|+++. =-.| ..|+.. ++.++ .+.....|+|.|+-+... |.+ +.+.+.+++.++.-|+
T Consensus 126 ~~i~~~~~~~g~~li-v~~~--~~Gvh~~~~~~~~~~~~~~~a~~~GADyikt~~~~~~~~l~~~~~~~~iPVva~GGi~ 202 (258)
T TIGR01949 126 GMIAEICDDWGVPLL-AMMY--PRGPHIDDRDPELVAHAARLGAELGADIVKTPYTGDIDSFRDVVKGCPAPVVVAGGPK 202 (258)
T ss_pred HHHHHHHHHcCCCEE-EEEe--ccCcccccccHHHHHHHHHHHHHHCCCEEeccCCCCHHHHHHHHHhCCCcEEEecCCC
Confidence 334455666787764 1122 334332 34444 366677999999988654 332 2334678887777666
No 155
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=40.95 E-value=98 Score=25.02 Aligned_cols=68 Identities=16% Similarity=0.195 Sum_probs=42.6
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH---HHHHHHcCCCeeeccc---chH-HHHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE---SNLFRSWNAHLVNMTL---VPE-VVLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~GaDvVGMSt---vPE-vilAre~Gm~~~ 74 (148)
.+||-.++.+-+.+.+++.|+.+. + +..+ +..-.| ++.+...++|.|-... -++ ...+++.|++++
T Consensus 74 ~~~~~~~~~~gi~~~~~~~g~~~~----~-~~~~--~~~~~~~~~~~~~~~~~vdgiI~~~~~~~~~~~~~l~~~~iPvV 146 (331)
T PRK14987 74 TNQVFAEVLRGIESVTDAHGYQTM----L-AHYG--YKPEMEQERLESMLSWNIDGLILTERTHTPRTLKMIEVAGIPVV 146 (331)
T ss_pred cchhHHHHHHHHHHHHHHCCCEEE----E-ecCC--CCHHHHHHHHHHHHhcCCCEEEEcCCCCCHHHHHHHHhCCCCEE
Confidence 467888999999999998887654 1 1222 122223 3345567888766532 233 334678899988
Q ss_pred EE
Q psy17033 75 AV 76 (148)
Q Consensus 75 ~i 76 (148)
.+
T Consensus 147 ~~ 148 (331)
T PRK14987 147 EL 148 (331)
T ss_pred EE
Confidence 65
No 156
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=40.94 E-value=53 Score=26.37 Aligned_cols=68 Identities=18% Similarity=0.134 Sum_probs=46.3
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHH--H---HHHcCCce
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVV--L---AKEAGLLY 73 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvi--l---Are~Gm~~ 73 (148)
.+|...+.+.+.+.+++.|+++. .-.++-...+.|. +.++-+++.|+|+|-+...|+-. + ++..|...
T Consensus 145 ~~~g~~~~~~~~~~~~~~G~~vv-~~~~~~~~~~d~~--~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~ 217 (343)
T PF13458_consen 145 DPYGRSLAEAFRKALEAAGGKVV-GEIRYPPGDTDFS--ALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKP 217 (343)
T ss_dssp SHHHHHHHHHHHHHHHHTTCEEE-EEEEE-TTSSHHH--HHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCS
T ss_pred chhhhHHHHHHHHHHhhcCceec-cceecccccccch--HHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhcccc
Confidence 46778888999999999999875 2344443444443 46677888999998887766622 2 45556663
No 157
>PRK12928 lipoyl synthase; Provisional
Probab=40.70 E-value=67 Score=26.88 Aligned_cols=54 Identities=15% Similarity=0.183 Sum_probs=37.0
Q ss_pred CcccCHHHHHHHHHHHHHhC--CceecceEEEEeCCCCCCCHHHH----HHHHHcCCCeeecccc
Q psy17033 2 EPAFDNSTRQIIIDSLKELG--FKFHDKGTAVCIEGPRFSSRAES----NLFRSWNAHLVNMTLV 60 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~g--i~~~~~GvY~~~~GP~fET~AE~----r~~r~~GaDvVGMStv 60 (148)
...|+.+-+-.+.+.|++.| +.+. .|.-+.. | ||..|. +++|.+|.|.|++...
T Consensus 182 ~r~~t~e~~le~l~~ak~~gp~i~~~-s~iIvG~-G---ET~ed~~etl~~Lrel~~d~v~i~~Y 241 (290)
T PRK12928 182 RRGADYQRSLDLLARAKELAPDIPTK-SGLMLGL-G---ETEDEVIETLRDLRAVGCDRLTIGQY 241 (290)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCceec-ccEEEeC-C---CCHHHHHHHHHHHHhcCCCEEEEEcC
Confidence 44566666777778889988 7765 4444444 4 666664 4788899999887654
No 158
>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=40.67 E-value=1.2e+02 Score=23.61 Aligned_cols=69 Identities=13% Similarity=0.060 Sum_probs=42.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH---HHHHHHcCCCeeecccc-----hHH-HHHHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE---SNLFRSWNAHLVNMTLV-----PEV-VLAKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~GaDvVGMStv-----PEv-ilAre~Gm~ 72 (148)
.+||-.++..-+.+.++++|+.+. +++.. .+...-| ++.+.+.++|.|-.... ++. .-+++ |++
T Consensus 9 ~~~~~~~~~~gi~~~~~~~g~~~~----~~~~~--~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~~-~ip 81 (271)
T cd06314 9 ASPFWKIAEAGVKAAGKELGVDVE----FVVPQ--QGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPALNKAAA-GIK 81 (271)
T ss_pred CcHHHHHHHHHHHHHHHHcCCeEE----EeCCC--CCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHHHHHHHhc-CCC
Confidence 468888899999999998887644 22111 1222223 34566678997665543 233 22456 898
Q ss_pred eeEEE
Q psy17033 73 YAAVA 77 (148)
Q Consensus 73 ~~~is 77 (148)
++.+-
T Consensus 82 vV~~~ 86 (271)
T cd06314 82 LITTD 86 (271)
T ss_pred EEEec
Confidence 88874
No 159
>cd06007 R3H_DEXH_helicase R3H domain of a group of proteins which also contain a DEXH-box helicase domain, and may function as ATP-dependent DNA or RNA helicases. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=40.26 E-value=35 Score=22.03 Aligned_cols=25 Identities=32% Similarity=0.519 Sum_probs=21.7
Q ss_pred cCHHHHHHHHHHHHHhCCceecceE
Q psy17033 5 FDNSTRQIIIDSLKELGFKFHDKGT 29 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~~gi~~~~~Gv 29 (148)
+++.-|..+.+.|.++|+.....|.
T Consensus 25 ls~~eR~~vH~~a~~~gL~s~S~G~ 49 (59)
T cd06007 25 LTNHERAVIHRLCRKLGLKSKSKGK 49 (59)
T ss_pred CCHHHHHHHHHHHHHcCCCceeecC
Confidence 8999999999999999998765553
No 160
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=40.14 E-value=51 Score=30.16 Aligned_cols=42 Identities=10% Similarity=0.154 Sum_probs=34.1
Q ss_pred cCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 5 FDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
-...+.+.+...|+++|+.+.-+|| ||+++..+++.+|+|.+
T Consensus 732 ~~~~~~~~~~~~~~~~~i~via~gV---------e~~~~~~~l~~~g~~~~ 773 (799)
T PRK11359 732 RILALLEAITSIGQSLNLTVVAEGV---------ETKEQFEMLRKIHCRVI 773 (799)
T ss_pred hHHHHHHHHHHHHHHCCCeEEEEcC---------CCHHHHHHHHhcCCCEE
Confidence 3456677888889999998766775 99999999999998853
No 161
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=40.13 E-value=1.3e+02 Score=24.54 Aligned_cols=57 Identities=9% Similarity=-0.012 Sum_probs=40.1
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccch
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVP 61 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvP 61 (148)
.++|...+.+.+++.+++.|+++. .-.++- . ..-.=.++++.++..|+|+|-+...+
T Consensus 145 ~~~~g~~~~~~~~~~~~~~G~~vv-~~~~~~-~-~~~d~~~~v~~l~~~~pd~V~~~~~~ 201 (333)
T cd06328 145 DYAFGRDGVAAFKAALEKLGAAIV-TEEYAP-T-DTTDFTPYAQRLLDALKKVLFVIWAG 201 (333)
T ss_pred CccccHHHHHHHHHHHHhCCCEEe-eeeeCC-C-CCcchHHHHHHHHhcCCCEEEEEecC
Confidence 468999999999999999999876 222222 1 22223567889999999998665433
No 162
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=39.62 E-value=23 Score=23.17 Aligned_cols=22 Identities=18% Similarity=0.329 Sum_probs=19.4
Q ss_pred cccCHHHHHHHHHHHHHhCCce
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKF 24 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~ 24 (148)
-|||+.+.+.+.+++.+.|+.+
T Consensus 10 C~~C~~~~~~~~~~~~~~~i~~ 31 (76)
T PF13192_consen 10 CPYCPELVQLLKEAAEELGIEV 31 (76)
T ss_dssp CTTHHHHHHHHHHHHHHTTEEE
T ss_pred CCCcHHHHHHHHHHHHhcCCeE
Confidence 5899999999999999998654
No 163
>PRK09454 ugpQ cytoplasmic glycerophosphodiester phosphodiesterase; Provisional
Probab=39.12 E-value=57 Score=26.13 Aligned_cols=15 Identities=13% Similarity=0.317 Sum_probs=7.9
Q ss_pred CHHHHHHHHHcCCCe
Q psy17033 40 SRAESNLFRSWNAHL 54 (148)
Q Consensus 40 T~AE~r~~r~~GaDv 54 (148)
++.+.+.+..+|+|.
T Consensus 219 ~~~~~~~l~~~GVdg 233 (249)
T PRK09454 219 DPARARELLRWGVDC 233 (249)
T ss_pred CHHHHHHHHHcCCCE
Confidence 455555555555553
No 164
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=39.12 E-value=1.9e+02 Score=23.41 Aligned_cols=78 Identities=17% Similarity=0.127 Sum_probs=50.6
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCH-HHHHHHHHcCCCeeeccc------chHHHHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSR-AESNLFRSWNAHLVNMTL------VPEVVLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~-AE~r~~r~~GaDvVGMSt------vPEvilAre~Gm~~~ 74 (148)
.+||-..+++-+.+.|+++|.. .-++.....+.-++. +-++-+-..|.|.|-.+. .|-+--|++.|++|.
T Consensus 44 ~~~f~~~~~~g~~~~a~~~g~~---~~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d~~~~~~~v~~a~~aGIpVv 120 (322)
T COG1879 44 GNPFFQAVRKGAEAAAKKLGVV---VAVVIADAQNDVAKQIAQIEDLIAQGVDAIIINPVDPDALTPAVKKAKAAGIPVV 120 (322)
T ss_pred CChHHHHHHHHHHHHHHHcCCc---EEEEecccccChHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHHCCCcEE
Confidence 5788899999999999998861 112222222222211 233344468999998854 455667999999998
Q ss_pred EEEeeecc
Q psy17033 75 AVAMATDY 82 (148)
Q Consensus 75 ~is~VTN~ 82 (148)
.+-.-.+.
T Consensus 121 ~~d~~~~~ 128 (322)
T COG1879 121 TVDSDIPG 128 (322)
T ss_pred EEecCCCC
Confidence 87665444
No 165
>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=39.03 E-value=42 Score=27.22 Aligned_cols=38 Identities=13% Similarity=0.091 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 8 STRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 8 ~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
.+...+.+.+++.|+.+. |=--||.|+.....+|+|+|
T Consensus 99 ~~~~~v~~~~~~~~i~~i----------PG~~TpsEi~~A~~~Ga~~v 136 (222)
T PRK07114 99 LFNPDIAKVCNRRKVPYS----------PGCGSLSEIGYAEELGCEIV 136 (222)
T ss_pred CCCHHHHHHHHHcCCCEe----------CCCCCHHHHHHHHHCCCCEE
Confidence 334445556777777766 33469999999999999887
No 166
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan 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 purine transcription repressor undergoes a
Probab=38.70 E-value=1.8e+02 Score=22.28 Aligned_cols=70 Identities=4% Similarity=-0.019 Sum_probs=43.1
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHH---HHHHHcCCCeeecccc--hHHH---HHHHcCCce
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAES---NLFRSWNAHLVNMTLV--PEVV---LAKEAGLLY 73 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~---r~~r~~GaDvVGMStv--PEvi---lAre~Gm~~ 73 (148)
.++|...+.+-+.+.+++.|+.+. +.. .. .....|. +.+.+.++|.|-+... +... +....|+++
T Consensus 10 ~~~~~~~~~~gi~~~~~~~g~~~~----~~~-~~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~l~~~~~ipv 82 (269)
T cd06275 10 TNPFFAEVVRGVEQYCYRQGYNLI----LCN-TE--GDPERQRSYLRMLAQKRVDGLLVMCSEYDQPLLAMLERYRHIPM 82 (269)
T ss_pred CcchHHHHHHHHHHHHHHcCCEEE----EEe-CC--CChHHHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHhcCCCCE
Confidence 468899999999999999887764 222 22 2222333 3566788997766442 2222 223358888
Q ss_pred eEEEe
Q psy17033 74 AAVAM 78 (148)
Q Consensus 74 ~~is~ 78 (148)
+.+..
T Consensus 83 V~i~~ 87 (269)
T cd06275 83 VVMDW 87 (269)
T ss_pred EEEec
Confidence 76643
No 167
>cd02641 R3H_Smubp-2_like R3H domain of Smubp-2_like proteins. Smubp-2_like proteins also contain a helicase_like and an AN1-like Zinc finger domain and have been shown to bind single-stranded DNA. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.
Probab=38.51 E-value=65 Score=20.68 Aligned_cols=26 Identities=23% Similarity=0.576 Sum_probs=22.4
Q ss_pred cc-cCHHHHHHHHHHHHHhCCceecce
Q psy17033 3 PA-FDNSTRQIIIDSLKELGFKFHDKG 28 (148)
Q Consensus 3 ~~-Yd~~Lr~~~~~~a~~~gi~~~~~G 28 (148)
+| +++.=|..+.++|+++|+.....|
T Consensus 23 ~p~ls~~eR~~vH~lA~~~gL~s~S~G 49 (60)
T cd02641 23 PPTLSSHDRLLVHELAEELGLRHESTG 49 (60)
T ss_pred CCCCCHHHHHHHHHHHHHcCCceEeeC
Confidence 46 889999999999999999876666
No 168
>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=38.19 E-value=1.3e+02 Score=24.20 Aligned_cols=70 Identities=16% Similarity=0.112 Sum_probs=45.6
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH---HHHHcCCCeeecccc------hHHHHHHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN---LFRSWNAHLVNMTLV------PEVVLAKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r---~~r~~GaDvVGMStv------PEvilAre~Gm~ 72 (148)
.++|=..+++-+.+.|++.|+.+. ++ .+.+....+.+ .+...+.|.|-+... |....+++.|++
T Consensus 9 ~~~~~~~~~~~i~~~a~~~g~~v~-----~~--~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~iP 81 (302)
T TIGR02634 9 RLERWQKDRDIFVAAAESLGAKVF-----VQ--SANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGIK 81 (302)
T ss_pred chhhHHHHHHHHHHHHHhcCCEEE-----EE--eCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCCe
Confidence 456667888899999999887653 22 22344444444 445578888877654 223446788999
Q ss_pred eeEEEe
Q psy17033 73 YAAVAM 78 (148)
Q Consensus 73 ~~~is~ 78 (148)
++.+--
T Consensus 82 vV~~d~ 87 (302)
T TIGR02634 82 VVAYDR 87 (302)
T ss_pred EEEecC
Confidence 987743
No 169
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=36.92 E-value=1.9e+02 Score=22.06 Aligned_cols=72 Identities=14% Similarity=0.030 Sum_probs=44.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH---HHHHcCCCeeeccc-c-h--HHHHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN---LFRSWNAHLVNMTL-V-P--EVVLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r---~~r~~GaDvVGMSt-v-P--EvilAre~Gm~~~ 74 (148)
.++|-..+.+-+.+.++++|+.+. +.+.. .+....|.+ .+.+.++|.|=... . + ....+.+.|++++
T Consensus 10 ~~~~~~~~~~gi~~~~~~~~~~~~----~~~~~--~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ipvv 83 (264)
T cd01574 10 ALHGPSSTLAAIESAAREAGYAVT----LSMLA--EADEEALRAAVRRLLAQRVDGVIVNAPLDDADAALAAAPADVPVV 83 (264)
T ss_pred CcccHHHHHHHHHHHHHHCCCeEE----EEeCC--CCchHHHHHHHHHHHhcCCCEEEEeCCCCChHHHHHHHhcCCCEE
Confidence 467888999999999999888754 33332 222233444 34455677664322 1 1 2345567799988
Q ss_pred EEEee
Q psy17033 75 AVAMA 79 (148)
Q Consensus 75 ~is~V 79 (148)
.+-..
T Consensus 84 ~~~~~ 88 (264)
T cd01574 84 FVDGS 88 (264)
T ss_pred EEecc
Confidence 88654
No 170
>cd01948 EAL EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.
Probab=36.89 E-value=79 Score=24.01 Aligned_cols=41 Identities=24% Similarity=0.394 Sum_probs=31.5
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
...+.+.+...++..|+.+.-+|| ||.++..+++.+|+|.+
T Consensus 187 ~~~~l~~l~~~~~~~~~~via~gV---------e~~~~~~~~~~~gi~~~ 227 (240)
T cd01948 187 DRAIVRAIIALAHSLGLKVVAEGV---------ETEEQLELLRELGCDYV 227 (240)
T ss_pred hHHHHHHHHHHHHHCCCeEEEEec---------CCHHHHHHHHHcCCCee
Confidence 345566677778888887655664 89999999999998864
No 171
>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=36.77 E-value=1.5e+02 Score=22.61 Aligned_cols=69 Identities=13% Similarity=0.116 Sum_probs=42.2
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHH---HHHHHcCCCeeeccc---c-hHHHHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAES---NLFRSWNAHLVNMTL---V-PEVVLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~---r~~r~~GaDvVGMSt---v-PEvilAre~Gm~~~ 74 (148)
.++|-.++.+-+.+.+++.|+.+. + ....+...-|. +.+.+.++|.|-+.. - +-...+++.|++++
T Consensus 10 ~~~~~~~~~~~i~~~~~~~g~~~~----~---~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~l~~~~iPvv 82 (268)
T cd06273 10 DNAIFARVIQAFQETLAAHGYTLL----V---ASSGYDLDREYAQARKLLERGVDGLALIGLDHSPALLDLLARRGVPYV 82 (268)
T ss_pred CCchHHHHHHHHHHHHHHCCCEEE----E---ecCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCCHHHHHHHHhCCCCEE
Confidence 467888888889999998876543 2 12233333333 345566788655432 1 22345677899988
Q ss_pred EEE
Q psy17033 75 AVA 77 (148)
Q Consensus 75 ~is 77 (148)
.+-
T Consensus 83 ~~~ 85 (268)
T cd06273 83 ATW 85 (268)
T ss_pred EEc
Confidence 764
No 172
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=36.41 E-value=76 Score=25.49 Aligned_cols=66 Identities=17% Similarity=0.096 Sum_probs=44.4
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccc-hHHH----HHHHcCC
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLV-PEVV----LAKEAGL 71 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStv-PEvi----lAre~Gm 71 (148)
.+|..++.+.+++.+++.|+.+..+ .+.-.....|. +.++.+++.|+|+|=.... +++. -++..|+
T Consensus 144 ~~~g~~~~~~~~~~~~~~G~~v~~~-~~~~~~~~d~~--~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~ 214 (336)
T cd06360 144 YAFGYEVVEGFKEAFTEAGGKIVKE-LWVPFGTSDFA--SYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGL 214 (336)
T ss_pred chhhHHHHHHHHHHHHHcCCEEEEE-EecCCCCcchH--HHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCC
Confidence 4588888888999999999987622 23333345554 5788899999998865433 3333 2455676
No 173
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is 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 change upon ligand binding
Probab=36.11 E-value=1.9e+02 Score=21.92 Aligned_cols=69 Identities=12% Similarity=0.111 Sum_probs=43.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHH---HHcCCCeeeccc----chH-HHHHHHcCCce
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLF---RSWNAHLVNMTL----VPE-VVLAKEAGLLY 73 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~---r~~GaDvVGMSt----vPE-vilAre~Gm~~ 73 (148)
.+||-..+.+-+.+.+++.|+.+. ++ -+.+....|.+.+ ...+.|.|=.+. .++ .-.+++.|+++
T Consensus 10 ~~~~~~~~~~~i~~~~~~~g~~~~---~~----~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipv 82 (266)
T cd06282 10 ANPVFAECVQGIQEEARAAGYSLL---LA----TTDYDAEREADAVETLLRQRVDGLILTVADAATSPALDLLDAERVPY 82 (266)
T ss_pred CcchHHHHHHHHHHHHHHCCCEEE---Ee----eCCCCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhCCCCE
Confidence 568888899999999998887654 12 1234555554444 345677554321 223 34567889998
Q ss_pred eEEE
Q psy17033 74 AAVA 77 (148)
Q Consensus 74 ~~is 77 (148)
+.+.
T Consensus 83 V~~~ 86 (266)
T cd06282 83 VLAY 86 (266)
T ss_pred EEEe
Confidence 7774
No 174
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=35.84 E-value=1.1e+02 Score=25.50 Aligned_cols=67 Identities=16% Similarity=0.132 Sum_probs=46.3
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeC--CCCCCCHHHHHHHHHcCCCeeecccchHH-H----HHHHcCCc
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIE--GPRFSSRAESNLFRSWNAHLVNMTLVPEV-V----LAKEAGLL 72 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~--GP~fET~AE~r~~r~~GaDvVGMStvPEv-i----lAre~Gm~ 72 (148)
.+|...+.+.+.+.+++.|+++. .-.|+-.. =+.| -+.+.-+++.|+|+|-....++. . -++++|+.
T Consensus 142 ~~~g~~~~~~~~~~~~~~G~~vv-~~~~~~~~~~~~d~--s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~ 215 (360)
T cd06357 142 YIYPYESNRIMRDLLEQRGGEVL-GERYLPLGASDEDF--ARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFD 215 (360)
T ss_pred CcchHHHHHHHHHHHHHcCCEEE-EEEEecCCCchhhH--HHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCC
Confidence 56888888999999999998876 33333222 2334 45678888999999987655542 2 26778886
No 175
>PRK10481 hypothetical protein; Provisional
Probab=35.24 E-value=2.2e+02 Score=23.17 Aligned_cols=65 Identities=11% Similarity=-0.077 Sum_probs=37.8
Q ss_pred ccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH----HHHHcCCCee-----ecccchHHHHHHHcCCcee
Q psy17033 4 AFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN----LFRSWNAHLV-----NMTLVPEVVLAKEAGLLYA 74 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r----~~r~~GaDvV-----GMStvPEvilAre~Gm~~~ 74 (148)
||-+...+..++.... |+.+. |.+.+ |.-.++++.. .++..|+|+| ||++-.-..+.+++|++|+
T Consensus 137 P~~~qi~~~~~kw~~~-G~~v~----~~~as-py~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~~~~~~le~~lg~PVI 210 (224)
T PRK10481 137 PVEEQLAQQAQKWQVL-QKPPV----FALAS-PYHGSEEELIDAGKELLDQGADVIVLDCLGYHQRHRDLLQKALDVPVL 210 (224)
T ss_pred eCHHHHHHHHHHHHhc-CCcee----EeecC-CCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCHHHHHHHHHHHCcCEE
Confidence 5555555555555443 76544 44443 4334544443 3445899876 6676444467888888875
No 176
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=35.23 E-value=1.9e+02 Score=22.23 Aligned_cols=71 Identities=18% Similarity=0.174 Sum_probs=41.0
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH---HHHHcCCCeeecccc-h----H-HHHHHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN---LFRSWNAHLVNMTLV-P----E-VVLAKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r---~~r~~GaDvVGMStv-P----E-vilAre~Gm~ 72 (148)
.++|-.++.+-+.+.++++|..+. +.++ ...+.-..|.. .+...|+|.|=+... + + +..+++.|++
T Consensus 10 ~~~~~~~~~~gi~~~~~~~~~~~~---~~~~--~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~~~~~~~ip 84 (271)
T cd06321 10 GNPFFVALAKGAEAAAKKLNPGVK---VTVV--SADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPAVKRAQAAGIV 84 (271)
T ss_pred CCHHHHHHHHHHHHHHHHhCCCeE---EEEc--cCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHHHHHHHHCCCe
Confidence 568888999999999998543222 1111 12222223433 345678886644321 2 2 3445677999
Q ss_pred eeEEE
Q psy17033 73 YAAVA 77 (148)
Q Consensus 73 ~~~is 77 (148)
++.+.
T Consensus 85 vv~~~ 89 (271)
T cd06321 85 VVAVD 89 (271)
T ss_pred EEEec
Confidence 88874
No 177
>PRK08652 acetylornithine deacetylase; Provisional
Probab=34.88 E-value=2.1e+02 Score=23.34 Aligned_cols=93 Identities=12% Similarity=-0.010 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHH---HHH----HHHHcCCC--eeecccchHHHHHHHcCCceeEEE
Q psy17033 7 NSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRA---ESN----LFRSWNAH--LVNMTLVPEVVLAKEAGLLYAAVA 77 (148)
Q Consensus 7 ~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~A---E~r----~~r~~GaD--vVGMStvPEvilAre~Gm~~~~is 77 (148)
.++.+.+++.+++.++.+.-... .|.+.++. -.+ .++..|.+ ...|.....+..-.+.|++.+.+.
T Consensus 237 ~~v~~~i~~~~~~~~v~~~~~~~-----~~~~~~~~~~~lv~~l~~a~~~~g~~~~~~~~~g~tDa~~~~~~gip~v~~G 311 (347)
T PRK08652 237 EDVLDEIDPILDEYTVKYEYTEI-----WDGFELDEDEEIVQLLEKAMKEVGLEPEFTVMRSWTDAINFRYNGTKTVVWG 311 (347)
T ss_pred HHHHHHHHHHHHhcCceEEEecc-----CCcccCCCCCHHHHHHHHHHHHhCCCCCcCcCCccchhHHHHHCCCCEEEEC
Confidence 35666777777766665431111 24444422 222 23345655 344566667766566799888777
Q ss_pred eeeccccccCCCCCCCHHHHHHHHHHHH
Q psy17033 78 MATDYDCWRDTGNKVCVADVLKTFKENV 105 (148)
Q Consensus 78 ~VTN~a~~~~~~~~v~~eeVl~~~~~~~ 105 (148)
.-.+ ......+|-++.+++....+--.
T Consensus 312 pg~~-~~~H~~nE~i~i~~l~~~~~~l~ 338 (347)
T PRK08652 312 PGEL-DLCHTKFERIDVREVEKAKEFLK 338 (347)
T ss_pred CCch-hhcCCCCceeeHHHHHHHHHHHH
Confidence 5432 12233356777777765544333
No 178
>cd08563 GDPD_TtGDE_like Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Thermoanaerobacter tengcongensis glycerophosphodiester phosphodiesterase (TtGDE, EC 3.1.4.46) and its uncharacterized homologs. Members in this family show high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. Despite the fact that most of GDPD family members exist as the monomer, TtGDE can function as a dimeric unit. Its catalytic mechanism is based on the general base-acid catalysis, which is similar to that of phosphoinositide-specific phospholipases C (PI-PLCs, EC 3.1.4.11). A divalent metal cation is required for the enzyme activity of TtGDE.
Probab=34.74 E-value=93 Score=24.33 Aligned_cols=17 Identities=0% Similarity=0.110 Sum_probs=10.7
Q ss_pred CCHHHHHHHHHcCCCee
Q psy17033 39 SSRAESNLFRSWNAHLV 55 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvV 55 (148)
.++.+.+.+..+|+|.|
T Consensus 209 n~~~~~~~~~~~GVdgi 225 (230)
T cd08563 209 NEEEDMKRLKDLGVDGI 225 (230)
T ss_pred CCHHHHHHHHHCCCCEE
Confidence 45666666666666654
No 179
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=34.64 E-value=72 Score=23.55 Aligned_cols=33 Identities=18% Similarity=0.183 Sum_probs=24.0
Q ss_pred EEEeCCCCCCCHHHH-HHHHHcCCCeeecccchH
Q psy17033 30 AVCIEGPRFSSRAES-NLFRSWNAHLVNMTLVPE 62 (148)
Q Consensus 30 Y~~~~GP~fET~AE~-r~~r~~GaDvVGMStvPE 62 (148)
|-.+..+.|.|+.|. +..+.-++|+||+|..-+
T Consensus 31 feVi~lg~~~s~e~~v~aa~e~~adii~iSsl~~ 64 (132)
T TIGR00640 31 FDVDVGPLFQTPEEIARQAVEADVHVVGVSSLAG 64 (132)
T ss_pred cEEEECCCCCCHHHHHHHHHHcCCCEEEEcCchh
Confidence 333444556788887 677889999999987654
No 180
>PF13817 DDE_Tnp_IS66_C: IS66 C-terminal element
Probab=34.46 E-value=52 Score=19.53 Aligned_cols=33 Identities=21% Similarity=0.264 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccccCchHHHHH
Q psy17033 97 VLKTFKENVEKITKLFVHIVPKIAAKDWTNEITE 130 (148)
Q Consensus 97 Vl~~~~~~~~~~~~ll~~~i~~l~~~~~~~~~~~ 130 (148)
++++++.+.-.-.+.|..++.+|+. .-.++|.+
T Consensus 2 lieTcK~ngv~P~~yL~~vL~~i~~-~~~~~~~~ 34 (39)
T PF13817_consen 2 LIETCKLNGVNPYAYLTDVLERIPN-HPANDIDE 34 (39)
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHcc-CCHHHHHH
Confidence 5788888888888999999999987 34455544
No 181
>cd08579 GDPD_memb_like Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in uncharacterized bacterial glycerophosphodiester phosphodiesterases. In addition to a C-terminal GDPD domain, most members in this family have an N-terminus that functions as a membrane anchor.
Probab=34.38 E-value=97 Score=24.04 Aligned_cols=16 Identities=0% Similarity=0.038 Sum_probs=7.6
Q ss_pred CHHHHHHHHHcCCCee
Q psy17033 40 SRAESNLFRSWNAHLV 55 (148)
Q Consensus 40 T~AE~r~~r~~GaDvV 55 (148)
++++.+.+..+|+|.|
T Consensus 200 ~~~~~~~~~~~Gvd~i 215 (220)
T cd08579 200 DPDDMQRYLAMGVDGI 215 (220)
T ss_pred CHHHHHHHHHcCCCEE
Confidence 4444444444444443
No 182
>cd08555 PI-PLCc_GDPD_SF Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily. The PI-PLC-like phosphodiesterases superfamily represents the catalytic domains of bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13), eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11), glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46), sphingomyelinases D (SMases D) (sphingomyelin phosphodiesterase D, EC 3.1.4.41) from spider venom, SMases D-like proteins, and phospholipase D (PLD) from several pathogenic bacteria, as well as their uncharacterized homologs found in organisms ranging from bacteria and archaea to metazoans, plants, and fungi. PI-PLCs are ubiquitous enzymes hydrolyzing the membrane lipid phosphoinositides to yield two important second messengers, inositol phosphates and diacylglycerol (DAG). GP-GDEs play essential roles in glycerol metabolism and catalyze the hydrolysis of glycerophosph
Probab=34.07 E-value=85 Score=23.71 Aligned_cols=38 Identities=16% Similarity=0.130 Sum_probs=21.5
Q ss_pred HHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 10 RQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 10 r~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
.+.+.+.+++.|+++ |+++-.- .+.+.+.+..+|+|.|
T Consensus 138 ~~~~v~~~~~~g~~v-----~~wtvn~---~~~~~~~l~~~Gvd~i 175 (179)
T cd08555 138 DTELIASANKLGLLS-----RIWTVND---NNEIINKFLNLGVDGL 175 (179)
T ss_pred CHHHHHHHHHCCCEE-----EEEeeCC---hHHHHHHHHHcCCCEE
Confidence 445555566666653 3333221 2777777777777765
No 183
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=33.86 E-value=1.5e+02 Score=22.64 Aligned_cols=70 Identities=7% Similarity=-0.075 Sum_probs=43.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHH---HHHcCCCeeeccc--chH-H-HHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNL---FRSWNAHLVNMTL--VPE-V-VLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~---~r~~GaDvVGMSt--vPE-v-ilAre~Gm~~~ 74 (148)
.++|...+.+-+.+.+++.|+.+. ++ . ...+...|.+. +..+++|.|-... .++ . -.+...|++++
T Consensus 10 ~~~~~~~~~~~~~~~~~~~g~~~~---~~--~--~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~l~~~~ipvV 82 (268)
T cd06298 10 TNSYFAELARGIDDIATMYKYNII---LS--N--SDNDKEKELKVLNNLLAKQVDGIIFMGGKISEEHREEFKRSPTPVV 82 (268)
T ss_pred cchHHHHHHHHHHHHHHHcCCeEE---EE--e--CCCCHHHHHHHHHHHHHhcCCEEEEeCCCCcHHHHHHHhcCCCCEE
Confidence 578888999999999998877543 22 2 23344445443 4467888766532 223 2 22445688987
Q ss_pred EEEe
Q psy17033 75 AVAM 78 (148)
Q Consensus 75 ~is~ 78 (148)
.+.-
T Consensus 83 ~~~~ 86 (268)
T cd06298 83 LAGS 86 (268)
T ss_pred EEcc
Confidence 7753
No 184
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=33.79 E-value=1.2e+02 Score=23.62 Aligned_cols=39 Identities=21% Similarity=0.339 Sum_probs=26.8
Q ss_pred HHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecc
Q psy17033 13 IIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMT 58 (148)
Q Consensus 13 ~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMS 58 (148)
+.+..++.|.. +.+.+.+.|+.| |+ ++-+.+|+|..+-+
T Consensus 155 ~i~~l~~~~~~---~~v~i~vGG~~~-~~---~~~~~~gad~~~~d 193 (197)
T TIGR02370 155 INDKLKEEGYR---DSVKFMVGGAPV-TQ---DWADKIGADVYGEN 193 (197)
T ss_pred HHHHHHHcCCC---CCCEEEEEChhc-CH---HHHHHhCCcEEeCC
Confidence 34444444442 568899999999 54 36678999988754
No 185
>cd07938 DRE_TIM_HMGL 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain. 3-hydroxy-3-methylglutaryl-CoA lyase (HMGL) catalyzes the cleavage of HMG-CoA to acetyl-CoA and acetoacetate, one of the terminal steps in ketone body generation and leucine degradation, and is a key enzyme in the pathway that supplies metabolic fuel to extrahepatic tissues. Mutations in HMGL cause a human autosomal recessive disorder called primary metabolic aciduria that affects ketogenesis and leucine catabolism and can be fatal due to an inability to tolerate hypoglycemia. HMGL has a TIM barrel domain with a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. The cleavage of HMG-CoA requires the presence of a divalent cation like Mg2+ or Mn2+, and the reaction is thought to involve general acid/base catalysis. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropy
Probab=33.53 E-value=2.7e+02 Score=22.88 Aligned_cols=104 Identities=15% Similarity=0.167 Sum_probs=63.7
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeC-CCCCCCHHHHHHHHHc----CCCeeecc-cchHHHHHHHcCCceeEE
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIE-GPRFSSRAESNLFRSW----NAHLVNMT-LVPEVVLAKEAGLLYAAV 76 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~-GP~fET~AE~r~~r~~----GaDvVGMS-tvPEvilAre~Gm~~~~i 76 (148)
..|+.+-...+.+...+.|++...=|.++.-. .|++....|. .+.+ ++.+.++. ..-.+-.|.++|+..+.+
T Consensus 15 ~~~s~e~K~~i~~~L~~~Gv~~IEvGs~~~~~~~p~~~d~~~~--~~~l~~~~~~~~~~~~~~~~dv~~A~~~g~~~i~i 92 (274)
T cd07938 15 TFIPTEDKIELIDALSAAGLRRIEVTSFVSPKWVPQMADAEEV--LAGLPRRPGVRYSALVPNLRGAERALAAGVDEVAV 92 (274)
T ss_pred CCcCHHHHHHHHHHHHHcCCCEEEeCCCCCcccccccCCHHHH--HhhcccCCCCEEEEECCCHHHHHHHHHcCcCEEEE
Confidence 45777888888888888999877445443333 5777765443 3332 44455543 344577899999999999
Q ss_pred EeeeccccccCCCCCCCHHHHHHHHHHHHHHHH
Q psy17033 77 AMATDYDCWRDTGNKVCVADVLKTFKENVEKIT 109 (148)
Q Consensus 77 s~VTN~a~~~~~~~~v~~eeVl~~~~~~~~~~~ 109 (148)
.+.++...-.. .-..+.+++++.+.+.....+
T Consensus 93 ~~~~Sd~~~~~-~~~~s~~~~~~~~~~~v~~ak 124 (274)
T cd07938 93 FVSASETFSQK-NINCSIAESLERFEPVAELAK 124 (274)
T ss_pred EEecCHHHHHH-HcCCCHHHHHHHHHHHHHHHH
Confidence 98887421111 122455666655555444433
No 186
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=33.49 E-value=1.2e+02 Score=24.61 Aligned_cols=74 Identities=12% Similarity=0.135 Sum_probs=49.1
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccc----hHHHHHHHcCCceeEE
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLV----PEVVLAKEAGLLYAAV 76 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStv----PEvilAre~Gm~~~~i 76 (148)
+++||-.++..-+.+.|++.|+.+. ++..+..-+...=++++++.++|-+=+.+. ++.....+.|++++.+
T Consensus 11 ~~npff~~ii~gIe~~a~~~Gy~l~-----l~~t~~~~~~e~~i~~l~~~~vDGiI~~s~~~~~~~l~~~~~~~iPvV~~ 85 (279)
T PF00532_consen 11 ISNPFFAEIIRGIEQEAREHGYQLL-----LCNTGDDEEKEEYIELLLQRRVDGIILASSENDDEELRRLIKSGIPVVLI 85 (279)
T ss_dssp STSHHHHHHHHHHHHHHHHTTCEEE-----EEEETTTHHHHHHHHHHHHTTSSEEEEESSSCTCHHHHHHHHTTSEEEEE
T ss_pred CCCcHHHHHHHHHHHHHHHcCCEEE-----EecCCCchHHHHHHHHHHhcCCCEEEEecccCChHHHHHHHHcCCCEEEE
Confidence 3678999999999999999998754 333443333335566778888875544433 4555555558998776
Q ss_pred Eee
Q psy17033 77 AMA 79 (148)
Q Consensus 77 s~V 79 (148)
--.
T Consensus 86 ~~~ 88 (279)
T PF00532_consen 86 DRY 88 (279)
T ss_dssp SS-
T ss_pred Eec
Confidence 554
No 187
>PF00391 PEP-utilizers: PEP-utilising enzyme, mobile domain; InterPro: IPR008279 A number of enzymes that catalyze the transfer of a phosphoryl group from phosphoenolpyruvate (PEP) via a phospho-histidine intermediate have been shown to be structurally related [, , , ]. All these enzymes share the same catalytic mechanism: they bind PEP and transfer the phosphoryl group from it to a histidine residue. This domain is a "swivelling" beta/beta/alpha domain which is thought to be mobile in all proteins known to contain it []. It is often found associated with the pyruvate phosphate dikinase, PEP/pyruvate-binding domain (IPR002192 from INTERPRO) at its N terminus.; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0016310 phosphorylation; PDB: 2X0S_A 2OLS_A 2HRO_A 2E28_A 2WQD_A 3T05_D 3T0T_D 3T07_B 2DIK_A 2FM4_A ....
Probab=33.48 E-value=35 Score=22.73 Aligned_cols=35 Identities=11% Similarity=0.106 Sum_probs=21.2
Q ss_pred CHHHHH-HHHHcCCCee--ecccchHHHHHHHcCCcee
Q psy17033 40 SRAESN-LFRSWNAHLV--NMTLVPEVVLAKEAGLLYA 74 (148)
Q Consensus 40 T~AE~r-~~r~~GaDvV--GMStvPEvilAre~Gm~~~ 74 (148)
||++.. .+....+=+. |-.+-+=+++||++|++++
T Consensus 20 ~p~~~~~~~~~~~Giv~~~Gg~~SH~aIlAr~~giP~i 57 (80)
T PF00391_consen 20 TPSDLALDLQRVAGIVTEEGGPTSHAAILARELGIPAI 57 (80)
T ss_dssp -TTCHHSHHTTSSEEEESSSSTTSHHHHHHHHTT-EEE
T ss_pred CHHHHhcchhheEEEEEEcCCccchHHHHHHHcCCCEE
Confidence 444555 3444432222 5567889999999999875
No 188
>cd08601 GDPD_SaGlpQ_like Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in uncharacterized glycerophosphodiester phosphodiesterase (GP-GDE, EC 3.1.4.46) from Staphylococcus aureus, Bacillus subtilis and similar proteins. Members in this family show very high sequence similarity to Escherichia coli periplasmic phosphodiesterase GlpQ, which catalyzes the Ca2+-dependent degradation of periplasmic glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=33.42 E-value=90 Score=24.88 Aligned_cols=41 Identities=15% Similarity=0.327 Sum_probs=24.5
Q ss_pred HHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchH
Q psy17033 12 IIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPE 62 (148)
Q Consensus 12 ~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPE 62 (148)
.+.+.+++.|+.++ +++ .-++++.+.+..+|+|.| +|-.|+
T Consensus 209 ~~v~~~~~~g~~v~-----~wT----vn~~~~~~~l~~~Gvd~I-iTD~p~ 249 (256)
T cd08601 209 WMVHLIHKKGLLVH-----PYT----VNEKADMIRLINWGVDGM-FTNYPD 249 (256)
T ss_pred HHHHHHHHCCCEEE-----EEe----cCCHHHHHHHHhcCCCEE-EeCCHH
Confidence 44455555665543 333 246788888888887765 455555
No 189
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=33.39 E-value=2.1e+02 Score=21.89 Aligned_cols=70 Identities=10% Similarity=0.042 Sum_probs=42.9
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH---HHHHHHcCCCeeec-ccc---hHHHHHHHcCCce
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE---SNLFRSWNAHLVNM-TLV---PEVVLAKEAGLLY 73 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~GaDvVGM-Stv---PEvilAre~Gm~~ 73 (148)
+.+||-..+.+-+.+.+++.|+.+. +... ..+..-| ++.+...++|.|=. .+. +....+++.|+++
T Consensus 9 ~~~~~~~~~~~gi~~~~~~~~~~~~-----~~~~--~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~~~~~~~~~iPv 81 (265)
T cd06285 9 LTDTVMATMYEGIEEAAAERGYSTF-----VANT--GDNPDAQRRAIEMLLDRRVDGLILGDARSDDHFLDELTRRGVPF 81 (265)
T ss_pred CCCccHHHHHHHHHHHHHHCCCEEE-----EEeC--CCCHHHHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHcCCCE
Confidence 3578999999999999999887643 1111 2222233 33556778885443 222 2234567779998
Q ss_pred eEEE
Q psy17033 74 AAVA 77 (148)
Q Consensus 74 ~~is 77 (148)
+.+-
T Consensus 82 v~~~ 85 (265)
T cd06285 82 VLVL 85 (265)
T ss_pred EEEc
Confidence 7654
No 190
>COG0826 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]
Probab=33.32 E-value=2.8e+02 Score=23.93 Aligned_cols=95 Identities=14% Similarity=0.109 Sum_probs=62.6
Q ss_pred cCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH-----HHHHHHcCCCeeecccchHHHHHHHcC--Cc--eeE
Q psy17033 5 FDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE-----SNLFRSWNAHLVNMTLVPEVVLAKEAG--LL--YAA 75 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE-----~r~~r~~GaDvVGMStvPEvilAre~G--m~--~~~ 75 (148)
|+.+=.+.+.+.|.+.|.+ +|+.+..--++..-| .+.+..+|.|.|=++=.-=+-++++.+ ++ +-.
T Consensus 46 fs~~~l~e~i~~ah~~gkk-----~~V~~N~~~~~~~~~~~~~~l~~l~e~GvDaviv~Dpg~i~l~~e~~p~l~ih~S~ 120 (347)
T COG0826 46 FSVEDLAEAVELAHSAGKK-----VYVAVNTLLHNDELETLERYLDRLVELGVDAVIVADPGLIMLARERGPDLPIHVST 120 (347)
T ss_pred CCHHHHHHHHHHHHHcCCe-----EEEEeccccccchhhHHHHHHHHHHHcCCCEEEEcCHHHHHHHHHhCCCCcEEEee
Confidence 3333344555566655543 677777766666555 567778999999999888888999887 55 455
Q ss_pred EEeeecccc-------cc---CCCCCCCHHHHHHHHHHH
Q psy17033 76 VAMATDYDC-------WR---DTGNKVCVADVLKTFKEN 104 (148)
Q Consensus 76 is~VTN~a~-------~~---~~~~~v~~eeVl~~~~~~ 104 (148)
.+.|||+.. |. --...++.+|+.+..++.
T Consensus 121 q~~v~N~~~~~f~~~~G~~rvVl~rEls~~ei~~i~~~~ 159 (347)
T COG0826 121 QANVTNAETAKFWKELGAKRVVLPRELSLEEIKEIKEQT 159 (347)
T ss_pred eEecCCHHHHHHHHHcCCEEEEeCccCCHHHHHHHHHhC
Confidence 666777652 11 012457888887777654
No 191
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=33.27 E-value=1.5e+02 Score=21.00 Aligned_cols=37 Identities=11% Similarity=0.056 Sum_probs=25.2
Q ss_pred eEEEEeCCCCCCCHHHHHHHHHcCC-CeeecccchHHHHH
Q psy17033 28 GTAVCIEGPRFSSRAESNLFRSWNA-HLVNMTLVPEVVLA 66 (148)
Q Consensus 28 GvY~~~~GP~fET~AE~r~~r~~Ga-DvVGMStvPEvilA 66 (148)
.+.+++.|..+ +.|...|+++|. .++++.+-+|-+++
T Consensus 81 ~i~i~~GG~~~--~~~~~~~~~~G~d~~~~~~~~~~~~~~ 118 (122)
T cd02071 81 DILVVGGGIIP--PEDYELLKEMGVAEIFGPGTSIEEIID 118 (122)
T ss_pred CCEEEEECCCC--HHHHHHHHHCCCCEEECCCCCHHHHHH
Confidence 45666666433 567778888887 45777777776664
No 192
>cd06815 PLPDE_III_AR_like_1 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1. This subfamily is composed of uncharacterized bacterial proteins with similarity to bacterial alanine racemases (AR), which are fold type III PLP-dependent enzymes containing an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. It catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. Members of this subfamily may act as PLP-dependent enzymes.
Probab=33.27 E-value=75 Score=26.92 Aligned_cols=40 Identities=5% Similarity=-0.016 Sum_probs=34.5
Q ss_pred CCCHHHHHHHHHcCCCeeecccchHHHHHHHcCC--ceeEEE
Q psy17033 38 FSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGL--LYAAVA 77 (148)
Q Consensus 38 fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm--~~~~is 77 (148)
.-.+.-.+++...|++-+|.+++-|+...|+.|+ +.+-++
T Consensus 37 hg~~~va~~l~~~G~~~f~va~i~EA~~lr~~G~~~~illlg 78 (353)
T cd06815 37 CGDPEIAEALLEGGITHLADSRIENLKKLKDLGISGPKMLLR 78 (353)
T ss_pred CCCHHHHHHHHHcCCCEEEeccHHHHHHHHhcCCCCCEEEEC
Confidence 5567788889999999999999999999999998 665554
No 193
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=33.18 E-value=1.4e+02 Score=24.41 Aligned_cols=68 Identities=16% Similarity=0.098 Sum_probs=44.5
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHH-----HHHHHcCCce
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEV-----VLAKEAGLLY 73 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEv-----ilAre~Gm~~ 73 (148)
.+|...+.+.+++.+++.|+.+...-.| -.....|. +.++-++..|+|+|=+...+.- .-+++.|+..
T Consensus 154 ~~~g~~~~~~~~~~~~~~G~~vv~~~~~-~~~~~d~~--~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~ 226 (347)
T cd06340 154 TEFGTSVAEAIKKFAKERGFEIVEDISY-PANARDLT--SEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEP 226 (347)
T ss_pred chHhHHHHHHHHHHHHHcCCEEEEeecc-CCCCcchH--HHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCC
Confidence 5788888899999999999887622222 22233444 3667788888998776655432 2356678753
No 194
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=33.04 E-value=92 Score=26.06 Aligned_cols=71 Identities=11% Similarity=0.149 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHhCCce--e----cceEEEEe--CCCCCCCHHHHHHHHHcCCCeeec-ccchHHH-HHHHcCCceeEE
Q psy17033 7 NSTRQIIIDSLKELGFKF--H----DKGTAVCI--EGPRFSSRAESNLFRSWNAHLVNM-TLVPEVV-LAKEAGLLYAAV 76 (148)
Q Consensus 7 ~~Lr~~~~~~a~~~gi~~--~----~~GvY~~~--~GP~fET~AE~r~~r~~GaDvVGM-StvPEvi-lAre~Gm~~~~i 76 (148)
..|++.+.+.++++++.+ + ..-+.+.. .|-+|+--....--..++++++.+ |.-|.+. +|++.|+++.-+
T Consensus 64 ~~L~~~L~~l~~~l~l~i~i~~~~~~~ri~vl~Sg~g~nl~al~~~~~~~~~~~~i~~visn~~~~~~lA~~~gIp~~~~ 143 (286)
T PRK13011 64 DALRAGFAPIAARFGMQWELHDPAARPKVLIMVSKFDHCLNDLLYRWRIGELPMDIVGVVSNHPDLEPLAAWHGIPFHHF 143 (286)
T ss_pred HHHHHHHHHHHHHhCcEEEEeecccCceEEEEEcCCcccHHHHHHHHHcCCCCcEEEEEEECCccHHHHHHHhCCCEEEe
Confidence 578999999999988642 1 12233444 445555444444444678899997 5455554 499999999876
Q ss_pred E
Q psy17033 77 A 77 (148)
Q Consensus 77 s 77 (148)
.
T Consensus 144 ~ 144 (286)
T PRK13011 144 P 144 (286)
T ss_pred C
Confidence 4
No 195
>PRK02412 aroD 3-dehydroquinate dehydratase; Provisional
Probab=33.02 E-value=1.9e+02 Score=23.52 Aligned_cols=71 Identities=17% Similarity=0.162 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHhCCceecceEEEEeC-CCCCCCH-HHHHHHHHcCCCeeecccch-------HHHHHH------HcCCc
Q psy17033 8 STRQIIIDSLKELGFKFHDKGTAVCIE-GPRFSSR-AESNLFRSWNAHLVNMTLVP-------EVVLAK------EAGLL 72 (148)
Q Consensus 8 ~Lr~~~~~~a~~~gi~~~~~GvY~~~~-GP~fET~-AE~r~~r~~GaDvVGMStvP-------EvilAr------e~Gm~ 72 (148)
+..+.+.+.+++.|.++. +.|=.+. .|+.+.- .-.+.++.+|||+|=+.+.| +..-+. +.+++
T Consensus 122 ~~~~~l~~~~~~~~~kvI--~S~H~f~~tP~~~~l~~~~~~~~~~gaDivKia~~a~~~~D~~~ll~~~~~~~~~~~~~P 199 (253)
T PRK02412 122 DVVKEMVAFAHEHGVKVV--LSYHDFEKTPPKEEIVERLRKMESLGADIVKIAVMPQSEQDVLTLLNATREMKELYADQP 199 (253)
T ss_pred HHHHHHHHHHHHcCCEEE--EeeCCCCCCcCHHHHHHHHHHHHHhCCCEEEEEecCCCHHHHHHHHHHHHHHHhcCCCCC
Confidence 344455555555555543 3343322 3444432 23456677999988877765 222221 15678
Q ss_pred eeEEEeee
Q psy17033 73 YAAVAMAT 80 (148)
Q Consensus 73 ~~~is~VT 80 (148)
++++++=.
T Consensus 200 ~i~~~MG~ 207 (253)
T PRK02412 200 LITMSMGK 207 (253)
T ss_pred EEEEeCCC
Confidence 88877643
No 196
>cd08567 GDPD_SpGDE_like Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized bacterial glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46) and similar proteins. The prototype of this CD is a putative GP-GDE from Silicibacter pomeroyi (SpGDE). It shows high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=33.02 E-value=79 Score=25.02 Aligned_cols=16 Identities=0% Similarity=-0.051 Sum_probs=8.8
Q ss_pred CHHHHHHHHHcCCCee
Q psy17033 40 SRAESNLFRSWNAHLV 55 (148)
Q Consensus 40 T~AE~r~~r~~GaDvV 55 (148)
++.+.+.+..+|+|.|
T Consensus 241 ~~~~~~~~~~~Gvdgi 256 (263)
T cd08567 241 DPEDMARLIDLGVDGI 256 (263)
T ss_pred CHHHHHHHHHcCCCEE
Confidence 4555555555665544
No 197
>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=32.69 E-value=1.6e+02 Score=22.37 Aligned_cols=69 Identities=14% Similarity=0.160 Sum_probs=42.5
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHH---HcCCCeee-cccchH----H-HHHHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFR---SWNAHLVN-MTLVPE----V-VLAKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r---~~GaDvVG-MStvPE----v-ilAre~Gm~ 72 (148)
.++|-.++.+-+.+.+++.|+.+. +.-+......|.+.++ ..++|.|= +++.++ . ..+++.|++
T Consensus 10 ~~~~~~~~~~~i~~~~~~~g~~v~-------~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l~~~~ip 82 (268)
T cd06323 10 NNPFFVTLKDGAQKEAKELGYELT-------VLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAANEAGIP 82 (268)
T ss_pred cCHHHHHHHHHHHHHHHHcCceEE-------ecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHHCCCc
Confidence 578888899999999998776653 2222334444544444 46788633 343332 2 235677999
Q ss_pred eeEEE
Q psy17033 73 YAAVA 77 (148)
Q Consensus 73 ~~~is 77 (148)
++.+.
T Consensus 83 vv~~~ 87 (268)
T cd06323 83 VFTID 87 (268)
T ss_pred EEEEc
Confidence 88774
No 198
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=32.64 E-value=2.3e+02 Score=21.76 Aligned_cols=71 Identities=6% Similarity=-0.082 Sum_probs=43.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH-HHHHHHcCCCeeeccc---chHH-HHHHHcCCceeEE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE-SNLFRSWNAHLVNMTL---VPEV-VLAKEAGLLYAAV 76 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE-~r~~r~~GaDvVGMSt---vPEv-ilAre~Gm~~~~i 76 (148)
.++|-..+.+-+.+.++++|+.+. +.+. ....++..+ ++.+...+.|.|=... -++. .-+...|++++.+
T Consensus 10 ~~~~~~~~~~gi~~~~~~~gy~v~----~~~~-~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~~~~pvV~i 84 (269)
T cd06293 10 ANPFFAELADAVEEEADARGLSLV----LCAT-RNRPERELTYLRWLDTNHVDGLIFVTNRPDDGALAKLINSYGNIVLV 84 (269)
T ss_pred CCCcHHHHHHHHHHHHHHCCCEEE----EEeC-CCCHHHHHHHHHHHHHCCCCEEEEeCCCCCHHHHHHHHhcCCCEEEE
Confidence 468889999999999999998764 2222 222222222 3455667887766433 2232 2344568887776
Q ss_pred E
Q psy17033 77 A 77 (148)
Q Consensus 77 s 77 (148)
-
T Consensus 85 ~ 85 (269)
T cd06293 85 D 85 (269)
T ss_pred C
Confidence 4
No 199
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=32.47 E-value=2.3e+02 Score=23.54 Aligned_cols=68 Identities=16% Similarity=0.064 Sum_probs=41.8
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccch-HHHH----HHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVP-EVVL----AKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvP-Evil----Are~Gm~ 72 (148)
.++|...+.+.+.+.+++.|+++.....| -..-..| .+.+..++..|+|+|=+...+ +... +++.|++
T Consensus 149 ~~~~g~~~~~~~~~~~~~~G~~vv~~~~~-~~~~~D~--~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~ 221 (351)
T cd06334 149 DSPFGKEPIEALKALAEKLGFEVVLEPVP-PPGPNDQ--KAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLD 221 (351)
T ss_pred CCccchhhHHHHHHHHHHcCCeeeeeccC-CCCcccH--HHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCC
Confidence 35788889999999999998876522222 1111344 345566677788877555444 3322 4566765
No 200
>PRK06512 thiamine-phosphate pyrophosphorylase; Provisional
Probab=32.47 E-value=2.6e+02 Score=22.33 Aligned_cols=43 Identities=12% Similarity=-0.078 Sum_probs=30.9
Q ss_pred CCCCCCHHHHHHHHHcCC-Ceeecc---cchHHHHHHHcCCceeEEEee
Q psy17033 35 GPRFSSRAESNLFRSWNA-HLVNMT---LVPEVVLAKEAGLLYAAVAMA 79 (148)
Q Consensus 35 GP~fET~AE~r~~r~~Ga-DvVGMS---tvPEvilAre~Gm~~~~is~V 79 (148)
|-+.....+.|.. +|. .+||-| +..|+.-|.+.|..|++++-|
T Consensus 94 g~~d~~~~~~r~~--~~~~~iiG~s~~~s~~~a~~A~~~gaDYv~~Gpv 140 (221)
T PRK06512 94 EGNLAALAEAIEK--HAPKMIVGFGNLRDRHGAMEIGELRPDYLFFGKL 140 (221)
T ss_pred CccccCHHHHHHh--cCCCCEEEecCCCCHHHHHHhhhcCCCEEEECCC
Confidence 3333445666643 444 478987 677788888999999999987
No 201
>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=32.40 E-value=2e+02 Score=22.16 Aligned_cols=71 Identities=17% Similarity=0.068 Sum_probs=42.6
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHH-HHH---HHHHcCCCeee-cccchH----H-HHHHHcC
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRA-ESN---LFRSWNAHLVN-MTLVPE----V-VLAKEAG 70 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~A-E~r---~~r~~GaDvVG-MStvPE----v-ilAre~G 70 (148)
+.++|...+.+-+.+.++++|+.+. +.. ....+.++ |.+ .+...+.|.|= +++-++ . ..++..|
T Consensus 9 ~~~~~~~~~~~g~~~~~~~~g~~~~----~~~--~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~~~~~~ 82 (273)
T cd06310 9 TTSDFWQAVKAGAEAAAKELGVKVT----FQG--PASETDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKEAKDAG 82 (273)
T ss_pred CCcHHHHHHHHHHHHHHHHcCCEEE----Eec--CccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHHHHHCC
Confidence 4678999999999999999988765 111 11123443 223 34556777433 333332 2 2245679
Q ss_pred CceeEEE
Q psy17033 71 LLYAAVA 77 (148)
Q Consensus 71 m~~~~is 77 (148)
++++.+-
T Consensus 83 ipvV~~~ 89 (273)
T cd06310 83 IPVVLID 89 (273)
T ss_pred CCEEEec
Confidence 9998874
No 202
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=32.39 E-value=1.5e+02 Score=24.15 Aligned_cols=66 Identities=15% Similarity=0.142 Sum_probs=44.2
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccch-HHH-H---HHHcCC
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVP-EVV-L---AKEAGL 71 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvP-Evi-l---Are~Gm 71 (148)
.+|...+.+.+.+.+++.|+++.....| -..-+.| .+++..++..|+|+|=....+ +.+ + +++.|+
T Consensus 142 ~~~g~~~~~~~~~~~~~~G~~vv~~~~~-~~~~~d~--~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~ 212 (334)
T cd06356 142 YNFGQISAEWVRKIVEENGGEVVGEEFI-PLDVSDF--GSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGL 212 (334)
T ss_pred chhhHHHHHHHHHHHHHcCCEEEeeeec-CCCchhH--HHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCC
Confidence 5788889999999999999887633333 2233455 456778888899988765433 322 2 555677
No 203
>TIGR02318 phosphono_phnM phosphonate metabolism protein PhnM. This family consists of proteins from in the PhnM family. PhnM is a a protein associated with phosphonate utilization in a number of bacterial species. In Pseudomonas stutzeri WM88, a protein that is part of a system for the oxidation of phosphites (another form of reduced phosphorous compound) scores between trusted and noise cutoffs.
Probab=32.22 E-value=1.7e+02 Score=25.08 Aligned_cols=61 Identities=10% Similarity=0.091 Sum_probs=40.8
Q ss_pred cCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchH-HHHHHHcCCcee
Q psy17033 5 FDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPE-VVLAKEAGLLYA 74 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPE-vilAre~Gm~~~ 74 (148)
|..+..+.+.+.|++.|+++... ..+|+.+++..+..|.+++-..+-.| +..+++.|+.+.
T Consensus 206 ~~~e~i~~~v~~A~~~G~~v~sH---------~~~~~e~i~~a~~~Gv~~~E~~~t~e~a~~~~~~G~~v~ 267 (376)
T TIGR02318 206 YGLANRSEIAALARARGIPLASH---------DDDTPEHVAEAHDLGVTISEFPTTLEAAKEARSLGMQIL 267 (376)
T ss_pred ccHHHHHHHHHHHHHCCCeEEEe---------cCCCHHHHHHHHHCCCChhccCCCHHHHHHHHHcCCeEE
Confidence 44567778888899988876311 12778888999988886655444444 344577788754
No 204
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=32.20 E-value=54 Score=19.98 Aligned_cols=20 Identities=30% Similarity=0.670 Sum_probs=17.1
Q ss_pred ccCHHHHHHHHHHHHHhCCc
Q psy17033 4 AFDNSTRQIIIDSLKELGFK 23 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~gi~ 23 (148)
..++++|+.+.++++++|+.
T Consensus 25 ~vs~~tr~rI~~~a~~lgY~ 44 (46)
T PF00356_consen 25 RVSEETRERILEAAEELGYR 44 (46)
T ss_dssp SSTHHHHHHHHHHHHHHTB-
T ss_pred CCCHHHHHHHHHHHHHHCCC
Confidence 46899999999999999874
No 205
>cd00408 DHDPS-like Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.
Probab=32.07 E-value=96 Score=25.05 Aligned_cols=32 Identities=6% Similarity=-0.168 Sum_probs=25.3
Q ss_pred eEEEEeCCCCCC-CHHHHHHHHHcCCCeeeccc
Q psy17033 28 GTAVCIEGPRFS-SRAESNLFRSWNAHLVNMTL 59 (148)
Q Consensus 28 GvY~~~~GP~fE-T~AE~r~~r~~GaDvVGMSt 59 (148)
-+++.+.+++.+ +....+..+..|+|.|-+..
T Consensus 68 ~vi~gv~~~~~~~~i~~a~~a~~~Gad~v~v~p 100 (281)
T cd00408 68 PVIAGVGANSTREAIELARHAEEAGADGVLVVP 100 (281)
T ss_pred eEEEecCCccHHHHHHHHHHHHHcCCCEEEECC
Confidence 478888888775 77778888999999887644
No 206
>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=32.04 E-value=2.2e+02 Score=21.29 Aligned_cols=21 Identities=24% Similarity=0.028 Sum_probs=12.9
Q ss_pred eeecccchHHHHHHHcCCceeE
Q psy17033 54 LVNMTLVPEVVLAKEAGLLYAA 75 (148)
Q Consensus 54 vVGMStvPEvilAre~Gm~~~~ 75 (148)
.||=+. ..+..|+.+||..+.
T Consensus 170 ~vgD~~-~Di~~A~~~G~~~i~ 190 (198)
T TIGR01428 170 FVASNP-WDLGGAKKFGFKTAW 190 (198)
T ss_pred EEeCCH-HHHHHHHHCCCcEEE
Confidence 456555 566667777766544
No 207
>PRK06529 amidase; Provisional
Probab=31.92 E-value=31 Score=30.58 Aligned_cols=25 Identities=8% Similarity=0.040 Sum_probs=21.8
Q ss_pred CHHHHHHHHHcCCCeeecccchHHH
Q psy17033 40 SRAESNLFRSWNAHLVNMTLVPEVV 64 (148)
Q Consensus 40 T~AE~r~~r~~GaDvVGMStvPEvi 64 (148)
...=++.||..||=++|.|++||--
T Consensus 97 Da~vV~rLr~AGAiilGKTn~~E~~ 121 (482)
T PRK06529 97 TDLYVKRLEDLGFIILGRSNTPEFG 121 (482)
T ss_pred chHHHHHHHHCCCeEEEecCchHhh
Confidence 4456899999999999999999954
No 208
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=31.68 E-value=2.6e+02 Score=22.83 Aligned_cols=67 Identities=18% Similarity=0.251 Sum_probs=44.5
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccch-HH----HHHHHcCCc
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVP-EV----VLAKEAGLL 72 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvP-Ev----ilAre~Gm~ 72 (148)
++|..++.+.+++.+++.|+++.... ++-..-..| .+.+..++..|+|+|=+...+ +. ..+++.|+.
T Consensus 154 ~~~g~~~~~~~~~~~~~~G~~vv~~~-~~~~~~~d~--~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~ 225 (362)
T cd06343 154 DDFGKDYLKGLKDGLGDAGLEIVAET-SYEVTEPDF--DSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWK 225 (362)
T ss_pred cHHHHHHHHHHHHHHHHcCCeEEEEe-eecCCCccH--HHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCC
Confidence 56888899999999999998865222 222211223 356777888899988877666 33 335777765
No 209
>TIGR00977 LeuA_rel 2-isopropylmalate synthase/homocitrate synthase family protein. This model represents uncharacterized proteins related to 2-isopropylmalate synthases and homocitrate synthases but phylogenetically distint. Each species represented in the seed alignment also has a member of a known family of 2-isopropylmalate synthases.
Probab=31.54 E-value=3.3e+02 Score=24.82 Aligned_cols=100 Identities=14% Similarity=0.147 Sum_probs=63.2
Q ss_pred ccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHc------CCCeeecc-cchH---------HHHHH
Q psy17033 4 AFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSW------NAHLVNMT-LVPE---------VVLAK 67 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~------GaDvVGMS-tvPE---------vilAr 67 (148)
+|+.+-.-.+.+...++|++.. |. |=.+.+|-|..++|.+ .+.+.++. +..+ +-.+.
T Consensus 19 ~~s~eeKl~Ia~~L~~~GVd~I-E~------G~p~~s~~d~~~v~~i~~~~~~~~~i~~~~r~~r~~~~~~~d~~~ea~~ 91 (526)
T TIGR00977 19 SFSLEDKIRIAERLDDLGIHYI-EG------GWPGANPKDVQFFWQLKEMNFKNAKIVAFCSTRRPHKKVEEDKMLQALI 91 (526)
T ss_pred CCCHHHHHHHHHHHHHcCCCEE-EE------eCCCCChHHHHHHHHHHHhCCCCcEEEEEeeecCCCCCCchHHHHHHHh
Confidence 5666666666666777898877 55 4334557777777743 34577776 3332 56788
Q ss_pred HcCCceeEEEeeeccccccCCCCCCCHHHHHHHHHHHHHHHHHH
Q psy17033 68 EAGLLYAAVAMATDYDCWRDTGNKVCVADVLKTFKENVEKITKL 111 (148)
Q Consensus 68 e~Gm~~~~is~VTN~a~~~~~~~~v~~eeVl~~~~~~~~~~~~l 111 (148)
.+|...+.+...|....-.. .-..+.+|+++.+.+....+++.
T Consensus 92 ~~~~~~v~i~~~~Sd~h~~~-~l~~s~ee~l~~~~~~v~~ak~~ 134 (526)
T TIGR00977 92 KAETPVVTIFGKSWDLHVLE-ALQTTLEENLAMIYDTVAYLKRQ 134 (526)
T ss_pred cCCCCEEEEEeCCCHHHHHH-HhCCCHHHHHHHHHHHHHHHHHc
Confidence 89999988888775322111 12356788887777666655544
No 210
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=31.52 E-value=62 Score=25.80 Aligned_cols=36 Identities=14% Similarity=0.102 Sum_probs=16.7
Q ss_pred HHHHcCCCeeecc--cchHHHH--HHHcCCceeEEEeeec
Q psy17033 46 LFRSWNAHLVNMT--LVPEVVL--AKEAGLLYAAVAMATD 81 (148)
Q Consensus 46 ~~r~~GaDvVGMS--tvPEvil--Are~Gm~~~~is~VTN 81 (148)
+||..|.+++-+- +=||-++ +.+.+-.++++|+...
T Consensus 111 ~l~~~G~~Vi~LG~~vp~e~~v~~~~~~~~~~V~lS~~~~ 150 (213)
T cd02069 111 ILSNNGYEVIDLGVMVPIEKILEAAKEHKADIIGLSGLLV 150 (213)
T ss_pred HHHhCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEccchh
Confidence 4555555554332 2233222 4555555555555433
No 211
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=31.45 E-value=2.4e+02 Score=22.77 Aligned_cols=70 Identities=14% Similarity=0.071 Sum_probs=47.0
Q ss_pred ccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccch-HH----HHHHHcCCceeEE
Q psy17033 4 AFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVP-EV----VLAKEAGLLYAAV 76 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvP-Ev----ilAre~Gm~~~~i 76 (148)
+|...+.+.+++.++++|+.+...-.| .....+-.+.++-++..++|+|-+.+.+ .+ ..+++.|++.--+
T Consensus 144 ~~g~~~~~~~~~~~~~~G~~v~~~~~~---~~~~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~~~ 218 (341)
T cd06341 144 AAVSAAAALLARSLAAAGVSVAGIVVI---TATAPDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPKVV 218 (341)
T ss_pred HHHHHHHHHHHHHHHHcCCcccccccc---CCCCCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCCEE
Confidence 467778888899999999987632222 2223444467777777899999888776 33 2356778875443
No 212
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=31.38 E-value=35 Score=23.85 Aligned_cols=44 Identities=18% Similarity=0.156 Sum_probs=32.3
Q ss_pred ceEEEEe--CCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcC
Q psy17033 27 KGTAVCI--EGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAG 70 (148)
Q Consensus 27 ~GvY~~~--~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~G 70 (148)
+.+.+.+ +|-+-|+..=.+..|..|+.+|++|.-|..-+|+.+.
T Consensus 48 ~d~vi~iS~sG~t~~~~~~~~~a~~~g~~vi~iT~~~~s~la~~ad 93 (128)
T cd05014 48 GDVVIAISNSGETDELLNLLPHLKRRGAPIIAITGNPNSTLAKLSD 93 (128)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCCchhhhCC
Confidence 3344444 4555666666777888999999999999998988765
No 213
>PRK07139 amidase; Provisional
Probab=31.24 E-value=43 Score=29.44 Aligned_cols=26 Identities=12% Similarity=-0.075 Sum_probs=23.5
Q ss_pred CCHHHHHHHHHcCCCeeecccchHHH
Q psy17033 39 SSRAESNLFRSWNAHLVNMTLVPEVV 64 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGMStvPEvi 64 (148)
++..=++.+|..||-++|.|++||--
T Consensus 69 ~dA~vV~rLr~AGAIilGKTn~~Efa 94 (439)
T PRK07139 69 YNATVVQKLINAGAKPVAKVHCDELG 94 (439)
T ss_pred CchHHHHHHHHCCCEEEEeechhhHh
Confidence 56778999999999999999999965
No 214
>PRK09250 fructose-bisphosphate aldolase; Provisional
Probab=31.17 E-value=85 Score=27.41 Aligned_cols=41 Identities=15% Similarity=0.269 Sum_probs=27.8
Q ss_pred HHHHHhCCceecceEEEEeCCCCCCCHH------H-----HHHHHHcCCCeeecc
Q psy17033 15 DSLKELGFKFHDKGTAVCIEGPRFSSRA------E-----SNLFRSWNAHLVNMT 58 (148)
Q Consensus 15 ~~a~~~gi~~~~~GvY~~~~GP~fET~A------E-----~r~~r~~GaDvVGMS 58 (148)
+-|++.|+++. ..++-.||.++... + .|.-..+|||+|=--
T Consensus 186 ~ea~~~GlPlv---~~~YpRG~~i~~~~d~~~~~d~Ia~AaRiaaELGADIVKv~ 237 (348)
T PRK09250 186 EEAHELGLATV---LWSYLRNSAFKKDGDYHTAADLTGQANHLAATIGADIIKQK 237 (348)
T ss_pred HHHHHhCCCEE---EEecccCcccCCcccccccHHHHHHHHHHHHHHcCCEEEec
Confidence 45677899876 46677788775543 3 344456999998653
No 215
>COG1254 AcyP Acylphosphatases [Energy production and conversion]
Probab=30.87 E-value=76 Score=22.27 Aligned_cols=32 Identities=25% Similarity=0.350 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHhCCc----eecce-EEEEeCCCCCC
Q psy17033 8 STRQIIIDSLKELGFK----FHDKG-TAVCIEGPRFS 39 (148)
Q Consensus 8 ~Lr~~~~~~a~~~gi~----~~~~G-vY~~~~GP~fE 39 (148)
..|..++..|.++|+. ..+.| |++..+||.=+
T Consensus 18 GFR~~~~~~A~~lgl~G~V~N~~DGsVeiva~G~~~~ 54 (92)
T COG1254 18 GFRYFTRSEALRLGLTGWVKNLDDGSVEIVAEGPDEA 54 (92)
T ss_pred cHHHHHHHHHHHCCCEEEEEECCCCeEEEEEEcCHHH
Confidence 3578889999999984 34466 99999999644
No 216
>PRK07226 fructose-bisphosphate aldolase; Provisional
Probab=30.87 E-value=2.7e+02 Score=22.64 Aligned_cols=65 Identities=9% Similarity=0.159 Sum_probs=38.7
Q ss_pred HHHHHHHhCCceecceEEEEeCCCCCCC---HHH----HHHHHHcCCCeeecccchH-HHHH---HHcCCceeEEEeee
Q psy17033 13 IIDSLKELGFKFHDKGTAVCIEGPRFSS---RAE----SNLFRSWNAHLVNMTLVPE-VVLA---KEAGLLYAAVAMAT 80 (148)
Q Consensus 13 ~~~~a~~~gi~~~~~GvY~~~~GP~fET---~AE----~r~~r~~GaDvVGMStvPE-vilA---re~Gm~~~~is~VT 80 (148)
+.+.+++.|+++. +-....|+.+|+ +.+ .+....+|+|.|=-+-.+. -.+. ..+.+++.++.-|+
T Consensus 131 v~~~~~~~g~pl~---vi~~~~g~~~e~~~~~~~i~~a~~~a~e~GAD~vKt~~~~~~~~l~~~~~~~~ipV~a~GGi~ 206 (267)
T PRK07226 131 VAEECEEWGMPLL---AMMYPRGPGIKNEYDPEVVAHAARVAAELGADIVKTNYTGDPESFREVVEGCPVPVVIAGGPK 206 (267)
T ss_pred HHHHHHHcCCcEE---EEEecCCCccCCCccHHHHHHHHHHHHHHCCCEEeeCCCCCHHHHHHHHHhCCCCEEEEeCCC
Confidence 4445566788765 223455776654 333 3556679999997764331 1222 23467888887777
No 217
>TIGR00126 deoC deoxyribose-phosphate aldolase. Deoxyribose-phosphate aldolase is involved in the catabolism of nucleotides and deoxyriibonucleotides. The catalytic process is as follows: 2-deoxy-D-ribose 5-phosphate = D-glyceraldehyde 3-phosphate + acetaldehyde. It is found in both gram-postive and gram-negative bacteria.
Probab=30.80 E-value=31 Score=27.73 Aligned_cols=31 Identities=10% Similarity=0.094 Sum_probs=24.4
Q ss_pred EeCCCCCCCHHHHHHHHHcCCCeeecccchHHH
Q psy17033 32 CIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVV 64 (148)
Q Consensus 32 ~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvi 64 (148)
.-.|++ |..+..-|-.+|+|-+|.|...+++
T Consensus 180 aaGGir--t~~~a~~~i~aGa~riGts~~~~i~ 210 (211)
T TIGR00126 180 ASGGVR--TAEDAIAMIEAGASRIGASAGVAII 210 (211)
T ss_pred EeCCCC--CHHHHHHHHHHhhHHhCcchHHHHh
Confidence 345777 8888888888899999998877753
No 218
>TIGR00411 redox_disulf_1 small redox-active disulfide protein 1. This protein is homologous to a family of proteins that includes thioredoxins, glutaredoxins, protein-disulfide isomerases, and others, some of which have several such domains. The sequence of this protein at the redox-active disufide site, CPYC, matches glutaredoxins rather than thioredoxins, although its overall sequence seems closer to thioredoxins. It is suggested to be a ribonucleotide-reducing system component distinct from thioredoxin or glutaredoxin.
Probab=30.78 E-value=1.2e+02 Score=19.11 Aligned_cols=32 Identities=13% Similarity=0.149 Sum_probs=23.0
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCC
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRF 38 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~f 38 (148)
-+||+.+...+.+.+++.+..+. +..+....+
T Consensus 11 C~~C~~~~~~l~~l~~~~~~~~~----~~~vd~~~~ 42 (82)
T TIGR00411 11 CPYCPAAKRVVEEVAKEMGDAVE----VEYINVMEN 42 (82)
T ss_pred CcchHHHHHHHHHHHHHhcCceE----EEEEeCccC
Confidence 47999999999999988764432 555555543
No 219
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=30.61 E-value=1.8e+02 Score=23.34 Aligned_cols=69 Identities=10% Similarity=0.124 Sum_probs=41.7
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH---HHHHHHcCCCeeeccc-c---hH-HHHHHHcCCce
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE---SNLFRSWNAHLVNMTL-V---PE-VVLAKEAGLLY 73 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~GaDvVGMSt-v---PE-vilAre~Gm~~ 73 (148)
.++|-.++.+-+.+.+++.|+.+. +... ......| ++.+...+.|.|=+.. . ++ ...+.+.|+++
T Consensus 72 ~~~~~~~l~~gi~~~~~~~g~~~~----~~~~---~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPv 144 (328)
T PRK11303 72 ENTSYARIAKYLERQARQRGYQLL----IACS---DDQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQRLQNDGLPI 144 (328)
T ss_pred CCchHHHHHHHHHHHHHHcCCEEE----EEeC---CCCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHHHHHhcCCCE
Confidence 467888899999999999888754 2222 1222223 3345566888654432 1 22 23356679998
Q ss_pred eEEE
Q psy17033 74 AAVA 77 (148)
Q Consensus 74 ~~is 77 (148)
+.+.
T Consensus 145 V~v~ 148 (328)
T PRK11303 145 IALD 148 (328)
T ss_pred EEEC
Confidence 7664
No 220
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=30.56 E-value=91 Score=20.11 Aligned_cols=23 Identities=30% Similarity=0.660 Sum_probs=20.3
Q ss_pred cccCHHHHHHHHHHHHHhCCcee
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFH 25 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~ 25 (148)
+.+++++++.+.+..++.|+.++
T Consensus 36 ~~~~~~~~~~~~~~l~~~gV~v~ 58 (80)
T PF00070_consen 36 PGFDPDAAKILEEYLRKRGVEVH 58 (80)
T ss_dssp TTSSHHHHHHHHHHHHHTTEEEE
T ss_pred hhcCHHHHHHHHHHHHHCCCEEE
Confidence 56899999999999999999876
No 221
>cd08574 GDPD_GDE_2_3_6 Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE2, GDE3, GDE6-like proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian glycerophosphodiester phosphodiesterase domain-containing protein subtype 5 (GDE2), subtype 2 (GDE3), subtype 1 (GDE6), and their eukaryotic homologs. Mammalian GDE2, GDE3, and GDE6 show very high sequence similarity to each other and have been classified into the same family. Although they are all transmembrane proteins, based on different pattern of tissue distribution, these enzymes might display diverse cellular functions. Mammalian GDE2 is primarily expressed in mature neurons. It selectively hydrolyzes glycerophosphocholine (GPC) and mainly functions in a complex with an antioxidant scavenger peroxiredoxin1 (Prdx1) to control motor neuron differentiation in the spinal cord. Mammalian GDE3 is specifically expressed in bo
Probab=30.38 E-value=76 Score=25.58 Aligned_cols=19 Identities=16% Similarity=-0.011 Sum_probs=10.7
Q ss_pred CCHHHHHHHHHcCCCeeec
Q psy17033 39 SSRAESNLFRSWNAHLVNM 57 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGM 57 (148)
-|+.-++.++..|-.+.--
T Consensus 211 ~~~~~v~~~~~~g~~v~~W 229 (252)
T cd08574 211 LSAQEIREYSKANISVNLY 229 (252)
T ss_pred CCHHHHHHHHHCCCEEEEE
Confidence 3566666666666554433
No 222
>PF01425 Amidase: Amidase; InterPro: IPR000120 Amidase signature (AS) enzymes are a large group of hydrolytic enzymes that contain a conserved stretch of approximately 130 amino acids known as the AS sequence. They are widespread, being found in both prokaryotes and eukaryotes. AS enzymes catalyse the hydrolysis of amide bonds (CO-NH2), although the family has diverged widely with regard to substrate specificity and function. Nonetheless, these enzymes maintain a core alpha/beta/alpha structure, where the topologies of the N- and C-terminal halves are similar. AS enzymes characteristically have a highly conserved C-terminal region rich in serine and glycine residues, but devoid of aspartic acid and histidine residues, therefore they differ from classical serine hydrolases. These enzymes posses a unique, highly conserved Ser-Ser-Lys catalytic triad used for amide hydrolysis, although the catalytic mechanism for acyl-enzyme intermediate formation can differ between enzymes []. Examples of AS enzymes include: Peptide amidase (Pam) [], which catalyses the hydrolysis of the C-terminal amide bond of peptides. Fatty acid amide hydrolases [], which hydrolyse fatty acid amid substrates (e.g. cannabinoid anandamide and sleep-inducing oleamide), thereby controlling the level and duration of signalling induced by this diverse class of lipid transmitters. Malonamidase E2 [], which catalyses the hydrolysis of malonamate into malonate and ammonia, and which is involved in the transport of fixed nitrogen from bacteroids to plant cells in symbiotic nitrogen metabolism. Subunit A of Glu-tRNA(Gln) amidotransferase [],a heterotrimeric enzyme that catalyses the formation of Gln-tRNA(Gln) by the transamidation of misacylated Glu-tRNA(Gln) via amidolysis of glutamine. ; GO: 0016884 carbon-nitrogen ligase activity, with glutamine as amido-N-donor; PDB: 1OCL_B 1OBK_A 1OBL_B 1OBJ_A 1OCM_B 1OCH_A 1OCK_B 1OBI_A 1O9Q_A 1O9N_B ....
Probab=30.36 E-value=24 Score=29.40 Aligned_cols=26 Identities=19% Similarity=0.235 Sum_probs=19.2
Q ss_pred CCHHHHHHHHHcCCCeeecccchHHH
Q psy17033 39 SSRAESNLFRSWNAHLVNMTLVPEVV 64 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGMStvPEvi 64 (148)
++..=++.||..||-++|.|++||--
T Consensus 80 ~~a~~v~~L~~aGai~~gkt~~~e~~ 105 (441)
T PF01425_consen 80 EDAPVVQRLRAAGAIIIGKTNMPEFA 105 (441)
T ss_dssp SS-HHHHHHHHTT-EEEEEE--SGGG
T ss_pred cccchhhheecccccceeeeccccee
Confidence 46678999999999999999999943
No 223
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=30.19 E-value=76 Score=22.63 Aligned_cols=34 Identities=12% Similarity=0.134 Sum_probs=25.1
Q ss_pred ceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccc
Q psy17033 27 KGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLV 60 (148)
Q Consensus 27 ~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStv 60 (148)
.|--+...||+-++..=.+.....++|+|++|..
T Consensus 26 ~G~~vi~lG~~vp~e~~~~~a~~~~~d~V~iS~~ 59 (122)
T cd02071 26 AGFEVIYTGLRQTPEEIVEAAIQEDVDVIGLSSL 59 (122)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHcCCCEEEEccc
Confidence 5666677788844444446888899999999975
No 224
>cd06311 PBP1_ABC_sugar_binding_like_3 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=30.04 E-value=1.9e+02 Score=22.32 Aligned_cols=76 Identities=11% Similarity=0.105 Sum_probs=42.6
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHH---HHHcCCCeeecccc-h----H-HHHHHHcCC
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNL---FRSWNAHLVNMTLV-P----E-VVLAKEAGL 71 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~---~r~~GaDvVGMStv-P----E-vilAre~Gm 71 (148)
+.++|...+.+-+.+.++++|-... |.-+.+.-.......+.+. +...|+|.|-.... + + ...|++.|+
T Consensus 9 ~~~~f~~~~~~gi~~~a~~~~~~~~--g~~~~~~~~~~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~~~i~~~~~~gI 86 (274)
T cd06311 9 ADHGWTAGIVWHAQAAAKKLEAAYP--DVEFILVTASNDTEQQNAQQDLLINRKIDALVILPFESAPLTQPVAKAKKAGI 86 (274)
T ss_pred CCCcHHHHHHHHHHHHHHHhhhhCC--CeEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhhHHHHHHHHHCCC
Confidence 3578889999999999998742211 2112221112222223333 44567885554322 2 3 245678899
Q ss_pred ceeEEEe
Q psy17033 72 LYAAVAM 78 (148)
Q Consensus 72 ~~~~is~ 78 (148)
+++.+-.
T Consensus 87 pvV~~d~ 93 (274)
T cd06311 87 FVVVVDR 93 (274)
T ss_pred eEEEEcC
Confidence 9988754
No 225
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=30.01 E-value=2.8e+02 Score=22.29 Aligned_cols=71 Identities=13% Similarity=0.035 Sum_probs=42.9
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH-HHHHHHcCCCeeecccc-----hHHHHHHHcCCceeE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE-SNLFRSWNAHLVNMTLV-----PEVVLAKEAGLLYAA 75 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE-~r~~r~~GaDvVGMStv-----PEvilAre~Gm~~~~ 75 (148)
.++|-.++.+-+.+.|++.|+.+ ++...++..+...+ ++.+...++|.|=.... +....+++.|++++.
T Consensus 75 ~~~~~~~i~~gi~~~a~~~g~~~-----~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~ 149 (342)
T PRK10014 75 SAPFYAELTAGLTEALEAQGRMV-----FLLQGGKDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMAEEKGIPVVF 149 (342)
T ss_pred ccchHHHHHHHHHHHHHHcCCEE-----EEEeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHHhhcCCCEEE
Confidence 46888889999999999888654 33333333222111 22344567776554321 233457788999987
Q ss_pred EE
Q psy17033 76 VA 77 (148)
Q Consensus 76 is 77 (148)
+.
T Consensus 150 ~~ 151 (342)
T PRK10014 150 AS 151 (342)
T ss_pred Ee
Confidence 74
No 226
>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.
Probab=29.93 E-value=84 Score=25.52 Aligned_cols=50 Identities=6% Similarity=-0.055 Sum_probs=29.6
Q ss_pred CHHHHHHHHHHHHHhCCceecceEEEEeCCCCC-CCHHHHHHHHHcCCCeeec
Q psy17033 6 DNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRF-SSRAESNLFRSWNAHLVNM 57 (148)
Q Consensus 6 d~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~f-ET~AE~r~~r~~GaDvVGM 57 (148)
+.+-|..+.+.+.+.-- .+--+++++.+++. ++.+..|..+..|+|.|-.
T Consensus 51 t~~Er~~l~~~~~~~~~--~~~~vi~gv~~~~~~~~~~~a~~a~~~G~d~v~~ 101 (284)
T cd00950 51 SDEEHEAVIEAVVEAVN--GRVPVIAGTGSNNTAEAIELTKRAEKAGADAALV 101 (284)
T ss_pred CHHHHHHHHHHHHHHhC--CCCcEEeccCCccHHHHHHHHHHHHHcCCCEEEE
Confidence 34445555554443311 11236788888655 6677777888899986644
No 227
>cd08602 GDPD_ScGlpQ1_like Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of putative bacterial and eukaryotic glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46) similar to Escherichia coli periplasmic phosphodiesterase GlpQ, as well as plant glycerophosphodiester phosphodiesterases (GP-PDEs), all of which catalyzes the Ca2+-dependent degradation of periplasmic glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. The prototypes of this family include putative secreted phosphodiesterase encoded by gene glpQ1 (SCO1565) from the pho regulon in Streptomyces coelicolor genome, and in plants, two distinct Arabidopsis thaliana genes, AT5G08030 and AT1G74210, coding putative GP-PDEs from the cell walls and vacuoles, respectively.
Probab=29.82 E-value=1.3e+02 Score=25.14 Aligned_cols=40 Identities=15% Similarity=0.197 Sum_probs=24.5
Q ss_pred HHHHHHHHhCCceecceEEEEeCCCC------CC--CHHHHHHHHHcCCCee
Q psy17033 12 IIIDSLKELGFKFHDKGTAVCIEGPR------FS--SRAESNLFRSWNAHLV 55 (148)
Q Consensus 12 ~~~~~a~~~gi~~~~~GvY~~~~GP~------fE--T~AE~r~~r~~GaDvV 55 (148)
.+.+.+++.|+.++ +|.. ..+. |. .++|.+.|..+|+|-|
T Consensus 257 ~~v~~a~~~gl~v~---~wTv-n~~~~~~~~~~~~~~~~~~~~l~~~GVdgi 304 (309)
T cd08602 257 DLVEDAHAAGLQVH---PYTF-RNENTFLPPDFFGDPYAEYRAFLDAGVDGL 304 (309)
T ss_pred HHHHHHHHcCCEEE---EEEe-cCCCcccCcccCCCHHHHHHHHHHhCCCEE
Confidence 34555777787766 4433 3333 21 2478888888888764
No 228
>cd00452 KDPG_aldolase KDPG and KHG aldolase. This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best known for its role in the Entner-Doudoroff pathway of bacteria, where it catalyzes the reversible cleavage of KDPG to pyruvate and glyceraldehyde-3-phosphate. 2-keto-4-hydroxyglutarate (KHG) aldolase, which has enzymatic specificity toward glyoxylate, forming KHG in the presence of pyruvate, and is capable of regulating glyoxylate levels in the glyoxylate bypass, an alternate pathway when bacteria are grown on acetate carbon sources.
Probab=29.79 E-value=1.2e+02 Score=23.35 Aligned_cols=32 Identities=16% Similarity=0.062 Sum_probs=20.2
Q ss_pred HHHHHcCCC-eeecccchHHHHHHHcCCceeEE
Q psy17033 45 NLFRSWNAH-LVNMTLVPEVVLAKEAGLLYAAV 76 (148)
Q Consensus 45 r~~r~~GaD-vVGMStvPEvilAre~Gm~~~~i 76 (148)
+..+..|.. ++|-+|.-|+..|.++|..|+++
T Consensus 91 ~~~~~~~~~~i~gv~t~~e~~~A~~~Gad~i~~ 123 (190)
T cd00452 91 KAANRAGIPLLPGVATPTEIMQALELGADIVKL 123 (190)
T ss_pred HHHHHcCCcEECCcCCHHHHHHHHHCCCCEEEE
Confidence 334445554 46777777777777777777765
No 229
>TIGR03128 RuMP_HxlA 3-hexulose-6-phosphate synthase. at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin. In these species, the enzyme is viewed as a lyase rather than a synthase and is called D-arabino 3-hexulose 6-phosphate formaldehyde lyase. Note that there is some overlap in specificity with the Escherichia coli enzyme 3-keto-L-gulonate 6-phosphate decarboxylase.
Probab=29.31 E-value=2.3e+02 Score=21.57 Aligned_cols=34 Identities=18% Similarity=0.109 Sum_probs=17.4
Q ss_pred HHHHHHHcCCCee----ecccc-hHHHHHHHcCCceeEE
Q psy17033 43 ESNLFRSWNAHLV----NMTLV-PEVVLAKEAGLLYAAV 76 (148)
Q Consensus 43 E~r~~r~~GaDvV----GMStv-PEvilAre~Gm~~~~i 76 (148)
-++..+..|.-+. +..+. .++..|.++|..|+++
T Consensus 94 ~i~~~~~~g~~~~~~~~~~~t~~~~~~~~~~~g~d~v~~ 132 (206)
T TIGR03128 94 AVKAAKKHGKEVQVDLINVKDKVKRAKELKELGADYIGV 132 (206)
T ss_pred HHHHHHHcCCEEEEEecCCCChHHHHHHHHHcCCCEEEE
Confidence 3455566665442 32332 3444466667776654
No 230
>TIGR03249 KdgD 5-dehydro-4-deoxyglucarate dehydratase. 5-dehydro-4-deoxyglucarate dehydratase not only catalyzes the dehydration of the substrate (diol to ketone + water), but causes the decarboxylation of the intermediate product to yield 2-oxoglutarate semialdehyde (2,5-dioxopentanoate). The gene for the enzyme is usually observed in the vicinity of transporters and dehydratases handling D-galactarate and D-gluconate as well as aldehyde dehydrogenases which convert the product to alpha-ketoglutarate.
Probab=29.21 E-value=74 Score=26.30 Aligned_cols=32 Identities=16% Similarity=0.068 Sum_probs=21.3
Q ss_pred EEEEeCCCCCCCHHHHHHHHHcCCCeeecccch
Q psy17033 29 TAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVP 61 (148)
Q Consensus 29 vY~~~~GP~fET~AE~r~~r~~GaDvVGMStvP 61 (148)
+++.+.+..-++....+..+..|+|.| |..-|
T Consensus 77 vi~gv~~~t~~ai~~a~~a~~~Gadav-~~~pP 108 (296)
T TIGR03249 77 VYTGVGGNTSDAIEIARLAEKAGADGY-LLLPP 108 (296)
T ss_pred EEEecCccHHHHHHHHHHHHHhCCCEE-EECCC
Confidence 566665445566677778888899887 44444
No 231
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=28.94 E-value=2.6e+02 Score=22.25 Aligned_cols=70 Identities=16% Similarity=0.211 Sum_probs=40.7
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH---HHHHHHcCCCeeecccc-h----HHHHHHHcCCce
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE---SNLFRSWNAHLVNMTLV-P----EVVLAKEAGLLY 73 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~GaDvVGMStv-P----EvilAre~Gm~~ 73 (148)
.+||-..+.+-+.+.+++.|+.+. +....+ ..+...| ++.+...|.|.|=.... + +.+..-+.|++|
T Consensus 10 ~n~f~~~~~~gi~~~a~~~g~~v~----~~~~~~-~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~~~iPv 84 (295)
T TIGR02955 10 KDSYWLSINYGMVEQAKHLGVELK----VLEAGG-YPNLDKQLAQIEQCKSWGADAILLGTVSPEALNHDLAQLTKSIPV 84 (295)
T ss_pred CcHHHHHHHHHHHHHHHHhCCEEE----EEcCCC-CCCHHHHHHHHHHHHHcCCCEEEEecCChhhhhHHHHHHhcCCCE
Confidence 578888999999999998887654 222211 1222333 34556788886654322 1 222222348888
Q ss_pred eEE
Q psy17033 74 AAV 76 (148)
Q Consensus 74 ~~i 76 (148)
+.+
T Consensus 85 V~~ 87 (295)
T TIGR02955 85 FAL 87 (295)
T ss_pred EEE
Confidence 765
No 232
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=28.86 E-value=75 Score=24.80 Aligned_cols=53 Identities=11% Similarity=0.088 Sum_probs=30.7
Q ss_pred EEEEeCCCCCCC--HHHHHHHHHcCCCee--ecccchHHHH--HHHcCCceeEEEeeec
Q psy17033 29 TAVCIEGPRFSS--RAESNLFRSWNAHLV--NMTLVPEVVL--AKEAGLLYAAVAMATD 81 (148)
Q Consensus 29 vY~~~~GP~fET--~AE~r~~r~~GaDvV--GMStvPEvil--Are~Gm~~~~is~VTN 81 (148)
+..++.|=..+= .-=..+||..|.+++ |..+=+|-++ +++.+-.++++|+...
T Consensus 88 v~~t~~gd~H~lG~~~v~~~l~~~G~~vi~LG~~vp~e~~v~~~~~~~pd~v~lS~~~~ 146 (197)
T TIGR02370 88 VCGVAEGDVHDIGKNIVVTMLRANGFDVIDLGRDVPIDTVVEKVKKEKPLMLTGSALMT 146 (197)
T ss_pred EEEeCCCchhHHHHHHHHHHHHhCCcEEEECCCCCCHHHHHHHHHHcCCCEEEEccccc
Confidence 444444433332 223347777888776 5555555544 6677777888877544
No 233
>PF08734 GYD: GYD domain; InterPro: IPR014845 These proteins of unknown function are usually less than 100 amino acids in length. They may belong to the dimeric alpha/beta barrel superfamily.
Probab=28.83 E-value=1.2e+02 Score=20.80 Aligned_cols=72 Identities=13% Similarity=0.085 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeecccccc
Q psy17033 7 NSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWR 86 (148)
Q Consensus 7 ~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a~~~ 86 (148)
++.++.+.+.+++.|.+++ ..| ++.|| | |+|...-+|-...|..++|.+.+...+++- ..
T Consensus 19 ~~R~~a~~~~~e~~Gg~l~--~~y-~t~G~-y--------------D~v~i~eaPD~~~a~~~~l~i~~~G~v~~e-t~- 78 (91)
T PF08734_consen 19 PDRAEAVRALIEALGGKLK--SFY-WTLGE-Y--------------DFVVIVEAPDDETAAAASLAIRSSGNVRTE-TL- 78 (91)
T ss_pred HHHHHHHHHHHHHcCCEEE--EEE-EecCC-C--------------CEEEEEEcCCHHHHHHHHHHHHcCCceEEE-EE-
Confidence 5667778888889999887 344 44666 2 777777777777777777776666655552 22
Q ss_pred CCCCCCCHHHHHHHH
Q psy17033 87 DTGNKVCVADVLKTF 101 (148)
Q Consensus 87 ~~~~~v~~eeVl~~~ 101 (148)
..++.+|+.+.+
T Consensus 79 ---~a~~~~e~~~~~ 90 (91)
T PF08734_consen 79 ---RAFPWDEFDEIV 90 (91)
T ss_pred ---ecCCHHHHHHHh
Confidence 235666666543
No 234
>cd06307 PBP1_uncharacterized_sugar_binding Periplasmic sugar-binding domain of uncharacterized transport systems. Periplasmic sugar-binding domain of uncharacterized transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. The members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes.
Probab=28.73 E-value=1.7e+02 Score=22.61 Aligned_cols=71 Identities=14% Similarity=0.041 Sum_probs=42.7
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCC-CCCHHHHH---HHHHcCCCeeecccch-----H-HHHHHHcCC
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPR-FSSRAESN---LFRSWNAHLVNMTLVP-----E-VVLAKEAGL 71 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~-fET~AE~r---~~r~~GaDvVGMStvP-----E-vilAre~Gm 71 (148)
.++|...+.+-+.+.+++.|..+. -+.+.++. +....+.+ .+.. ++|.+-..... + ...+++.|+
T Consensus 10 ~~~~~~~~~~~i~~~~~~~g~~~~----~~~~~~~~~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~~~~~~~i 84 (275)
T cd06307 10 SNAFYRELAAALEAAAAAFPDARI----RVRIHFVESFDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAVARLAAAGV 84 (275)
T ss_pred CChHHHHHHHHHHHHHhhhhccCc----eEEEEEccCCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHHHHHHCCC
Confidence 578999999999999998876432 11222222 22233333 3445 88866543321 2 245677899
Q ss_pred ceeEEE
Q psy17033 72 LYAAVA 77 (148)
Q Consensus 72 ~~~~is 77 (148)
+++.+.
T Consensus 85 pvV~~~ 90 (275)
T cd06307 85 PVVTLV 90 (275)
T ss_pred cEEEEe
Confidence 988764
No 235
>PRK00012 gatA aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed
Probab=28.49 E-value=38 Score=29.80 Aligned_cols=25 Identities=12% Similarity=0.098 Sum_probs=22.1
Q ss_pred CHHHHHHHHHcCCCeeecccchHHH
Q psy17033 40 SRAESNLFRSWNAHLVNMTLVPEVV 64 (148)
Q Consensus 40 T~AE~r~~r~~GaDvVGMStvPEvi 64 (148)
+..=++.+|..||-++|.|++||--
T Consensus 89 da~vV~~Lr~aGAiilGkTn~~E~~ 113 (459)
T PRK00012 89 DATVVEKLKAAGAVILGKTNMDEFA 113 (459)
T ss_pred chHHHHHHHHCCCEEEeeccchhhh
Confidence 5567899999999999999999963
No 236
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=28.48 E-value=2.5e+02 Score=21.28 Aligned_cols=70 Identities=11% Similarity=0.070 Sum_probs=43.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH---HHHHcCCCeeecccc---hH-HHHHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN---LFRSWNAHLVNMTLV---PE-VVLAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r---~~r~~GaDvVGMStv---PE-vilAre~Gm~~~ 74 (148)
.++|...+.+-+.+.+++.|+.+. +.. +.+....|.+ .+...+.|.|=.... ++ .-.+++.|++++
T Consensus 10 ~~~~~~~~~~~i~~~a~~~g~~~~----~~~---~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~l~~~~~~~ipvV 82 (267)
T cd06283 10 TNPFSSLVLKGIEDVCRAHGYQVL----VCN---SDNDPEKEKEYLESLLAYQVDGLIVNPTGNNKELYQRLAKNGKPVV 82 (267)
T ss_pred ccccHHHHHHHHHHHHHHcCCEEE----EEc---CCCCHHHHHHHHHHHHHcCcCEEEEeCCCCChHHHHHHhcCCCCEE
Confidence 578999999999999999887653 221 2233334443 345567786554321 23 233566799888
Q ss_pred EEEe
Q psy17033 75 AVAM 78 (148)
Q Consensus 75 ~is~ 78 (148)
.+--
T Consensus 83 ~~~~ 86 (267)
T cd06283 83 LVDR 86 (267)
T ss_pred EEcC
Confidence 8743
No 237
>PRK13937 phosphoheptose isomerase; Provisional
Probab=28.45 E-value=49 Score=25.50 Aligned_cols=39 Identities=10% Similarity=-0.003 Sum_probs=28.3
Q ss_pred EEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHc
Q psy17033 31 VCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEA 69 (148)
Q Consensus 31 ~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~ 69 (148)
+..+|.+-++..=.+..+..|+.+|++|.-++-.+++.+
T Consensus 113 iS~sG~t~~~~~~~~~ak~~g~~~I~iT~~~~s~L~~~a 151 (188)
T PRK13937 113 ISTSGNSPNVLAALEKARELGMKTIGLTGRDGGKMKELC 151 (188)
T ss_pred EeCCCCcHHHHHHHHHHHHCCCeEEEEeCCCCChhHHhC
Confidence 334566666666667777788888888888888888755
No 238
>cd08583 PI-PLCc_GDPD_SF_unchar1 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases. This subfamily corresponds to a group of uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipase C (PI-PLC), and glycerophosphodiester phosphodiesterases (GP-GDE), and also sphingomyelinases D (SMases D) and similar proteins. They hydrolyze the 3'-5' phosphodiester bonds in different substrates, utilizing a similar mechanism of general base and acid catalysis involving two conserved histidine residues.
Probab=28.41 E-value=1.3e+02 Score=23.78 Aligned_cols=15 Identities=0% Similarity=0.018 Sum_probs=7.0
Q ss_pred CHHHHHHHHHcCCCe
Q psy17033 40 SRAESNLFRSWNAHL 54 (148)
Q Consensus 40 T~AE~r~~r~~GaDv 54 (148)
++++.+.+..+|+|.
T Consensus 215 ~~~~~~~l~~~GVdg 229 (237)
T cd08583 215 DLKDAQEYKKLGVYG 229 (237)
T ss_pred CHHHHHHHHHcCCCE
Confidence 344444444444443
No 239
>cd00947 TBP_aldolase_IIB Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1,6-bisphosphate. There is an absolute requirement for a divalent metal ion, usually zinc, and in addition the enzymes are activated by monovalent cations such as Na+. The type A and type B Class II FBPA's differ in the presence and absence of distinct indels in the sequence that result in differing loop lengths in the structures.
Probab=28.39 E-value=2.2e+02 Score=23.90 Aligned_cols=54 Identities=9% Similarity=0.260 Sum_probs=34.3
Q ss_pred ccCHHHH--HHHHHHHHHhCCceecceEEEEeCCCC---------CCCHHHHH-HHHHcCCCeeeccc
Q psy17033 4 AFDNSTR--QIIIDSLKELGFKFHDKGTAVCIEGPR---------FSSRAESN-LFRSWNAHLVNMTL 59 (148)
Q Consensus 4 ~Yd~~Lr--~~~~~~a~~~gi~~~~~GvY~~~~GP~---------fET~AE~r-~~r~~GaDvVGMSt 59 (148)
||+..++ +.+.+.|+..|+.+ ||-...+.|-. |.+|.|.. |++.-|+|.+.-|.
T Consensus 104 ~~eeNi~~t~~vv~~ah~~gv~V--EaElG~i~g~e~~~~~~~~~~T~pe~a~~Fv~~TgvD~LAvsi 169 (276)
T cd00947 104 PFEENVAKTKEVVELAHAYGVSV--EAELGRIGGEEDGVVGDEGLLTDPEEAEEFVEETGVDALAVAI 169 (276)
T ss_pred CHHHHHHHHHHHHHHHHHcCCeE--EEEEeeecCccCCcccccccCCCHHHHHHHHHHHCCCEEEecc
Confidence 4444433 45667788888875 45556665544 77888877 44567888765443
No 240
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=28.38 E-value=2.7e+02 Score=21.24 Aligned_cols=69 Identities=16% Similarity=0.147 Sum_probs=40.9
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH---HHHHcCCCeeecccc---hHHHHHHHcCCceeE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN---LFRSWNAHLVNMTLV---PEVVLAKEAGLLYAA 75 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r---~~r~~GaDvVGMStv---PEvilAre~Gm~~~~ 75 (148)
.++|...+.+-+.+.+++.|+.+. ++.. ......|.. .+.+.|.|-|=.... .+.+-+...|++++.
T Consensus 10 ~~~~~~~~~~gi~~~~~~~gy~~~-----~~~~--~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~~~~~~~~iPvV~ 82 (265)
T cd06290 10 ASPFYGRILKGMERGLNGSGYSPI-----IATG--HWNQSRELEALELLKSRRVDALILLGGDLPEEEILALAEEIPVLA 82 (265)
T ss_pred CCchHHHHHHHHHHHHHHCCCEEE-----EEeC--CCCHHHHHHHHHHHHHCCCCEEEEeCCCCChHHHHHHhcCCCEEE
Confidence 568888999999999998887643 1111 122334443 555667876654322 222223234888876
Q ss_pred EE
Q psy17033 76 VA 77 (148)
Q Consensus 76 is 77 (148)
+-
T Consensus 83 i~ 84 (265)
T cd06290 83 VG 84 (265)
T ss_pred EC
Confidence 64
No 241
>PRK05962 amidase; Validated
Probab=28.21 E-value=40 Score=29.41 Aligned_cols=25 Identities=16% Similarity=0.126 Sum_probs=21.6
Q ss_pred CHHHHHHHHHcCCCeeecccchHHH
Q psy17033 40 SRAESNLFRSWNAHLVNMTLVPEVV 64 (148)
Q Consensus 40 T~AE~r~~r~~GaDvVGMStvPEvi 64 (148)
+..=++.+|..|+-++|-|++||--
T Consensus 80 dA~vV~rL~~aGAiilGKTn~~E~~ 104 (424)
T PRK05962 80 DALIVQRLRNAGAVIIGKTHMTEFA 104 (424)
T ss_pred ChHHHHHHHHCCCEEEEecCchHHh
Confidence 4445899999999999999999974
No 242
>cd08575 GDPD_GDE4_like Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE4-like proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE4 (also known as glycerophosphodiester phosphodiesterase domain-containing protein 1 (GDPD1)) and similar proteins. Mammalian GDE4 is a transmembrane protein whose cellular function is not elucidated. It is expressed widely, including in placenta, liver, kidney, pancreas, spleen, thymus, ovary, small intestine and peripheral blood leukocytes. It is also expressed in the growth cones in neuroblastoma Neuro2a cells, which suggests mammalian GDE4 may play some distinct role from other members of mammalian GDEs family. Also included in this subfamily are uncharacterized mammalian glycerophosphodiester phosphodiesterase domain-containing protein 3 (GDPD3) and similar proteins which display very high sequence homology to mammalian GDE4.
Probab=28.08 E-value=1.1e+02 Score=24.70 Aligned_cols=36 Identities=17% Similarity=0.139 Sum_probs=23.7
Q ss_pred HHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 11 QIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 11 ~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
..+.+.+++.|+.++ +|. ..++.+.+.+..+|+|-|
T Consensus 221 ~~~v~~~~~~G~~v~---vWT------VNd~~~~~~l~~~GVdgI 256 (264)
T cd08575 221 PNLFDHLRKRGIQVY---LWV------LNDEEDFEEAFDLGADGV 256 (264)
T ss_pred HHHHHHHHhcCCcEE---EEE------ECCHHHHHHHHhcCCCEE
Confidence 345555666677654 443 455778888888887765
No 243
>PRK05718 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=27.81 E-value=1.3e+02 Score=24.02 Aligned_cols=24 Identities=21% Similarity=0.213 Sum_probs=16.6
Q ss_pred CCCCCHHHHHHHHHcCCCeeecccch
Q psy17033 36 PRFSSRAESNLFRSWNAHLVNMTLVP 61 (148)
Q Consensus 36 P~fET~AE~r~~r~~GaDvVGMStvP 61 (148)
|---||.|+.....+|+|+|-. .|
T Consensus 113 PG~~TptEi~~a~~~Ga~~vKl--FP 136 (212)
T PRK05718 113 PGVSTPSELMLGMELGLRTFKF--FP 136 (212)
T ss_pred CCCCCHHHHHHHHHCCCCEEEE--cc
Confidence 3345777777777777777766 55
No 244
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=27.72 E-value=2.8e+02 Score=21.27 Aligned_cols=72 Identities=14% Similarity=0.035 Sum_probs=42.3
Q ss_pred CCcccCHHHHHHHHHHHHHh---CCceecceEEEEeCCCCCCCHHHHHH---HHHcCCCeeecc-cc----hHH-HHHHH
Q psy17033 1 MEPAFDNSTRQIIIDSLKEL---GFKFHDKGTAVCIEGPRFSSRAESNL---FRSWNAHLVNMT-LV----PEV-VLAKE 68 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~---gi~~~~~GvY~~~~GP~fET~AE~r~---~r~~GaDvVGMS-tv----PEv-ilAre 68 (148)
+.++|...+.+-+.+.++++ |+.+. +.++ .+. ....-+.+. +...+.|.|=.. +. ++. ..+++
T Consensus 9 ~~~~~~~~~~~~i~~~~~~~~~~g~~~~---l~i~-~~~-~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~l~~~~~ 83 (272)
T cd06300 9 AGNTWRAQMLDEFKAQAKELKKAGLISE---FIVT-SAD-GDVAQQIADIRNLIAQGVDAIIINPASPTALNPVIEEACE 83 (272)
T ss_pred cCChHHHHHHHHHHHHHHhhhccCCeeE---EEEe-cCC-CCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHHHHHHHH
Confidence 35788999999999999988 65332 1222 221 122223233 334577765543 22 333 46778
Q ss_pred cCCceeEEE
Q psy17033 69 AGLLYAAVA 77 (148)
Q Consensus 69 ~Gm~~~~is 77 (148)
.|++++.+-
T Consensus 84 ~~iPvv~~~ 92 (272)
T cd06300 84 AGIPVVSFD 92 (272)
T ss_pred CCCeEEEEe
Confidence 899998875
No 245
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=27.71 E-value=1.7e+02 Score=25.20 Aligned_cols=34 Identities=18% Similarity=0.071 Sum_probs=29.7
Q ss_pred cceEEEEeCCCCCCCHHHHHHHHHcCCCeeeccc
Q psy17033 26 DKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTL 59 (148)
Q Consensus 26 ~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMSt 59 (148)
..|..+.+.|+.++.+.=.+++...|+.+|+.-+
T Consensus 227 ~~~~ril~tG~~~~~~~i~~~iE~~G~~VV~~e~ 260 (377)
T TIGR03190 227 KTGARFMTIGSENDDIAFMAMVESVGATIVIDDQ 260 (377)
T ss_pred CCCeEEEEECCCCCcHHHHHHHHHCCCEEEEECC
Confidence 4788999999988888777999999999998875
No 246
>PRK13209 L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=27.65 E-value=3.2e+02 Score=21.78 Aligned_cols=12 Identities=17% Similarity=0.265 Sum_probs=6.4
Q ss_pred HHHcCCceeEEE
Q psy17033 66 AKEAGLLYAAVA 77 (148)
Q Consensus 66 Are~Gm~~~~is 77 (148)
+++.|+.+.+++
T Consensus 66 l~~~gl~i~~~~ 77 (283)
T PRK13209 66 LVETGFRVNSMC 77 (283)
T ss_pred HHHcCCceeEEe
Confidence 445556555554
No 247
>cd02639 R3H_RRM R3H domain of mainly fungal proteins which are associated with a RNA recognition motif (RRM) domain. Present in this group is the RNA-binding post-transcriptional regulator Cip2 (Csx1-interacting protein 2) involved in counteracting Csx1 function. Csx1 plays a central role in controlling gene expression during oxidative stress. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=27.55 E-value=85 Score=20.35 Aligned_cols=27 Identities=22% Similarity=0.369 Sum_probs=22.0
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceE
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGT 29 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~Gv 29 (148)
.-+++.-|+.+...|..+|+.....|.
T Consensus 24 ~~ls~~eRriih~la~~lGL~~~s~G~ 50 (60)
T cd02639 24 SSLSPAERRIVHLLASRLGLNHVSDGT 50 (60)
T ss_pred CCCCHHHHHHHHHHHHHcCCceEEeCC
Confidence 448899999999999999997654443
No 248
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=27.40 E-value=57 Score=26.79 Aligned_cols=24 Identities=8% Similarity=0.205 Sum_probs=22.0
Q ss_pred CcccCHHHHHHHHHHHHHhCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFH 25 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~ 25 (148)
++||-.++.+.+.++|+++|+++.
T Consensus 73 THPfA~~is~~a~~ac~~~~ipyi 96 (248)
T PRK08057 73 THPYAAQISANAAAACRALGIPYL 96 (248)
T ss_pred CCccHHHHHHHHHHHHHHhCCcEE
Confidence 689999999999999999999853
No 249
>cd08573 GDPD_GDE1 Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE1 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE1 (also known as MIR16, membrane interacting protein of RGS16) and their metazoan homologs. GDE1 is widely expressed in mammalian tissues, including the heart, brain, liver, and kidney. It shows sequence homology to bacterial glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46), which catalyzes the hydrolysis of various glycerophosphodiesters, and produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. GDE1 has been characterized as GPI-GDE (EC 3.1.4.44) that selectively hydrolyzes extracellular glycerophosphoinositol (GPI) to generate glycerol phosphate and inositol. It functions as an integral membrane-bound glycoprotein interacting with regulator of G protein signaling protein RGS16, and is modulated by G
Probab=27.26 E-value=1.1e+02 Score=24.66 Aligned_cols=20 Identities=20% Similarity=0.224 Sum_probs=10.9
Q ss_pred CCHHHHHHHHHcCCCeeecc
Q psy17033 39 SSRAESNLFRSWNAHLVNMT 58 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGMS 58 (148)
-|+.-++.++..|-.+.--|
T Consensus 216 ~~~~~v~~~~~~G~~v~vWT 235 (258)
T cd08573 216 ISSAYVRYWRARGIRVIAWT 235 (258)
T ss_pred cCHHHHHHHHHCCCEEEEEe
Confidence 35566666666665444433
No 250
>PRK07476 eutB threonine dehydratase; Provisional
Probab=27.03 E-value=1.3e+02 Score=25.04 Aligned_cols=36 Identities=14% Similarity=0.258 Sum_probs=25.2
Q ss_pred HHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeec
Q psy17033 15 DSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNM 57 (148)
Q Consensus 15 ~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGM 57 (148)
-+|+.+|++++ +|+ |..-.+.-++++|.+||+++=.
T Consensus 84 ~~a~~~G~~~~---i~v----p~~~~~~k~~~~~~~GA~V~~~ 119 (322)
T PRK07476 84 YAARALGIRAT---ICM----SRLVPANKVDAIRALGAEVRIV 119 (322)
T ss_pred HHHHHhCCCEE---EEe----CCCCCHHHHHHHHHcCCEEEEE
Confidence 34556676654 333 7767778888999999998643
No 251
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=27.00 E-value=89 Score=23.14 Aligned_cols=33 Identities=15% Similarity=-0.032 Sum_probs=23.4
Q ss_pred ceEEEEeCCCCCCCHHHHHHHHHcCCCeeeccc
Q psy17033 27 KGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTL 59 (148)
Q Consensus 27 ~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMSt 59 (148)
.|.-+..-|++-+...=.+.....++|+|++|.
T Consensus 30 ~G~eVi~LG~~vp~e~i~~~a~~~~~d~V~lS~ 62 (137)
T PRK02261 30 AGFEVINLGVMTSQEEFIDAAIETDADAILVSS 62 (137)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHcCCCEEEEcC
Confidence 555566667776666556677788888888885
No 252
>cd05008 SIS_GlmS_GlmD_1 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=26.99 E-value=59 Score=22.57 Aligned_cols=45 Identities=27% Similarity=0.248 Sum_probs=33.0
Q ss_pred ceEEEEe--CCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCC
Q psy17033 27 KGTAVCI--EGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGL 71 (148)
Q Consensus 27 ~GvY~~~--~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm 71 (148)
+-+.+.+ +|=.-|+..=.+..|..|+.+|++|.-|+--+|+.+..
T Consensus 47 ~d~~I~iS~sG~t~e~~~~~~~a~~~g~~vi~iT~~~~s~la~~ad~ 93 (126)
T cd05008 47 DTLVIAISQSGETADTLAALRLAKEKGAKTVAITNVVGSTLAREADY 93 (126)
T ss_pred CcEEEEEeCCcCCHHHHHHHHHHHHcCCeEEEEECCCCChHHHhCCE
Confidence 3344444 45555666667788889999999999999999987764
No 253
>TIGR01418 PEP_synth phosphoenolpyruvate synthase. Also called pyruvate,water dikinase and PEP synthase. The member from Methanococcus jannaschii contains a large intein. This enzyme generates phosphoenolpyruvate (PEP) from pyruvate, hydrolyzing ATP to AMP and releasing inorganic phosphate in the process. The enzyme shows extensive homology to other enzymes that use PEP as substrate or product. This enzyme may provide PEP for gluconeogenesis, for PTS-type carbohydrate transport systems, or for other processes.
Probab=26.72 E-value=1.4e+02 Score=28.53 Aligned_cols=53 Identities=13% Similarity=0.113 Sum_probs=36.0
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCC-CHHHHHHHHHcCCCeeeccc
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFS-SRAESNLFRSWNAHLVNMTL 59 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fE-T~AE~r~~r~~GaDvVGMSt 59 (148)
++++|.+.+.+..+++.. +..|+-+++-|-.-. .|..+..+..+|.+.+.|+.
T Consensus 714 ~~~hPaV~~~i~~vi~~a----~~~g~~vgicge~~~~~p~~~~~l~~~G~~~ls~~~ 767 (782)
T TIGR01418 714 DERNPAVLRLIEMAIKAA----KEHGKKVGICGQAPSDYPEVVEFLVEEGIDSISLNP 767 (782)
T ss_pred CCCCHHHHHHHHHHHHHH----HhcCCeEEEeCCCCCCCHHHHHHHHHcCCCEEEECc
Confidence 567788888877765543 124445555554333 67889999999999888763
No 254
>cd08612 GDPD_GDE4 Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE4 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE4 (also known as glycerophosphodiester phosphodiesterase domain-containing protein 1 (GDPD1)) and similar proteins. Mammalian GDE4 is a transmembrane protein whose cellular function has not yet been elucidated. It is expressed widely, including in placenta, liver, kidney, pancreas, spleen, thymus, ovary, small intestine and peripheral blood leukocytes. It is also expressed in the growth cones in neuroblastoma Neuro2a cells, which suggests GDE4 may play some distinct role from other members of the GDE family.
Probab=26.46 E-value=1.1e+02 Score=25.34 Aligned_cols=43 Identities=16% Similarity=0.093 Sum_probs=25.6
Q ss_pred HHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHH
Q psy17033 11 QIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEV 63 (148)
Q Consensus 11 ~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEv 63 (148)
..+.+.+++.|+.++ +| + -.++++.+.+..+|+|.|= |-.|+.
T Consensus 251 ~~~v~~~~~~G~~v~---vW--T----VNd~~~~~~l~~~GVdgIi-TD~P~~ 293 (300)
T cd08612 251 PSLFRHLQKRGIQVY---GW--V----LNDEEEFERAFELGADGVM-TDYPTK 293 (300)
T ss_pred HHHHHHHHHCCCEEE---Ee--e----cCCHHHHHHHHhcCCCEEE-eCCHHH
Confidence 344555666666543 33 2 2356777777778877763 556664
No 255
>cd00956 Transaldolase_FSA Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea, which are member of the MipB/TalC subfamily of class I aldolases. FSA catalyze an aldol cleavage of fructose 6-phosphate and do not utilize fructose, fructose 1-phosphate, fructose 1,6-phosphate, or dihydroxyacetone phosphate. The enzymes belong to the transaldolase family that serves in transfer reactions in the pentose phosphate cycle, and are more distantly related to fructose 1,6-bisphosphate aldolase.
Probab=26.29 E-value=1.6e+02 Score=23.31 Aligned_cols=27 Identities=7% Similarity=-0.081 Sum_probs=21.9
Q ss_pred EEeCCCCCCCHHHHHHHHHcCCCeeec
Q psy17033 31 VCIEGPRFSSRAESNLFRSWNAHLVNM 57 (148)
Q Consensus 31 ~~~~GP~fET~AE~r~~r~~GaDvVGM 57 (148)
.-+-.|+|-|+.|+.-.-..|+|.|-+
T Consensus 158 tkil~As~r~~~ei~~a~~~Gad~vTv 184 (211)
T cd00956 158 TKILAASIRNPQHVIEAALAGADAITL 184 (211)
T ss_pred ceEEecccCCHHHHHHHHHcCCCEEEe
Confidence 445678899999999888899998854
No 256
>PRK00962 hypothetical protein; Provisional
Probab=26.26 E-value=1.7e+02 Score=22.95 Aligned_cols=49 Identities=27% Similarity=0.424 Sum_probs=35.6
Q ss_pred cCCceeEEEeeecccccc--CC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Q psy17033 69 AGLLYAAVAMATDYDCWR--DT--GNKVCVADVLKTFKENVEKITKLFVHIVP 117 (148)
Q Consensus 69 ~Gm~~~~is~VTN~a~~~--~~--~~~v~~eeVl~~~~~~~~~~~~ll~~~i~ 117 (148)
+|+-.-|||++||...-. ++ ..-++.+++++.-+...++.-+++..++.
T Consensus 107 AGiGrG~i~i~~~~~~~~~tsdv~adl~~~~~i~~Rq~~gi~~~~~~~~~~l~ 159 (165)
T PRK00962 107 AGIGRGAICIVTDKNEYLFTSDVYADLITAENILKRQKNGIEKALKKFLEILK 159 (165)
T ss_pred cccCCceEEEEeCCceEEEecceeeccccHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 699999999999985422 11 12377888998888888877777766654
No 257
>PF14106 DUF4279: Domain of unknown function (DUF4279)
Probab=26.24 E-value=2.3e+02 Score=19.62 Aligned_cols=45 Identities=18% Similarity=0.203 Sum_probs=29.1
Q ss_pred HHHHHHHHHHhCCceecceEEEEeCCCCCC----CHHHHHHHHHcCCCe
Q psy17033 10 RQIIIDSLKELGFKFHDKGTAVCIEGPRFS----SRAESNLFRSWNAHL 54 (148)
Q Consensus 10 r~~~~~~a~~~gi~~~~~GvY~~~~GP~fE----T~AE~r~~r~~GaDv 54 (148)
++.+.+..++.++.+.--+++....|+.+. .+.=++++..+|+++
T Consensus 68 ~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~i~~l~~lg~ei 116 (118)
T PF14106_consen 68 REIIKELKEKYNLEIQFFCYFSSISGGGFPAIYLSPEIIKFLAALGAEI 116 (118)
T ss_pred HHHHHHHHHhcCcceEEEEEEEecCCCCCcccccCHHHHHHHHhhCCEE
Confidence 344555566667763224566667788887 355566888899875
No 258
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=26.17 E-value=1.5e+02 Score=24.75 Aligned_cols=72 Identities=10% Similarity=0.041 Sum_probs=50.3
Q ss_pred HHHHHHHHHHHHHhCCce--e------cceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccch-HH-HHHHHcCCceeEE
Q psy17033 7 NSTRQIIIDSLKELGFKF--H------DKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVP-EV-VLAKEAGLLYAAV 76 (148)
Q Consensus 7 ~~Lr~~~~~~a~~~gi~~--~------~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvP-Ev-ilAre~Gm~~~~i 76 (148)
.+|++.+.+.++++++.+ + +=+|++.=.|.+|+.-.+..--..++++++..=+=+ .+ .+|++.|+++.-+
T Consensus 64 ~~L~~~L~~l~~~l~l~i~l~~~~~~~ri~vl~Sg~gsnl~al~~~~~~~~~~~~i~~visn~~~~~~lA~~~gIp~~~~ 143 (286)
T PRK06027 64 ETLRADFAALAEEFEMDWRLLDSAERKRVVILVSKEDHCLGDLLWRWRSGELPVEIAAVISNHDDLRSLVERFGIPFHHV 143 (286)
T ss_pred HHHHHHHHHHHHHhCCEEEEcccccCcEEEEEEcCCCCCHHHHHHHHHcCCCCcEEEEEEEcChhHHHHHHHhCCCEEEe
Confidence 579999999999988742 1 135666667788887776555556789988863322 21 2499999999876
Q ss_pred Ee
Q psy17033 77 AM 78 (148)
Q Consensus 77 s~ 78 (148)
..
T Consensus 144 ~~ 145 (286)
T PRK06027 144 PV 145 (286)
T ss_pred cc
Confidence 54
No 259
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=26.11 E-value=1.3e+02 Score=24.76 Aligned_cols=68 Identities=15% Similarity=0.104 Sum_probs=46.5
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecc-cch-HHHH----HHHcCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMT-LVP-EVVL----AKEAGLL 72 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMS-tvP-Evil----Are~Gm~ 72 (148)
..+|...+.+.+++.+++.|+.+. .-.++-...+.|. +.++.++..|+|+|=.. ..+ +.+. +++.|+.
T Consensus 147 d~~~g~~~~~~~~~~l~~~G~~vv-~~~~~~~~~~D~s--~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~ 220 (347)
T cd06336 147 NDAYGQPWVAAYKAAWEAAGGKVV-SEEPYDPGTTDFS--PIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFK 220 (347)
T ss_pred CCchhHHHHHHHHHHHHHcCCEEe-eecccCCCCcchH--HHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCC
Confidence 357888999999999999998876 3334444456664 45667778899988654 334 3332 5667776
No 260
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=26.08 E-value=3e+02 Score=20.95 Aligned_cols=71 Identities=10% Similarity=0.007 Sum_probs=43.1
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH---HHHHHHcCCCeeecccc--hHH-HHHHHcCCceeE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE---SNLFRSWNAHLVNMTLV--PEV-VLAKEAGLLYAA 75 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~GaDvVGMStv--PEv-ilAre~Gm~~~~ 75 (148)
+++|...+.+-+.+.+++.|+.+. ++ . +......| .+.+...++|.|=+... +.. ....+.|++++.
T Consensus 11 ~~~~~~~~~~~i~~~~~~~g~~~~---~~--~--~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~~~~~~ipvv~ 83 (269)
T cd06288 11 TTPFAVEIILGAQDAAREHGYLLL---VV--N--TGGDDELEAEAVEALLDHRVDGIIYATMYHREVTLPPELLSVPTVL 83 (269)
T ss_pred CCccHHHHHHHHHHHHHHCCCEEE---EE--e--CCCCHHHHHHHHHHHHHcCCCEEEEecCCCChhHHHHHhcCCCEEE
Confidence 578999999999999999887643 11 1 11121222 23456677886555443 222 234556888887
Q ss_pred EEee
Q psy17033 76 VAMA 79 (148)
Q Consensus 76 is~V 79 (148)
+...
T Consensus 84 ~~~~ 87 (269)
T cd06288 84 LNCY 87 (269)
T ss_pred Eecc
Confidence 7543
No 261
>TIGR00339 sopT ATP sulphurylase. Members of this family also include the dissimilatory sulfate adenylyltransferase (sat) of the sulfate reducer Archaeoglobus fulgidus.
Probab=26.07 E-value=1.5e+02 Score=26.05 Aligned_cols=34 Identities=21% Similarity=0.176 Sum_probs=25.9
Q ss_pred ceEEEEeCCCC-------CCCHHHHH-HHHHcCC-Ceeecccc
Q psy17033 27 KGTAVCIEGPR-------FSSRAESN-LFRSWNA-HLVNMTLV 60 (148)
Q Consensus 27 ~GvY~~~~GP~-------fET~AE~r-~~r~~Ga-DvVGMStv 60 (148)
.|-+-.+.=|. +-||+|+| .|+..|+ .|||+.|-
T Consensus 150 ~G~i~~l~~~~~~~f~~~r~tP~e~r~~f~~~gw~~Vvafqt~ 192 (383)
T TIGR00339 150 GGPIEVINLPKFYDFPRFRFTPAELREEFKERGWDTVVAFQTR 192 (383)
T ss_pred EeEEEEeecCCCCCchhhcCCHHHHHHHHHHcCCCeEEEeccC
Confidence 56666666566 67999997 6778888 78898875
No 262
>TIGR02715 amido_AtzE amidohydrolase, AtzE family. Members of this protein family are aminohydrolases related to, but distinct from, glutamyl-tRNA(Gln) amidotransferase subunit A. The best characterized member is the biuret hydrolase of Pseudomonas sp. ADP, which hydrolyzes ammonia from the three-nitrogen compound biuret to yield allophanate. Allophanate is also an intermediate in urea degradation by the urea carboxylase/allophanate hydrolase pathway, an alternative to urease.
Probab=25.96 E-value=45 Score=29.30 Aligned_cols=26 Identities=15% Similarity=0.038 Sum_probs=22.7
Q ss_pred CHHHHHHHHHcCCCeeecccchHHHH
Q psy17033 40 SRAESNLFRSWNAHLVNMTLVPEVVL 65 (148)
Q Consensus 40 T~AE~r~~r~~GaDvVGMStvPEvil 65 (148)
+..=++.||..||-++|-|++||--.
T Consensus 99 dA~vV~rL~~AGAii~GkTn~~Ef~~ 124 (452)
T TIGR02715 99 DATLVQRLSAAGAVLVGALNMDEFAY 124 (452)
T ss_pred CHHHHHHHHHCCCEEEEeccCHhhhc
Confidence 44568999999999999999999764
No 263
>cd00959 DeoC 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family. DERA belongs to the class I aldolases and catalyzes a reversible aldol reaction between acetaldehyde and glyceraldehyde 3-phosphate to generate 2-deoxyribose 5-phosphate. DERA is unique in catalyzing the aldol reaction between two aldehydes, and its broad substrate specificity confers considerable utility as a biocatalyst, offering an environmentally benign alternative to chiral transition metal catalysis of the asymmetric aldol reaction.
Probab=25.78 E-value=53 Score=25.62 Aligned_cols=20 Identities=15% Similarity=0.132 Sum_probs=12.9
Q ss_pred cCHHHHHHHHHHHHHhCCce
Q psy17033 5 FDNSTRQIIIDSLKELGFKF 24 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~~gi~~ 24 (148)
.+++....+-++|.++|..+
T Consensus 128 l~~~~i~~a~ria~e~GaD~ 147 (203)
T cd00959 128 LTDEEIIKACEIAIEAGADF 147 (203)
T ss_pred CCHHHHHHHHHHHHHhCCCE
Confidence 34566666777777777654
No 264
>PRK07486 amidase; Provisional
Probab=25.71 E-value=47 Score=29.47 Aligned_cols=26 Identities=19% Similarity=0.144 Sum_probs=22.9
Q ss_pred CCHHHHHHHHHcCCCeeecccchHHH
Q psy17033 39 SSRAESNLFRSWNAHLVNMTLVPEVV 64 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGMStvPEvi 64 (148)
++..=++.+|..|+-++|.|++||--
T Consensus 110 ~dA~vV~rLr~AGaii~GKTn~~Efa 135 (484)
T PRK07486 110 EDAIVVERMRAAGAIFIGKTNTPEFG 135 (484)
T ss_pred CcHHHHHHHHHCCCeeEEecCchHHh
Confidence 35567899999999999999999976
No 265
>COG1830 FbaB DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]
Probab=25.68 E-value=2e+02 Score=24.29 Aligned_cols=47 Identities=23% Similarity=0.355 Sum_probs=31.4
Q ss_pred HHHHHHHhCCceecceEEEEeCCCCC----CCHHHHH-----HHHHcCCCeee--cccchH
Q psy17033 13 IIDSLKELGFKFHDKGTAVCIEGPRF----SSRAESN-----LFRSWNAHLVN--MTLVPE 62 (148)
Q Consensus 13 ~~~~a~~~gi~~~~~GvY~~~~GP~f----ET~AE~r-----~~r~~GaDvVG--MStvPE 62 (148)
+.+.|.++|+++. ..++-.||.+ ..-++.- .-..+|||+|= .+.-||
T Consensus 135 v~~~a~~~Gmp~v---~~~YpRg~~~~~~~~~d~~~v~~aaRlaaelGADIiK~~ytg~~e 192 (265)
T COG1830 135 VVEDAHELGMPLV---AWAYPRGPAIKDEYHRDADLVGYAARLAAELGADIIKTKYTGDPE 192 (265)
T ss_pred HHHHHHHcCCceE---EEEeccCCcccccccccHHHHHHHHHHHHHhcCCeEeecCCCChH
Confidence 3445777899876 6788899999 4444433 34469999974 555444
No 266
>PRK04149 sat sulfate adenylyltransferase; Reviewed
Probab=25.64 E-value=1.5e+02 Score=26.14 Aligned_cols=75 Identities=9% Similarity=0.082 Sum_probs=42.7
Q ss_pred ceEEEEeCCCCCC-------CHHHHH-HHHHcCC-Ceeeccc------chHHHHHHHcCCceeEEEeeeccccccCCCCC
Q psy17033 27 KGTAVCIEGPRFS-------SRAESN-LFRSWNA-HLVNMTL------VPEVVLAKEAGLLYAAVAMATDYDCWRDTGNK 91 (148)
Q Consensus 27 ~GvY~~~~GP~fE-------T~AE~r-~~r~~Ga-DvVGMSt------vPEvilAre~Gm~~~~is~VTN~a~~~~~~~~ 91 (148)
.|-+-.+.=|.+. ||+|+| .|+..|+ .|||+.| .+|-+.-+-+.. +. .++-|.-.|......
T Consensus 153 gG~i~~l~~~~~~~f~~~r~tP~e~r~~f~~~gw~~VvafqTrnP~HraHe~l~~~a~e~--~d-~lll~plvG~~k~~d 229 (391)
T PRK04149 153 AGPVTLLNRKFHEPFPRFWLTPAETRELFEEKGWKTVVAFQTRNPPHRAHEYLQKCALEI--VD-GLLLNPLVGETKSGD 229 (391)
T ss_pred EeEEEEeecCCCCCchhhcCCHHHHHHHHHHcCCCeEEEeecCCCCchHHHHHHHHHHHh--cC-eEEEecCcCCCCCCC
Confidence 5666566555566 999998 6677777 7888755 567644333222 12 334444344432345
Q ss_pred CCHHHHHHHHHHH
Q psy17033 92 VCVADVLKTFKEN 104 (148)
Q Consensus 92 v~~eeVl~~~~~~ 104 (148)
+.++-.+++.+.-
T Consensus 230 i~~~~r~~~~~~~ 242 (391)
T PRK04149 230 IPAEVRMEAYEAL 242 (391)
T ss_pred CCHHHHHHHHHHH
Confidence 7776655554433
No 267
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=25.63 E-value=1.8e+02 Score=24.64 Aligned_cols=68 Identities=16% Similarity=0.102 Sum_probs=42.6
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccch-HHH----HHHHcCCce
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVP-EVV----LAKEAGLLY 73 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvP-Evi----lAre~Gm~~ 73 (148)
.+|...+.+.+.+.+++.|+++..+- ++-.....| .+.+.-++..|+|+|-+.... +.+ -+++.|+..
T Consensus 143 ~~~g~~~~~~~~~~~~~~G~~vv~~~-~~~~g~~Df--~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~ 215 (374)
T TIGR03669 143 YNFGQLSADWVRVIAKENGAEVVGEE-FIPLSVSQF--SSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNL 215 (374)
T ss_pred cHHHHHHHHHHHHHHHHcCCeEEeEE-ecCCCcchH--HHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCC
Confidence 45667777888888888888876222 222222334 346778888889988765432 322 367778763
No 268
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=25.61 E-value=92 Score=26.19 Aligned_cols=47 Identities=19% Similarity=0.347 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCC
Q psy17033 7 NSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAH 53 (148)
Q Consensus 7 ~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaD 53 (148)
......++..|.+.|+.+...|.|-...|=..+++.|-..|+.+|-+
T Consensus 254 ~~~nr~lR~~A~~~G~~L~~~GL~~~~~~~~~~~~~E~~If~~Lgl~ 300 (307)
T cd00141 254 KQFNRALRRLAKEKGLKLNEYGLFDGVDGERLPGETEEEIFEALGLP 300 (307)
T ss_pred HHHHHHHHHHHHHcCCeeeccccccCCCCCCccCCCHHHHHHHcCCC
Confidence 33445557778889999887788765556666677788888888754
No 269
>cd08580 GDPD_Rv2277c_like Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in uncharacterized bacterial protein Rv2277c and similar proteins. Members in this subfamily are bacterial homologous of mammalian GDE4, a transmembrane protein whose cellular function has not yet been elucidated.
Probab=25.60 E-value=1.4e+02 Score=24.61 Aligned_cols=36 Identities=14% Similarity=0.124 Sum_probs=21.5
Q ss_pred HHHHHHHHHh-CCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 11 QIIIDSLKEL-GFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 11 ~~~~~~a~~~-gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
..+.+.+++. |+.++ +|.. -++.+.+.+..+|+|-|
T Consensus 219 ~~~V~~~h~~~gl~V~---~WTV------N~~~~~~~l~~~GVDgI 255 (263)
T cd08580 219 PAAVDCFRRNSKVKIV---LFGI------NTADDYRLAKCLGADAV 255 (263)
T ss_pred HHHHHHHHhcCCcEEE---EEEe------CCHHHHHHHHHcCCCEE
Confidence 3445556666 66655 3433 45667777777777755
No 270
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=25.49 E-value=1.1e+02 Score=21.36 Aligned_cols=34 Identities=12% Similarity=0.069 Sum_probs=22.6
Q ss_pred ceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccc
Q psy17033 27 KGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLV 60 (148)
Q Consensus 27 ~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStv 60 (148)
.|--+...|++.+...=.+...+..+|+||+|..
T Consensus 26 ~G~~V~~lg~~~~~~~l~~~~~~~~pdvV~iS~~ 59 (119)
T cd02067 26 AGFEVIDLGVDVPPEEIVEAAKEEDADAIGLSGL 59 (119)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHcCCCEEEEecc
Confidence 3444455566655443446788889999999876
No 271
>PRK07235 amidase; Provisional
Probab=25.48 E-value=44 Score=30.01 Aligned_cols=29 Identities=14% Similarity=0.232 Sum_probs=23.3
Q ss_pred CCCCCHHHHHHHHHcCCCeeecccchHHHH
Q psy17033 36 PRFSSRAESNLFRSWNAHLVNMTLVPEVVL 65 (148)
Q Consensus 36 P~fET~AE~r~~r~~GaDvVGMStvPEvil 65 (148)
|.+. ..=++.+|..||-++|.|++||--.
T Consensus 118 p~~D-A~vV~rL~~AGAii~GKTn~~Ef~~ 146 (502)
T PRK07235 118 PSFD-ATVVTRLLDAGATIVGKATCEDLCF 146 (502)
T ss_pred CCCC-HHHHHHHHHCCCEEEEEecchhhhc
Confidence 4443 4468999999999999999999643
No 272
>smart00292 BRCT breast cancer carboxy-terminal domain.
Probab=25.27 E-value=1.3e+02 Score=18.05 Aligned_cols=30 Identities=23% Similarity=0.347 Sum_probs=20.8
Q ss_pred ceEEEEeCC-CCCCCHHHH-HHHHHcCCCeee
Q psy17033 27 KGTAVCIEG-PRFSSRAES-NLFRSWNAHLVN 56 (148)
Q Consensus 27 ~GvY~~~~G-P~fET~AE~-r~~r~~GaDvVG 56 (148)
+|..+++.| +.-+.+.+. ++++..|+.++-
T Consensus 4 ~g~~~~~~g~~~~~~~~~l~~~i~~~Gg~~~~ 35 (80)
T smart00292 4 KGKVFVITGKFDKNERDELKELIEALGGKVTS 35 (80)
T ss_pred CCeEEEEeCCCCCccHHHHHHHHHHcCCEEec
Confidence 577777888 555555554 478889987763
No 273
>COG0069 GltB Glutamate synthase domain 2 [Amino acid transport and metabolism]
Probab=25.27 E-value=2.3e+02 Score=25.89 Aligned_cols=51 Identities=16% Similarity=0.159 Sum_probs=41.0
Q ss_pred HHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHH
Q psy17033 12 IIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLA 66 (148)
Q Consensus 12 ~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilA 66 (148)
...+...+.|++ ..+-+.+.| .+.|.+.+-..-.+|||.||..|.|=+.+-
T Consensus 361 e~~q~L~~~glR---d~v~l~~~G-gl~Tg~DVaka~aLGAd~v~~gTa~lia~G 411 (485)
T COG0069 361 ETHQTLVLNGLR---DKVKLIADG-GLRTGADVAKAAALGADAVGFGTAALVALG 411 (485)
T ss_pred HHHHHHHHcCCc---ceeEEEecC-CccCHHHHHHHHHhCcchhhhchHHHHHhh
Confidence 345566666764 567777777 699999999999999999999999988763
No 274
>PRK00507 deoxyribose-phosphate aldolase; Provisional
Probab=25.23 E-value=72 Score=25.71 Aligned_cols=27 Identities=4% Similarity=-0.028 Sum_probs=19.8
Q ss_pred CCCHHHHHHHHHcCCCeeecccchHHH
Q psy17033 38 FSSRAESNLFRSWNAHLVNMTLVPEVV 64 (148)
Q Consensus 38 fET~AE~r~~r~~GaDvVGMStvPEvi 64 (148)
-.|.++..-|-..|||.+|+|...+.+
T Consensus 188 Irt~~~a~~~i~aGA~riGtS~~~~i~ 214 (221)
T PRK00507 188 IRTLEDALAMIEAGATRLGTSAGVAIL 214 (221)
T ss_pred cCCHHHHHHHHHcCcceEccCcHHHHH
Confidence 356777777777788888888777765
No 275
>TIGR00510 lipA lipoate synthase. The family shows strong sequence conservation.
Probab=25.19 E-value=1.9e+02 Score=24.48 Aligned_cols=55 Identities=15% Similarity=0.209 Sum_probs=36.2
Q ss_pred cccCHHHHHHHHHHHHHh--CCceecceEEEEeCCCCCCCHHHH-HHHHHcCCCeeeccc
Q psy17033 3 PAFDNSTRQIIIDSLKEL--GFKFHDKGTAVCIEGPRFSSRAES-NLFRSWNAHLVNMTL 59 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~--gi~~~~~GvY~~~~GP~fET~AE~-r~~r~~GaDvVGMSt 59 (148)
..|+.+-+-.+.+.+++. |+.+. .|.-+.+ |=..|-..|. +++|.+|.|.+....
T Consensus 186 r~~t~e~~Le~l~~ak~~~pgi~~~-TgiIVGl-GETeee~~etl~~Lrelg~d~v~igq 243 (302)
T TIGR00510 186 PGATYRWSLKLLERAKEYLPNLPTK-SGIMVGL-GETNEEIKQTLKDLRDHGVTMVTLGQ 243 (302)
T ss_pred CCCCHHHHHHHHHHHHHhCCCCeec-ceEEEEC-CCCHHHHHHHHHHHHhcCCCEEEeec
Confidence 445666666677777777 77776 6777777 6433333332 478889999887654
No 276
>cd06811 PLPDE_III_yhfX_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX. This subfamily is composed of the uncharacterized protein yhfX from Escherichia coli K-12 and similar bacterial proteins. These proteins are homologous to bacterial alanine racemases (AR), which are fold type III PLP-dependent enzymes containing an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. It catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. Members of this subfamily may act as PLP-dependent enzymes.
Probab=25.12 E-value=2.8e+02 Score=23.92 Aligned_cols=33 Identities=15% Similarity=-0.082 Sum_probs=29.8
Q ss_pred HHHHHHHHHcCCCeeecccchHHHHHHHcCCce
Q psy17033 41 RAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLY 73 (148)
Q Consensus 41 ~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~ 73 (148)
+.=.+.+...|++-++..+.-|+..+|+.|+..
T Consensus 67 ~~ia~~l~~~G~~g~~vas~~Ea~~lr~aGi~~ 99 (382)
T cd06811 67 PFLARALLEAGIPGAVAVDFKEARALHEAGLPL 99 (382)
T ss_pred HHHHHHHHHcCCCeEeEecHHHHHHHHHcCCCH
Confidence 677788999999999999999999999999884
No 277
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=25.10 E-value=1.7e+02 Score=23.93 Aligned_cols=31 Identities=16% Similarity=0.087 Sum_probs=20.0
Q ss_pred HHHHcCCCe-eecccchHHHHHHHcCCceeEE
Q psy17033 46 LFRSWNAHL-VNMTLVPEVVLAKEAGLLYAAV 76 (148)
Q Consensus 46 ~~r~~GaDv-VGMStvPEvilAre~Gm~~~~i 76 (148)
..+.+|.++ |=..+..|+.-|.++|..++|+
T Consensus 155 ~a~~lGl~~lvevh~~~E~~~A~~~gadiIgi 186 (260)
T PRK00278 155 YAHSLGLDVLVEVHDEEELERALKLGAPLIGI 186 (260)
T ss_pred HHHHcCCeEEEEeCCHHHHHHHHHcCCCEEEE
Confidence 334455442 3344777888888888888875
No 278
>COG1246 ArgA N-acetylglutamate synthase and related acetyltransferases [Amino acid transport and metabolism]
Probab=24.83 E-value=1.7e+02 Score=22.66 Aligned_cols=48 Identities=21% Similarity=0.263 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHH
Q psy17033 7 NSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVL 65 (148)
Q Consensus 7 ~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvil 65 (148)
..|.+.+..-|+++|++ -+|+++. -+..+|..+|-.-|--+.+||-+-
T Consensus 84 ~~Ll~~~~~~Ar~~gi~----~lf~LTt-------~~~~~F~~~GF~~vd~~~LP~~~~ 131 (153)
T COG1246 84 ERLLERLLADARELGIK----ELFVLTT-------RSPEFFAERGFTRVDKDELPEEVW 131 (153)
T ss_pred HHHHHHHHHHHHHcCCc----eeeeeec-------ccHHHHHHcCCeECccccCCHHHH
Confidence 46778888889999985 4698875 356799999999999999998654
No 279
>PRK14447 acylphosphatase; Provisional
Probab=24.79 E-value=76 Score=22.11 Aligned_cols=28 Identities=25% Similarity=0.450 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHhCCc----eecce--EEEEeCCC
Q psy17033 9 TRQIIIDSLKELGFK----FHDKG--TAVCIEGP 36 (148)
Q Consensus 9 Lr~~~~~~a~~~gi~----~~~~G--vY~~~~GP 36 (148)
.|..+...|+++|+. -.+.| |++.++||
T Consensus 19 FR~~~~~~A~~~gl~G~V~N~~dG~~Vei~~qG~ 52 (95)
T PRK14447 19 FRQSMKEVANRNGVRGWVRNRSDGRTVEAVLEGP 52 (95)
T ss_pred chHHHHHHHhhcCeEEEEEECCCCCEEEEEEEeC
Confidence 577888999999984 23478 99999998
No 280
>PLN02428 lipoic acid synthase
Probab=24.78 E-value=1.9e+02 Score=25.16 Aligned_cols=43 Identities=16% Similarity=0.230 Sum_probs=29.5
Q ss_pred HHHHHHHh--CCceecceEEEEeCCCCCCCHHHHH----HHHHcCCCeeecccc
Q psy17033 13 IIDSLKEL--GFKFHDKGTAVCIEGPRFSSRAESN----LFRSWNAHLVNMTLV 60 (148)
Q Consensus 13 ~~~~a~~~--gi~~~~~GvY~~~~GP~fET~AE~r----~~r~~GaDvVGMStv 60 (148)
+.+.|++. |+.+. .|.-+.+ | ||..|+. +++.+|.|.+....+
T Consensus 236 ~L~~ak~~~pGi~tk-Sg~MvGL-G---ET~Edv~e~l~~Lrelgvd~vtigqy 284 (349)
T PLN02428 236 VLKHAKESKPGLLTK-TSIMLGL-G---ETDEEVVQTMEDLRAAGVDVVTFGQY 284 (349)
T ss_pred HHHHHHHhCCCCeEE-EeEEEec-C---CCHHHHHHHHHHHHHcCCCEEeeccc
Confidence 34456777 88765 4444555 6 8887764 778899999887554
No 281
>PRK07042 amidase; Provisional
Probab=24.66 E-value=50 Score=29.15 Aligned_cols=26 Identities=15% Similarity=0.195 Sum_probs=22.4
Q ss_pred CCHHHHHHHHHcCCCeeecccchHHH
Q psy17033 39 SSRAESNLFRSWNAHLVNMTLVPEVV 64 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGMStvPEvi 64 (148)
++..=++.+|..||-++|-|++||--
T Consensus 104 ~dA~vV~~Lr~aGAiilGKTn~~Efa 129 (464)
T PRK07042 104 ADAPPAARLREAGAVILAKTTMPDYG 129 (464)
T ss_pred cchHHHHHHHHCCCEEEEecCchHhh
Confidence 45556899999999999999999964
No 282
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=24.66 E-value=3.7e+02 Score=21.52 Aligned_cols=69 Identities=10% Similarity=0.066 Sum_probs=41.1
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH---HHHHHHcCCCeeecc-c---chHH-HHHHHcCCce
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE---SNLFRSWNAHLVNMT-L---VPEV-VLAKEAGLLY 73 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE---~r~~r~~GaDvVGMS-t---vPEv-ilAre~Gm~~ 73 (148)
.++|-.++.+-+.+.+++.|+.+. + +..+. ....| ++.+...+.|-|=.. . .++. ...++.|+++
T Consensus 71 ~~~~~~~~~~~i~~~~~~~gy~~~---i--~~~~~--~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPv 143 (327)
T TIGR02417 71 ENYSYARIAKELEQQCREAGYQLL---I--ACSDD--NPDQEKVVIENLLARQVDALIVASCMPPEDAYYQKLQNEGLPV 143 (327)
T ss_pred CCccHHHHHHHHHHHHHHCCCEEE---E--EeCCC--CHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHHHHHhcCCCE
Confidence 468888999999999999888754 2 22221 22223 334556677754322 2 2343 3456678888
Q ss_pred eEEE
Q psy17033 74 AAVA 77 (148)
Q Consensus 74 ~~is 77 (148)
+.+-
T Consensus 144 V~~~ 147 (327)
T TIGR02417 144 VALD 147 (327)
T ss_pred EEEc
Confidence 7664
No 283
>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=24.27 E-value=2.5e+02 Score=19.55 Aligned_cols=62 Identities=19% Similarity=0.064 Sum_probs=33.7
Q ss_pred HHHHHHhCCceecceEEEEeCCCCCCC-H-HHHHHHHHcCCC-----eeecccchHHHHHHHcCCceeEE
Q psy17033 14 IDSLKELGFKFHDKGTAVCIEGPRFSS-R-AESNLFRSWNAH-----LVNMTLVPEVVLAKEAGLLYAAV 76 (148)
Q Consensus 14 ~~~a~~~gi~~~~~GvY~~~~GP~fET-~-AE~r~~r~~GaD-----vVGMStvPEvilAre~Gm~~~~i 76 (148)
....+.+|+.-....++..-..+.... + .=.+.++.+|.+ .||=+. ..+..|+++||..+.|
T Consensus 108 ~~~l~~~~~~~~f~~i~~~~~~~~~Kp~~~~~~~~~~~~~~~p~~~~~vgD~~-~d~~~A~~~G~~~i~v 176 (176)
T PF13419_consen 108 ERVLERLGLDDYFDEIISSDDVGSRKPDPDAYRRALEKLGIPPEEILFVGDSP-SDVEAAKEAGIKTIWV 176 (176)
T ss_dssp HHHHHHTTHGGGCSEEEEGGGSSSSTTSHHHHHHHHHHHTSSGGGEEEEESSH-HHHHHHHHTTSEEEEE
T ss_pred cccccccccccccccccccchhhhhhhHHHHHHHHHHHcCCCcceEEEEeCCH-HHHHHHHHcCCeEEeC
Confidence 344444555422245554443333222 1 222344556655 677777 8888888888877654
No 284
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=24.18 E-value=1.7e+02 Score=23.77 Aligned_cols=67 Identities=12% Similarity=0.052 Sum_probs=45.8
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccch-HHH----HHHHcCCc
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVP-EVV----LAKEAGLL 72 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvP-Evi----lAre~Gm~ 72 (148)
++|...+.+.+.+.+++.|+++. .-++.-...+.| ...++-++..|+|+|=....+ +.. .+++.|+.
T Consensus 154 ~~~g~~~~~~~~~~~~~~G~~vv-~~~~~~~~~~d~--~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~ 225 (344)
T cd06345 154 AAWGKGIDAGIKALLPEAGLEVV-SVERFSPDTTDF--TPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVP 225 (344)
T ss_pred chhhhHHHHHHHHHHHHcCCeEE-EEEecCCCCCch--HHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCC
Confidence 57888899999999999998876 222222222444 466777888999988777665 332 36777864
No 285
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=24.18 E-value=3.3e+02 Score=20.84 Aligned_cols=72 Identities=15% Similarity=0.077 Sum_probs=44.0
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH-HHHHHHcCCCeeec-ccc---hH-----HHHHHHcCC
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE-SNLFRSWNAHLVNM-TLV---PE-----VVLAKEAGL 71 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE-~r~~r~~GaDvVGM-Stv---PE-----vilAre~Gm 71 (148)
.++|-..+.+-+.+.+++.|+.+. ++...-.-+...+ ++.+.+.+.|.+=. ++. +. ..-+...|+
T Consensus 10 ~~~~~~~~~~gi~~~~~~~g~~~~-----~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~i 84 (273)
T cd06292 10 SNPIFPAFAEAIEAALAQYGYTVL-----LCNTYRGGVSEADYVEDLLARGVRGVVFISSLHADTHADHSHYERLAERGL 84 (273)
T ss_pred cCchHHHHHHHHHHHHHHCCCEEE-----EEeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHHHhCCC
Confidence 578889999999999999887653 2222212222222 34566677785433 221 22 344667899
Q ss_pred ceeEEEe
Q psy17033 72 LYAAVAM 78 (148)
Q Consensus 72 ~~~~is~ 78 (148)
+++.+.-
T Consensus 85 pvV~i~~ 91 (273)
T cd06292 85 PVVLVNG 91 (273)
T ss_pred CEEEEcC
Confidence 9888754
No 286
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=24.17 E-value=2.9e+02 Score=20.15 Aligned_cols=77 Identities=10% Similarity=0.015 Sum_probs=42.0
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCC-eeecccchHH----HHHHHcCCceeEEE
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAH-LVNMTLVPEV----VLAKEAGLLYAAVA 77 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaD-vVGMStvPEv----ilAre~Gm~~~~is 77 (148)
.+|...+.+-+.+.+++.|..+. -++....+..-....-.+.+...|+| ++|....++. ..++..|++++.+.
T Consensus 12 ~~~~~~~~~~~~~~~~~~g~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~ 89 (269)
T cd01391 12 APFGAQLLAGIELAAEEIGRGLE--VILADSQSDPERALEALRDLIQQGVDGIIGPPSSSSALAVVELAAAAGIPVVSLD 89 (269)
T ss_pred cHHHHHHHHHHHHHHHHhCCceE--EEEecCCCCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHHHHHHHcCCcEEEec
Confidence 46777888888888888433222 12333333221111223344455777 5555555554 34566789888876
Q ss_pred eeec
Q psy17033 78 MATD 81 (148)
Q Consensus 78 ~VTN 81 (148)
...+
T Consensus 90 ~~~~ 93 (269)
T cd01391 90 ATAP 93 (269)
T ss_pred CCCC
Confidence 5543
No 287
>PRK07487 amidase; Provisional
Probab=24.03 E-value=52 Score=29.14 Aligned_cols=26 Identities=15% Similarity=0.166 Sum_probs=22.8
Q ss_pred CCHHHHHHHHHcCCCeeecccchHHH
Q psy17033 39 SSRAESNLFRSWNAHLVNMTLVPEVV 64 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGMStvPEvi 64 (148)
++..=++.+|..||-++|.|++||--
T Consensus 105 ~da~vV~rLr~aGAii~GKTn~~Efa 130 (469)
T PRK07487 105 ADSPVVDNLRKAGAVIIGRTNTPAFS 130 (469)
T ss_pred CchHHHHHHHHCCCEEEEecChhhhh
Confidence 45667999999999999999999963
No 288
>TIGR01859 fruc_bis_ald_ fructose-1,6-bisphosphate aldolase, class II, various bacterial and amitochondriate protist. This model represents of one of several subtypes of the class II fructose-1,6-bisphosphate aldolase, an enzyme of glycolysis. The subtypes are split into several models to allow separation of a family of tagatose bisphosphate aldolases. This form is found in Gram-positive bacteria, a variety of Gram-negative, and in amitochondriate protists. The class II enzymes share homology with tagatose bisphosphate aldolase but not with class I aldolase.
Probab=23.90 E-value=2.2e+02 Score=23.71 Aligned_cols=48 Identities=8% Similarity=0.173 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhCCceecceEEEEeCC---------CCCCCHHHHHHHHH-cCCCeeecc
Q psy17033 9 TRQIIIDSLKELGFKFHDKGTAVCIEG---------PRFSSRAESNLFRS-WNAHLVNMT 58 (148)
Q Consensus 9 Lr~~~~~~a~~~gi~~~~~GvY~~~~G---------P~fET~AE~r~~r~-~GaDvVGMS 58 (148)
+.+.+.+.++..|+.+. +=...+.| =.|-+|.|.+.|-. .|+|.++.|
T Consensus 116 ~t~~v~~~a~~~gv~Ve--~ElG~~gg~ed~~~g~~~~~t~~eea~~f~~~tgvD~Lavs 173 (282)
T TIGR01859 116 LTKKVVEIAHAKGVSVE--AELGTLGGIEDGVDEKEAELADPDEAEQFVKETGVDYLAAA 173 (282)
T ss_pred HHHHHHHHHHHcCCEEE--EeeCCCcCccccccccccccCCHHHHHHHHHHHCcCEEeec
Confidence 35566677788887653 22222222 34778999886665 899998855
No 289
>cd05006 SIS_GmhA Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of gram-negative bacteria inner core lipopolysaccharide precursor, L-glycero-D-mannoheptose (Gmh).
Probab=23.89 E-value=63 Score=24.31 Aligned_cols=42 Identities=10% Similarity=-0.001 Sum_probs=29.5
Q ss_pred EEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCC
Q psy17033 30 AVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGL 71 (148)
Q Consensus 30 Y~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm 71 (148)
.+..+|-+-++..=.+..|..|+.+|++|..++-.+++.+..
T Consensus 107 ~iS~SG~t~~~i~~~~~ak~~Ga~vI~IT~~~~s~La~~aD~ 148 (177)
T cd05006 107 GISTSGNSPNVLKALEAAKERGMKTIALTGRDGGKLLELADI 148 (177)
T ss_pred EEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCchhhhCCE
Confidence 344456666777777777778888888888877777777543
No 290
>PRK06464 phosphoenolpyruvate synthase; Validated
Probab=23.86 E-value=1.8e+02 Score=28.06 Aligned_cols=53 Identities=13% Similarity=0.115 Sum_probs=34.0
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCC-HHHHHHHHHcCCCeeeccc
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSS-RAESNLFRSWNAHLVNMTL 59 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET-~AE~r~~r~~GaDvVGMSt 59 (148)
++++|.+.+.+..+.+.. ++.|+.+++-|=-=.+ |...+.+..+|.+.+.|+.
T Consensus 721 ~~~hPav~~ai~~vi~aa----~~~g~~vgicge~a~~~p~~~~~l~~~G~~~ls~~~ 774 (795)
T PRK06464 721 DERNPAVKKLISMAIKAA----KKAGKYVGICGQAPSDHPDFAEWLVEEGIDSISLNP 774 (795)
T ss_pred CCCCHHHHHHHHHHHHHH----HHcCCEEEEcCCCCCCcHHHHHHHHHCCCCEEEEcc
Confidence 567888888887665432 1234444443322224 7888999999999887763
No 291
>cd00419 Ferrochelatase_C Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=23.80 E-value=2.6e+02 Score=20.52 Aligned_cols=22 Identities=9% Similarity=0.166 Sum_probs=18.8
Q ss_pred CcccCHHHHHHHHHHHHHhCCc
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFK 23 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~ 23 (148)
.+||..+.++.+..+++.+|+.
T Consensus 36 gd~Y~~~~~~~~~~v~~~l~~~ 57 (135)
T cd00419 36 GDPYPDQCEETARLVAERLGLP 57 (135)
T ss_pred CCCHHHHHHHHHHHHHHHhCCC
Confidence 4789999999999999999853
No 292
>cd08556 GDPD Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins. The typical glycerophosphodiester phosphodiesterase domain (GDPD) consists of a TIM barrel and a small insertion domain named the GDPD-insertion (GDPD-I) domain, which is specific for GDPD proteins. This family corresponds to both typical GDPD domain and GDPD-like domain which lacks the GDPD-I region. Members in this family mainly consist of a large family of prokaryotic and eukaryotic glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46), and a number of uncharacterized homologs. Sphingomyelinases D (SMases D) (sphingomyelin phosphodiesterase D, EC 3.1.4.41) from spider venom, SMases D-like proteins, and phospholipase D (PLD) from several pathogenic bacteria are also included in this family. GDPD plays an essential role in glycerol metabolism and catalyzes the hydrolysis of glycerophosphodiesters to sn-glycerol-3-phosphate (G3P) and the corresponding alcoho
Probab=23.77 E-value=1.3e+02 Score=22.03 Aligned_cols=36 Identities=8% Similarity=0.148 Sum_probs=22.3
Q ss_pred HHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 11 QIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 11 ~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
..+.+.+++.|+++. +++ ...+++.+.+..+|+|-|
T Consensus 150 ~~~i~~~~~~g~~v~-----~wt----vn~~~~~~~~~~~GVdgI 185 (189)
T cd08556 150 PELVRAAHAAGLKVY-----VWT----VNDPEDARRLLALGVDGI 185 (189)
T ss_pred HHHHHHHHHcCCEEE-----EEc----CCCHHHHHHHHHCCCCEE
Confidence 445555666666543 333 245788888888887765
No 293
>PRK12470 amidase; Provisional
Probab=23.74 E-value=51 Score=29.13 Aligned_cols=26 Identities=27% Similarity=0.318 Sum_probs=22.8
Q ss_pred CCHHHHHHHHHcCCCeeecccchHHH
Q psy17033 39 SSRAESNLFRSWNAHLVNMTLVPEVV 64 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGMStvPEvi 64 (148)
++..=++.+|..||=++|.|++||--
T Consensus 104 ~dA~vV~rLr~aGaii~GKTn~~Efa 129 (462)
T PRK12470 104 SDAEVVRRLRAAGAVIIGKTNVPELM 129 (462)
T ss_pred ccHHHHHHHHHCCCeEEEEeChHhHh
Confidence 45556899999999999999999975
No 294
>cd06354 PBP1_BmpA_PnrA_like Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. The PnrA lipoprotein, also known as Tp0319 or TmpC, represents a novel family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC) transport system (pnrABCDE). It shows a striking structural similarity to another basic membrane lipoprotein Med which regulates the competence transcription factor gene, comK, in Bacillus subtilis. The members of PnrA-like subgroup are likely to have similar nucleoside-binding functions and a similar type I periplasmic sugar-binding protein-like fold.
Probab=23.73 E-value=3.5e+02 Score=21.17 Aligned_cols=71 Identities=15% Similarity=0.158 Sum_probs=44.3
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeeccc-c--hHH-HHHHHc-CCceeEE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTL-V--PEV-VLAKEA-GLLYAAV 76 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMSt-v--PEv-ilAre~-Gm~~~~i 76 (148)
.+||...+.+-+.+.+++.|+.+. +.....|.-+ ..-++.+...+.|.|=.+. . ++. -+.++. +++++.+
T Consensus 13 ~~~f~~~~~~gi~~~~~~~gy~~~----i~~~~~~~~~-~~~i~~l~~~~vdgiI~~~~~~~~~~~~~~~~~~~~PiV~i 87 (265)
T cd06354 13 DKSFNQSAWEGLERAAKELGIEYK----YVESKSDADY-EPNLEQLADAGYDLIVGVGFLLADALKEVAKQYPDQKFAII 87 (265)
T ss_pred chhHHHHHHHHHHHHHHHcCCeEE----EEecCCHHHH-HHHHHHHHhCCCCEEEEcCcchHHHHHHHHHHCCCCEEEEE
Confidence 468999999999999999988765 2222222211 2335567778889887753 2 222 223444 7887766
Q ss_pred E
Q psy17033 77 A 77 (148)
Q Consensus 77 s 77 (148)
-
T Consensus 88 ~ 88 (265)
T cd06354 88 D 88 (265)
T ss_pred e
Confidence 4
No 295
>TIGR02991 ectoine_eutB ectoine utilization protein EutB. Members of this protein family are EutB, 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, Silicibacter pomeroyi, Agrobacterium tumefaciens, and Pseudomonas putida. Members of this family resemble threonine dehydratases.
Probab=23.72 E-value=1.5e+02 Score=24.76 Aligned_cols=38 Identities=11% Similarity=0.108 Sum_probs=26.2
Q ss_pred HHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeeccc
Q psy17033 15 DSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTL 59 (148)
Q Consensus 15 ~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMSt 59 (148)
-+|+.+|++++ +|+ |.--.+.-+++++.+||+++-...
T Consensus 84 ~~a~~~G~~~~---v~~----p~~~~~~k~~~~~~~GA~V~~~~~ 121 (317)
T TIGR02991 84 YAAAEEGVRAT---ICM----SELVPQNKVDEIRRLGAEVRIVGR 121 (317)
T ss_pred HHHHHhCCCEE---EEc----CCCCCHHHHHHHHHcCCEEEEeCC
Confidence 34555666655 443 555567788899999999986653
No 296
>PRK08310 amidase; Provisional
Probab=23.71 E-value=55 Score=28.30 Aligned_cols=26 Identities=15% Similarity=0.125 Sum_probs=22.6
Q ss_pred CCHHHHHHHHHcCCCeeecccchHHH
Q psy17033 39 SSRAESNLFRSWNAHLVNMTLVPEVV 64 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGMStvPEvi 64 (148)
++..=++.+|..||-++|-|++||--
T Consensus 60 ~dA~vV~~L~~aGAii~GKTn~~E~~ 85 (395)
T PRK08310 60 RTAPAVEKLLAAGARFVGKTQTDELA 85 (395)
T ss_pred CCHHHHHHHHHCCCEEEEeccchHHh
Confidence 45556899999999999999999964
No 297
>PRK08227 autoinducer 2 aldolase; Validated
Probab=23.69 E-value=2.3e+02 Score=23.62 Aligned_cols=76 Identities=11% Similarity=0.100 Sum_probs=44.7
Q ss_pred HHHHHhCCceecceEEEEeCCCCCCCHHH-----HHHHHHcCCCeeecccchHHHHHH---HcCCceeEEEeeecccccc
Q psy17033 15 DSLKELGFKFHDKGTAVCIEGPRFSSRAE-----SNLFRSWNAHLVNMTLVPEVVLAK---EAGLLYAAVAMATDYDCWR 86 (148)
Q Consensus 15 ~~a~~~gi~~~~~GvY~~~~GP~fET~AE-----~r~~r~~GaDvVGMStvPEvilAr---e~Gm~~~~is~VTN~a~~~ 86 (148)
+-|++.|+++. .+| -.||..+.... .|.-..+|||+|=-. +|+-..++ -+..+|+ .+|.
T Consensus 134 ~ea~~~G~Pll--a~~--prG~~~~~~~~~ia~aaRiaaELGADiVK~~-y~~~~f~~vv~a~~vPVv--------iaGG 200 (264)
T PRK08227 134 DAGLRYGMPVM--AVT--AVGKDMVRDARYFSLATRIAAEMGAQIIKTY-YVEEGFERITAGCPVPIV--------IAGG 200 (264)
T ss_pred HHHHHhCCcEE--EEe--cCCCCcCchHHHHHHHHHHHHHHcCCEEecC-CCHHHHHHHHHcCCCcEE--------EeCC
Confidence 55677899987 255 78998887666 445556999999743 34322221 2233332 1232
Q ss_pred CCCCCCCHHHHHHHHHHHHH
Q psy17033 87 DTGNKVCVADVLKTFKENVE 106 (148)
Q Consensus 87 ~~~~~v~~eeVl~~~~~~~~ 106 (148)
. . .+.+++++..+.+.+
T Consensus 201 ~--k-~~~~~~L~~v~~ai~ 217 (264)
T PRK08227 201 K--K-LPERDALEMCYQAID 217 (264)
T ss_pred C--C-CCHHHHHHHHHHHHH
Confidence 2 2 366778877765543
No 298
>smart00393 R3H Putative single-stranded nucleic acids-binding domain.
Probab=23.67 E-value=96 Score=20.50 Aligned_cols=26 Identities=19% Similarity=0.446 Sum_probs=21.5
Q ss_pred cccCHHHHHHHHHHHHHhCCceecce
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKG 28 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~G 28 (148)
+|.++.-|..+.++|+..|+.....|
T Consensus 42 ~pm~~~~R~~iH~~a~~~~l~s~S~g 67 (79)
T smart00393 42 PPMNSYERKIVHELAEKYGLESESFG 67 (79)
T ss_pred CCCCHHHHHHHHHHHHHcCCEEEEEc
Confidence 57889999999999999988765444
No 299
>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=23.66 E-value=62 Score=26.56 Aligned_cols=23 Identities=26% Similarity=0.475 Sum_probs=21.5
Q ss_pred CcccCHHHHHHHHHHHHHhCCce
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKF 24 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~ 24 (148)
++||-.++.+.+.++|+++|+++
T Consensus 74 THPfA~~is~na~~a~~~~~ipy 96 (249)
T PF02571_consen 74 THPFAAEISQNAIEACRELGIPY 96 (249)
T ss_pred CCchHHHHHHHHHHHHhhcCcce
Confidence 68999999999999999999974
No 300
>PRK08185 hypothetical protein; Provisional
Probab=23.58 E-value=2.9e+02 Score=23.22 Aligned_cols=47 Identities=9% Similarity=0.205 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHhCCceecceEEEEeCCCC-----------CCCHHHHHHHH-HcCCCeeec
Q psy17033 9 TRQIIIDSLKELGFKFHDKGTAVCIEGPR-----------FSSRAESNLFR-SWNAHLVNM 57 (148)
Q Consensus 9 Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~-----------fET~AE~r~~r-~~GaDvVGM 57 (148)
+-+.+.+.|+..|+.+ ++-...+.|+. |-+|.|...|- .-|+|.+..
T Consensus 110 ~t~~vv~~a~~~gv~v--E~ElG~vg~~e~~~~~~~~~~~~t~peea~~f~~~TgvD~LAv 168 (283)
T PRK08185 110 LTKEVVELAHKVGVSV--EGELGTIGNTGTSIEGGVSEIIYTDPEQAEDFVSRTGVDTLAV 168 (283)
T ss_pred HHHHHHHHHHHcCCeE--EEEEeeccCcccccccccccccCCCHHHHHHHHHhhCCCEEEe
Confidence 3455666678888887 34445565543 45777776554 448887776
No 301
>TIGR00132 gatA glutamyl-tRNA(Gln) and/or aspartyl-tRNA(Asn) amidotransferase, A subunit. This orthology group is more narrowly defined here than in Proc Natl Acad Aci USA 94, 11819-11826 (1997). In particular, a Rhodococcus homolog found in association with nitrile hydratase genes and described as an enantiomer-selective amidase active on several 2-aryl propionamides, is excluded here. It is likely, however, that the amidase subunit GatA is not exclusively a part of the Glu-tRNA(Gln) amidotransferase heterotrimer and restricted to that function in all species.
Probab=23.46 E-value=51 Score=28.96 Aligned_cols=27 Identities=11% Similarity=0.097 Sum_probs=23.5
Q ss_pred CCHHHHHHHHHcCCCeeecccchHHHH
Q psy17033 39 SSRAESNLFRSWNAHLVNMTLVPEVVL 65 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGMStvPEvil 65 (148)
++..=++.||..||-++|-|++||--+
T Consensus 88 ~dA~vV~~L~~aGAii~GKTn~~E~a~ 114 (460)
T TIGR00132 88 YDATVIERLKQAGALIIGKTNMDEFAM 114 (460)
T ss_pred CchHHHHHHHHCCCEEEEEechhHHhc
Confidence 456678999999999999999999654
No 302
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=23.37 E-value=2.4e+02 Score=23.26 Aligned_cols=68 Identities=21% Similarity=0.243 Sum_probs=40.4
Q ss_pred cccCHHHHHHHH---HHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchH-HH----HHHHcCCce
Q psy17033 3 PAFDNSTRQIII---DSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPE-VV----LAKEAGLLY 73 (148)
Q Consensus 3 ~~Yd~~Lr~~~~---~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPE-vi----lAre~Gm~~ 73 (148)
++|-..+.+.+. +..++.|+++. .-++.-..-+.|. +.+..++.-|+|+|-+...++ .. -+++.|+..
T Consensus 155 ~~~g~~~~~~~~~~~~~~~~~G~~vv-~~~~~~~~~~D~~--~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~ 230 (357)
T cd06337 155 DPDGNAFADPVIGLPAALADAGYKLV-DPGRFEPGTDDFS--SQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKP 230 (357)
T ss_pred CchhHHHHHhhhcccHHHHhCCcEEe-cccccCCCCCcHH--HHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCC
Confidence 345555544433 34455677765 3333333334443 466778999999999887665 33 257777763
No 303
>PRK06852 aldolase; Validated
Probab=23.23 E-value=1.5e+02 Score=25.26 Aligned_cols=40 Identities=10% Similarity=0.114 Sum_probs=26.6
Q ss_pred HHHHHhCCceecceEEEEeCCCCCCCHHH-------HHHHHHcCCCeeec
Q psy17033 15 DSLKELGFKFHDKGTAVCIEGPRFSSRAE-------SNLFRSWNAHLVNM 57 (148)
Q Consensus 15 ~~a~~~gi~~~~~GvY~~~~GP~fET~AE-------~r~~r~~GaDvVGM 57 (148)
+-|++.|+++. ..++-.||..+-.-. .|.-..+|||+|=-
T Consensus 161 ~ea~~~GlPll---~~~yprG~~i~~~~~~~~ia~aaRiaaELGADIVKv 207 (304)
T PRK06852 161 YEAHKHGLIAV---LWIYPRGKAVKDEKDPHLIAGAAGVAACLGADFVKV 207 (304)
T ss_pred HHHHHhCCcEE---EEeeccCcccCCCccHHHHHHHHHHHHHHcCCEEEe
Confidence 55677899976 356677887643212 35555699999864
No 304
>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2.4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0009435 NAD biosynthetic process; PDB: 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 1QPN_E 1QPO_A 1QPQ_F 1QPR_E 2I14_D ....
Probab=23.16 E-value=2.3e+02 Score=21.78 Aligned_cols=51 Identities=12% Similarity=0.179 Sum_probs=30.3
Q ss_pred ccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccch
Q psy17033 4 AFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVP 61 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvP 61 (148)
-++++..+.+.+..+..+.. -....-.|=+.++.+| |...|.|+++++..+
T Consensus 108 ~~~~~~~~~~v~~l~~~~~~----v~ie~SGGI~~~ni~~---ya~~gvD~isvg~~~ 158 (169)
T PF01729_consen 108 NMSPEDLKEAVEELRELNPR----VKIEASGGITLENIAE---YAKTGVDVISVGSLT 158 (169)
T ss_dssp S-CHHHHHHHHHHHHHHTTT----SEEEEESSSSTTTHHH---HHHTT-SEEEECHHH
T ss_pred CcCHHHHHHHHHHHhhcCCc----EEEEEECCCCHHHHHH---HHhcCCCEEEcChhh
Confidence 34555555555554555443 2344556677777766 558899999987653
No 305
>cd00958 DhnA Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly divergent based on sequence similarity to other class I and class II (metal dependent) aldolase subfamilies.
Probab=23.11 E-value=3.4e+02 Score=21.20 Aligned_cols=45 Identities=11% Similarity=0.121 Sum_probs=26.2
Q ss_pred HHHHHHHHhCCceecceEEEEeCCCCC---CCHHHH----HHHHHcCCCeeeccc
Q psy17033 12 IIIDSLKELGFKFHDKGTAVCIEGPRF---SSRAES----NLFRSWNAHLVNMTL 59 (148)
Q Consensus 12 ~~~~~a~~~gi~~~~~GvY~~~~GP~f---ET~AE~----r~~r~~GaDvVGMSt 59 (148)
.+.+.+++.|+++.=+ + ...|+.+ -++.++ +.....|+|.|+-+.
T Consensus 113 ~v~~~~~~~g~~~iie-~--~~~g~~~~~~~~~~~i~~~~~~a~~~GaD~Ik~~~ 164 (235)
T cd00958 113 RVAAEAHKYGLPLIAW-M--YPRGPAVKNEKDPDLIAYAARIGAELGADIVKTKY 164 (235)
T ss_pred HHHHHHHHcCCCEEEE-E--eccCCcccCccCHHHHHHHHHHHHHHCCCEEEecC
Confidence 3445556778775411 2 2245544 244444 447788999999873
No 306
>PRK06102 hypothetical protein; Provisional
Probab=23.05 E-value=54 Score=28.85 Aligned_cols=26 Identities=15% Similarity=0.043 Sum_probs=22.9
Q ss_pred CCHHHHHHHHHcCCCeeecccchHHH
Q psy17033 39 SSRAESNLFRSWNAHLVNMTLVPEVV 64 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGMStvPEvi 64 (148)
++..=++.||..||-++|-|++||--
T Consensus 103 ~dA~vV~rL~~aGAii~GKTn~~E~a 128 (452)
T PRK06102 103 RDAAVVALLARAGMVSIGRTNMSEFA 128 (452)
T ss_pred CCHHHHHHHHHCCCEEEEeechHhHh
Confidence 45667899999999999999999974
No 307
>COG5001 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]
Probab=22.96 E-value=98 Score=28.43 Aligned_cols=44 Identities=9% Similarity=0.161 Sum_probs=35.5
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCee
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLV 55 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvV 55 (148)
+|-+.++-+.+.+..+++++...-||| ||-|+.+.++.+||.++
T Consensus 585 ~P~S~~iVr~vl~LgR~l~~ecVvEGV---------ET~A~~~~v~~lGaT~~ 628 (663)
T COG5001 585 NPTSEDIVRTVLQLGRNLRMECVVEGV---------ETEAQRDRVAALGATVM 628 (663)
T ss_pred CCcHHHHHHHHHHHhhccCcEEEeecc---------hhHHHHhHHHhcCcchh
Confidence 466777788888888888887655775 99999999999998764
No 308
>cd02325 R3H R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich repeats, ring-type zinc fingers, and KH domains. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=22.95 E-value=1.1e+02 Score=17.86 Aligned_cols=23 Identities=26% Similarity=0.446 Sum_probs=19.1
Q ss_pred cccCHHHHHHHHHHHHHhCCcee
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFH 25 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~ 25 (148)
+|.++..|.++.+.|+..|+...
T Consensus 23 ~p~~~~~R~~vH~la~~~~L~s~ 45 (59)
T cd02325 23 PPMNSYERKLIHDLAEYYGLKSE 45 (59)
T ss_pred CCCCHHHHHHHHHHHHHCCCEEE
Confidence 46688999999999999887543
No 309
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=22.95 E-value=2.2e+02 Score=23.14 Aligned_cols=68 Identities=10% Similarity=0.221 Sum_probs=44.6
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCC-CCCCCHHHHHHHHHcCCCeeecccchHHH-----HHHHcCCc
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEG-PRFSSRAESNLFRSWNAHLVNMTLVPEVV-----LAKEAGLL 72 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~G-P~fET~AE~r~~r~~GaDvVGMStvPEvi-----lAre~Gm~ 72 (148)
+.|...+.+.+.+..++.|+.+..+..| -.| +.-.-..+++.++..++|+|=+...++-. -|+++|+.
T Consensus 145 ~~~g~~~~~~~~~~~~~~g~~v~~~~~~--~~~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~ 218 (350)
T cd06366 145 DDYGSGGLPDLVDALQEAGIEISYRAAF--PPSANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMM 218 (350)
T ss_pred CcccchhHHHHHHHHHHcCCEEEEEecc--CCCCChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCc
Confidence 5677888888899999999887522222 222 12233456777888889988766555432 36888884
No 310
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=22.94 E-value=2.1e+02 Score=23.05 Aligned_cols=67 Identities=10% Similarity=0.040 Sum_probs=44.0
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCC-CCCCHHHHHHHHHcCCCeeecccchH-HH----HHHHcCC
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGP-RFSSRAESNLFRSWNAHLVNMTLVPE-VV----LAKEAGL 71 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP-~fET~AE~r~~r~~GaDvVGMStvPE-vi----lAre~Gm 71 (148)
++|...+.+.+++.+++.|+.+.. +...-.|+ .-.-...++.++..++|+|=...-++ +. .|++.|+
T Consensus 170 ~~~g~~~~~~~~~~~~~~gi~v~~--~~~~~~~~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~~~g~ 242 (348)
T cd06350 170 DDYGRSGLSDLEEELEKNGICIAF--VEAIPPSSTEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAYKLGM 242 (348)
T ss_pred chhHHHHHHHHHHHHHHCCCcEEE--EEEccCCCcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHHHhCC
Confidence 457788889999999999988762 22222332 11223456778889999887665443 33 2788888
No 311
>PRK06061 amidase; Provisional
Probab=22.88 E-value=55 Score=29.14 Aligned_cols=27 Identities=19% Similarity=0.048 Sum_probs=23.1
Q ss_pred CCHHHHHHHHHcCCCeeecccchHHHH
Q psy17033 39 SSRAESNLFRSWNAHLVNMTLVPEVVL 65 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGMStvPEvil 65 (148)
++..=++.+|..|+-++|.|++||--.
T Consensus 113 ~dA~vV~~Lr~AGAii~GKTn~~Efa~ 139 (483)
T PRK06061 113 ADSEVVRRLRAAGAVIVGKTNTCELGQ 139 (483)
T ss_pred CCHHHHHHHHHCCCEEEEecCcchhcc
Confidence 455678999999999999999999653
No 312
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=22.62 E-value=1.6e+02 Score=24.52 Aligned_cols=71 Identities=8% Similarity=0.040 Sum_probs=48.8
Q ss_pred HHHHHHHHH-HHHHhCCce--e------cceEEEEeCCCCCCCHHHHHHHHHcCCCeeec-ccchHHH-HHHHcCCceeE
Q psy17033 7 NSTRQIIID-SLKELGFKF--H------DKGTAVCIEGPRFSSRAESNLFRSWNAHLVNM-TLVPEVV-LAKEAGLLYAA 75 (148)
Q Consensus 7 ~~Lr~~~~~-~a~~~gi~~--~------~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGM-StvPEvi-lAre~Gm~~~~ 75 (148)
.+|++.+.+ .++++|+.+ + +=++++.=.|-+|+.-.+...-..+.++++.+ |.=|.+. +|++.|+++.-
T Consensus 58 ~~l~~~l~~~~~~~~~l~i~l~~~~~~~ki~vl~Sg~g~nl~~l~~~~~~g~l~~~i~~visn~~~~~~~A~~~gIp~~~ 137 (280)
T TIGR00655 58 SSLLAAFKSALAEKFEMTWELILADKLKRVAILVSKEDHCLGDLLWRWYSGELDAEIALVISNHEDLRSLVERFGIPFHY 137 (280)
T ss_pred HHHHHHHHHHHHHHhCCEEEEecCCCCcEEEEEEcCCChhHHHHHHHHHcCCCCcEEEEEEEcChhHHHHHHHhCCCEEE
Confidence 578899999 999987642 2 13456666667777666654444567888876 4444442 69999999976
Q ss_pred EE
Q psy17033 76 VA 77 (148)
Q Consensus 76 is 77 (148)
+.
T Consensus 138 ~~ 139 (280)
T TIGR00655 138 IP 139 (280)
T ss_pred cC
Confidence 65
No 313
>cd00430 PLPDE_III_AR Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase. This family includes predominantly bacterial alanine racemases (AR), some serine racemases (SerRac), and putative bifunctional enzymes containing N-terminal UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase (murF) and C-terminal AR domains. These proteins are fold type III PLP-dependent enzymes that play essential roles in peptidoglycan biosynthesis. AR catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. SerRac converts L-serine into its D-enantiomer (D-serine) for peptidoglycan synthesis. murF catalyzes the addition of D-Ala-D-Ala to UDPMurNAc-tripeptide, the final step in the synthesis of the cytoplasmic precursor of bacterial cell wall peptidoglycan. Members of this family contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with activ
Probab=22.50 E-value=98 Score=26.04 Aligned_cols=44 Identities=11% Similarity=0.215 Sum_probs=33.6
Q ss_pred EEEEeCCCCC--CCHHHHHHHHHcCCCeeecccchHHHHHHHcCCc
Q psy17033 29 TAVCIEGPRF--SSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLL 72 (148)
Q Consensus 29 vY~~~~GP~f--ET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~ 72 (148)
++..+-.=.| -.+.=.+.+...|++-++.+++.|+..+++.|..
T Consensus 28 l~~vvKan~yGhg~~~i~~~l~~~G~~~~~vas~~Ea~~~~~~g~~ 73 (367)
T cd00430 28 IMAVVKADAYGHGAVEVAKALEEAGADYFAVATLEEALELREAGIT 73 (367)
T ss_pred EEEEEeeccccCcHHHHHHHHHHCCCCEEEECcHHHHHHHHhcCCC
Confidence 4555554443 3444457888999999999999999999999984
No 314
>PF10384 Scm3: Centromere protein Scm3; InterPro: IPR018465 The centromere protein Scm3 is a non-histone component of centromeric chromatin that binds to CenH3-H4 histones, which are required for kinetochore assembly. Scm3 is required for Cse4 localisation and is required for its centromeric association [, ]. The histone H3 variant Cse4 replaces conventional histone H3 in centromeric chromatin and helps direct the assembly of the kinetochore. In addition, Scm3 has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for G2/M progression []. Scm3 is required to maintain kinetochore function throughout the cell cycle. Scm3 contains a nuclear export signal (NES). The N-terminal region of Scm3 is well conserved and functions as the CenH3-interacting domain, while the C-terminal region is variable in size and sometimes consists of DNA binding motifs [].; GO: 0005634 nucleus; PDB: 3R45_C 2YFV_C 2L5A_A.
Probab=22.48 E-value=1.7e+02 Score=18.94 Aligned_cols=28 Identities=11% Similarity=0.250 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccc
Q psy17033 95 ADVLKTFKENVEKITKLFVHIVPKIAAK 122 (148)
Q Consensus 95 eeVl~~~~~~~~~~~~ll~~~i~~l~~~ 122 (148)
|+|.+.-+++..+|++....++.+...-
T Consensus 1 e~l~~~~~~s~~r~k~~~e~I~~KY~~~ 28 (58)
T PF10384_consen 1 EELMQLRKQSDQRFKSRWESIIEKYGQP 28 (58)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCSG
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence 5678888899999999999999999773
No 315
>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to CcpA which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=22.46 E-value=2.1e+02 Score=21.85 Aligned_cols=70 Identities=11% Similarity=0.004 Sum_probs=39.5
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHH-HHHHHHcCCCeeecccc--h-HH-HHHHHcCCceeEE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE-SNLFRSWNAHLVNMTLV--P-EV-VLAKEAGLLYAAV 76 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE-~r~~r~~GaDvVGMStv--P-Ev-ilAre~Gm~~~~i 76 (148)
.++|...+.+-+.+.+++.|+.+. ++-.-.+| +...+ ++.+.+.++|.|=.... + .. ..+++.+ +++.+
T Consensus 10 ~~~~~~~i~~gi~~~~~~~g~~~~---~~~~~~~~--~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~~~~-pvv~~ 83 (260)
T cd06286 10 NHPYFSQLVDGIEKAALKHGYKVV---LLQTNYDK--EKELEYLELLKTKQVDGLILCSRENDWEVIEPYTKYG-PIVLC 83 (260)
T ss_pred CCchHHHHHHHHHHHHHHcCCEEE---EEeCCCCh--HHHHHHHHHHHHcCCCEEEEeCCCCCHHHHHHHhcCC-CEEEE
Confidence 578999999999999999887654 22111111 11112 23466678886555332 2 22 2344545 66555
Q ss_pred E
Q psy17033 77 A 77 (148)
Q Consensus 77 s 77 (148)
.
T Consensus 84 ~ 84 (260)
T cd06286 84 E 84 (260)
T ss_pred e
Confidence 4
No 316
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=22.45 E-value=1.4e+02 Score=25.34 Aligned_cols=70 Identities=7% Similarity=0.051 Sum_probs=44.2
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHH-----HHHHcCCc
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVV-----LAKEAGLL 72 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvi-----lAre~Gm~ 72 (148)
+.|...+.+.+.+.+++.|+.+.....|-.-..+...-...++-++..++|+|=+...++.. -|+++||.
T Consensus 186 ~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~~~~~d~~~~l~~i~~~~~dvIil~~~~~~~~~il~qa~~~g~~ 260 (410)
T cd06363 186 DEYGRDGLQLFSELIANTGICIAYQGLIPLDTDPETDYQQILKQINQTKVNVIVVFASRQPAEAFFNSVIQQNLT 260 (410)
T ss_pred ChhHHHHHHHHHHHHHHCCeEEEEEEEecCCCchHHHHHHHHHHHhcCCCeEEEEEcChHHHHHHHHHHHhcCCC
Confidence 56777788888888888888765222222100011122346667788899999777766653 36788884
No 317
>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=22.38 E-value=3.5e+02 Score=20.47 Aligned_cols=69 Identities=16% Similarity=0.148 Sum_probs=41.8
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHH---HHHHHcCCCeeecccc--hHHH--HHHHcCCcee
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAES---NLFRSWNAHLVNMTLV--PEVV--LAKEAGLLYA 74 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~---r~~r~~GaDvVGMStv--PEvi--lAre~Gm~~~ 74 (148)
.++|...+.+-+.+.+++.|+.+. +. ..+ +....|. +.+...++|.+=.... +..+ .+++.|++++
T Consensus 10 ~~~~~~~~~~gi~~~~~~~g~~~~----~~-~~~--~~~~~~~~~i~~l~~~~~dgii~~~~~~~~~~~~~~~~~~ipvv 82 (259)
T cd01542 10 DSFSTSRTVKGILAALYENGYQML----LM-NTN--FSIEKEIEALELLARQKVDGIILLATTITDEHREAIKKLNVPVV 82 (259)
T ss_pred ccchHHHHHHHHHHHHHHCCCEEE----EE-eCC--CCHHHHHHHHHHHHhcCCCEEEEeCCCCCHHHHHHHhcCCCCEE
Confidence 568888999999999998887653 22 122 2222333 3445678876654322 3332 3466788888
Q ss_pred EEE
Q psy17033 75 AVA 77 (148)
Q Consensus 75 ~is 77 (148)
.+-
T Consensus 83 ~~~ 85 (259)
T cd01542 83 VVG 85 (259)
T ss_pred EEe
Confidence 764
No 318
>cd06826 PLPDE_III_AR2 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2. This subfamily is composed of bacterial alanine racemases (EC 5.1.1.1) with similarity to Yersinia pestis and Vibrio cholerae alanine racemase (AR) 2. ARs catalyze the interconversion between L- and D-alanine, an essential component of the peptidoglycan layer of bacterial cell walls. These proteins are similar to other bacterial ARs and are fold type III PLP-dependent enzymes containing contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.
Probab=22.33 E-value=96 Score=26.42 Aligned_cols=44 Identities=16% Similarity=0.157 Sum_probs=31.4
Q ss_pred EEEEeCCCCCCCHH--HHHHHHHcCCCeeecccchHHHHHHHcCCc
Q psy17033 29 TAVCIEGPRFSSRA--ESNLFRSWNAHLVNMTLVPEVVLAKEAGLL 72 (148)
Q Consensus 29 vY~~~~GP~fET~A--E~r~~r~~GaDvVGMStvPEvilAre~Gm~ 72 (148)
+...+-.=.|---+ =.+.+...|++-++.++..|+...|+.|+.
T Consensus 28 i~~vvKAnAYGhG~~~va~~l~~~g~~~f~Vas~~Ea~~lr~~Gi~ 73 (365)
T cd06826 28 LCAVMKADAYGHGIALVMPSIIAQNIPCVGITSNEEARVVREAGFT 73 (365)
T ss_pred EEEEEEeccccccHHHHHHHHHHCCCCEEEEccHHHHHHHHhcCCC
Confidence 45555554443322 234677789999999999999999998875
No 319
>PRK06222 ferredoxin-NADP(+) reductase subunit alpha; Reviewed
Probab=22.27 E-value=1.3e+02 Score=24.59 Aligned_cols=12 Identities=33% Similarity=1.046 Sum_probs=10.7
Q ss_pred EEEEeCCCCCCC
Q psy17033 29 TAVCIEGPRFSS 40 (148)
Q Consensus 29 vY~~~~GP~fET 40 (148)
.|+|..||-|.-
T Consensus 234 ~~~C~dGPvF~~ 245 (281)
T PRK06222 234 KFACVDGPEFDG 245 (281)
T ss_pred EEEeCCCCeeeC
Confidence 699999999975
No 320
>cd06825 PLPDE_III_VanT Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, VanT and similar proteins. This subfamily is composed of Enterococcus gallinarum VanT and similar proteins. VanT is a membrane-bound serine racemase (EC 5.1.1.18) that is essential for vancomycin resistance in Enterococcus gallinarum. It converts L-serine into its D-enantiomer (D-serine) for peptidoglycan synthesis. The C-terminal region of this protein contains a PLP-binding TIM-barrel domain followed by beta-sandwich domain, which is homologous to the fold type III PLP-dependent enzyme, bacterial alanine racemase (AR). AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. On the basis of this similarity, it has been suggested that dimer formation of VanT is required for its catalytic activity, and that it catalyzes the racemization of serine in a mechanistically similar manner to that of alanine by
Probab=22.24 E-value=99 Score=26.50 Aligned_cols=30 Identities=13% Similarity=0.259 Sum_probs=23.2
Q ss_pred HHHHHHHcCCCeeecccchHHHHHHHcCCc
Q psy17033 43 ESNLFRSWNAHLVNMTLVPEVVLAKEAGLL 72 (148)
Q Consensus 43 E~r~~r~~GaDvVGMStvPEvilAre~Gm~ 72 (148)
=.+.+...|+|-++.+++.|+..-|+.|+.
T Consensus 44 va~~l~~~G~~~faVa~~~EA~~Lr~~Gi~ 73 (368)
T cd06825 44 VARVLEQIGIDFFAVATIDEGIRLREAGIK 73 (368)
T ss_pred HHHHHHHcCCCEEEEccHHHHHHHHhcCCC
Confidence 345666778888888888888888888764
No 321
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family. The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
Probab=22.21 E-value=4.6e+02 Score=21.96 Aligned_cols=77 Identities=14% Similarity=0.214 Sum_probs=51.3
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHc------------------------CCCeee--
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSW------------------------NAHLVN-- 56 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~------------------------GaDvVG-- 56 (148)
..|+.-....++.++ +.|..++ ||+.=+=|.++-+.-.+-+.+. |||.|-
T Consensus 122 ~~~S~tv~~~l~~a~-~~~~~f~---V~v~EsrP~~~G~~~a~~L~~~gI~vtlI~Dsa~~~~m~~vd~VivGad~v~~n 197 (301)
T TIGR00511 122 HCNSEAALSVIKTAF-EQGKDIE---VIATETRPRKQGHITAKELRDYGIPVTLIVDSAVRYFMKEVDHVVVGADAITAN 197 (301)
T ss_pred ECCcHHHHHHHHHHH-HcCCcEE---EEEecCCCcchHHHHHHHHHHCCCCEEEEehhHHHHHHHhCCEEEECccEEecC
Confidence 345555555554444 4566665 8888888888866555555554 444443
Q ss_pred ------cccchHHHHHHHcCCceeEEEeeeccc
Q psy17033 57 ------MTLVPEVVLAKEAGLLYAAVAMATDYD 83 (148)
Q Consensus 57 ------MStvPEvilAre~Gm~~~~is~VTN~a 83 (148)
.-|.+=+++|++.++++..+|=..-.+
T Consensus 198 G~v~nkiGT~~lA~~Ak~~~vPv~V~a~~~K~~ 230 (301)
T TIGR00511 198 GALINKIGTSQLALAAREARVPFMVAAETYKFH 230 (301)
T ss_pred CCEEEHHhHHHHHHHHHHhCCCEEEEcccceec
Confidence 346788999999999999887655554
No 322
>cd08562 GDPD_EcUgpQ_like Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase (GP-GDE, EC 3.1.4.46), UgpQ, and similar proteins. GP-GDE plays an essential role in the metabolic pathway of E. coli. It catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols, which are major sources of carbon and phosphate. E. coli possesses two major G3P uptake systems: Glp and Ugp, which contain genes coding for two distinct GP-GDEs. UgpQ gene from the E. coli ugp operon codes for a cytosolic phosphodiesterase GlpQ, which is the prototype of this family. Various glycerophosphodiesters, such as glycerophosphocholine (GPC), glycerophosphoethanolanmine (GPE), glycerophosphoglycerol (GPG)
Probab=22.16 E-value=2.2e+02 Score=21.90 Aligned_cols=18 Identities=6% Similarity=0.113 Sum_probs=8.3
Q ss_pred CHHHHHHHHHcCCCeeec
Q psy17033 40 SRAESNLFRSWNAHLVNM 57 (148)
Q Consensus 40 T~AE~r~~r~~GaDvVGM 57 (148)
++.-++.++..|-.+..-
T Consensus 188 ~~~~v~~~~~~g~~v~~w 205 (229)
T cd08562 188 TEEQVKALKDAGYKLLVY 205 (229)
T ss_pred CHHHHHHHHHCCCEEEEE
Confidence 344444555555444433
No 323
>PRK13340 alanine racemase; Reviewed
Probab=22.13 E-value=98 Score=26.83 Aligned_cols=45 Identities=9% Similarity=0.054 Sum_probs=31.7
Q ss_pred EEEEeCCCCCCC--HHHHHHHHHcCCCeeecccchHHHHHHHcCCce
Q psy17033 29 TAVCIEGPRFSS--RAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLY 73 (148)
Q Consensus 29 vY~~~~GP~fET--~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~ 73 (148)
++..+-.=.|-- +.=.+.+...|++-++.++.-|+..+|++|+.-
T Consensus 67 i~~vvKAnaYG~G~~~va~~l~~~G~~~~~Vas~~Ea~~lr~~G~~~ 113 (406)
T PRK13340 67 VCAVMKADAYGHGIELLMPSIIKANVPCIGIASNEEARRVRELGFTG 113 (406)
T ss_pred EEEEEccccccccHHHHHHHHHHCCCCEEEEccHHHHHHHHhCCCCC
Confidence 444444444333 222457777899999999999999999999854
No 324
>COG0182 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=22.13 E-value=90 Score=27.25 Aligned_cols=61 Identities=18% Similarity=0.079 Sum_probs=38.9
Q ss_pred HHHHHHHHH------cCCCeeecc--------cchHHHHHHHcCCceeEEEeeeccccccCC-----CCCCCHHHHHHHH
Q psy17033 41 RAESNLFRS------WNAHLVNMT--------LVPEVVLAKEAGLLYAAVAMATDYDCWRDT-----GNKVCVADVLKTF 101 (148)
Q Consensus 41 ~AE~r~~r~------~GaDvVGMS--------tvPEvilAre~Gm~~~~is~VTN~a~~~~~-----~~~v~~eeVl~~~ 101 (148)
.|=..|.+. -|||=|-+. |+-.+++|+|.|+++...+=.+..+.-..+ -++-+.+||+.+.
T Consensus 219 aag~~M~~g~Id~viVGADRI~~nGdvaNKIGTY~lAvlAk~~gIPFyVaAP~sTiD~~~~~G~~I~IEER~p~Ev~~v~ 298 (346)
T COG0182 219 AAGHLMQQGMIDAVIVGADRIAANGDVANKIGTYQLAVLAKHHGIPFYVAAPLSTIDFELKSGEDIPIEERDPEEVLEVG 298 (346)
T ss_pred HHHHHHHhCCCcEEEEccceeecCCcchhhhhHHHHHHHHHHcCCCeEEEcccCccccccCCCCccceeecCHHHeEeec
Confidence 344456665 477777665 789999999999999887766655422211 2334556665443
No 325
>PRK09358 adenosine deaminase; Provisional
Probab=22.05 E-value=3.6e+02 Score=22.39 Aligned_cols=63 Identities=8% Similarity=0.072 Sum_probs=35.7
Q ss_pred ccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH-HHHHcCCCeeecccch---H--HHHHHHcCCce
Q psy17033 4 AFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN-LFRSWNAHLVNMTLVP---E--VVLAKEAGLLY 73 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r-~~r~~GaDvVGMStvP---E--vilAre~Gm~~ 73 (148)
+|+++.-+.+.+.|++.|++++ +.+.- ...+.++. .++.+|+|-+|.-+-- | .-+.++.|+.+
T Consensus 178 ~~~~~~~~~~~~~A~~~g~~~~-----~H~~E--~~~~~~~~~al~~lg~~ri~Hg~~l~~~~~~~~~l~~~gi~v 246 (340)
T PRK09358 178 GFPPSKFARAFDRARDAGLRLT-----AHAGE--AGGPESIWEALDELGAERIGHGVRAIEDPALMARLADRRIPL 246 (340)
T ss_pred CCCHHHHHHHHHHHHHCCCCeE-----EcCCC--CCchhHHHHHHHHcCCcccchhhhhccCHHHHHHHHHcCCeE
Confidence 4667777788888998887653 11110 11233443 3444788777765542 2 44555666654
No 326
>PRK07056 amidase; Provisional
Probab=22.02 E-value=77 Score=27.91 Aligned_cols=26 Identities=19% Similarity=0.171 Sum_probs=22.8
Q ss_pred CHHHHHHHHHcCCCeeecccchHHHH
Q psy17033 40 SRAESNLFRSWNAHLVNMTLVPEVVL 65 (148)
Q Consensus 40 T~AE~r~~r~~GaDvVGMStvPEvil 65 (148)
+..=++.+|..||-++|-|++||--.
T Consensus 106 dA~vV~rLr~aGAii~GKTn~~E~~~ 131 (454)
T PRK07056 106 DAPAVARLRRAGAVLIGRTNMTEFAF 131 (454)
T ss_pred CHHHHHHHHHCCCEEEEeccchhHhh
Confidence 55668999999999999999999754
No 327
>PRK13210 putative L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=21.83 E-value=4.1e+02 Score=21.00 Aligned_cols=12 Identities=42% Similarity=0.437 Sum_probs=7.4
Q ss_pred HHHHHHHHhCCc
Q psy17033 12 IIIDSLKELGFK 23 (148)
Q Consensus 12 ~~~~~a~~~gi~ 23 (148)
...+.++++|+.
T Consensus 20 e~~~~~~~~G~~ 31 (284)
T PRK13210 20 ERLVFAKELGFD 31 (284)
T ss_pred HHHHHHHHcCCC
Confidence 345556678874
No 328
>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=21.74 E-value=3.6e+02 Score=20.36 Aligned_cols=69 Identities=19% Similarity=0.232 Sum_probs=46.0
Q ss_pred cCHHHHHHHHHHHHHh---CCceecceEEEEeCCCCCCCHHHHHHHHH-cCCCeeecccchHHH--HHHHcCCceeEE
Q psy17033 5 FDNSTRQIIIDSLKEL---GFKFHDKGTAVCIEGPRFSSRAESNLFRS-WNAHLVNMTLVPEVV--LAKEAGLLYAAV 76 (148)
Q Consensus 5 Yd~~Lr~~~~~~a~~~---gi~~~~~GvY~~~~GP~fET~AE~r~~r~-~GaDvVGMStvPEvi--lAre~Gm~~~~i 76 (148)
.||.....+.++.+++ +..+. ++...-=|..-||+..+.|.. +|++..|.+.-++.+ +++..|+.|.-.
T Consensus 67 vCp~~l~~l~~~~~~l~~~~~~v~---~v~ISvDP~~DTp~~L~~Y~~~~~~~~~~ltg~~~~i~~l~~~~~v~~~~~ 141 (174)
T PF02630_consen 67 VCPTTLANLSQLQKQLGEEGKDVQ---FVFISVDPERDTPEVLKKYAKKFGPDFIGLTGSREEIEELAKQFGVYYEKV 141 (174)
T ss_dssp HHHHHHHHHHHHHHHHHHTTTTEE---EEEEESSTTTC-HHHHHHHHHCHTTTCEEEEEEHHHHHHHHHHCTHCEEEE
T ss_pred cCHHHHHHHHHHHHHhhhccCceE---EEEEEeCCCCCCHHHHHHHHHhcCCCcceeEeCHHHHHHHHHHHHhhhccc
Confidence 3565555555555443 34443 455556699999999997765 999999999877644 577777666533
No 329
>PRK07998 gatY putative fructose-1,6-bisphosphate aldolase; Reviewed
Probab=21.62 E-value=2.7e+02 Score=23.47 Aligned_cols=54 Identities=11% Similarity=0.217 Sum_probs=35.9
Q ss_pred ccCHH--HHHHHHHHHHHhCCceecceEEEEeCCCC---------CCCHHHHH-HHHHcCCCeeeccc
Q psy17033 4 AFDNS--TRQIIIDSLKELGFKFHDKGTAVCIEGPR---------FSSRAESN-LFRSWNAHLVNMTL 59 (148)
Q Consensus 4 ~Yd~~--Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~---------fET~AE~r-~~r~~GaDvVGMSt 59 (148)
||... +-+.+.+.|...|+.+ ||-...+.|.. |.+|.|.+ |.+..|+|.+.-+.
T Consensus 109 ~~eeNi~~T~~vve~Ah~~gv~V--EaElG~vgg~ed~~~~~~~~~T~pe~a~~Fv~~TgvD~LAvai 174 (283)
T PRK07998 109 PFEENIAFTKEAVDFAKSYGVPV--EAELGAILGKEDDHVSEADCKTEPEKVKDFVERTGCDMLAVSI 174 (283)
T ss_pred CHHHHHHHHHHHHHHHHHcCCEE--EEEeccCCCccccccccccccCCHHHHHHHHHHhCcCeeehhc
Confidence 45333 3455667788888875 45555555543 88999976 55679999887655
No 330
>TIGR01093 aroD 3-dehydroquinate dehydratase, type I. Type II 3-dehydroquinate dehydratase, designated AroQ, is described by TIGR01088.
Probab=21.59 E-value=1.7e+02 Score=23.21 Aligned_cols=52 Identities=15% Similarity=0.180 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHhCCceecceEEEEeC-CCCCCC-HHHHHHHHHcCCCeeecccch
Q psy17033 8 STRQIIIDSLKELGFKFHDKGTAVCIE-GPRFSS-RAESNLFRSWNAHLVNMTLVP 61 (148)
Q Consensus 8 ~Lr~~~~~~a~~~gi~~~~~GvY~~~~-GP~fET-~AE~r~~r~~GaDvVGMStvP 61 (148)
+..+.+.+.+++.+.++. +.|=.+. .|+.+. ..-.+.++.+|||+|=+.+.|
T Consensus 105 ~~~~~l~~~~~~~~~kvI--~S~H~f~~tp~~~~l~~~~~~~~~~gaDivKia~~a 158 (228)
T TIGR01093 105 DAVKELINIAKKGGTKII--MSYHDFQKTPSWEEIVERLEKALSYGADIVKIAVMA 158 (228)
T ss_pred HHHHHHHHHHHHCCCEEE--EeccCCCCCCCHHHHHHHHHHHHHhCCCEEEEEecc
Confidence 334444444444444433 2333222 344433 234567778999999877765
No 331
>cd08610 GDPD_GDE6 Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE6 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE6 (also known as glycerophosphodiester phosphodiesterase domain-containing protein 4 (GDPD4)) and their metazoan homologs. Mammalian GDE6 is a transmembrane protein predominantly expressed in the spermatocytes of testis. Although the specific physiological function of mammalian GDE6 has not been elucidated, its different pattern of tissue distribution suggests it might play a critical role in the completion of meiosis during male germ cell differentiation.
Probab=21.52 E-value=1.4e+02 Score=25.44 Aligned_cols=43 Identities=12% Similarity=-0.088 Sum_probs=24.2
Q ss_pred CCCHHHHHHHHHcCCCeeecccchHHHHHHH-cCCceeEEEeeeccc
Q psy17033 38 FSSRAESNLFRSWNAHLVNMTLVPEVVLAKE-AGLLYAAVAMATDYD 83 (148)
Q Consensus 38 fET~AE~r~~r~~GaDvVGMStvPEvilAre-~Gm~~~~is~VTN~a 83 (148)
+-|++-++.++..|-.+.-- ||-+.-.++. ..+.|= +++||+-
T Consensus 232 ~l~~~~v~~a~~~Gl~V~vW-TVNd~~~~~~l~~~GVD--gIiTD~P 275 (316)
T cd08610 232 KLFSNDIRDYKAANIHTNVY-VINEPWLFSLAWCSGIH--SVTTNNI 275 (316)
T ss_pred hCCHHHHHHHHHCCCEEEEE-CCCCHHHHHHHHhCCcC--EEEeCCH
Confidence 44788888888888665444 4433222222 222222 4788873
No 332
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=21.50 E-value=3.4e+02 Score=21.00 Aligned_cols=72 Identities=18% Similarity=0.140 Sum_probs=39.1
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeec-ccc-hHHH-H-HHHc-CCceeEE
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNM-TLV-PEVV-L-AKEA-GLLYAAV 76 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGM-Stv-PEvi-l-Are~-Gm~~~~i 76 (148)
.+||-..+.+-+.+.+++.|+.+. +.....|. ....=++.+...+.|.|-. ++. ++.+ - +.+. +++++.+
T Consensus 12 ~~~f~~~l~~gi~~~~~~~gy~~~----~~~~~~~~-~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvv~~ 86 (260)
T cd06304 12 DKSFNQSAYEGLEKAEKELGVEVK----YVESVEDA-DYEPNLRQLAAQGYDLIFGVGFGFMDAVEKVAKEYPDVKFAII 86 (260)
T ss_pred cchHHHHHHHHHHHHHHhcCceEE----EEecCCHH-HHHHHHHHHHHcCCCEEEECCcchhHHHHHHHHHCCCCEEEEe
Confidence 468899999999999999887654 21111221 1111234455577784433 322 2322 2 2223 6776665
Q ss_pred Ee
Q psy17033 77 AM 78 (148)
Q Consensus 77 s~ 78 (148)
.-
T Consensus 87 ~~ 88 (260)
T cd06304 87 DG 88 (260)
T ss_pred cC
Confidence 43
No 333
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=21.45 E-value=4.2e+02 Score=21.01 Aligned_cols=70 Identities=11% Similarity=-0.033 Sum_probs=41.8
Q ss_pred ccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccch-HH----HHHHHcCCceeEE
Q psy17033 4 AFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVP-EV----VLAKEAGLLYAAV 76 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvP-Ev----ilAre~Gm~~~~i 76 (148)
.|.....+.+++.+++.|+++.....|- .....| .++..-++..++|+|-....+ ++ ..+++.|+++--+
T Consensus 144 ~~~~~~~~~~~~~~~~~G~~v~~~~~~~-~~~~d~--~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p~~ 218 (312)
T cd06333 144 AYGESGLKELKALAPKYGIEVVADERYG-RTDTSV--TAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGPIY 218 (312)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEEEeeC-CCCcCH--HHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCCEE
Confidence 4556677788888999998875222221 222233 344555556789988776533 32 2367788875433
No 334
>PRK06608 threonine dehydratase; Provisional
Probab=21.35 E-value=2.8e+02 Score=23.52 Aligned_cols=42 Identities=14% Similarity=0.141 Sum_probs=29.8
Q ss_pred HHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHH
Q psy17033 15 DSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEV 63 (148)
Q Consensus 15 ~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEv 63 (148)
-+|+.+|++++ +|+ |.--++.=.+.+|.+||+++-.....|+
T Consensus 89 ~~a~~~G~~~~---vv~----p~~~~~~k~~~l~~~GA~V~~~~~~~~~ 130 (338)
T PRK06608 89 YASKLFGIKTR---IYL----PLNTSKVKQQAALYYGGEVILTNTRQEA 130 (338)
T ss_pred HHHHHcCCCEE---EEE----CCCCCHHHHHHHHhCCCEEEEECCHHHH
Confidence 45566777755 443 6666777788999999999977554554
No 335
>cd08582 GDPD_like_2 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized bacterial glycerophosphodiester phosphodiesterase and similar proteins. They show high sequence similarity to Escherichia coli glycerophosphodiester phosphodiesterase, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=21.18 E-value=2.5e+02 Score=21.90 Aligned_cols=17 Identities=18% Similarity=-0.009 Sum_probs=9.4
Q ss_pred CCHHHHHHHHHcCCCee
Q psy17033 39 SSRAESNLFRSWNAHLV 55 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvV 55 (148)
-++..++.++..|--+.
T Consensus 189 ~~~~~v~~~~~~G~~v~ 205 (233)
T cd08582 189 LNPAFIKALRDAGLKLN 205 (233)
T ss_pred CCHHHHHHHHHCCCEEE
Confidence 35556666666664433
No 336
>PF00708 Acylphosphatase: Acylphosphatase; InterPro: IPR001792 Acylphosphatase (3.6.1.7 from EC) is an enzyme of approximately 98 amino acid residues that specifically catalyses the hydrolysis of the carboxyl-phosphate bond of acylphosphates [], its substrates including 1,3-diphosphoglycerate and carbamyl phosphate []. The enzyme has a mainly beta-sheet structure with 2 short alpha-helical segments. It is distributed in a tissue-specific manner in a wide variety of species, although its physiological role is as yet unknown []: it may, however, play a part in the regulation of the glycolytic pathway and pyrimidine biosynthesis []. There are two known isozymes. One seems to be specific to muscular tissues, the other, called 'organ-common type', is found in many different tissues. While bacterial and archebacterial hypothetical proteins that are highly similar to that enzyme and that probably possess the same activity. These proteins include: Escherichia coli putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (gene yccX). Bacillus subtilis putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (gene yflL). Archaeoglobus fulgidus putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (O29440 from SWISSPROT). An acylphosphatase-like domain is also found in some prokaryotic hydrogenase maturation HypF carbamoyltransferases [, ].; PDB: 1APS_A 1GXT_A 1GXU_A 2HLT_A 2FHM_A 2HLU_A 3BR8_A 1ULR_A 3TRG_A 2BJD_A ....
Probab=21.00 E-value=93 Score=21.04 Aligned_cols=29 Identities=21% Similarity=0.328 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHhCCc----eecce-EEEEeCCCC
Q psy17033 9 TRQIIIDSLKELGFK----FHDKG-TAVCIEGPR 37 (148)
Q Consensus 9 Lr~~~~~~a~~~gi~----~~~~G-vY~~~~GP~ 37 (148)
.|..+.+.|.++|+. -...| |.+.++||.
T Consensus 19 FR~~v~~~A~~~gl~G~V~N~~dg~V~i~~~G~~ 52 (91)
T PF00708_consen 19 FRPFVKRIARKLGLTGWVRNLPDGSVEIEAEGEE 52 (91)
T ss_dssp HHHHHHHHHHHTT-EEEEEE-TTSEEEEEEEEEH
T ss_pred hhHHHHHHHHHhCCceEEEECCCCEEEEEEEeCH
Confidence 578889999999984 34478 999999954
No 337
>cd00517 ATPS ATP-sulfurylase. ATP-sulfurylase (ATPS), also known as sulfate adenylate transferase, catalyzes the transfer of an adenylyl group from ATP to sulfate, forming adenosine 5'-phosphosulfate (APS). This reaction is generally accompanied by a further reaction, catalyzed by APS kinase, in which APS is phosphorylated to yield 3'-phospho-APS (PAPS). In some organisms the APS kinase is a separate protein, while in others it is incorporated with ATP sulfurylase in a bifunctional enzyme that catalyzes both reactions. In bifunctional proteins, the domain that performs the kinase activity can be attached at the N-terminal end of the sulfurylase unit or at the C-terminal end, depending on the organism. While the reaction is ubiquitous among organisms, the physiological role of the reaction varies. In some organisms it is used to generate APS from sulfate and ATP, while in others it proceeds in the opposite direction to generate ATP from APS and pyrophosphate. ATP sulfurylase can be
Probab=20.95 E-value=2.1e+02 Score=24.84 Aligned_cols=73 Identities=18% Similarity=0.135 Sum_probs=42.2
Q ss_pred ceEEEEeCCCCC-------CCHHHHH-HHHHcCC-Ceeecccc------hHHHH--HHH-cCCceeEEEeeeccccccCC
Q psy17033 27 KGTAVCIEGPRF-------SSRAESN-LFRSWNA-HLVNMTLV------PEVVL--AKE-AGLLYAAVAMATDYDCWRDT 88 (148)
Q Consensus 27 ~GvY~~~~GP~f-------ET~AE~r-~~r~~Ga-DvVGMStv------PEvil--Are-~Gm~~~~is~VTN~a~~~~~ 88 (148)
.|-+-.+.=|.+ -||+|+| .|+..|+ .|||+.|- +|-+. |.+ ++ +=.+.-|.-.|...
T Consensus 123 gG~v~~l~~~~~~~f~~~r~tP~e~R~~f~~~gw~~VvafqtrnP~HraHe~l~~~a~~~~~----~~~lll~plvG~~k 198 (353)
T cd00517 123 GGPIEVLELPPFPDFDQYRLTPAELRALFKERGWRRVVAFQTRNPMHRAHEELMKRAAEKLL----NDGLLLHPLVGWTK 198 (353)
T ss_pred eeEEEEeecCCcCCchhhcCCHHHHHHHHHHcCCCeEEEeecCCCCchhhHHHHHHHHHHcC----CCcEEEEeccCCCC
Confidence 577766766776 8999998 5667887 78887774 56443 322 33 01233333334322
Q ss_pred CCCCCHHHHHHHHHH
Q psy17033 89 GNKVCVADVLKTFKE 103 (148)
Q Consensus 89 ~~~v~~eeVl~~~~~ 103 (148)
...+.++-.+++.+.
T Consensus 199 ~~d~~~~~r~~~~~~ 213 (353)
T cd00517 199 PGDVPDEVRMRAYEA 213 (353)
T ss_pred CCCCCHHHHHHHHHH
Confidence 345677655554443
No 338
>PRK08198 threonine dehydratase; Provisional
Probab=20.91 E-value=2e+02 Score=24.67 Aligned_cols=43 Identities=21% Similarity=0.250 Sum_probs=29.3
Q ss_pred HHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeec-ccchHHH
Q psy17033 15 DSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNM-TLVPEVV 64 (148)
Q Consensus 15 ~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGM-StvPEvi 64 (148)
-+|+.+|++++ +|+ |.-..+..++++|.+||+++=. +...|+.
T Consensus 87 ~~a~~~G~~~~---iv~----p~~~~~~k~~~~~~~GA~Vi~~~~~~~~~~ 130 (404)
T PRK08198 87 YAASLLGIKAT---IVM----PETAPLSKVKATRSYGAEVVLHGDVYDEAL 130 (404)
T ss_pred HHHHHcCCCEE---EEE----CCCCCHHHHHHHHhCCCEEEEECCCHHHHH
Confidence 34566677654 333 6656677788999999999855 3556664
No 339
>PF04236 Transp_Tc5_C: Tc5 transposase C-terminal domain; InterPro: IPR007350 This domain corresponds to a C-terminal cysteine rich region that probably binds to a metal ion and could be DNA-binding. It is found in association with the DDE superfamily (IPR004875 from INTERPRO) and the Tc5 transposase family (IPR004906 from INTERPRO). More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=20.87 E-value=52 Score=21.67 Aligned_cols=20 Identities=15% Similarity=0.165 Sum_probs=16.6
Q ss_pred ceEEEEeCCCCCCCHHHHHH
Q psy17033 27 KGTAVCIEGPRFSSRAESNL 46 (148)
Q Consensus 27 ~GvY~~~~GP~fET~AE~r~ 46 (148)
.+-|....=|.|+||+|..+
T Consensus 3 ksGY~~~~p~~f~tP~~~cF 22 (63)
T PF04236_consen 3 KSGYLDPRPPPFETPVDFCF 22 (63)
T ss_pred ccccCCCCCCCCCCHHHHhC
Confidence 34588888899999999983
No 340
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); its ligand specificity has not been determined experimentally.
Probab=20.84 E-value=3.9e+02 Score=20.47 Aligned_cols=77 Identities=17% Similarity=0.163 Sum_probs=44.3
Q ss_pred CCcccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHH---HHHHcCCCe-eeccc-chHHHHHHHcCCceeE
Q psy17033 1 MEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN---LFRSWNAHL-VNMTL-VPEVVLAKEAGLLYAA 75 (148)
Q Consensus 1 m~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r---~~r~~GaDv-VGMSt-vPEvilAre~Gm~~~~ 75 (148)
+.++|-..+.+-+.+.+++.|...- .-+-+.+....++...+.+ .+...+.|. |+.++ ..+...+++.|++++.
T Consensus 8 ~~~~~~~~~~~gi~~~~~~~g~~~g-~~v~l~~~~~~~~~~~~~~~~~~l~~~~vd~iI~~~~~~~~~~~~~~~~iPvV~ 86 (281)
T cd06325 8 VEHPALDAARKGFKDGLKEAGYKEG-KNVKIDYQNAQGDQSNLPTIARKFVADKPDLIVAIATPAAQAAANATKDIPIVF 86 (281)
T ss_pred CCCcchHHHHHHHHHHHHHhCccCC-ceEEEEEecCCCCHHHHHHHHHHHHhcCCCEEEEcCcHHHHHHHHcCCCCCEEE
Confidence 3577888888889999988876321 1111222223344444443 455667883 34333 2333446677999888
Q ss_pred EEe
Q psy17033 76 VAM 78 (148)
Q Consensus 76 is~ 78 (148)
+..
T Consensus 87 ~~~ 89 (281)
T cd06325 87 TAV 89 (281)
T ss_pred Eec
Confidence 763
No 341
>cd01562 Thr-dehyd Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly converted into NH4+. The direct deamination is catalyzed by threonine dehydratase, in which pyridoxal phosphate (PLP) is the prosthetic group. Threonine dehydratase is widely distributed in all three major phylogenetic divisions.
Probab=20.77 E-value=2.2e+02 Score=23.02 Aligned_cols=39 Identities=21% Similarity=0.220 Sum_probs=26.6
Q ss_pred HHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeeccc
Q psy17033 14 IDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTL 59 (148)
Q Consensus 14 ~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMSt 59 (148)
.-+|+.+|++++ +|+ |.-..+.-.+.++.+|++++-...
T Consensus 81 A~~a~~~G~~~~---ivv----p~~~~~~k~~~l~~~Ga~vi~~~~ 119 (304)
T cd01562 81 AYAAKLLGIPAT---IVM----PETAPAAKVDATRAYGAEVVLYGE 119 (304)
T ss_pred HHHHHHcCCCEE---EEE----CCCCCHHHHHHHHHcCCEEEEeCC
Confidence 345566777655 333 444456778899999999987654
No 342
>PRK00053 alr alanine racemase; Reviewed
Probab=20.71 E-value=1.1e+02 Score=25.82 Aligned_cols=44 Identities=11% Similarity=0.160 Sum_probs=32.7
Q ss_pred EEEEeCCCCC--CCHHHHHHHHHcCCCeeecccchHHHHHHHcCCc
Q psy17033 29 TAVCIEGPRF--SSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLL 72 (148)
Q Consensus 29 vY~~~~GP~f--ET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~ 72 (148)
++..+-.=.| -.+.=.+.+...|++-++.+++-|+...|+.|+.
T Consensus 30 i~~vvKanaYghg~~~i~~~l~~~G~~~~~vas~~Ea~~l~~~G~~ 75 (363)
T PRK00053 30 LMAVVKANAYGHGAVEVAKTLLEAGADGFGVATLEEALELREAGIT 75 (363)
T ss_pred EEEEEeeccccCcHHHHHHHHHHCCCCEEEECcHHHHHHHHhcCCC
Confidence 4555554433 2444455777899999999999999999999874
No 343
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=20.69 E-value=2.6e+02 Score=20.72 Aligned_cols=54 Identities=22% Similarity=0.261 Sum_probs=32.0
Q ss_pred HHHHHHHHhCCceecceEEEEeCCCCCCCHHHH-HHHHHcCCCeeeccc--------chHHH-HHHHcCCce
Q psy17033 12 IIIDSLKELGFKFHDKGTAVCIEGPRFSSRAES-NLFRSWNAHLVNMTL--------VPEVV-LAKEAGLLY 73 (148)
Q Consensus 12 ~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~-r~~r~~GaDvVGMSt--------vPEvi-lAre~Gm~~ 73 (148)
++....+..|+++.+-|+ +-+++|+ +..+.-++|+||+|. +++++ +.|+.|++-
T Consensus 18 iv~~~L~~~GfeVidLG~--------~v~~e~~v~aa~~~~adiVglS~L~t~~~~~~~~~~~~l~~~gl~~ 81 (128)
T cd02072 18 ILDHAFTEAGFNVVNLGV--------LSPQEEFIDAAIETDADAILVSSLYGHGEIDCKGLREKCDEAGLKD 81 (128)
T ss_pred HHHHHHHHCCCEEEECCC--------CCCHHHHHHHHHHcCCCEEEEeccccCCHHHHHHHHHHHHHCCCCC
Confidence 333444556766654443 3345554 466778999999887 45544 356677743
No 344
>cd00331 IGPS Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the release of carbon dioxide and water. IGPS is active as a separate monomer in most organisms, but is also found fused to other enzymes as part of a bifunctional or multifunctional enzyme involved in tryptophan biosynthesis.
Probab=20.65 E-value=4e+02 Score=20.53 Aligned_cols=28 Identities=18% Similarity=0.097 Sum_probs=12.8
Q ss_pred HHcCCCe-eecccchHHHHHHHcCCceeE
Q psy17033 48 RSWNAHL-VNMTLVPEVVLAKEAGLLYAA 75 (148)
Q Consensus 48 r~~GaDv-VGMStvPEvilAre~Gm~~~~ 75 (148)
+.+|.|+ +..++.-|+.-+.++|..|.+
T Consensus 118 ~~~g~~~~v~v~~~~e~~~~~~~g~~~i~ 146 (217)
T cd00331 118 RELGMEVLVEVHDEEELERALALGAKIIG 146 (217)
T ss_pred HHcCCeEEEEECCHHHHHHHHHcCCCEEE
Confidence 3344443 233444445555555555554
No 345
>TIGR02739 TraF type-F conjugative transfer system pilin assembly protein TraF. This protein is part of a large group of proteins involved in conjugative transfer of plasmid DNA, specifically the F-type system. This protein has been predicted to contain a thioredoxin fold and has been shown to be localized to the periplasm. Unlike the related protein TrbB (TIGR02738), TraF does not contain a conserved pair of cysteines and has been shown not to function as a thiol disulfide isomerase by complementation of an Ecoli DsbA defect. The protein is believed to be involved in pilin assembly. Even more closely related than TrbB is a clade of genes (TIGR02740) which do contain the CXXC motif, but it is unclear whether these genes are involved in type-F conjugation systems per se.
Probab=20.57 E-value=1.4e+02 Score=24.83 Aligned_cols=83 Identities=11% Similarity=0.175 Sum_probs=49.8
Q ss_pred CcccCHHHHHHHHHHHHHhCCceecceEEEEeCC---CCCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCceeEEEe
Q psy17033 2 EPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEG---PRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAM 78 (148)
Q Consensus 2 ~~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~G---P~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~ 78 (148)
..+||..+.-++...+++.|+.+. ++.+.| |.|..+ .|..-+|..+|+.+.---+
T Consensus 161 ~C~~C~~~apil~~fa~~ygi~v~----~VS~DG~~~p~fp~~------------------~~d~gqa~~l~v~~~Pal~ 218 (256)
T TIGR02739 161 KSPISQKMAPVIQAFAKEYGISVI----PISVDGTLIPGLPNS------------------RSDSGQAQHLGVKYFPALY 218 (256)
T ss_pred CCchhHHHHHHHHHHHHHhCCeEE----EEecCCCCCCCCCCc------------------cCChHHHHhcCCccCceEE
Confidence 368999999999999999998876 666776 444432 1223356666665544444
Q ss_pred eecccccc---CCCCCCCHHHHHHHHHHHHH
Q psy17033 79 ATDYDCWR---DTGNKVCVADVLKTFKENVE 106 (148)
Q Consensus 79 VTN~a~~~---~~~~~v~~eeVl~~~~~~~~ 106 (148)
..|..... -.-..++.+++.+.+-....
T Consensus 219 Lv~~~t~~~~pv~~G~iS~deL~~Ri~~v~~ 249 (256)
T TIGR02739 219 LVNPKSQKMSPLAYGFISQDELKERILNVLT 249 (256)
T ss_pred EEECCCCcEEEEeeccCCHHHHHHHHHHHHh
Confidence 44433221 11345778887766554443
No 346
>PRK11750 gltB glutamate synthase subunit alpha; Provisional
Probab=20.56 E-value=8.8e+02 Score=25.52 Aligned_cols=65 Identities=17% Similarity=0.156 Sum_probs=45.5
Q ss_pred HHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHHHH----HHHcCCceeEEEeeec
Q psy17033 13 IIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVL----AKEAGLLYAAVAMATD 81 (148)
Q Consensus 13 ~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEvil----Are~Gm~~~~is~VTN 81 (148)
+.++..+.|++ +-|-+.+.|- +-|+.++-..-.+|||.||+.|.+=+.+ +|.|...-+...+.|-
T Consensus 1055 ~~~~L~~~glR---~rv~l~a~Gg-l~t~~Dv~kA~aLGAd~~~~gt~~lialGCi~~r~Ch~~~CPvGiaTq 1123 (1485)
T PRK11750 1055 THQALVANGLR---HKIRLQVDGG-LKTGLDVIKAAILGAESFGFGTGPMVALGCKYLRICHLNNCATGVATQ 1123 (1485)
T ss_pred HHHHHHhcCCC---cceEEEEcCC-cCCHHHHHHHHHcCCcccccchHHHHHcCCHHHHhhcCCCCCcEEecc
Confidence 44556666664 5577777776 4899999999999999999999987654 4555444444444444
No 347
>cd08570 GDPD_YPL206cp_fungi Glycerophosphodiester phosphodiesterase domain of Saccharomyces cerevisiae YPL206cp and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Saccharomyces cerevisiae YPL206cp and uncharacterized hypothetical homologs existing in fungi. The product of S. cerevisiae ORF YPL206c (PGC1), YPL206cp (Pgc1p), displays homology to bacterial and mammalian glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46), which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. S. cerevisiae YPL206cp is an integral membrane protein with a single GDPD domain following by a short hydrophobic C-terminal tail that may function as a membrane anchor. This protein plays an essential role in the regulation of the cardiolipin (CL) biosynthetic pathway in yeast by removing the excess phosphatidylglycerol (PG) content of membranes via a phospholip
Probab=20.46 E-value=2.1e+02 Score=22.43 Aligned_cols=21 Identities=10% Similarity=-0.042 Sum_probs=13.4
Q ss_pred CHHHHHHHHHcCCCeeecccc
Q psy17033 40 SRAESNLFRSWNAHLVNMTLV 60 (148)
Q Consensus 40 T~AE~r~~r~~GaDvVGMStv 60 (148)
++.-++.++..|-.+..-|.=
T Consensus 193 ~~~~v~~~~~~gl~v~~wTvn 213 (234)
T cd08570 193 GQAFLPELKKNGKKVFVWTVN 213 (234)
T ss_pred CHHHHHHHHHCCCEEEEEecC
Confidence 677777777777655544443
No 348
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=20.44 E-value=2.4e+02 Score=22.79 Aligned_cols=68 Identities=13% Similarity=0.141 Sum_probs=43.0
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecccchHH-----HHHHHcCCce
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEV-----VLAKEAGLLY 73 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMStvPEv-----ilAre~Gm~~ 73 (148)
.+|-..+.+.+.+.+++.|+++.... +....-+.|. +.++.++.-|+|+|-+...++. ..+++.|+..
T Consensus 145 ~~~g~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~d~~--~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~ 217 (340)
T cd06349 145 TDWGRTSADIFVKAAEKLGGQVVAHE-EYVPGEKDFR--PTITRLRDANPDAIILISYYNDGAPIARQARAVGLDI 217 (340)
T ss_pred ChHhHHHHHHHHHHHHHcCCEEEEEE-EeCCCCCcHH--HHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCC
Confidence 46777888889999999998876222 2222233444 3667778888998866655442 2245556653
No 349
>PRK07488 indole acetimide hydrolase; Validated
Probab=20.30 E-value=90 Score=27.60 Aligned_cols=27 Identities=7% Similarity=-0.011 Sum_probs=23.2
Q ss_pred CCHHHHHHHHHcCCCeeecccchHHHH
Q psy17033 39 SSRAESNLFRSWNAHLVNMTLVPEVVL 65 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGMStvPEvil 65 (148)
+...=++.+|..||-++|-|++||--.
T Consensus 106 ~dA~vV~rLr~aGAii~GKTn~~E~~~ 132 (472)
T PRK07488 106 TDAPVVQRLLDAGAVPLGKANMHELAF 132 (472)
T ss_pred CCHHHHHHHHHCCCeeeeccChhHHhc
Confidence 455678999999999999999999654
No 350
>PLN02746 hydroxymethylglutaryl-CoA lyase
Probab=20.29 E-value=5.7e+02 Score=22.12 Aligned_cols=106 Identities=16% Similarity=0.150 Sum_probs=66.7
Q ss_pred ccCHHHHHHHHHHHHHhCCceecceEEEEeC--CCCCCCHHH-HHHHHHc-CCCeeecc-cchHHHHHHHcCCceeEEEe
Q psy17033 4 AFDNSTRQIIIDSLKELGFKFHDKGTAVCIE--GPRFSSRAE-SNLFRSW-NAHLVNMT-LVPEVVLAKEAGLLYAAVAM 78 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~--GP~fET~AE-~r~~r~~-GaDvVGMS-tvPEvilAre~Gm~~~~is~ 78 (148)
.|+.+-.-.+.+...+.|++...-|-++ -. .|++-.-.| .+.++.. +..+.+.. ....+-.|.++|...+.+.+
T Consensus 64 ~~s~e~Ki~ia~~L~~~GV~~IEvGs~v-spk~vPqmad~~ev~~~i~~~~~~~~~~l~~n~~die~A~~~g~~~v~i~~ 142 (347)
T PLN02746 64 IVPTSVKVELIQRLVSSGLPVVEATSFV-SPKWVPQLADAKDVMAAVRNLEGARFPVLTPNLKGFEAAIAAGAKEVAVFA 142 (347)
T ss_pred CCCHHHHHHHHHHHHHcCCCEEEECCCc-CcccccccccHHHHHHHHHhccCCceeEEcCCHHHHHHHHHcCcCEEEEEE
Confidence 4677777777788888899887455443 22 466665444 3455553 33332222 45677789999999988888
Q ss_pred eeccccccCCCCCCCHHHHHHHHHHHHHHHHHH
Q psy17033 79 ATDYDCWRDTGNKVCVADVLKTFKENVEKITKL 111 (148)
Q Consensus 79 VTN~a~~~~~~~~v~~eeVl~~~~~~~~~~~~l 111 (148)
-+....... ....+.+|+++.+.+..+..++.
T Consensus 143 s~Sd~h~~~-n~~~t~~e~l~~~~~~v~~Ak~~ 174 (347)
T PLN02746 143 SASESFSKS-NINCSIEESLVRYREVALAAKKH 174 (347)
T ss_pred ecCHHHHHH-HhCCCHHHHHHHHHHHHHHHHHc
Confidence 776432211 23467788888777666655543
No 351
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=20.25 E-value=2.1e+02 Score=23.71 Aligned_cols=45 Identities=9% Similarity=0.169 Sum_probs=28.6
Q ss_pred ccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHHHHHHHcCCCeeecc
Q psy17033 4 AFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMT 58 (148)
Q Consensus 4 ~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~r~~r~~GaDvVGMS 58 (148)
..+++..+.+.+.|.++|+... |= .-|.+|....-..|+++||..
T Consensus 141 ~L~~~~l~~l~~~a~~lGle~l---VE-------Vh~~~El~~al~~~a~iiGIN 185 (254)
T PF00218_consen 141 ILSDDQLEELLELAHSLGLEAL---VE-------VHNEEELERALEAGADIIGIN 185 (254)
T ss_dssp GSGHHHHHHHHHHHHHTT-EEE---EE-------ESSHHHHHHHHHTT-SEEEEE
T ss_pred hCCHHHHHHHHHHHHHcCCCeE---EE-------ECCHHHHHHHHHcCCCEEEEe
Confidence 4556666777888888887632 10 136778887777888888754
No 352
>PRK07709 fructose-bisphosphate aldolase; Provisional
Probab=20.20 E-value=3.5e+02 Score=22.77 Aligned_cols=54 Identities=11% Similarity=0.235 Sum_probs=35.1
Q ss_pred ccCHHHH--HHHHHHHHHhCCceecceEEEEeCCC-------C--CCCHHHHH-HHHHcCCCeeeccc
Q psy17033 4 AFDNSTR--QIIIDSLKELGFKFHDKGTAVCIEGP-------R--FSSRAESN-LFRSWNAHLVNMTL 59 (148)
Q Consensus 4 ~Yd~~Lr--~~~~~~a~~~gi~~~~~GvY~~~~GP-------~--fET~AE~r-~~r~~GaDvVGMSt 59 (148)
||+..++ +.+.+.|...|+.+ ||=...+.|- . |.+|.|.+ |++.-|+|.+.-|.
T Consensus 112 p~eeNi~~Trevv~~Ah~~gv~V--EaElG~igg~ed~~~~~~~~yT~peeA~~Fv~~TgvD~LAvai 177 (285)
T PRK07709 112 PFEENVETTKKVVEYAHARNVSV--EAELGTVGGQEDDVIAEGVIYADPAECKHLVEATGIDCLAPAL 177 (285)
T ss_pred CHHHHHHHHHHHHHHHHHcCCEE--EEEEeccCCccCCcccccccCCCHHHHHHHHHHhCCCEEEEee
Confidence 4555443 56677788888875 3555555543 1 78898887 55568888766543
No 353
>PRK06267 hypothetical protein; Provisional
Probab=20.13 E-value=2.6e+02 Score=23.83 Aligned_cols=72 Identities=11% Similarity=0.078 Sum_probs=37.1
Q ss_pred HHHHHHHHHhCCceecceEEEEeCCCCCCCHHH-HHHHHHcCCCeeecccchHHHHHHHcCCceeEEEeeeccc-cccCC
Q psy17033 11 QIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAE-SNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYD-CWRDT 88 (148)
Q Consensus 11 ~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE-~r~~r~~GaDvVGMStvPEvilAre~Gm~~~~is~VTN~a-~~~~~ 88 (148)
....+.+++.|+++. -|+-+.. |.+.+-..+ .++++.++.| .+.+...+-.. ....+
T Consensus 156 ~~~l~~ak~aGi~v~-~g~IiGl-gEt~ed~~~~l~~l~~l~~d-------------------~v~~~~L~P~pGTp~~~ 214 (350)
T PRK06267 156 KEMLLKAKDLGLKTG-ITIILGL-GETEDDIEKLLNLIEELDLD-------------------RITFYSLNPQKGTIFEN 214 (350)
T ss_pred HHHHHHHHHcCCeee-eeEEEeC-CCCHHHHHHHHHHHHHcCCC-------------------EEEEEeeeECCCCcCCC
Confidence 345567888898875 4444443 555444333 3344555544 44333333221 11122
Q ss_pred CCCCCHHHHHHHHHH
Q psy17033 89 GNKVCVADVLKTFKE 103 (148)
Q Consensus 89 ~~~v~~eeVl~~~~~ 103 (148)
..+++.++++++...
T Consensus 215 ~~~~s~~e~lr~ia~ 229 (350)
T PRK06267 215 KPSVTTLEYMNWVSS 229 (350)
T ss_pred CCCCCHHHHHHHHHH
Confidence 356888888866653
No 354
>TIGR03127 RuMP_HxlB 6-phospho 3-hexuloisomerase. Members of this protein family are 6-phospho 3-hexuloisomerase (PHI), or the PHI domain of a fusion protein. This enzyme is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate. In the other direction, in species lacking a complete pentose phosphate pathway, the RuMP pathway yields ribulose-5-phosphate, necessary for nucleotide biosynthesis, at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin.
Probab=20.12 E-value=94 Score=23.29 Aligned_cols=47 Identities=21% Similarity=0.203 Sum_probs=33.3
Q ss_pred ceEEEEeCCC--CCCCHHHHHHHHHcCCCeeecccchHHHHHHHcCCce
Q psy17033 27 KGTAVCIEGP--RFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLY 73 (148)
Q Consensus 27 ~GvY~~~~GP--~fET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~~ 73 (148)
+-+.+.++.+ .-++..=.+..+..|+.+|++|.-|+--+|+.+....
T Consensus 73 ~Dv~I~iS~sG~t~~~i~~~~~ak~~g~~ii~IT~~~~s~la~~ad~~l 121 (179)
T TIGR03127 73 GDLLIAISGSGETESLVTVAKKAKEIGATVAAITTNPESTLGKLADVVV 121 (179)
T ss_pred CCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCCchHHhCCEEE
Confidence 4455555543 4444555566788999999999999999999876443
No 355
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=20.09 E-value=1.6e+02 Score=24.41 Aligned_cols=28 Identities=7% Similarity=-0.137 Sum_probs=18.5
Q ss_pred EEEEeCCCCCCCHHHHHHHHHcCCCeee
Q psy17033 29 TAVCIEGPRFSSRAESNLFRSWNAHLVN 56 (148)
Q Consensus 29 vY~~~~GP~fET~AE~r~~r~~GaDvVG 56 (148)
+++.+.+..-+|....+..+.+|+|.|-
T Consensus 79 vi~gv~~~t~~~i~~~~~a~~~Gadav~ 106 (303)
T PRK03620 79 VIAGAGGGTAQAIEYAQAAERAGADGIL 106 (303)
T ss_pred EEEecCCCHHHHHHHHHHHHHhCCCEEE
Confidence 5566654334666667778888888873
No 356
>PRK09201 amidase; Provisional
Probab=20.07 E-value=70 Score=28.26 Aligned_cols=27 Identities=15% Similarity=0.057 Sum_probs=23.1
Q ss_pred CCHHHHHHHHHcCCCeeecccchHHHH
Q psy17033 39 SSRAESNLFRSWNAHLVNMTLVPEVVL 65 (148)
Q Consensus 39 ET~AE~r~~r~~GaDvVGMStvPEvil 65 (148)
++..=++.+|..||-++|-|++||--+
T Consensus 105 ~dA~vV~~Lr~aGAii~GKTn~~Efa~ 131 (465)
T PRK09201 105 RDATAVRRLEAAGAVLVGALNMDEYAY 131 (465)
T ss_pred CChHHHHHHHHCCCEEEEecChHHHhc
Confidence 345568999999999999999999754
No 357
>TIGR00492 alr alanine racemase. This enzyme interconverts L-alanine and D-alanine. Its primary function is to generate D-alanine for cell wall formation. With D-alanine-D-alanine ligase, it makes up the D-alanine branch of the peptidoglycan biosynthetic route. It is a monomer with one pyridoxal phosphate per subunit. In E. coli, the ortholog is duplicated so that a second isozyme, DadX, is present. DadX, a paralog of the biosynthetic Alr, is induced by D- or L-alanine and is involved in catabolism.
Probab=20.06 E-value=1.4e+02 Score=25.21 Aligned_cols=44 Identities=9% Similarity=0.162 Sum_probs=33.7
Q ss_pred EEEEeCCCCC--CCHHHHHHHHHcCCCeeecccchHHHHHHHcCCc
Q psy17033 29 TAVCIEGPRF--SSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLL 72 (148)
Q Consensus 29 vY~~~~GP~f--ET~AE~r~~r~~GaDvVGMStvPEvilAre~Gm~ 72 (148)
++..+-.=.| -.+.-.+.+...|++-++.++..|+..+|+.|+.
T Consensus 29 i~~vvKAnaYGhg~~~i~~~l~~~G~~~~~vas~~Ea~~lr~~G~~ 74 (367)
T TIGR00492 29 IMAVVKANAYGHGLIEVAKTLLQAGADYFGVANLEEAITLRKAGIT 74 (367)
T ss_pred EEEEEEcCCccCcHHHHHHHHHHCCCCEEEECcHHHHHHHHhcCCC
Confidence 4454444333 3455667888999999999999999999999875
No 358
>PF01012 ETF: Electron transfer flavoprotein domain; InterPro: IPR014730 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems. They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the N-terminal domain of both the alpha and beta subunits from Group I and Group II ETFs.; PDB: 1EFP_B 3FET_B 3IH5_B 2A1T_S 1EFV_B 1T9G_S 2A1U_B 1O96_E 1O94_C 3CLU_C ....
Probab=20.03 E-value=1.4e+02 Score=22.01 Aligned_cols=45 Identities=13% Similarity=0.127 Sum_probs=25.8
Q ss_pred cccCHHHHHHHHHHHHHhCCceecceEEEEeCCCCCCCHHHH-H-HHHHcCCC
Q psy17033 3 PAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAES-N-LFRSWNAH 53 (148)
Q Consensus 3 ~~Yd~~Lr~~~~~~a~~~gi~~~~~GvY~~~~GP~fET~AE~-r-~~r~~GaD 53 (148)
++++.++...+++.+++.|-++ -+.+-| ..+..++. + .+...|+|
T Consensus 14 ~~~~~e~l~~A~~La~~~g~~v-----~av~~G-~~~~~~~~l~~~l~~~G~d 60 (164)
T PF01012_consen 14 NPVSLEALEAARRLAEALGGEV-----TAVVLG-PAEEAAEALRKALAKYGAD 60 (164)
T ss_dssp -HHHHHHHHHHHHHHHCTTSEE-----EEEEEE-TCCCHHHHHHHHHHSTTES
T ss_pred CHHHHHHHHHHHHHHhhcCCeE-----EEEEEe-cchhhHHHHhhhhhhcCCc
Confidence 4677888888888888776543 344445 32333332 3 34446765
Done!