Query 039912
Match_columns 198
No_of_seqs 28 out of 30
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 03:16:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039912.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039912hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06167 LabA_like LabA_like pr 99.0 2.1E-09 4.5E-14 81.7 7.5 82 34-115 55-144 (149)
2 PF01936 NYN: NYN domain; Int 98.9 3E-09 6.5E-14 79.2 6.6 84 36-119 52-144 (146)
3 TIGR00288 conserved hypothetic 98.3 1.2E-06 2.5E-11 72.8 6.6 82 35-119 70-154 (160)
4 COG1432 Uncharacterized conser 97.6 0.00021 4.5E-09 58.9 6.8 84 39-122 68-162 (181)
5 cd05013 SIS_RpiR RpiR-like pro 96.1 0.048 1E-06 39.4 7.7 77 36-119 31-110 (139)
6 cd05014 SIS_Kpsf KpsF-like pro 95.5 0.027 5.8E-07 41.6 4.4 78 36-120 18-98 (128)
7 PRK15482 transcriptional regul 95.1 0.086 1.9E-06 44.9 7.0 96 17-119 122-232 (285)
8 cd01542 PBP1_TreR_like Ligand- 94.9 0.14 3.1E-06 40.4 7.3 69 34-105 19-87 (259)
9 cd06281 PBP1_LacI_like_5 Ligan 94.8 0.15 3.2E-06 40.9 7.4 83 34-121 19-101 (269)
10 cd06282 PBP1_GntR_like_2 Ligan 94.8 0.17 3.7E-06 39.8 7.4 69 35-105 20-88 (266)
11 PF13407 Peripla_BP_4: Peripla 94.6 0.25 5.4E-06 39.4 8.0 91 35-129 19-111 (257)
12 cd06318 PBP1_ABC_sugar_binding 94.4 0.24 5.1E-06 39.8 7.6 70 34-105 19-89 (282)
13 cd06305 PBP1_methylthioribose_ 94.3 0.24 5.2E-06 39.4 7.4 70 34-105 19-89 (273)
14 cd01545 PBP1_SalR Ligand-bindi 94.3 0.18 4E-06 39.9 6.7 71 34-105 19-89 (270)
15 cd06313 PBP1_ABC_sugar_binding 94.2 0.24 5.3E-06 40.4 7.3 70 34-105 19-89 (272)
16 PF01380 SIS: SIS domain SIS d 94.1 0.083 1.8E-06 38.4 4.1 48 72-119 53-103 (131)
17 PRK11337 DNA-binding transcrip 94.1 0.2 4.3E-06 42.6 6.9 95 18-119 128-237 (292)
18 TIGR00441 gmhA phosphoheptose 94.1 0.21 4.6E-06 39.4 6.6 51 71-121 78-131 (154)
19 TIGR02634 xylF D-xylose ABC tr 93.7 0.31 6.8E-06 41.0 7.3 69 35-105 19-88 (302)
20 cd06324 PBP1_ABC_sugar_binding 93.6 0.26 5.7E-06 41.1 6.7 69 35-105 21-91 (305)
21 cd06312 PBP1_ABC_sugar_binding 93.5 0.36 7.9E-06 38.8 7.2 97 35-135 21-121 (271)
22 PRK15408 autoinducer 2-binding 93.5 0.28 6.1E-06 43.1 7.1 70 34-105 43-114 (336)
23 cd05008 SIS_GlmS_GlmD_1 SIS (S 93.4 0.14 3.1E-06 37.6 4.2 48 72-119 46-96 (126)
24 cd01540 PBP1_arabinose_binding 93.1 0.46 1E-05 38.4 7.2 68 35-105 20-88 (289)
25 cd06320 PBP1_allose_binding Pe 93.1 0.41 8.8E-06 38.4 6.7 70 34-105 19-91 (275)
26 cd01541 PBP1_AraR Ligand-bindi 93.0 0.55 1.2E-05 37.6 7.4 70 34-105 19-92 (273)
27 cd06317 PBP1_ABC_sugar_binding 93.0 0.58 1.3E-05 37.2 7.5 69 35-105 21-90 (275)
28 cd06306 PBP1_TorT-like TorT-li 93.0 0.49 1.1E-05 38.4 7.2 70 34-105 19-90 (268)
29 cd06303 PBP1_LuxPQ_Quorum_Sens 93.0 0.43 9.4E-06 39.0 6.9 71 34-105 20-93 (280)
30 PRK11557 putative DNA-binding 92.9 0.5 1.1E-05 39.8 7.4 97 16-119 114-225 (278)
31 cd05005 SIS_PHI Hexulose-6-pho 92.9 0.16 3.5E-06 40.4 4.2 93 16-120 19-126 (179)
32 cd06295 PBP1_CelR Ligand bindi 92.9 0.52 1.1E-05 37.8 7.1 65 35-104 31-95 (275)
33 PRK13937 phosphoheptose isomer 92.7 0.47 1E-05 38.7 6.7 49 73-121 107-158 (188)
34 TIGR02637 RhaS rhamnose ABC tr 92.5 0.53 1.1E-05 38.9 6.9 70 34-105 18-90 (302)
35 cd06299 PBP1_LacI_like_13 Liga 92.2 0.82 1.8E-05 36.2 7.4 68 35-105 20-87 (265)
36 cd06315 PBP1_ABC_sugar_binding 92.0 0.77 1.7E-05 37.6 7.2 69 34-104 20-89 (280)
37 cd06270 PBP1_GalS_like Ligand 92.0 0.84 1.8E-05 36.5 7.2 69 34-105 19-87 (268)
38 cd06308 PBP1_sensor_kinase_lik 91.9 0.88 1.9E-05 36.5 7.3 70 34-105 19-90 (270)
39 PRK10653 D-ribose transporter 91.9 0.68 1.5E-05 38.2 6.8 71 33-105 45-116 (295)
40 cd06302 PBP1_LsrB_Quorum_Sensi 91.9 0.78 1.7E-05 38.2 7.2 70 34-105 19-90 (298)
41 cd05710 SIS_1 A subgroup of th 91.9 0.31 6.6E-06 36.8 4.4 46 74-119 49-97 (120)
42 cd01538 PBP1_ABC_xylose_bindin 91.8 0.97 2.1E-05 37.2 7.6 90 34-128 19-109 (288)
43 cd06289 PBP1_MalI_like Ligand- 91.8 1 2.3E-05 35.4 7.5 69 35-105 20-88 (268)
44 cd06316 PBP1_ABC_sugar_binding 91.7 0.94 2E-05 37.2 7.4 71 34-105 19-90 (294)
45 TIGR03127 RuMP_HxlB 6-phospho 91.6 0.31 6.7E-06 38.6 4.4 91 17-119 17-122 (179)
46 cd06323 PBP1_ribose_binding Pe 91.6 1.1 2.3E-05 35.4 7.3 85 34-121 19-104 (268)
47 cd01987 USP_OKCHK USP domain i 91.4 2 4.4E-05 31.0 8.1 56 56-112 46-101 (124)
48 PRK10014 DNA-binding transcrip 91.2 1 2.3E-05 37.6 7.3 69 35-105 85-153 (342)
49 cd06309 PBP1_YtfQ_like Peripla 91.1 1.2 2.6E-05 35.8 7.4 70 34-105 19-89 (273)
50 PRK14101 bifunctional glucokin 91.0 1.3 2.8E-05 42.5 8.7 95 17-119 455-564 (638)
51 PRK10936 TMAO reductase system 91.0 0.92 2E-05 39.2 7.0 89 34-128 66-157 (343)
52 cd06322 PBP1_ABC_sugar_binding 90.9 1.3 2.9E-05 35.2 7.3 69 34-105 19-89 (267)
53 PRK11302 DNA-binding transcrip 90.9 2.2 4.7E-05 35.8 9.0 95 17-119 115-224 (284)
54 cd06311 PBP1_ABC_sugar_binding 90.9 1.4 3.1E-05 35.4 7.5 69 35-105 20-94 (274)
55 cd06296 PBP1_CatR_like Ligand- 90.9 1.4 3E-05 35.1 7.3 69 34-105 19-87 (270)
56 cd05006 SIS_GmhA Phosphoheptos 90.9 0.41 9E-06 38.0 4.4 54 73-126 102-158 (177)
57 cd06278 PBP1_LacI_like_2 Ligan 90.7 1.5 3.3E-05 34.5 7.4 67 35-105 20-86 (266)
58 cd06321 PBP1_ABC_sugar_binding 90.5 1.6 3.4E-05 35.0 7.5 82 34-120 19-103 (271)
59 cd06310 PBP1_ABC_sugar_binding 90.5 1.4 3.1E-05 35.2 7.1 71 34-105 19-91 (273)
60 cd06314 PBP1_tmGBP Periplasmic 90.5 1.4 3E-05 35.5 7.1 92 32-129 16-109 (271)
61 cd06319 PBP1_ABC_sugar_binding 90.5 1.5 3.2E-05 35.0 7.3 70 34-105 19-89 (277)
62 TIGR01664 DNA-3'-Pase DNA 3'-p 90.4 1.4 2.9E-05 35.5 7.0 87 36-122 50-162 (166)
63 TIGR02417 fruct_sucro_rep D-fr 90.3 1.5 3.3E-05 36.6 7.5 68 35-104 81-148 (327)
64 cd06294 PBP1_ycjW_transcriptio 90.2 1.5 3.4E-05 34.6 7.1 68 34-105 24-92 (270)
65 cd06292 PBP1_LacI_like_10 Liga 90.1 1.6 3.4E-05 34.9 7.1 70 34-105 19-92 (273)
66 cd06277 PBP1_LacI_like_1 Ligan 90.0 1.6 3.4E-05 34.9 7.0 67 35-105 23-89 (268)
67 cd06273 PBP1_GntR_like_1 This 90.0 2 4.3E-05 34.1 7.6 69 34-105 19-87 (268)
68 cd01539 PBP1_GGBP Periplasmic 89.8 1.8 3.9E-05 36.2 7.6 70 34-105 19-91 (303)
69 PF00532 Peripla_BP_1: Peripla 89.7 1.2 2.5E-05 37.9 6.4 69 34-106 21-89 (279)
70 cd06301 PBP1_rhizopine_binding 89.6 2.2 4.7E-05 34.1 7.6 87 34-122 19-107 (272)
71 TIGR00393 kpsF KpsF/GutQ famil 89.6 0.61 1.3E-05 38.7 4.5 74 36-120 18-98 (268)
72 cd06267 PBP1_LacI_sugar_bindin 89.5 2.2 4.9E-05 32.9 7.4 69 35-106 20-88 (264)
73 cd06298 PBP1_CcpA_like Ligand- 89.5 2 4.2E-05 34.0 7.2 66 35-105 20-87 (268)
74 cd06293 PBP1_LacI_like_11 Liga 89.1 2.4 5.2E-05 33.9 7.5 69 34-105 19-87 (269)
75 cd06342 PBP1_ABC_LIVBP_like Ty 89.1 1.1 2.3E-05 37.0 5.7 77 27-105 140-223 (334)
76 PRK13936 phosphoheptose isomer 89.0 0.65 1.4E-05 38.4 4.3 50 72-121 111-166 (197)
77 PRK13938 phosphoheptose isomer 88.8 0.85 1.8E-05 38.4 4.9 65 63-128 105-172 (196)
78 PRK00414 gmhA phosphoheptose i 88.7 0.71 1.5E-05 38.1 4.3 76 42-118 74-160 (192)
79 TIGR02955 TMAO_TorT TMAO reduc 88.6 2 4.4E-05 35.7 7.0 68 35-105 20-90 (295)
80 cd06283 PBP1_RegR_EndR_KdgR_li 88.6 2.7 5.9E-05 33.1 7.4 68 35-105 20-87 (267)
81 cd01536 PBP1_ABC_sugar_binding 88.6 3 6.5E-05 32.5 7.5 70 35-106 20-90 (267)
82 COG1737 RpiR Transcriptional r 88.5 1.6 3.4E-05 37.9 6.5 97 16-120 116-228 (281)
83 cd06291 PBP1_Qymf_like Ligand 88.4 2 4.4E-05 34.1 6.6 66 34-105 19-84 (265)
84 PRK10355 xylF D-xylose transpo 88.2 2.4 5.2E-05 36.7 7.5 68 35-104 46-114 (330)
85 cd06347 PBP1_ABC_ligand_bindin 87.9 1.1 2.4E-05 36.9 4.9 66 36-103 156-222 (334)
86 cd06274 PBP1_FruR Ligand bindi 87.8 2.9 6.3E-05 33.3 7.2 69 34-105 19-87 (264)
87 PRK10892 D-arabinose 5-phospha 87.6 0.92 2E-05 39.2 4.5 94 19-119 35-144 (326)
88 cd01537 PBP1_Repressors_Sugar_ 87.5 3.4 7.4E-05 31.8 7.1 70 35-106 20-89 (264)
89 cd06297 PBP1_LacI_like_12 Liga 87.3 3 6.6E-05 33.7 7.1 67 34-105 19-87 (269)
90 TIGR01512 ATPase-IB2_Cd heavy 87.2 0.87 1.9E-05 42.9 4.4 79 37-121 371-451 (536)
91 cd06285 PBP1_LacI_like_7 Ligan 86.9 3.4 7.5E-05 32.9 7.1 69 34-105 19-87 (265)
92 PRK14987 gluconate operon tran 86.8 3.7 8E-05 34.4 7.6 66 35-105 84-151 (331)
93 PRK11303 DNA-binding transcrip 86.7 3.5 7.5E-05 34.3 7.3 67 35-105 82-150 (328)
94 cd04509 PBP1_ABC_transporter_G 86.5 1.8 4E-05 33.8 5.3 67 36-104 156-225 (299)
95 PRK11543 gutQ D-arabinose 5-ph 86.4 1.1 2.4E-05 38.4 4.3 94 18-118 29-138 (321)
96 PF04123 DUF373: Domain of unk 86.1 1.8 3.9E-05 40.1 5.8 72 33-104 53-134 (344)
97 cd01575 PBP1_GntR Ligand-bindi 85.8 5.2 0.00011 31.5 7.5 69 34-105 19-87 (268)
98 cd06271 PBP1_AglR_RafR_like Li 85.6 4.5 9.8E-05 31.9 7.1 68 34-105 23-91 (268)
99 PRK09701 D-allose transporter 85.2 4.7 0.0001 34.1 7.5 70 34-105 44-116 (311)
100 cd06300 PBP1_ABC_sugar_binding 85.2 11 0.00024 30.1 9.3 85 35-123 20-110 (272)
101 cd06272 PBP1_hexuronate_repres 85.0 4.3 9.3E-05 32.3 6.8 65 34-105 19-83 (261)
102 PRK02947 hypothetical protein; 84.5 1.5 3.3E-05 37.6 4.3 48 72-119 106-167 (246)
103 PRK15395 methyl-galactoside AB 84.4 5.2 0.00011 34.4 7.5 69 35-105 45-115 (330)
104 cd06268 PBP1_ABC_transporter_L 84.2 2.8 6E-05 32.8 5.3 67 36-104 155-222 (298)
105 TIGR03590 PseG pseudaminic aci 84.1 5.1 0.00011 34.4 7.3 77 37-120 46-125 (279)
106 cd01391 Periplasmic_Binding_Pr 84.0 6.9 0.00015 29.4 7.2 70 35-106 21-92 (269)
107 TIGR00522 dph5 diphthine synth 83.8 1.4 3.1E-05 38.0 3.9 70 35-105 94-167 (257)
108 cd06330 PBP1_Arsenic_SBP_like 83.5 2.2 4.8E-05 35.9 4.8 77 27-103 143-228 (346)
109 cd01574 PBP1_LacI Ligand-bindi 83.1 6.3 0.00014 31.2 7.0 71 33-105 18-88 (264)
110 TIGR01525 ATPase-IB_hvy heavy 83.1 2.1 4.5E-05 40.4 4.9 79 37-121 393-473 (556)
111 cd06363 PBP1_Taste_receptor Li 82.6 4.5 9.8E-05 35.7 6.6 79 26-104 180-267 (410)
112 COG1609 PurR Transcriptional r 82.4 6.5 0.00014 34.6 7.4 69 35-106 79-147 (333)
113 cd06350 PBP1_GPCR_family_C_lik 82.3 5.4 0.00012 33.4 6.6 68 38-105 182-252 (348)
114 cd06279 PBP1_LacI_like_3 Ligan 82.3 6.5 0.00014 32.1 6.9 65 34-105 24-88 (283)
115 PF07279 DUF1442: Protein of u 82.2 1.9 4.2E-05 38.0 4.1 52 71-126 114-166 (218)
116 cd06361 PBP1_GPC6A_like Ligand 82.1 6.4 0.00014 35.4 7.5 79 27-105 177-267 (403)
117 cd06340 PBP1_ABC_ligand_bindin 82.0 2.9 6.3E-05 35.7 5.0 72 27-99 149-226 (347)
118 cd06336 PBP1_ABC_ligand_bindin 81.7 3.2 6.9E-05 35.4 5.1 75 27-103 143-225 (347)
119 cd06275 PBP1_PurR Ligand-bindi 81.6 8.5 0.00018 30.6 7.2 70 34-105 19-88 (269)
120 cd04795 SIS SIS domain. SIS (S 81.2 9.3 0.0002 25.9 6.4 60 37-103 17-81 (87)
121 TIGR01481 ccpA catabolite cont 80.7 9.4 0.0002 31.8 7.5 68 35-105 80-147 (329)
122 cd06269 PBP1_glutamate_recepto 80.6 9.5 0.00021 29.9 7.1 68 37-105 161-231 (298)
123 cd06337 PBP1_ABC_ligand_bindin 80.6 4.3 9.3E-05 35.0 5.6 64 38-103 170-234 (357)
124 PRK05441 murQ N-acetylmuramic 80.2 2.6 5.6E-05 37.5 4.2 49 72-120 131-182 (299)
125 PF13380 CoA_binding_2: CoA bi 79.7 6.4 0.00014 30.1 5.7 44 60-106 67-110 (116)
126 TIGR01511 ATPase-IB1_Cu copper 79.5 4.3 9.3E-05 38.7 5.7 78 37-121 414-492 (562)
127 cd06329 PBP1_SBP_like_3 Peripl 79.5 4.3 9.3E-05 34.5 5.2 76 27-104 148-233 (342)
128 TIGR02137 HSK-PSP phosphoserin 79.5 6.7 0.00014 32.6 6.2 102 35-145 75-192 (203)
129 TIGR00147 lipid kinase, YegS/R 79.4 8.4 0.00018 32.8 6.9 53 37-94 25-79 (293)
130 TIGR00274 N-acetylmuramic acid 79.2 2.9 6.3E-05 37.2 4.2 49 72-120 126-177 (291)
131 cd06360 PBP1_alkylbenzenes_lik 79.2 5.1 0.00011 33.2 5.4 67 36-104 154-223 (336)
132 COG1879 RbsB ABC-type sugar tr 78.9 10 0.00022 32.0 7.3 91 34-128 53-146 (322)
133 cd06307 PBP1_uncharacterized_s 78.8 5 0.00011 32.3 5.1 70 34-104 19-91 (275)
134 COG0074 SucD Succinyl-CoA synt 78.5 8.1 0.00018 35.7 6.9 63 43-111 66-129 (293)
135 cd05007 SIS_Etherase N-acetylm 78.1 3.4 7.3E-05 35.8 4.2 48 72-119 118-168 (257)
136 cd06338 PBP1_ABC_ligand_bindin 77.4 6.7 0.00014 32.9 5.7 74 27-102 146-226 (345)
137 cd06346 PBP1_ABC_ligand_bindin 77.3 5.2 0.00011 33.6 5.0 75 27-103 142-223 (312)
138 cd06290 PBP1_LacI_like_9 Ligan 77.3 14 0.0003 29.4 7.2 68 34-105 19-86 (265)
139 PRK10703 DNA-binding transcrip 77.3 14 0.0003 31.1 7.5 69 34-105 79-148 (341)
140 cd08185 Fe-ADH1 Iron-containin 77.0 12 0.00026 33.6 7.5 77 36-112 17-100 (380)
141 cd06343 PBP1_ABC_ligand_bindin 76.9 5.9 0.00013 33.6 5.3 67 36-104 164-232 (362)
142 cd06348 PBP1_ABC_ligand_bindin 76.7 4.1 9E-05 34.3 4.3 67 36-104 157-224 (344)
143 PRK10490 sensor protein KdpD; 76.7 10 0.00022 38.3 7.6 61 45-106 284-346 (895)
144 cd06334 PBP1_ABC_ligand_bindin 76.6 7 0.00015 34.1 5.8 76 27-104 145-227 (351)
145 cd06335 PBP1_ABC_ligand_bindin 76.6 5.6 0.00012 34.0 5.1 75 27-103 143-224 (347)
146 cd06354 PBP1_BmpA_PnrA_like Pe 76.5 11 0.00023 31.0 6.5 66 35-105 23-90 (265)
147 cd06286 PBP1_CcpB_like Ligand- 76.4 15 0.00033 29.1 7.1 65 35-105 20-86 (260)
148 cd06280 PBP1_LacI_like_4 Ligan 76.4 15 0.00033 29.3 7.2 67 35-105 20-86 (263)
149 PF13419 HAD_2: Haloacid dehal 76.4 9.9 0.00021 27.7 5.7 67 36-106 85-160 (176)
150 cd06345 PBP1_ABC_ligand_bindin 76.2 5.9 0.00013 33.5 5.1 64 38-103 166-230 (344)
151 cd06332 PBP1_aromatic_compound 75.7 8.6 0.00019 31.7 5.8 59 44-104 160-220 (333)
152 cd06331 PBP1_AmiC_like Type I 75.6 7.9 0.00017 32.6 5.6 59 38-98 154-213 (333)
153 cd06284 PBP1_LacI_like_6 Ligan 75.3 16 0.00035 28.7 7.0 69 33-105 18-86 (267)
154 PF02310 B12-binding: B12 bind 75.3 16 0.00035 26.5 6.5 66 36-106 20-90 (121)
155 PRK01122 potassium-transportin 75.2 6.1 0.00013 39.4 5.6 87 38-136 455-543 (679)
156 PF13580 SIS_2: SIS domain; PD 74.4 4.6 9.9E-05 31.3 3.7 32 71-102 102-136 (138)
157 PRK11382 frlB fructoselysine-6 74.0 4.7 0.0001 35.8 4.1 48 74-121 94-144 (340)
158 cd01391 Periplasmic_Binding_Pr 73.9 11 0.00024 28.3 5.5 26 72-98 182-207 (269)
159 TIGR01491 HAD-SF-IB-PSPlk HAD- 73.3 14 0.0003 28.6 6.1 77 35-117 87-185 (201)
160 cd06380 PBP1_iGluR_AMPA N-term 73.3 9 0.00019 33.1 5.5 62 39-100 148-211 (382)
161 cd06333 PBP1_ABC-type_HAAT_lik 73.2 7.1 0.00015 32.3 4.7 66 37-104 154-220 (312)
162 PRK12342 hypothetical protein; 73.1 19 0.00041 31.9 7.6 67 37-106 44-119 (254)
163 TIGR01522 ATPase-IIA2_Ca golgi 73.0 9.6 0.00021 38.4 6.4 37 84-120 605-642 (884)
164 PF14336 DUF4392: Domain of un 72.6 18 0.00038 32.4 7.4 69 36-106 68-185 (291)
165 PRK15404 leucine ABC transport 72.4 6.9 0.00015 34.4 4.7 76 27-104 166-248 (369)
166 PLN02770 haloacid dehalogenase 72.2 32 0.00069 28.8 8.4 82 19-106 98-191 (248)
167 TIGR01422 phosphonatase phosph 72.2 48 0.001 27.3 9.4 68 36-106 107-184 (253)
168 cd05017 SIS_PGI_PMI_1 The memb 72.1 6.5 0.00014 29.4 3.9 42 72-115 43-87 (119)
169 cd06368 PBP1_iGluR_non_NMDA_li 71.4 14 0.0003 30.7 6.0 58 39-98 149-206 (324)
170 cd00293 USP_Like Usp: Universa 71.3 30 0.00065 23.7 7.0 38 70-107 67-104 (130)
171 cd06327 PBP1_SBP_like_1 Peripl 70.9 10 0.00022 31.9 5.3 75 27-103 140-223 (334)
172 cd06326 PBP1_STKc_like Type I 70.9 8.6 0.00019 31.9 4.7 67 36-104 156-223 (336)
173 COG0546 Gph Predicted phosphat 70.8 11 0.00024 31.0 5.3 80 19-106 77-172 (220)
174 TIGR03649 ergot_EASG ergot alk 70.8 6.2 0.00013 32.7 3.9 74 32-105 11-105 (285)
175 PRK10423 transcriptional repre 70.7 23 0.00049 29.4 7.2 66 35-104 77-144 (327)
176 cd06366 PBP1_GABAb_receptor Li 70.7 17 0.00037 30.7 6.6 72 27-98 140-218 (350)
177 cd06375 PBP1_mGluR_groupII Lig 70.7 14 0.00031 33.8 6.5 65 38-104 196-264 (458)
178 cd00860 ThrRS_anticodon ThrRS 70.1 8 0.00017 26.5 3.7 43 35-82 19-61 (91)
179 PRK10886 DnaA initiator-associ 70.1 14 0.00031 31.1 6.0 77 42-119 71-162 (196)
180 cd06362 PBP1_mGluR Ligand bind 70.0 18 0.00039 32.2 6.8 65 38-104 194-264 (452)
181 cd00532 MGS-like MGS-like doma 70.0 12 0.00026 28.1 5.0 73 22-99 16-102 (112)
182 PRK12570 N-acetylmuramic acid- 69.8 7.2 0.00016 34.7 4.3 47 74-120 129-178 (296)
183 PF05368 NmrA: NmrA-like famil 69.8 15 0.00033 29.5 5.8 71 33-105 11-103 (233)
184 PF00702 Hydrolase: haloacid d 69.5 14 0.0003 28.5 5.3 63 37-106 136-205 (215)
185 PRK09552 mtnX 2-hydroxy-3-keto 69.2 21 0.00046 29.0 6.6 47 18-64 63-111 (219)
186 PRK10671 copA copper exporting 68.8 8.4 0.00018 38.3 4.9 78 38-121 660-738 (834)
187 cd06276 PBP1_FucR_like Ligand- 68.3 25 0.00053 28.8 6.8 66 34-105 18-85 (247)
188 cd06304 PBP1_BmpA_like Peripla 68.1 24 0.00052 28.6 6.7 65 35-105 22-89 (260)
189 cd06388 PBP1_iGluR_AMPA_GluR4 68.0 11 0.00023 33.8 5.0 69 33-104 136-214 (371)
190 cd06288 PBP1_sucrose_transcrip 67.8 32 0.00069 27.2 7.1 67 35-105 21-87 (269)
191 TIGR01489 DKMTPPase-SF 2,3-dik 67.6 17 0.00036 27.7 5.4 32 87-118 152-185 (188)
192 TIGR01549 HAD-SF-IA-v1 haloaci 67.5 40 0.00086 25.2 7.3 66 36-106 72-144 (154)
193 PRK13478 phosphonoacetaldehyde 67.3 74 0.0016 26.7 9.6 67 36-106 109-186 (267)
194 cd08188 Fe-ADH4 Iron-containin 67.0 18 0.00039 32.6 6.3 86 25-111 2-101 (377)
195 PRK00331 glucosamine--fructose 66.1 8.8 0.00019 36.5 4.3 46 74-119 338-386 (604)
196 PRK09860 putative alcohol dehy 65.9 21 0.00045 32.5 6.5 71 36-107 22-100 (383)
197 cd06352 PBP1_NPR_GC_like Ligan 65.2 17 0.00036 31.3 5.5 66 36-104 158-229 (389)
198 cd01989 STK_N The N-terminal d 64.9 39 0.00085 24.9 6.8 42 70-111 76-118 (146)
199 PRK07239 bifunctional uroporph 64.4 11 0.00024 33.6 4.3 81 32-112 21-114 (381)
200 cd06355 PBP1_FmdD_like Peripla 64.3 21 0.00046 30.6 6.0 70 27-98 138-214 (348)
201 PF03720 UDPG_MGDP_dh_C: UDP-g 63.4 12 0.00025 28.0 3.7 51 34-87 20-81 (106)
202 cd06358 PBP1_NHase Type I peri 63.2 24 0.00053 29.8 6.0 62 36-99 152-214 (333)
203 TIGR02726 phenyl_P_delta pheny 63.0 37 0.00081 27.8 6.9 66 33-106 40-108 (169)
204 PRK09484 3-deoxy-D-manno-octul 62.8 25 0.00053 28.4 5.8 65 33-106 54-122 (183)
205 cd01543 PBP1_XylR Ligand-bindi 62.6 24 0.00052 28.3 5.7 62 34-105 18-80 (265)
206 TIGR01509 HAD-SF-IA-v3 haloaci 61.4 24 0.00052 26.6 5.2 63 37-106 94-167 (183)
207 cd01988 Na_H_Antiporter_C The 61.3 51 0.0011 23.4 6.6 37 70-107 67-105 (132)
208 COG2237 Predicted membrane pro 61.3 21 0.00046 33.9 5.8 72 33-104 53-134 (364)
209 cd00859 HisRS_anticodon HisRS 61.1 16 0.00035 24.2 3.8 15 35-49 19-33 (91)
210 smart00851 MGS MGS-like domain 61.0 19 0.00041 25.8 4.4 60 35-97 21-86 (90)
211 cd06365 PBP1_Pheromone_recepto 60.9 44 0.00096 30.7 7.7 69 36-104 192-264 (469)
212 TIGR01135 glmS glucosamine--fr 60.7 13 0.00028 35.4 4.4 46 74-119 340-388 (607)
213 PF13458 Peripla_BP_6: Peripla 60.7 21 0.00044 29.6 5.1 61 36-98 155-216 (343)
214 cd02750 MopB_Nitrate-R-NarG-li 60.2 15 0.00033 33.7 4.6 48 71-119 169-221 (461)
215 COG4213 XylF ABC-type xylose t 60.1 18 0.00038 34.2 5.0 70 61-133 70-140 (341)
216 cd00738 HGTP_anticodon HGTP an 59.8 20 0.00043 24.6 4.2 41 36-81 23-63 (94)
217 TIGR01548 HAD-SF-IA-hyp1 haloa 59.8 43 0.00092 26.6 6.6 65 35-106 113-188 (197)
218 COG0683 LivK ABC-type branched 59.8 21 0.00046 31.4 5.3 78 27-106 153-237 (366)
219 cd08189 Fe-ADH5 Iron-containin 59.6 33 0.00072 30.8 6.6 77 36-113 17-101 (374)
220 PF02602 HEM4: Uroporphyrinoge 59.1 5.4 0.00012 32.0 1.4 78 36-113 3-90 (231)
221 TIGR01647 ATPase-IIIA_H plasma 59.0 25 0.00053 35.0 6.1 44 88-136 526-570 (755)
222 PTZ00175 diphthine synthase; P 58.9 20 0.00043 31.8 5.0 68 35-106 95-168 (270)
223 cd02755 MopB_Thiosulfate-R-lik 58.1 16 0.00036 33.3 4.4 79 72-156 156-245 (454)
224 TIGR02638 lactal_redase lactal 57.6 34 0.00074 30.9 6.3 75 36-111 20-102 (379)
225 PF15608 PELOTA_1: PELOTA RNA 57.6 18 0.00039 28.6 4.0 36 71-106 53-90 (100)
226 TIGR01459 HAD-SF-IIA-hyp4 HAD- 57.5 26 0.00057 29.1 5.2 66 36-106 32-105 (242)
227 PF10758 DUF2586: Protein of u 57.4 21 0.00046 33.8 5.1 50 56-105 52-106 (363)
228 cd06287 PBP1_LacI_like_8 Ligan 56.9 33 0.00072 28.3 5.7 62 34-105 27-88 (269)
229 cd08192 Fe-ADH7 Iron-containin 56.8 40 0.00088 30.1 6.6 77 36-113 15-99 (370)
230 cd00338 Ser_Recombinase Serine 56.2 39 0.00084 24.9 5.4 32 82-115 51-82 (137)
231 PF02769 AIRS_C: AIR synthase 56.0 74 0.0016 23.9 7.0 72 33-105 66-142 (153)
232 cd06379 PBP1_iGluR_NMDA_NR1 N- 55.8 31 0.00067 29.9 5.5 70 27-98 159-239 (377)
233 PRK13288 pyrophosphatase PpaX; 55.6 99 0.0021 24.7 8.0 66 34-106 88-165 (214)
234 COG0124 HisS Histidyl-tRNA syn 55.5 62 0.0013 31.0 7.9 80 19-104 294-394 (429)
235 PRK09492 treR trehalose repres 55.5 53 0.0012 27.1 6.7 66 34-104 82-147 (315)
236 cd01019 ZnuA Zinc binding prot 55.2 1.4E+02 0.0031 25.9 9.7 64 36-103 189-258 (286)
237 PLN02981 glucosamine:fructose- 54.9 17 0.00038 35.8 4.3 47 73-119 411-460 (680)
238 PRK10624 L-1,2-propanediol oxi 54.7 41 0.00089 30.4 6.3 77 36-113 21-105 (382)
239 cd06371 PBP1_sensory_GC_DEF_li 54.4 38 0.00082 29.9 6.0 68 36-104 152-228 (382)
240 PRK15454 ethanol dehydrogenase 54.4 34 0.00073 31.4 5.8 70 37-107 41-118 (395)
241 cd03013 PRX5_like Peroxiredoxi 54.4 44 0.00096 26.4 5.8 58 60-119 52-111 (155)
242 cd08180 PDD 1,3-propanediol de 54.3 52 0.0011 29.0 6.8 83 29-113 4-96 (332)
243 cd01480 vWA_collagen_alpha_1-V 54.1 49 0.0011 26.4 6.1 50 56-105 89-149 (186)
244 PF03129 HGTP_anticodon: Antic 54.0 33 0.00073 24.0 4.6 41 36-81 21-61 (94)
245 cd06356 PBP1_Amide_Urea_BP_lik 54.0 39 0.00085 28.8 5.8 70 26-97 136-212 (334)
246 cd06376 PBP1_mGluR_groupIII Li 54.0 55 0.0012 29.7 7.0 64 38-103 194-264 (463)
247 PRK08674 bifunctional phosphog 53.6 18 0.00039 32.0 3.8 42 73-116 79-123 (337)
248 TIGR02482 PFKA_ATP 6-phosphofr 53.4 50 0.0011 29.9 6.6 66 38-103 57-122 (301)
249 cd08551 Fe-ADH iron-containing 53.4 34 0.00073 30.4 5.5 77 36-113 14-98 (370)
250 TIGR03479 DMSO_red_II_alp DMSO 53.1 17 0.00037 36.8 4.0 73 71-147 223-305 (912)
251 PRK01642 cls cardiolipin synth 53.1 52 0.0011 31.0 6.9 64 44-107 302-370 (483)
252 TIGR01261 hisB_Nterm histidino 52.7 1.2E+02 0.0025 24.5 8.0 71 35-106 36-130 (161)
253 cd08176 LPO Lactadehyde:propan 52.6 46 0.00099 30.0 6.3 76 36-112 19-102 (377)
254 PF11814 DUF3335: Peptidase_C3 52.6 15 0.00032 32.3 3.1 53 32-99 55-112 (207)
255 TIGR01517 ATPase-IIB_Ca plasma 52.1 49 0.0011 33.8 7.0 43 87-135 659-704 (941)
256 cd08186 Fe-ADH8 Iron-containin 51.3 62 0.0013 29.3 6.9 80 36-115 14-104 (383)
257 TIGR01524 ATPase-IIIB_Mg magne 51.3 51 0.0011 33.5 7.0 44 88-136 594-638 (867)
258 cd00858 GlyRS_anticodon GlyRS 51.2 28 0.00061 26.3 4.1 42 36-83 47-88 (121)
259 cd02766 MopB_3 The MopB_3 CD i 51.2 23 0.00049 33.1 4.2 73 71-147 156-238 (501)
260 PF02633 Creatininase: Creatin 51.2 18 0.0004 30.4 3.4 76 26-104 56-137 (237)
261 cd08194 Fe-ADH6 Iron-containin 51.1 60 0.0013 29.2 6.8 76 36-112 14-97 (375)
262 PRK13582 thrH phosphoserine ph 51.1 78 0.0017 24.8 6.7 76 35-118 75-167 (205)
263 cd06357 PBP1_AmiC Periplasmic 51.1 80 0.0017 27.4 7.3 71 27-99 137-216 (360)
264 PRK11914 diacylglycerol kinase 51.0 53 0.0012 28.3 6.2 75 38-116 33-108 (306)
265 cd06389 PBP1_iGluR_AMPA_GluR2 50.7 44 0.00096 29.6 5.8 63 40-104 141-212 (370)
266 PTZ00394 glucosamine-fructose- 50.4 25 0.00055 34.8 4.6 47 74-120 403-452 (670)
267 cd02064 FAD_synthetase_N FAD s 50.3 33 0.00072 27.8 4.6 46 61-106 58-109 (180)
268 cd06328 PBP1_SBP_like_2 Peripl 50.0 46 0.00099 28.4 5.6 75 27-103 141-224 (333)
269 PRK10727 DNA-binding transcrip 49.9 92 0.002 26.3 7.4 67 35-105 80-147 (343)
270 cd02753 MopB_Formate-Dh-H Form 49.7 26 0.00056 32.2 4.3 48 71-119 155-207 (512)
271 cd06385 PBP1_NPR_A Ligand-bind 49.7 51 0.0011 28.9 6.0 63 35-99 167-229 (405)
272 cd02759 MopB_Acetylene-hydrata 49.6 27 0.00058 32.1 4.4 48 71-119 159-212 (477)
273 cd02751 MopB_DMSOR-like The Mo 49.4 24 0.00052 33.6 4.2 47 72-119 169-229 (609)
274 cd06373 PBP1_NPR_like Ligand b 49.0 30 0.00066 30.1 4.5 63 36-99 166-228 (396)
275 TIGR01990 bPGM beta-phosphoglu 48.9 34 0.00073 26.2 4.2 21 36-56 95-115 (185)
276 COG0205 PfkA 6-phosphofructoki 48.7 97 0.0021 29.0 7.9 75 28-102 50-124 (347)
277 PRK09186 flagellin modificatio 48.5 32 0.0007 27.4 4.2 68 31-101 15-88 (256)
278 PF12745 HGTP_anticodon2: Anti 47.9 18 0.00038 32.3 2.9 48 32-83 21-68 (273)
279 COG2179 Predicted hydrolase of 47.9 37 0.00079 29.5 4.7 81 52-158 92-172 (175)
280 COG1597 LCB5 Sphingosine kinas 47.9 78 0.0017 28.1 6.9 46 67-113 28-74 (301)
281 cd02170 cytidylyltransferase c 47.8 54 0.0012 24.9 5.2 32 71-106 63-94 (136)
282 TIGR01663 PNK-3'Pase polynucle 47.5 74 0.0016 31.1 7.2 69 38-106 207-294 (526)
283 PTZ00295 glucosamine-fructose- 47.5 30 0.00066 33.5 4.6 47 74-120 371-420 (640)
284 PRK11041 DNA-binding transcrip 47.5 1.1E+02 0.0024 25.0 7.3 67 35-105 56-123 (309)
285 cd06325 PBP1_ABC_uncharacteriz 47.4 45 0.00097 26.7 4.9 64 34-104 18-89 (281)
286 PF05991 NYN_YacP: YacP-like N 47.4 84 0.0018 25.7 6.5 60 36-100 59-118 (166)
287 cd02765 MopB_4 The MopB_4 CD i 47.3 30 0.00064 32.9 4.4 73 71-147 158-240 (567)
288 TIGR01490 HAD-SF-IB-hyp1 HAD-s 47.3 62 0.0013 25.3 5.6 63 38-106 97-181 (202)
289 TIGR02253 CTE7 HAD superfamily 47.2 74 0.0016 25.2 6.1 66 36-105 102-176 (221)
290 cd00609 AAT_like Aspartate ami 47.2 46 0.00099 27.3 5.0 76 26-101 85-170 (350)
291 PRK06769 hypothetical protein; 47.1 1.1E+02 0.0025 24.3 7.2 68 36-106 36-120 (173)
292 TIGR01691 enolase-ppase 2,3-di 47.0 75 0.0016 27.1 6.5 25 76-103 172-196 (220)
293 COG0300 DltE Short-chain dehyd 47.0 37 0.0008 30.5 4.8 87 33-124 19-109 (265)
294 PRK13337 putative lipid kinase 47.0 77 0.0017 27.4 6.6 82 37-122 25-109 (304)
295 cd00291 SirA_YedF_YeeD SirA, Y 46.9 57 0.0012 21.8 4.7 44 60-105 15-59 (69)
296 PF02254 TrkA_N: TrkA-N domain 46.9 22 0.00048 25.6 2.8 61 33-104 10-70 (116)
297 COG1712 Predicted dinucleotide 46.8 1.1E+02 0.0023 28.2 7.6 90 6-102 25-117 (255)
298 cd06364 PBP1_CaSR Ligand-bindi 46.6 50 0.0011 31.0 5.7 77 26-104 191-277 (510)
299 PRK06947 glucose-1-dehydrogena 46.3 81 0.0018 25.1 6.2 59 31-93 13-72 (248)
300 PRK05752 uroporphyrinogen-III 46.2 8 0.00017 32.6 0.5 78 33-112 15-99 (255)
301 PRK05967 cystathionine beta-ly 46.2 47 0.001 30.8 5.4 69 26-101 105-184 (395)
302 cd08182 HEPD Hydroxyethylphosp 46.0 96 0.0021 27.7 7.2 74 37-113 15-95 (367)
303 cd08187 BDH Butanol dehydrogen 45.9 65 0.0014 29.1 6.2 79 36-114 20-105 (382)
304 cd06341 PBP1_ABC_ligand_bindin 45.9 31 0.00066 29.0 3.9 61 37-99 154-215 (341)
305 PRK09456 ?-D-glucose-1-phospha 45.8 54 0.0012 26.1 5.1 21 36-56 92-112 (199)
306 PF14258 DUF4350: Domain of un 45.7 56 0.0012 22.3 4.6 56 34-102 8-68 (70)
307 PRK11133 serB phosphoserine ph 45.5 41 0.00088 30.3 4.8 80 34-120 187-289 (322)
308 cd06374 PBP1_mGluR_groupI Liga 44.9 69 0.0015 29.2 6.2 66 37-104 207-279 (472)
309 TIGR00868 hCaCC calcium-activa 44.9 45 0.00098 34.7 5.6 58 59-116 387-452 (863)
310 cd01544 PBP1_GalR Ligand-bindi 44.8 54 0.0012 26.5 5.0 60 34-105 24-83 (270)
311 PLN03243 haloacid dehalogenase 44.8 90 0.0019 26.9 6.6 64 36-106 117-192 (260)
312 PF01565 FAD_binding_4: FAD bi 44.6 31 0.00067 25.8 3.4 33 74-106 2-34 (139)
313 cd06349 PBP1_ABC_ligand_bindin 44.6 43 0.00093 28.2 4.6 76 27-104 140-222 (340)
314 cd02172 RfaE_N N-terminal doma 44.3 61 0.0013 25.7 5.2 41 62-106 56-97 (144)
315 cd06382 PBP1_iGluR_Kainate N-t 44.2 45 0.00097 28.0 4.6 62 35-99 144-208 (327)
316 PRK12937 short chain dehydroge 44.1 96 0.0021 24.5 6.2 68 32-102 17-89 (245)
317 TIGR03772 anch_rpt_subst ancho 44.0 2.9E+02 0.0064 26.8 10.5 105 11-121 347-467 (479)
318 cd05009 SIS_GlmS_GlmD_2 SIS (S 43.9 51 0.0011 24.5 4.4 43 74-118 63-109 (153)
319 PRK10401 DNA-binding transcrip 43.8 1.4E+02 0.0029 25.4 7.5 67 35-105 80-147 (346)
320 PRK10339 DNA-binding transcrip 43.7 54 0.0012 27.5 5.0 58 35-105 88-145 (327)
321 TIGR01116 ATPase-IIA1_Ca sarco 43.3 32 0.0007 35.0 4.3 36 86-121 620-656 (917)
322 PRK15122 magnesium-transportin 43.2 61 0.0013 33.2 6.1 45 87-136 628-673 (903)
323 cd06367 PBP1_iGluR_NMDA N-term 43.2 47 0.001 28.5 4.6 37 70-106 192-232 (362)
324 cd02760 MopB_Phenylacetyl-CoA- 42.9 38 0.00082 34.1 4.6 75 72-147 173-258 (760)
325 TIGR02252 DREG-2 REG-2-like, H 42.7 96 0.0021 24.4 6.0 64 36-106 113-187 (203)
326 PRK14649 UDP-N-acetylenolpyruv 42.6 24 0.00053 31.4 3.0 37 70-106 18-54 (295)
327 PRK15456 universal stress prot 42.6 1.1E+02 0.0024 22.7 6.1 35 72-106 81-115 (142)
328 PRK11033 zntA zinc/cadmium/mer 42.5 36 0.00079 33.9 4.4 76 38-121 578-654 (741)
329 PRK13055 putative lipid kinase 42.4 97 0.0021 27.5 6.7 82 37-122 26-112 (334)
330 PF13707 RloB: RloB-like prote 42.0 85 0.0018 24.8 5.7 61 38-98 20-92 (183)
331 PF07085 DRTGG: DRTGG domain; 41.7 25 0.00054 25.8 2.5 47 44-98 41-87 (105)
332 TIGR01304 IMP_DH_rel_2 IMP deh 41.7 1.3E+02 0.0029 28.1 7.6 69 33-107 121-198 (369)
333 cd01465 vWA_subgroup VWA subgr 41.7 86 0.0019 23.6 5.4 35 71-105 95-138 (170)
334 COG0124 HisS Histidyl-tRNA syn 41.6 37 0.00079 32.5 4.1 70 34-124 352-421 (429)
335 cd02762 MopB_1 The MopB_1 CD i 41.4 32 0.0007 32.2 3.7 49 71-120 155-214 (539)
336 TIGR02405 trehalos_R_Ecol treh 41.3 1.3E+02 0.0029 25.0 7.0 64 35-104 80-144 (311)
337 COG1358 RPL8A Ribosomal protei 41.2 75 0.0016 25.3 5.2 54 63-118 33-90 (116)
338 cd01475 vWA_Matrilin VWA_Matri 41.2 32 0.00069 28.3 3.2 32 74-105 110-144 (224)
339 PRK00046 murB UDP-N-acetylenol 41.2 26 0.00057 32.2 3.0 36 71-106 19-54 (334)
340 TIGR02247 HAD-1A3-hyp Epoxide 41.1 56 0.0012 25.9 4.5 20 36-55 102-121 (211)
341 PRK15488 thiosulfate reductase 40.8 40 0.00086 33.0 4.3 72 72-147 196-279 (759)
342 cd06359 PBP1_Nba_like Type I p 40.8 98 0.0021 26.1 6.2 76 27-104 139-220 (333)
343 TIGR00179 murB UDP-N-acetyleno 40.4 31 0.00067 30.5 3.2 34 73-106 13-46 (284)
344 TIGR00213 GmhB_yaeD D,D-heptos 40.4 92 0.002 24.6 5.6 20 36-55 34-53 (176)
345 cd02770 MopB_DmsA-EC This CD ( 40.3 40 0.00088 32.2 4.2 73 71-147 165-251 (617)
346 TIGR01591 Fdh-alpha formate de 40.3 43 0.00093 31.9 4.3 47 72-119 155-206 (671)
347 TIGR03351 PhnX-like phosphonat 40.2 1.6E+02 0.0034 23.4 7.0 69 36-106 95-173 (220)
348 cd06384 PBP1_NPR_B Ligand-bind 39.9 59 0.0013 28.6 4.9 62 35-99 167-229 (399)
349 cd08179 NADPH_BDH NADPH-depend 39.8 1.3E+02 0.0029 27.0 7.2 81 33-113 11-99 (375)
350 COG2185 Sbm Methylmalonyl-CoA 39.7 1.6E+02 0.0034 24.6 7.1 61 36-101 32-96 (143)
351 cd01476 VWA_integrin_invertebr 39.5 1.3E+02 0.0028 22.8 6.1 51 56-106 81-141 (163)
352 COG0241 HisB Histidinol phosph 39.4 1.2E+02 0.0026 25.9 6.5 80 38-117 41-144 (181)
353 PRK13226 phosphoglycolate phos 39.3 1.6E+02 0.0034 24.2 7.0 22 35-56 102-123 (229)
354 TIGR01993 Pyr-5-nucltdase pyri 39.2 84 0.0018 24.4 5.2 67 34-106 87-168 (184)
355 COG0569 TrkA K+ transport syst 39.2 39 0.00085 28.6 3.6 32 31-62 10-41 (225)
356 TIGR01656 Histidinol-ppas hist 39.2 94 0.002 23.8 5.4 47 52-104 100-146 (147)
357 TIGR01497 kdpB K+-transporting 39.0 69 0.0015 32.3 5.7 47 85-136 497-544 (675)
358 PRK14010 potassium-transportin 39.0 59 0.0013 32.7 5.2 45 87-137 494-540 (673)
359 smart00857 Resolvase Resolvase 39.0 1E+02 0.0023 23.0 5.5 29 83-113 52-80 (148)
360 PRK11587 putative phosphatase; 39.0 80 0.0017 25.5 5.2 66 35-106 90-165 (218)
361 PLN02530 histidine-tRNA ligase 38.9 1.5E+02 0.0032 28.1 7.6 82 19-104 360-460 (487)
362 PF01206 TusA: Sulfurtransfera 38.8 78 0.0017 21.5 4.4 45 60-105 16-60 (70)
363 PRK14652 UDP-N-acetylenolpyruv 38.8 33 0.00072 30.7 3.2 37 70-106 33-69 (302)
364 cd01453 vWA_transcription_fact 38.7 1.3E+02 0.0028 24.5 6.3 51 56-106 87-146 (183)
365 PRK05557 fabG 3-ketoacyl-(acyl 38.4 1.3E+02 0.0027 23.5 6.1 70 31-103 16-90 (248)
366 PRK09456 ?-D-glucose-1-phospha 38.3 1.6E+02 0.0036 23.3 6.8 50 51-106 139-188 (199)
367 PRK09189 uroporphyrinogen-III 38.2 1.2E+02 0.0026 25.1 6.2 80 27-110 121-214 (240)
368 PRK10725 fructose-1-P/6-phosph 38.2 69 0.0015 24.7 4.5 66 33-106 92-169 (188)
369 TIGR02663 nifX nitrogen fixati 38.1 37 0.00079 26.0 2.9 50 24-74 64-113 (119)
370 PRK12305 thrS threonyl-tRNA sy 38.1 56 0.0012 31.0 4.8 34 70-104 501-535 (575)
371 cd01450 vWFA_subfamily_ECM Von 38.0 1.2E+02 0.0025 22.1 5.5 58 59-116 84-154 (161)
372 PRK06194 hypothetical protein; 38.0 1.1E+02 0.0024 25.0 6.0 66 33-102 19-89 (287)
373 PF00072 Response_reg: Respons 37.8 90 0.002 21.3 4.7 65 35-107 13-82 (112)
374 PRK10517 magnesium-transportin 37.8 90 0.0019 32.1 6.4 45 87-136 628-673 (902)
375 cd01994 Alpha_ANH_like_IV This 37.7 90 0.002 26.0 5.4 40 67-106 53-98 (194)
376 PRK07454 short chain dehydroge 37.6 1.1E+02 0.0025 24.2 5.8 69 32-104 18-91 (241)
377 cd01454 vWA_norD_type norD typ 37.6 1.6E+02 0.0035 22.9 6.5 48 60-107 89-153 (174)
378 cd01461 vWA_interalpha_trypsin 37.5 74 0.0016 23.9 4.5 46 60-105 85-139 (171)
379 PRK06975 bifunctional uroporph 37.5 18 0.00039 35.6 1.5 78 33-112 15-97 (656)
380 cd02196 PurM PurM (Aminoimidaz 37.4 2.8E+02 0.006 24.1 9.2 96 8-104 180-295 (297)
381 cd01473 vWA_CTRP CTRP for CS 37.2 58 0.0013 26.6 4.2 51 56-106 86-149 (192)
382 PRK13054 lipid kinase; Reviewe 37.1 1.3E+02 0.0028 26.1 6.4 83 36-122 23-110 (300)
383 TIGR01672 AphA HAD superfamily 37.0 87 0.0019 27.2 5.4 82 17-106 102-194 (237)
384 TIGR01501 MthylAspMutase methy 36.9 73 0.0016 25.8 4.6 63 37-105 22-91 (134)
385 PF02844 GARS_N: Phosphoribosy 36.8 35 0.00076 26.6 2.7 25 81-105 47-71 (100)
386 PRK13903 murB UDP-N-acetylenol 36.8 37 0.00081 31.5 3.3 37 70-106 30-66 (363)
387 cd01467 vWA_BatA_type VWA BatA 36.6 1.7E+02 0.0037 22.4 6.4 47 58-104 86-142 (180)
388 PRK15005 universal stress prot 36.4 1.7E+02 0.0037 21.4 6.5 34 72-105 83-116 (144)
389 TIGR01518 g3p_cytidyltrns glyc 36.4 82 0.0018 23.9 4.6 39 65-106 53-92 (125)
390 PF13528 Glyco_trans_1_3: Glyc 36.1 43 0.00093 27.9 3.3 42 75-121 95-136 (318)
391 PF13519 VWA_2: von Willebrand 36.0 1E+02 0.0022 22.5 5.0 49 58-106 83-136 (172)
392 PRK10669 putative cation:proto 36.0 34 0.00074 32.3 3.0 70 34-103 430-515 (558)
393 PRK07478 short chain dehydroge 35.8 1.2E+02 0.0026 24.4 5.7 67 32-102 18-89 (254)
394 cd02067 B12-binding B12 bindin 35.8 1.8E+02 0.0039 21.4 6.5 66 36-106 19-90 (119)
395 PRK09526 lacI lac repressor; R 35.8 1.7E+02 0.0037 24.5 6.8 67 34-104 83-152 (342)
396 PF10566 Glyco_hydro_97: Glyco 35.7 1E+02 0.0022 27.9 5.8 69 52-120 25-114 (273)
397 cd00368 Molybdopterin-Binding 35.6 65 0.0014 27.6 4.4 48 71-119 155-207 (374)
398 PRK08334 translation initiatio 35.5 73 0.0016 29.9 5.0 64 33-105 207-281 (356)
399 PTZ00287 6-phosphofructokinase 35.5 1E+02 0.0022 34.2 6.6 104 37-140 892-1008(1419)
400 PRK13226 phosphoglycolate phos 35.2 1.7E+02 0.0038 23.9 6.7 66 52-123 150-220 (229)
401 cd01474 vWA_ATR ATR (Anthrax T 35.1 99 0.0022 24.4 5.1 49 56-104 81-142 (185)
402 PF12683 DUF3798: Protein of u 35.1 1.4E+02 0.003 27.6 6.6 91 48-138 37-131 (275)
403 PF13242 Hydrolase_like: HAD-h 35.1 1.5E+02 0.0032 20.3 5.9 32 73-106 21-52 (75)
404 TIGR03702 lip_kinase_YegS lipi 35.0 1.3E+02 0.0028 25.9 6.1 79 38-121 21-105 (293)
405 TIGR00509 bisC_fam molybdopter 34.9 55 0.0012 32.3 4.3 49 71-120 166-228 (770)
406 PRK07050 cystathionine beta-ly 34.7 1.1E+02 0.0023 27.9 5.8 69 26-101 106-185 (394)
407 TIGR01662 HAD-SF-IIIA HAD-supe 34.5 1E+02 0.0022 22.7 4.8 19 36-54 33-51 (132)
408 PF02219 MTHFR: Methylenetetra 34.5 1.3E+02 0.0029 26.1 6.2 79 26-106 16-110 (287)
409 cd01464 vWA_subfamily VWA subf 34.3 94 0.002 24.3 4.8 58 58-115 82-159 (176)
410 PLN02607 1-aminocyclopropane-1 34.3 2.1E+02 0.0046 26.5 7.7 26 26-51 146-173 (447)
411 PRK14650 UDP-N-acetylenolpyruv 34.0 18 0.00038 32.9 0.7 57 48-106 10-66 (302)
412 cd03423 SirA SirA (also known 34.0 1.1E+02 0.0025 21.2 4.7 44 60-104 15-58 (69)
413 PRK13906 murB UDP-N-acetylenol 34.0 41 0.00089 30.2 3.0 35 72-106 36-70 (307)
414 PF02602 HEM4: Uroporphyrinoge 33.8 26 0.00057 28.1 1.6 71 35-106 131-206 (231)
415 cd02039 cytidylyltransferase_l 33.7 1.9E+02 0.0041 21.1 6.1 70 44-113 29-109 (143)
416 TIGR00676 fadh2 5,10-methylene 33.7 1.3E+02 0.0029 26.1 6.0 79 26-106 4-98 (272)
417 PTZ00170 D-ribulose-5-phosphat 33.6 2.9E+02 0.0063 23.5 8.0 68 27-101 44-119 (228)
418 PRK13059 putative lipid kinase 33.6 1.7E+02 0.0036 25.4 6.6 72 37-114 25-100 (295)
419 TIGR03677 rpl7ae 50S ribosomal 33.6 1E+02 0.0023 24.0 4.9 43 70-114 39-85 (117)
420 PRK14072 6-phosphofructokinase 33.3 1.2E+02 0.0025 28.7 6.0 65 39-103 67-137 (416)
421 PRK06849 hypothetical protein; 33.0 62 0.0013 28.8 4.0 23 33-55 17-39 (389)
422 cd07371 2A5CPDO_AB The alpha a 33.0 1.6E+02 0.0034 25.7 6.3 69 37-106 94-173 (268)
423 cd02754 MopB_Nitrate-R-NapA-li 32.8 67 0.0015 30.0 4.3 48 71-119 156-210 (565)
424 cd04630 CBS_pair_17 The CBS do 32.7 92 0.002 21.6 4.1 30 77-106 4-33 (114)
425 cd08171 GlyDH-like2 Glycerol d 32.7 1.2E+02 0.0027 26.9 5.8 77 36-114 14-97 (345)
426 TIGR00640 acid_CoA_mut_C methy 32.6 2.5E+02 0.0054 22.2 7.3 64 37-105 23-92 (132)
427 smart00115 CASc Caspase, inter 32.5 89 0.0019 26.6 4.7 60 12-79 11-79 (241)
428 PRK09856 fructoselysine 3-epim 32.5 1.5E+02 0.0032 24.6 5.9 44 56-99 87-145 (275)
429 PF00564 PB1: PB1 domain; Int 32.5 46 0.00099 23.0 2.5 21 76-96 53-73 (84)
430 cd03422 YedF YedF is a bacteri 32.4 1.2E+02 0.0026 21.2 4.6 43 60-103 15-57 (69)
431 TIGR03679 arCOG00187 arCOG0018 32.4 2.4E+02 0.0052 23.8 7.2 38 69-106 53-96 (218)
432 PLN02522 ATP citrate (pro-S)-l 32.4 1.1E+02 0.0023 30.8 5.9 61 43-110 79-142 (608)
433 PRK08248 O-acetylhomoserine am 32.3 1.5E+02 0.0033 27.5 6.5 68 26-100 105-183 (431)
434 PRK08278 short chain dehydroge 32.2 1.3E+02 0.0029 24.9 5.6 70 33-102 19-96 (273)
435 cd07766 DHQ_Fe-ADH Dehydroquin 32.2 1.2E+02 0.0026 26.3 5.6 77 36-115 14-98 (332)
436 PRK00843 egsA NAD(P)-dependent 32.2 1.8E+02 0.0038 26.1 6.7 73 39-114 27-106 (350)
437 cd01477 vWA_F09G8-8_type VWA F 32.0 2E+02 0.0043 23.8 6.6 34 73-106 131-171 (193)
438 PF00465 Fe-ADH: Iron-containi 32.0 89 0.0019 27.7 4.8 69 36-106 14-89 (366)
439 PF00781 DAGK_cat: Diacylglyce 32.0 2.2E+02 0.0048 21.3 6.6 48 67-115 23-72 (130)
440 PRK04175 rpl7ae 50S ribosomal 31.9 1.2E+02 0.0026 24.0 5.0 45 70-116 43-91 (122)
441 cd02763 MopB_2 The MopB_2 CD i 31.8 76 0.0017 31.8 4.7 72 72-147 155-236 (679)
442 PRK06077 fabG 3-ketoacyl-(acyl 31.7 2E+02 0.0043 22.8 6.2 68 31-102 17-90 (252)
443 PRK11263 cardiolipin synthase 31.6 1.7E+02 0.0038 27.3 6.8 61 44-104 190-254 (411)
444 PRK05576 cobalt-precorrin-2 C( 31.6 1.5E+02 0.0033 24.7 5.8 51 70-121 88-142 (229)
445 COG0794 GutQ Predicted sugar p 31.5 82 0.0018 27.5 4.3 76 36-119 57-136 (202)
446 cd04623 CBS_pair_10 The CBS do 31.4 1E+02 0.0023 20.8 4.1 30 77-106 4-33 (113)
447 CHL00194 ycf39 Ycf39; Provisio 31.4 61 0.0013 27.7 3.5 69 33-103 13-108 (317)
448 cd01482 vWA_collagen_alphaI-XI 31.3 78 0.0017 24.5 3.8 31 75-105 106-139 (164)
449 cd06409 PB1_MUG70 The MUG70 pr 31.3 84 0.0018 24.0 3.9 27 76-102 55-81 (86)
450 PRK09496 trkA potassium transp 31.3 96 0.0021 27.7 4.9 70 33-102 12-97 (453)
451 TIGR02979 phageshock_pspD phag 31.3 11 0.00025 27.6 -0.7 39 25-66 9-53 (59)
452 cd06311 PBP1_ABC_sugar_binding 31.3 2.8E+02 0.006 22.3 7.3 39 72-111 185-226 (274)
453 TIGR03669 urea_ABC_arch urea A 31.3 1.1E+02 0.0024 27.4 5.2 71 27-99 138-215 (374)
454 cd02769 MopB_DMSOR-BSOR-TMAOR 31.2 69 0.0015 30.8 4.2 73 71-147 169-261 (609)
455 TIGR00442 hisS histidyl-tRNA s 31.2 88 0.0019 28.0 4.6 35 67-102 344-378 (397)
456 PF00582 Usp: Universal stress 31.1 1.5E+02 0.0032 20.3 4.9 42 71-112 77-118 (140)
457 PF03129 HGTP_anticodon: Antic 31.0 1.9E+02 0.004 20.2 7.5 58 45-104 2-61 (94)
458 TIGR02026 BchE magnesium-proto 31.0 1.6E+02 0.0036 27.7 6.6 98 36-136 28-132 (497)
459 PF10443 RNA12: RNA12 protein; 30.9 83 0.0018 30.5 4.6 40 67-106 177-217 (431)
460 PRK12436 UDP-N-acetylenolpyruv 30.9 49 0.0011 29.6 3.0 35 72-106 36-70 (305)
461 cd00032 CASc Caspase, interleu 30.9 92 0.002 26.4 4.5 65 12-79 12-80 (243)
462 cd01422 MGS Methylglyoxal synt 30.8 1.4E+02 0.003 22.9 5.1 60 35-99 35-104 (115)
463 TIGR03333 salvage_mtnX 2-hydro 30.6 1.7E+02 0.0036 23.8 5.8 98 18-118 59-179 (214)
464 cd03174 DRE_TIM_metallolyase D 30.6 2.7E+02 0.0059 22.8 7.1 72 34-106 77-169 (265)
465 COG2205 KdpD Osmosensitive K+ 30.6 1.8E+02 0.004 30.8 7.3 78 27-106 251-344 (890)
466 TIGR01449 PGP_bact 2-phosphogl 30.5 2.7E+02 0.0058 21.8 7.3 67 36-106 93-168 (213)
467 cd08550 GlyDH-like Glycerol_de 30.5 1.7E+02 0.0037 26.0 6.3 76 36-113 14-95 (349)
468 TIGR00524 eIF-2B_rel eIF-2B al 30.4 99 0.0021 27.9 4.8 62 36-106 170-241 (303)
469 TIGR00418 thrS threonyl-tRNA s 30.3 63 0.0014 30.5 3.7 37 67-104 492-529 (563)
470 cd00851 MTH1175 This uncharact 30.2 72 0.0016 22.6 3.2 38 24-63 64-101 (103)
471 PRK05854 short chain dehydroge 30.1 1.6E+02 0.0035 25.2 5.9 61 32-94 26-86 (313)
472 TIGR01686 FkbH FkbH-like domai 30.0 1.4E+02 0.003 26.2 5.6 68 36-106 39-113 (320)
473 cd01536 PBP1_ABC_sugar_binding 29.9 2.7E+02 0.0058 21.7 7.3 22 76-97 184-205 (267)
474 COG2084 MmsB 3-hydroxyisobutyr 29.9 82 0.0018 28.6 4.2 71 33-104 12-94 (286)
475 cd01424 MGS_CPS_II Methylglyox 29.8 1.4E+02 0.003 22.0 4.8 61 36-100 35-99 (110)
476 TIGR01670 YrbI-phosphatas 3-de 29.8 2.7E+02 0.0059 21.7 6.7 63 36-106 36-102 (154)
477 cd06370 PBP1_Speract_GC_like L 29.7 1.3E+02 0.0027 26.7 5.3 71 27-98 141-223 (404)
478 PRK00075 cbiD cobalt-precorrin 29.6 1.1E+02 0.0024 28.7 5.1 55 59-114 183-262 (361)
479 cd00763 Bacterial_PFK Phosphof 29.6 2.1E+02 0.0046 26.0 6.8 66 36-102 56-121 (317)
480 PRK07666 fabG 3-ketoacyl-(acyl 29.4 1.6E+02 0.0035 23.3 5.4 67 33-103 20-91 (239)
481 PRK12420 histidyl-tRNA synthet 29.4 2.3E+02 0.0049 26.0 7.0 71 28-104 312-396 (423)
482 PRK12429 3-hydroxybutyrate deh 29.4 1.8E+02 0.0039 23.1 5.7 58 32-93 16-73 (258)
483 TIGR01467 cobI_cbiL precorrin- 29.3 1.7E+02 0.0036 24.3 5.7 52 70-122 88-143 (230)
484 cd08170 GlyDH Glycerol dehydro 29.2 2.5E+02 0.0055 24.8 7.1 77 36-114 14-96 (351)
485 PRK12823 benD 1,6-dihydroxycyc 29.2 1.7E+02 0.0037 23.5 5.6 65 32-101 20-89 (260)
486 PRK05876 short chain dehydroge 29.2 1.8E+02 0.0038 24.4 5.9 59 32-94 18-76 (275)
487 PF13727 CoA_binding_3: CoA-bi 29.2 2.4E+02 0.0053 21.0 6.5 47 59-105 90-150 (175)
488 PF00070 Pyr_redox: Pyridine n 29.0 65 0.0014 22.2 2.8 43 33-75 11-57 (80)
489 cd04643 CBS_pair_30 The CBS do 29.0 1.1E+02 0.0024 20.9 3.9 31 76-106 3-33 (116)
490 cd06556 ICL_KPHMT Members of t 28.9 3.2E+02 0.0069 23.9 7.6 48 56-106 154-201 (240)
491 cd08190 HOT Hydroxyacid-oxoaci 28.9 1.5E+02 0.0033 27.3 5.9 71 36-107 14-92 (414)
492 TIGR01470 cysG_Nterm siroheme 28.8 1.1E+02 0.0024 25.7 4.6 72 34-105 22-103 (205)
493 TIGR02128 G6PI_arch bifunction 28.8 76 0.0017 28.5 3.8 41 72-114 66-109 (308)
494 TIGR00262 trpA tryptophan synt 28.7 2.1E+02 0.0045 25.0 6.4 55 37-94 108-162 (256)
495 TIGR01656 Histidinol-ppas hist 28.7 2.7E+02 0.0058 21.3 8.4 71 35-105 34-127 (147)
496 PRK05613 O-acetylhomoserine am 28.6 1.7E+02 0.0038 27.3 6.3 70 26-101 110-190 (437)
497 COG1184 GCD2 Translation initi 28.5 81 0.0018 29.1 4.0 66 33-112 159-235 (301)
498 PF08032 SpoU_sub_bind: RNA 2' 28.4 1.9E+02 0.0041 19.5 5.3 40 73-115 18-59 (76)
499 PRK13905 murB UDP-N-acetylenol 28.4 58 0.0013 28.7 3.0 34 73-106 31-64 (298)
500 cd06344 PBP1_ABC_ligand_bindin 28.3 1.4E+02 0.003 25.2 5.1 35 70-104 189-223 (332)
No 1
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=98.97 E-value=2.1e-09 Score=81.69 Aligned_cols=82 Identities=28% Similarity=0.357 Sum_probs=70.9
Q ss_pred CCchhHhhhcceEEEecCC-----CcchHHHHHHHHHH-HHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC--
Q 039912 34 NGLIGELKRGGLWVRTASD-----KPQATDVLLRNHLV-ITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI-- 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsd-----KPqAAD~ALkrhm~-~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~-- 105 (198)
-.+..+|++.||.|.+++. .+.++|.+|.-.|. .+..++++++||||.|+||+++++.+|++|.+.+|+|-.
T Consensus 55 ~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~i~~lr~~G~~V~v~~~~~~ 134 (149)
T cd06167 55 RGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVLVSGDSDFVPLVERLRELGKRVIVVGFEAK 134 (149)
T ss_pred HHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEEEECCccHHHHHHHHHHcCCEEEEEccCcc
Confidence 4567899999999998884 46799999998888 555668999999999999999999999999999999985
Q ss_pred CCccccchhc
Q 039912 106 NDGALKRISY 115 (198)
Q Consensus 106 ~~~~L~R~AD 115 (198)
....|.+.||
T Consensus 135 ~s~~L~~~~d 144 (149)
T cd06167 135 TSRELRKAAD 144 (149)
T ss_pred ChHHHHHhCC
Confidence 3367888887
No 2
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=98.92 E-value=3e-09 Score=79.16 Aligned_cols=84 Identities=27% Similarity=0.341 Sum_probs=57.1
Q ss_pred chhHhhhcceEEEecCC------CcchHHHHHHHHHHHH-hhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEc--cCC
Q 039912 36 LIGELKRGGLWVRTASD------KPQATDVLLRNHLVIT-HKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVG--DIN 106 (198)
Q Consensus 36 La~ELrRAGv~VrtVsd------KPqAAD~ALkrhm~~m-~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVG--d~~ 106 (198)
+-..|++.|+.|+.++- ...++|.+|.-.|..+ .+..++.+||||.|+||+++++.+|++|.+++|+| +..
T Consensus 52 ~~~~L~~~g~~v~~~~~~~~~~~~k~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~v~~l~~~g~~V~v~~~~~~~ 131 (146)
T PF01936_consen 52 FQEALQRAGIKVRHFPLRKRGGGGKKGVDVALAVDILELAYENPPDTIVLVSGDSDFAPLVRKLRERGKRVIVVGAEDSA 131 (146)
T ss_dssp HHHHHHHHT-EEEE------S---S---HHHHHHHHHHHG--GG-SEEEEE---GGGHHHHHHHHHH--EEEEEE-GGGS
T ss_pred HHHHHHhCeeeEEeeecccccccccCCcHHHHHHHHHHHhhccCCCEEEEEECcHHHHHHHHHHHHcCCEEEEEEeCCCC
Confidence 34678999999987765 4579999999999844 34567999999999999999999999999999999 344
Q ss_pred Cccccchhccccc
Q 039912 107 DGALKRISYACFS 119 (198)
Q Consensus 107 ~~~L~R~AD~~fs 119 (198)
...|.+.||-.++
T Consensus 132 s~~L~~~ad~f~~ 144 (146)
T PF01936_consen 132 SEALRSAADEFIS 144 (146)
T ss_dssp -HHHHHHSSEEEE
T ss_pred CHHHHHhcCEEEe
Confidence 5788888886654
No 3
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=98.34 E-value=1.2e-06 Score=72.75 Aligned_cols=82 Identities=21% Similarity=0.255 Sum_probs=66.5
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHH-HHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC--CCcccc
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI--NDGALK 111 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~--~~~~L~ 111 (198)
+|-..|++.||.+..+.. +.|++|-=-++ .+.+..|+++||||-|+||++++..+|++|++.+|||-. ...+|.
T Consensus 70 ~l~~~l~~~Gf~pv~~kG---~~Dv~laIDame~~~~~~iD~~vLvSgD~DF~~Lv~~lre~G~~V~v~g~~~~ts~~L~ 146 (160)
T TIGR00288 70 KLIEAVVNQGFEPIIVAG---DVDVRMAVEAMELIYNPNIDAVALVTRDADFLPVINKAKENGKETIVIGAEPGFSTALQ 146 (160)
T ss_pred HHHHHHHHCCceEEEecC---cccHHHHHHHHHHhccCCCCEEEEEeccHhHHHHHHHHHHCCCEEEEEeCCCCChHHHH
Confidence 467789999999876544 89998866555 444678999999999999999999999999999999943 225788
Q ss_pred chhccccc
Q 039912 112 RISYACFS 119 (198)
Q Consensus 112 R~AD~~fs 119 (198)
+.||-++.
T Consensus 147 ~acd~FI~ 154 (160)
T TIGR00288 147 NSADIAII 154 (160)
T ss_pred HhcCeEEe
Confidence 88886553
No 4
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=97.59 E-value=0.00021 Score=58.88 Aligned_cols=84 Identities=21% Similarity=0.250 Sum_probs=58.9
Q ss_pred HhhhcceEEEecCCCcc--------hHHHHHHHHHH-HHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCCC--
Q 039912 39 ELKRGGLWVRTASDKPQ--------ATDVLLRNHLV-ITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIND-- 107 (198)
Q Consensus 39 ELrRAGv~VrtVsdKPq--------AAD~ALkrhm~-~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~~-- 107 (198)
+|+.-|+-|.+..-++- --|.-+=-+|+ ...+..++++||||-|.||.++++.|+++|.+|+|+|-+..
T Consensus 68 ~~~~~g~~v~~~~~~~~~~~~~~k~~vDv~la~D~~~l~~~~~~D~ivl~SgD~DF~p~v~~~~~~G~rv~v~~~~~~~s 147 (181)
T COG1432 68 ELRSDGFTVVTSNLDGFTDLRITKGDVDVELAVDAMELADKKNVDTIVLFSGDGDFIPLVEAARDKGKRVEVAGIEPMTS 147 (181)
T ss_pred HHhhcCcEEEeccccccCcccccccCcchhhHHHHHHhhcccCCCEEEEEcCCccHHHHHHHHHHcCCEEEEEecCCcCH
Confidence 66667777665333111 11222223444 44466999999999999999999999999999999998543
Q ss_pred ccccchhcccccHHH
Q 039912 108 GALKRISYACFSWWD 122 (198)
Q Consensus 108 ~~L~R~AD~~fsW~e 122 (198)
..|++.||-+..=..
T Consensus 148 ~~L~~~aD~~i~L~~ 162 (181)
T COG1432 148 SDLRNAADYYIDLKS 162 (181)
T ss_pred HHHHHhhcceEEchh
Confidence 678888886654433
No 5
>cd05013 SIS_RpiR RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate isomerases that catalyze the reversible reactions of ribose 5-phosphate into ribulose 5-phosphate.
Probab=96.05 E-value=0.048 Score=39.41 Aligned_cols=77 Identities=21% Similarity=0.128 Sum_probs=54.6
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccc
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKR 112 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R 112 (198)
++.-|++.|..+.++++ . ....+...... .-+|++++|-. .+...+++.|+++|.++|+|.+.....+.+
T Consensus 31 ~~~~l~~~~~~~~~~~~----~--~~~~~~~~~~~-~~~~~i~iS~~g~~~~~~~~~~~a~~~g~~iv~iT~~~~~~l~~ 103 (139)
T cd05013 31 LAYKLLRLGKPVVLLSD----P--HLQLMSAANLT-PGDVVIAISFSGETKETVEAAEIAKERGAKVIAITDSANSPLAK 103 (139)
T ss_pred HHHHHHHcCCceEEecC----H--HHHHHHHHcCC-CCCEEEEEeCCCCCHHHHHHHHHHHHcCCeEEEEcCCCCChhHH
Confidence 34567888888888755 1 11111111112 34789999855 447778899999999999999987788999
Q ss_pred hhccccc
Q 039912 113 ISYACFS 119 (198)
Q Consensus 113 ~AD~~fs 119 (198)
.+|..|.
T Consensus 104 ~~d~~i~ 110 (139)
T cd05013 104 LADIVLL 110 (139)
T ss_pred hcCEEEE
Confidence 9998775
No 6
>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=95.45 E-value=0.027 Score=41.57 Aligned_cols=78 Identities=12% Similarity=0.162 Sum_probs=56.4
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccc
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKR 112 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R 112 (198)
++..|.+.|..+....+. ..+..+...+ ..=++++++|-. .+..++++.||++|+++|+|-+..+..|++
T Consensus 18 ~~~~l~~~g~~~~~~~~~-----~~~~~~~~~~--~~~d~vi~iS~sG~t~~~~~~~~~a~~~g~~vi~iT~~~~s~la~ 90 (128)
T cd05014 18 IAATLSSTGTPAFFLHPT-----EALHGDLGMV--TPGDVVIAISNSGETDELLNLLPHLKRRGAPIIAITGNPNSTLAK 90 (128)
T ss_pred HHHHhhcCCCceEEcccc-----hhhccccCcC--CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCCchhh
Confidence 344567778888876442 1111111122 234789999854 788899999999999999999988899999
Q ss_pred hhcccccH
Q 039912 113 ISYACFSW 120 (198)
Q Consensus 113 ~AD~~fsW 120 (198)
.||..|..
T Consensus 91 ~ad~~l~~ 98 (128)
T cd05014 91 LSDVVLDL 98 (128)
T ss_pred hCCEEEEC
Confidence 99998865
No 7
>PRK15482 transcriptional regulator MurR; Provisional
Probab=95.07 E-value=0.086 Score=44.89 Aligned_cols=96 Identities=14% Similarity=0.199 Sum_probs=66.4
Q ss_pred hHHHHHHHHhccCCCC----CCCc--------hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC--
Q 039912 17 MEKYKRAARAVLTPEV----GNGL--------IGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD-- 82 (198)
Q Consensus 17 ~~KY~~AAr~lltPkv----gyGL--------a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd-- 82 (198)
.+.+++++..+...+- |.|. ..-|.|.|..|....|.. +..++......+ |+++++|-.
T Consensus 122 ~~~l~~~~~~i~~A~~I~i~G~G~S~~~A~~l~~~l~~~g~~~~~~~d~~------~~~~~~~~~~~~-Dv~i~iS~sg~ 194 (285)
T PRK15482 122 YARLQKIIEVISKAPFIQITGLGGSALVGRDLSFKLMKIGYRVACEADTH------VQATVSQALKKG-DVQIAISYSGS 194 (285)
T ss_pred HHHHHHHHHHHHhCCeeEEEEeChhHHHHHHHHHHHHhCCCeeEEeccHh------HHHHHHhcCCCC-CEEEEEeCCCC
Confidence 3456777776655553 5553 334567898888765421 112212222333 889999954
Q ss_pred -cchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 83 -SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 83 -sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
.+...+++.|+++|+++|.|-|.....|.+.||.-|.
T Consensus 195 t~~~~~~~~~a~~~g~~iI~IT~~~~s~la~~ad~~l~ 232 (285)
T PRK15482 195 KKEIVLCAEAARKQGATVIAITSLADSPLRRLAHFTLD 232 (285)
T ss_pred CHHHHHHHHHHHHCCCEEEEEeCCCCCchHHhCCEEEE
Confidence 6677888999999999999999888899999999874
No 8
>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=94.88 E-value=0.14 Score=40.37 Aligned_cols=69 Identities=13% Similarity=0.149 Sum_probs=50.4
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+.+......+..+ ..+..+..+.+.+++.||+++.+.. ..+++.+++.++..|++|..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~~~~ipvv~~~~~ 87 (259)
T cd01542 19 KGILAALYENGYQMLLMNTNFSIE--KEIEALELLARQKVDGIILLATTIT-DEHREAIKKLNVPVVVVGQD 87 (259)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHhcCCCCEEEEecc
Confidence 467788899999987765444322 2334445667899999999976543 47888888899999999864
No 9
>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=94.85 E-value=0.15 Score=40.91 Aligned_cols=83 Identities=14% Similarity=0.082 Sum_probs=56.2
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCCCccccch
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDINDGALKRI 113 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~ 113 (198)
.|+..++++.|+.|-+....-+.. ...+++..|.+.+++.|++++.+.+-.++++.++++++..|+++...+ ...
T Consensus 19 ~~i~~~a~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~~ipvV~i~~~~~---~~~ 93 (269)
T cd06281 19 SGAEDRLRAAGYSLLIANSLNDPE--RELEILRSFEQRRMDGIIIAPGDERDPELVDALASLDLPIVLLDRDMG---GGA 93 (269)
T ss_pred HHHHHHHHHcCCEEEEEeCCCChH--HHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHHhCCCCEEEEecccC---CCC
Confidence 467788999999987643322221 334455566788999999998765556788899999999999986432 233
Q ss_pred hcccccHH
Q 039912 114 SYACFSWW 121 (198)
Q Consensus 114 AD~~fsW~ 121 (198)
..+.+...
T Consensus 94 ~~V~~d~~ 101 (269)
T cd06281 94 DAVLFDHA 101 (269)
T ss_pred CEEEECcH
Confidence 44554443
No 10
>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=94.76 E-value=0.17 Score=39.83 Aligned_cols=69 Identities=14% Similarity=0.119 Sum_probs=50.8
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..+++..|+.|.+.....+.. ...+.+..+.+.+++.|++.+.+....++++.++++|+..|+++..
T Consensus 20 ~i~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~ 88 (266)
T cd06282 20 GIQEEARAAGYSLLLATTDYDAE--READAVETLLRQRVDGLILTVADAATSPALDLLDAERVPYVLAYND 88 (266)
T ss_pred HHHHHHHHCCCEEEEeeCCCCHH--HHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhCCCCEEEEecc
Confidence 66778888999998765443332 1223444566789999999877766567899999999999999754
No 11
>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=94.57 E-value=0.25 Score=39.37 Aligned_cols=91 Identities=14% Similarity=0.082 Sum_probs=62.2
Q ss_pred CchhHhhhcceEEEec-CCCcchHHHHHHHHHHHHhhcCccEEEEEeCC-cchHHHHHHHHhcCCcEEEEccCCCccccc
Q 039912 35 GLIGELKRGGLWVRTA-SDKPQATDVLLRNHLVITHKRRIEYLVVVSDD-SDFVEVLLEANLRCLKTVVVGDINDGALKR 112 (198)
Q Consensus 35 GLa~ELrRAGv~VrtV-sdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd-sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R 112 (198)
|+-.+++..|+.+.++ ...... ......++.+++.|++.|++..-+ +...++|+.|+++|+..|.+.........+
T Consensus 19 g~~~~a~~~g~~~~~~~~~~~d~--~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~~~~gIpvv~~d~~~~~~~~~ 96 (257)
T PF13407_consen 19 GAKAAAKELGYEVEIVFDAQNDP--EEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKAKAAGIPVVTVDSDEAPDSPR 96 (257)
T ss_dssp HHHHHHHHHTCEEEEEEESTTTH--HHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHHHHTTSEEEEESSTHHTTSTS
T ss_pred HHHHHHHHcCCEEEEeCCCCCCH--HHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHHhhcCceEEEEeccccccccc
Confidence 5677888999999986 444443 345566777779999999988544 578999999999999888876650122344
Q ss_pred hhcccccHHHHhhchhh
Q 039912 113 ISYACFSWWDILMGKAR 129 (198)
Q Consensus 113 ~AD~~fsW~eV~~Gka~ 129 (198)
.+ ++....-.+|+..
T Consensus 97 ~~--~v~~d~~~~G~~~ 111 (257)
T PF13407_consen 97 AA--YVGTDNYEAGKLA 111 (257)
T ss_dssp SE--EEEE-HHHHHHHH
T ss_pred ee--eeeccHHHHHHHH
Confidence 44 4444555555543
No 12
>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=94.42 E-value=0.24 Score=39.76 Aligned_cols=70 Identities=16% Similarity=0.117 Sum_probs=51.7
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+.|.+.....+.+ .-.+.+..++..+++.|++.+-+++ +.+.++.++++|+..|+++..
T Consensus 19 ~~i~~~~~~~g~~v~~~~~~~~~~--~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 89 (282)
T cd06318 19 EAAKAHAKALGYELISTDAQGDLT--KQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAAKAAGVPVVVVDSS 89 (282)
T ss_pred HHHHHHHHHcCCEEEEEcCCCCHH--HHHHHHHHHHHcCCCEEEEecCCccchHHHHHHHHHCCCCEEEecCC
Confidence 478888999999987654433333 2234555677899999999865544 457889999999999999863
No 13
>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=94.32 E-value=0.24 Score=39.39 Aligned_cols=70 Identities=9% Similarity=0.027 Sum_probs=50.8
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+.+.......... .-...+..++..+++.||+.+.++. ..++++.++++|+.-|.++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~~~~~ipvV~~~~~ 89 (273)
T cd06305 19 AGTKAEAEALGGDLRVYDAGGDDA--KQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRALDAGIPVVAFDVD 89 (273)
T ss_pred HHHHHHHHHcCCEEEEECCCCCHH--HHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHHHHcCCCEEEecCC
Confidence 366788999999988765433322 1223344566789999999875544 578899999999999999864
No 14
>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=94.31 E-value=0.18 Score=39.87 Aligned_cols=71 Identities=13% Similarity=0.079 Sum_probs=49.7
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
+|+..++++.|+.+.+....-..+ ......+..+.+.+++.|++++-+....++++.++++++..|+|+-.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~-~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvv~i~~~ 89 (270)
T cd01545 19 LGALDACRDTGYQLVIEPCDSGSP-DLAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEAGVPYVRIAPG 89 (270)
T ss_pred HHHHHHHHhCCCeEEEEeCCCCch-HHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhcCCCEEEEecC
Confidence 477888899998887653332211 12222223555789999999976655678899999999999999753
No 15
>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=94.15 E-value=0.24 Score=40.39 Aligned_cols=70 Identities=13% Similarity=0.030 Sum_probs=53.6
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+++..|+.+.......+.. -...++.+++.++++-|++.+-+++ ..++++.+.++++..|+++-.
T Consensus 19 ~gi~~~~~~~G~~~~~~~~~~d~~--~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 89 (272)
T cd06313 19 QAADEAGKLLGVDVTWYGGALDAV--KQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTL 89 (272)
T ss_pred HHHHHHHHHcCCEEEEecCCCCHH--HHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCC
Confidence 467778888999998765544333 3345666777999999999886655 577889999999999999754
No 16
>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=94.10 E-value=0.083 Score=38.45 Aligned_cols=48 Identities=15% Similarity=0.271 Sum_probs=39.9
Q ss_pred CccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 72 RIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 72 gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
.-+|++++|-. .+..+.++.|+++|.++|+|-+.....+.+.||.-|.
T Consensus 53 ~~d~vi~is~sg~~~~~~~~~~~ak~~g~~vi~iT~~~~~~l~~~ad~~l~ 103 (131)
T PF01380_consen 53 PDDLVIIISYSGETRELIELLRFAKERGAPVILITSNSESPLARLADIVLY 103 (131)
T ss_dssp TTEEEEEEESSSTTHHHHHHHHHHHHTTSEEEEEESSTTSHHHHHSSEEEE
T ss_pred ccceeEeeeccccchhhhhhhHHHHhcCCeEEEEeCCCCCchhhhCCEEEE
Confidence 45899999943 4567788999999999999999877899999987663
No 17
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=94.10 E-value=0.2 Score=42.62 Aligned_cols=95 Identities=18% Similarity=0.240 Sum_probs=64.7
Q ss_pred HHHHHHHHhccCCCC----CCC--------chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC---
Q 039912 18 EKYKRAARAVLTPEV----GNG--------LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD--- 82 (198)
Q Consensus 18 ~KY~~AAr~lltPkv----gyG--------La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd--- 82 (198)
+...+++..+...+- |.| ++.-|.|.|+.+..+.|... + ...... -.-=|++|++|-.
T Consensus 128 ~~l~~~~~~i~~A~~I~i~G~G~S~~~A~~l~~~l~~~g~~~~~~~d~~~-----~-~~~~~~-~~~~Dl~I~iS~sG~t 200 (292)
T PRK11337 128 DEFHRAARFFYQARQRDLYGAGGSAAIARDVQHKFLRIGVRCQAYDDAHI-----M-LMSAAL-LQEGDVVLVVSHSGRT 200 (292)
T ss_pred HHHHHHHHHHHcCCeEEEEEecHHHHHHHHHHHHHhhCCCeEEEcCCHHH-----H-HHHHhc-CCCCCEEEEEeCCCCC
Confidence 556666666655442 555 23457788998887655211 0 000111 1234778888854
Q ss_pred cchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 83 SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 83 sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
.+..++++.|+++|+++|+|-+.....|++.||.-|.
T Consensus 201 ~~~~~~~~~ak~~g~~ii~IT~~~~s~la~~ad~~l~ 237 (292)
T PRK11337 201 SDVIEAVELAKKNGAKIICITNSYHSPIAKLADYVIC 237 (292)
T ss_pred HHHHHHHHHHHHCCCeEEEEeCCCCChhHHhCCEEEE
Confidence 6688899999999999999999888899999999884
No 18
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=94.06 E-value=0.21 Score=39.42 Aligned_cols=51 Identities=12% Similarity=0.187 Sum_probs=41.7
Q ss_pred cCccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhcccccHH
Q 039912 71 RRIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWW 121 (198)
Q Consensus 71 ~gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~ 121 (198)
..=+.++++|-. .+-.++++.|+++|+++|+|-+..+..|.+.||+.|.=.
T Consensus 78 ~~~D~~i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~~~s~l~~~ad~~l~~~ 131 (154)
T TIGR00441 78 QKGDVLLGISTSGNSKNVLKAIEAAKDKGMKTITLAGKDGGKMAGLADIELRVP 131 (154)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCchhhhCCEEEEeC
Confidence 344889999965 566678899999999999999877789999999877533
No 19
>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=93.71 E-value=0.31 Score=40.95 Aligned_cols=69 Identities=14% Similarity=0.158 Sum_probs=52.3
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..+++..|+.+.+.+.-...+ ...+++..|++.+++.|++++-++. ..+.++.+++.++.-|+++..
T Consensus 19 ~i~~~a~~~g~~v~~~~~~~~~~--~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~~ 88 (302)
T TIGR02634 19 IFVAAAESLGAKVFVQSANGNEA--KQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDRL 88 (302)
T ss_pred HHHHHHHhcCCEEEEEeCCCCHH--HHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecCc
Confidence 67788899999887654322222 2335566888999999999997765 578999999999999998754
No 20
>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=93.62 E-value=0.26 Score=41.09 Aligned_cols=69 Identities=14% Similarity=0.075 Sum_probs=50.5
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhc--CccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKR--RIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~--gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..+++..|+.+..+....+. ......+.+++++ +++.|++.+.+....++++.++++|+..|+++..
T Consensus 21 gi~~~~~~~g~~v~~~~~~~~~--~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~~~~~~giPvV~~~~~ 91 (305)
T cd06324 21 FMQAAADDLGIELEVLYAERDR--FLMLQQARTILQRPDKPDALIFTNEKSVAPELLRLAEGAGVKLFLVNSG 91 (305)
T ss_pred HHHHHHHhcCCeEEEEeCCCCH--HHHHHHHHHHHHhccCCCEEEEcCCccchHHHHHHHHhCCCeEEEEecC
Confidence 6778888999988765432222 1223344467788 9999999876655678899999999999999753
No 21
>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=93.54 E-value=0.36 Score=38.85 Aligned_cols=97 Identities=13% Similarity=0.085 Sum_probs=61.3
Q ss_pred CchhHhhhcceEEEecCCCc-chHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccCCCc-c-c
Q 039912 35 GLIGELKRGGLWVRTASDKP-QATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDINDG-A-L 110 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKP-qAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~~~~-~-L 110 (198)
|+-.+++..|+.|.+..... ... .....+.++...+++-||+++-+.+ +.++|+.++++|+..|+++..... . .
T Consensus 21 g~~~~~~~~g~~v~~~~~~~~~~~--~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~~~~~~ 98 (271)
T cd06312 21 GAEDAAKDLGVDVEYRGPETFDVA--DMARLIEAAIAAKPDGIVVTIPDPDALDPAIKRAVAAGIPVISFNAGDPKYKEL 98 (271)
T ss_pred HHHHHHHHhCCEEEEECCCCCCHH--HHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHHHHHCCCeEEEeCCCCCccccc
Confidence 66777888899998754432 111 1223344566789999999987654 678899999999999999753211 0 1
Q ss_pred cchhcccccHHHHhhchhhhhhhhh
Q 039912 111 KRISYACFSWWDILMGKARKEAVSV 135 (198)
Q Consensus 111 ~R~AD~~fsW~eV~~Gka~k~A~~~ 135 (198)
.+.. ++..+.-..|+.-......
T Consensus 99 ~~~~--~V~~d~~~~g~~~~~~l~~ 121 (271)
T cd06312 99 GALA--YVGQDEYAAGEAAGERLAE 121 (271)
T ss_pred cceE--EeccChHHHHHHHHHHHHH
Confidence 2222 3455666666554444433
No 22
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=93.54 E-value=0.28 Score=43.13 Aligned_cols=70 Identities=17% Similarity=0.070 Sum_probs=51.3
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHH-HHHHHHHhhcCccEEEEEeCC-cchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLL-RNHLVITHKRRIEYLVVVSDD-SDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~AL-krhm~~m~~~gv~clvLVSDd-sdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+-.+.++.|+.|.+.. |.-.|.+- .+.++.|+.+|++.|++++-| .-+.+.|+.|+++|+..|.+...
T Consensus 43 ~Gi~~aa~~~G~~v~~~~--~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~l~~a~~~gIpVV~~d~~ 114 (336)
T PRK15408 43 NGAKEAGKELGVDVTYDG--PTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPALKRAMQRGVKVLTWDSD 114 (336)
T ss_pred HHHHHHHHHhCCEEEEEC--CCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEeCCC
Confidence 366778889999997622 22122222 255668889999999998744 45789999999999999999764
No 23
>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=93.38 E-value=0.14 Score=37.59 Aligned_cols=48 Identities=19% Similarity=0.209 Sum_probs=39.6
Q ss_pred CccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 72 RIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 72 gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
.-++++.+|-. .+-.++++.|+++|.++|.|-+..+..|.+.||..|.
T Consensus 46 ~~d~~I~iS~sG~t~e~~~~~~~a~~~g~~vi~iT~~~~s~la~~ad~~l~ 96 (126)
T cd05008 46 EDTLVIAISQSGETADTLAALRLAKEKGAKTVAITNVVGSTLAREADYVLY 96 (126)
T ss_pred CCcEEEEEeCCcCCHHHHHHHHHHHHcCCeEEEEECCCCChHHHhCCEEEE
Confidence 45678888854 4566778899999999999999877899999998874
No 24
>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=93.10 E-value=0.46 Score=38.36 Aligned_cols=68 Identities=15% Similarity=0.071 Sum_probs=49.8
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcch-HHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDF-VEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF-~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+-.+++..|+.+..+... ... -....+..+..++++-||+.+.++.+ .++++.+++.|+..|+++..
T Consensus 20 gi~~~~~~~g~~~~~~~~~-~~~--~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~~~~~iPvV~~~~~ 88 (289)
T cd01540 20 FAKKAAKEKGFTVVKIDVP-DGE--KVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKAKAYNMKVVAVDDR 88 (289)
T ss_pred HHHHHHHHcCCEEEEccCC-CHH--HHHHHHHHHHHcCCCEEEEccCchhhhHHHHHHHHhCCCeEEEecCC
Confidence 5667888899998875332 322 22334556668899999999877654 45789999999999999864
No 25
>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=93.05 E-value=0.41 Score=38.41 Aligned_cols=70 Identities=16% Similarity=0.067 Sum_probs=49.2
Q ss_pred CCchhHhhhcceEEEecC-C-CcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTAS-D-KPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVs-d-KPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+.+..+. + .+... .-.+.+..+...+++.||+++-+++ ..+.++.++++++..|.+|..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~~~~~iPvV~~~~~ 91 (275)
T cd06320 19 EGYENEAKKLGVSVDIQAAPSEGDQQ--GQLSIAENMINKGYKGLLFSPISDVNLVPAVERAKKKGIPVVNVNDK 91 (275)
T ss_pred HHHHHHHHHhCCeEEEEccCCCCCHH--HHHHHHHHHHHhCCCEEEECCCChHHhHHHHHHHHHCCCeEEEECCC
Confidence 578888999999887653 2 12211 1223444666889999999876543 467889999999999988753
No 26
>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=93.03 E-value=0.55 Score=37.63 Aligned_cols=70 Identities=17% Similarity=0.168 Sum_probs=48.7
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc----hHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD----FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd----F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+++..|+.+-+....-+.. .....+..|...+++.|++.+-+++ ..++++.++++++..|.++-.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~~~~~~ipvV~~~~~ 92 (273)
T cd01541 19 RGIESVLSEKGYSLLLASTNNDPE--RERKCLENMLSQGIDGLIIEPTKSALPNPNIDLYLKLEKLGIPYVFINAS 92 (273)
T ss_pred HHHHHHHHHcCCEEEEEeCCCCHH--HHHHHHHHHHHcCCCEEEEeccccccccccHHHHHHHHHCCCCEEEEecC
Confidence 467888999999987643322221 1233444566889999999865442 447889999999999999853
No 27
>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=93.03 E-value=0.58 Score=37.16 Aligned_cols=69 Identities=9% Similarity=0.127 Sum_probs=50.3
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..++++.|+.+.+.....+.. ...+.+..+...+++.|++.+-+++ ..+.++.++++++..|.++..
T Consensus 21 g~~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~~~~iPvV~~~~~ 90 (275)
T cd06317 21 AFQAAAEEDGVEVIVLDANGDVA--RQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRKAKQAGIPVVITNSN 90 (275)
T ss_pred HHHHHHHhcCCEEEEEcCCcCHH--HHHHHHHHHHHcCCCEEEEecCCccccHHHHHHHHHCCCcEEEeCCC
Confidence 66677888899998765433322 2234455666889999999886655 468889999999999988753
No 28
>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=93.02 E-value=0.49 Score=38.39 Aligned_cols=70 Identities=13% Similarity=0.128 Sum_probs=50.3
Q ss_pred CCchhHhhhcceEEEecCC--CcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASD--KPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsd--KPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+.+..... .+.+. .....+..+.+.+++-|++++-+.+....+..++.+|+..|+++..
T Consensus 19 ~gi~~~a~~~g~~~~~~~~~~~~~~~--~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~~~~giPvV~~~~~ 90 (268)
T cd06306 19 YGMVEEAKRLGVSLKLLEAGGYPNLA--KQIAQLEDCAAWGADAILLGAVSPDGLNEILQQVAASIPVIALVND 90 (268)
T ss_pred HHHHHHHHHcCCEEEEecCCCCCCHH--HHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHHHHCCCCEEEeccC
Confidence 3777899999999987542 23322 2334455666889999999986655433678899999999999754
No 29
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=92.99 E-value=0.43 Score=38.97 Aligned_cols=71 Identities=13% Similarity=0.183 Sum_probs=48.8
Q ss_pred CCchhHhhhcceEEEec--CCCc-chHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTA--SDKP-QATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtV--sdKP-qAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+|+..|+.+.+. ...+ .-++ .-...+..+..++++.||+.+.+....+.++.+.+.+.-.|++.|.
T Consensus 20 ~~i~~~~~~~g~~~~~~~~~~~~~~~~~-~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l~~~~~p~V~i~~~ 93 (280)
T cd06303 20 ASFTARLEELNIPYELTQFSSRPGIDHR-LQSQQLNEALQSKPDYLIFTLDSLRHRKLIERVLASGKTKIILQNI 93 (280)
T ss_pred HHHHHHHHHcCCcEEEEEeccCcccCHH-HHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHHHhCCCCeEEEeCC
Confidence 37788999999776643 2322 1111 2234455666899999999876655678888888888888888663
No 30
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=92.93 E-value=0.5 Score=39.80 Aligned_cols=97 Identities=16% Similarity=0.138 Sum_probs=66.3
Q ss_pred hhHHHHHHHHhccCCCC----CCCc--------hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC-
Q 039912 16 KMEKYKRAARAVLTPEV----GNGL--------IGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD- 82 (198)
Q Consensus 16 K~~KY~~AAr~lltPkv----gyGL--------a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd- 82 (198)
..++..++++.+...+- |.|. +.-|.|.|..+...+|.-. +...+..+ .-=|+++.+|=.
T Consensus 114 ~~~~l~~~~~~i~~a~~I~i~G~G~s~~~A~~~~~~l~~~g~~~~~~~d~~~-----~~~~~~~~--~~~Dv~I~iS~sg 186 (278)
T PRK11557 114 SEEKLHECVTMLRSARRIILTGIGASGLVAQNFAWKLMKIGINAVAERDMHA-----LLATVQAL--SPDDLLLAISYSG 186 (278)
T ss_pred CHHHHHHHHHHHhcCCeEEEEecChhHHHHHHHHHHHhhCCCeEEEcCChHH-----HHHHHHhC--CCCCEEEEEcCCC
Confidence 34667777777666654 6653 3447788999887655211 11111133 234677777743
Q ss_pred --cchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 83 --SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 83 --sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
.+...+++.|+++|.++|+|-|.....+.+.||+-|.
T Consensus 187 ~~~~~~~~~~~ak~~ga~iI~IT~~~~s~la~~ad~~l~ 225 (278)
T PRK11557 187 ERRELNLAADEALRVGAKVLAITGFTPNALQQRASHCLY 225 (278)
T ss_pred CCHHHHHHHHHHHHcCCCEEEEcCCCCCchHHhCCEEEE
Confidence 4556788999999999999999878899999998883
No 31
>cd05005 SIS_PHI Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with formadelhyde to become hexulose-6-phosphate, which is then isomerized to fructose-6-phosphate by PHI.
Probab=92.93 E-value=0.16 Score=40.38 Aligned_cols=93 Identities=19% Similarity=0.222 Sum_probs=66.1
Q ss_pred hhHHHHHHHHhccCCCC----CCC--------chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC-
Q 039912 16 KMEKYKRAARAVLTPEV----GNG--------LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD- 82 (198)
Q Consensus 16 K~~KY~~AAr~lltPkv----gyG--------La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd- 82 (198)
..+..++++..+...+- |.| ++..|.+.|..|..+++- .+ ..+ ..=++++.+|-.
T Consensus 19 ~~~~l~~~~~~i~~a~~I~i~G~G~S~~~A~~~~~~l~~~g~~~~~~~~~-~~---------~~~--~~~D~vI~iS~sG 86 (179)
T cd05005 19 DEEELDKLISAILNAKRIFVYGAGRSGLVAKAFAMRLMHLGLNVYVVGET-TT---------PAI--GPGDLLIAISGSG 86 (179)
T ss_pred CHHHHHHHHHHHHhCCeEEEEecChhHHHHHHHHHHHHhCCCeEEEeCCC-CC---------CCC--CCCCEEEEEcCCC
Confidence 34556666666544433 555 233577889999887652 11 112 345788888855
Q ss_pred --cchHHHHHHHHhcCCcEEEEccCCCccccchhcccccH
Q 039912 83 --SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSW 120 (198)
Q Consensus 83 --sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW 120 (198)
.+...+++.|+++|+++|+|-+.....|.+.||..|.-
T Consensus 87 ~t~~~i~~~~~ak~~g~~iI~IT~~~~s~la~~ad~~l~~ 126 (179)
T cd05005 87 ETSSVVNAAEKAKKAGAKVVLITSNPDSPLAKLADVVVVI 126 (179)
T ss_pred CcHHHHHHHHHHHHCCCeEEEEECCCCCchHHhCCEEEEe
Confidence 67778899999999999999998778999999998854
No 32
>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=92.92 E-value=0.52 Score=37.81 Aligned_cols=65 Identities=14% Similarity=0.093 Sum_probs=45.8
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
|+..+++..|+.+..+.-.++ ....+.+ .+.+.++++|++++.+.+ ...++.+.+.|+..|++|-
T Consensus 31 gi~~~~~~~g~~~~v~~~~~~-~~~~~~~---~l~~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~ 95 (275)
T cd06295 31 GIADALAERGYDLLLSFVSSP-DRDWLAR---YLASGRADGVILIGQHDQ-DPLPERLAETGLPFVVWGR 95 (275)
T ss_pred HHHHHHHHcCCEEEEEeCCch-hHHHHHH---HHHhCCCCEEEEeCCCCC-hHHHHHHHhCCCCEEEECC
Confidence 456788889988876654444 1112221 444679999999876544 5678999999999999974
No 33
>PRK13937 phosphoheptose isomerase; Provisional
Probab=92.70 E-value=0.47 Score=38.74 Aligned_cols=49 Identities=16% Similarity=0.163 Sum_probs=41.2
Q ss_pred ccEEEEEe---CCcchHHHHHHHHhcCCcEEEEccCCCccccchhcccccHH
Q 039912 73 IEYLVVVS---DDSDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWW 121 (198)
Q Consensus 73 v~clvLVS---DdsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~ 121 (198)
=+.++++| ...+-.++++.|+++|++||+|-...+..|.+.||..+.-.
T Consensus 107 ~Dl~i~iS~sG~t~~~~~~~~~ak~~g~~~I~iT~~~~s~L~~~ad~~l~~~ 158 (188)
T PRK13937 107 GDVLIGISTSGNSPNVLAALEKARELGMKTIGLTGRDGGKMKELCDHLLIVP 158 (188)
T ss_pred CCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEeCCCCChhHHhCCEEEEeC
Confidence 38888898 45778889999999999999998766689999999987543
No 34
>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=92.54 E-value=0.53 Score=38.91 Aligned_cols=70 Identities=16% Similarity=0.104 Sum_probs=48.0
Q ss_pred CCchhHhhhcceE-EEecCCC-cchHHHHHHHHHHHHhhcCccEEEEEeCCc-chHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLW-VRTASDK-PQATDVLLRNHLVITHKRRIEYLVVVSDDS-DFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~-VrtVsdK-PqAAD~ALkrhm~~m~~~gv~clvLVSDds-dF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+. +...... ...+ -...++.++++++++.||+++-++ .+.+.++.++++|+..|+++..
T Consensus 18 ~gi~~~a~~~g~~~~i~~~~~~~d~~--~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~ 90 (302)
T TIGR02637 18 KGAEEAAKELGSVYIIYTGPTGTTAE--GQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGIKVVTWDSG 90 (302)
T ss_pred HHHHHHHHHhCCeeEEEECCCCCCHH--HHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCCEEEEeCCC
Confidence 3677888899954 3322111 1222 223455677789999999988654 4568899999999999999754
No 35
>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=92.21 E-value=0.82 Score=36.22 Aligned_cols=68 Identities=15% Similarity=0.123 Sum_probs=49.8
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..++++.|+.|.++...-.. .....++..+.+.+++-|++.+.+.+ ...++.++++++..|++|..
T Consensus 20 gi~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~l~~~~vdgiIi~~~~~~-~~~~~~l~~~~ipvV~~~~~ 87 (265)
T cd06299 20 AIQDAASAAGYSTIIGNSDENP--ETENRYLDNLLSQRVDGIIVVPHEQS-AEQLEDLLKRGIPVVFVDRE 87 (265)
T ss_pred HHHHHHHHcCCEEEEEeCCCCH--HHHHHHHHHHHhcCCCEEEEcCCCCC-hHHHHHHHhCCCCEEEEecc
Confidence 7778889999998876432111 12334455666889999999876654 36789999999999999875
No 36
>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=92.04 E-value=0.77 Score=37.64 Aligned_cols=69 Identities=14% Similarity=0.026 Sum_probs=49.9
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEcc
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd 104 (198)
.|+..+++..|+.+.....-..... ..+.+..+..++++.|+|++-+.+ ..+.+..+++.++..|+++.
T Consensus 20 ~gi~~~a~~~gy~~~~~~~~~~~~~--~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~~~~~~~iPvV~~d~ 89 (280)
T cd06315 20 EGVREAAKAIGWNLRILDGRGSEAG--QAAALNQAIALKPDGIVLGGVDAAELQAELELAQKAGIPVVGWHA 89 (280)
T ss_pred HHHHHHHHHcCcEEEEECCCCCHHH--HHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHHHHCCCCEEEecC
Confidence 4677889999998876543333332 234555677899999999986544 35677888889999999975
No 37
>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=92.00 E-value=0.84 Score=36.47 Aligned_cols=69 Identities=16% Similarity=0.195 Sum_probs=48.5
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+.+.++....... .-+..+..+.+++++.|++++-+..- ..++.++++|+..|+++..
T Consensus 19 ~g~~~~a~~~g~~~~~~~~~~~~~--~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~~~~ipvV~~~~~ 87 (268)
T cd06270 19 SGVESVARKAGKHLIITAGHHSAE--KEREAIEFLLERRCDALILHSKALSD-DELIELAAQVPPLVLINRH 87 (268)
T ss_pred HHHHHHHHHCCCEEEEEeCCCchH--HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhCCCCEEEEecc
Confidence 367788899999998765433322 22344446778999999998743222 2388899999999999864
No 38
>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=91.95 E-value=0.88 Score=36.51 Aligned_cols=70 Identities=9% Similarity=0.115 Sum_probs=50.0
Q ss_pred CCchhHhhhc-ceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRG-GLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRA-Gv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++.+. |+.|.+... +...+ .....+..+.+++++-|++++.+.+ +.+.++.+++.++..|+++..
T Consensus 19 ~~i~~~~~~~~g~~~~~~~~-~~~~~-~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~ 90 (270)
T cd06308 19 DEIQREASNYPDVELIIADA-ADDNS-KQVADIENFIRQGVDLLIISPNEAAPLTPVVEEAYRAGIPVILLDRK 90 (270)
T ss_pred HHHHHHHHhcCCcEEEEEcC-CCCHH-HHHHHHHHHHHhCCCEEEEecCchhhchHHHHHHHHCCCCEEEeCCC
Confidence 4677788885 888876433 22222 1234455667889999999886644 678889999999999999863
No 39
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=91.91 E-value=0.68 Score=38.24 Aligned_cols=71 Identities=14% Similarity=0.080 Sum_probs=51.6
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcch-HHHHHHHHhcCCcEEEEccC
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDF-VEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF-~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
-.|+..++++.|+.+.......+.. -..+.+..+..++++.|++.+.+++. .+.++.+++.++..|.++..
T Consensus 45 ~~~i~~~~~~~G~~~~~~~~~~d~~--~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~ 116 (295)
T PRK10653 45 KDGAQKEADKLGYNLVVLDSQNNPA--KELANVQDLTVRGTKILLINPTDSDAVGNAVKMANQANIPVITLDRG 116 (295)
T ss_pred HHHHHHHHHHcCCeEEEecCCCCHH--HHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHHCCCCEEEEccC
Confidence 3578889999999987654433322 11233445667899999998877554 57899999999999999864
No 40
>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=91.91 E-value=0.78 Score=38.17 Aligned_cols=70 Identities=17% Similarity=0.087 Sum_probs=51.1
Q ss_pred CCchhHhhhcceEEEec-CCCcchHHHHHHHHHHHHhhcCccEEEEEeCCc-chHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTA-SDKPQATDVLLRNHLVITHKRRIEYLVVVSDDS-DFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtV-sdKPqAAD~ALkrhm~~m~~~gv~clvLVSDds-dF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+-.++++.|+.|..+ ....+.. ...+.+..+.+.+++.|++++-++ .+.+.++.++++++..|.++..
T Consensus 19 ~gi~~~a~~~g~~v~~~~~~~~d~~--~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~~~~~iPvV~v~~~ 90 (298)
T cd06302 19 EGAKEAAKELGVDAIYVGPTTADAA--GQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKAREAGIKVVTHDSD 90 (298)
T ss_pred HHHHHHHHHhCCeEEEECCCCCCHH--HHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEEcCC
Confidence 36778889999999865 3333332 223444466688999999987554 4678899999999999999753
No 41
>cd05710 SIS_1 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are 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.
Probab=91.85 E-value=0.31 Score=36.83 Aligned_cols=46 Identities=13% Similarity=0.138 Sum_probs=39.8
Q ss_pred cEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 74 EYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 74 ~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
++++.+|-. .+-.++++.||++|.++|.|-+..+..|.+.||..|.
T Consensus 49 dl~I~iS~SG~t~~~~~~~~~a~~~g~~vi~iT~~~~s~la~~ad~~l~ 97 (120)
T cd05710 49 SVVILASHSGNTKETVAAAKFAKEKGATVIGLTDDEDSPLAKLADYVIV 97 (120)
T ss_pred cEEEEEeCCCCChHHHHHHHHHHHcCCeEEEEECCCCCcHHHhCCEEEE
Confidence 788999855 6777888999999999999999777899999998774
No 42
>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=91.83 E-value=0.97 Score=37.19 Aligned_cols=90 Identities=11% Similarity=0.047 Sum_probs=60.5
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccCCCccccc
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDINDGALKR 112 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~~~~~L~R 112 (198)
.|+..++++.|+.+.+........ ...+.+..++..+++-|++++.+++ ..+.|+.+++.|...|+++.... ..
T Consensus 19 ~gi~~~a~~~g~~~~~~~~~~~~~--~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l~~~~ipvV~~~~~~~-~~-- 93 (288)
T cd01538 19 PNFEAALKELGAEVIVQNANGDPA--KQISQIENMIAKGVDVLVIAPVDGEALASAVEKAADAGIPVIAYDRLIL-NS-- 93 (288)
T ss_pred HHHHHHHHHcCCEEEEECCCCCHH--HHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHHHHCCCCEEEECCCCC-CC--
Confidence 477888999999998765433222 2334555667889999999986554 67899999999999998875431 11
Q ss_pred hhcccccHHHHhhchh
Q 039912 113 ISYACFSWWDILMGKA 128 (198)
Q Consensus 113 ~AD~~fsW~eV~~Gka 128 (198)
..+.+++-+....|+.
T Consensus 94 ~~~~~v~~d~~~~g~~ 109 (288)
T cd01538 94 NVDYYVSFDNEKVGEL 109 (288)
T ss_pred CcceEEEeChHHHHHH
Confidence 1233455555555553
No 43
>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=91.81 E-value=1 Score=35.44 Aligned_cols=69 Identities=14% Similarity=0.116 Sum_probs=48.1
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+-.++++.|+.+.+.....+.. ...+.+..+.+.+++-|++++-+++-.++++.+++.|+..|.++..
T Consensus 20 g~~~~a~~~g~~~~~~~~~~~~~--~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~ 88 (268)
T cd06289 20 GLEEVLEEAGYTVFLANSGEDVE--RQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLAESGIPVVLVARE 88 (268)
T ss_pred HHHHHHHHcCCeEEEecCCCChH--HHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHHhcCCCEEEEecc
Confidence 55667788888887654332221 2233444666889999999976554445899999999999999754
No 44
>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=91.69 E-value=0.94 Score=37.17 Aligned_cols=71 Identities=13% Similarity=0.145 Sum_probs=50.5
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+-+..+.....-++ ...+++..+...+++-||+.+-+.. ..++++.++++|+..|.++..
T Consensus 19 ~gi~~~a~~~g~~~~~~~~~~~~~~-~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 90 (294)
T cd06316 19 RGAKDEFAKLGIEVVATTDAQFDPA-KQVADIETTISQKPDIIISIPVDPVSTAAAYKKVAEAGIKLVFMDNV 90 (294)
T ss_pred HHHHHHHHHcCCEEEEecCCCCCHH-HHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHHHHHcCCcEEEecCC
Confidence 3667889999998875533221111 2334555666789999999876654 578899999999999999874
No 45
>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=91.62 E-value=0.31 Score=38.58 Aligned_cols=91 Identities=14% Similarity=0.200 Sum_probs=63.5
Q ss_pred hHHHHHHHHhccCCCC----CCC--------chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC--
Q 039912 17 MEKYKRAARAVLTPEV----GNG--------LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD-- 82 (198)
Q Consensus 17 ~~KY~~AAr~lltPkv----gyG--------La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd-- 82 (198)
.+.+++++..+...+. |.| ++.-|.+.|..+..+.+. +...+ ..=++++++|-.
T Consensus 17 ~~~~~~~~~~l~~a~~I~i~G~G~S~~~A~~~~~~l~~~g~~~~~~~~~----------~~~~~--~~~Dv~I~iS~sG~ 84 (179)
T TIGR03127 17 EEELDKLADKIIKAKRIFVAGAGRSGLVGKAFAMRLMHLGFNVYVVGET----------TTPSI--KKGDLLIAISGSGE 84 (179)
T ss_pred HHHHHHHHHHHHhCCEEEEEecCHHHHHHHHHHHHHHhCCCeEEEeCCc----------ccCCC--CCCCEEEEEeCCCC
Confidence 4556666666544443 433 223367889999887662 11122 234788888854
Q ss_pred -cchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 83 -SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 83 -sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
.+..++++.|+++|+++|+|-+.....|.+.||..|.
T Consensus 85 t~~~i~~~~~ak~~g~~ii~IT~~~~s~la~~ad~~l~ 122 (179)
T TIGR03127 85 TESLVTVAKKAKEIGATVAAITTNPESTLGKLADVVVE 122 (179)
T ss_pred cHHHHHHHHHHHHCCCeEEEEECCCCCchHHhCCEEEE
Confidence 5677888899999999999988777899999999774
No 46
>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=91.55 E-value=1.1 Score=35.38 Aligned_cols=85 Identities=16% Similarity=0.110 Sum_probs=56.8
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcch-HHHHHHHHhcCCcEEEEccCCCccccc
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDF-VEVLLEANLRCLKTVVVGDINDGALKR 112 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF-~~~Lr~Ar~r~l~TVVVGd~~~~~L~R 112 (198)
.|+..+++..|+.+.+........ ..++.+..+...+++-|++++.++.. .++|+.++++++..|.++.... ....
T Consensus 19 ~~i~~~~~~~g~~v~~~~~~~~~~--~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l~~~~ipvv~~~~~~~-~~~~ 95 (268)
T cd06323 19 DGAQKEAKELGYELTVLDAQNDAA--KQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAANEAGIPVFTIDREAN-GGEV 95 (268)
T ss_pred HHHHHHHHHcCceEEecCCCCCHH--HHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHHCCCcEEEEccCCC-CCce
Confidence 477888999999997765543332 22344555557789999999876654 3688889999999999977532 1123
Q ss_pred hhcccccHH
Q 039912 113 ISYACFSWW 121 (198)
Q Consensus 113 ~AD~~fsW~ 121 (198)
...+.+...
T Consensus 96 ~~~v~~d~~ 104 (268)
T cd06323 96 VSQIASDNV 104 (268)
T ss_pred EEEEccCcH
Confidence 344555544
No 47
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=91.38 E-value=2 Score=30.98 Aligned_cols=56 Identities=16% Similarity=0.141 Sum_probs=39.7
Q ss_pred hHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCCCccccc
Q 039912 56 ATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDINDGALKR 112 (198)
Q Consensus 56 AAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R 112 (198)
++...|..........++++.++.+. +-...++..|.+.++..||+|-...+.++|
T Consensus 46 ~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~I~~~~~~~~~dllviG~~~~~~~~~ 101 (124)
T cd01987 46 AERRRLAEALRLAEELGAEVVTLPGD-DVAEAIVEFAREHNVTQIVVGKSRRSRWRE 101 (124)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEEeCC-cHHHHHHHHHHHcCCCEEEeCCCCCchHHH
Confidence 44555655555555678887665554 446789999999999999999976444443
No 48
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=91.24 E-value=1 Score=37.60 Aligned_cols=69 Identities=13% Similarity=0.120 Sum_probs=50.3
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..++++.|+.+.++...+... .....+..+...+++.|++++.+....+.+..+++.++..|.++..
T Consensus 85 gi~~~a~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~~~~ 153 (342)
T PRK10014 85 GLTEALEAQGRMVFLLQGGKDGE--QLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMAEEKGIPVVFASRA 153 (342)
T ss_pred HHHHHHHHcCCEEEEEeCCCCHH--HHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHHhhcCCCEEEEecC
Confidence 67788999998887654433322 2233444566889999999976655668889999999999999753
No 49
>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=91.15 E-value=1.2 Score=35.78 Aligned_cols=70 Identities=10% Similarity=0.116 Sum_probs=51.7
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+++..|+.+......-+.. --.+.+..+...+++-|++.+.+++ +.+.++.++++++..|+++-.
T Consensus 19 ~~~~~~a~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~iPvV~~~~~ 89 (273)
T cd06309 19 KSIKDAAEKRGFDLKFADAQQKQE--NQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGIPVILVDRG 89 (273)
T ss_pred HHHHHHHHhcCCEEEEeCCCCCHH--HHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCCCEEEEecC
Confidence 367788888999998754433332 2234555667889999999887655 578899999999999999853
No 50
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=91.04 E-value=1.3 Score=42.53 Aligned_cols=95 Identities=16% Similarity=0.144 Sum_probs=65.6
Q ss_pred hHHHHHHHHhccCCCC----CCCc--------hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC--
Q 039912 17 MEKYKRAARAVLTPEV----GNGL--------IGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD-- 82 (198)
Q Consensus 17 ~~KY~~AAr~lltPkv----gyGL--------a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd-- 82 (198)
.+.+++++..|...+. |.|- ...|.|.|+.+....| ..+......... -=+++|++|-.
T Consensus 455 ~~~l~~aa~~L~~a~rI~i~G~G~S~~~A~~~~~~l~~lg~~~~~~~d------~~~~~~~~~~l~-~~DvvI~iS~sG~ 527 (638)
T PRK14101 455 FEHVEQAIDILNNARRIEFYGLGNSNIVAQDAHYKFFRFGIPTIAYGD------LYMQAASAALLG-KGDVIVAVSKSGR 527 (638)
T ss_pred HHHHHHHHHHHhcCCEEEEEEccHHHHHHHHHHHHHhcCCceEEEcCC------HHHHHHHHhcCC-CCCEEEEEeCCCC
Confidence 4567778877766654 5553 3356788888887655 222222122223 33789999975
Q ss_pred -cchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 83 -SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 83 -sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
.+...+++.|+++|+++|.|-+. ...|.+.||+-|+
T Consensus 528 t~e~i~~~~~Ak~~Ga~vIaIT~~-~spLa~~aD~~L~ 564 (638)
T PRK14101 528 APELLRVLDVAMQAGAKVIAITSS-NTPLAKRATVALE 564 (638)
T ss_pred CHHHHHHHHHHHHCCCeEEEEcCC-CChhHhhCCEEEE
Confidence 44667788899999999999995 6899999998874
No 51
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=90.97 E-value=0.92 Score=39.17 Aligned_cols=89 Identities=13% Similarity=0.048 Sum_probs=57.7
Q ss_pred CCchhHhhhcceEEEecCCC--cchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccCCCccc
Q 039912 34 NGLIGELKRGGLWVRTASDK--PQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDINDGAL 110 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdK--PqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~~~~~L 110 (198)
.|+..+++..|+.+...... +++. -....+..+.+++++-|++++.+++ +.+.+ .+++.++..|.+++.... .
T Consensus 66 ~gi~~aa~~~G~~l~i~~~~~~~~~~--~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l-~~~~~giPvV~~~~~~~~-~ 141 (343)
T PRK10936 66 YGMVEEAKRLGVDLKVLEAGGYYNLA--KQQQQLEQCVAWGADAILLGAVTPDGLNPDL-ELQAANIPVIALVNGIDS-P 141 (343)
T ss_pred HHHHHHHHHhCCEEEEEcCCCCCCHH--HHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-HHHHCCCCEEEecCCCCC-c
Confidence 37778899999998775432 3333 2345666777999999999986644 45677 889999998878654311 1
Q ss_pred cchhcccccHHHHhhchh
Q 039912 111 KRISYACFSWWDILMGKA 128 (198)
Q Consensus 111 ~R~AD~~fsW~eV~~Gka 128 (198)
.. .-.+..+....|+.
T Consensus 142 ~~--~~~V~~D~~~~g~~ 157 (343)
T PRK10936 142 QV--TTRVGVSWYQMGYQ 157 (343)
T ss_pred cc--eEEEecChHHHHHH
Confidence 11 12344555555543
No 52
>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=90.93 E-value=1.3 Score=35.21 Aligned_cols=69 Identities=12% Similarity=0.110 Sum_probs=47.9
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHH-HHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLR-NHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALk-rhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+++..|+.+.+.....+. ... ..+..+.+++++.|++.+-++. +.++++.+++.++..|.++..
T Consensus 19 ~~i~~~~~~~g~~~~i~~~~~~~---~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~ 89 (267)
T cd06322 19 NAMKEEAKKQKVNLIVSIANQDL---NKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKAKKAGIPVITVDIA 89 (267)
T ss_pred HHHHHHHHhcCCEEEEecCCCCH---HHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEEccc
Confidence 47778888999888653322211 122 2233556889999999775544 678899999999999999753
No 53
>PRK11302 DNA-binding transcriptional regulator HexR; Provisional
Probab=90.92 E-value=2.2 Score=35.79 Aligned_cols=95 Identities=15% Similarity=0.167 Sum_probs=60.7
Q ss_pred hHHHHHHHHhccCCCC----CCCchh--------HhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC--
Q 039912 17 MEKYKRAARAVLTPEV----GNGLIG--------ELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD-- 82 (198)
Q Consensus 17 ~~KY~~AAr~lltPkv----gyGLa~--------ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd-- 82 (198)
.+...+++..+...+- |.|-.. -|-|-|+.+....+ ..... +....-..=++++++|-.
T Consensus 115 ~~~i~~~~~~i~~a~~I~i~G~G~S~~~a~~~~~~l~~~g~~~~~~~~------~~~~~-~~~~~~~~~D~vI~iS~sG~ 187 (284)
T PRK11302 115 PSAINRAVDLLTQAKKISFFGLGASAAVAHDAQNKFFRFNVPVVYFDD------IVMQR-MSCMNSSDGDVVVLISHTGR 187 (284)
T ss_pred HHHHHHHHHHHHcCCeEEEEEcchHHHHHHHHHHHHHhcCCceEecCC------HHHHH-HHHHhCCCCCEEEEEeCCCC
Confidence 3556667776655543 555322 25677887776554 11111 111111233677777754
Q ss_pred -cchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 83 -SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 83 -sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
.+...+++.|+++|+++|+|-+ ....|.+.||..|.
T Consensus 188 t~~~~~~~~~ak~~g~~vI~IT~-~~s~l~~~ad~~l~ 224 (284)
T PRK11302 188 TKSLVELAQLARENGATVIAITS-AGSPLAREATLALT 224 (284)
T ss_pred CHHHHHHHHHHHHcCCeEEEECC-CCChhHHhCCEEEe
Confidence 3566778899999999999998 56899999999875
No 54
>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=90.87 E-value=1.4 Score=35.38 Aligned_cols=69 Identities=13% Similarity=0.081 Sum_probs=46.9
Q ss_pred CchhHhhhc-----ceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC-cchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRG-----GLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD-SDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRA-----Gv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd-sdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+-.++++. |+.+......-.+. .....+..++..+++-|++++-+ +.+.+.++.|+++|+..|.++..
T Consensus 20 gi~~~a~~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~vDgiii~~~~~~~~~~~i~~~~~~gIpvV~~d~~ 94 (274)
T cd06311 20 HAQAAAKKLEAAYPDVEFILVTASNDTE--QQNAQQDLLINRKIDALVILPFESAPLTQPVAKAKKAGIFVVVVDRG 94 (274)
T ss_pred HHHHHHHHhhhhCCCeEEEEEcCCCCHH--HHHHHHHHHHHcCCCEEEEeCCCchhhHHHHHHHHHCCCeEEEEcCC
Confidence 455666665 67777654332221 22233336778899999998755 45678899999999999999753
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=90.86 E-value=1.4 Score=35.07 Aligned_cols=69 Identities=14% Similarity=0.087 Sum_probs=49.6
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+++..|+.+......-.. ......+..+.+++++-|++++-+.+ ...++.++++++..|.|+-.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~--~~~~~~i~~l~~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~i~~~ 87 (270)
T cd06296 19 RGVEEAAAAAGYDVVLSESGRRT--SPERQWVERLSARRTDGVILVTPELT-SAQRAALRRTGIPFVVVDPA 87 (270)
T ss_pred HHHHHHHHHcCCeEEEecCCCch--HHHHHHHHHHHHcCCCEEEEecCCCC-hHHHHHHhcCCCCEEEEecc
Confidence 47788899999998765543222 12233444666889999999876544 36789999999999999753
No 56
>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=90.86 E-value=0.41 Score=38.00 Aligned_cols=54 Identities=17% Similarity=0.118 Sum_probs=42.5
Q ss_pred ccEEEEEeC---CcchHHHHHHHHhcCCcEEEEccCCCccccchhcccccHHHHhhc
Q 039912 73 IEYLVVVSD---DSDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWWDILMG 126 (198)
Q Consensus 73 v~clvLVSD---dsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~eV~~G 126 (198)
=+.+|++|- ..+-..+++.|+++|+++|.|-+.....|.+.||..|.-..-..+
T Consensus 102 ~Dv~I~iS~SG~t~~~i~~~~~ak~~Ga~vI~IT~~~~s~La~~aD~~l~~~~~~~~ 158 (177)
T cd05006 102 GDVLIGISTSGNSPNVLKALEAAKERGMKTIALTGRDGGKLLELADIEIHVPSDDTP 158 (177)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCchhhhCCEEEEeCCCChH
Confidence 367888874 356778889999999999999887778999999998865433333
No 57
>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=90.72 E-value=1.5 Score=34.49 Aligned_cols=67 Identities=18% Similarity=0.177 Sum_probs=49.7
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..+++..|+.+..+...... + ....+..+..++++-|++++.+.+ ..+++.+.+.|+..|.++..
T Consensus 20 ~i~~~~~~~g~~~~~~~~~~~~-~--~~~~i~~~~~~~vdgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 86 (266)
T cd06278 20 ALSRALQARGYQPLLINTDDDE-D--LDAALRQLLQYRVDGVIVTSGTLS-SELAEECRRNGIPVVLINRY 86 (266)
T ss_pred HHHHHHHHCCCeEEEEcCCCCH-H--HHHHHHHHHHcCCCEEEEecCCCC-HHHHHHHhhcCCCEEEECCc
Confidence 6788899999998876544332 2 334566677899999999876543 35688899999999999764
No 58
>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=90.53 E-value=1.6 Score=34.98 Aligned_cols=82 Identities=12% Similarity=0.068 Sum_probs=54.1
Q ss_pred CCchhHhhh--cceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccCCCccc
Q 039912 34 NGLIGELKR--GGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDINDGAL 110 (198)
Q Consensus 34 yGLa~ELrR--AGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~~~~~L 110 (198)
.|+..+++. .|+.+.+........ .....+..+.+.+++-||+.+-+.+ ..++++.++++++..|.++....
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~~~~~~~ipvv~~~~~~~--- 93 (271)
T cd06321 19 KGAEAAAKKLNPGVKVTVVSADYDLN--KQVSQIDNFIAAKVDLILLNAVDSKGIAPAVKRAQAAGIVVVAVDVAAE--- 93 (271)
T ss_pred HHHHHHHHHhCCCeEEEEccCCCCHH--HHHHHHHHHHHhCCCEEEEeCCChhHhHHHHHHHHHCCCeEEEecCCCC---
Confidence 467778888 788876654332221 2234444666889999999875443 57889999999999999976432
Q ss_pred cchhcccccH
Q 039912 111 KRISYACFSW 120 (198)
Q Consensus 111 ~R~AD~~fsW 120 (198)
...+.+.+..
T Consensus 94 ~~~~~V~~d~ 103 (271)
T cd06321 94 GADATVTTDN 103 (271)
T ss_pred Cccceeeech
Confidence 2334454443
No 59
>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=90.48 E-value=1.4 Score=35.16 Aligned_cols=71 Identities=18% Similarity=0.108 Sum_probs=49.1
Q ss_pred CCchhHhhhcceEEEecCCC-cchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDK-PQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdK-PqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+++..|+.+...... ....+ -....+..+...+++.||+++-+.+ ..++++.++++++..|.++..
T Consensus 19 ~g~~~~~~~~g~~~~~~~~~~~~~~~-~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~~~~~~ipvV~~~~~ 91 (273)
T cd06310 19 AGAEAAAKELGVKVTFQGPASETDVA-GQVNLLENAIARGPDAILLAPTDAKALVPPLKEAKDAGIPVVLIDSG 91 (273)
T ss_pred HHHHHHHHHcCCEEEEecCccCCCHH-HHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEecCC
Confidence 57788899999999886321 11111 1223344556789999999875433 357889999999999999754
No 60
>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=90.47 E-value=1.4 Score=35.53 Aligned_cols=92 Identities=13% Similarity=0.053 Sum_probs=59.3
Q ss_pred CCCCchhHhhhcceEEEecC-CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccCCCcc
Q 039912 32 VGNGLIGELKRGGLWVRTAS-DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDINDGA 109 (198)
Q Consensus 32 vgyGLa~ELrRAGv~VrtVs-dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~~~~~ 109 (198)
+-.|+-.++++.|+.+..+. ...... -....+..+..++|+-|++.+-+.+ ..++++.+.+ ++..|.+|... ..
T Consensus 16 ~~~gi~~~~~~~g~~~~~~~~~~~~~~--~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~~-~ipvV~~~~~~-~~ 91 (271)
T cd06314 16 AEAGVKAAGKELGVDVEFVVPQQGTVN--AQLRMLEDLIAEGVDGIAISPIDPKAVIPALNKAAA-GIKLITTDSDA-PD 91 (271)
T ss_pred HHHHHHHHHHHcCCeEEEeCCCCCCHH--HHHHHHHHHHhcCCCEEEEecCChhHhHHHHHHHhc-CCCEEEecCCC-Cc
Confidence 34678889999999998763 221222 1233444666889999999875543 5688999888 99999998542 12
Q ss_pred ccchhcccccHHHHhhchhh
Q 039912 110 LKRISYACFSWWDILMGKAR 129 (198)
Q Consensus 110 L~R~AD~~fsW~eV~~Gka~ 129 (198)
..+.+.+. -+....|+..
T Consensus 92 ~~~~~~V~--~D~~~~g~~a 109 (271)
T cd06314 92 SGRYVYIG--TDNYAAGRTA 109 (271)
T ss_pred cceeEEEc--cChHHHHHHH
Confidence 23444344 4445555543
No 61
>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=90.46 E-value=1.5 Score=34.99 Aligned_cols=70 Identities=16% Similarity=0.088 Sum_probs=49.2
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+.+......-+.. .. .+.+..+...+++-|++.+.+++ ..++|+.+.++++..|+++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~~-~~-~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~ 89 (277)
T cd06319 19 RGVKSKAKALGYDAVELSAENSAK-KE-LENLRTAIDKGVSGIIISPTNSSAAVTLLKLAAQAKIPVVIADIG 89 (277)
T ss_pred HHHHHHHHhcCCeEEEecCCCCHH-HH-HHHHHHHHhcCCCEEEEcCCchhhhHHHHHHHHHCCCCEEEEecC
Confidence 467788889999887764432221 11 12333445789999999887766 457899999999999999754
No 62
>TIGR01664 DNA-3'-Pase DNA 3'-phosphatase. The central phosphatase domain is a member of the IIIA subfamily (TIGR01662) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. As is common in this superfamily, the enzyme is magnesium dependent. A difference between this enzyme and other HAD-superfamily phosphatases is in the third conserved catalytic motif which usually contains two conserved aspartate residues believed to be involved in binding the magnesium ion. Here, the second aspartate is usually replaced by an arginine residue which may indicate an interaction with the phosphate backbone of the substrate. Alternatively, there is an additional conserved aspartate downstream of the ususal site which may indicate slightly different fold in this region.
Probab=90.38 E-value=1.4 Score=35.54 Aligned_cols=87 Identities=13% Similarity=0.153 Sum_probs=54.3
Q ss_pred chhHhhhcceEEEecCCCcch-----HHHHHHHHHH-HHhhcCccEEEEE-eCCcch----HHHHHHHHh-cC--C---c
Q 039912 36 LIGELKRGGLWVRTASDKPQA-----TDVLLRNHLV-ITHKRRIEYLVVV-SDDSDF----VEVLLEANL-RC--L---K 98 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqA-----AD~ALkrhm~-~m~~~gv~clvLV-SDdsdF----~~~Lr~Ar~-r~--l---~ 98 (198)
+-..|+.+|+.+=.+|.+|.. .-.++.+++. .+...|+...+.+ +++... .+++..|.+ .| + +
T Consensus 50 ~L~~Lk~~G~~l~I~TN~~~~~~~~~~~~~~~~~i~~~l~~~gl~~~~ii~~~~~~~~KP~p~~~~~~~~~~~~~~~~~~ 129 (166)
T TIGR01664 50 KLQELDDEGYKIVIFTNQSGIGRGKLSAESFKNKIEAFLEKLKVPIQVLAATHAGLYRKPMTGMWEYLQSQYNSPIKMTR 129 (166)
T ss_pred HHHHHHHCCCEEEEEeCCcccccCcccHHHHHHHHHHHHHHcCCCEEEEEecCCCCCCCCccHHHHHHHHHcCCCCCchh
Confidence 345778899999999999874 2234555555 5666777653333 333222 346655555 44 2 4
Q ss_pred EEEEccCC---------CccccchhcccccHHH
Q 039912 99 TVVVGDIN---------DGALKRISYACFSWWD 122 (198)
Q Consensus 99 TVVVGd~~---------~~~L~R~AD~~fsW~e 122 (198)
+++|||.. |-.-++.|-+-|=|.+
T Consensus 130 ~v~VGD~~~~~~~~~~~Di~aA~~aGi~~~~~~ 162 (166)
T TIGR01664 130 SFYVGDAAGRKLDFSDADIKFAKNLGLEFKYPE 162 (166)
T ss_pred cEEEECCCCCCCCCchhHHHHHHHCCCCcCChH
Confidence 99999974 5556666666666553
No 63
>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=90.33 E-value=1.5 Score=36.55 Aligned_cols=68 Identities=13% Similarity=0.050 Sum_probs=47.6
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
|+..++.+.|+.+.......+.. ...+.+..+..++++.||+.+.+....+.++..++.++..|+++-
T Consensus 81 ~i~~~~~~~gy~~~i~~~~~~~~--~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~~~ 148 (327)
T TIGR02417 81 ELEQQCREAGYQLLIACSDDNPD--QEKVVIENLLARQVDALIVASCMPPEDAYYQKLQNEGLPVVALDR 148 (327)
T ss_pred HHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHHcCCCEEEEeCCCCCChHHHHHHHhcCCCEEEEcc
Confidence 78888999999987644322221 122334456688999999987655345677778888999999975
No 64
>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=90.25 E-value=1.5 Score=34.64 Aligned_cols=68 Identities=15% Similarity=0.226 Sum_probs=46.4
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHH-HHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+...+++.|+.+...... .. .....++. .+.+.++++||+++-+.. .++++.+.++|+..|.++-.
T Consensus 24 ~~~~~~~~~~g~~~~~~~~~-~~--~~~~~~~~~~~~~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 92 (270)
T cd06294 24 RGISAVANENGYDISLATGK-NE--EELLEEVKKMIQQKRVDGFILLYSRED-DPIIDYLKEEKFPFVVIGKP 92 (270)
T ss_pred HHHHHHHHHCCCEEEEecCC-Cc--HHHHHHHHHHHHHcCcCEEEEecCcCC-cHHHHHHHhcCCCEEEECCC
Confidence 46778888999888753322 21 12233444 344567999999874433 57889999999999999853
No 65
>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=90.14 E-value=1.6 Score=34.91 Aligned_cols=70 Identities=17% Similarity=0.061 Sum_probs=48.9
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeC---Cc-chHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSD---DS-DFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSD---ds-dF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+.+.+.....+. .--.+.+..+.+++++.|++.+- +. ...+.+..++++++..|+||-.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~--~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i~~~ 92 (273)
T cd06292 19 EAIEAALAQYGYTVLLCNTYRGG--VSEADYVEDLLARGVRGVVFISSLHADTHADHSHYERLAERGLPVVLVNGR 92 (273)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCh--HHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEEcCC
Confidence 47888899999998764433221 12234455777889999999862 22 2456688889999999999853
No 66
>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=90.00 E-value=1.6 Score=34.93 Aligned_cols=67 Identities=12% Similarity=0.039 Sum_probs=48.0
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..+++..|+.+.+...-++.. ........+.+++++-||+.+.+++ .+++.++++++..|+++..
T Consensus 23 ~i~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~vdgiii~~~~~~--~~~~~l~~~~ipvV~~~~~ 89 (268)
T cd06277 23 AIEEEAKKYGYNLILKFVSDEDE--EEFELPSFLEDGKVDGIILLGGIST--EYIKEIKELGIPFVLVDHY 89 (268)
T ss_pred HHHHHHHHcCCEEEEEeCCCChH--HHHHHHHHHHHCCCCEEEEeCCCCh--HHHHHHhhcCCCEEEEccC
Confidence 56778888998887544333332 2333444667899999999886543 4688999999999999864
No 67
>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=89.97 E-value=2 Score=34.10 Aligned_cols=69 Identities=14% Similarity=0.017 Sum_probs=49.2
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+++..|+.+-...+.-.... -...+..+.+.+++.+++++.+. -..+++.++++++..|.++..
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~~~--~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~~~~iPvv~~~~~ 87 (268)
T cd06273 19 QAFQETLAAHGYTLLVASSGYDLDR--EYAQARKLLERGVDGLALIGLDH-SPALLDLLARRGVPYVATWNY 87 (268)
T ss_pred HHHHHHHHHCCCEEEEecCCCCHHH--HHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHHhCCCCEEEEcCC
Confidence 4788999999999876544322221 12334456678999999987654 357788999999999999754
No 68
>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=89.83 E-value=1.8 Score=36.21 Aligned_cols=70 Identities=13% Similarity=0.101 Sum_probs=49.3
Q ss_pred CCchhHhhh--cceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKR--GGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrR--AGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++.. .|+.+......-+.+ --...+..+...+++-|++...+++ +.+.++.|++.|+..|.++..
T Consensus 19 ~gi~~~a~~~~~g~~~~~~~~~~~~~--~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~giPvV~~~~~ 91 (303)
T cd01539 19 KNLEDIQKENGGKVEFTFYDAKNNQS--TQNEQIDTALAKGVDLLAVNLVDPTAAQTVINKAKQKNIPVIFFNRE 91 (303)
T ss_pred HHHHHHHHhhCCCeeEEEecCCCCHH--HHHHHHHHHHHcCCCEEEEecCchhhHHHHHHHHHHCCCCEEEeCCC
Confidence 367777888 788877654322222 1223455677889999999876654 678999999999998888753
No 69
>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=89.70 E-value=1.2 Score=37.92 Aligned_cols=69 Identities=13% Similarity=0.177 Sum_probs=52.8
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
.|+..++++.|+.+-......... .++++..+.+++|+-||+.|-..++..+.+..+. +.-.|+++...
T Consensus 21 ~gIe~~a~~~Gy~l~l~~t~~~~~---~e~~i~~l~~~~vDGiI~~s~~~~~~~l~~~~~~-~iPvV~~~~~~ 89 (279)
T PF00532_consen 21 RGIEQEAREHGYQLLLCNTGDDEE---KEEYIELLLQRRVDGIILASSENDDEELRRLIKS-GIPVVLIDRYI 89 (279)
T ss_dssp HHHHHHHHHTTCEEEEEEETTTHH---HHHHHHHHHHTTSSEEEEESSSCTCHHHHHHHHT-TSEEEEESS-S
T ss_pred HHHHHHHHHcCCEEEEecCCCchH---HHHHHHHHHhcCCCEEEEecccCChHHHHHHHHc-CCCEEEEEecc
Confidence 477889999999987654444432 2266667779999999999998888888888777 88888888763
No 70
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=89.65 E-value=2.2 Score=34.07 Aligned_cols=87 Identities=17% Similarity=0.153 Sum_probs=57.1
Q ss_pred CCchhHhhh-cceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccCCCcccc
Q 039912 34 NGLIGELKR-GGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDINDGALK 111 (198)
Q Consensus 34 yGLa~ELrR-AGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~~~~~L~ 111 (198)
.|+..++++ .|+.+.+....-+.. -.++.+..+.+.+++-|++.+-+++ ..++++.+.++++..|.++........
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~l~~~~iPvv~~~~~~~~~~~ 96 (272)
T cd06301 19 NAMKEHAKVLGGVELQFEDAKNDVA--TQLSQVENFIAQGVDAIIVVPVDTAATAPIVKAANAAGIPLVYVNRRPENAPK 96 (272)
T ss_pred HHHHHHHHHcCCcEEEEeCCCCCHH--HHHHHHHHHHHcCCCEEEEecCchhhhHHHHHHHHHCCCeEEEecCCCCCCCC
Confidence 477888888 899888754322222 2223444555789999999887765 457889999999999999864321113
Q ss_pred chhcccccHHH
Q 039912 112 RISYACFSWWD 122 (198)
Q Consensus 112 R~AD~~fsW~e 122 (198)
+...+.+....
T Consensus 97 ~~~~V~~d~~~ 107 (272)
T cd06301 97 GVAYVGSDEVV 107 (272)
T ss_pred eeEEEecChHH
Confidence 44445555544
No 71
>TIGR00393 kpsF KpsF/GutQ family protein. This model describes a number of closely related proteins with the phosphosugar-binding domain SIS (Sugar ISomerase) followed by two copies of the CBS (named after Cystathionine Beta Synthase) domain. One is GutQ, a protein of the glucitol operon. Another is KpsF, a virulence factor involved in capsular polysialic acid biosynthesis in some pathogenic strains of E. coli.
Probab=89.56 E-value=0.61 Score=38.68 Aligned_cols=74 Identities=7% Similarity=0.054 Sum_probs=55.0
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHH----HHhhcCccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCc
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLV----ITHKRRIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDG 108 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~----~m~~~gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~ 108 (198)
++.-|.|.|..+..+++ .|+. .... .=++++.+|-. .+-..+++.||++|+++|.|-+....
T Consensus 18 ~~~~l~~~g~~~~~~~~----------~~~~~~~~~~~~-~~d~~i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~~~s 86 (268)
T TIGR00393 18 IVATFASTGTPSFFLHP----------TEAMHGDLGMVE-PNDVVLMISYSGESLELLNLIPHLKRLSHKIIAFTGSPNS 86 (268)
T ss_pred HHHHHHhcCCceEEeCH----------hHHhhcccCCCC-CCCEEEEEeCCCCCHHHHHHHHHHHHcCCcEEEEECCCCC
Confidence 34456677888776554 2222 1112 23789999965 67778899999999999999998778
Q ss_pred cccchhcccccH
Q 039912 109 ALKRISYACFSW 120 (198)
Q Consensus 109 ~L~R~AD~~fsW 120 (198)
.|+..||+.|..
T Consensus 87 ~l~~~~d~~l~~ 98 (268)
T TIGR00393 87 SLARAADYVLDI 98 (268)
T ss_pred cccccCCEEEEc
Confidence 999999999976
No 72
>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=89.55 E-value=2.2 Score=32.90 Aligned_cols=69 Identities=17% Similarity=0.157 Sum_probs=48.9
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
|+-.++++.|+.+.......+.+ -....+..+++++++.|++...++.-.. ++.+.++++.-|.++...
T Consensus 20 g~~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~~~~ipvv~~~~~~ 88 (264)
T cd06267 20 GIEEAAREAGYSVLLCNSDEDPE--KEREALELLLSRRVDGIILAPSRLDDEL-LEELAALGIPVVLVDRPL 88 (264)
T ss_pred HHHHHHHHcCCEEEEEcCCCCHH--HHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHHHcCCCEEEecccc
Confidence 55666777788888765544321 2233344667889999999887765544 889999999999987653
No 73
>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=89.53 E-value=2 Score=34.03 Aligned_cols=66 Identities=9% Similarity=0.024 Sum_probs=45.1
Q ss_pred CchhHhhhcceEEEecCCC--cchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDK--PQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdK--PqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+-.++++.|+.+..+... |......+ ..+...+++.||+.+.+.. .++++.+.++++..|+++..
T Consensus 20 ~~~~~~~~~g~~~~~~~~~~~~~~~~~~i----~~l~~~~vdgiii~~~~~~-~~~~~~l~~~~ipvV~~~~~ 87 (268)
T cd06298 20 GIDDIATMYKYNIILSNSDNDKEKELKVL----NNLLAKQVDGIIFMGGKIS-EEHREEFKRSPTPVVLAGSV 87 (268)
T ss_pred HHHHHHHHcCCeEEEEeCCCCHHHHHHHH----HHHHHhcCCEEEEeCCCCc-HHHHHHHhcCCCCEEEEccc
Confidence 5667788888888766443 32222223 3455789999999864322 46888888889999999864
No 74
>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=89.12 E-value=2.4 Score=33.90 Aligned_cols=69 Identities=14% Similarity=0.099 Sum_probs=47.2
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+.|.......... .....+..+.+.+++.|++++.+... +.++.+..+++..|+++..
T Consensus 19 ~gi~~~~~~~gy~v~~~~~~~~~~--~~~~~i~~~~~~~~dgiii~~~~~~~-~~~~~~~~~~~pvV~i~~~ 87 (269)
T cd06293 19 DAVEEEADARGLSLVLCATRNRPE--RELTYLRWLDTNHVDGLIFVTNRPDD-GALAKLINSYGNIVLVDED 87 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHHCCCCEEEEeCCCCCH-HHHHHHHhcCCCEEEECCC
Confidence 467788999998886553322211 23444557778999999999765443 4455666778999999864
No 75
>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=89.11 E-value=1.1 Score=37.04 Aligned_cols=77 Identities=16% Similarity=0.095 Sum_probs=54.8
Q ss_pred ccCCCCCCCc--h----hHhhhcceEEEecCCCc-chHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 27 VLTPEVGNGL--I----GELKRGGLWVRTASDKP-QATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 27 lltPkvgyGL--a----~ELrRAGv~VrtVsdKP-qAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
++.+...||- + ..|++.|+-|-....-| ...| ...++..+.+.+.+.|++.+...++..+++.+++.|+..
T Consensus 140 ~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d--~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~ 217 (334)
T cd06342 140 IIDDKTAYGQGLADEFKKALKAAGGKVVAREGTTDGATD--FSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLKA 217 (334)
T ss_pred EEeCCcchhhHHHHHHHHHHHHcCCEEEEEecCCCCCcc--HHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCCC
Confidence 5566665552 3 45666798775433333 3333 345555666789999999999999999999999999998
Q ss_pred EEEccC
Q 039912 100 VVVGDI 105 (198)
Q Consensus 100 VVVGd~ 105 (198)
.++|..
T Consensus 218 ~~~~~~ 223 (334)
T cd06342 218 PFMGGD 223 (334)
T ss_pred cEEecC
Confidence 888764
No 76
>PRK13936 phosphoheptose isomerase; Provisional
Probab=89.03 E-value=0.65 Score=38.36 Aligned_cols=50 Identities=12% Similarity=0.178 Sum_probs=41.0
Q ss_pred CccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccch---hcccccHH
Q 039912 72 RIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRI---SYACFSWW 121 (198)
Q Consensus 72 gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~---AD~~fsW~ 121 (198)
-=|+++++|-. .+-.++++.|+++|+++|.|-+..+..|.+. ||..|.=.
T Consensus 111 ~~Dv~i~iS~sG~t~~~~~~~~~ak~~g~~iI~IT~~~~s~l~~l~~~ad~~l~v~ 166 (197)
T PRK13936 111 PGDVLLAISTSGNSANVIQAIQAAHEREMHVVALTGRDGGKMASLLLPEDVEIRVP 166 (197)
T ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCChhhhhhccCCEEEEeC
Confidence 44899999955 6788899999999999999999776788885 89877533
No 77
>PRK13938 phosphoheptose isomerase; Provisional
Probab=88.78 E-value=0.85 Score=38.38 Aligned_cols=65 Identities=12% Similarity=0.034 Sum_probs=47.1
Q ss_pred HHHHHHhhcCccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhcccccHHHHhhchh
Q 039912 63 NHLVITHKRRIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWWDILMGKA 128 (198)
Q Consensus 63 rhm~~m~~~gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~eV~~Gka 128 (198)
++.....+ -=|.++++|-. .+-..+++.|+++|+++|.|-+..+..|.+.||..|.-..-+.+++
T Consensus 105 ~~~~~~~~-~~DllI~iS~SG~t~~vi~a~~~Ak~~G~~vI~iT~~~~s~La~~aD~~l~v~~~e~~~v 172 (196)
T PRK13938 105 RALEGSAR-PGDTLFAISTSGNSMSVLRAAKTARELGVTVVAMTGESGGQLAEFADFLINVPSRDTGRI 172 (196)
T ss_pred HHHHhcCC-CCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCChhhhhCCEEEEeCCCchhhH
Confidence 44443323 34778888875 3456788899999999999999877899999999886554444444
No 78
>PRK00414 gmhA phosphoheptose isomerase; Reviewed
Probab=88.71 E-value=0.71 Score=38.15 Aligned_cols=76 Identities=14% Similarity=0.219 Sum_probs=52.7
Q ss_pred hcceEEEecCCCcch----HHH----HHHHHHHHHhhcCccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccc
Q 039912 42 RGGLWVRTASDKPQA----TDV----LLRNHLVITHKRRIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGAL 110 (198)
Q Consensus 42 RAGv~VrtVsdKPqA----AD~----ALkrhm~~m~~~gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L 110 (198)
|-|+.+...+|..-- .|. ...++...+ ...=|+++.+|-. .+-..+++.|+++|++||.|-...+..|
T Consensus 74 r~g~~~~~~~d~~~~~~~~~d~~~~~~~~~~~~~~-~~~~Dv~I~iS~SG~t~~~i~~~~~ak~~g~~iI~iT~~~~s~l 152 (192)
T PRK00414 74 RPGYPAIAISDVSHLSCVSNDFGYDYVFSRYVEAV-GREGDVLLGISTSGNSGNIIKAIEAARAKGMKVITLTGKDGGKM 152 (192)
T ss_pred CCCceEEecCcHHHHhhhhccCCHHHHHHHHHHHh-CCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCChh
Confidence 678888776552111 011 112222222 3455888999955 6777889999999999999988777899
Q ss_pred cchhcccc
Q 039912 111 KRISYACF 118 (198)
Q Consensus 111 ~R~AD~~f 118 (198)
.+.||..+
T Consensus 153 ~~~ad~~l 160 (192)
T PRK00414 153 AGLADIEI 160 (192)
T ss_pred HHhCCEEE
Confidence 99999877
No 79
>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=88.60 E-value=2 Score=35.69 Aligned_cols=68 Identities=7% Similarity=0.103 Sum_probs=45.8
Q ss_pred CchhHhhhcceEEEecCC--CcchHHHHHHHHHHHHhhcCccEEEEEeCC-cchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASD--KPQATDVLLRNHLVITHKRRIEYLVVVSDD-SDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsd--KPqAAD~ALkrhm~~m~~~gv~clvLVSDd-sdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..+++..|+.+...+. .++.. .....+..+++++++.|++++-+ +.+.+.+..+ +.++..|++++.
T Consensus 20 gi~~~a~~~g~~v~~~~~~~~~~~~--~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~-~~~iPvV~~~~~ 90 (295)
T TIGR02955 20 GMVEQAKHLGVELKVLEAGGYPNLD--KQLAQIEQCKSWGADAILLGTVSPEALNHDLAQL-TKSIPVFALVNQ 90 (295)
T ss_pred HHHHHHHHhCCEEEEEcCCCCCCHH--HHHHHHHHHHHcCCCEEEEecCChhhhhHHHHHH-hcCCCEEEEecC
Confidence 667788889998876532 22322 22345557779999999998743 4456777766 458988888543
No 80
>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=88.58 E-value=2.7 Score=33.07 Aligned_cols=68 Identities=13% Similarity=0.089 Sum_probs=46.1
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..+++..|+.+.+........ .....+..+.+.+++.|++.+-+.+- ..++.+++.++.-|+++..
T Consensus 20 ~i~~~a~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~~dgiii~~~~~~~-~~l~~~~~~~ipvV~~~~~ 87 (267)
T cd06283 20 GIEDVCRAHGYQVLVCNSDNDPE--KEKEYLESLLAYQVDGLIVNPTGNNK-ELYQRLAKNGKPVVLVDRK 87 (267)
T ss_pred HHHHHHHHcCCEEEEEcCCCCHH--HHHHHHHHHHHcCcCEEEEeCCCCCh-HHHHHHhcCCCCEEEEcCC
Confidence 56667777888876544332221 22334446668899999998755443 4578888999999999864
No 81
>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=88.56 E-value=3 Score=32.50 Aligned_cols=70 Identities=14% Similarity=0.080 Sum_probs=47.6
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcch-HHHHHHHHhcCCcEEEEccCC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDF-VEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF-~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
|+-.+++..|+.+.++....+.. .. .+.+..+...+++.|++++-+++. .++++..++.++..|.++...
T Consensus 20 ~~~~~a~~~g~~~~~~~~~~~~~-~~-~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~l~~~~ip~V~~~~~~ 90 (267)
T cd01536 20 GAEAAAKELGVELIVLDAQNDVS-KQ-IQQIEDLIAQGVDGIIISPVDSAALTPALKKANAAGIPVVTVDSDI 90 (267)
T ss_pred HHHHHHHhcCceEEEECCCCCHH-HH-HHHHHHHHHcCCCEEEEeCCCchhHHHHHHHHHHCCCcEEEecCCC
Confidence 44555666788887765543322 11 233445557799999999876554 358899999999999998643
No 82
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=88.49 E-value=1.6 Score=37.91 Aligned_cols=97 Identities=23% Similarity=0.179 Sum_probs=67.8
Q ss_pred hhHHHHHHHHhccCCC-C---CCCc--------hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCc
Q 039912 16 KMEKYKRAARAVLTPE-V---GNGL--------IGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDS 83 (198)
Q Consensus 16 K~~KY~~AAr~lltPk-v---gyGL--------a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDds 83 (198)
.++...+|+.-|...+ + |.|. +--|.|-|+.|..++|..... | ++...+-++++++-.-|
T Consensus 116 ~~~~l~~av~~L~~A~rI~~~G~g~S~~vA~~~~~~l~~ig~~~~~~~d~~~~~-------~-~~~~~~~~Dv~i~iS~s 187 (281)
T COG1737 116 DEEALERAVELLAKARRIYFFGLGSSGLVASDLAYKLMRIGLNVVALSDTHGQL-------M-QLALLTPGDVVIAISFS 187 (281)
T ss_pred CHHHHHHHHHHHHcCCeEEEEEechhHHHHHHHHHHHHHcCCceeEecchHHHH-------H-HHHhCCCCCEEEEEeCC
Confidence 3456677777777776 2 5442 335678899999988843322 1 22244555555544444
Q ss_pred ----chHHHHHHHHhcCCcEEEEccCCCccccchhcccccH
Q 039912 84 ----DFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSW 120 (198)
Q Consensus 84 ----dF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW 120 (198)
+-.++++.|+++|+++|.|=|.....|.+.||+.+.=
T Consensus 188 G~t~e~i~~a~~ak~~ga~vIaiT~~~~spla~~Ad~~L~~ 228 (281)
T COG1737 188 GYTREIVEAAELAKERGAKVIAITDSADSPLAKLADIVLLV 228 (281)
T ss_pred CCcHHHHHHHHHHHHCCCcEEEEcCCCCCchhhhhceEEec
Confidence 4557788999999999999998789999999999865
No 83
>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=88.43 E-value=2 Score=34.12 Aligned_cols=66 Identities=12% Similarity=0.104 Sum_probs=45.8
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+-.++++.|+.+.......... .....+..+.+.+++.|++.+.+++ ++.+++.|+..|.++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~~~~~~~dgiii~~~~~~----~~~~~~~gipvv~~~~~ 84 (265)
T cd06291 19 RAVEKELYKKGYKLILCNSDNDPE--KEREYLEMLRQNQVDGIIAGTHNLG----IEEYENIDLPIVSFDRY 84 (265)
T ss_pred HHHHHHHHHCCCeEEEecCCccHH--HHHHHHHHHHHcCCCEEEEecCCcC----HHHHhcCCCCEEEEeCC
Confidence 366788899998886543322221 1234445677899999999987655 34667889999999865
No 84
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=88.24 E-value=2.4 Score=36.70 Aligned_cols=68 Identities=15% Similarity=0.162 Sum_probs=50.7
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEcc
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd 104 (198)
|+-.+++..|+.+..+..-.... -..+.+..+.+++++-|++++-+++ +.+.++.++++++..|+++.
T Consensus 46 gi~~~a~~~g~~l~i~~~~~~~~--~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l~~~~~~~iPvV~id~ 114 (330)
T PRK10355 46 IFVKKAESLGAKVFVQSANGNEE--TQMSQIENMINRGVDVLVIIPYNGQVLSNVIKEAKQEGIKVLAYDR 114 (330)
T ss_pred HHHHHHHHcCCEEEEECCCCCHH--HHHHHHHHHHHcCCCEEEEeCCChhhHHHHHHHHHHCCCeEEEECC
Confidence 55677888899998765433332 2334455777889999999986654 67889999999999999975
No 85
>cd06347 PBP1_ABC_ligand_binding_like_12 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=87.94 E-value=1.1 Score=36.90 Aligned_cols=66 Identities=12% Similarity=0.103 Sum_probs=47.0
Q ss_pred chhHhhhcceEEEecC-CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEc
Q 039912 36 LIGELKRGGLWVRTAS-DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVG 103 (198)
Q Consensus 36 La~ELrRAGv~VrtVs-dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVG 103 (198)
+...|+++|+-|-.+. -.+...| ...++..+...+.+.+++.+...+...+++.+++.|++..++|
T Consensus 156 ~~~~~~~~g~~v~~~~~~~~~~~d--~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~i~~ 222 (334)
T cd06347 156 FKEAFKKLGGEIVAEETFNAGDTD--FSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIKVPILG 222 (334)
T ss_pred HHHHHHHcCCEEEEEEEecCCCCc--HHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCCCcEEe
Confidence 3345667887764322 2233333 5555555667899999999999999999999999999877776
No 86
>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=87.76 E-value=2.9 Score=33.30 Aligned_cols=69 Identities=13% Similarity=0.071 Sum_probs=45.3
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+++..|+.|....-.... ....+.+..+..++++.|++++.+.+- ..++.++++++..|+++-.
T Consensus 19 ~~~~~~~~~~g~~~~~~~~~~~~--~~~~~~i~~l~~~~vdgiii~~~~~~~-~~~~~~~~~~ipvV~~~~~ 87 (264)
T cd06274 19 KRLEALARERGYQLLIACSDDDP--ETERETVETLIARQVDALIVAGSLPPD-DPYYLCQKAGLPVVALDRP 87 (264)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCH--HHHHHHHHHHHHcCCCEEEEcCCCCch-HHHHHHHhcCCCEEEecCc
Confidence 35567788888877543222221 122344445668899999999876433 2377888999999999654
No 87
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=87.61 E-value=0.92 Score=39.19 Aligned_cols=94 Identities=10% Similarity=0.139 Sum_probs=65.0
Q ss_pred HHHHHHHhccCCC--C---CCC--------chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC---
Q 039912 19 KYKRAARAVLTPE--V---GNG--------LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD--- 82 (198)
Q Consensus 19 KY~~AAr~lltPk--v---gyG--------La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd--- 82 (198)
..++++..+.-.+ + |.| ++.-|-+.|..+..+.+. .....++..+ . .=++++.+|-.
T Consensus 35 ~l~~~~~~l~~a~~~I~i~G~G~S~~~a~~~~~~l~~~g~~~~~~~~~-----~~~~~~~~~~-~-~~d~~I~iS~sG~t 107 (326)
T PRK10892 35 DFTLACEKMFWCKGKVVVMGMGKSGHIGRKMAATFASTGTPSFFVHPG-----EAAHGDLGMV-T-PQDVVIAISNSGES 107 (326)
T ss_pred HHHHHHHHHHhcCCeEEEEeCcHhHHHHHHHHHHHhcCCceeEEeChH-----HhhccccccC-C-CCCEEEEEeCCCCC
Confidence 5778888776653 2 444 234466788888775431 1111111122 2 23789999965
Q ss_pred cchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 83 SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 83 sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
.+..++++.|+++|+++|.|-+..+..|++.||+.|.
T Consensus 108 ~~~~~~~~~ak~~g~~vi~iT~~~~s~la~~ad~~l~ 144 (326)
T PRK10892 108 SEILALIPVLKRLHVPLICITGRPESSMARAADIHLC 144 (326)
T ss_pred HHHHHHHHHHHHCCCcEEEEECCCCCcccccCCEEEE
Confidence 7788899999999999999999888999999999883
No 88
>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=87.46 E-value=3.4 Score=31.77 Aligned_cols=70 Identities=17% Similarity=0.133 Sum_probs=47.4
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
|+...++..|+-+......... + ...+.+..+.+.+++.+|+.+.+......+..+.+.++..|.++...
T Consensus 20 g~~~~~~~~g~~l~~~~~~~~~-~-~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~~~ 89 (264)
T cd01537 20 GIEEAAKAAGYQVLLANSQNDA-E-KQLSALENLIARGVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDRDI 89 (264)
T ss_pred HHHHHHHHcCCeEEEEeCCCCH-H-HHHHHHHHHHHcCCCEEEEecCCCcchhHHHHhhhcCCCEEEeccCC
Confidence 4455566677777665443322 1 22333445557899999998877665557899999999999998764
No 89
>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=87.25 E-value=3 Score=33.73 Aligned_cols=67 Identities=16% Similarity=0.008 Sum_probs=47.8
Q ss_pred CCchhHhhhcceEEEecC-CCcchHHHHHHHHHH-HHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTAS-DKPQATDVLLRNHLV-ITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVs-dKPqAAD~ALkrhm~-~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+.+-+.. +-++. ....+. .+...+++.|++.+-+.+ .++++.+++.|+..|+++..
T Consensus 19 ~~i~~~~~~~gy~~~~~~~~~~~~----~~~~~~~~l~~~~vdgvi~~~~~~~-~~~~~~l~~~~iPvv~~~~~ 87 (269)
T cd06297 19 EGIEGALLEQRYDLALFPLLSLAR----LKRYLESTTLAYLTDGLLLASYDLT-ERLAERRLPTERPVVLVDAE 87 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCCcHH----HHHHHHHHHHhcCCCEEEEecCccC-hHHHHHHhhcCCCEEEEccC
Confidence 378888999998877543 22222 223333 466789999999986655 46778888999999999763
No 90
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=87.16 E-value=0.87 Score=42.86 Aligned_cols=79 Identities=20% Similarity=0.121 Sum_probs=50.3
Q ss_pred hhHhhhcce-EEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC-CCccccchh
Q 039912 37 IGELKRGGL-WVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI-NDGALKRIS 114 (198)
Q Consensus 37 a~ELrRAGv-~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~-~~~~L~R~A 114 (198)
-.+|+++|+ .+-.+|.+|+..=..+-+ +.|++.+.--....+=..+++..+..+-.++.|||+ +|-...+.|
T Consensus 371 i~~L~~~Gi~~v~vvTgd~~~~a~~i~~------~lgi~~~f~~~~p~~K~~~i~~l~~~~~~v~~vGDg~nD~~al~~A 444 (536)
T TIGR01512 371 IAELKALGIEKVVMLTGDRRAVAERVAR------ELGIDEVHAELLPEDKLEIVKELREKYGPVAMVGDGINDAPALAAA 444 (536)
T ss_pred HHHHHHcCCCcEEEEcCCCHHHHHHHHH------HcCChhhhhccCcHHHHHHHHHHHhcCCEEEEEeCCHHHHHHHHhC
Confidence 456777888 777777777633222222 235543222111223356777777788889999996 666677999
Q ss_pred cccccHH
Q 039912 115 YACFSWW 121 (198)
Q Consensus 115 D~~fsW~ 121 (198)
|+.++|.
T Consensus 445 ~vgia~g 451 (536)
T TIGR01512 445 DVGIAMG 451 (536)
T ss_pred CEEEEeC
Confidence 9988884
No 91
>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=86.88 E-value=3.4 Score=32.91 Aligned_cols=69 Identities=20% Similarity=0.169 Sum_probs=48.1
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
+|+..++++.|+.+.+....-... -.+..+..+.+.+++-|++.+-+.+ ...++.+++.++..|+++..
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~~~~--~~~~~i~~l~~~~~dgiii~~~~~~-~~~~~~~~~~~iPvv~~~~~ 87 (265)
T cd06285 19 EGIEEAAAERGYSTFVANTGDNPD--AQRRAIEMLLDRRVDGLILGDARSD-DHFLDELTRRGVPFVLVLRH 87 (265)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHHcCCCEEEEecCCCC-hHHHHHHHHcCCCEEEEccC
Confidence 488889999999986533221111 2233344666889999999864433 45789999999999999864
No 92
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=86.85 E-value=3.7 Score=34.41 Aligned_cols=66 Identities=17% Similarity=0.132 Sum_probs=46.3
Q ss_pred CchhHhhhcceEEEecCC--CcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASD--KPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsd--KPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..++++.|+.+-.... .|+.. ...+..+...+++-|++++.+. -.+.++.+++.++..|+++|.
T Consensus 84 gi~~~~~~~g~~~~~~~~~~~~~~~----~~~~~~~~~~~vdgiI~~~~~~-~~~~~~~l~~~~iPvV~~~~~ 151 (331)
T PRK14987 84 GIESVTDAHGYQTMLAHYGYKPEME----QERLESMLSWNIDGLILTERTH-TPRTLKMIEVAGIPVVELMDS 151 (331)
T ss_pred HHHHHHHHCCCEEEEecCCCCHHHH----HHHHHHHHhcCCCEEEEcCCCC-CHHHHHHHHhCCCCEEEEecC
Confidence 788889999988765432 23322 2334456688999999986432 247788888899999988764
No 93
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=86.69 E-value=3.5 Score=34.31 Aligned_cols=67 Identities=13% Similarity=0.104 Sum_probs=46.7
Q ss_pred CchhHhhhcceEEEecC--CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTAS--DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVs--dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..+++..|+.+-... +.|+.. ...+..+...+++.|++.+.+..-.+.++.+.+.++..|+|+..
T Consensus 82 gi~~~~~~~g~~~~~~~~~~~~~~~----~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~v~~~ 150 (328)
T PRK11303 82 YLERQARQRGYQLLIACSDDQPDNE----MRCAEHLLQRQVDALIVSTSLPPEHPFYQRLQNDGLPIIALDRA 150 (328)
T ss_pred HHHHHHHHcCCEEEEEeCCCCHHHH----HHHHHHHHHcCCCEEEEcCCCCCChHHHHHHHhcCCCEEEECCC
Confidence 77788899999876543 223211 23334566889999999876544456788888889999999754
No 94
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=86.47 E-value=1.8 Score=33.77 Aligned_cols=67 Identities=19% Similarity=0.196 Sum_probs=43.4
Q ss_pred chhHhhhcceEEEecCCCc-chHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC--cEEEEcc
Q 039912 36 LIGELKRGGLWVRTASDKP-QATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL--KTVVVGD 104 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKP-qAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l--~TVVVGd 104 (198)
+...++++|+.+..+..-| ...| ....+..+.+.+.+.|++.++.++...+++.+++.|+ +..+||-
T Consensus 156 ~~~~~~~~g~~i~~~~~~~~~~~~--~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~~~~~~i~~ 225 (299)
T cd04509 156 FKAAFKKKGGTVVGEEYYPLGTTD--FTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLTGGYPILGI 225 (299)
T ss_pred HHHHHHHcCCEEEEEecCCCCCcc--HHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCCCCCcEEec
Confidence 4466777887664322222 1122 2223333435568888888888999999999999999 6777764
No 95
>PRK11543 gutQ D-arabinose 5-phosphate isomerase; Provisional
Probab=86.37 E-value=1.1 Score=38.40 Aligned_cols=94 Identities=16% Similarity=0.177 Sum_probs=63.7
Q ss_pred HHHHHHHHhccCCC--C---CCCc--------hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC--
Q 039912 18 EKYKRAARAVLTPE--V---GNGL--------IGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD-- 82 (198)
Q Consensus 18 ~KY~~AAr~lltPk--v---gyGL--------a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd-- 82 (198)
+...+++..++-.+ + |.|- +.-|.+.|..+..+.+ + ..+..+...+ ..=++++.+|-.
T Consensus 29 ~~~~~~~~~l~~~~~~I~i~G~G~S~~~A~~~~~~l~~~g~~~~~~~~----~-~~~~~~~~~~--~~~d~~i~iS~sG~ 101 (321)
T PRK11543 29 DDFVRAANIILHCEGKVVVSGIGKSGHIGKKIAATLASTGTPAFFVHP----A-EALHGDLGMI--ESRDVMLFISYSGG 101 (321)
T ss_pred HHHHHHHHHHHhcCCcEEEEecChhHHHHHHHHHHHHcCCCceeecCh----H-HHhhCCcCcc--CCCCEEEEEeCCCC
Confidence 35677777776653 3 5552 3446678888887654 1 0111111112 233778888875
Q ss_pred -cchHHHHHHHHhcCCcEEEEccCCCccccchhcccc
Q 039912 83 -SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACF 118 (198)
Q Consensus 83 -sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~f 118 (198)
.+-.++++.|+++|.++|.|-+.....|.+.||.-|
T Consensus 102 t~~~~~~~~~ak~~g~~vI~iT~~~~s~la~~ad~~l 138 (321)
T PRK11543 102 AKELDLIIPRLEDKSIALLAMTGKPTSPLGLAAKAVL 138 (321)
T ss_pred cHHHHHHHHHHHHcCCeEEEEECCCCChhHHhCCEEE
Confidence 567778899999999999999977789999999988
No 96
>PF04123 DUF373: Domain of unknown function (DUF373); InterPro: IPR007254 This archaeal family of unknown function is predicted to be an integral membrane protein with six transmembrane regions.
Probab=86.08 E-value=1.8 Score=40.14 Aligned_cols=72 Identities=25% Similarity=0.315 Sum_probs=55.7
Q ss_pred CCCchhHhhhcc--eEEEecCCCcc---hHHHHHHHHHH-HHhhcCccEEEEEeCCcc---hHHHHHHHHh-cCCcEEEE
Q 039912 33 GNGLIGELKRGG--LWVRTASDKPQ---ATDVLLRNHLV-ITHKRRIEYLVVVSDDSD---FVEVLLEANL-RCLKTVVV 102 (198)
Q Consensus 33 gyGLa~ELrRAG--v~VrtVsdKPq---AAD~ALkrhm~-~m~~~gv~clvLVSDdsd---F~~~Lr~Ar~-r~l~TVVV 102 (198)
+.-+.+||++-| |-|-+|+.-|. -||..+.+|+. .+..-+.+..++|||-.+ -.++++-=.. .+++.|||
T Consensus 53 avkiydeL~~~GedveVA~VsG~~~~~v~ad~~I~~qld~vl~~~~~~~~i~VsDGaeDE~vlPiIqSr~~V~sV~RVVV 132 (344)
T PF04123_consen 53 AVKIYDELKAEGEDVEVAVVSGSPDVGVEADRKIAEQLDEVLSKFDPDSAIVVSDGAEDERVLPIIQSRVPVDSVKRVVV 132 (344)
T ss_pred HHHHHHHHHhcCCCeEEEEEECCCCCchhhHHHHHHHHHHHHHhCCCCEEEEEecChhhhhhhHhhhccCceEEEEEEEE
Confidence 456889999999 55558887777 69999999999 777889999999999554 5556553333 67888888
Q ss_pred cc
Q 039912 103 GD 104 (198)
Q Consensus 103 Gd 104 (198)
==
T Consensus 133 kQ 134 (344)
T PF04123_consen 133 KQ 134 (344)
T ss_pred Ec
Confidence 43
No 97
>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=85.78 E-value=5.2 Score=31.52 Aligned_cols=69 Identities=13% Similarity=0.073 Sum_probs=46.8
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+++..|+.+.+....=...+ ..+-+..+...+++-|++++-+.. ...+..+++.++.-|++++.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~~--~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~~~~ipvv~~~~~ 87 (268)
T cd01575 19 QGISDVLEAAGYQLLLGNTGYSPER--EEELLRTLLSRRPAGLILTGLEHT-ERTRQLLRAAGIPVVEIMDL 87 (268)
T ss_pred HHHHHHHHHcCCEEEEecCCCCchh--HHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHHhcCCCEEEEecC
Confidence 4677888999998876443211211 122233455789999999876544 56777888899999999874
No 98
>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=85.61 E-value=4.5 Score=31.85 Aligned_cols=68 Identities=13% Similarity=0.066 Sum_probs=44.8
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHH-HHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+.+.......+ . ...+++. .+...++++|++.+-+.+ ...+..+.+.++..|+++..
T Consensus 23 ~~i~~~~~~~g~~~~~~~~~~~-~--~~~~~~~~~~~~~~vdgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 91 (268)
T cd06271 23 SGLSEALAEHGYDLVLLPVDPD-E--DPLEVYRRLVESGLVDGVIISRTRPD-DPRVALLLERGFPFVTHGRT 91 (268)
T ss_pred HHHHHHHHHCCceEEEecCCCc-H--HHHHHHHHHHHcCCCCEEEEecCCCC-ChHHHHHHhcCCCEEEECCc
Confidence 3678889999988876443222 1 1223333 333567999999875433 35677888899999999754
No 99
>PRK09701 D-allose transporter subunit; Provisional
Probab=85.24 E-value=4.7 Score=34.09 Aligned_cols=70 Identities=13% Similarity=0.022 Sum_probs=48.8
Q ss_pred CCchhHhhhcceEEEecC--CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTAS--DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVs--dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+++..|+-+.++. ..++.. -....+.++..++++-||+.+-+++ -.+.+..+.++|+..|+++..
T Consensus 44 ~gi~~~a~~~g~~v~~~~~~~~~~~~--~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~ 116 (311)
T PRK09701 44 KGIEDEAKTLGVSVDIFASPSEGDFQ--SQLQLFEDLSNKNYKGIAFAPLSSVNLVMPVARAWKKGIYLVNLDEK 116 (311)
T ss_pred HHHHHHHHHcCCeEEEecCCCCCCHH--HHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCCcEEEeCCC
Confidence 577888999999988752 223322 1123344566889999999876543 345678888999999999864
No 100
>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=85.16 E-value=11 Score=30.12 Aligned_cols=85 Identities=9% Similarity=-0.005 Sum_probs=53.4
Q ss_pred CchhHhhhc---ceE--EEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC-cchHHHHHHHHhcCCcEEEEccCCCc
Q 039912 35 GLIGELKRG---GLW--VRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD-SDFVEVLLEANLRCLKTVVVGDINDG 108 (198)
Q Consensus 35 GLa~ELrRA---Gv~--VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd-sdF~~~Lr~Ar~r~l~TVVVGd~~~~ 108 (198)
|+..++++. |+. +......-+.. -..+.+.++...+++-|++.+-+ ..+.+++..++++|+..|+++.....
T Consensus 20 ~i~~~~~~~~~~g~~~~l~i~~~~~~~~--~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~l~~~~~~~iPvv~~~~~~~~ 97 (272)
T cd06300 20 EFKAQAKELKKAGLISEFIVTSADGDVA--QQIADIRNLIAQGVDAIIINPASPTALNPVIEEACEAGIPVVSFDGTVTT 97 (272)
T ss_pred HHHHHHHhhhccCCeeEEEEecCCCCHH--HHHHHHHHHHHcCCCEEEEeCCChhhhHHHHHHHHHCCCeEEEEecCCCC
Confidence 555667777 873 34433322222 12344556667899999998755 44778899999999998888754321
Q ss_pred cccchhcccccHHHH
Q 039912 109 ALKRISYACFSWWDI 123 (198)
Q Consensus 109 ~L~R~AD~~fsW~eV 123 (198)
.....+.++....
T Consensus 98 --~~~~~v~~d~~~~ 110 (272)
T cd06300 98 --PCAYNVNEDQAEF 110 (272)
T ss_pred --CceeEecCCHHHH
Confidence 3345566666554
No 101
>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=85.00 E-value=4.3 Score=32.29 Aligned_cols=65 Identities=9% Similarity=0.103 Sum_probs=45.0
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++.|+.+......++ ..++..+.+.+++.|++++.+.+ ...++.+++++...|++|..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~------~~~~~~l~~~~vdgii~~~~~~~-~~~~~~~~~~~ipvV~~~~~ 83 (261)
T cd06272 19 TGINQAISKNGYNMNVSITPSL------AEAEDLFKENRFDGVIIFGESAS-DVEYLYKIKLAIPVVSYGVD 83 (261)
T ss_pred HHHHHHHHHcCCEEEEEecccH------HHHHHHHHHcCcCEEEEeCCCCC-hHHHHHHHHcCCCEEEEccc
Confidence 3677788889988776432211 12334566789999999875433 34578888999999999864
No 102
>PRK02947 hypothetical protein; Provisional
Probab=84.52 E-value=1.5 Score=37.55 Aligned_cols=48 Identities=25% Similarity=0.303 Sum_probs=39.2
Q ss_pred CccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCC-----------Cccccchhccccc
Q 039912 72 RIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDIN-----------DGALKRISYACFS 119 (198)
Q Consensus 72 gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~-----------~~~L~R~AD~~fs 119 (198)
.=|+++++|-. .+-.++++.|+++|+++|+|-+.. +..|.+.||+.+.
T Consensus 106 ~~Dv~i~iS~sG~t~~~i~~~~~a~~~g~~vI~iT~~~~s~~~~~~h~~gs~l~~~ad~~l~ 167 (246)
T PRK02947 106 PGDVLIVVSNSGRNPVPIEMALEAKERGAKVIAVTSLAYSASVASRHSSGKRLAEVADVVLD 167 (246)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEcCCcccccccccCCCcCchhHhCCEEEE
Confidence 34789999854 667788899999999999999864 3689999998773
No 103
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=84.41 E-value=5.2 Score=34.40 Aligned_cols=69 Identities=9% Similarity=0.061 Sum_probs=46.1
Q ss_pred CchhHhhhcc-eEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGG-LWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAG-v~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..++++.| +.+..+....... -..+.+..++.++++.|+|+.-++. ..+.++.+++.++..|+|+..
T Consensus 45 gi~~~a~~~g~~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~l~~~giPvV~vd~~ 115 (330)
T PRK15395 45 AIEKDAKAAPDVQLLMNDSQNDQS--KQNDQIDVLLAKGVKALAINLVDPAAAPTVIEKARGQDVPVVFFNKE 115 (330)
T ss_pred HHHHHHHhcCCeEEEEecCCCCHH--HHHHHHHHHHHcCCCEEEEeccCHHHHHHHHHHHHHCCCcEEEEcCC
Confidence 5667788875 5555423221221 1223455677889999999864544 455789999999999999864
No 104
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=84.20 E-value=2.8 Score=32.78 Aligned_cols=67 Identities=21% Similarity=0.132 Sum_probs=45.1
Q ss_pred chhHhhhcceEEEecCCCc-chHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 36 LIGELKRGGLWVRTASDKP-QATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKP-qAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
+...+++.|+.+.....-| ... -....+..+...+.+.|++.++......+++.+++.|+.-.++|-
T Consensus 155 ~~~~~~~~g~~i~~~~~~~~~~~--~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~~~~~~~ 222 (298)
T cd06268 155 FREALKKLGGEVVAEETYPPGAT--DFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGLKVPIVGG 222 (298)
T ss_pred HHHHHHHcCCEEEEEeccCCCCc--cHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCcEEec
Confidence 3456777887653222222 222 234445555466789999999999999999999999987667764
No 105
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=84.06 E-value=5.1 Score=34.42 Aligned_cols=77 Identities=19% Similarity=0.157 Sum_probs=45.1
Q ss_pred hhHhhhcceEEEecCCCcch-HHHH-HHHHHHHHhhcCccEEEEEeCCcchHH-HHHHHHhcCCcEEEEccCCCccccch
Q 039912 37 IGELKRGGLWVRTASDKPQA-TDVL-LRNHLVITHKRRIEYLVVVSDDSDFVE-VLLEANLRCLKTVVVGDINDGALKRI 113 (198)
Q Consensus 37 a~ELrRAGv~VrtVsdKPqA-AD~A-Lkrhm~~m~~~gv~clvLVSDdsdF~~-~Lr~Ar~r~l~TVVVGd~~~~~L~R~ 113 (198)
.+.|+.+|+-|.++++.... .|.+ +...+. +.+.+ ++|.|.-.|.. ..+..++.+.+.++|-|...+.. .
T Consensus 46 ~~~i~~~g~~v~~~~~~~~~~~d~~~~~~~l~---~~~~d--~vV~D~y~~~~~~~~~~k~~~~~l~~iDD~~~~~~--~ 118 (279)
T TIGR03590 46 IDLLLSAGFPVYELPDESSRYDDALELINLLE---EEKFD--ILIVDHYGLDADWEKLIKEFGRKILVIDDLADRPH--D 118 (279)
T ss_pred HHHHHHcCCeEEEecCCCchhhhHHHHHHHHH---hcCCC--EEEEcCCCCCHHHHHHHHHhCCeEEEEecCCCCCc--C
Confidence 45566777777666554321 1111 333332 33455 45777766653 44455567999999999764433 8
Q ss_pred hcccccH
Q 039912 114 SYACFSW 120 (198)
Q Consensus 114 AD~~fsW 120 (198)
||+.|--
T Consensus 119 ~D~vin~ 125 (279)
T TIGR03590 119 CDLLLDQ 125 (279)
T ss_pred CCEEEeC
Confidence 8988744
No 106
>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=83.99 E-value=6.9 Score=29.37 Aligned_cols=70 Identities=14% Similarity=0.072 Sum_probs=46.6
Q ss_pred CchhHhhh--cceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 35 GLIGELKR--GGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 35 GLa~ELrR--AGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
|+...+.. .|+.+.++....... -....+..+...+++.|++.+.+.....++..+.+.++.+|.++-..
T Consensus 21 ~~~~~~~~~g~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~~~~ 92 (269)
T cd01391 21 GIELAAEEIGRGLEVILADSQSDPE--RALEALRDLIQQGVDGIIGPPSSSSALAVVELAAAAGIPVVSLDATA 92 (269)
T ss_pred HHHHHHHHhCCceEEEEecCCCCHH--HHHHHHHHHHHcCCCEEEecCCCHHHHHHHHHHHHcCCcEEEecCCC
Confidence 34444555 666666654433321 22233334556799999998887766668999999999999998754
No 107
>TIGR00522 dph5 diphthine synthase. This protein participates in the modification of a specific His of elongation factor 2 of eukarotes and Archaea to diphthamide. The protein was characterized in Saccharomyces cerevisiae and designated DPH5.
Probab=83.84 E-value=1.4 Score=38.03 Aligned_cols=70 Identities=26% Similarity=0.177 Sum_probs=51.4
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCc-cEEEEEeCCc---chHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRI-EYLVVVSDDS---DFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv-~clvLVSDds---dF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|..+|+++|+.|+.|+.-+.+.-.|-.-.+..+ ++|. .++.++|++- .+.+.+.....++.+|+|+=|.
T Consensus 94 ~l~~~l~~~~i~vevIPGiSs~~aaaa~~g~~lt-~~g~~~~v~~~s~~~~~~~~~~~~~~~l~~~~~Tlvll~~ 167 (257)
T TIGR00522 94 DLKLEAKRKGIETRIIHGASISSAVCGLTGLQLY-KFGKTATIVFFTDNYRPQTPYNVIKENRKIGLHTLVLLDI 167 (257)
T ss_pred HHHHHHHHCCCeEEEECcHhHHHHHHHHcCCCcc-cCCCcEEEEEecCCcCCCCHHHHHHHHHhcCCCcEEEEec
Confidence 5667889999999999998775533333333344 6676 7799999875 4556777888899999999554
No 108
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster 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.
Probab=83.47 E-value=2.2 Score=35.86 Aligned_cols=77 Identities=22% Similarity=0.211 Sum_probs=47.0
Q ss_pred ccCCCCCCC------chhHhhhcceEEEecCCC-cchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC--
Q 039912 27 VLTPEVGNG------LIGELKRGGLWVRTASDK-PQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL-- 97 (198)
Q Consensus 27 lltPkvgyG------La~ELrRAGv~VrtVsdK-PqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l-- 97 (198)
++.+...|| +...|+++|.-++.|... |...+.-....+..+...+.+-|++++...+...+++.++++|+
T Consensus 143 ~l~~~~~~g~~~~~~~~~~~~~~g~~~~~v~~~~~~~~~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~ 222 (346)
T cd06330 143 TINPDYAYGQDAWADFKAALKRLRPDVEVVSEQWPKLGAPDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD 222 (346)
T ss_pred EECCchHHHHHHHHHHHHHHHHhCCCCeecccccCCCCCcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc
Confidence 455554443 335556775444443321 11112233444444547899999999888999999999999999
Q ss_pred cEEEEc
Q 039912 98 KTVVVG 103 (198)
Q Consensus 98 ~TVVVG 103 (198)
.-.++|
T Consensus 223 ~~~~~~ 228 (346)
T cd06330 223 GTTVVL 228 (346)
T ss_pred CceEEe
Confidence 334443
No 109
>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=83.15 E-value=6.3 Score=31.20 Aligned_cols=71 Identities=15% Similarity=0.059 Sum_probs=46.5
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
-.|+..++++.|+.+.......+-. .--++.+..+.+.+++.+++.+-+.+-. .++.+.++|+..|+++..
T Consensus 18 ~~gi~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~~~~~~~ipvv~~~~~ 88 (264)
T cd01574 18 LAAIESAAREAGYAVTLSMLAEADE-EALRAAVRRLLAQRVDGVIVNAPLDDAD-AALAAAPADVPVVFVDGS 88 (264)
T ss_pred HHHHHHHHHHCCCeEEEEeCCCCch-HHHHHHHHHHHhcCCCEEEEeCCCCChH-HHHHHHhcCCCEEEEecc
Confidence 4578888999999887654332211 1233344466688999999876443322 345567899999999864
No 110
>TIGR01525 ATPase-IB_hvy heavy metal translocating P-type ATPase. This alignment encompasses two equivalog models for the copper and cadmium-type heavy metal transporting P-type ATPases (TIGR01511 and TIGR01512) as well as those species which score ambiguously between both models. For more comments and references, see the files on TIGR01511 and 01512.
Probab=83.12 E-value=2.1 Score=40.41 Aligned_cols=79 Identities=16% Similarity=0.106 Sum_probs=49.7
Q ss_pred hhHhhhcc-eEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC-CCccccchh
Q 039912 37 IGELKRGG-LWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI-NDGALKRIS 114 (198)
Q Consensus 37 a~ELrRAG-v~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~-~~~~L~R~A 114 (198)
-.+|++.| +.+..+|.+|+..=.++-+ +.|++.++--....+=..+++..+..+-+++.|||+ +|-.-.+.|
T Consensus 393 l~~L~~~g~i~v~ivTgd~~~~a~~i~~------~lgi~~~f~~~~p~~K~~~v~~l~~~~~~v~~vGDg~nD~~al~~A 466 (556)
T TIGR01525 393 IAALKRAGGIKLVMLTGDNRSAAEAVAA------ELGIDEVHAELLPEDKLAIVKELQEEGGVVAMVGDGINDAPALAAA 466 (556)
T ss_pred HHHHHHcCCCeEEEEeCCCHHHHHHHHH------HhCCCeeeccCCHHHHHHHHHHHHHcCCEEEEEECChhHHHHHhhC
Confidence 35677788 8888788777743223322 345554332222223345677777777789999995 444556889
Q ss_pred cccccHH
Q 039912 115 YACFSWW 121 (198)
Q Consensus 115 D~~fsW~ 121 (198)
|+.++|.
T Consensus 467 ~vgia~g 473 (556)
T TIGR01525 467 DVGIAMG 473 (556)
T ss_pred CEeEEeC
Confidence 9999886
No 111
>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=82.64 E-value=4.5 Score=35.74 Aligned_cols=79 Identities=13% Similarity=0.122 Sum_probs=53.4
Q ss_pred hccCCCCCCCc------hhHhhhcceEEEecCCCcc--hHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC
Q 039912 26 AVLTPEVGNGL------IGELKRGGLWVRTASDKPQ--ATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL 97 (198)
Q Consensus 26 ~lltPkvgyGL------a~ELrRAGv~VrtVsdKPq--AAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l 97 (198)
.++.+...||. ...|++.|+-|-...--|. ..+.-+...+..+...+.+.|++.+...+...++|.|++.|+
T Consensus 180 aii~~~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~~~~~d~~~~l~~i~~~~~dvIil~~~~~~~~~il~qa~~~g~ 259 (410)
T cd06363 180 AFLGSDDEYGRDGLQLFSELIANTGICIAYQGLIPLDTDPETDYQQILKQINQTKVNVIVVFASRQPAEAFFNSVIQQNL 259 (410)
T ss_pred EEEEeCChhHHHHHHHHHHHHHHCCeEEEEEEEecCCCchHHHHHHHHHHHhcCCCeEEEEEcChHHHHHHHHHHHhcCC
Confidence 34555556653 3578888977642221111 133445566666667799999999999999999999999999
Q ss_pred -cEEEEcc
Q 039912 98 -KTVVVGD 104 (198)
Q Consensus 98 -~TVVVGd 104 (198)
..+.||.
T Consensus 260 ~~~~~i~~ 267 (410)
T cd06363 260 TGKVWIAS 267 (410)
T ss_pred CCCEEEEe
Confidence 4454553
No 112
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=82.36 E-value=6.5 Score=34.64 Aligned_cols=69 Identities=14% Similarity=0.147 Sum_probs=47.9
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
|+..+|.+.|+.+-...-... ..-.++++..+..++||-||+.+ -..=...+....+.++..|+|+...
T Consensus 79 gi~~~~~~~gy~~~l~~~~~~--~~~e~~~~~~l~~~~vdGiIi~~-~~~~~~~~~~l~~~~~P~V~i~~~~ 147 (333)
T COG1609 79 GIEEAAREAGYSLLLANTDDD--PEKEREYLETLLQKRVDGLILLG-ERPNDSLLELLAAAGIPVVVIDRSP 147 (333)
T ss_pred HHHHHHHHcCCEEEEECCCCC--HHHHHHHHHHHHHcCCCEEEEec-CCCCHHHHHHHHhcCCCEEEEeCCC
Confidence 788999999999975444331 12344555577789999999998 2222334445556699999999853
No 113
>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=82.33 E-value=5.4 Score=33.35 Aligned_cols=68 Identities=16% Similarity=0.242 Sum_probs=45.4
Q ss_pred hHhhhcceEEEecCCCcchH-HHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC-c-EEEEccC
Q 039912 38 GELKRGGLWVRTASDKPQAT-DVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL-K-TVVVGDI 105 (198)
Q Consensus 38 ~ELrRAGv~VrtVsdKPqAA-D~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l-~-TVVVGd~ 105 (198)
..++..|+-|-....-|... ..-+...+..+...+.+.|++.+...+...+++.|++.|+ + .+++++.
T Consensus 182 ~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~~~g~~~~~~i~~~~ 252 (348)
T cd06350 182 EELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAYKLGMTGKYWIISTD 252 (348)
T ss_pred HHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHHHhCCCCeEEEEEcc
Confidence 45666787765433333321 2234555555556788999999999999999999999998 3 4444543
No 114
>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=82.32 E-value=6.5 Score=32.09 Aligned_cols=65 Identities=15% Similarity=0.138 Sum_probs=47.6
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+++..|+.+..++... +. ..+..+...+++.|++.+-+.. .+.++.+++.|+..|.++..
T Consensus 24 ~gi~~~a~~~g~~~~~~~~~~---~~---~~~~~~~~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~ 88 (283)
T cd06279 24 AGVAEVLDAAGVNLLLLPASS---ED---SDSALVVSALVDGFIVYGVPRD-DPLVAALLRRGLPVVVVDQP 88 (283)
T ss_pred HHHHHHHHHCCCEEEEecCcc---HH---HHHHHHHhcCCCEEEEeCCCCC-hHHHHHHHHcCCCEEEEecC
Confidence 367788999999998765433 11 2333566889999999885433 36789999999999999764
No 115
>PF07279 DUF1442: Protein of unknown function (DUF1442); InterPro: IPR009902 This family consists of several hypothetical Arabidopsis thaliana proteins of around 225 residues in length. The function of this family is unknown.
Probab=82.16 E-value=1.9 Score=38.02 Aligned_cols=52 Identities=37% Similarity=0.503 Sum_probs=43.9
Q ss_pred cCccEEEEEeCCcchH-HHHHHHHhcCCcEEEEccCCCccccchhcccccHHHHhhc
Q 039912 71 RRIEYLVVVSDDSDFV-EVLLEANLRCLKTVVVGDINDGALKRISYACFSWWDILMG 126 (198)
Q Consensus 71 ~gv~clvLVSDdsdF~-~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~eV~~G 126 (198)
.|||-+++=|...||. .+|+.|+.-.-+.||||.. ++.|. --.|+|..+..|
T Consensus 114 ~~iDF~vVDc~~~d~~~~vl~~~~~~~~GaVVV~~N---a~~r~-~~~~~w~~~~~~ 166 (218)
T PF07279_consen 114 KGIDFVVVDCKREDFAARVLRAAKLSPRGAVVVCYN---AFSRS-TNGFSWRSVLRG 166 (218)
T ss_pred cCCCEEEEeCCchhHHHHHHHHhccCCCceEEEEec---cccCC-cCCccHHHhcCC
Confidence 4899999999999999 9999999866789999995 36654 367899998865
No 116
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=82.15 E-value=6.4 Score=35.40 Aligned_cols=79 Identities=11% Similarity=0.143 Sum_probs=53.3
Q ss_pred ccCCCCCCC------chhHhhhcceEEE---ecCCCc--chHHHHHHHHHH-HHhhcCccEEEEEeCCcchHHHHHHHHh
Q 039912 27 VLTPEVGNG------LIGELKRGGLWVR---TASDKP--QATDVLLRNHLV-ITHKRRIEYLVVVSDDSDFVEVLLEANL 94 (198)
Q Consensus 27 lltPkvgyG------La~ELrRAGv~Vr---tVsdKP--qAAD~ALkrhm~-~m~~~gv~clvLVSDdsdF~~~Lr~Ar~ 94 (198)
++.-...|| +-.+|++.|+-|- +++..+ +.......+.+. .+...+.+.||+.+...+-..+++.|++
T Consensus 177 ii~~~d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~ 256 (403)
T cd06361 177 IIITDDDYGRSALETFIIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIE 256 (403)
T ss_pred EEEecCchHHHHHHHHHHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHH
Confidence 444445666 5567888898773 333322 211112222333 2336789999999999999999999999
Q ss_pred cCCcEEEEccC
Q 039912 95 RCLKTVVVGDI 105 (198)
Q Consensus 95 r~l~TVVVGd~ 105 (198)
.|++.+.||-.
T Consensus 257 ~g~~~~wigs~ 267 (403)
T cd06361 257 RNINKVWIASD 267 (403)
T ss_pred hCCCeEEEEEC
Confidence 99999888853
No 117
>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=82.03 E-value=2.9 Score=35.69 Aligned_cols=72 Identities=10% Similarity=0.065 Sum_probs=51.9
Q ss_pred ccCCCCCCCc------hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 27 VLTPEVGNGL------IGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 27 lltPkvgyGL------a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
++.+..+||. -..|+++|+-|-.+..-|.. +.-...++..+...+.+.|++...-.+...+++.+++.|+..
T Consensus 149 ~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~-~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~ 226 (347)
T cd06340 149 LVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPAN-ARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEP 226 (347)
T ss_pred EEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCC-CcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCC
Confidence 5666666663 34688899988654444432 223445555555789999999999999999999999999964
No 118
>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=81.68 E-value=3.2 Score=35.44 Aligned_cols=75 Identities=13% Similarity=0.075 Sum_probs=54.0
Q ss_pred ccCCCCCCCch------hHhhhcceEEEecCCCcc-hHHHHHHHHHHHHhhcCccEEEEEeCCc-chHHHHHHHHhcCCc
Q 039912 27 VLTPEVGNGLI------GELKRGGLWVRTASDKPQ-ATDVLLRNHLVITHKRRIEYLVVVSDDS-DFVEVLLEANLRCLK 98 (198)
Q Consensus 27 lltPkvgyGLa------~ELrRAGv~VrtVsdKPq-AAD~ALkrhm~~m~~~gv~clvLVSDds-dF~~~Lr~Ar~r~l~ 98 (198)
++.+-..||-. ..|+++|+-|-....-|. ..| ...++..+...+.+.|++.+... +...+++.++++|++
T Consensus 143 il~~d~~~g~~~~~~~~~~l~~~G~~vv~~~~~~~~~~D--~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~ 220 (347)
T cd06336 143 LLGPNDAYGQPWVAAYKAAWEAAGGKVVSEEPYDPGTTD--FSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFK 220 (347)
T ss_pred EEccCCchhHHHHHHHHHHHHHcCCEEeeecccCCCCcc--hHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCC
Confidence 45555566633 578899988854333333 444 44666666678999999999999 999999999999998
Q ss_pred EEEEc
Q 039912 99 TVVVG 103 (198)
Q Consensus 99 TVVVG 103 (198)
.-+++
T Consensus 221 ~~~~~ 225 (347)
T cd06336 221 GGFLS 225 (347)
T ss_pred ccEEe
Confidence 64443
No 119
>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=81.61 E-value=8.5 Score=30.55 Aligned_cols=70 Identities=17% Similarity=0.158 Sum_probs=42.9
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+++..|+.+.+....-..+ ...+.+..+..++++-|++.+-+.+-..+..+....+...|+|+..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~l~~~~~ipvV~i~~~ 88 (269)
T cd06275 19 RGVEQYCYRQGYNLILCNTEGDPE--RQRSYLRMLAQKRVDGLLVMCSEYDQPLLAMLERYRHIPMVVMDWG 88 (269)
T ss_pred HHHHHHHHHcCCEEEEEeCCCChH--HHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHhcCCCCEEEEecc
Confidence 366677788888876543222222 3345555666889999999875544322222333468889998764
No 120
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are 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.
Probab=81.15 E-value=9.3 Score=25.87 Aligned_cols=60 Identities=15% Similarity=0.140 Sum_probs=38.3
Q ss_pred hhHhhhc-ceEEEecCCCcchHHHHHHHHHH-HHhhcCccEEEEEeCC---cchHHHHHHHHhcCCcEEEEc
Q 039912 37 IGELKRG-GLWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVG 103 (198)
Q Consensus 37 a~ELrRA-Gv~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVG 103 (198)
...|.+. |..|..+++ +. ..|.. ...-..=++++++|-. .+-.++++.||++|.++|+|-
T Consensus 17 ~~~l~~~~~~~~~~~~~-~~------~~~~~~~~~~~~~d~~i~iS~sg~t~~~~~~~~~a~~~g~~ii~it 81 (87)
T cd04795 17 ALELLELTGIEVVALIA-TE------LEHASLLSLLRKGDVVIALSYSGRTEELLAALEIAKELGIPVIAIT 81 (87)
T ss_pred HHHHhcccCCceEEeCC-cH------HHHHHHHhcCCCCCEEEEEECCCCCHHHHHHHHHHHHcCCeEEEEe
Confidence 3345566 888877654 11 12222 1112345788888865 567778999999999999875
No 121
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=80.70 E-value=9.4 Score=31.77 Aligned_cols=68 Identities=7% Similarity=0.049 Sum_probs=45.1
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..++++.|+.+.......+. + .....+..+...+++-|++++...+ ..++...++.++..|+++..
T Consensus 80 ~i~~~~~~~g~~~~i~~~~~~~-~-~~~~~~~~l~~~~vdGiIi~~~~~~-~~~~~~l~~~~iPvV~~~~~ 147 (329)
T TIGR01481 80 GIEDIATMYKYNIILSNSDEDP-E-KEVQVLNTLLSKQVDGIIFMGGTIT-EKLREEFSRSPVPVVLAGTV 147 (329)
T ss_pred HHHHHHHHcCCEEEEEeCCCCH-H-HHHHHHHHHHhCCCCEEEEeCCCCC-hHHHHHHHhcCCCEEEEecC
Confidence 6677888889988764332222 1 1233344566889999999875422 34566777789999999754
No 122
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=80.64 E-value=9.5 Score=29.91 Aligned_cols=68 Identities=22% Similarity=0.265 Sum_probs=45.7
Q ss_pred hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC---cEEEEccC
Q 039912 37 IGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL---KTVVVGDI 105 (198)
Q Consensus 37 a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l---~TVVVGd~ 105 (198)
...++..|+-|..+..-|... .-....+..+...+.+-||+.+...+...+++.|++.|+ ...++.+.
T Consensus 161 ~~~~~~~~~~v~~~~~~~~~~-~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~~~~~~i~~~~ 231 (298)
T cd06269 161 EEELEKNGICVAFVESIPDGS-EDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMMTGYHWIITDL 231 (298)
T ss_pred HHHHHHCCeeEEEEEEcCCCH-HHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCCCCeEEEEECh
Confidence 345556788887655555432 334444445556666777777777899999999999998 55555554
No 123
>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=80.56 E-value=4.3 Score=35.00 Aligned_cols=64 Identities=14% Similarity=0.203 Sum_probs=45.5
Q ss_pred hHhhhcceEEE-ecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEc
Q 039912 38 GELKRGGLWVR-TASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVG 103 (198)
Q Consensus 38 ~ELrRAGv~Vr-tVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVG 103 (198)
..|++.|+-|- .+.=.|...| ...++..+.+.|.|.|++.+..++.+.++|.+++.|+..-+++
T Consensus 170 ~~~~~~G~~vv~~~~~~~~~~D--~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~~~~ 234 (357)
T cd06337 170 AALADAGYKLVDPGRFEPGTDD--FSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKPKIVT 234 (357)
T ss_pred HHHHhCCcEEecccccCCCCCc--HHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCCCeEE
Confidence 35667888864 3333444555 2333334447899999999999999999999999999765554
No 124
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=80.24 E-value=2.6 Score=37.47 Aligned_cols=49 Identities=12% Similarity=0.026 Sum_probs=41.9
Q ss_pred CccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhcccccH
Q 039912 72 RIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSW 120 (198)
Q Consensus 72 gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW 120 (198)
.=|++|.+|-. ++..++++.||++|.+||.|-...+..|.+.||+.+.-
T Consensus 131 ~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tI~IT~~~~s~La~~aD~~I~~ 182 (299)
T PRK05441 131 AKDVVVGIAASGRTPYVIGALEYARERGALTIGISCNPGSPLSKEADIAIEV 182 (299)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhhHhCCEEEEc
Confidence 34788888865 67889999999999999999987778999999998754
No 125
>PF13380 CoA_binding_2: CoA binding domain; PDB: 3FF4_A 2D5A_A 2D59_A 2E6U_X 1IUL_A 1IUK_A 1Y81_A 2DUW_A.
Probab=79.65 E-value=6.4 Score=30.12 Aligned_cols=44 Identities=9% Similarity=0.056 Sum_probs=27.0
Q ss_pred HHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 60 LLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 60 ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
.+-..+..+.++|+..+++.+. ..-.++++.|++.|++ +||..|
T Consensus 67 ~~~~~v~~~~~~g~~~v~~~~g-~~~~~~~~~a~~~gi~--vigp~C 110 (116)
T PF13380_consen 67 KVPEIVDEAAALGVKAVWLQPG-AESEELIEAAREAGIR--VIGPNC 110 (116)
T ss_dssp HHHHHHHHHHHHT-SEEEE-TT-S--HHHHHHHHHTT-E--EEESS-
T ss_pred HHHHHHHHHHHcCCCEEEEEcc-hHHHHHHHHHHHcCCE--EEeCCc
Confidence 3444555566778888888888 6677788888887776 666655
No 126
>TIGR01511 ATPase-IB1_Cu copper-(or silver)-translocating P-type ATPase. One member from Halobacterium is annotated as "molybdenum-binding protein" although no evidence can be found for this classification.
Probab=79.53 E-value=4.3 Score=38.69 Aligned_cols=78 Identities=19% Similarity=0.101 Sum_probs=49.2
Q ss_pred hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC-CCccccchhc
Q 039912 37 IGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI-NDGALKRISY 115 (198)
Q Consensus 37 a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~-~~~~L~R~AD 115 (198)
-.+|++.|+.+-.+|.+++..=.++-+ ..|+++..-+ ...+-..+++..++.+=+.+.|||+ +|-...+.||
T Consensus 414 i~~Lk~~Gi~v~ilSgd~~~~a~~ia~------~lgi~~~~~~-~p~~K~~~v~~l~~~~~~v~~VGDg~nD~~al~~A~ 486 (562)
T TIGR01511 414 IQALKRRGIEPVMLTGDNRKTAKAVAK------ELGINVRAEV-LPDDKAALIKELQEKGRVVAMVGDGINDAPALAQAD 486 (562)
T ss_pred HHHHHHcCCeEEEEcCCCHHHHHHHHH------HcCCcEEccC-ChHHHHHHHHHHHHcCCEEEEEeCCCccHHHHhhCC
Confidence 346778888877777777643222222 3466521111 1134456777777778789999996 6666678899
Q ss_pred ccccHH
Q 039912 116 ACFSWW 121 (198)
Q Consensus 116 ~~fsW~ 121 (198)
+.++|.
T Consensus 487 vgia~g 492 (562)
T TIGR01511 487 VGIAIG 492 (562)
T ss_pred EEEEeC
Confidence 987765
No 127
>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=79.51 E-value=4.3 Score=34.50 Aligned_cols=76 Identities=11% Similarity=0.083 Sum_probs=52.1
Q ss_pred ccCCCCCCC------chhHhhh--cceEEEecCCCcc-h-HHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcC
Q 039912 27 VLTPEVGNG------LIGELKR--GGLWVRTASDKPQ-A-TDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRC 96 (198)
Q Consensus 27 lltPkvgyG------La~ELrR--AGv~VrtVsdKPq-A-AD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~ 96 (198)
++.+..+|| +-..|++ +|+-|-...-.|. . .| ...++..+...+.+.|++.....+.+.+++.++++|
T Consensus 148 i~~~~~~~g~~~~~~~~~~~~~~~~G~~vv~~~~~~~~~~~d--~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g 225 (342)
T cd06329 148 LINQDYSWGQDVAAAFKAMLAAKRPDIQIVGEDLHPLGKVKD--FSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAG 225 (342)
T ss_pred EEeCChHHHHHHHHHHHHHHHhhcCCcEEeceeccCCCCCCc--hHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcC
Confidence 455555666 4567778 8887754333332 2 22 223344555789999999998889999999999999
Q ss_pred CcEEEEcc
Q 039912 97 LKTVVVGD 104 (198)
Q Consensus 97 l~TVVVGd 104 (198)
++.-++|-
T Consensus 226 ~~~~~~~~ 233 (342)
T cd06329 226 LKLPFYTP 233 (342)
T ss_pred CCceEEec
Confidence 98766664
No 128
>TIGR02137 HSK-PSP phosphoserine phosphatase/homoserine phosphotransferase bifunctional protein. This enzyme is a member of the haloacid dehalogenase (HAD) superfamily, specifically part of subfamily IB by virtue of the presence of an alpha helical domain in between motifs I and II of the HAD domain . The closest homologs to this family are monofunctional phosphoserine phosphatases (TIGR00338).
Probab=79.48 E-value=6.7 Score=32.64 Aligned_cols=102 Identities=15% Similarity=0.055 Sum_probs=56.6
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEE---EEeCC------------cchHHHHHHHHhcCCcE
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLV---VVSDD------------SDFVEVLLEANLRCLKT 99 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clv---LVSDd------------sdF~~~Lr~Ar~r~l~T 99 (198)
-+...|++.| .+-.||.+++.-=..+-+ ..|++.++ |..++ ..=..+++..++.+.++
T Consensus 75 ell~~lk~~~-~~~IVS~~~~~~~~~il~------~lgi~~~~an~l~~~~~g~~tG~~~~~~~~K~~~l~~l~~~~~~~ 147 (203)
T TIGR02137 75 EFVDWLRERF-QVVILSDTFYEFSQPLMR------QLGFPTLLCHKLEIDDSDRVVGYQLRQKDPKRQSVIAFKSLYYRV 147 (203)
T ss_pred HHHHHHHhCC-eEEEEeCChHHHHHHHHH------HcCCchhhceeeEEecCCeeECeeecCcchHHHHHHHHHhhCCCE
Confidence 3556677765 888899988842112222 33554321 33333 22234566667788899
Q ss_pred EEEccC-CCccccchhcccccHHHHhhchhhhhhhhhhccccccccc
Q 039912 100 VVVGDI-NDGALKRISYACFSWWDILMGKARKEAVSVVGKWKDGDVL 145 (198)
Q Consensus 100 VVVGd~-~~~~L~R~AD~~fsW~eV~~Gka~k~A~~~~g~W~d~dvl 145 (198)
+.|||+ +|-.+.+.|++.+-+. ..=..++.|++..--|.-.+++
T Consensus 148 v~vGDs~nDl~ml~~Ag~~ia~~--ak~~~~~~~~~~~~~~~~~~~~ 192 (203)
T TIGR02137 148 IAAGDSYNDTTMLSEAHAGILFH--APENVIREFPQFPAVHTYEDLK 192 (203)
T ss_pred EEEeCCHHHHHHHHhCCCCEEec--CCHHHHHhCCCCCcccCHHHHH
Confidence 999995 3445666777665442 1223445555555444444443
No 129
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=79.36 E-value=8.4 Score=32.75 Aligned_cols=53 Identities=15% Similarity=0.122 Sum_probs=30.1
Q ss_pred hhHhhhcceEEEecCCCc--chHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh
Q 039912 37 IGELKRGGLWVRTASDKP--QATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL 94 (198)
Q Consensus 37 a~ELrRAGv~VrtVsdKP--qAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~ 94 (198)
...|++.|+.+...+.++ ++. ..++ .....+.++||.+.-|=-+..+++....
T Consensus 25 ~~~l~~~~~~~~~~~t~~~~~~~-~~~~----~~~~~~~d~ivv~GGDGTl~~v~~~l~~ 79 (293)
T TIGR00147 25 IMLLREEGMEIHVRVTWEKGDAA-RYVE----EARKFGVDTVIAGGGDGTINEVVNALIQ 79 (293)
T ss_pred HHHHHHCCCEEEEEEecCcccHH-HHHH----HHHhcCCCEEEEECCCChHHHHHHHHhc
Confidence 345666776665433333 233 1122 1224567788888888888887776554
No 130
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=79.23 E-value=2.9 Score=37.21 Aligned_cols=49 Identities=12% Similarity=0.014 Sum_probs=41.2
Q ss_pred CccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhcccccH
Q 039912 72 RIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSW 120 (198)
Q Consensus 72 gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW 120 (198)
-=|++|.+|-. ++..++++.|+++|.+||.|.-.....|.+.||+.+.-
T Consensus 126 ~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tIaIT~~~~s~La~~aD~~I~~ 177 (291)
T TIGR00274 126 KNDVVVGIAASGRTPYVIAGLQYARSLGALTISIACNPKSAASEIADIAIET 177 (291)
T ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEec
Confidence 34889999865 56778899999999999999887668899999998764
No 131
>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=79.22 E-value=5.1 Score=33.25 Aligned_cols=67 Identities=12% Similarity=0.082 Sum_probs=47.9
Q ss_pred chhHhhhcceEEEec-CCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC--cEEEEcc
Q 039912 36 LIGELKRGGLWVRTA-SDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL--KTVVVGD 104 (198)
Q Consensus 36 La~ELrRAGv~VrtV-sdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l--~TVVVGd 104 (198)
+-..|+++|+.|... .-.+.+.|. ..++..+.+.+.+.|++.+-.++...+++.+++.|+ +..++|-
T Consensus 154 ~~~~~~~~G~~v~~~~~~~~~~~d~--~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 223 (336)
T cd06360 154 FKEAFTEAGGKIVKELWVPFGTSDF--ASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKAKIPLIGS 223 (336)
T ss_pred HHHHHHHcCCEEEEEEecCCCCcch--HHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCccCCeEEec
Confidence 446788889887532 223344542 244445557789999999889999999999999999 5566764
No 132
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=78.86 E-value=10 Score=32.00 Aligned_cols=91 Identities=14% Similarity=0.145 Sum_probs=60.8
Q ss_pred CCchhHhhhcce--EEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEe-CCcchHHHHHHHHhcCCcEEEEccCCCccc
Q 039912 34 NGLIGELKRGGL--WVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVS-DDSDFVEVLLEANLRCLKTVVVGDINDGAL 110 (198)
Q Consensus 34 yGLa~ELrRAGv--~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVS-DdsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L 110 (198)
.|+-.+-+..|+ .+.+....+..+ .=..+++.++.+|++-|++.. |..-+.+.+++|+++|+.-|.+-......-
T Consensus 53 ~g~~~~a~~~g~~~~~~~~~~~~d~~--~Q~~~i~~~ia~~~daIiv~~~d~~~~~~~v~~a~~aGIpVv~~d~~~~~~~ 130 (322)
T COG1879 53 KGAEAAAKKLGVVVAVVIADAQNDVA--KQIAQIEDLIAQGVDAIIINPVDPDALTPAVKKAKAAGIPVVTVDSDIPGPG 130 (322)
T ss_pred HHHHHHHHHcCCcEEEEecccccChH--HHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHHCCCcEEEEecCCCCCC
Confidence 356677788894 555554444444 234566677799999988875 666799999999999999888766532223
Q ss_pred cchhcccccHHHHhhchh
Q 039912 111 KRISYACFSWWDILMGKA 128 (198)
Q Consensus 111 ~R~AD~~fsW~eV~~Gka 128 (198)
.+.+.+.. +....|+.
T Consensus 131 ~~~~~vg~--dn~~~G~~ 146 (322)
T COG1879 131 DRVAYVGS--DNYKAGRL 146 (322)
T ss_pred ceeEEEec--CcHHHHHH
Confidence 35555554 45555554
No 133
>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=78.85 E-value=5 Score=32.29 Aligned_cols=70 Identities=10% Similarity=-0.062 Sum_probs=45.3
Q ss_pred CCchhHhhhcceEEEecC-CC-cchHHHHHHHHHHHHhhcCccEEEEEeCCcc-hHHHHHHHHhcCCcEEEEcc
Q 039912 34 NGLIGELKRGGLWVRTAS-DK-PQATDVLLRNHLVITHKRRIEYLVVVSDDSD-FVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVs-dK-PqAAD~ALkrhm~~m~~~gv~clvLVSDdsd-F~~~Lr~Ar~r~l~TVVVGd 104 (198)
.|+..++++.|+.+-++. .- ++-......+++..+.. +++-|++++.+.+ +.++++.+.++++..|+++.
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~~~~~~~ipvV~~~~ 91 (275)
T cd06307 19 AALEAAAAAFPDARIRVRIHFVESFDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAVARLAAAGVPVVTLVS 91 (275)
T ss_pred HHHHHHHhhhhccCceEEEEEccCCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHHHHHHCCCcEEEEeC
Confidence 366778888876433221 00 11111123455556667 9999999987644 46889999999999998874
No 134
>COG0074 SucD Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=78.50 E-value=8.1 Score=35.66 Aligned_cols=63 Identities=19% Similarity=0.259 Sum_probs=44.0
Q ss_pred cceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh-cCCcEEEEccCCCcccc
Q 039912 43 GGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL-RCLKTVVVGDINDGALK 111 (198)
Q Consensus 43 AGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~-r~l~TVVVGd~~~~~L~ 111 (198)
|-..|-.|+. |.|+|.+++ .+ ..||.++|++|+.----|+++..+. +.-++.+||=.|.+.+.
T Consensus 66 a~~svI~Vp~-~~aadai~E----Ai-da~i~liv~ITEgIP~~D~~~~~~~a~~~g~~iiGPncpGiI~ 129 (293)
T COG0074 66 ANASVIFVPP-PFAADAILE----AI-DAGIKLVVIITEGIPVLDMLELKRYAREKGTRLIGPNCPGIIT 129 (293)
T ss_pred CCEEEEecCc-HHHHHHHHH----HH-hCCCcEEEEEeCCCCHHHHHHHHHHHHhcCCEEECCCCCccCc
Confidence 5555666553 778887664 34 6799999999999877777765544 33448899987765443
No 135
>cd05007 SIS_Etherase N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid carries a unique D-lactyl ether substituent at the C3 position. The etherase catalyzes the cleavage of the lactyl ether bond of N-acetylmuramic acid 6-phosphate.
Probab=78.13 E-value=3.4 Score=35.83 Aligned_cols=48 Identities=10% Similarity=0.075 Sum_probs=40.7
Q ss_pred CccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 72 RIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 72 gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
.=|++|.+|-. ++..++++.||++|..||.|.......|.+.||..+.
T Consensus 118 ~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~I~It~~~~s~L~~~aD~~I~ 168 (257)
T cd05007 118 ERDVVIGIAASGRTPYVLGALRYARARGALTIGIACNPGSPLLQLADIAIA 168 (257)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEE
Confidence 45788888864 6778899999999999999988777899999998774
No 136
>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=77.43 E-value=6.7 Score=32.88 Aligned_cols=74 Identities=15% Similarity=0.074 Sum_probs=51.0
Q ss_pred ccCCCCCCCch------hHhhhcceEEEe-cCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 27 VLTPEVGNGLI------GELKRGGLWVRT-ASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 27 lltPkvgyGLa------~ELrRAGv~Vrt-VsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
++.+...||.. ..|++.|+-|-. ..=.|+..| ....+..+...+.+.|++.+...++..+++.+++.|+..
T Consensus 146 ~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d--~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~ 223 (345)
T cd06338 146 ILYADDPFSQDVAEGAREKAEAAGLEVVYDETYPPGTAD--LSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNP 223 (345)
T ss_pred EEecCCcccHHHHHHHHHHHHHcCCEEEEEeccCCCccc--hHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCC
Confidence 45555556532 467888988753 222334444 334455555789999999999999999999999999864
Q ss_pred EEE
Q 039912 100 VVV 102 (198)
Q Consensus 100 VVV 102 (198)
-++
T Consensus 224 ~~~ 226 (345)
T cd06338 224 KAL 226 (345)
T ss_pred CEE
Confidence 344
No 137
>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=77.33 E-value=5.2 Score=33.56 Aligned_cols=75 Identities=12% Similarity=0.010 Sum_probs=52.3
Q ss_pred ccCCCCCCC------chhHhhhcceEEEe-cCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 27 VLTPEVGNG------LIGELKRGGLWVRT-ASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 27 lltPkvgyG------La~ELrRAGv~Vrt-VsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
++.+...|| +-..|++.|+-|-. ..=.|...|. ...|..+...+.+.|++.+...+...+++.+++.|+..
T Consensus 142 il~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~--~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~ 219 (312)
T cd06346 142 TTYINNDYGVGLADAFTKAFEALGGTVTNVVAHEEGKSSY--SSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFD 219 (312)
T ss_pred EEEccCchhhHHHHHHHHHHHHcCCEEEEEEeeCCCCCCH--HHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCC
Confidence 455666776 34567788987743 2333444443 34455555779999999999999999999999999975
Q ss_pred EEEc
Q 039912 100 VVVG 103 (198)
Q Consensus 100 VVVG 103 (198)
-++|
T Consensus 220 ~~~~ 223 (312)
T cd06346 220 KFLL 223 (312)
T ss_pred ceEe
Confidence 5554
No 138
>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=77.31 E-value=14 Score=29.40 Aligned_cols=68 Identities=19% Similarity=0.223 Sum_probs=43.8
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+++..|+.+-.......+. ..+.-+..+.+.+++-+++++.+..- +.++..+ .++..|++|-.
T Consensus 19 ~gi~~~~~~~gy~~~~~~~~~~~~--~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~-~~iPvV~i~~~ 86 (265)
T cd06290 19 KGMERGLNGSGYSPIIATGHWNQS--RELEALELLKSRRVDALILLGGDLPE-EEILALA-EEIPVLAVGRR 86 (265)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHHCCCCEEEEeCCCCCh-HHHHHHh-cCCCEEEECCC
Confidence 467788999998886544322222 23333446778999999999755332 3344333 58999999864
No 139
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=77.25 E-value=14 Score=31.07 Aligned_cols=69 Identities=14% Similarity=0.077 Sum_probs=47.0
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh-cCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL-RCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~-r~l~TVVVGd~ 105 (198)
.|+..+++..|+.+.+....-... -..+.+..+.+++++.|++++.+ ...++++...+ .++..|+++-.
T Consensus 79 ~gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiii~~~~-~~~~~~~~l~~~~~iPvV~~d~~ 148 (341)
T PRK10703 79 EAVEKNCYQKGYTLILCNAWNNLE--KQRAYLSMLAQKRVDGLLVMCSE-YPEPLLAMLEEYRHIPMVVMDWG 148 (341)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHHcCCCEEEEecCC-CCHHHHHHHHhcCCCCEEEEecc
Confidence 477788888998887654321111 22344446668899999987753 23467788888 89999999753
No 140
>cd08185 Fe-ADH1 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases-like (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase fold and is a member of the iron-containing alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown. They are present in bacteria and archaea.
Probab=77.03 E-value=12 Score=33.61 Aligned_cols=77 Identities=14% Similarity=0.081 Sum_probs=49.3
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcchH---HHHHHHHhcCCcEEE-EccCCCc
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDFV---EVLLEANLRCLKTVV-VGDINDG 108 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF~---~~Lr~Ar~r~l~TVV-VGd~~~~ 108 (198)
|..+|++.|=.|-.|.|+-.+-...+..++. .+...|+++.+. |.-++.+. .+++.+|+.+...|| ||.++-.
T Consensus 17 l~~~~~~~g~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiavGGGS~i 96 (380)
T cd08185 17 LGEEALKPGKKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNPTTTTVMEGAALAREEGCDFVVGLGGGSSM 96 (380)
T ss_pred HHHHHHhcCCeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCccHH
Confidence 4456676665666777755432234444555 666778888654 55556666 556788888999998 9998743
Q ss_pred cccc
Q 039912 109 ALKR 112 (198)
Q Consensus 109 ~L~R 112 (198)
..++
T Consensus 97 D~aK 100 (380)
T cd08185 97 DTAK 100 (380)
T ss_pred HHHH
Confidence 3333
No 141
>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=76.86 E-value=5.9 Score=33.63 Aligned_cols=67 Identities=12% Similarity=0.129 Sum_probs=46.9
Q ss_pred chhHhhhcceEEEecCCCc-chHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE-EEEcc
Q 039912 36 LIGELKRGGLWVRTASDKP-QATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT-VVVGD 104 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKP-qAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T-VVVGd 104 (198)
+..+|+.+|+-|-....-| .+.| ...++..+.+.+++.|++.....+.+.+++.+++.|+.. +++++
T Consensus 164 ~~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 232 (362)
T cd06343 164 LKDGLGDAGLEIVAETSYEVTEPD--FDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKPTFLLSS 232 (362)
T ss_pred HHHHHHHcCCeEEEEeeecCCCcc--HHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCceEEEEe
Confidence 3445777898765433333 3333 334455566889999999999999999999999999864 44444
No 142
>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=76.74 E-value=4.1 Score=34.30 Aligned_cols=67 Identities=15% Similarity=0.189 Sum_probs=47.9
Q ss_pred chhHhhhcceEEEecCCCc-chHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 36 LIGELKRGGLWVRTASDKP-QATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKP-qAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
+-..+++.|+.|.....-| ...| +..++..+...+.+.|++.+...+...+++.+++.|++..++|-
T Consensus 157 ~~~~~~~~g~~v~~~~~~~~~~~d--~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~~~~~~ 224 (344)
T cd06348 157 FQKALRDQGLNLVTVQTFQTGDTD--FQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNGLIVGG 224 (344)
T ss_pred HHHHHHHcCCEEEEEEeeCCCCCC--HHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCceecc
Confidence 3356777888876432222 2222 33444455577999999999999999999999999999877764
No 143
>PRK10490 sensor protein KdpD; Provisional
Probab=76.73 E-value=10 Score=38.30 Aligned_cols=61 Identities=20% Similarity=0.220 Sum_probs=43.2
Q ss_pred eEEEecCC--CcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 45 LWVRTASD--KPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 45 v~VrtVsd--KPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
+||.+-.. -+.+.-..|.+|+.-..+.|.+...+ ..+.--..+++.||+.|+-.||||=+.
T Consensus 284 l~V~~~~~~~~~~~~~~~l~~~~~lA~~lGa~~~~~-~~~dva~~i~~~A~~~~vt~IViG~s~ 346 (895)
T PRK10490 284 VYVETPRLHRLPEKKRRAILSALRLAQELGAETATL-SDPAEEKAVLRYAREHNLGKIIIGRRA 346 (895)
T ss_pred EEEecCCcCcCCHHHHHHHHHHHHHHHHcCCEEEEE-eCCCHHHHHHHHHHHhCCCEEEECCCC
Confidence 45665322 23344446777777566789995554 555566889999999999999999974
No 144
>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=76.61 E-value=7 Score=34.09 Aligned_cols=76 Identities=13% Similarity=0.103 Sum_probs=55.3
Q ss_pred ccCCCCCCC------chhHhhhcceEEEecCCCcc-hHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 27 VLTPEVGNG------LIGELKRGGLWVRTASDKPQ-ATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 27 lltPkvgyG------La~ELrRAGv~VrtVsdKPq-AAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
++.+...|| +...|+++|+-|-...--|. .. -+..++..+...+.+.|++...-.+.+.++|.+++.|++.
T Consensus 145 iv~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~--D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~ 222 (351)
T cd06334 145 LVYHDSPFGKEPIEALKALAEKLGFEVVLEPVPPPGPN--DQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDD 222 (351)
T ss_pred EEeCCCccchhhHHHHHHHHHHcCCeeeeeccCCCCcc--cHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCc
Confidence 566666665 33567888998765443332 33 3455566565789999999999999999999999999987
Q ss_pred EEEcc
Q 039912 100 VVVGD 104 (198)
Q Consensus 100 VVVGd 104 (198)
-++|.
T Consensus 223 ~~~~~ 227 (351)
T cd06334 223 KFIGN 227 (351)
T ss_pred eEEEe
Confidence 77764
No 145
>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=76.58 E-value=5.6 Score=33.96 Aligned_cols=75 Identities=13% Similarity=0.117 Sum_probs=53.0
Q ss_pred ccCCCCCCCch------hHhhhcceEEEecCCC-cchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 27 VLTPEVGNGLI------GELKRGGLWVRTASDK-PQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 27 lltPkvgyGLa------~ELrRAGv~VrtVsdK-PqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
++.+...||.. ..|++.|+-|-....- |.+.| ....+..+.+.+.+-|++.+...++..+++.+++.|++.
T Consensus 143 ii~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d--~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~ 220 (347)
T cd06335 143 LLLDNTGWGRSNRKDLTAALAARGLKPVAVEWFNWGDKD--MTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKV 220 (347)
T ss_pred EEeccCchhhhHHHHHHHHHHHcCCeeEEEeeecCCCcc--HHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCC
Confidence 45555566633 6677889887432222 23343 345555555789999999999999999999999999986
Q ss_pred EEEc
Q 039912 100 VVVG 103 (198)
Q Consensus 100 VVVG 103 (198)
-++|
T Consensus 221 ~~~~ 224 (347)
T cd06335 221 PIIS 224 (347)
T ss_pred cEec
Confidence 6665
No 146
>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=76.53 E-value=11 Score=30.99 Aligned_cols=66 Identities=15% Similarity=0.055 Sum_probs=43.8
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchH-HHHHHHHhc-CCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFV-EVLLEANLR-CLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~-~~Lr~Ar~r-~l~TVVVGd~ 105 (198)
|+..++++.|+.+...... ... -....+..+.+.+++-|++.+-. +. .+....++. ++..|+||..
T Consensus 23 gi~~~~~~~gy~~~i~~~~-~~~--~~~~~i~~l~~~~vdgiI~~~~~--~~~~~~~~~~~~~~~PiV~i~~~ 90 (265)
T cd06354 23 GLERAAKELGIEYKYVESK-SDA--DYEPNLEQLADAGYDLIVGVGFL--LADALKEVAKQYPDQKFAIIDAV 90 (265)
T ss_pred HHHHHHHHcCCeEEEEecC-CHH--HHHHHHHHHHhCCCCEEEEcCcc--hHHHHHHHHHHCCCCEEEEEecc
Confidence 6778899999988875432 112 23455667778999999998622 22 334444443 8899999864
No 147
>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=76.43 E-value=15 Score=29.09 Aligned_cols=65 Identities=15% Similarity=0.178 Sum_probs=42.0
Q ss_pred CchhHhhhcceEEEecCC--CcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASD--KPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsd--KPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..+++..|+.+..... -|+.. ...+..+.+.+++.|++.+-+.. .+.++.+++++ ..|+|+..
T Consensus 20 gi~~~~~~~g~~~~~~~~~~~~~~~----~~~i~~l~~~~vdgiii~~~~~~-~~~~~~~~~~~-pvv~~~~~ 86 (260)
T cd06286 20 GIEKAALKHGYKVVLLQTNYDKEKE----LEYLELLKTKQVDGLILCSREND-WEVIEPYTKYG-PIVLCEEY 86 (260)
T ss_pred HHHHHHHHcCCEEEEEeCCCChHHH----HHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHhcCC-CEEEEecc
Confidence 566777788888765332 22222 23333566889999999875443 45677777776 77878754
No 148
>cd06280 PBP1_LacI_like_4 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=76.39 E-value=15 Score=29.32 Aligned_cols=67 Identities=12% Similarity=0.115 Sum_probs=43.8
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+-.++++.|+.+.......... .....+..+.+.+++.|++++-+.... .+ .+...++..|.|+..
T Consensus 20 ~i~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~~dgiii~~~~~~~~-~~-~~~~~~iPvV~~~~~ 86 (263)
T cd06280 20 AVEDAAYRAGLRVILCNTDEDPE--KEAMYLELMEEERVTGVIFAPTRATLR-RL-AELRLSFPVVLIDRA 86 (263)
T ss_pred HHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHhCCCCEEEEeCCCCCch-HH-HHHhcCCCEEEECCC
Confidence 56678888998887654332222 222344466678999999998554432 33 445678999999864
No 149
>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=76.37 E-value=9.9 Score=27.74 Aligned_cols=67 Identities=19% Similarity=0.224 Sum_probs=34.9
Q ss_pred chhHhhhcceEEEecCCCcch-HHHHHHHHHHHHhhcCccEEEEEeCCcch----HHHHHHHH-hcCC---cEEEEccCC
Q 039912 36 LIGELKRGGLWVRTASDKPQA-TDVLLRNHLVITHKRRIEYLVVVSDDSDF----VEVLLEAN-LRCL---KTVVVGDIN 106 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqA-AD~ALkrhm~~m~~~gv~clvLVSDdsdF----~~~Lr~Ar-~r~l---~TVVVGd~~ 106 (198)
+-..|++.|+.+-.+|..+.. ....|+++-. ..-++.++ .|++... .++++.+- +.++ ++|+|||..
T Consensus 85 ~L~~l~~~~~~~~i~Sn~~~~~~~~~l~~~~~---~~~f~~i~-~~~~~~~~Kp~~~~~~~~~~~~~~~p~~~~~vgD~~ 160 (176)
T PF13419_consen 85 LLERLKAKGIPLVIVSNGSRERIERVLERLGL---DDYFDEII-SSDDVGSRKPDPDAYRRALEKLGIPPEEILFVGDSP 160 (176)
T ss_dssp HHHHHHHTTSEEEEEESSEHHHHHHHHHHTTH---GGGCSEEE-EGGGSSSSTTSHHHHHHHHHHHTSSGGGEEEEESSH
T ss_pred hhhhcccccceeEEeecCCccccccccccccc---cccccccc-ccchhhhhhhHHHHHHHHHHHcCCCcceEEEEeCCH
Confidence 445678789999999988753 2222222111 11134344 5554332 12333332 2344 489999964
No 150
>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=76.18 E-value=5.9 Score=33.49 Aligned_cols=64 Identities=16% Similarity=0.074 Sum_probs=44.2
Q ss_pred hHhhhcceEEEecC-CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEc
Q 039912 38 GELKRGGLWVRTAS-DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVG 103 (198)
Q Consensus 38 ~ELrRAGv~VrtVs-dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVG 103 (198)
..|++.|+-|.... -.|.+.| ....+..|...+.+.|++.+...+...+++.+++.|+..-.+|
T Consensus 166 ~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~~ 230 (344)
T cd06345 166 ALLPEAGLEVVSVERFSPDTTD--FTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPIPTIG 230 (344)
T ss_pred HHHHHcCCeEEEEEecCCCCCc--hHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCCceEE
Confidence 56778898765422 2222332 3344445557899999999999999999999999998643433
No 151
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=75.69 E-value=8.6 Score=31.66 Aligned_cols=59 Identities=15% Similarity=0.076 Sum_probs=40.9
Q ss_pred ceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC--cEEEEcc
Q 039912 44 GLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL--KTVVVGD 104 (198)
Q Consensus 44 Gv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l--~TVVVGd 104 (198)
|..|......+...|.. .++..+...+.+.|++.++..+...+++.+++.|+ +--++|-
T Consensus 160 ~~~~~~~~~~~~~~d~~--~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 220 (333)
T cd06332 160 GEVVEEVYTPLGQLDFS--AELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKKKIPLYGP 220 (333)
T ss_pred EEEeeEEecCCCCcchH--HHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCcccCCceecc
Confidence 54444444445555532 34445557789999999888999999999999999 6555553
No 152
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a 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 is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=75.65 E-value=7.9 Score=32.59 Aligned_cols=59 Identities=10% Similarity=-0.063 Sum_probs=43.7
Q ss_pred hHhhhcceEEEecCCC-cchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCc
Q 039912 38 GELKRGGLWVRTASDK-PQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLK 98 (198)
Q Consensus 38 ~ELrRAGv~VrtVsdK-PqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~ 98 (198)
..|+++|+.|-.+..- |...| +..++..+...+.+.|++.++-.+...+++.+++.|+.
T Consensus 154 ~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~ 213 (333)
T cd06331 154 ALLEELGGEVVGEEYLPLGTSD--FGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLD 213 (333)
T ss_pred HHHHHcCCEEEEEEEecCCccc--HHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCC
Confidence 4577789877432222 33443 45566666678999999999999999999999999996
No 153
>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=75.29 E-value=16 Score=28.75 Aligned_cols=69 Identities=12% Similarity=0.128 Sum_probs=43.6
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
..|+..+++..|+.+.+....-... ....-+..+.+.+++-|++.+.+..-. ++ .+.+.|+..|++++.
T Consensus 18 ~~~i~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~~~~~~vdgiii~~~~~~~~-~~-~~~~~~ipvv~~~~~ 86 (267)
T cd06284 18 LKGIEDEAREAGYGVLLGDTRSDPE--REQEYLDLLRRKQADGIILLDGSLPPT-AL-TALAKLPPIVQACEY 86 (267)
T ss_pred HHHHHHHHHHcCCeEEEecCCCChH--HHHHHHHHHHHcCCCEEEEecCCCCHH-HH-HHHhcCCCEEEEecc
Confidence 3577788889998886554321111 111223356688999999987654433 33 345679999999764
No 154
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=75.26 E-value=16 Score=26.52 Aligned_cols=66 Identities=18% Similarity=0.136 Sum_probs=39.7
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEe-CCcchHHHHHHHHh---cCCc-EEEEccCC
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVS-DDSDFVEVLLEANL---RCLK-TVVVGDIN 106 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVS-DdsdF~~~Lr~Ar~---r~l~-TVVVGd~~ 106 (198)
+++-|+++|+-|..+.-.... ..+.+. +...+.+-|++-+ -.+.+..+.+.++. ++-+ .||+|...
T Consensus 20 la~~l~~~G~~v~~~d~~~~~--~~l~~~---~~~~~pd~V~iS~~~~~~~~~~~~l~~~~k~~~p~~~iv~GG~~ 90 (121)
T PF02310_consen 20 LAAYLRKAGHEVDILDANVPP--EELVEA---LRAERPDVVGISVSMTPNLPEAKRLARAIKERNPNIPIVVGGPH 90 (121)
T ss_dssp HHHHHHHTTBEEEEEESSB-H--HHHHHH---HHHTTCSEEEEEESSSTHHHHHHHHHHHHHTTCTTSEEEEEESS
T ss_pred HHHHHHHCCCeEEEECCCCCH--HHHHHH---HhcCCCcEEEEEccCcCcHHHHHHHHHHHHhcCCCCEEEEECCc
Confidence 578999999999976322111 233332 3355777777655 56666666655554 4333 66677654
No 155
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=75.17 E-value=6.1 Score=39.44 Aligned_cols=87 Identities=14% Similarity=0.184 Sum_probs=52.1
Q ss_pred hHhhhcceEEEecC-CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC-CCccccchhc
Q 039912 38 GELKRGGLWVRTAS-DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI-NDGALKRISY 115 (198)
Q Consensus 38 ~ELrRAGv~VrtVs-dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~-~~~~L~R~AD 115 (198)
.+||++|+.|.+++ |.|+.| .++-+ +.||+-++==+-..|=..+++.-+++|-...++||+ ||-.-=+.||
T Consensus 455 ~~Lr~~GI~vvMiTGDn~~TA-~aIA~------elGId~v~A~~~PedK~~iV~~lQ~~G~~VaMtGDGvNDAPALa~AD 527 (679)
T PRK01122 455 AELRKMGIKTVMITGDNPLTA-AAIAA------EAGVDDFLAEATPEDKLALIRQEQAEGRLVAMTGDGTNDAPALAQAD 527 (679)
T ss_pred HHHHHCCCeEEEECCCCHHHH-HHHHH------HcCCcEEEccCCHHHHHHHHHHHHHcCCeEEEECCCcchHHHHHhCC
Confidence 36777777777665 556554 23322 456654332222334455677777788777899995 4422236799
Q ss_pred ccccHHHHhhchhhhhhhhhh
Q 039912 116 ACFSWWDILMGKARKEAVSVV 136 (198)
Q Consensus 116 ~~fsW~eV~~Gka~k~A~~~~ 136 (198)
+++. ||.+...|.+++
T Consensus 528 VGIA-----MgsGTdvAkeAA 543 (679)
T PRK01122 528 VGVA-----MNSGTQAAKEAG 543 (679)
T ss_pred EeEE-----eCCCCHHHHHhC
Confidence 9875 665555555543
No 156
>PF13580 SIS_2: SIS domain; PDB: 1TK9_C 2I22_B 2I2W_A 1X92_A 3BJZ_D 2XBL_B 2X3Y_F 2YVA_B 3CVJ_D 3TRJ_D ....
Probab=74.38 E-value=4.6 Score=31.33 Aligned_cols=32 Identities=28% Similarity=0.445 Sum_probs=24.5
Q ss_pred cCccEEEEEeC---CcchHHHHHHHHhcCCcEEEE
Q 039912 71 RRIEYLVVVSD---DSDFVEVLLEANLRCLKTVVV 102 (198)
Q Consensus 71 ~gv~clvLVSD---dsdF~~~Lr~Ar~r~l~TVVV 102 (198)
+-=|+||.+|. ++.-.++++.||++|+.||.|
T Consensus 102 ~~gDvli~iS~SG~s~~vi~a~~~Ak~~G~~vIal 136 (138)
T PF13580_consen 102 RPGDVLIVISNSGNSPNVIEAAEEAKERGMKVIAL 136 (138)
T ss_dssp -TT-EEEEEESSS-SHHHHHHHHHHHHTT-EEEEE
T ss_pred CCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEEE
Confidence 45689999987 456778999999999999986
No 157
>PRK11382 frlB fructoselysine-6-P-deglycase; Provisional
Probab=73.97 E-value=4.7 Score=35.83 Aligned_cols=48 Identities=13% Similarity=0.075 Sum_probs=39.9
Q ss_pred cEEEEEeC---CcchHHHHHHHHhcCCcEEEEccCCCccccchhcccccHH
Q 039912 74 EYLVVVSD---DSDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWW 121 (198)
Q Consensus 74 ~clvLVSD---dsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~ 121 (198)
+++|.+|- ..+-..+++.|+++|.+||.|=...+..|.+.||..+.-.
T Consensus 94 ~lvI~iS~SGeT~e~i~al~~ak~~Ga~~I~IT~~~~S~L~~~ad~~l~~~ 144 (340)
T PRK11382 94 CAVIGVSDYGKTEEVIKALELGRACGALTAAFTKRADSPITSAAEFSIDYQ 144 (340)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHcCCeEEEEECCCCChHHHhCCEEEEeC
Confidence 56777874 4678889999999999999997766689999999987655
No 158
>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=73.87 E-value=11 Score=28.32 Aligned_cols=26 Identities=15% Similarity=0.089 Sum_probs=20.2
Q ss_pred CccEEEEEeCCcchHHHHHHHHhcCCc
Q 039912 72 RIEYLVVVSDDSDFVEVLLEANLRCLK 98 (198)
Q Consensus 72 gv~clvLVSDdsdF~~~Lr~Ar~r~l~ 98 (198)
+++.|++.+| .....+++.+++.|+.
T Consensus 182 ~~~~i~~~~~-~~a~~~~~~~~~~g~~ 207 (269)
T cd01391 182 KPDAIFACND-EMAAGALKAAREAGLT 207 (269)
T ss_pred CCCEEEEcCc-hHHHHHHHHHHHcCCC
Confidence 5777777666 7778888999998883
No 159
>TIGR01491 HAD-SF-IB-PSPlk HAD-superfamily, subfamily-IB PSPase-like hydrolase, archaeal. This hypothetical equivalog is a member of the IB subfamily (TIGR01488) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this alignment are all from archaeal species. The phylogenetically closest group of sequences to these are phosphoserine phosphatases (TIGR00338). There are no known archaeal phosphoserine phosphatases, and no archaea fall within TIGR00338. It is likely, then, that This model represents the archaeal branch of the PSPase equivalog.
Probab=73.31 E-value=14 Score=28.62 Aligned_cols=77 Identities=23% Similarity=0.220 Sum_probs=42.7
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccE---EEEEeCCcch--------------HHHHHHHH-hcC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEY---LVVVSDDSDF--------------VEVLLEAN-LRC 96 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~c---lvLVSDdsdF--------------~~~Lr~Ar-~r~ 96 (198)
-+-..|++.|+.+-.||..+... +.. .+...|++. -.+.+++..+ .++++... +.+
T Consensus 87 e~l~~l~~~g~~~~IvS~~~~~~---~~~---~l~~~g~~~~~~~~~~~~~~g~~~p~~~~~~~~~~k~~~~~~~~~~~~ 160 (201)
T TIGR01491 87 ELVRWLKEKGLKTAIVSGGIMCL---AKK---VAEKLNPDYVYSNELVFDEKGFIQPDGIVRVTFDNKGEAVERLKRELN 160 (201)
T ss_pred HHHHHHHHCCCEEEEEeCCcHHH---HHH---HHHHhCCCeEEEEEEEEcCCCeEecceeeEEccccHHHHHHHHHHHhC
Confidence 35678899999999999987532 122 112235543 2344543221 13455443 345
Q ss_pred C---cEEEEccCC-Cccccchhccc
Q 039912 97 L---KTVVVGDIN-DGALKRISYAC 117 (198)
Q Consensus 97 l---~TVVVGd~~-~~~L~R~AD~~ 117 (198)
+ ++++|||+. |-...+.|++.
T Consensus 161 ~~~~~~i~iGDs~~D~~~a~~ag~~ 185 (201)
T TIGR01491 161 PSLTETVAVGDSKNDLPMFEVADIS 185 (201)
T ss_pred CCHHHEEEEcCCHhHHHHHHhcCCe
Confidence 5 589999973 23344444443
No 160
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=73.31 E-value=9 Score=33.10 Aligned_cols=62 Identities=10% Similarity=0.004 Sum_probs=42.9
Q ss_pred Hhhhcc--eEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEE
Q 039912 39 ELKRGG--LWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTV 100 (198)
Q Consensus 39 ELrRAG--v~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TV 100 (198)
.|++.| +-|....-.+...+.-...++..+.+.+.+.|||.+-..+...+++.|++.|+.+-
T Consensus 148 ~~~~~g~~i~v~~~~~~~~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~ 211 (382)
T cd06380 148 YLREKDNKWQVTARRVDNVTDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRK 211 (382)
T ss_pred HHhccCCceEEEEEEecCCCcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhccc
Confidence 456667 55543211111122445666667767789999999999999999999999998763
No 161
>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=73.17 E-value=7.1 Score=32.34 Aligned_cols=66 Identities=11% Similarity=0.021 Sum_probs=41.8
Q ss_pred hhHhhhcceEEEecCCC-cchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 37 IGELKRGGLWVRTASDK-PQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 37 a~ELrRAGv~VrtVsdK-PqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
...+++.|+-+-....- |...| ...++..+...+.++|++.+++.+-..+++.+++.|++.=++|-
T Consensus 154 ~~~~~~~G~~v~~~~~~~~~~~d--~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p~~~~ 220 (312)
T cd06333 154 KALAPKYGIEVVADERYGRTDTS--VTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGPIYQT 220 (312)
T ss_pred HHHHHHcCCEEEEEEeeCCCCcC--HHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCCEEee
Confidence 34566677665322222 22222 23344433355789999999888888899999999998656643
No 162
>PRK12342 hypothetical protein; Provisional
Probab=73.11 E-value=19 Score=31.89 Aligned_cols=67 Identities=15% Similarity=0.111 Sum_probs=44.8
Q ss_pred hhHhhhcceEEEecCCCcchH-HHHHHHHHHHHhhcCccEEEEEeCC----cch---HHHHHHHHh-cCCcEEEEccCC
Q 039912 37 IGELKRGGLWVRTASDKPQAT-DVLLRNHLVITHKRRIEYLVVVSDD----SDF---VEVLLEANL-RCLKTVVVGDIN 106 (198)
Q Consensus 37 a~ELrRAGv~VrtVsdKPqAA-D~ALkrhm~~m~~~gv~clvLVSDd----sdF---~~~Lr~Ar~-r~l~TVVVGd~~ 106 (198)
|-.||+.|-.|-.++=-|..+ +..|.++.. ..|.|-.|||||+ +|- +.+|-.|-+ .+..=|+-|..+
T Consensus 44 AlrLk~~g~~Vtvls~Gp~~a~~~~l~r~al---amGaD~avli~d~~~~g~D~~ata~~La~~i~~~~~DLVl~G~~s 119 (254)
T PRK12342 44 ASQLATDGDEIAALTVGGSLLQNSKVRKDVL---SRGPHSLYLVQDAQLEHALPLDTAKALAAAIEKIGFDLLLFGEGS 119 (254)
T ss_pred HHHHhhcCCEEEEEEeCCChHhHHHHHHHHH---HcCCCEEEEEecCccCCCCHHHHHHHHHHHHHHhCCCEEEEcCCc
Confidence 455666677777666666544 444656444 4599999999988 454 556655544 367778888754
No 163
>TIGR01522 ATPase-IIA2_Ca golgi membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIA based on a phylogenetic analysis which distinguishes this group from the Type IIB PMCA calcium pump modelled by TIGR01517. A separate analysis divides Type IIA into sub-types, SERCA and PMR1 the former of which is modelled by TIGR01116.
Probab=72.99 E-value=9.6 Score=38.41 Aligned_cols=37 Identities=14% Similarity=0.118 Sum_probs=28.3
Q ss_pred chHHHHHHHHhcCCcEEEEccC-CCccccchhcccccH
Q 039912 84 DFVEVLLEANLRCLKTVVVGDI-NDGALKRISYACFSW 120 (198)
Q Consensus 84 dF~~~Lr~Ar~r~l~TVVVGd~-~~~~L~R~AD~~fsW 120 (198)
+=..+++..+++|-.+.+|||+ ||-.--+.||++++|
T Consensus 605 ~K~~iv~~lq~~g~~v~mvGDGvND~pAl~~AdVGia~ 642 (884)
T TIGR01522 605 HKMKIVKALQKRGDVVAMTGDGVNDAPALKLADIGVAM 642 (884)
T ss_pred HHHHHHHHHHHCCCEEEEECCCcccHHHHHhCCeeEec
Confidence 3456788888888888899994 554555889999887
No 164
>PF14336 DUF4392: Domain of unknown function (DUF4392)
Probab=72.60 E-value=18 Score=32.37 Aligned_cols=69 Identities=20% Similarity=0.238 Sum_probs=48.5
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHH-----------------------------hhcCccEEEEE-------
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVIT-----------------------------HKRRIEYLVVV------- 79 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m-----------------------------~~~gv~clvLV------- 79 (198)
||..|.+-|..|..|.|.+.+. +++.....+ ...+.+.||-+
T Consensus 68 La~aL~~lG~~~~ivtd~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~lIaIERpGra~ 145 (291)
T PF14336_consen 68 LARALQALGKEVVIVTDERCAP--VVKAAVRAAGLQGVDKVEIPPFFPDDFAQAFLEADGLLKEPRPDLLIAIERPGRAA 145 (291)
T ss_pred HHHHHHHcCCeEEEEECHHHHH--HHHHHHHHHhhCcccccccccccccchhhhHHHHhhccccCCCCEEEEeCCcccCC
Confidence 5778999999999999988754 444443322 12333444432
Q ss_pred ------------e-CCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 80 ------------S-DDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 80 ------------S-DdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
+ --..|-.+...|++.|+.|+.|||+-
T Consensus 146 dG~Y~nmrG~~I~~~~a~~D~lf~~a~~~gi~tigIGDGG 185 (291)
T PF14336_consen 146 DGNYYNMRGEDISHLVAPLDDLFLAAKEPGIPTIGIGDGG 185 (291)
T ss_pred CCCEecCcCCcCccccccHHHHHHHhhcCCCCEEEECCCc
Confidence 1 14478889999999999999999963
No 165
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=72.40 E-value=6.9 Score=34.37 Aligned_cols=76 Identities=20% Similarity=0.219 Sum_probs=52.4
Q ss_pred ccCCCCCCCc------hhHhhhcceEEEecCC-CcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 27 VLTPEVGNGL------IGELKRGGLWVRTASD-KPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 27 lltPkvgyGL------a~ELrRAGv~VrtVsd-KPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
++.+-..||- ...|+++|+-|-.... .|...| +..++..+...+.+.|++.+...++..+++.+++.|++.
T Consensus 166 ~i~~d~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~g~~D--~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~ 243 (369)
T PRK15404 166 VLHDKQQYGEGLARSVKDGLKKAGANVVFFEGITAGDKD--FSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKT 243 (369)
T ss_pred EEeCCCchhHHHHHHHHHHHHHcCCEEEEEEeeCCCCCc--hHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCC
Confidence 3444445553 3568888988753222 233444 444555565789999988888889999999999999987
Q ss_pred EEEcc
Q 039912 100 VVVGD 104 (198)
Q Consensus 100 VVVGd 104 (198)
-++|-
T Consensus 244 ~~i~~ 248 (369)
T PRK15404 244 QFMGP 248 (369)
T ss_pred eEEec
Confidence 66655
No 166
>PLN02770 haloacid dehalogenase-like hydrolase family protein
Probab=72.22 E-value=32 Score=28.78 Aligned_cols=82 Identities=16% Similarity=0.161 Sum_probs=46.5
Q ss_pred HHHHHHHhccCCCCC-CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccE---EEEEeCC-----cchHHHH
Q 039912 19 KYKRAARAVLTPEVG-NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEY---LVVVSDD-----SDFVEVL 89 (198)
Q Consensus 19 KY~~AAr~lltPkvg-yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~c---lvLVSDd-----sdF~~~L 89 (198)
.|+......+.|-.| .-+-..|+..|+.+=.+|.+|... +...+ ...|+.. .++.|++ ++=..++
T Consensus 98 ~y~~~~~~~~~l~pgv~e~L~~L~~~g~~l~I~Tn~~~~~---~~~~l---~~~gl~~~Fd~iv~~~~~~~~KP~p~~~~ 171 (248)
T PLN02770 98 LFRKLASEQLKPLNGLYKLKKWIEDRGLKRAAVTNAPREN---AELMI---SLLGLSDFFQAVIIGSECEHAKPHPDPYL 171 (248)
T ss_pred HHHHHHHhcCCcCccHHHHHHHHHHcCCeEEEEeCCCHHH---HHHHH---HHcCChhhCcEEEecCcCCCCCCChHHHH
Confidence 344433333444332 335567888999999999988643 22222 2345542 3556665 2323445
Q ss_pred HHHHhcCCc---EEEEccCC
Q 039912 90 LEANLRCLK---TVVVGDIN 106 (198)
Q Consensus 90 r~Ar~r~l~---TVVVGd~~ 106 (198)
+.+++-|+. +++|||..
T Consensus 172 ~a~~~~~~~~~~~l~vgDs~ 191 (248)
T PLN02770 172 KALEVLKVSKDHTFVFEDSV 191 (248)
T ss_pred HHHHHhCCChhHEEEEcCCH
Confidence 555556765 89999974
No 167
>TIGR01422 phosphonatase phosphonoacetaldehyde hydrolase. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases (pfam00702), and contains a modified version of the conserved catalytic motifs of that superfamily: the first motif is usually DxDx(T/V), here it is DxAxT, and in the third motif the normal conserved lysine is instead an arginine. Additionally, the enzyme contains a unique conserved catalytic lysine (B. cereus pos. 53) which is involved in the binding and activation of the substrate through the formation of a Schiff base. The substrate of this enzyme is the product of 2-aminoethylphosphonate (AEP) transaminase, phosphonoacetaldehyde. This degradation pathway for AEP may be related to its toxic properties which are utilized by microorganisms as a chemical warfare agent.
Probab=72.15 E-value=48 Score=27.31 Aligned_cols=68 Identities=22% Similarity=0.195 Sum_probs=40.1
Q ss_pred chhHhhhcceEEEecCCCcchH-HHHHHHHHHHHhhcCccEEEEEeCCc-----chHHHHHHHHhcCCc----EEEEccC
Q 039912 36 LIGELKRGGLWVRTASDKPQAT-DVLLRNHLVITHKRRIEYLVVVSDDS-----DFVEVLLEANLRCLK----TVVVGDI 105 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAA-D~ALkrhm~~m~~~gv~clvLVSDds-----dF~~~Lr~Ar~r~l~----TVVVGd~ 105 (198)
+-..|+..|+.+-.+|.+|+.. ...|++ .- +...=.+ .|+.||+. +=..+++.+++-|+. +|+|||+
T Consensus 107 ~L~~L~~~g~~l~IvT~~~~~~~~~~l~~-~g-l~~~f~d-~ii~~~~~~~~KP~p~~~~~a~~~l~~~~~~~~l~IGDs 183 (253)
T TIGR01422 107 VIAYLRARGIKIGSTTGYTREMMDVVAPE-AA-LQGYRPD-YNVTTDDVPAGRPAPWMALKNAIELGVYDVAACVKVGDT 183 (253)
T ss_pred HHHHHHHCCCeEEEECCCcHHHHHHHHHH-HH-hcCCCCc-eEEccccCCCCCCCHHHHHHHHHHcCCCCchheEEECCc
Confidence 5567888999988899998753 222222 21 1111013 33455542 333556666777774 8999997
Q ss_pred C
Q 039912 106 N 106 (198)
Q Consensus 106 ~ 106 (198)
.
T Consensus 184 ~ 184 (253)
T TIGR01422 184 V 184 (253)
T ss_pred H
Confidence 3
No 168
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=72.06 E-value=6.5 Score=29.39 Aligned_cols=42 Identities=21% Similarity=0.245 Sum_probs=31.9
Q ss_pred CccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhc
Q 039912 72 RIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISY 115 (198)
Q Consensus 72 gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD 115 (198)
.-++++.+|-. .+-.++++.|+++|.++|+|-+. +.|...||
T Consensus 43 ~~dl~I~iS~SG~t~e~i~~~~~a~~~g~~iI~IT~~--~~l~~~~~ 87 (119)
T cd05017 43 RKTLVIAVSYSGNTEETLSAVEQAKERGAKIVAITSG--GKLLEMAR 87 (119)
T ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEeCC--chHHHHHH
Confidence 44778888854 56778888999999999988753 35777777
No 169
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=71.37 E-value=14 Score=30.73 Aligned_cols=58 Identities=16% Similarity=0.149 Sum_probs=39.7
Q ss_pred HhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCc
Q 039912 39 ELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLK 98 (198)
Q Consensus 39 ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~ 98 (198)
++...|.-|....-.|.. + -....+..+-+.+.+.|+|.+...+...+++.|++.|+.
T Consensus 149 ~~~~~g~~v~~~~~~~~~-~-d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~ 206 (324)
T cd06368 149 ALSPKGIQVTVRRLDDDT-D-MYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMM 206 (324)
T ss_pred hhccCCceEEEEEecCCc-h-HHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccc
Confidence 344456555432222222 2 345555555577899999999999999999999999985
No 170
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=71.26 E-value=30 Score=23.65 Aligned_cols=38 Identities=16% Similarity=0.130 Sum_probs=30.2
Q ss_pred hcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCCC
Q 039912 70 KRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIND 107 (198)
Q Consensus 70 ~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~~ 107 (198)
..|+..-..+...+....+++.+++.+...||+|-...
T Consensus 67 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~~~ 104 (130)
T cd00293 67 EAGVKVETVVLEGDPAEAILEAAEELGADLIVMGSRGR 104 (130)
T ss_pred cCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcCCCC
Confidence 46887765555555589999999999999999997643
No 171
>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=70.93 E-value=10 Score=31.90 Aligned_cols=75 Identities=21% Similarity=0.235 Sum_probs=51.0
Q ss_pred ccCCCCCCC------chhHhhhcceEEEecCCCcc-hHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC--
Q 039912 27 VLTPEVGNG------LIGELKRGGLWVRTASDKPQ-ATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL-- 97 (198)
Q Consensus 27 lltPkvgyG------La~ELrRAGv~VrtVsdKPq-AAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l-- 97 (198)
++.+..+|| +-..|+++|+-|-....-|. ..| ...++..+...+.+.|++.+...+.+.+++.+++.|+
T Consensus 140 ~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~ 217 (334)
T cd06327 140 FLTADYAFGHSLERDARKVVKANGGKVVGSVRHPLGTSD--FSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTK 217 (334)
T ss_pred EEecchHHhHHHHHHHHHHHHhcCCEEcCcccCCCCCcc--HHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCcc
Confidence 555666666 33456678887743332222 333 3445555557789999999999999999999999999
Q ss_pred cEEEEc
Q 039912 98 KTVVVG 103 (198)
Q Consensus 98 ~TVVVG 103 (198)
+..++|
T Consensus 218 ~~~~~~ 223 (334)
T cd06327 218 GQKLAG 223 (334)
T ss_pred CCcEEE
Confidence 455554
No 172
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=70.92 E-value=8.6 Score=31.90 Aligned_cols=67 Identities=9% Similarity=-0.011 Sum_probs=42.3
Q ss_pred chhHhhhcceEEEecCCC-cchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 36 LIGELKRGGLWVRTASDK-PQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdK-PqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
+...+++.|+-+.....- +...| ....+..+...+.+.|++.++..+...+++.++++|++.-++|-
T Consensus 156 ~~~~~~~~G~~~~~~~~~~~~~~d--~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~~~~~~ 223 (336)
T cd06326 156 VEKALAARGLKPVATASYERNTAD--VAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGAQFYNL 223 (336)
T ss_pred HHHHHHHcCCCeEEEEeecCCccc--HHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCCcEEEE
Confidence 456677778655332222 22222 22333333355788888888888899999999999997655553
No 173
>COG0546 Gph Predicted phosphatases [General function prediction only]
Probab=70.84 E-value=11 Score=30.95 Aligned_cols=80 Identities=30% Similarity=0.422 Sum_probs=51.6
Q ss_pred HHHHHHHhcc----CCCCCCCchhHhhhcceEEEecCCCcc-hHHHHHHHHHHHHhhcCccEE--EEEe-CC-----cch
Q 039912 19 KYKRAARAVL----TPEVGNGLIGELKRGGLWVRTASDKPQ-ATDVLLRNHLVITHKRRIEYL--VVVS-DD-----SDF 85 (198)
Q Consensus 19 KY~~AAr~ll----tPkvgyGLa~ELrRAGv~VrtVsdKPq-AAD~ALkrhm~~m~~~gv~cl--vLVS-Dd-----sdF 85 (198)
.|.+.-.+.. .|-+. -+-.+|+.+|+..=.|+.||+ -++..|+. .|+.-+ +.++ |+ ++-
T Consensus 77 ~~~~~~~~~~~~~~~~gv~-e~L~~L~~~g~~l~i~T~k~~~~~~~~l~~-------~gl~~~F~~i~g~~~~~~~KP~P 148 (220)
T COG0546 77 EFLTAYAELLESRLFPGVK-ELLAALKSAGYKLGIVTNKPERELDILLKA-------LGLADYFDVIVGGDDVPPPKPDP 148 (220)
T ss_pred HHHHHHHhhccCccCCCHH-HHHHHHHhCCCeEEEEeCCcHHHHHHHHHH-------hCCccccceEEcCCCCCCCCcCH
Confidence 3444444443 33332 345689999999999999998 55555555 244332 2444 32 244
Q ss_pred HHHHHHHHhcCCc---EEEEccCC
Q 039912 86 VEVLLEANLRCLK---TVVVGDIN 106 (198)
Q Consensus 86 ~~~Lr~Ar~r~l~---TVVVGd~~ 106 (198)
..++..+++.|+. ++.|||+.
T Consensus 149 ~~l~~~~~~~~~~~~~~l~VGDs~ 172 (220)
T COG0546 149 EPLLLLLEKLGLDPEEALMVGDSL 172 (220)
T ss_pred HHHHHHHHHhCCChhheEEECCCH
Confidence 5688888888888 89999975
No 174
>TIGR03649 ergot_EASG ergot alkaloid biosynthesis protein, AFUA_2G17970 family. This family consists of fungal proteins of unknown function associated with secondary metabolite biosynthesis, such as of the ergot alkaloids such as ergovaline. Nomenclature differs because gene order differs - this is EasG in Neotyphodium lolii but is designated ergot alkaloid biosynthetic protein A in several other fungi.
Probab=70.81 E-value=6.2 Score=32.66 Aligned_cols=74 Identities=12% Similarity=0.087 Sum_probs=47.0
Q ss_pred CCCCchhHhhhcceEEEecCCCcchH----------H----HHHHHHHHHHh-hcC-ccEEEEEeCCc-----chHHHHH
Q 039912 32 VGNGLIGELKRGGLWVRTASDKPQAT----------D----VLLRNHLVITH-KRR-IEYLVVVSDDS-----DFVEVLL 90 (198)
Q Consensus 32 vgyGLa~ELrRAGv~VrtVsdKPqAA----------D----~ALkrhm~~m~-~~g-v~clvLVSDds-----dF~~~Lr 90 (198)
+|.-++.+|...|+.|+.++..|+.+ | ..|...+...+ -.| ++.+++++... ....++.
T Consensus 11 iG~~vv~~L~~~g~~V~~~~R~~~~~~~~~~~~~~~d~~d~~~l~~a~~~~~~~~g~~d~v~~~~~~~~~~~~~~~~~i~ 90 (285)
T TIGR03649 11 TASRIARLLQAASVPFLVASRSSSSSAGPNEKHVKFDWLDEDTWDNPFSSDDGMEPEISAVYLVAPPIPDLAPPMIKFID 90 (285)
T ss_pred HHHHHHHHHHhCCCcEEEEeCCCccccCCCCccccccCCCHHHHHHHHhcccCcCCceeEEEEeCCCCCChhHHHHHHHH
Confidence 45667888888898888776666422 1 12333221100 147 99999887642 2346788
Q ss_pred HHHhcCCcEEEEccC
Q 039912 91 EANLRCLKTVVVGDI 105 (198)
Q Consensus 91 ~Ar~r~l~TVVVGd~ 105 (198)
.|++.|++.||.-..
T Consensus 91 aa~~~gv~~~V~~Ss 105 (285)
T TIGR03649 91 FARSKGVRRFVLLSA 105 (285)
T ss_pred HHHHcCCCEEEEeec
Confidence 899999998887543
No 175
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=70.75 E-value=23 Score=29.39 Aligned_cols=66 Identities=12% Similarity=0.201 Sum_probs=40.2
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchH--HHHHHHHhcCCcEEEEcc
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFV--EVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~--~~Lr~Ar~r~l~TVVVGd 104 (198)
|+..++++.|+.+........... ....+..+.+++++-|++.+-+.+.. .+|+ +..++..|+|+.
T Consensus 77 gi~~~~~~~g~~~~~~~~~~~~~~--~~~~~~~l~~~~vdGiI~~~~~~~~~~~~~l~--~~~~iPvV~i~~ 144 (327)
T PRK10423 77 GVERSCFERGYSLVLCNTEGDEQR--MNRNLETLMQKRVDGLLLLCTETHQPSREIMQ--RYPSVPTVMMDW 144 (327)
T ss_pred HHHHHHHHcCCEEEEEeCCCCHHH--HHHHHHHHHHcCCCEEEEeCCCcchhhHHHHH--hcCCCCEEEECC
Confidence 677889999988765433222221 12333355678999999987554332 2332 235888899974
No 176
>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=70.73 E-value=17 Score=30.71 Aligned_cols=72 Identities=18% Similarity=0.167 Sum_probs=48.5
Q ss_pred ccCCCCCCC------chhHhhhcceEEEecCCCcc-hHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCc
Q 039912 27 VLTPEVGNG------LIGELKRGGLWVRTASDKPQ-ATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLK 98 (198)
Q Consensus 27 lltPkvgyG------La~ELrRAGv~VrtVsdKPq-AAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~ 98 (198)
++++...|| +...|++.|+-|.....-|. +...-+...+..+...+.+-|++.+...+...+++.|++.|+.
T Consensus 140 ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~ 218 (350)
T cd06366 140 TIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMM 218 (350)
T ss_pred EEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCc
Confidence 455555554 33567778887754332222 1123455555555466889999999999999999999999984
No 177
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=70.70 E-value=14 Score=33.78 Aligned_cols=65 Identities=12% Similarity=0.068 Sum_probs=45.5
Q ss_pred hHhhhcceEEE---ecCCCcchHHHHHHHHHHHHh-hcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 38 GELKRGGLWVR---TASDKPQATDVLLRNHLVITH-KRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 38 ~ELrRAGv~Vr---tVsdKPqAAD~ALkrhm~~m~-~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
.++++.|+-|- .++..|... -+...+..+. ..+.+-|||.+...+...+|+.|++.|+..+.||-
T Consensus 196 ~~~~~~gi~i~~~~~i~~~~~~~--d~~~~l~~l~~~~~a~vVvl~~~~~~~~~ll~~a~~~g~~~~wigs 264 (458)
T cd06375 196 QEARLRNICIATSEKVGRSADRK--SYDSVIRKLLQKPNARVVVLFTRSEDARELLAAAKRLNASFTWVAS 264 (458)
T ss_pred HHHHHCCeeEEEEEEecCCCCHH--HHHHHHHHHhccCCCEEEEEecChHHHHHHHHHHHHcCCcEEEEEe
Confidence 45677887664 344334333 3444444443 25888899999999999999999999998777764
No 178
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=70.11 E-value=8 Score=26.52 Aligned_cols=43 Identities=21% Similarity=0.373 Sum_probs=21.3
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD 82 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd 82 (198)
.++..||++|+.|.+- ..+. .+..++......|+.++++|.++
T Consensus 19 ~~~~~Lr~~g~~v~~d-~~~~----~~~~~~~~a~~~g~~~~iiig~~ 61 (91)
T cd00860 19 EVAKKLSDAGIRVEVD-LRNE----KLGKKIREAQLQKIPYILVVGDK 61 (91)
T ss_pred HHHHHHHHCCCEEEEE-CCCC----CHHHHHHHHHHcCCCEEEEECcc
Confidence 3456666666666551 1111 33444443345566666666543
No 179
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=70.07 E-value=14 Score=31.11 Aligned_cols=77 Identities=17% Similarity=0.164 Sum_probs=52.1
Q ss_pred hcceEEEec-CCCcch--------HHHHHHHHHHHHhhcCccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCcc
Q 039912 42 RGGLWVRTA-SDKPQA--------TDVLLRNHLVITHKRRIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGA 109 (198)
Q Consensus 42 RAGv~VrtV-sdKPqA--------AD~ALkrhm~~m~~~gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~ 109 (198)
|-|+.+.-. .|.+.. .|.-.-+++... ..-=|+++++|-. .+...+++.||++|.++|+|-...++.
T Consensus 71 r~gl~a~~l~~d~~~~ta~and~~~~~~f~~ql~~~-~~~gDvli~iS~SG~s~~v~~a~~~Ak~~G~~vI~IT~~~~s~ 149 (196)
T PRK10886 71 RPSLPAIALNTDNVVLTAIANDRLHDEVYAKQVRAL-GHAGDVLLAISTRGNSRDIVKAVEAAVTRDMTIVALTGYDGGE 149 (196)
T ss_pred CCCcceEEecCcHHHHHHHhccccHHHHHHHHHHHc-CCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCh
Confidence 667776633 333332 233444555544 2344888888875 456777889999999999999877788
Q ss_pred ccch---hccccc
Q 039912 110 LKRI---SYACFS 119 (198)
Q Consensus 110 L~R~---AD~~fs 119 (198)
|++. +|+.+.
T Consensus 150 l~~l~~~~D~~i~ 162 (196)
T PRK10886 150 LAGLLGPQDVEIR 162 (196)
T ss_pred hhhccccCCEEEE
Confidence 9986 687664
No 180
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=70.01 E-value=18 Score=32.21 Aligned_cols=65 Identities=9% Similarity=0.087 Sum_probs=44.5
Q ss_pred hHhhhcceEEE---ecCCCcchHHHHHHHHHHHHhh-cCccEEEEEeCCcchHHHHHHHHhcCC--cEEEEcc
Q 039912 38 GELKRGGLWVR---TASDKPQATDVLLRNHLVITHK-RRIEYLVVVSDDSDFVEVLLEANLRCL--KTVVVGD 104 (198)
Q Consensus 38 ~ELrRAGv~Vr---tVsdKPqAAD~ALkrhm~~m~~-~gv~clvLVSDdsdF~~~Lr~Ar~r~l--~TVVVGd 104 (198)
.++++.|+-|- +++..|.+.| +...+..+.. .+.+.|||.+...+...+++.|++.|+ +.+.||-
T Consensus 194 ~~~~~~gi~i~~~~~~~~~~~~~d--~~~~l~~l~~~~~a~viil~~~~~~~~~~~~~a~~~g~~~~~~~i~~ 264 (452)
T cd06362 194 KLAAERGICIAGSEKIPSSATEEE--FDNIIRKLLSKPNARVVVLFCREDDIRGLLAAAKRLNAEGHFQWIAS 264 (452)
T ss_pred HHHHHCCeeEEEEEEcCCCCCHHH--HHHHHHHHhhcCCCeEEEEEcChHHHHHHHHHHHHcCCcCceEEEEe
Confidence 56777887664 3443444443 3344444433 468889999999999999999999999 5565553
No 181
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=69.99 E-value=12 Score=28.12 Aligned_cols=73 Identities=18% Similarity=0.187 Sum_probs=43.2
Q ss_pred HHHHhccCCCCCCCc------hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhh-cCccEEEEEeCCc-------chHH
Q 039912 22 RAARAVLTPEVGNGL------IGELKRGGLWVRTASDKPQATDVLLRNHLVITHK-RRIEYLVVVSDDS-------DFVE 87 (198)
Q Consensus 22 ~AAr~lltPkvgyGL------a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~-~gv~clvLVSDds-------dF~~ 87 (198)
..|+.+. +.||.| |..|+..|+.|+.|..-|+..+.-+..++. + ..|+.+|-+.+.. |=-.
T Consensus 16 ~~a~~l~--~~G~~i~AT~gTa~~L~~~Gi~~~~v~~~~~~g~~~i~~~i~---~~g~idlVIn~~~~~~~~~~~~dg~~ 90 (112)
T cd00532 16 DLAPKLS--SDGFPLFATGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAIA---EKGKFDVVINLRDPRRDRCTDEDGTA 90 (112)
T ss_pred HHHHHHH--HCCCEEEECcHHHHHHHHcCCceEEEEecCCCCCcHHHHHHh---CCCCEEEEEEcCCCCcccccCCChHH
Confidence 3344444 557766 788999999988775433211111222222 5 6888888877533 2445
Q ss_pred HHHHHHhcCCcE
Q 039912 88 VLLEANLRCLKT 99 (198)
Q Consensus 88 ~Lr~Ar~r~l~T 99 (198)
+.|.|.+.++--
T Consensus 91 iRR~A~~~~Ip~ 102 (112)
T cd00532 91 LLRLARLYKIPV 102 (112)
T ss_pred HHHHHHHcCCCE
Confidence 777777776643
No 182
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=69.84 E-value=7.2 Score=34.75 Aligned_cols=47 Identities=15% Similarity=0.104 Sum_probs=39.9
Q ss_pred cEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhcccccH
Q 039912 74 EYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSW 120 (198)
Q Consensus 74 ~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW 120 (198)
|++|.+|-. ++-.++++.|+++|..||.|....+..|.+.||+.+.-
T Consensus 129 DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~IaIT~~~~s~La~~aD~~I~~ 178 (296)
T PRK12570 129 DVVVGIAASGRTPYVIGALEYAKQIGATTIALSCNPDSPIAKIADIAISP 178 (296)
T ss_pred CEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEee
Confidence 888888864 56678899999999999999887778899999988753
No 183
>PF05368 NmrA: NmrA-like family; InterPro: IPR008030 NmrA is a negative transcriptional regulator involved in the post-translational modification of the transcription factor AreA. NmrA is part of a system controlling nitrogen metabolite repression in fungi []. This family only contains a few sequences as iteration results in significant matches to other Rossmann fold families.; PDB: 2ZCV_A 2ZCU_A 2R6J_B 3C3X_A 2QZZ_B 2QYS_A 2QX7_A 2QW8_A 2R2G_B 3E5M_B ....
Probab=69.82 E-value=15 Score=29.49 Aligned_cols=71 Identities=20% Similarity=0.272 Sum_probs=44.8
Q ss_pred CCCchhHhhhcceEEEecCCCcch-HHHHH--------------HHHHH-HHhhcCccEEEEEeC---Cc---chHHHHH
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQA-TDVLL--------------RNHLV-ITHKRRIEYLVVVSD---DS---DFVEVLL 90 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqA-AD~AL--------------krhm~-~m~~~gv~clvLVSD---ds---dF~~~Lr 90 (198)
|-.++..|...|+.|+.+..+|.. .=..| ...|. .+ +|+++++++.. +. ....+++
T Consensus 11 G~~v~~~L~~~~~~V~~l~R~~~~~~~~~l~~~g~~vv~~d~~~~~~l~~al--~g~d~v~~~~~~~~~~~~~~~~~li~ 88 (233)
T PF05368_consen 11 GRSVVRALLSAGFSVRALVRDPSSDRAQQLQALGAEVVEADYDDPESLVAAL--KGVDAVFSVTPPSHPSELEQQKNLID 88 (233)
T ss_dssp HHHHHHHHHHTTGCEEEEESSSHHHHHHHHHHTTTEEEES-TT-HHHHHHHH--TTCSEEEEESSCSCCCHHHHHHHHHH
T ss_pred HHHHHHHHHhCCCCcEEEEeccchhhhhhhhcccceEeecccCCHHHHHHHH--cCCceEEeecCcchhhhhhhhhhHHH
Confidence 444566666677777755554421 10111 23333 34 59999999998 33 3467899
Q ss_pred HHHhcCCcEEEEccC
Q 039912 91 EANLRCLKTVVVGDI 105 (198)
Q Consensus 91 ~Ar~r~l~TVVVGd~ 105 (198)
.|++.||+.+|....
T Consensus 89 Aa~~agVk~~v~ss~ 103 (233)
T PF05368_consen 89 AAKAAGVKHFVPSSF 103 (233)
T ss_dssp HHHHHT-SEEEESEE
T ss_pred hhhccccceEEEEEe
Confidence 999999999998775
No 184
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=69.51 E-value=14 Score=28.54 Aligned_cols=63 Identities=21% Similarity=0.260 Sum_probs=35.1
Q ss_pred hhHhhhcceEEEecC-CCcchHHHHHHHHHHHHhhcCccEEEEEeCC--c----chHHHHHHHHhcCCcEEEEccCC
Q 039912 37 IGELKRGGLWVRTAS-DKPQATDVLLRNHLVITHKRRIEYLVVVSDD--S----DFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 37 a~ELrRAGv~VrtVs-dKPqAAD~ALkrhm~~m~~~gv~clvLVSDd--s----dF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
-.+|+++|+.+..++ |.+..+. ++-+ ..||...+..+.. + -|..+++.-....=++++|||+.
T Consensus 136 l~~L~~~Gi~~~i~TGD~~~~a~-~~~~------~lgi~~~~v~a~~~~kP~~k~~~~~i~~l~~~~~~v~~vGDg~ 205 (215)
T PF00702_consen 136 LQELKEAGIKVAILTGDNESTAS-AIAK------QLGIFDSIVFARVIGKPEPKIFLRIIKELQVKPGEVAMVGDGV 205 (215)
T ss_dssp HHHHHHTTEEEEEEESSEHHHHH-HHHH------HTTSCSEEEEESHETTTHHHHHHHHHHHHTCTGGGEEEEESSG
T ss_pred hhhhhccCcceeeeecccccccc-cccc------ccccccccccccccccccchhHHHHHHHHhcCCCEEEEEccCH
Confidence 456778888777666 4444332 2211 4677555544444 2 34455555442333789999963
No 185
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=69.20 E-value=21 Score=29.03 Aligned_cols=47 Identities=13% Similarity=-0.008 Sum_probs=31.3
Q ss_pred HHHHHHHHhccCCCCCC-CchhHhhhcceEEEecCCCcc-hHHHHHHHH
Q 039912 18 EKYKRAARAVLTPEVGN-GLIGELKRGGLWVRTASDKPQ-ATDVLLRNH 64 (198)
Q Consensus 18 ~KY~~AAr~lltPkvgy-GLa~ELrRAGv~VrtVsdKPq-AAD~ALkrh 64 (198)
+.+.+..++.+.|.-|. .+-..|++.|+.+-.||+++. -+...|+++
T Consensus 63 ~~~~~~~~~~~~l~pG~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~ 111 (219)
T PRK09552 63 EEIIQFLLETAEIREGFHEFVQFVKENNIPFYVVSGGMDFFVYPLLQGL 111 (219)
T ss_pred HHHHHHHHhCCCcCcCHHHHHHHHHHcCCeEEEECCCcHHHHHHHHHHh
Confidence 44555555555554443 467788999999999999998 344445443
No 186
>PRK10671 copA copper exporting ATPase; Provisional
Probab=68.80 E-value=8.4 Score=38.34 Aligned_cols=78 Identities=13% Similarity=0.090 Sum_probs=42.2
Q ss_pred hHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC-CCccccchhcc
Q 039912 38 GELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI-NDGALKRISYA 116 (198)
Q Consensus 38 ~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~-~~~~L~R~AD~ 116 (198)
.+|++.|+.+-.++.+++..=.++-+ ..||+-++--.-..+=..+++..+.++-.++.|||+ +|...-+.||+
T Consensus 660 ~~L~~~gi~v~~~Tgd~~~~a~~ia~------~lgi~~~~~~~~p~~K~~~i~~l~~~~~~v~~vGDg~nD~~al~~Agv 733 (834)
T PRK10671 660 QRLHKAGYRLVMLTGDNPTTANAIAK------EAGIDEVIAGVLPDGKAEAIKRLQSQGRQVAMVGDGINDAPALAQADV 733 (834)
T ss_pred HHHHHCCCeEEEEcCCCHHHHHHHHH------HcCCCEEEeCCCHHHHHHHHHHHhhcCCEEEEEeCCHHHHHHHHhCCe
Confidence 34566666655555554432112222 234433222111222344556666666778999994 55667789999
Q ss_pred cccHH
Q 039912 117 CFSWW 121 (198)
Q Consensus 117 ~fsW~ 121 (198)
.+.|.
T Consensus 734 gia~g 738 (834)
T PRK10671 734 GIAMG 738 (834)
T ss_pred eEEec
Confidence 77663
No 187
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are 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 t
Probab=68.32 E-value=25 Score=28.75 Aligned_cols=66 Identities=17% Similarity=0.166 Sum_probs=42.0
Q ss_pred CCchhHhhhcc-eEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHH-HHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGG-LWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVE-VLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAG-v~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~-~Lr~Ar~r~l~TVVVGd~ 105 (198)
-|+...|+..| +.+-+....+ + -.+..+..+ +.+++-++++|-..+ .+ .....++.++..|++|..
T Consensus 18 ~~i~~~l~~~g~~~l~~~~~~~---~-~~~~~~~~~-~~~vdGvIi~~~~~~-~~~~~~~~~~~~~PvV~i~~~ 85 (247)
T cd06276 18 NSFVNTLGKNAQVDLYFHHYNE---D-LFKNIISNT-KGKYSGYVVMPHFKN-EIQYFLLKKIPKEKLLILDHS 85 (247)
T ss_pred HHHHHHHHhcCcEEEEEEcCch---H-HHHHHHHHH-hcCCCEEEEecCCCC-cHHHHHHhccCCCCEEEEcCc
Confidence 37788999999 7766544433 1 222333343 789999999985322 12 334445578899999864
No 188
>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=68.13 E-value=24 Score=28.58 Aligned_cols=65 Identities=15% Similarity=0.132 Sum_probs=40.8
Q ss_pred CchhHhhhcceEEEecCC-CcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHH-HHHHhc-CCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASD-KPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVL-LEANLR-CLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsd-KPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~L-r~Ar~r-~l~TVVVGd~ 105 (198)
|+..+++..|+.+..... .|+ -....+..+..++++.|++++-+ +.+.+ ..+.+. ++.-|+++..
T Consensus 22 gi~~~~~~~gy~~~~~~~~~~~----~~~~~~~~l~~~~vdgiii~~~~--~~~~~~~~~~~~~~ipvv~~~~~ 89 (260)
T cd06304 22 GLEKAEKELGVEVKYVESVEDA----DYEPNLRQLAAQGYDLIFGVGFG--FMDAVEKVAKEYPDVKFAIIDGV 89 (260)
T ss_pred HHHHHHHhcCceEEEEecCCHH----HHHHHHHHHHHcCCCEEEECCcc--hhHHHHHHHHHCCCCEEEEecCc
Confidence 666778889998876432 222 12233446668899999998744 33434 444433 6778888764
No 189
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=68.04 E-value=11 Score=33.75 Aligned_cols=69 Identities=13% Similarity=0.176 Sum_probs=49.9
Q ss_pred CCCchhHh----hhcceEEEe--cCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEE----EE
Q 039912 33 GNGLIGEL----KRGGLWVRT--ASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTV----VV 102 (198)
Q Consensus 33 gyGLa~EL----rRAGv~Vrt--VsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TV----VV 102 (198)
||+...+| .+.|.-|.. +.... |.-....+..+.+.+.++|||.+-...-..+|+.|++.|+.+- ++
T Consensus 136 ~~~~lq~l~~~~~~~g~~v~~~~~~~~~---~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il 212 (371)
T cd06388 136 GYSILQAIMEKAGQNGWQVSAICVENFN---DASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYII 212 (371)
T ss_pred cHHHHHHHHHhhHhcCCeeeeEEeccCC---cHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEE
Confidence 55555554 455755543 33221 3345666667778899999999999999999999999999885 66
Q ss_pred cc
Q 039912 103 GD 104 (198)
Q Consensus 103 Gd 104 (198)
|+
T Consensus 213 ~~ 214 (371)
T cd06388 213 AN 214 (371)
T ss_pred cc
Confidence 76
No 190
>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=67.75 E-value=32 Score=27.22 Aligned_cols=67 Identities=13% Similarity=0.125 Sum_probs=43.7
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..+++..|+.+.+......+. -.++.+..+.+.+++-|++.+-+++- +......+++..|+++..
T Consensus 21 ~i~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~l~~~~~dgiii~~~~~~~--~~~~~~~~~ipvv~~~~~ 87 (269)
T cd06288 21 GAQDAAREHGYLLLVVNTGGDDE--LEAEAVEALLDHRVDGIIYATMYHRE--VTLPPELLSVPTVLLNCY 87 (269)
T ss_pred HHHHHHHHCCCEEEEEeCCCCHH--HHHHHHHHHHHcCCCEEEEecCCCCh--hHHHHHhcCCCEEEEecc
Confidence 56677788898887766554442 22344445668899999998755332 222345688999999754
No 191
>TIGR01489 DKMTPPase-SF 2,3-diketo-5-methylthio-1-phosphopentane phosphatase. Note that SP|P53981 from S. cerevisiae, a member of this family, is annotated as a "probable membrane protein" due to a predicted transmembrane helix. The region in question contains the second of the three conserved HAD superfamily catalytic motifs and thus, considering the fold of the HAD catalytic domain, is unlikely to be a transmembrane region in fact.
Probab=67.64 E-value=17 Score=27.71 Aligned_cols=32 Identities=19% Similarity=0.226 Sum_probs=22.2
Q ss_pred HHHHHHHhc-CCcEEEEccCC-Cccccchhcccc
Q 039912 87 EVLLEANLR-CLKTVVVGDIN-DGALKRISYACF 118 (198)
Q Consensus 87 ~~Lr~Ar~r-~l~TVVVGd~~-~~~L~R~AD~~f 118 (198)
.+++..++. .-++|.|||+. |-..++.||+-|
T Consensus 152 ~~~~~~~~~~~~~~i~iGD~~~D~~aa~~~d~~~ 185 (188)
T TIGR01489 152 KVIHKLSEPKYQHIIYIGDGVTDVCPAKLSDVVF 185 (188)
T ss_pred HHHHHHHhhcCceEEEECCCcchhchHhcCCccc
Confidence 377777776 78899999954 334556677655
No 192
>TIGR01549 HAD-SF-IA-v1 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E. HAD subfamilies caused by an overly broad single model.
Probab=67.52 E-value=40 Score=25.24 Aligned_cols=66 Identities=26% Similarity=0.281 Sum_probs=38.7
Q ss_pred chhHhhhcceEEEecCCCcc-hHHHHHHHHHHHHhhcCccEEEEEeCCcc----hHHHHHHHHhcCC--cEEEEccCC
Q 039912 36 LIGELKRGGLWVRTASDKPQ-ATDVLLRNHLVITHKRRIEYLVVVSDDSD----FVEVLLEANLRCL--KTVVVGDIN 106 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPq-AAD~ALkrhm~~m~~~gv~clvLVSDdsd----F~~~Lr~Ar~r~l--~TVVVGd~~ 106 (198)
+-..|+..|+.+-.+|..+. .++..++.+ + ..-.+. ++.|++.. =..+++.+++.++ ++++|||..
T Consensus 72 ~l~~L~~~g~~~~i~T~~~~~~~~~~~~~~---l-~~~f~~-i~~~~~~~~Kp~~~~~~~~~~~~~~~~~~l~iGDs~ 144 (154)
T TIGR01549 72 LLKRLKEAGIKLGIISNGSLRAQKLLLRKH---L-GDYFDL-ILGSDEFGAKPEPEIFLAALESLGLPPEVLHVGDNL 144 (154)
T ss_pred HHHHHHHCcCeEEEEeCCchHHHHHHHHHH---H-HhcCcE-EEecCCCCCCcCHHHHHHHHHHcCCCCCEEEEeCCH
Confidence 34567778998888888876 444444433 2 223444 33455432 2234444455566 789999973
No 193
>PRK13478 phosphonoacetaldehyde hydrolase; Provisional
Probab=67.32 E-value=74 Score=26.67 Aligned_cols=67 Identities=21% Similarity=0.165 Sum_probs=39.5
Q ss_pred chhHhhhcceEEEecCCCcchH-HHHHHHHHHHHhhcCcc-EEEEEeCCc-----chHHHHHHHHhcCC----cEEEEcc
Q 039912 36 LIGELKRGGLWVRTASDKPQAT-DVLLRNHLVITHKRRIE-YLVVVSDDS-----DFVEVLLEANLRCL----KTVVVGD 104 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAA-D~ALkrhm~~m~~~gv~-clvLVSDds-----dF~~~Lr~Ar~r~l----~TVVVGd 104 (198)
+-..|++.|+.+=.+|.+|... +..|+. .. -.+.- -.|+.||+. +=..++..+++.|+ .+|+|||
T Consensus 109 lL~~L~~~g~~l~I~T~~~~~~~~~~l~~-~~---l~~~~~d~i~~~~~~~~~KP~p~~~~~a~~~l~~~~~~e~l~IGD 184 (267)
T PRK13478 109 VIAALRARGIKIGSTTGYTREMMDVVVPL-AA---AQGYRPDHVVTTDDVPAGRPYPWMALKNAIELGVYDVAACVKVDD 184 (267)
T ss_pred HHHHHHHCCCEEEEEcCCcHHHHHHHHHH-Hh---hcCCCceEEEcCCcCCCCCCChHHHHHHHHHcCCCCCcceEEEcC
Confidence 5578889999998899988743 222222 11 12221 234455552 22345666666776 2799999
Q ss_pred CC
Q 039912 105 IN 106 (198)
Q Consensus 105 ~~ 106 (198)
+.
T Consensus 185 s~ 186 (267)
T PRK13478 185 TV 186 (267)
T ss_pred cH
Confidence 64
No 194
>cd08188 Fe-ADH4 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=66.98 E-value=18 Score=32.58 Aligned_cols=86 Identities=20% Similarity=0.120 Sum_probs=48.9
Q ss_pred HhccCCCCCCC------chhHhhhcce-EEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcchH---HHHHH
Q 039912 25 RAVLTPEVGNG------LIGELKRGGL-WVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDFV---EVLLE 91 (198)
Q Consensus 25 r~lltPkvgyG------La~ELrRAGv-~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF~---~~Lr~ 91 (198)
|...+|++-|| |..+|++-|. .|-.|.| +......+..++. .+...|+++.+. |.-++.+. ..+..
T Consensus 2 ~~~~~~~i~~G~g~l~~l~~~l~~~g~~~~livt~-~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~ 80 (377)
T cd08188 2 RKFVAPEIIFGRGALKLAGRYARRLGAKKVLLVSD-PGVIKAGWVDRVIESLEEAGLEYVVFSDVSPNPRDEEVMAGAEL 80 (377)
T ss_pred CCccCCceEECcCHHHHHHHHHHHcCCCeEEEEeC-cchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHH
Confidence 45667777444 3345566552 4445666 3333333334444 665778887654 33445554 45677
Q ss_pred HHhcCCcEEE-EccCCCcccc
Q 039912 92 ANLRCLKTVV-VGDINDGALK 111 (198)
Q Consensus 92 Ar~r~l~TVV-VGd~~~~~L~ 111 (198)
+|+.+...|| ||+++-...+
T Consensus 81 ~~~~~~d~IIaiGGGsviD~A 101 (377)
T cd08188 81 YLENGCDVIIAVGGGSPIDCA 101 (377)
T ss_pred HHhcCCCEEEEeCCchHHHHH
Confidence 8888887777 8887633333
No 195
>PRK00331 glucosamine--fructose-6-phosphate aminotransferase; Reviewed
Probab=66.07 E-value=8.8 Score=36.52 Aligned_cols=46 Identities=20% Similarity=0.227 Sum_probs=37.2
Q ss_pred cEEEEEeC---CcchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 74 EYLVVVSD---DSDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 74 ~clvLVSD---dsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
+.+|.||= ..+-..+++.|+++|..||.|-+..+..|.+.||..|.
T Consensus 338 dlvI~iS~SG~T~e~i~a~~~ak~~ga~~IaIT~~~~S~La~~aD~~l~ 386 (604)
T PRK00331 338 TLVIAISQSGETADTLAALRLAKELGAKTLAICNVPGSTIARESDAVLY 386 (604)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHCCCCEEEEECCCCChhHHhcCcEEE
Confidence 45666764 34667788999999999999999878999999997665
No 196
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=65.90 E-value=21 Score=32.49 Aligned_cols=71 Identities=11% Similarity=0.084 Sum_probs=44.0
Q ss_pred chhHhhhcce-EEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcchH---HHHHHHHhcCCcEEE-EccCCC
Q 039912 36 LIGELKRGGL-WVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDFV---EVLLEANLRCLKTVV-VGDIND 107 (198)
Q Consensus 36 La~ELrRAGv-~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF~---~~Lr~Ar~r~l~TVV-VGd~~~ 107 (198)
|..+|++-|. .|-.|.|+ ......+-..+. .+...||.+.+. |.-++.+. ...+.+|+.+...|| ||+++-
T Consensus 22 l~~~~~~~g~~~~livt~~-~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiGGGS~ 100 (383)
T PRK09860 22 AMNMMADYGFTRTLIVTDN-MLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVISLGGGSP 100 (383)
T ss_pred HHHHHHhcCCCEEEEEcCc-chhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeCCchH
Confidence 4467777774 44566674 322232333344 665778886443 43355555 666778889999998 999863
No 197
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=65.24 E-value=17 Score=31.27 Aligned_cols=66 Identities=23% Similarity=0.170 Sum_probs=42.3
Q ss_pred chhHhhhcceEEEecCCCcc---hHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCc---EEEEcc
Q 039912 36 LIGELKRGGLWVRTASDKPQ---ATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLK---TVVVGD 104 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPq---AAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~---TVVVGd 104 (198)
+..+|++.|+-|..+..-|. +.|. ...+..+...+ +-|++.+...+...+|+.+++.|+. .++||.
T Consensus 158 ~~~~~~~~G~~v~~~~~~~~~~~~~d~--~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~ 229 (389)
T cd06352 158 LEAALREFNLTVSHVVFMEDNSGAEDL--LEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILI 229 (389)
T ss_pred HHHHHHhcCCeEEEEEEecCCccchhH--HHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEE
Confidence 34566777877754322222 3332 23333343556 7777777778999999999999995 777764
No 198
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=64.92 E-value=39 Score=24.93 Aligned_cols=42 Identities=17% Similarity=0.227 Sum_probs=29.3
Q ss_pred hcCccEEEEE-eCCcchHHHHHHHHhcCCcEEEEccCCCcccc
Q 039912 70 KRRIEYLVVV-SDDSDFVEVLLEANLRCLKTVVVGDINDGALK 111 (198)
Q Consensus 70 ~~gv~clvLV-SDdsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~ 111 (198)
..|+.+-..+ ..++--..+++.|.+.+...||+|-...+.|+
T Consensus 76 ~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~l~ 118 (146)
T cd01989 76 RKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDNHFS 118 (146)
T ss_pred hcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCCcee
Confidence 4566653333 33344678999999999999999987544444
No 199
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=64.35 E-value=11 Score=33.63 Aligned_cols=81 Identities=22% Similarity=0.184 Sum_probs=49.6
Q ss_pred CCCCchhHhhhcceEEEec---CCCcchHHHHHHHHHHHHhhcCccEEEEEeCCc--chHHHHHH-------HH-hcCCc
Q 039912 32 VGNGLIGELKRGGLWVRTA---SDKPQATDVLLRNHLVITHKRRIEYLVVVSDDS--DFVEVLLE-------AN-LRCLK 98 (198)
Q Consensus 32 vgyGLa~ELrRAGv~VrtV---sdKPqAAD~ALkrhm~~m~~~gv~clvLVSDds--dF~~~Lr~-------Ar-~r~l~ 98 (198)
-+..|+..|+..|..|-.+ +=.|-..+..+...+..+.....+|||+.|-+. -|.+.++. .| ..+++
T Consensus 21 ~a~~la~~L~~~G~~~~~~P~i~i~~~~~~~~~~~~~~~l~~~~~d~vvfTS~ngv~~~~~~l~~~~~~~~~~~~l~~~~ 100 (381)
T PRK07239 21 RAEELAALLERRGARVVHAPALRIVPLADDDELRAATRALIAAPPDIVVATTGIGFRGWVEAADGWGLADELLEALSSAR 100 (381)
T ss_pred CHHHHHHHHHHcCCeEEEecCEEEecCCCcHHHHHHHHHHHcCCCCEEEEeChHHHHHHHHHHHHcCChHHHHHHHcCCe
Confidence 3566888999999988642 222222222344444444345799999999776 12222221 11 26788
Q ss_pred EEEEccCCCccccc
Q 039912 99 TVVVGDINDGALKR 112 (198)
Q Consensus 99 TVVVGd~~~~~L~R 112 (198)
.++||..+..+|..
T Consensus 101 i~aVG~~Ta~aL~~ 114 (381)
T PRK07239 101 LLARGPKATGAIRA 114 (381)
T ss_pred EEEECccHHHHHHH
Confidence 99999988766664
No 200
>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=64.25 E-value=21 Score=30.65 Aligned_cols=70 Identities=11% Similarity=0.050 Sum_probs=49.3
Q ss_pred ccCCCCCCCc------hhHhhhcceEEEecCCCc-chHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCc
Q 039912 27 VLTPEVGNGL------IGELKRGGLWVRTASDKP-QATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLK 98 (198)
Q Consensus 27 lltPkvgyGL------a~ELrRAGv~VrtVsdKP-qAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~ 98 (198)
++.+-..||- ...|+..|+-|-....-| .+.|. ..++..+...+.+.|++.+.-.+.+.++|.+|+.|+.
T Consensus 138 ii~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~D~--~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~ 214 (348)
T cd06355 138 LVGSDYVYPRTANKILKAQLESLGGEVVGEEYLPLGHTDF--QSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGIT 214 (348)
T ss_pred EECCcchHHHHHHHHHHHHHHHcCCeEEeeEEecCChhhH--HHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCC
Confidence 4455555552 246788898876544333 35543 3556555577999999988888999999999999996
No 201
>PF03720 UDPG_MGDP_dh_C: UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; InterPro: IPR014027 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the C-terminal substrate-binding domain of these enzymes. Structural studies indicate that this domain forms an incomplete dinucleotide binding fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3GG2_D 1DLI_A 1DLJ_A 2Y0E_D 2Y0D_B 2Y0C_D 1MV8_B 1MUU_A 1MFZ_C 3TDK_B ....
Probab=63.44 E-value=12 Score=27.99 Aligned_cols=51 Identities=27% Similarity=0.352 Sum_probs=33.7
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHH-----------HHHHhhcCccEEEEEeCCcchHH
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNH-----------LVITHKRRIEYLVVVSDDSDFVE 87 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrh-----------m~~m~~~gv~clvLVSDdsdF~~ 87 (198)
..|+.+|++.|+.|... | |.+........ +... -.+.+||||.+++..|..
T Consensus 20 ~~l~~~L~~~g~~V~~~-D-P~v~~~~~~~~~~~~~~~~~~~~~~~-~~~~D~vvl~t~h~~f~~ 81 (106)
T PF03720_consen 20 LELIEELKERGAEVSVY-D-PYVDEEEIKELGKLEGVEVCDDLEEA-LKGADAVVLATDHDEFRE 81 (106)
T ss_dssp HHHHHHHHHTT-EEEEE---TTSHHHHHHHHCHHHCEEEESSHHHH-HTTESEEEESS--GGGGC
T ss_pred HHHHHHHHHCCCEEEEE-C-CccChHHHHhhCCccceEEecCHHHH-hcCCCEEEEEecCHHHhc
Confidence 45788999999998873 3 55555555441 1211 369999999999999987
No 202
>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=63.17 E-value=24 Score=29.75 Aligned_cols=62 Identities=13% Similarity=-0.059 Sum_probs=45.6
Q ss_pred chhHhhhcceEEEecC-CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 36 LIGELKRGGLWVRTAS-DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 36 La~ELrRAGv~VrtVs-dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
+...|+++|+.|-... -.|...| ...++..+.+.+.+.|++..-..+++.+++.+++.|+..
T Consensus 152 ~~~~~~~~G~~v~~~~~~~~~~~d--~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~ 214 (333)
T cd06358 152 AKRYIAELGGEVVGEEYVPLGTTD--FTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRD 214 (333)
T ss_pred HHHHHHHcCCEEeeeeeecCChHH--HHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCc
Confidence 3468899999875322 2233454 345555666788999998889999999999999999974
No 203
>TIGR02726 phenyl_P_delta phenylphosphate carboxylase, delta subunit. Members of this protein family are the alpha subunit of phenylphosphate carboxylase. Phenol (methyl-benzene) is converted to phenylphosphate, then para-carboxylated by this four-subunit enzyme, with the release of phosphate, to 4-hydroxybenzoate. The enzyme contains neither biotin nor thiamin pyrophosphate. This delta subunit belongs to HAD family hydrolases.
Probab=63.03 E-value=37 Score=27.83 Aligned_cols=66 Identities=17% Similarity=0.095 Sum_probs=41.9
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC---cEEEEccCC
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL---KTVVVGDIN 106 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l---~TVVVGd~~ 106 (198)
|+|+ ..|++.|+.+-.+|.+|+.. +.+ .+...|+..++-..- +.-..+...+.+.++ .++.|||..
T Consensus 40 ~~~~-~~L~~~Gi~laIiT~k~~~~---~~~---~l~~lgi~~~f~~~k-pkp~~~~~~~~~l~~~~~ev~~iGD~~ 108 (169)
T TIGR02726 40 GMGV-IVLQLCGIDVAIITSKKSGA---VRH---RAEELKIKRFHEGIK-KKTEPYAQMLEEMNISDAEVCYVGDDL 108 (169)
T ss_pred HHHH-HHHHHCCCEEEEEECCCcHH---HHH---HHHHCCCcEEEecCC-CCHHHHHHHHHHcCcCHHHEEEECCCH
Confidence 4443 57999999999999999853 222 223567776555442 233344444555666 599999963
No 204
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=62.77 E-value=25 Score=28.38 Aligned_cols=65 Identities=14% Similarity=0.165 Sum_probs=38.5
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHH-HHhcCC---cEEEEccCC
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLE-ANLRCL---KTVVVGDIN 106 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~-Ar~r~l---~TVVVGd~~ 106 (198)
|+++ ..|++.|+.+-.+|.+|... +++ .+...|+.-++- +.+ +....++. ..+.|+ .+++|||..
T Consensus 54 ~~~i-~~L~~~Gi~v~I~T~~~~~~---v~~---~l~~lgl~~~f~-g~~-~k~~~l~~~~~~~gl~~~ev~~VGDs~ 122 (183)
T PRK09484 54 GYGI-RCLLTSGIEVAIITGRKSKL---VED---RMTTLGITHLYQ-GQS-NKLIAFSDLLEKLAIAPEQVAYIGDDL 122 (183)
T ss_pred hHHH-HHHHHCCCEEEEEeCCCcHH---HHH---HHHHcCCceeec-CCC-cHHHHHHHHHHHhCCCHHHEEEECCCH
Confidence 4444 46788999998889988743 122 122346654332 223 33444444 455677 599999963
No 205
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR 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 binding affinity of the repressor.
Probab=62.57 E-value=24 Score=28.29 Aligned_cols=62 Identities=13% Similarity=0.074 Sum_probs=42.7
Q ss_pred CCchhHhhh-cceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKR-GGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrR-AGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..++++ .|+.+-.-+.. . .+++..+.+++++-|++.+.+ .++++...+.++..|.++..
T Consensus 18 ~gi~~~~~~~~g~~~~~~~~~-----~--~~~~~~l~~~~vdGiI~~~~~---~~~~~~l~~~~~PvV~~~~~ 80 (265)
T cd01543 18 RGIARYAREHGPWSIYLEPRG-----L--QEPLRWLKDWQGDGIIARIDD---PEMAEALQKLGIPVVDVSGS 80 (265)
T ss_pred HHHHHHHHhcCCeEEEEeccc-----c--hhhhhhccccccceEEEECCC---HHHHHHHhhCCCCEEEEeCc
Confidence 367788888 77777653321 1 555556678899999887643 24566777789999999753
No 206
>TIGR01509 HAD-SF-IA-v3 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED. HAD subfamilies caused by an overly broad single model.
Probab=61.41 E-value=24 Score=26.63 Aligned_cols=63 Identities=19% Similarity=0.258 Sum_probs=35.7
Q ss_pred hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccE---EEEEeCCcchH----HH-HHHHHhcCC---cEEEEccC
Q 039912 37 IGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEY---LVVVSDDSDFV----EV-LLEANLRCL---KTVVVGDI 105 (198)
Q Consensus 37 a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~c---lvLVSDdsdF~----~~-Lr~Ar~r~l---~TVVVGd~ 105 (198)
-..|++.|+.+-.+|..|... ..+..+ .|+.- .++.|++.... ++ .+.+++.|+ ++|+|||.
T Consensus 94 l~~l~~~g~~~~i~Tn~~~~~-~~~~~~------~~l~~~f~~i~~~~~~~~~KP~~~~~~~~~~~~~~~~~~~~~vgD~ 166 (183)
T TIGR01509 94 LEALRARGKKLALLTNSPRDH-AVLVQE------LGLRDLFDVVIFSGDVGRGKPDPDIYLLALKKLGLKPEECLFVDDS 166 (183)
T ss_pred HHHHHHCCCeEEEEeCCchHH-HHHHHh------cCCHHHCCEEEEcCCCCCCCCCHHHHHHHHHHcCCCcceEEEEcCC
Confidence 356788899888888888765 333322 34421 33445543221 23 333344444 58999996
Q ss_pred C
Q 039912 106 N 106 (198)
Q Consensus 106 ~ 106 (198)
.
T Consensus 167 ~ 167 (183)
T TIGR01509 167 P 167 (183)
T ss_pred H
Confidence 4
No 207
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=61.28 E-value=51 Score=23.39 Aligned_cols=37 Identities=11% Similarity=0.089 Sum_probs=27.7
Q ss_pred hcCccEEEE--EeCCcchHHHHHHHHhcCCcEEEEccCCC
Q 039912 70 KRRIEYLVV--VSDDSDFVEVLLEANLRCLKTVVVGDIND 107 (198)
Q Consensus 70 ~~gv~clvL--VSDdsdF~~~Lr~Ar~r~l~TVVVGd~~~ 107 (198)
..|+.+-.+ ++. +-...+++.|.+.+...||+|-...
T Consensus 67 ~~g~~~~~~~~~~~-~~~~~I~~~a~~~~~dlIV~G~~~~ 105 (132)
T cd01988 67 SLGVPVHTIIRIDH-DIASGILRTAKERQADLIIMGWHGS 105 (132)
T ss_pred hcCCceEEEEEecC-CHHHHHHHHHHhcCCCEEEEecCCC
Confidence 456665444 443 4667899999999999999999753
No 208
>COG2237 Predicted membrane protein [Function unknown]
Probab=61.26 E-value=21 Score=33.90 Aligned_cols=72 Identities=26% Similarity=0.269 Sum_probs=54.1
Q ss_pred CCCchhHhhhcceEE--EecCCCcc---hHHHHHHHHHH-HHhhcCccEEEEEeCCc---chHHHHHHHHh-cCCcEEEE
Q 039912 33 GNGLIGELKRGGLWV--RTASDKPQ---ATDVLLRNHLV-ITHKRRIEYLVVVSDDS---DFVEVLLEANL-RCLKTVVV 102 (198)
Q Consensus 33 gyGLa~ELrRAGv~V--rtVsdKPq---AAD~ALkrhm~-~m~~~gv~clvLVSDds---dF~~~Lr~Ar~-r~l~TVVV 102 (198)
+--+-+|||+-|--| -+|+.-|. .||..+.+|+. .+...+.+-.++|||-. --.++++-=.. ..++.|||
T Consensus 53 alkiydeLk~~geDveIA~vsG~~~vgv~sd~~l~~qld~vl~~~~pd~av~VsDGaeDe~ivPiI~Sr~~I~svkrVVV 132 (364)
T COG2237 53 ALKIYDELKAKGEDVEIAVVSGDKDVGVESDLKLSEQLDEVLSELDPDDAVVVSDGAEDERIVPIIQSRVKIDSVKRVVV 132 (364)
T ss_pred HHHHHHHHhccCCceEEEEEecCCCcchhhHHHHHHHHHHHHHcCCCcEEEEeccCcccchhhhhhhcccceeEEEEEEE
Confidence 445778999999444 35555554 99999999999 77788999999999954 45666654333 77888888
Q ss_pred cc
Q 039912 103 GD 104 (198)
Q Consensus 103 Gd 104 (198)
==
T Consensus 133 rQ 134 (364)
T COG2237 133 RQ 134 (364)
T ss_pred ec
Confidence 54
No 209
>cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=61.13 E-value=16 Score=24.23 Aligned_cols=15 Identities=20% Similarity=0.357 Sum_probs=8.7
Q ss_pred CchhHhhhcceEEEe
Q 039912 35 GLIGELKRGGLWVRT 49 (198)
Q Consensus 35 GLa~ELrRAGv~Vrt 49 (198)
.++.+||.+|+.|.+
T Consensus 19 ~i~~~Lr~~g~~v~~ 33 (91)
T cd00859 19 ELAEQLRDAGIKAEI 33 (91)
T ss_pred HHHHHHHHCCCEEEE
Confidence 445566666665554
No 210
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=60.97 E-value=19 Score=25.84 Aligned_cols=60 Identities=15% Similarity=0.100 Sum_probs=36.7
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC--cc----hHHHHHHHHhcCC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD--SD----FVEVLLEANLRCL 97 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd--sd----F~~~Lr~Ar~r~l 97 (198)
|-|..|+..|+.|+|+..|+......+.. .+-+..|+.+|-.++. .. =..+-|.|-+.++
T Consensus 21 gTa~~L~~~Gi~~~~~~~ki~~~~~~i~~---~i~~g~id~VIn~~~~~~~~~~~d~~~iRr~A~~~~I 86 (90)
T smart00851 21 GTAKFLREAGLPVKTLHPKVHGGILAILD---LIKNGEIDLVINTLYPLGAQPHEDGKALRRAAENIDI 86 (90)
T ss_pred HHHHHHHHCCCcceeccCCCCCCCHHHHH---HhcCCCeEEEEECCCcCcceeccCcHHHHHHHHHcCC
Confidence 44889999999999877777643211222 3436788888877652 21 2245555555554
No 211
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=60.91 E-value=44 Score=30.67 Aligned_cols=69 Identities=13% Similarity=0.100 Sum_probs=46.2
Q ss_pred chhHhhhcceEEEe---cCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHH-HHHHHhcCCcEEEEcc
Q 039912 36 LIGELKRGGLWVRT---ASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEV-LLEANLRCLKTVVVGD 104 (198)
Q Consensus 36 La~ELrRAGv~Vrt---VsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~-Lr~Ar~r~l~TVVVGd 104 (198)
|..+|++.|+-|-. ++..++..+.-....+..+...+.+-|||.+...+...+ .+.+|+.+.+.+.||.
T Consensus 192 ~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~~~~arvIvl~~~~~~~~~l~~~~~~~~~~~~~wi~s 264 (469)
T cd06365 192 LREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIMTSSAKVIIIYGDTDSLLEVSFRLWQYLLIGKVWITT 264 (469)
T ss_pred HHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhhcCCCeEEEEEcCcHHHHHHHHHHHHhccCceEEEee
Confidence 35677888988753 444444333345555555556789999999988777555 5666667778777876
No 212
>TIGR01135 glmS glucosamine--fructose-6-phosphate aminotransferase (isomerizing). The member from Methanococcus jannaschii contains an intein.
Probab=60.69 E-value=13 Score=35.42 Aligned_cols=46 Identities=20% Similarity=0.179 Sum_probs=37.2
Q ss_pred cEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 74 EYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 74 ~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
+++|.+|-. .+-..+++.||++|+.||.|-+..+..|.+.||..+.
T Consensus 340 dlvI~iS~SG~T~e~v~a~~~ak~~ga~~IaIT~~~~S~La~~ad~~l~ 388 (607)
T TIGR01135 340 TLVIAISQSGETADTLAALRLAKELGAKTLGICNVPGSTLVRESDHTLY 388 (607)
T ss_pred CEEEEEeCCCCCHHHHHHHHHHHHcCCcEEEEECCCCChHHhhcCceEE
Confidence 456666643 4667788999999999999998777899999998665
No 213
>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=60.66 E-value=21 Score=29.58 Aligned_cols=61 Identities=20% Similarity=0.148 Sum_probs=42.8
Q ss_pred chhHhhhcceEEE-ecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCc
Q 039912 36 LIGELKRGGLWVR-TASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLK 98 (198)
Q Consensus 36 La~ELrRAGv~Vr-tVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~ 98 (198)
+...|+++|+-|- .+.=.|...| +..++..|.+.+.+.|++.+...+-..+++.+++.+..
T Consensus 155 ~~~~~~~~G~~vv~~~~~~~~~~d--~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~ 216 (343)
T PF13458_consen 155 FRKALEAAGGKVVGEIRYPPGDTD--FSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLK 216 (343)
T ss_dssp HHHHHHHTTCEEEEEEEE-TTSSH--HHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGC
T ss_pred HHHHHhhcCceeccceeccccccc--chHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccc
Confidence 5677889998862 2111123332 22334445467999999999999999999999999888
No 214
>cd02750 MopB_Nitrate-R-NarG-like Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to nitrite and forms part of a redox loop generating a proton-motive force. Found in prokaryotes and some archaea, NarGHI usually functions as a heterotrimer. The alpha chain contains the molybdenum cofactor-containing Mo-bisMGD catalytic subunit. Members of the MopB_Nitrate-R-NarG-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=60.22 E-value=15 Score=33.68 Aligned_cols=48 Identities=17% Similarity=0.131 Sum_probs=37.1
Q ss_pred cCccEEEEEeCCcc-----hHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 71 RRIEYLVVVSDDSD-----FVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 71 ~gv~clvLVSDdsd-----F~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
..-+||+++.-|.. +...|+.||++|.+.|||.=. .....+.||.|++
T Consensus 169 ~~ad~il~~G~N~~~~~~~~~~~l~~ar~~GaklividPr-~s~ta~~Ad~~l~ 221 (461)
T cd02750 169 YNADYIIMWGSNVPVTRTPDAHFLTEARYNGAKVVVVSPD-YSPSAKHADLWVP 221 (461)
T ss_pred hcCcEEEEECCChHHccCchHHHHHHHHHCCCEEEEEcCC-CCcchhhcCEEec
Confidence 35789999987743 334567799999999999554 3678899999986
No 215
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=60.10 E-value=18 Score=34.19 Aligned_cols=70 Identities=13% Similarity=0.057 Sum_probs=52.5
Q ss_pred HHHHHHHHhhcCccEEEEEeCCc-chHHHHHHHHhcCCcEEEEccCCCccccchhcccccHHHHhhchhhhhhh
Q 039912 61 LRNHLVITHKRRIEYLVVVSDDS-DFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWWDILMGKARKEAV 133 (198)
Q Consensus 61 Lkrhm~~m~~~gv~clvLVSDds-dF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~eV~~Gka~k~A~ 133 (198)
-..+++.|+++|++-||+.+=|+ .++++++.|...|++.|-. |+. -..-..|.++|.+--.=|+.+..+.
T Consensus 70 Q~~qien~i~qg~~vlvi~a~d~~~l~~~i~~A~~~gikViaY-DRl--I~n~dvd~YvsFDN~~VG~lQa~~l 140 (341)
T COG4213 70 QLAQIENMINQGVKVLVIGAIDGGVLSNAVEKAKSEGIKVIAY-DRL--INNADVDFYVSFDNEKVGELQAKAL 140 (341)
T ss_pred HHHHHHHHHhcCCCEEEEEeccchhHHHHHHHHHHcCCeEEEe-ecc--cccCCccEEEEecchhHHHHHHHHH
Confidence 34577799999999999998555 7999999999999986543 331 1223455588998888888776665
No 216
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=59.82 E-value=20 Score=24.60 Aligned_cols=41 Identities=20% Similarity=0.304 Sum_probs=23.2
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeC
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSD 81 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSD 81 (198)
++.+||++|+.|..-. .+ ..+.+++......|+..+++|.+
T Consensus 23 ~~~~Lr~~g~~v~~~~-~~----~~~~k~~~~a~~~g~~~~iiig~ 63 (94)
T cd00738 23 LLNALLANGIRVLYDD-RE----RKIGKKFREADLRGVPFAVVVGE 63 (94)
T ss_pred HHHHHHHCCCEEEecC-CC----cCHhHHHHHHHhCCCCEEEEECC
Confidence 3566777777666522 11 24555555444566766666665
No 217
>TIGR01548 HAD-SF-IA-hyp1 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548. All but the Halobacterium sequence currently found are annotated as "Imidazoleglycerol-phosphate dehydratase", however, the source of the annotation could not be traced and significant homology could not be found between any of these sequences and known IGPD's.
Probab=59.80 E-value=43 Score=26.55 Aligned_cols=65 Identities=22% Similarity=0.352 Sum_probs=39.7
Q ss_pred CchhHhhhcceEEEecCCCcch-HHHHHHHHHHHHhhcCccE---EEEEeCCc----chHHHHHHHHhcCC---cEEEEc
Q 039912 35 GLIGELKRGGLWVRTASDKPQA-TDVLLRNHLVITHKRRIEY---LVVVSDDS----DFVEVLLEANLRCL---KTVVVG 103 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqA-AD~ALkrhm~~m~~~gv~c---lvLVSDds----dF~~~Lr~Ar~r~l---~TVVVG 103 (198)
.+-..|++.|+.+-.+|.+|.. +...|++ .|+.- .++.||+. +=..++..+++-|+ .+++||
T Consensus 113 ~~L~~l~~~g~~~~i~T~~~~~~~~~~l~~-------~gl~~~f~~~~~~~~~~~KP~p~~~~~~~~~~~~~~~~~i~vG 185 (197)
T TIGR01548 113 GLLRELHRAPKGMAVVTGRPRKDAAKFLTT-------HGLEILFPVQIWMEDCPPKPNPEPLILAAKALGVEACHAAMVG 185 (197)
T ss_pred HHHHHHHHcCCcEEEECCCCHHHHHHHHHH-------cCchhhCCEEEeecCCCCCcCHHHHHHHHHHhCcCcccEEEEe
Confidence 4455689999999999999874 4444433 23322 44555552 22234444555555 489999
Q ss_pred cCC
Q 039912 104 DIN 106 (198)
Q Consensus 104 d~~ 106 (198)
|..
T Consensus 186 D~~ 188 (197)
T TIGR01548 186 DTV 188 (197)
T ss_pred CCH
Confidence 963
No 218
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=59.78 E-value=21 Score=31.38 Aligned_cols=78 Identities=22% Similarity=0.207 Sum_probs=54.7
Q ss_pred ccCCCC--CCCchhH----hhhcceE-EEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 27 VLTPEV--GNGLIGE----LKRGGLW-VRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 27 lltPkv--gyGLa~E----LrRAGv~-VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
++.... |.||+.+ |+..|.- |....-.|...| +...+..+...+.+-|++.+...+.+.++|.++++|++.
T Consensus 153 ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~~~~~~~--~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~ 230 (366)
T COG0683 153 IIGDDYAYGEGLADAFKAALKALGGEVVVEEVYAPGDTD--FSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKA 230 (366)
T ss_pred EEeCCCCcchhHHHHHHHHHHhCCCeEEEEEeeCCCCCC--hHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCC
Confidence 344444 5556654 5667884 332333444444 666666666889999999999999999999999999999
Q ss_pred EEEccCC
Q 039912 100 VVVGDIN 106 (198)
Q Consensus 100 VVVGd~~ 106 (198)
.+++...
T Consensus 231 ~~~~~~~ 237 (366)
T COG0683 231 KLIGGDG 237 (366)
T ss_pred ccccccc
Confidence 7776543
No 219
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=59.57 E-value=33 Score=30.81 Aligned_cols=77 Identities=22% Similarity=0.167 Sum_probs=46.9
Q ss_pred chhHhhhcce-EEEecCCCcchHHH-HHHHHHHHHhhcCccEEEE--EeCCcch---HHHHHHHHhcCCcEEE-EccCCC
Q 039912 36 LIGELKRGGL-WVRTASDKPQATDV-LLRNHLVITHKRRIEYLVV--VSDDSDF---VEVLLEANLRCLKTVV-VGDIND 107 (198)
Q Consensus 36 La~ELrRAGv-~VrtVsdKPqAAD~-ALkrhm~~m~~~gv~clvL--VSDdsdF---~~~Lr~Ar~r~l~TVV-VGd~~~ 107 (198)
|..+|++-|. .|-.|.|+- .... ++.+-...+...|+++.+. |--++.+ ..+++.+|+.+...|| ||.++-
T Consensus 17 l~~~l~~~g~~~~lvvt~~~-~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGS~ 95 (374)
T cd08189 17 LPAAISQLGVKKVLIVTDKG-LVKLGLLDKVLEALEGAGIEYAVYDGVPPDPTIENVEAGLALYRENGCDAILAVGGGSV 95 (374)
T ss_pred HHHHHHhcCCCeEEEEeCcc-hhhcccHHHHHHHHHhcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccH
Confidence 5667777774 555666743 3322 2333233665778876544 2224554 4677788889999888 999875
Q ss_pred ccccch
Q 039912 108 GALKRI 113 (198)
Q Consensus 108 ~~L~R~ 113 (198)
...++.
T Consensus 96 ~D~aK~ 101 (374)
T cd08189 96 IDCAKA 101 (374)
T ss_pred HHHHHH
Confidence 555544
No 220
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=59.08 E-value=5.4 Score=32.05 Aligned_cols=78 Identities=21% Similarity=0.188 Sum_probs=55.9
Q ss_pred chhHhhhcceEEE---ecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc--hHHHHH-----HHHhcCCcEEEEccC
Q 039912 36 LIGELKRGGLWVR---TASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD--FVEVLL-----EANLRCLKTVVVGDI 105 (198)
Q Consensus 36 La~ELrRAGv~Vr---tVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd--F~~~Lr-----~Ar~r~l~TVVVGd~ 105 (198)
|+..|++.|+.+- ++.=.|...+..|...+..+.....++||+.|-..- |...|+ .....+.+-++||..
T Consensus 3 l~~~l~~~G~~~~~~P~i~~~~~~~~~~l~~~l~~l~~~~~d~viftS~~av~~~~~~l~~~~~~~~~~~~~~i~avG~~ 82 (231)
T PF02602_consen 3 LAALLRALGAEVIELPLIEIEPLPDLASLEAALEQLPPGNYDWVIFTSPNAVRAFFKALQSAGADLRLLKNIKIFAVGPK 82 (231)
T ss_dssp HHHHHHHTTEEEEEEESEEEEECCHHHHHHHHHHHHTGCCSSEEEESSHHHHHHHHHHHHHTTHHHHHHHHSEEEESSHH
T ss_pred HHHHHHHCCCcEEEECCEEEEeCCCHHHHHHHHHhcccCCCCEEEEECHHHHHHHHHHHhhhhhhhhhccCCeEEEEcHH
Confidence 6789999999885 334455566667777777775679999999998753 445454 223368889999998
Q ss_pred CCccccch
Q 039912 106 NDGALKRI 113 (198)
Q Consensus 106 ~~~~L~R~ 113 (198)
+...|...
T Consensus 83 Ta~~l~~~ 90 (231)
T PF02602_consen 83 TAEALREY 90 (231)
T ss_dssp HHHHHHHT
T ss_pred HHHHHHHc
Confidence 76666664
No 221
>TIGR01647 ATPase-IIIA_H plasma-membrane proton-efflux P-type ATPase. This model describes the plasma membrane proton efflux P-type ATPase found in plants, fungi, protozoa, slime molds and archaea. The best studied representative is from yeast.
Probab=59.04 E-value=25 Score=35.04 Aligned_cols=44 Identities=18% Similarity=0.095 Sum_probs=29.3
Q ss_pred HHHHHHhcCCcEEEEccC-CCccccchhcccccHHHHhhchhhhhhhhhh
Q 039912 88 VLLEANLRCLKTVVVGDI-NDGALKRISYACFSWWDILMGKARKEAVSVV 136 (198)
Q Consensus 88 ~Lr~Ar~r~l~TVVVGd~-~~~~L~R~AD~~fsW~eV~~Gka~k~A~~~~ 136 (198)
+++.-+++|-...++||+ ||-.-=+.||++++ +|.+...|.+++
T Consensus 526 iV~~lq~~G~~VamvGDGvNDapAL~~AdVGIA-----m~~gtdvAkeaA 570 (755)
T TIGR01647 526 IVEILQKRGHLVGMTGDGVNDAPALKKADVGIA-----VAGATDAARSAA 570 (755)
T ss_pred HHHHHHhcCCEEEEEcCCcccHHHHHhCCeeEE-----ecCCcHHHHHhC
Confidence 455567788888899994 54334467999987 455555554443
No 222
>PTZ00175 diphthine synthase; Provisional
Probab=58.90 E-value=20 Score=31.76 Aligned_cols=68 Identities=15% Similarity=0.101 Sum_probs=47.1
Q ss_pred CchhHhhhcceEEEecCCCc--chHHHHHHHHHHHHhhcCcc-EEEEEeCC---cchHHHHHHHHhcCCcEEEEccCC
Q 039912 35 GLIGELKRGGLWVRTASDKP--QATDVLLRNHLVITHKRRIE-YLVVVSDD---SDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKP--qAAD~ALkrhm~~m~~~gv~-clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
-|..+++++|+.|+.++.-. +|+ +. . -.++-++|.. .+..++++ .-|-+.+...+++|+||.|.=|..
T Consensus 95 ~l~~~~~~~gi~vevIPGvSi~sA~--~~-~-Gl~~~~fg~~~sv~~~t~~~~~~s~~~~i~~n~~~glhTl~lldi~ 168 (270)
T PTZ00175 95 DLYLRAKKKGIEVEVIHNASIMNAI--GC-T-GLQLYRFGETVSIPFFTETWKPDSFYDKIKANRDNGLHTLCLLDIK 168 (270)
T ss_pred HHHHHHHHCCCcEEEECCcCHHHHH--hh-c-CCCcCCCCceEEEEEEeCCCCCCChhHHHHHHHHcCCceEEEEeee
Confidence 35668889999999998433 233 22 1 1122245544 48888875 457788999999999999996653
No 223
>cd02755 MopB_Thiosulfate-R-like The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme that catalyzes the reduction of polysulfide using either hydrogen or formate as the electron donor. Members of the MopB_Thiosulfate-R-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=58.09 E-value=16 Score=33.30 Aligned_cols=79 Identities=14% Similarity=0.115 Sum_probs=51.2
Q ss_pred CccEEEEEeCCc------chHHHHHHHHhcCCcEEEEccCCCccccchhcccccHH-----HHhhchhhhhhhhhhcccc
Q 039912 72 RIEYLVVVSDDS------DFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWW-----DILMGKARKEAVSVVGKWK 140 (198)
Q Consensus 72 gv~clvLVSDds------dF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~-----eV~~Gka~k~A~~~~g~W~ 140 (198)
.-++||++.-|. -+..-++.||++|.+.|||.-.- ....+.||.|++=. .+..|-++.. ....|-
T Consensus 156 ~ad~il~~G~n~~~~~~~~~~~~~~~a~~~g~kiivIdPr~-t~ta~~AD~~i~i~PGtD~al~~a~~~~i---i~~~~~ 231 (454)
T cd02755 156 NARYIILFGRNLAEAIIVVDARRLMKALENGAKVVVVDPRF-SELASKADEWIPIKPGTDLAFVLALIHVL---ISENLY 231 (454)
T ss_pred cCCEEEEECcCcccccccHHHHHHHHHHHCCCeEEEECCCC-ChhhHhhCEecCCCCCcHHHHHHHHHHHH---HHcCCc
Confidence 458899986552 13566778999999999998864 67888999998632 2333333322 123466
Q ss_pred ccccchhcccccChhh
Q 039912 141 DGDVLKRLEWTYDPEV 156 (198)
Q Consensus 141 d~dvlk~lew~y~pe~ 156 (198)
|.+++++ |+..++.
T Consensus 232 d~~fi~~--~t~g~~~ 245 (454)
T cd02755 232 DAAFVEK--YTNGFEL 245 (454)
T ss_pred cHHHHHH--HccCHHH
Confidence 7777763 5555544
No 224
>TIGR02638 lactal_redase lactaldehyde reductase. This clade of genes encoding iron-containing alcohol dehydrogenase (pfam00465) proteins is generally found in apparent operons for the catabolism of rhamnose or fucose. Catabolism of both of these monosaccharides results in lactaldehyde which is reduced by this enzyme to 1,2 propanediol. This protein is alternatively known by the name 1,2 propanediol oxidoreductase. This enzyme is active under anaerobic conditions in E. coli while being inactivated by reactive oxygen species under aerobic conditions. Under aerobic conditions the lactaldehyde product of rhamnose and fucose catabolism is believed to be oxidized to lactate by a separate enzyme, lactaldehyde dehydrogenase.
Probab=57.63 E-value=34 Score=30.86 Aligned_cols=75 Identities=13% Similarity=0.184 Sum_probs=46.1
Q ss_pred chhHhhhcce-EEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcchHH---HHHHHHhcCCcEEE-EccCCC
Q 039912 36 LIGELKRGGL-WVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDFVE---VLLEANLRCLKTVV-VGDIND 107 (198)
Q Consensus 36 La~ELrRAGv-~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF~~---~Lr~Ar~r~l~TVV-VGd~~~ 107 (198)
|..+|++-|. .|-.|.|+- .....+..++. .+...|+++.+. |..++.... +.+.+|+.+...|| ||.++-
T Consensus 20 l~~~l~~~g~~r~lvvt~~~-~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiGGGSv 98 (379)
T TIGR02638 20 IVDEVKRRGFKKALVVTDKD-LIKFGVADKVTDLLDEAGIAYELFDEVKPNPTITVVKAGVAAFKASGADYLIAIGGGSP 98 (379)
T ss_pred HHHHHHhcCCCEEEEEcCcc-hhhccchHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCChHH
Confidence 4556677774 555667753 33332444444 665678988665 444555555 66667888888887 888764
Q ss_pred cccc
Q 039912 108 GALK 111 (198)
Q Consensus 108 ~~L~ 111 (198)
...+
T Consensus 99 iD~a 102 (379)
T TIGR02638 99 IDTA 102 (379)
T ss_pred HHHH
Confidence 3333
No 225
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=57.58 E-value=18 Score=28.60 Aligned_cols=36 Identities=33% Similarity=0.503 Sum_probs=31.7
Q ss_pred cCccEEEEEe--CCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 71 RRIEYLVVVS--DDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 71 ~gv~clvLVS--DdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
|++-+-|||- |+++...++.+|.++|+.-.+++|..
T Consensus 53 RRvP~~vLVr~~~~pd~~Hl~~LA~ekgVpVe~~~d~~ 90 (100)
T PF15608_consen 53 RRVPWKVLVRDPDDPDLAHLLLLAEEKGVPVEVYPDLP 90 (100)
T ss_pred hcCCCEEEECCCCCccHHHHHHHHHHcCCcEEEeCCCC
Confidence 6778888885 67899999999999999999999864
No 226
>TIGR01459 HAD-SF-IIA-hyp4 HAD-superfamily class IIA hydrolase, TIGR01459. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram negative and primarily alpha proteobacteria. Only one sequence hase been annotated as other than "hypothetical." That one, from Brucella, is annotated as related to NagD, but only by sequence similarity and should be treated with some skepticism. (See comments for Class IIA subfamily)
Probab=57.48 E-value=26 Score=29.07 Aligned_cols=66 Identities=17% Similarity=0.192 Sum_probs=39.0
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccE----EEEEeCCcchHHHHHHH-HhcCC---cEEEEccCC
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEY----LVVVSDDSDFVEVLLEA-NLRCL---KTVVVGDIN 106 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~c----lvLVSDdsdF~~~Lr~A-r~r~l---~TVVVGd~~ 106 (198)
+-.+|+++|+.+-.+|.+|+-.- .+.+. +.+.|+.. .|+-|+ .-....|+.+ ++.++ +.++|||..
T Consensus 32 ~L~~L~~~G~~~~ivTN~~~~~~-~~~~~---L~~~gl~~~~~~~Ii~s~-~~~~~~l~~~~~~~~~~~~~~~~vGd~~ 105 (242)
T TIGR01459 32 NLNKIIAQGKPVYFVSNSPRNIF-SLHKT---LKSLGINADLPEMIISSG-EIAVQMILESKKRFDIRNGIIYLLGHLE 105 (242)
T ss_pred HHHHHHHCCCEEEEEeCCCCChH-HHHHH---HHHCCCCccccceEEccH-HHHHHHHHhhhhhccCCCceEEEeCCcc
Confidence 35678999999999888887431 12232 33456654 344444 3333445444 44344 489999964
No 227
>PF10758 DUF2586: Protein of unknown function (DUF2586); InterPro: IPR019694 This entry is represented by Bacteriophage HP1, Orf23. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family of proteins has currently has no known function but is thought to be a tail sheath protein.
Probab=57.43 E-value=21 Score=33.81 Aligned_cols=50 Identities=16% Similarity=0.236 Sum_probs=42.4
Q ss_pred hHHHHHHHHHH-HHhhcCccE---EEEEeCCcchHHHHHHHHh-cCCcEEEEccC
Q 039912 56 ATDVLLRNHLV-ITHKRRIEY---LVVVSDDSDFVEVLLEANL-RCLKTVVVGDI 105 (198)
Q Consensus 56 AAD~ALkrhm~-~m~~~gv~c---lvLVSDdsdF~~~Lr~Ar~-r~l~TVVVGd~ 105 (198)
++|++||+++. .+.+.|-.| ++.+..+.++.+.++.|.+ .-+..|||-+.
T Consensus 52 ~~ds~lk~~v~aa~~n~gqnw~a~~~~~~~~~~~~~Av~~a~~~~s~E~Vvi~~~ 106 (363)
T PF10758_consen 52 AADSALKTNVKAAQLNAGQNWTAYVAPLASNADWQDAVDKANEVISFEFVVIVGP 106 (363)
T ss_pred CcchHHHHHHHHHHHcCCCCeEEEEEecCCCchHHHHHHHhhccCCeEEEEEeCC
Confidence 79999999999 777888887 6667788889999999977 67888888764
No 228
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=56.89 E-value=33 Score=28.28 Aligned_cols=62 Identities=13% Similarity=0.070 Sum_probs=43.0
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.|+..+|++.|+.+-+.....+ .+ .+...+++-+|+++.+.+ .+.++...+.++..|+||..
T Consensus 27 ~~i~~~~~~~gy~~~~~~~~~~-~~--------~l~~~~vdgiIi~~~~~~-~~~~~~l~~~~iPvV~i~~~ 88 (269)
T cd06287 27 AAAAESALERGLALCLVPPHEA-DS--------PLDALDIDGAILVEPMAD-DPQVARLRQRGIPVVSIGRP 88 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCCc-hh--------hhhccCcCeEEEecCCCC-CHHHHHHHHcCCCEEEeCCC
Confidence 5778899999999876543311 11 223678999999875433 25666777889999999764
No 229
>cd08192 Fe-ADH7 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. NAD-dependent iron-containing alcohol dehydrogenase-like. Proteins in this family are NAD-dependent alcohol dehydrogenases which are involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. They catalyze the oxidation of beta-hydroxy CoA ester to beta-oxo CoA ester, which then be subject to CoA-dependent thiolysis to yield acetyl-CoA and 6-C8-SPC-CoA. The major laundry surfactant in worldwide use is commercial linear alkylbenzenesulfonate (LAS) which contains 20 congeners of linear alkanes (C10 to C13). LAS is fully biodegradable in oxic environments. Degradation involves microbial communities. Parvibaculum lavamentivorans DS-1T is a representative member of many heterotrophic, LAS-degrading communities, in which it catalyzes the first steps of LAS degradation. Strain DS-1T is a small heterotrophic bacterium able to omega-oxygenate the comm
Probab=56.81 E-value=40 Score=30.08 Aligned_cols=77 Identities=13% Similarity=0.065 Sum_probs=44.1
Q ss_pred chhHhhhcce-EEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcchH---HHHHHHHhcCCcEEE-EccCCC
Q 039912 36 LIGELKRGGL-WVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDFV---EVLLEANLRCLKTVV-VGDIND 107 (198)
Q Consensus 36 La~ELrRAGv-~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF~---~~Lr~Ar~r~l~TVV-VGd~~~ 107 (198)
|..+|++-|. .+-.|.|+-- ...-+-.++. ++...|++..++ |..++.+. .+++.+|+.+...|| ||.++-
T Consensus 15 l~~~l~~~g~~~~liv~~~~~-~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGSv 93 (370)
T cd08192 15 LPAECAELGIKRPLIVTDPGL-AALGLVARVLALLEDAGLAAALFDEVPPNPTEAAVEAGLAAYRAGGCDGVIAFGGGSA 93 (370)
T ss_pred HHHHHHHcCCCeEEEEcCcch-hhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCchH
Confidence 3445566553 3445566332 2221222344 565678887655 54556555 556667888888888 999875
Q ss_pred ccccch
Q 039912 108 GALKRI 113 (198)
Q Consensus 108 ~~L~R~ 113 (198)
...++.
T Consensus 94 iD~aK~ 99 (370)
T cd08192 94 LDLAKA 99 (370)
T ss_pred HHHHHH
Confidence 444444
No 230
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=56.23 E-value=39 Score=24.88 Aligned_cols=32 Identities=16% Similarity=0.242 Sum_probs=24.4
Q ss_pred CcchHHHHHHHHhcCCcEEEEccCCCccccchhc
Q 039912 82 DSDFVEVLLEANLRCLKTVVVGDINDGALKRISY 115 (198)
Q Consensus 82 dsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD 115 (198)
.+.|..+|..++.....+|||-+.+ -|+|...
T Consensus 51 R~~~~~ll~~~~~~~~d~ivv~~~~--Rl~R~~~ 82 (137)
T cd00338 51 RPGLQRLLADVKAGKIDVVLVEKLD--RLSRNLV 82 (137)
T ss_pred CHHHHHHHHHHHcCCCCEEEEEecc--hhhCCHH
Confidence 4478888888888888888888876 3776553
No 231
>PF02769 AIRS_C: AIR synthase related protein, C-terminal domain; InterPro: IPR010918 This entry includes Hydrogen expression/formation protein, HypE, which may be involved in the maturation of NifE hydrogenase; AIR synthase and FGAM synthase, which are involved in de novo purine biosynthesis; and selenide, water dikinase, an enzyme which synthesizes selenophosphate from selenide and ATP.; PDB: 2Z1F_A 2Z1E_A 2YXZ_D 2V9Y_A 2HS0_A 2HRU_A 2HS3_A 3D54_A 1VK3_A 2HS4_A ....
Probab=56.04 E-value=74 Score=23.91 Aligned_cols=72 Identities=24% Similarity=0.298 Sum_probs=47.7
Q ss_pred CCCchhHhhh---c-ceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC-cEEEEccC
Q 039912 33 GNGLIGELKR---G-GLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL-KTVVVGDI 105 (198)
Q Consensus 33 gyGLa~ELrR---A-Gv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l-~TVVVGd~ 105 (198)
..||+..|.+ + |+-+..-.++|...+..- .....+-.-+-..+++.....+...+++.+++.++ .-.+||=.
T Consensus 66 dGGL~~~l~em~~~s~~g~~i~~~~~p~~~~~~-~~~~~l~~~~~g~~l~~v~~~~~~~~~~~~~~~g~~~~~~IG~V 142 (153)
T PF02769_consen 66 DGGLAGALAEMAEASGVGAEIDLDKIPLSDELQ-SPLEMLFSESEGRLLVAVPPEDAEEFLAALKKAGIPNATVIGEV 142 (153)
T ss_dssp TTHHHHHHHHHHHCTTEEEEEEGGGSHHHHHHH-HHHHHHHHSSSTEEEEEEEGGGHHHHHHHHHHTTCTTEEEEEEE
T ss_pred CchHHHHHHHHHHhCCcceEEccccchhhhhhh-hhhhhhccCCCCCEEEEEcHHHHHHHHHHHHhCCCCCEEEEEEE
Confidence 4499885543 3 466665556666555442 33334445566666666666666999999999999 78999864
No 232
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=55.75 E-value=31 Score=29.95 Aligned_cols=70 Identities=11% Similarity=0.159 Sum_probs=45.6
Q ss_pred ccCCCCCCC--ch----hHhhhcce----EEE-ecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhc
Q 039912 27 VLTPEVGNG--LI----GELKRGGL----WVR-TASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLR 95 (198)
Q Consensus 27 lltPkvgyG--La----~ELrRAGv----~Vr-tVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r 95 (198)
++.....|| ++ ..|++.|+ -|. +..=.|...| ....+..+...+.+.|+|.+...+...+++.|++.
T Consensus 159 ii~~~~~~g~~~~~~~~~~~~~~g~~~~~~v~~~~~~~~~~~d--~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~ 236 (377)
T cd06379 159 LLVSDDHEGRAAQKRFETLLEEREIEFKIKVEKVVEFEPGEKN--VTSLLQEAKELTSRVILLSASEDDAAVIYRNAGML 236 (377)
T ss_pred EEEEcCcchhHHHHHHHHHHHhcCCccceeeeEEEecCCchhh--HHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHc
Confidence 344444555 33 46666787 443 2222233332 33444445467899999999999999999999999
Q ss_pred CCc
Q 039912 96 CLK 98 (198)
Q Consensus 96 ~l~ 98 (198)
|+.
T Consensus 237 g~~ 239 (377)
T cd06379 237 NMT 239 (377)
T ss_pred CCC
Confidence 985
No 233
>PRK13288 pyrophosphatase PpaX; Provisional
Probab=55.58 E-value=99 Score=24.66 Aligned_cols=66 Identities=21% Similarity=0.269 Sum_probs=39.3
Q ss_pred CCchhHhhhcceEEEecCCCcch-HHHHHHHHHHHHhhcCccE---EEEEeCCcc-----hHHHHHHHHhcCC---cEEE
Q 039912 34 NGLIGELKRGGLWVRTASDKPQA-TDVLLRNHLVITHKRRIEY---LVVVSDDSD-----FVEVLLEANLRCL---KTVV 101 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqA-AD~ALkrhm~~m~~~gv~c---lvLVSDdsd-----F~~~Lr~Ar~r~l---~TVV 101 (198)
.-+-..|++.|+.+-.+|.+|+. ++..|+ ..|+.- .++.|++.. =..+.+.+++-++ ++++
T Consensus 88 ~~~l~~L~~~g~~~~i~S~~~~~~~~~~l~-------~~gl~~~f~~i~~~~~~~~~Kp~p~~~~~~~~~~~~~~~~~~~ 160 (214)
T PRK13288 88 YETLKTLKKQGYKLGIVTTKMRDTVEMGLK-------LTGLDEFFDVVITLDDVEHAKPDPEPVLKALELLGAKPEEALM 160 (214)
T ss_pred HHHHHHHHHCCCeEEEEeCCCHHHHHHHHH-------HcCChhceeEEEecCcCCCCCCCcHHHHHHHHHcCCCHHHEEE
Confidence 34667888999999889998863 222232 234432 234455432 2334444455555 5899
Q ss_pred EccCC
Q 039912 102 VGDIN 106 (198)
Q Consensus 102 VGd~~ 106 (198)
|||+.
T Consensus 161 iGDs~ 165 (214)
T PRK13288 161 VGDNH 165 (214)
T ss_pred ECCCH
Confidence 99974
No 234
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=55.52 E-value=62 Score=30.97 Aligned_cols=80 Identities=21% Similarity=0.253 Sum_probs=53.2
Q ss_pred HHHHHHHhcc---CCCCCCCch-----hHhhhcc----------eEEEecCCC--cchHHHHHHHHHHHHhhcCccEEEE
Q 039912 19 KYKRAARAVL---TPEVGNGLI-----GELKRGG----------LWVRTASDK--PQATDVLLRNHLVITHKRRIEYLVV 78 (198)
Q Consensus 19 KY~~AAr~ll---tPkvgyGLa-----~ELrRAG----------v~VrtVsdK--PqAAD~ALkrhm~~m~~~gv~clvL 78 (198)
+|..-..+.- ||.+|+++. ..|.-.| |+|-.+.+. ++|.. |-+ .+-+.|+...+-
T Consensus 294 RYD~Lv~~~gG~~~pavGFaiGveRl~~~l~~~~~~~~~~~~~~v~v~~~~~~~~~~a~~--la~---~LR~~g~~~~~~ 368 (429)
T COG0124 294 RYDGLVEEFGGKPTPAVGFAIGVERLILALEEEGKEDPVETRVDVYVVPLGEDAEPEALK--LAQ---KLRAAGISVEVD 368 (429)
T ss_pred cchHHHHHhCCCCCCceeEehHHHHHHHHHHHcCCCCCcCCCCCEEEEEcCchhHHHHHH--HHH---HHHHcCCcEEEE
Confidence 4555555554 899988876 3455555 344443332 33331 112 333679999999
Q ss_pred EeCCcchHHHHHHHHhcCCcEEEE-cc
Q 039912 79 VSDDSDFVEVLLEANLRCLKTVVV-GD 104 (198)
Q Consensus 79 VSDdsdF~~~Lr~Ar~r~l~TVVV-Gd 104 (198)
.+... |..-++.|...|.+.+|| |+
T Consensus 369 ~~~r~-~k~q~k~A~~~g~~~~viiGe 394 (429)
T COG0124 369 YSGRK-LKKQFKYADKLGARFAVILGE 394 (429)
T ss_pred ecccc-HHHHHHHHHHCCCCEEEEEcc
Confidence 99999 999999999999998765 55
No 235
>PRK09492 treR trehalose repressor; Provisional
Probab=55.48 E-value=53 Score=27.15 Aligned_cols=66 Identities=12% Similarity=0.097 Sum_probs=39.3
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
.|+..++.+.|+.+-..+..-... .....+..+..++++.+++++-.+.-.+.|+ +.+...|+|+.
T Consensus 82 ~~i~~~~~~~gy~~~~~~~~~~~~--~~~~~~~~l~~~~vdgiIi~~~~~~~~~~l~---~~~~pvv~i~~ 147 (315)
T PRK09492 82 RTMLPAFYEQGYDPIIMESQFSPE--KVNEHLGVLKRRNVDGVILFGFTGITEEMLA---PWQDKLVLLAR 147 (315)
T ss_pred HHHHHHHHHcCCeEEEEecCCChH--HHHHHHHHHHhcCCCEEEEeCCCcccHHHHH---hcCCCEEEEec
Confidence 466788999999886543321111 1223344566889999999874332233333 34567788874
No 236
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=55.17 E-value=1.4e+02 Score=25.92 Aligned_cols=64 Identities=14% Similarity=-0.047 Sum_probs=40.2
Q ss_pred chhHhhhcceEEEec-----CCCcchHHHH-HHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEc
Q 039912 36 LIGELKRGGLWVRTA-----SDKPQATDVL-LRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVG 103 (198)
Q Consensus 36 La~ELrRAGv~VrtV-----sdKPqAAD~A-Lkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVG 103 (198)
+.--.+|.|+-+..+ ...|.+.+.+ |++.+. +.+|.||+.-+--+. .-+=..|++.|++.+++.
T Consensus 189 f~Yl~~~~gl~~~~~~~~~~~~eps~~~l~~l~~~ik---~~~v~~If~e~~~~~-~~~~~ia~~~g~~v~~l~ 258 (286)
T cd01019 189 YGYFEKRYGLTQAGVFTIDPEIDPGAKRLAKIRKEIK---EKGATCVFAEPQFHP-KIAETLAEGTGAKVGELD 258 (286)
T ss_pred HHHHHHHcCCceeeeecCCCCCCCCHHHHHHHHHHHH---HcCCcEEEecCCCCh-HHHHHHHHhcCceEEEec
Confidence 334567888876532 3566676554 555444 789999987555332 334445788898777664
No 237
>PLN02981 glucosamine:fructose-6-phosphate aminotransferase
Probab=54.88 E-value=17 Score=35.80 Aligned_cols=47 Identities=19% Similarity=0.083 Sum_probs=38.3
Q ss_pred ccEEEEEeC---CcchHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 73 IEYLVVVSD---DSDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 73 v~clvLVSD---dsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
=+++|+||- ..+-..+++.||++|.+||.|-...+..|.|.||..+.
T Consensus 411 ~~lvI~ISqSGeT~eti~Al~~Ak~~Ga~~IaITn~~~S~La~~ad~~i~ 460 (680)
T PLN02981 411 EDTAVFVSQSGETADTLRALEYAKENGALCVGITNTVGSAISRGTHCGVH 460 (680)
T ss_pred CCeEEEEeCCcCCHHHHHHHHHHHHCCCcEEEEECCCCChhHhccCeeEE
Confidence 367888885 34677889999999999999977666899999997543
No 238
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=54.69 E-value=41 Score=30.40 Aligned_cols=77 Identities=14% Similarity=0.158 Sum_probs=46.1
Q ss_pred chhHhhhcce-EEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcch---HHHHHHHHhcCCcEEE-EccCCC
Q 039912 36 LIGELKRGGL-WVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDF---VEVLLEANLRCLKTVV-VGDIND 107 (198)
Q Consensus 36 La~ELrRAGv-~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF---~~~Lr~Ar~r~l~TVV-VGd~~~ 107 (198)
|..+|++-|. .|-.|.|+ ...+..+...+. ++.+.|+++.+. |.-++.+ ..+++.+|+.+...|| ||.++-
T Consensus 21 l~~~~~~~g~~~~lvvtd~-~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~ 99 (382)
T PRK10624 21 LTDEVKRRGFKKALIVTDK-TLVKCGVVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGGGSP 99 (382)
T ss_pred HHHHHHhcCCCEEEEEeCc-chhhCcchHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCChHH
Confidence 4456676663 44455664 333332344444 665678987654 3334444 4566788888999888 898775
Q ss_pred ccccch
Q 039912 108 GALKRI 113 (198)
Q Consensus 108 ~~L~R~ 113 (198)
..+++.
T Consensus 100 iD~aK~ 105 (382)
T PRK10624 100 QDTCKA 105 (382)
T ss_pred HHHHHH
Confidence 445543
No 239
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=54.45 E-value=38 Score=29.93 Aligned_cols=68 Identities=15% Similarity=0.086 Sum_probs=41.5
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcC-ccEEEEEeCC-----cchHHHHHHHHhcCCc---EEEEcc
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRR-IEYLVVVSDD-----SDFVEVLLEANLRCLK---TVVVGD 104 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~g-v~clvLVSDd-----sdF~~~Lr~Ar~r~l~---TVVVGd 104 (198)
+...|+..|+-|..+..-|. .+.-+...+..+.+.+ .+-||+.+.. .+-..+++.|++.|+. .+.||-
T Consensus 152 l~~~l~~~gi~v~~~~~~~~-~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~ 228 (382)
T cd06371 152 LASALRAHGLPVGLVTSMGP-DEKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPY 228 (382)
T ss_pred HHHHHHHCCCcEEEEEEecC-CHHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEe
Confidence 66677888876653322221 2234666666664545 4666655444 3447899999999998 355554
No 240
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=54.41 E-value=34 Score=31.43 Aligned_cols=70 Identities=10% Similarity=-0.005 Sum_probs=42.5
Q ss_pred hhHhhhcceEEE-ecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcchH---HHHHHHHhcCCcEEE-EccCCC
Q 039912 37 IGELKRGGLWVR-TASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDFV---EVLLEANLRCLKTVV-VGDIND 107 (198)
Q Consensus 37 a~ELrRAGv~Vr-tVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF~---~~Lr~Ar~r~l~TVV-VGd~~~ 107 (198)
..+|++.|...- .|.| +......+-.++. ++.+.||+..+. |..++... ..++.+|+.+...|| ||+++-
T Consensus 41 ~~~~~~~g~~~~lvv~~-~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~IiavGGGS~ 118 (395)
T PRK15454 41 GQQAQTRGLKHLFVMAD-SFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIAFGGGSV 118 (395)
T ss_pred HHHHHhcCCCEEEEEcC-cchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEeCChHH
Confidence 556688774332 4455 3333233333444 666789987665 55566666 666777887777655 777763
No 241
>cd03013 PRX5_like Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5 suggests that it may have an important antioxidant role in organelles that are major sources of reactive oxygen species (ROS), as well as a role in the control of signal transduction. PRX5 has been shown to reduce hydrogen peroxide, alkyl hydroperoxides and peroxynitrite. As with all other PRXs, the N-terminal peroxidatic cysteine of PRX5 is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Human PRX5 is able to resolve this intermediate by forming an intramolecular disulfide bond with its C-terminal cysteine (the resolving cysteine), which can then be reduced by TRX, just like an atypical 2-cys PRX. This resolving cysteine, however, is not conserved in other members of the subfamily. In such cases
Probab=54.41 E-value=44 Score=26.42 Aligned_cols=58 Identities=14% Similarity=0.080 Sum_probs=47.9
Q ss_pred HHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC--cEEEEccCCCccccchhccccc
Q 039912 60 LLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL--KTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 60 ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l--~TVVVGd~~~~~L~R~AD~~fs 119 (198)
++..++....++|+.-|+-||-|+.|+ ..+.+.+.++ ..-++.|.+ +.+.|.-.+.+.
T Consensus 52 ~~~~~~~~f~~~g~~~V~~iS~D~~~~-~~~~~~~~~~~~~f~lLsD~~-~~~~~~ygv~~~ 111 (155)
T cd03013 52 GYVENADELKAKGVDEVICVSVNDPFV-MKAWGKALGAKDKIRFLADGN-GEFTKALGLTLD 111 (155)
T ss_pred HHHHhHHHHHHCCCCEEEEEECCCHHH-HHHHHHhhCCCCcEEEEECCC-HHHHHHcCCCcc
Confidence 678888888788987799999999997 6668888887 788999975 788888877754
No 242
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=54.33 E-value=52 Score=29.02 Aligned_cols=83 Identities=14% Similarity=0.086 Sum_probs=47.3
Q ss_pred CCCC--CCCchhHhhhcc-eEEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcchH---HHHHHHHhcCCcE
Q 039912 29 TPEV--GNGLIGELKRGG-LWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDFV---EVLLEANLRCLKT 99 (198)
Q Consensus 29 tPkv--gyGLa~ELrRAG-v~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF~---~~Lr~Ar~r~l~T 99 (198)
+|++ |.|...+|+..+ =.+-.|.| |...+.-+..++. .+... +++.+. |.-++.+. .+++.+|+.+...
T Consensus 4 p~~i~~G~g~~~~l~~~~~~~~lvv~~-~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~ 81 (332)
T cd08180 4 KTKIYFGEDALERLKELKNKRVLIVTD-PFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPDPPIEVVAKGIKKFLDFKPDI 81 (332)
T ss_pred CCeEEECcCHHHHHHHhCCCeEEEEeC-chhhhCccHHHHHHHHHhc-CcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCE
Confidence 4555 555666665432 23334555 3343332444444 55333 665444 34456666 7777888899998
Q ss_pred EE-EccCCCccccch
Q 039912 100 VV-VGDINDGALKRI 113 (198)
Q Consensus 100 VV-VGd~~~~~L~R~ 113 (198)
|| ||.++-...++.
T Consensus 82 IiaiGGGs~~D~aKa 96 (332)
T cd08180 82 VIALGGGSAIDAAKA 96 (332)
T ss_pred EEEECCchHHHHHHH
Confidence 88 888775445543
No 243
>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=54.08 E-value=49 Score=26.37 Aligned_cols=50 Identities=20% Similarity=0.199 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHHHhh----cCccEEEEEeCCc-------chHHHHHHHHhcCCcEEEEccC
Q 039912 56 ATDVLLRNHLVITHK----RRIEYLVVVSDDS-------DFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 56 AAD~ALkrhm~~m~~----~gv~clvLVSDds-------dF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
+...||......+.+ ....-|||+||=. .....++.+++.|+....||-+
T Consensus 89 ~~~~AL~~a~~~l~~~~~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~gi~i~~vgig 149 (186)
T cd01480 89 FTDCALKYATEQLLEGSHQKENKFLLVITDGHSDGSPDGGIEKAVNEADHLGIKIFFVAVG 149 (186)
T ss_pred cHHHHHHHHHHHHhccCCCCCceEEEEEeCCCcCCCcchhHHHHHHHHHHCCCEEEEEecC
Confidence 445677666665532 2345589999863 2455678888999986666643
No 244
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=54.05 E-value=33 Score=24.04 Aligned_cols=41 Identities=17% Similarity=0.419 Sum_probs=25.9
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeC
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSD 81 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSD 81 (198)
++..|+++|+.|.+-.. + .-+.+|+......|+.++++|.+
T Consensus 21 l~~~L~~~gi~v~~d~~-~----~~~~k~~~~a~~~g~p~~iiiG~ 61 (94)
T PF03129_consen 21 LANKLRKAGIRVELDDS-D----KSLGKQIKYADKLGIPFIIIIGE 61 (94)
T ss_dssp HHHHHHHTTSEEEEESS-S----STHHHHHHHHHHTTESEEEEEEH
T ss_pred HHHHHHHCCCEEEEECC-C----CchhHHHHHHhhcCCeEEEEECc
Confidence 56788888866655221 1 13445666555678888888765
No 245
>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=54.02 E-value=39 Score=28.77 Aligned_cols=70 Identities=7% Similarity=0.045 Sum_probs=51.4
Q ss_pred hccCCCCCCCc------hhHhhhcceEEEe-cCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC
Q 039912 26 AVLTPEVGNGL------IGELKRGGLWVRT-ASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL 97 (198)
Q Consensus 26 ~lltPkvgyGL------a~ELrRAGv~Vrt-VsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l 97 (198)
.++.+-..||- ...|++.|.-|-. +.-.|.++| ...++..+...+.+.|++...-.+...+++.++++|+
T Consensus 136 ail~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~ 212 (334)
T cd06356 136 YTIAADYNFGQISAEWVRKIVEENGGEVVGEEFIPLDVSD--FGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGL 212 (334)
T ss_pred EEECCCchhhHHHHHHHHHHHHHcCCEEEeeeecCCCchh--HHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCC
Confidence 45666556653 4678889987743 233344554 4666667767899999998888899999999999999
No 246
>cd06376 PBP1_mGluR_groupIII Ligand-binding domain of the group III metabotropic glutamate receptor. Ligand-binding domain of the group III metabotropic glutamate receptor, a family which contains mGlu4R, mGluR6R, mGluR7, and mGluR8; all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=53.99 E-value=55 Score=29.66 Aligned_cols=64 Identities=13% Similarity=0.209 Sum_probs=43.6
Q ss_pred hHhhhc-ceEEE---ecCCCcchHHHHHHHHHHHHhh-cCccEEEEEeCCcchHHHHHHHHhcCCcE--EEEc
Q 039912 38 GELKRG-GLWVR---TASDKPQATDVLLRNHLVITHK-RRIEYLVVVSDDSDFVEVLLEANLRCLKT--VVVG 103 (198)
Q Consensus 38 ~ELrRA-Gv~Vr---tVsdKPqAAD~ALkrhm~~m~~-~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T--VVVG 103 (198)
.++++. |+-|- .++..|.+.| +..++..+.. .+.+-|||.+...+...+++.|++.|+-- +.||
T Consensus 194 ~~~~~~g~~~v~~~~~i~~~~~~~d--~~~~l~~ik~~~~~~vIvl~~~~~~~~~ll~~a~~~~~~g~~~wig 264 (463)
T cd06376 194 QISREAGGVCIAQSIKIPREPRPGE--FDKIIKRLLETPNARAVIIFANEDDIRRVLEAAKRANQVGHFLWVG 264 (463)
T ss_pred HHHHHcCCceEEEEEecCCCCCHHH--HHHHHHHHhccCCCeEEEEecChHHHHHHHHHHHhcCCcCceEEEE
Confidence 344554 45443 3445555554 5566665533 58999999999999999999999988753 5555
No 247
>PRK08674 bifunctional phosphoglucose/phosphomannose isomerase; Validated
Probab=53.59 E-value=18 Score=32.03 Aligned_cols=42 Identities=19% Similarity=0.220 Sum_probs=31.4
Q ss_pred ccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhcc
Q 039912 73 IEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISYA 116 (198)
Q Consensus 73 v~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~ 116 (198)
-+++|.+|.. .+-..+++.|+++|.++|+|.+. +.|.+.||.
T Consensus 79 ~dlvI~iS~SG~T~e~~~a~~~a~~~ga~vIaIT~~--~~L~~~a~~ 123 (337)
T PRK08674 79 KTLVIAVSYSGNTEETLSAVEQALKRGAKIIAITSG--GKLKEMAKE 123 (337)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHCCCeEEEECCC--chHHHHHHh
Confidence 3567777754 34557788999999999999874 458888876
No 248
>TIGR02482 PFKA_ATP 6-phosphofructokinase. 6-phosphofructokinase (EC 2.7.1.11) catalyzes the addition of phosphate from ATP to fructose 6-phosphate to give fructose 1,6-bisphosphate. This represents a key control step in glycolysis. This model hits bacterial ATP-dependent 6-phosphofructokinases which lack a beta-hairpin loop present in TIGR02483 family members. TIGR02483 contains members that are ATP-dependent as well as members that are pyrophosphate-dependent. TIGR02477 represents the pyrophosphate-dependent phosphofructokinase, diphosphate--fructose-6-phosphate 1-phosphotransferase (EC 2.7.1.90).
Probab=53.45 E-value=50 Score=29.86 Aligned_cols=66 Identities=21% Similarity=0.161 Sum_probs=49.8
Q ss_pred hHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEc
Q 039912 38 GELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVG 103 (198)
Q Consensus 38 ~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVG 103 (198)
.-+.+.|-...|-..+|-..+.-+++-...+.+.+|+.|+.+-.|.-|....+++.+.++..|.|=
T Consensus 57 ~~~~~gGt~LgtsR~~~~~~~~~~~~~~~~l~~~~Id~Li~IGGdgs~~~a~~L~e~~~i~vigiP 122 (301)
T TIGR02482 57 GIIHRGGTILGTARCPEFKTEEGRQKAVENLKKLGIEGLVVIGGDGSYTGAQKLYEEGGIPVIGLP 122 (301)
T ss_pred hHHhCCCceeccCCCCccCCHHHHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHhhCCCEEeec
Confidence 345677887777555554433445555557779999999999999999999999998777777664
No 249
>cd08551 Fe-ADH iron-containing alcohol dehydrogenases (Fe-ADH)-like. Large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. They contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alcohol dehydrogenases which contains different protein domains. There are several distinct families of alcohol dehydrogenases: Zinc-containing long-chain alcohol dehydrogenases; insect-type, or short-chain alcohol dehydrogenases; iron-containing alcohol dehydrogenases, and others. The iron-containing family has a Rossmann fold-like topology that resembles the fold of the zinc-dependent alcohol dehydrogenases, but lacks sequence homology, and differs in strand arrangement. ADH catalyzes the reversible oxidation of alcohol to acetaldehyde with the simultaneous reduction of NAD(P)+ to NAD(P)H.
Probab=53.39 E-value=34 Score=30.43 Aligned_cols=77 Identities=14% Similarity=0.087 Sum_probs=44.2
Q ss_pred chhHhhhcce-EEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcchH---HHHHHHHhcCCcEEE-EccCCC
Q 039912 36 LIGELKRGGL-WVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDFV---EVLLEANLRCLKTVV-VGDIND 107 (198)
Q Consensus 36 La~ELrRAGv-~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF~---~~Lr~Ar~r~l~TVV-VGd~~~ 107 (198)
|..+|++.|. .|-.|.++- ..+.....++. .+..+|++..++ +.-++.+. .+++.+|+.+...|| ||.++-
T Consensus 14 l~~~l~~~~~~~~lvv~~~~-~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs~ 92 (370)
T cd08551 14 LGEEIKNLGGRKALIVTDPG-LVKTGVLDKVIDSLKEAGIEVVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAVGGGSV 92 (370)
T ss_pred HHHHHHHcCCCeEEEEeCcc-hhhCccHHHHHHHHHHcCCeEEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCchH
Confidence 5566777653 344555643 23223333343 555678887654 33345544 566677778888877 888764
Q ss_pred ccccch
Q 039912 108 GALKRI 113 (198)
Q Consensus 108 ~~L~R~ 113 (198)
..+++.
T Consensus 93 ~D~AK~ 98 (370)
T cd08551 93 LDTAKA 98 (370)
T ss_pred HHHHHH
Confidence 444444
No 250
>TIGR03479 DMSO_red_II_alp DMSO reductase family type II enzyme, molybdopterin subunit. This model represents the molybdopterin subunit, typically called the alpha subunit, of various proteins that also contain an iron-sulfur subunit and a heme b subunit. The group includes two distinct but very closely related periplasmic proteins of anaerobic respiration, selenate reductase and chlorate reductase. Other members of this family include dimethyl sulphide dehydrogenase, ethylbenzene dehydrogenase, and an archaeal respiratory nitrate reductase. This alpha subunit has a twin-arginine translocation (TAT) signal for Sec-independent translocation across the plasma membrane.
Probab=53.15 E-value=17 Score=36.80 Aligned_cols=73 Identities=14% Similarity=0.115 Sum_probs=49.7
Q ss_pred cCccEEEEEeCCc-----chHHHHHHHHhcCCcEEEEccCCCccccchhcccccHH-----HHhhchhhhhhhhhhcccc
Q 039912 71 RRIEYLVVVSDDS-----DFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWW-----DILMGKARKEAVSVVGKWK 140 (198)
Q Consensus 71 ~gv~clvLVSDds-----dF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~-----eV~~Gka~k~A~~~~g~W~ 140 (198)
..-+||+++.-+. -....|++||++|.+-|||.=. -....+.||.|++=. -+.+|-+... +...|-
T Consensus 223 ~na~~Il~~G~Np~~t~~~~~~~l~~a~~~GaklVvIdPr-~t~tA~~AD~wlpirPGTD~ALalam~~vI---i~e~l~ 298 (912)
T TIGR03479 223 FNADYIIMWGSNPSVTRIPDAHFLSEARYNGARVVSIAPD-YNPSTIHADLWLPVRVGTDAALALGMVQVI---IDEKLY 298 (912)
T ss_pred hcCcEEEEecCChHHcCCchHHHHHHHHhcCCeEEEECCC-CChhhhhCCeecCCCCCcHHHHHHHHHHHH---HHcCcc
Confidence 4678999986553 2456678899999999999543 367888999999754 2333333333 234577
Q ss_pred ccccchh
Q 039912 141 DGDVLKR 147 (198)
Q Consensus 141 d~dvlk~ 147 (198)
|.+++++
T Consensus 299 D~~fv~~ 305 (912)
T TIGR03479 299 DAAFLKE 305 (912)
T ss_pred cHHHHHH
Confidence 7777775
No 251
>PRK01642 cls cardiolipin synthetase; Reviewed
Probab=53.07 E-value=52 Score=30.98 Aligned_cols=64 Identities=22% Similarity=0.298 Sum_probs=47.5
Q ss_pred ceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEe----CCcchHHHHHHHHhcCCcEEE-EccCCC
Q 039912 44 GLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVS----DDSDFVEVLLEANLRCLKTVV-VGDIND 107 (198)
Q Consensus 44 Gv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVS----DdsdF~~~Lr~Ar~r~l~TVV-VGd~~~ 107 (198)
+..|+.+++.|.-.+..+...+..+++.-=..|.+.+ .|..+...|+.|.+|||+--+ +...++
T Consensus 302 ~~~~qi~~sgP~~~~~~~~~~~~~~I~~A~~~I~I~tpYfip~~~i~~aL~~Aa~rGV~Vril~p~~~d 370 (483)
T PRK01642 302 GHTVQVIASGPGDPEETIHQFLLTAIYSARERLWITTPYFVPDEDLLAALKTAALRGVDVRIIIPSKND 370 (483)
T ss_pred CceEEEEeCCCCChhhHHHHHHHHHHHHhccEEEEEcCCcCCCHHHHHHHHHHHHcCCEEEEEeCCCCC
Confidence 5678989999987777777766666555456677776 577899999999999998544 455443
No 252
>TIGR01261 hisB_Nterm histidinol-phosphatase. This model describes histidinol phosphatase. All known examples in the scope of this model are bifunctional proteins with a histidinol phosphatase domain followed by an imidazoleglycerol-phosphate dehydratase domain. These enzymatic domains catalyze the ninth and seventh steps, respectively, of histidine biosynthesis.
Probab=52.66 E-value=1.2e+02 Score=24.48 Aligned_cols=71 Identities=21% Similarity=0.267 Sum_probs=42.7
Q ss_pred CchhHhhhcceEEEecCCCc--------chHHHHHHHHHH-HHhhcCccEE--EEEe-----CCcch----HHHHHHHHh
Q 039912 35 GLIGELKRGGLWVRTASDKP--------QATDVLLRNHLV-ITHKRRIEYL--VVVS-----DDSDF----VEVLLEANL 94 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKP--------qAAD~ALkrhm~-~m~~~gv~cl--vLVS-----DdsdF----~~~Lr~Ar~ 94 (198)
.+-..|+..|+.+=.+|.+| ++.-.+...++. .+...|+. + +.+| ++... .+++..+.+
T Consensus 36 e~L~~L~~~g~~l~IvSN~~g~~~~~~~~~~~~~~~~~~~~~l~~~gl~-fd~ii~~~~~~~~~~~~~KP~~~~~~~~~~ 114 (161)
T TIGR01261 36 PALLKLKKAGYKFVMVTNQDGLGTPSFPQADFDGPHNLMLQIFRSQGII-FDDVLICPHFPDDNCDCRKPKIKLLEPYLK 114 (161)
T ss_pred HHHHHHHHCCCeEEEEeCCccccCCcCCHHHHHHHHHHHHHHHHHCCCc-eeEEEECCCCCCCCCCCCCCCHHHHHHHHH
Confidence 45678889999998889875 233223344444 44566777 3 4454 44322 355555544
Q ss_pred -cCC---cEEEEccCC
Q 039912 95 -RCL---KTVVVGDIN 106 (198)
Q Consensus 95 -r~l---~TVVVGd~~ 106 (198)
.++ ++++|||+.
T Consensus 115 ~~~~~~~e~l~IGD~~ 130 (161)
T TIGR01261 115 KNLIDKARSYVIGDRE 130 (161)
T ss_pred HcCCCHHHeEEEeCCH
Confidence 444 489999963
No 253
>cd08176 LPO Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. Lactadehyde:propanediol oxidoreductase (LPO) is a member of the group III iron-activated dehydrogenases which catalyze the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. L-Fucose and L-rhamnose is used by Escherichia coli through an inducible pathway mediated by the fucose regulon comprising four linked oeprons fucO, fucA, fucPIK, and fucR. The fucA-encoded aldolase catalyzes the formation of dihydroxyacetone phosphate and L-lactaldehyde. Under anaerobic conditions, with NADH as a cofactor, lactaldehyde is converted by a fucO-encoded Lactadehyde:propanediol oxidoreductase (LPO) to L-1,2-propanediol, which is excreted as a fermentation product. In mutant strains, E. coli adapted to grow on L-1,2-propanediol, FucO catalyzes the oxidation of the polyol to
Probab=52.64 E-value=46 Score=29.97 Aligned_cols=76 Identities=14% Similarity=0.202 Sum_probs=44.6
Q ss_pred chhHhhhcce-EEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcchH---HHHHHHHhcCCcEEE-EccCCC
Q 039912 36 LIGELKRGGL-WVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDFV---EVLLEANLRCLKTVV-VGDIND 107 (198)
Q Consensus 36 La~ELrRAGv-~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF~---~~Lr~Ar~r~l~TVV-VGd~~~ 107 (198)
|..+|++.|. .|-.|.|+- .....+..++. .+...|+++.++ |.-++.+. .+++.+|+.+...|| ||.++-
T Consensus 19 l~~~l~~~g~~~~lvv~~~~-~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS~ 97 (377)
T cd08176 19 IGDELKNLGFKKALIVTDKG-LVKIGVVEKVTDVLDEAGIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIGGGSP 97 (377)
T ss_pred HHHHHHHhCCCeEEEECCch-HhhcCcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcHH
Confidence 4567777774 455566643 32223334444 665678887554 33366665 455566777888877 888764
Q ss_pred ccccc
Q 039912 108 GALKR 112 (198)
Q Consensus 108 ~~L~R 112 (198)
...++
T Consensus 98 iD~aK 102 (377)
T cd08176 98 HDCAK 102 (377)
T ss_pred HHHHH
Confidence 33343
No 254
>PF11814 DUF3335: Peptidase_C39 like family; InterPro: IPR021770 This family of proteins are functionally uncharacterised. This family is only found in bacteria. This presumed domain is typically between 226 to 230 amino acids in length.
Probab=52.56 E-value=15 Score=32.33 Aligned_cols=53 Identities=13% Similarity=0.008 Sum_probs=33.2
Q ss_pred CCCCchhHhhhcceEEEecCCCcc-----hHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 32 VGNGLIGELKRGGLWVRTASDKPQ-----ATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 32 vgyGLa~ELrRAGv~VrtVsdKPq-----AAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
-|||||-...|.|+.|+...+.+. ---..-|++++.+... ++.+.|.+.||..
T Consensus 55 ~P~GLAlAA~rrG~~vev~~~~~~plfld~vr~~~kk~v~~~v~~---------------~f~~~a~~~gv~~ 112 (207)
T PF11814_consen 55 GPFGLALAAARRGFKVEVWVSTDGPLFLDSVRSEEKKEVMELVHE---------------DFREEAEQAGVPV 112 (207)
T ss_pred ChHHHHHHHHHcCCceEEEECCCCCceeccCCCHHHHHHHHHHHH---------------HHHHHHHHCCCce
Confidence 389999999999999986554444 1122445555533232 4556666666654
No 255
>TIGR01517 ATPase-IIB_Ca plasma-membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIB based on a phylogenetic analysis which distinguishes this group from the Type IIA SERCA calcium pump. A separate analysis divides Type IIA into sub-types (SERCA and PMR1), which are modelled by the corresponding TIGR01116 and TIGR01522. This model is well separated from the two others.
Probab=52.15 E-value=49 Score=33.78 Aligned_cols=43 Identities=30% Similarity=0.285 Sum_probs=30.1
Q ss_pred HHHHHHHhcCCcEEEEccC-CC-ccccchhcccccHHHHhhc-hhhhhhhhh
Q 039912 87 EVLLEANLRCLKTVVVGDI-ND-GALKRISYACFSWWDILMG-KARKEAVSV 135 (198)
Q Consensus 87 ~~Lr~Ar~r~l~TVVVGd~-~~-~~L~R~AD~~fsW~eV~~G-ka~k~A~~~ 135 (198)
.+++.-+++|-.+.+|||+ || .+| +.||++++ +| .+...|.++
T Consensus 659 ~iV~~lq~~g~vVam~GDGvNDapAL-k~AdVGIA-----mg~~gtdvAk~a 704 (941)
T TIGR01517 659 LLVLMLKDMGEVVAVTGDGTNDAPAL-KLADVGFS-----MGISGTEVAKEA 704 (941)
T ss_pred HHHHHHHHCCCEEEEECCCCchHHHH-HhCCccee-----cCCCccHHHHHh
Confidence 4677778888889999995 44 445 78999987 66 444444444
No 256
>cd08186 Fe-ADH8 Iron-containing alcohol dehydrogenase. Type III Iron-containing alcohol dehydrogenases (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. The ADH of hyperthermophilic archaeon Thermococcus hydrothermalis oxidizes a series of primary aliphatic and aromatic alcohols preferentially from C2 to C8 but is also active towards methanol and glycerol and stereospecific for monoterpenes. It was suggested that the type III ADHs in microorganisms are involved in acetaldehyde detoxication rather than in alcohol turnover.
Probab=51.30 E-value=62 Score=29.26 Aligned_cols=80 Identities=15% Similarity=0.077 Sum_probs=45.7
Q ss_pred chhHhhhc---ce-EEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcchH---HHHHHHHhcCCcEEE-Ecc
Q 039912 36 LIGELKRG---GL-WVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDFV---EVLLEANLRCLKTVV-VGD 104 (198)
Q Consensus 36 La~ELrRA---Gv-~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF~---~~Lr~Ar~r~l~TVV-VGd 104 (198)
|..+|++. |. .+-.|.|+....-..+...+. .+...|++..+. |..++.+. .+++.+|+.+...|| ||.
T Consensus 14 l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGG 93 (383)
T cd08186 14 IGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIAIGG 93 (383)
T ss_pred HHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 33445554 53 455667765433222222233 555778887655 44444554 666777888888877 888
Q ss_pred CCCccccchhc
Q 039912 105 INDGALKRISY 115 (198)
Q Consensus 105 ~~~~~L~R~AD 115 (198)
++-...++.+-
T Consensus 94 GS~iD~aK~ia 104 (383)
T cd08186 94 GSPIDSAKSAA 104 (383)
T ss_pred ccHHHHHHHHH
Confidence 77555555443
No 257
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=51.26 E-value=51 Score=33.52 Aligned_cols=44 Identities=18% Similarity=0.054 Sum_probs=28.5
Q ss_pred HHHHHHhcCCcEEEEccC-CCccccchhcccccHHHHhhchhhhhhhhhh
Q 039912 88 VLLEANLRCLKTVVVGDI-NDGALKRISYACFSWWDILMGKARKEAVSVV 136 (198)
Q Consensus 88 ~Lr~Ar~r~l~TVVVGd~-~~~~L~R~AD~~fsW~eV~~Gka~k~A~~~~ 136 (198)
+++.-+++|-...++||+ ||-.-=+.||++++ +|.+...|.+++
T Consensus 594 iV~~lq~~G~vVam~GDGvNDapALk~AdVGIA-----mg~gtdvAk~aA 638 (867)
T TIGR01524 594 IIGLLKKAGHTVGFLGDGINDAPALRKADVGIS-----VDTAADIAKEAS 638 (867)
T ss_pred HHHHHHhCCCEEEEECCCcccHHHHHhCCEEEE-----eCCccHHHHHhC
Confidence 445556677778899995 44333378999987 565555555444
No 258
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=51.23 E-value=28 Score=26.27 Aligned_cols=42 Identities=19% Similarity=0.226 Sum_probs=0.0
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCc
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDS 83 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDds 83 (198)
++..||.+|+.|.+ ... . .+++++......|+..+++|.++.
T Consensus 47 la~~LR~~gi~v~~-d~~-~----sl~kqlk~A~k~g~~~~iiiG~~e 88 (121)
T cd00858 47 ISEELRELGFSVKY-DDS-G----SIGRRYARQDEIGTPFCVTVDFDT 88 (121)
T ss_pred HHHHHHHCCCEEEE-eCC-C----CHHHHHHHhHhcCCCEEEEECcCc
No 259
>cd02766 MopB_3 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins
Probab=51.18 E-value=23 Score=33.06 Aligned_cols=73 Identities=19% Similarity=0.194 Sum_probs=48.2
Q ss_pred cCccEEEEEeCCc-----chHHHHHHHHhcCCcEEEEccCCCccccchhcccccHH-----HHhhchhhhhhhhhhcccc
Q 039912 71 RRIEYLVVVSDDS-----DFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWW-----DILMGKARKEAVSVVGKWK 140 (198)
Q Consensus 71 ~gv~clvLVSDds-----dF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~-----eV~~Gka~k~A~~~~g~W~ 140 (198)
..-+||+++--+. .+...++.||++|.+-|||.=. .....+.||+|++-. -+..|-+... +...|-
T Consensus 156 ~~ad~il~~G~Np~~s~p~~~~~~~~a~~~GaklivvDPr-~t~ta~~Ad~~l~i~PGtD~al~~al~~~i---i~~~~~ 231 (501)
T cd02766 156 VNADLIVIWGINPAATNIHLMRIIQEARKRGAKVVVIDPY-RTATAARADLHIQIRPGTDGALALGVAKVL---FREGLY 231 (501)
T ss_pred hcCCEEEEECCChhhhchhHHHHHHHHHHCCCEEEEECCC-CCccHHHhCeeeccCCCcHHHHHHHHHHHH---HHCCCc
Confidence 4578999986553 3456678899999999999654 367889999999753 2333333322 223466
Q ss_pred ccccchh
Q 039912 141 DGDVLKR 147 (198)
Q Consensus 141 d~dvlk~ 147 (198)
|.+++++
T Consensus 232 d~~fv~~ 238 (501)
T cd02766 232 DRDFLAR 238 (501)
T ss_pred cHHHHHH
Confidence 6666553
No 260
>PF02633 Creatininase: Creatinine amidohydrolase; InterPro: IPR003785 This family includes the enzymes creatininase and 2-amino-5-formylamino-6-ribosylaminopyrimidin-4(3H)-one 5'-monophosphate deformylase, also known as formamide hydrolase. Creatinase or creatinine amidohydrolase (3.5.2.10 from EC) catalyses the hydrolysis of creatinine to creatine, which can then be metabolised to urea and sarcosine by creatinase (3.5.3.3 from EC). Creatininase is a member of the urease-related amidohydrolase superfamily []. Formamide hydrolase catalyzes the hydrolysis of the formamide of 2-amino-5-formylamino-6-ribosylamino-4(3H)-pyrimidinone 5'-monophosphate (FAPy) to form 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (APy) (3.5.1.102 from EC). ; PDB: 3A6K_F 3A6F_A 3A6D_B 1J2U_B 3A6J_C 1J2T_A 3A6G_C 3A6H_F 1Q3K_E 3A6L_C ....
Probab=51.17 E-value=18 Score=30.36 Aligned_cols=76 Identities=20% Similarity=0.181 Sum_probs=43.3
Q ss_pred hccCCCCCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchH----HHHHHHHhc--CCcE
Q 039912 26 AVLTPEVGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFV----EVLLEANLR--CLKT 99 (198)
Q Consensus 26 ~lltPkvgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~----~~Lr~Ar~r--~l~T 99 (198)
-++.|-++||...+... |. =|++=.|+---..|..-+.++...|+..||+|+.+-.=. .+++..+.+ ++..
T Consensus 56 ~lv~P~i~yG~s~~h~~--fp-GTisl~~~t~~~~l~di~~sl~~~Gf~~ivivngHgGN~~~l~~~~~~l~~~~~~~~v 132 (237)
T PF02633_consen 56 ALVLPPIPYGCSPHHMG--FP-GTISLSPETLIALLRDILRSLARHGFRRIVIVNGHGGNIAALEAAARELRQEYPGVKV 132 (237)
T ss_dssp EEE---B--BB-GCCTT--ST-T-BBB-HHHHHHHHHHHHHHHHHHT--EEEEEESSTTHHHHHHHHHHHHHHHGCC-EE
T ss_pred EEEeCCCccccCcccCC--CC-CeEEeCHHHHHHHHHHHHHHHHHcCCCEEEEEECCHhHHHHHHHHHHHHHhhCCCcEE
Confidence 78999999999998874 21 355556665544556656688899999999999987533 334444444 6666
Q ss_pred EEEcc
Q 039912 100 VVVGD 104 (198)
Q Consensus 100 VVVGd 104 (198)
.++..
T Consensus 133 ~~~~~ 137 (237)
T PF02633_consen 133 FVINW 137 (237)
T ss_dssp EEEEG
T ss_pred EEeec
Confidence 66654
No 261
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=51.15 E-value=60 Score=29.22 Aligned_cols=76 Identities=17% Similarity=0.043 Sum_probs=44.0
Q ss_pred chhHhhhcce-EEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcchH---HHHHHHHhcCCcEEE-EccCCC
Q 039912 36 LIGELKRGGL-WVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDFV---EVLLEANLRCLKTVV-VGDIND 107 (198)
Q Consensus 36 La~ELrRAGv-~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF~---~~Lr~Ar~r~l~TVV-VGd~~~ 107 (198)
|..+|++.|. .|-.|.|+ .....-+-.++. .+.+.|+++.++ |..++.+. ++++.+|+.+...|| ||.++-
T Consensus 14 l~~~~~~~~~~r~livt~~-~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~ 92 (375)
T cd08194 14 TGAVLADLGGKRPLIVTDK-VMVKLGLVDKLTDSLKKEGIESAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALGGGSP 92 (375)
T ss_pred HHHHHHHcCCCeEEEEcCc-chhhcchHHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCchH
Confidence 4455665542 45556663 333321223344 666779987655 44566665 566677778888877 888764
Q ss_pred ccccc
Q 039912 108 GALKR 112 (198)
Q Consensus 108 ~~L~R 112 (198)
...++
T Consensus 93 ~D~AK 97 (375)
T cd08194 93 IDTAK 97 (375)
T ss_pred HHHHH
Confidence 33333
No 262
>PRK13582 thrH phosphoserine phosphatase; Provisional
Probab=51.14 E-value=78 Score=24.84 Aligned_cols=76 Identities=13% Similarity=0.054 Sum_probs=43.8
Q ss_pred CchhHhhhcceEEEecCCCcchH-HHHHHHHHHHHhhcCccE----EEEEe-----------CCcchHHHHHHHHhcCCc
Q 039912 35 GLIGELKRGGLWVRTASDKPQAT-DVLLRNHLVITHKRRIEY----LVVVS-----------DDSDFVEVLLEANLRCLK 98 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAA-D~ALkrhm~~m~~~gv~c----lvLVS-----------DdsdF~~~Lr~Ar~r~l~ 98 (198)
-+-..|+.+ +.+-.||++++.. +..|.+ .|+.. .+.++ .......+++..+..+-.
T Consensus 75 e~L~~L~~~-~~~~IvS~~~~~~~~~~l~~-------~gl~~~f~~~~~~~~~~~i~~~~~~~p~~k~~~l~~~~~~~~~ 146 (205)
T PRK13582 75 EFLDWLRER-FQVVILSDTFYEFAGPLMRQ-------LGWPTLFCHSLEVDEDGMITGYDLRQPDGKRQAVKALKSLGYR 146 (205)
T ss_pred HHHHHHHhc-CCEEEEeCCcHHHHHHHHHH-------cCCchhhcceEEECCCCeEECccccccchHHHHHHHHHHhCCe
Confidence 466778877 7888889998843 222222 23321 11111 112445667766777889
Q ss_pred EEEEccCCC-ccccchhcccc
Q 039912 99 TVVVGDIND-GALKRISYACF 118 (198)
Q Consensus 99 TVVVGd~~~-~~L~R~AD~~f 118 (198)
+|+|||+.. -...+.|++.+
T Consensus 147 ~v~iGDs~~D~~~~~aa~~~v 167 (205)
T PRK13582 147 VIAAGDSYNDTTMLGEADAGI 167 (205)
T ss_pred EEEEeCCHHHHHHHHhCCCCE
Confidence 999999741 12355555544
No 263
>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=51.07 E-value=80 Score=27.37 Aligned_cols=71 Identities=6% Similarity=-0.065 Sum_probs=49.8
Q ss_pred ccCCCCCCC------chhHhhhcceEEEe---cCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC
Q 039912 27 VLTPEVGNG------LIGELKRGGLWVRT---ASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL 97 (198)
Q Consensus 27 lltPkvgyG------La~ELrRAGv~Vrt---VsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l 97 (198)
++.+-.+|| +...|+.+|+-|-. ++-.|.+.|. -.++..+.+.+.+-|++.+-..+...+++.+|+.|+
T Consensus 137 ~i~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~~~d~--s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~ 214 (360)
T cd06357 137 LVGSNYIYPYESNRIMRDLLEQRGGEVLGERYLPLGASDEDF--ARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGF 214 (360)
T ss_pred EECCCCcchHHHHHHHHHHHHHcCCEEEEEEEecCCCchhhH--HHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCC
Confidence 444445665 55677778888642 2333446653 345555557799999999999999999999999999
Q ss_pred cE
Q 039912 98 KT 99 (198)
Q Consensus 98 ~T 99 (198)
..
T Consensus 215 ~~ 216 (360)
T cd06357 215 DP 216 (360)
T ss_pred Cc
Confidence 73
No 264
>PRK11914 diacylglycerol kinase; Reviewed
Probab=50.98 E-value=53 Score=28.32 Aligned_cols=75 Identities=15% Similarity=0.032 Sum_probs=46.1
Q ss_pred hHhhhcceEEEecCCCc-chHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCCCccccchhcc
Q 039912 38 GELKRGGLWVRTASDKP-QATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDINDGALKRISYA 116 (198)
Q Consensus 38 ~ELrRAGv~VrtVsdKP-qAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~ 116 (198)
..|+++|+-+..+...+ .-+. ++-+ .....+.+.||.+.-|--+.+++......++.--||--++.-.++|.-.+
T Consensus 33 ~~l~~~g~~~~~~~t~~~~~~~-~~a~---~~~~~~~d~vvv~GGDGTi~evv~~l~~~~~~lgiiP~GT~NdfAr~lg~ 108 (306)
T PRK11914 33 ARLHHRGVDVVEIVGTDAHDAR-HLVA---AALAKGTDALVVVGGDGVISNALQVLAGTDIPLGIIPAGTGNDHAREFGI 108 (306)
T ss_pred HHHHHcCCeEEEEEeCCHHHHH-HHHH---HHHhcCCCEEEEECCchHHHHHhHHhccCCCcEEEEeCCCcchhHHHcCC
Confidence 36788887665333322 2221 2222 23357788999999999988888777666665566655555567775443
No 265
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=50.69 E-value=44 Score=29.62 Aligned_cols=63 Identities=3% Similarity=0.041 Sum_probs=45.3
Q ss_pred hhhcceEE-----EecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEE----EEcc
Q 039912 40 LKRGGLWV-----RTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTV----VVGD 104 (198)
Q Consensus 40 LrRAGv~V-----rtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TV----VVGd 104 (198)
+++.|.-| +.+++.+.+. -....+..+.+.+.+.|||.+-.++-..+|+.|++.|+.+- ++|+
T Consensus 141 ~~~~g~~V~~~~~~~i~~~~~~~--d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~ 212 (370)
T cd06389 141 AAEKKWQVTAINVGNINNDRKDE--AYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIAN 212 (370)
T ss_pred hccCCceEEEEEeecCCCccchH--HHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCccccceEEEEcc
Confidence 44557443 3334444343 45555556667899999999999999999999999999766 6665
No 266
>PTZ00394 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=50.45 E-value=25 Score=34.77 Aligned_cols=47 Identities=13% Similarity=0.130 Sum_probs=37.7
Q ss_pred cEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhcccccH
Q 039912 74 EYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSW 120 (198)
Q Consensus 74 ~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW 120 (198)
+++|.+|-. .+-..+++.||++|.+||.|=...+..|.|.||..+.-
T Consensus 403 dlvI~ISqSGeT~dtl~Al~~Ak~~Ga~tIaITn~~~S~La~~AD~~l~~ 452 (670)
T PTZ00394 403 DVCFFVSQSGETADTLMALQLCKEAGAMCVGITNVVGSSISRLTHYAIHL 452 (670)
T ss_pred CEEEEEECCcCcHHHHHHHHHHHHCCCcEEEEECCCCCHHHHhcCeEEEe
Confidence 577888744 35566789999999999999877678999999987753
No 267
>cd02064 FAD_synthetase_N FAD synthetase, N-terminal domain of the bifunctional enzyme. FAD synthetase_N. N-terminal domain of the bifunctional riboflavin biosynthesis protein riboflavin kinase/FAD synthetase. These enzymes have both ATP:riboflavin 5'-phosphotransferase and ATP:FMN-adenylyltransferase activities. The N-terminal domain is believed to play a role in the adenylylation reaction of FAD synthetases. The C-terminal domain is thought to have kinase activity. FAD synthetase is present among all kingdoms of life. However, the bifunctional enzyme is not found in mammals, which use separate enzymes for FMN and FAD formation.
Probab=50.35 E-value=33 Score=27.77 Aligned_cols=46 Identities=28% Similarity=0.327 Sum_probs=31.1
Q ss_pred HHHHHHHHhhcCccEEEEEeCCcchH-----HHHHHH-HhcCCcEEEEccCC
Q 039912 61 LRNHLVITHKRRIEYLVVVSDDSDFV-----EVLLEA-NLRCLKTVVVGDIN 106 (198)
Q Consensus 61 Lkrhm~~m~~~gv~clvLVSDdsdF~-----~~Lr~A-r~r~l~TVVVGd~~ 106 (198)
++..+..+.+.||++++++.=+.+|. ++++.- ...+++.||||.-.
T Consensus 58 ~e~R~~~l~~l~vd~v~~~~f~~~~~~~s~~~Fi~~il~~~~~~~ivvG~Df 109 (180)
T cd02064 58 LEEKLELLESLGVDYLLVLPFDKEFASLSAEEFVEDLLVKLNAKHVVVGFDF 109 (180)
T ss_pred HHHHHHHHHHcCCCEEEEeCCCHHHHcCCHHHHHHHHHhhcCCeEEEEccCC
Confidence 45566677788999999987554333 333321 23389999999965
No 268
>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=49.97 E-value=46 Score=28.36 Aligned_cols=75 Identities=13% Similarity=0.075 Sum_probs=47.8
Q ss_pred ccCCCCCCC------chhHhhhcceEEEecCC-CcchHHHHHHHHHHHHhhcCccEEEEEeCCc-chHHHHHHHHhcCCc
Q 039912 27 VLTPEVGNG------LIGELKRGGLWVRTASD-KPQATDVLLRNHLVITHKRRIEYLVVVSDDS-DFVEVLLEANLRCLK 98 (198)
Q Consensus 27 lltPkvgyG------La~ELrRAGv~VrtVsd-KPqAAD~ALkrhm~~m~~~gv~clvLVSDds-dF~~~Lr~Ar~r~l~ 98 (198)
++.....|| +-..|+++|+-|-.... .|.+.| .-.++..+...+.+-|+++.... +|..+++.+++.++.
T Consensus 141 ~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d--~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~ 218 (333)
T cd06328 141 TLAQDYAFGRDGVAAFKAALEKLGAAIVTEEYAPTDTTD--FTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYG 218 (333)
T ss_pred EEecCccccHHHHHHHHHHHHhCCCEEeeeeeCCCCCcc--hHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCC
Confidence 344444554 34578888988854333 233443 34445555467888888875444 799999999998887
Q ss_pred -EEEEc
Q 039912 99 -TVVVG 103 (198)
Q Consensus 99 -TVVVG 103 (198)
++++|
T Consensus 219 ~~~~~~ 224 (333)
T cd06328 219 IEITLA 224 (333)
T ss_pred CeEEec
Confidence 44444
No 269
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=49.87 E-value=92 Score=26.33 Aligned_cols=67 Identities=13% Similarity=0.030 Sum_probs=38.9
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCc-EEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLK-TVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~-TVVVGd~ 105 (198)
|+..++++.|+.+-......... ...+.+..+...+++.|++++-+.+- +.+....+ ++. .|+|+..
T Consensus 80 gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vdgiIi~~~~~~~-~~~~~~~~-~~p~vV~i~~~ 147 (343)
T PRK10727 80 AVEQVAYHTGNFLLIGNGYHNEQ--KERQAIEQLIRHRCAALVVHAKMIPD-AELASLMK-QIPGMVLINRI 147 (343)
T ss_pred HHHHHHHHcCCEEEEEeCCCCHH--HHHHHHHHHHhcCCCEEEEecCCCCh-HHHHHHHh-cCCCEEEEecC
Confidence 67778889998876533221211 11233445668899999998753322 22333333 566 7888753
No 270
>cd02753 MopB_Formate-Dh-H Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is a monomer composed of a single polypeptide chain with a Mo active site region and a [4Fe-4S] center. Members of the MopB_Formate-Dh-H CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=49.74 E-value=26 Score=32.18 Aligned_cols=48 Identities=13% Similarity=0.176 Sum_probs=36.7
Q ss_pred cCccEEEEEeCCc-----chHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 71 RRIEYLVVVSDDS-----DFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 71 ~gv~clvLVSDds-----dF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
..-+|||++..|. .+..-++.|+++|.+.|||+=.. ......||.|++
T Consensus 155 ~~ad~il~~G~n~~~~~~~~~~~i~~a~~~G~k~i~Idp~~-s~ta~~Ad~~l~ 207 (512)
T cd02753 155 EEADVILVIGSNTTEAHPVIARRIKRAKRNGAKLIVADPRR-TELARFADLHLQ 207 (512)
T ss_pred HhCCEEEEECCChhhhhHHHHHHHHHHHHCCCeEEEEcCCC-ccchHhhCeeeC
Confidence 3568999987664 34455678899999999998654 567788999886
No 271
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=49.65 E-value=51 Score=28.91 Aligned_cols=63 Identities=17% Similarity=0.135 Sum_probs=43.2
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
+|...|+..|+-|...+ .+...+.-+...+..+.+.+ +-|++.....+...+++.|++.|+..
T Consensus 167 ~l~~~~~~~gi~v~~~~-~~~~~~~d~~~~l~~ik~~~-~iii~~~~~~~~~~i~~~a~~~g~~~ 229 (405)
T cd06385 167 GLYMELKKNNITVVDLV-FEEDDLINYTTLLQDIKQKG-RVIYVCCSPDIFRRLMLQFWREGLPS 229 (405)
T ss_pred HHHHHHHhCCeEEEEee-ccCCchhhHHHHHHHHhhcc-eEEEEeCCHHHHHHHHHHHHHcCCCC
Confidence 45668888898886433 33212334555665553444 77888888999999999999998864
No 272
>cd02759 MopB_Acetylene-hydratase The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=49.59 E-value=27 Score=32.09 Aligned_cols=48 Identities=19% Similarity=0.021 Sum_probs=37.2
Q ss_pred cCccEEEEEeCCc------chHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 71 RRIEYLVVVSDDS------DFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 71 ~gv~clvLVSDds------dF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
..-++||++.-|. .+...++.||++|.+-|||.-. .....+.||.|++
T Consensus 159 ~~ad~Il~~G~n~~~~~~~~~~~~~~~ar~~g~klividpr-~s~ta~~Ad~~l~ 212 (477)
T cd02759 159 ENPECIVLWGKNPLNSNLDLQGHWLVAAMKRGAKLIVVDPR-LTWLAARADLWLP 212 (477)
T ss_pred hcCCEEEEEccChhhhCcHHHHHHHHHHHHCCCEEEEECCC-CChhhHhhCeeec
Confidence 4678899998774 3455677899999988888654 3678899999986
No 273
>cd02751 MopB_DMSOR-like The MopB_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Also included in this group is the pyrogallol-phloroglucinol transhydroxylase from Pelobacter acidigallici. Members of the MopB_DMSOR-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=49.43 E-value=24 Score=33.60 Aligned_cols=47 Identities=6% Similarity=0.019 Sum_probs=36.0
Q ss_pred CccEEEEEeCCcc-------------hHHHHHHHHhcCCcEEEEccCCCccccc-hhccccc
Q 039912 72 RIEYLVVVSDDSD-------------FVEVLLEANLRCLKTVVVGDINDGALKR-ISYACFS 119 (198)
Q Consensus 72 gv~clvLVSDdsd-------------F~~~Lr~Ar~r~l~TVVVGd~~~~~L~R-~AD~~fs 119 (198)
.-+||+++.-|.- +...++.||++|.+-|||.=.- ....+ .||.|++
T Consensus 169 ~ad~il~wG~N~~~~~~~~~~~~~~~~~~~~~~a~~~GakiivIDPr~-s~ta~~~AD~~l~ 229 (609)
T cd02751 169 HSDLVVLFGANPLKTRQGGGGGPDHGSYYYLKQAKDAGVRFICIDPRY-TDTAAVLAAEWIP 229 (609)
T ss_pred cCCEEEEECCCHHHhcCCCCCccCcchHHHHHHHHHCCCeEEEECCCC-CccccccCCEEEC
Confidence 4899999976633 2368889999999999995543 45666 7999997
No 274
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=49.03 E-value=30 Score=30.11 Aligned_cols=63 Identities=14% Similarity=0.090 Sum_probs=37.8
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
+...|+..|+-|..+.-.|..+..-+...+..+...+ +.|++.+...+...+++.|++.|+..
T Consensus 166 ~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~ 228 (396)
T cd06373 166 VYTVLKEENITVSDFPFDEDKELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTS 228 (396)
T ss_pred HHHHHhhcCceeeEEeecCCccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCC
Confidence 3456666777664333222210112223333343455 88888888888899999999999864
No 275
>TIGR01990 bPGM beta-phosphoglucomutase. The enzyme from L. lactis has been extensively characterized including a remarkable crystal structure which traps the pentacoordinate transition state.
Probab=48.88 E-value=34 Score=26.15 Aligned_cols=21 Identities=29% Similarity=0.441 Sum_probs=15.7
Q ss_pred chhHhhhcceEEEecCCCcch
Q 039912 36 LIGELKRGGLWVRTASDKPQA 56 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqA 56 (198)
+-..|+.+|+.+-.+|.++.+
T Consensus 95 ~L~~L~~~g~~~~i~s~~~~~ 115 (185)
T TIGR01990 95 LLDDLKKNNIKIALASASKNA 115 (185)
T ss_pred HHHHHHHCCCeEEEEeCCccH
Confidence 346688999988888876653
No 276
>COG0205 PfkA 6-phosphofructokinase [Carbohydrate transport and metabolism]
Probab=48.67 E-value=97 Score=28.97 Aligned_cols=75 Identities=21% Similarity=0.200 Sum_probs=55.5
Q ss_pred cCCCCCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEE
Q 039912 28 LTPEVGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVV 102 (198)
Q Consensus 28 ltPkvgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVV 102 (198)
+.|--.+....-+.+.|....|-.-++-......+.-++.+.+.||++||.+--|--+....++|.+-++..|-|
T Consensus 50 i~~l~~~~v~~~~~~GGT~lgssR~~~~~~~e~~~~~~~~l~~~gId~LvvIGGDgS~~gA~~Lae~~~i~vVGv 124 (347)
T COG0205 50 IKPLTREDVDDLINRGGTFLGSARFPEFKTEEGRKVAAENLKKLGIDALVVIGGDGSYTGAALLAEEGGIPVVGV 124 (347)
T ss_pred ceeccccchhHHHhcCCeEEeeCCCCCcccHHHHHHHHHHHHHcCCCEEEEECCCChHHHHHHHHHhcCCcEEec
Confidence 444455566677889999998844443333334445555777999999999999999999999999988766655
No 277
>PRK09186 flagellin modification protein A; Provisional
Probab=48.54 E-value=32 Score=27.43 Aligned_cols=68 Identities=22% Similarity=0.234 Sum_probs=38.5
Q ss_pred CCCCCchhHhhhcceEEEecCCCcchHHHHHHHHHH-HHhhcCccEEEEEeCCcchH---HHHHHHHhc--CCcEEE
Q 039912 31 EVGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVVVSDDSDFV---EVLLEANLR--CLKTVV 101 (198)
Q Consensus 31 kvgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvLVSDdsdF~---~~Lr~Ar~r--~l~TVV 101 (198)
-+|..+|..|.+.|..|..+...|..++.++. .+. ......+. ++++|=++.. .++..+.+. .+..||
T Consensus 15 giG~~~a~~l~~~g~~v~~~~r~~~~~~~~~~-~l~~~~~~~~~~--~~~~Dl~d~~~~~~~~~~~~~~~~~id~vi 88 (256)
T PRK09186 15 LIGSALVKAILEAGGIVIAADIDKEALNELLE-SLGKEFKSKKLS--LVELDITDQESLEEFLSKSAEKYGKIDGAV 88 (256)
T ss_pred hHHHHHHHHHHHCCCEEEEEecChHHHHHHHH-HHHhhcCCCcee--EEEecCCCHHHHHHHHHHHHHHcCCccEEE
Confidence 35788999999999999887766665554443 232 11111222 3355655544 445544442 355555
No 278
>PF12745 HGTP_anticodon2: Anticodon binding domain of tRNAs; InterPro: IPR024435 This is an anticodon binding domain, found largely on Gcn2 proteins which bind tRNA to down regulate translation in certain stress situations [].; GO: 0000049 tRNA binding
Probab=47.92 E-value=18 Score=32.34 Aligned_cols=48 Identities=17% Similarity=0.291 Sum_probs=36.1
Q ss_pred CCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCc
Q 039912 32 VGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDS 83 (198)
Q Consensus 32 vgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDds 83 (198)
.|+.++.+|-.+|+..-++-+-.+-.+..+.. ....||.|||+|.+..
T Consensus 21 ~~~~iv~~LW~~gIsAd~~~~~~~S~Eel~~~----~~~~gi~wiViikq~~ 68 (273)
T PF12745_consen 21 EGIEIVQELWAAGISADLMYDASPSQEELQSY----CREDGISWIVIIKQKE 68 (273)
T ss_pred HHHHHHHHHHHCCCceEeccccCCCHHHHHHH----HHHCCCCEEEEEeccc
Confidence 47788999999999999977755444443333 3358999999999943
No 279
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=47.91 E-value=37 Score=29.46 Aligned_cols=81 Identities=27% Similarity=0.388 Sum_probs=55.8
Q ss_pred CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCCCccccchhcccccHHHHhhchhhhh
Q 039912 52 DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWWDILMGKARKE 131 (198)
Q Consensus 52 dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~eV~~Gka~k~ 131 (198)
-||-.. |+++.|..| +...+-++.| .|.=|+|+| -+.+.|++||.|==.. +-|.|.++
T Consensus 92 ~KP~~~--~fr~Al~~m-~l~~~~vvmV-GDqL~TDVl-ggnr~G~~tIlV~Pl~------~~d~~~t~----------- 149 (175)
T COG2179 92 KKPFGR--AFRRALKEM-NLPPEEVVMV-GDQLFTDVL-GGNRAGMRTILVEPLV------APDGWITK----------- 149 (175)
T ss_pred cCccHH--HHHHHHHHc-CCChhHEEEE-cchhhhhhh-cccccCcEEEEEEEec------cccchhhh-----------
Confidence 355554 888888888 5666665555 567899987 6888999999986542 23434443
Q ss_pred hhhhhccccccccchhcccccChhhhh
Q 039912 132 AVSVVGKWKDGDVLKRLEWTYDPEVEK 158 (198)
Q Consensus 132 A~~~~g~W~d~dvlk~lew~y~pe~e~ 158 (198)
..+|.-+-++++|.=.|.|...+
T Consensus 150 ----~nR~~Er~v~~~l~~k~g~i~~k 172 (175)
T COG2179 150 ----INRWRERRVLKKLGKKYGPIHWK 172 (175)
T ss_pred ----hhHHHHHHHHHHHHHhcCCcccc
Confidence 35677777888888777775543
No 280
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=47.88 E-value=78 Score=28.13 Aligned_cols=46 Identities=22% Similarity=0.360 Sum_probs=32.1
Q ss_pred HHhhcCccEEEEEeCCc-chHHHHHHHHhcCCcEEEEccCCCccccch
Q 039912 67 ITHKRRIEYLVVVSDDS-DFVEVLLEANLRCLKTVVVGDINDGALKRI 113 (198)
Q Consensus 67 ~m~~~gv~clvLVSDds-dF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~ 113 (198)
-+.+.|.+-.+.++-.. +=.++.+.|...++.+|+++.++ |.+...
T Consensus 28 ~l~~~g~~~~~~~t~~~g~a~~~a~~a~~~~~D~via~GGD-GTv~ev 74 (301)
T COG1597 28 LLEEAGHELSVRVTEEAGDAIEIAREAAVEGYDTVIAAGGD-GTVNEV 74 (301)
T ss_pred HHHhcCCeEEEEEeecCccHHHHHHHHHhcCCCEEEEecCc-chHHHH
Confidence 55567777777777666 66677777777788888888775 555433
No 281
>cd02170 cytidylyltransferase cytidylyltransferase. The cytidylyltransferase family includes cholinephosphate cytidylyltransferase (CCT), glycerol-3-phosphate cytidylyltransferase, RafE and phosphoethanolamine cytidylyltransferase (ECT). All enzymes catalyze the transfer of a cytidylyl group from CTP to various substrates.
Probab=47.84 E-value=54 Score=24.94 Aligned_cols=32 Identities=13% Similarity=0.173 Sum_probs=23.9
Q ss_pred cCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 71 RRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 71 ~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
++|+.+++.+ ..+|...|. +....+||+|+-.
T Consensus 63 ~~vd~v~~~~-~~~~~~~l~---~~~~~~vv~G~d~ 94 (136)
T cd02170 63 KYVDEVILGH-PWSYFKPLE---ELKPDVIVLGDDQ 94 (136)
T ss_pred CCcCEEEECC-CCCHhHHHH---HHCCCEEEECCCC
Confidence 4999887775 558888763 4556899999865
No 282
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=47.54 E-value=74 Score=31.10 Aligned_cols=69 Identities=13% Similarity=0.193 Sum_probs=46.7
Q ss_pred hHhhhcceEEEecCCCcchH-----HHHHHHHHH-HHhhcCccEEEEEeCCcc-h----HHHHHHHHhc-C----C---c
Q 039912 38 GELKRGGLWVRTASDKPQAT-----DVLLRNHLV-ITHKRRIEYLVVVSDDSD-F----VEVLLEANLR-C----L---K 98 (198)
Q Consensus 38 ~ELrRAGv~VrtVsdKPqAA-----D~ALkrhm~-~m~~~gv~clvLVSDdsd-F----~~~Lr~Ar~r-~----l---~ 98 (198)
.+|+.+|+.+-.++.+++-+ -..++.+|. .+...|+.--++++-+.+ + .+|+..+-++ + + +
T Consensus 207 ~~L~~~Gy~IvIvTNQ~gI~~G~~~~~~~~~ki~~iL~~lgipfdviia~~~~~~RKP~pGm~~~a~~~~~~~~~Id~~~ 286 (526)
T TIGR01663 207 KELEADGFKICIFTNQGGIARGKINADDFKAKIEAIVAKLGVPFQVFIAIGAGFYRKPLTGMWDHLKEEANDGTEIQEDD 286 (526)
T ss_pred HHHHHCCCEEEEEECCcccccCcccHHHHHHHHHHHHHHcCCceEEEEeCCCCCCCCCCHHHHHHHHHhcCcccCCCHHH
Confidence 56788999999999999831 234555666 566677765555555433 2 4777776653 2 3 7
Q ss_pred EEEEccCC
Q 039912 99 TVVVGDIN 106 (198)
Q Consensus 99 TVVVGd~~ 106 (198)
++.|||..
T Consensus 287 S~~VGDaa 294 (526)
T TIGR01663 287 CFFVGDAA 294 (526)
T ss_pred eEEeCCcc
Confidence 99999974
No 283
>PTZ00295 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=47.48 E-value=30 Score=33.54 Aligned_cols=47 Identities=17% Similarity=0.106 Sum_probs=39.0
Q ss_pred cEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchhcccccH
Q 039912 74 EYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSW 120 (198)
Q Consensus 74 ~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW 120 (198)
+.++.||-. .+-..+++.||++|..||.|-...+..|.|.||..+.-
T Consensus 371 ~lvI~ISqSGeT~d~i~al~~ak~~Ga~~IaITn~~~S~La~~ad~~l~~ 420 (640)
T PTZ00295 371 AGVIFISQSGETLDVVRALNLADELNLPKISVVNTVGSLIARSTDCGVYL 420 (640)
T ss_pred CEEEEEeCCCCcHHHHHHHHHHHHCCCCEEEEECCCCChhHHhcCEEEEe
Confidence 567888754 46677888999999999999887778999999998875
No 284
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=47.47 E-value=1.1e+02 Score=25.01 Aligned_cols=67 Identities=15% Similarity=0.176 Sum_probs=38.6
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC-cEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL-KTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l-~TVVVGd~ 105 (198)
|+..++++.|+-+.+.....+.. --..++..+..++++.|++.+-+.++. .+.. .++++ -.|++++.
T Consensus 56 gi~~~~~~~g~~~~~~~~~~~~~--~~~~~i~~l~~~~vDgiIi~~~~~~~~-~~~~-~~~~~~pvv~~~~~ 123 (309)
T PRK11041 56 GIEVTAAEHGYLVLIGDCAHQNQ--QEKTFVNLIITKQIDGMLLLGSRLPFD-ASKE-EQRNLPPMVMANEF 123 (309)
T ss_pred HHHHHHHHCCCEEEEEeCCCChH--HHHHHHHHHHHcCCCEEEEecCCCChH-HHHH-HHhcCCCEEEEccc
Confidence 77888888998887643222211 112344466688999999986544433 2222 23444 46666653
No 285
>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=47.42 E-value=45 Score=26.66 Aligned_cols=64 Identities=13% Similarity=0.139 Sum_probs=37.5
Q ss_pred CCchhHhhhcceE----EE----ecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 34 NGLIGELKRGGLW----VR----TASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 34 yGLa~ELrRAGv~----Vr----tVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
.|+..++.++|+. |. .-...|+-+ .+.+..+.+.+++-||+++.++. ..+. ++..++..|.+|.
T Consensus 18 ~gi~~~~~~~g~~~g~~v~l~~~~~~~~~~~~----~~~~~~l~~~~vd~iI~~~~~~~--~~~~-~~~~~iPvV~~~~ 89 (281)
T cd06325 18 KGFKDGLKEAGYKEGKNVKIDYQNAQGDQSNL----PTIARKFVADKPDLIVAIATPAA--QAAA-NATKDIPIVFTAV 89 (281)
T ss_pred HHHHHHHHHhCccCCceEEEEEecCCCCHHHH----HHHHHHHHhcCCCEEEEcCcHHH--HHHH-HcCCCCCEEEEec
Confidence 3778899999962 22 112223222 22333455779999999876532 2222 5567888888873
No 286
>PF05991 NYN_YacP: YacP-like NYN domain; InterPro: IPR010298 This family consists of several hypothetical bacterial proteins as well as some uncharacterised sequences from Arabidopsis thaliana. The function of this family is unknown.
Probab=47.36 E-value=84 Score=25.66 Aligned_cols=60 Identities=22% Similarity=0.170 Sum_probs=38.5
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEE
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTV 100 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TV 100 (198)
....-.-+|+.|-- +...+-||..+++.+......+-.++|.-||. .+-+.|+.+|...+
T Consensus 59 ~~~~~~~~gi~Vvf-t~~~~tAD~~Ie~~v~~~~~~~~~v~VVTSD~----~iq~~~~~~GA~~i 118 (166)
T PF05991_consen 59 SEEREEYGGIEVVF-TKEGETADDYIERLVRELKNRPRQVTVVTSDR----EIQRAARGRGAKRI 118 (166)
T ss_pred CceeeeeCceEEEE-CCCCCCHHHHHHHHHHHhccCCCeEEEEeCCH----HHHHHHhhCCCEEE
Confidence 33333446999887 67789999999998888755465555554543 23445555555443
No 287
>cd02765 MopB_4 The MopB_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins
Probab=47.35 E-value=30 Score=32.90 Aligned_cols=73 Identities=15% Similarity=0.169 Sum_probs=48.5
Q ss_pred cCccEEEEEeCCc-----chHHHHHHHHhcCCcEEEEccCCCccccchhcccccHH-----HHhhchhhhhhhhhhcccc
Q 039912 71 RRIEYLVVVSDDS-----DFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWW-----DILMGKARKEAVSVVGKWK 140 (198)
Q Consensus 71 ~gv~clvLVSDds-----dF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~-----eV~~Gka~k~A~~~~g~W~ 140 (198)
..-+|||++.-|. -+...++.||++|.+.|||.=. .....+.||.|++=. -+.+|-+..-- ...|-
T Consensus 158 ~~ad~il~~G~Np~~s~~~~~~~~~~a~~~GakliviDPr-~s~ta~~Ad~~l~irPGTD~al~~am~~~ii---~~~l~ 233 (567)
T cd02765 158 VNAKTIIIWGSNILETQFQDAEFFLDARENGAKIVVIDPV-YSTTAAKADQWVPIRPGTDPALALGMINYIL---EHNWY 233 (567)
T ss_pred hcCcEEEEECCChHHccchhHHHHHHHHHcCCeEEEECCC-CCcchhhcCEEeccCCCchHHHHHHHHHHHH---hcCcc
Confidence 3678999988774 2446667899999999999654 367889999998633 22333332222 23466
Q ss_pred ccccchh
Q 039912 141 DGDVLKR 147 (198)
Q Consensus 141 d~dvlk~ 147 (198)
|++++++
T Consensus 234 D~~Fi~~ 240 (567)
T cd02765 234 DEAFLKS 240 (567)
T ss_pred cHHHHHh
Confidence 7777763
No 288
>TIGR01490 HAD-SF-IB-hyp1 HAD-superfamily subfamily IB hydrolase, TIGR01490. A subset of these sequences, including the Caulobacter crescentus CicA protein, cluster together and may represent a separate equivalog.
Probab=47.32 E-value=62 Score=25.32 Aligned_cols=63 Identities=13% Similarity=0.001 Sum_probs=35.5
Q ss_pred hHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEE---EEe-CCcchH--------------H-HHHHHHhcCC-
Q 039912 38 GELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLV---VVS-DDSDFV--------------E-VLLEANLRCL- 97 (198)
Q Consensus 38 ~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clv---LVS-DdsdF~--------------~-~Lr~Ar~r~l- 97 (198)
..|++.|+.|-.+|..|+..=..+-+ ..|++.++ ++. ++-.|+ . +.+...+.++
T Consensus 97 ~~l~~~g~~v~ivS~s~~~~v~~~~~------~lg~~~~~~~~l~~~~~g~~~g~~~~~~~~g~~K~~~l~~~~~~~~~~ 170 (202)
T TIGR01490 97 RWHKAEGHTIVLVSASLTILVKPLAR------ILGIDNAIGTRLEESEDGIYTGNIDGNNCKGEGKVHALAELLAEEQID 170 (202)
T ss_pred HHHHHCCCEEEEEeCCcHHHHHHHHH------HcCCcceEecceEEcCCCEEeCCccCCCCCChHHHHHHHHHHHHcCCC
Confidence 34578899999999988742112222 24665443 333 432222 1 3334455676
Q ss_pred --cEEEEccCC
Q 039912 98 --KTVVVGDIN 106 (198)
Q Consensus 98 --~TVVVGd~~ 106 (198)
.++.|||+.
T Consensus 171 ~~~~~~~gDs~ 181 (202)
T TIGR01490 171 LKDSYAYGDSI 181 (202)
T ss_pred HHHcEeeeCCc
Confidence 578999964
No 289
>TIGR02253 CTE7 HAD superfamily (subfamily IA) hydrolase, TIGR02253. This family is a member of the haloacid dehalogenase (HAD) superfamily of hydrolases which are characterized by three conserved sequence motifs. By virtue of an alpha helical domain in-between the first and second conserved motif, this family is a member of subfamily IA (TIGR01549).
Probab=47.23 E-value=74 Score=25.18 Aligned_cols=66 Identities=17% Similarity=0.127 Sum_probs=37.5
Q ss_pred chhHhhhcceEEEecCCCcc-hHHHHHHHHHHHHhhcCccEEEEEeCCcc-----hHHHHHHHHhcCC---cEEEEccC
Q 039912 36 LIGELKRGGLWVRTASDKPQ-ATDVLLRNHLVITHKRRIEYLVVVSDDSD-----FVEVLLEANLRCL---KTVVVGDI 105 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPq-AAD~ALkrhm~~m~~~gv~clvLVSDdsd-----F~~~Lr~Ar~r~l---~TVVVGd~ 105 (198)
+-..|+..|+.+=.||..+. .+...|+++- + ..-.+. ++.|++.. =..++..+++.|+ ++|+|||.
T Consensus 102 ~L~~L~~~g~~~~i~Tn~~~~~~~~~l~~~~--l-~~~f~~-i~~~~~~~~~KP~~~~~~~~~~~~~~~~~~~~~igDs 176 (221)
T TIGR02253 102 TLMELRESGYRLGIITDGLPVKQWEKLERLG--V-RDFFDA-VITSEEEGVEKPHPKIFYAALKRLGVKPEEAVMVGDR 176 (221)
T ss_pred HHHHHHHCCCEEEEEeCCchHHHHHHHHhCC--h-HHhccE-EEEeccCCCCCCCHHHHHHHHHHcCCChhhEEEECCC
Confidence 45678889999999998875 3333333311 0 111233 44555432 1234444555666 58999997
No 290
>cd00609 AAT_like Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the substrate in four kinds of reactions (1) transamination (movement of amino groups), (2) racemization (redistribution of enantiomers), (3) decarboxylation (removing COOH groups), and (4) various side-chain reactions depending on the enzyme involved. Pyridoxal phosphate (PLP) dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalyzed. The availability of several structures allowed a comprehensive analysis of the evolutionary classification of PLP dependent enzymes, and it was found that the functional classification did not always agree with the evolutionary hi
Probab=47.22 E-value=46 Score=27.25 Aligned_cols=76 Identities=13% Similarity=0.080 Sum_probs=47.0
Q ss_pred hccCCCCCCC-chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCc---------chHHHHHHHHhc
Q 039912 26 AVLTPEVGNG-LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDS---------DFVEVLLEANLR 95 (198)
Q Consensus 26 ~lltPkvgyG-La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDds---------dF~~~Lr~Ar~r 95 (198)
.++.|.-+|+ ....+++.|+.+..++-.+.-...-.+..+.......+.++++++-.. ++..++..|++.
T Consensus 85 ~vl~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~v~i~~~~~~tG~~~~~~~l~~l~~~~~~~ 164 (350)
T cd00609 85 EVLVPDPTYPGYEAAARLAGAEVVPVPLDEEGGFLLDLELLEAAKTPKTKLLYLNNPNNPTGAVLSEEELEELAELAKKH 164 (350)
T ss_pred EEEEcCCCchhHHHHHHHCCCEEEEEecccccCCccCHHHHHhhcCccceEEEEECCCCCCCcccCHHHHHHHHHHHHhC
Confidence 4666666554 788889999888877665543221101222233356788888766322 466667889988
Q ss_pred CCcEEE
Q 039912 96 CLKTVV 101 (198)
Q Consensus 96 ~l~TVV 101 (198)
|+..+|
T Consensus 165 ~~~~iv 170 (350)
T cd00609 165 GILIIS 170 (350)
T ss_pred CeEEEE
Confidence 876544
No 291
>PRK06769 hypothetical protein; Validated
Probab=47.13 E-value=1.1e+02 Score=24.34 Aligned_cols=68 Identities=16% Similarity=0.185 Sum_probs=38.7
Q ss_pred chhHhhhcceEEEecCCCcchH-----HHHHHHHHHHHhhcCccEEEEEe----CC----cchHHHHHHH-HhcCC---c
Q 039912 36 LIGELKRGGLWVRTASDKPQAT-----DVLLRNHLVITHKRRIEYLVVVS----DD----SDFVEVLLEA-NLRCL---K 98 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAA-----D~ALkrhm~~m~~~gv~clvLVS----Dd----sdF~~~Lr~A-r~r~l---~ 98 (198)
+-..|+..|+.+=.+|.+|..+ -..+..+ +...|++-++..+ ++ .-..+++..| ++-|+ .
T Consensus 36 ~L~~Lk~~G~~l~I~Tn~~~~~~~~~~~~~~~~~---l~~~g~~~~~~~~~~~~~~~~~~KP~p~~~~~~~~~l~~~p~~ 112 (173)
T PRK06769 36 SLQKLKANHIKIFSFTNQPGIADGIATIADFVQE---LKGFGFDDIYLCPHKHGDGCECRKPSTGMLLQAAEKHGLDLTQ 112 (173)
T ss_pred HHHHHHHCCCEEEEEECCchhcCCcCCHHHHHHH---HHhCCcCEEEECcCCCCCCCCCCCCCHHHHHHHHHHcCCCHHH
Confidence 4458888899888888887421 1122222 3356787655432 22 2233454444 44454 5
Q ss_pred EEEEccCC
Q 039912 99 TVVVGDIN 106 (198)
Q Consensus 99 TVVVGd~~ 106 (198)
+++|||..
T Consensus 113 ~i~IGD~~ 120 (173)
T PRK06769 113 CAVIGDRW 120 (173)
T ss_pred eEEEcCCH
Confidence 89999963
No 292
>TIGR01691 enolase-ppase 2,3-diketo-5-methylthio-1-phosphopentane phosphatase. This enzyme is the enolase-phosphatase of methionine salvage, a pathway that regenerates methionine from methylthioadenosine (MTA). Adenosylmethionine (AdoMet) is a donor of different moieties for various processes, including methylation reactions. Use of AdoMet for spermidine biosynthesis, which leads to polyamine biosynthesis, leaves MTA as a by-product that must be cleared. In Bacillus subtilis and related species, this single protein is replaced by separate enzymes with enolase and phosphatase activities.
Probab=47.02 E-value=75 Score=27.07 Aligned_cols=25 Identities=24% Similarity=0.077 Sum_probs=14.9
Q ss_pred EEEEeCCcchHHHHHHHHhcCCcEEEEc
Q 039912 76 LVVVSDDSDFVEVLLEANLRCLKTVVVG 103 (198)
Q Consensus 76 lvLVSDdsdF~~~Lr~Ar~r~l~TVVVG 103 (198)
++.|+|.. .=+..|++.|++||.|-
T Consensus 172 ~lfVgDs~---~Di~AA~~AG~~ti~v~ 196 (220)
T TIGR01691 172 ILFLSDII---NELDAARKAGLHTGQLV 196 (220)
T ss_pred EEEEeCCH---HHHHHHHHcCCEEEEEE
Confidence 55666552 33556777777776663
No 293
>COG0300 DltE Short-chain dehydrogenases of various substrate specificities [General function prediction only]
Probab=47.02 E-value=37 Score=30.46 Aligned_cols=87 Identities=20% Similarity=0.102 Sum_probs=59.2
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh---c-CCcEEEEccCCCc
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL---R-CLKTVVVGDINDG 108 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~---r-~l~TVVVGd~~~~ 108 (198)
|+.+|..|.|-|+.|-.|...-..- .+|.++++.. -|++|.|+..|=++..++.+...+ + +-=+|.|=.--=+
T Consensus 19 G~~~A~~lA~~g~~liLvaR~~~kL-~~la~~l~~~--~~v~v~vi~~DLs~~~~~~~l~~~l~~~~~~IdvLVNNAG~g 95 (265)
T COG0300 19 GAELAKQLARRGYNLILVARREDKL-EALAKELEDK--TGVEVEVIPADLSDPEALERLEDELKERGGPIDVLVNNAGFG 95 (265)
T ss_pred HHHHHHHHHHCCCEEEEEeCcHHHH-HHHHHHHHHh--hCceEEEEECcCCChhHHHHHHHHHHhcCCcccEEEECCCcC
Confidence 8899999999999999988755544 5677777754 389999999998888888776665 3 1224444331113
Q ss_pred cccchhcccccHHHHh
Q 039912 109 ALKRISYACFSWWDIL 124 (198)
Q Consensus 109 ~L~R~AD~~fsW~eV~ 124 (198)
..+..++ +||++.+
T Consensus 96 ~~g~f~~--~~~~~~~ 109 (265)
T COG0300 96 TFGPFLE--LSLDEEE 109 (265)
T ss_pred Cccchhh--CChHHHH
Confidence 3444443 5676653
No 294
>PRK13337 putative lipid kinase; Reviewed
Probab=46.96 E-value=77 Score=27.45 Aligned_cols=82 Identities=11% Similarity=0.102 Sum_probs=49.6
Q ss_pred hhHhhhcceEEEecC-CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC--cEEEEccCCCccccch
Q 039912 37 IGELKRGGLWVRTAS-DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL--KTVVVGDINDGALKRI 113 (198)
Q Consensus 37 a~ELrRAGv~VrtVs-dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l--~TVVVGd~~~~~L~R~ 113 (198)
...|+.+|+-+..+. ..+.-+....++ ....+.+.||.+.-|=-..+++.-....+- .--||=-++.-.+.|.
T Consensus 25 ~~~l~~~~~~~~~~~t~~~~~a~~~a~~----~~~~~~d~vvv~GGDGTl~~vv~gl~~~~~~~~lgiiP~GT~NdfAr~ 100 (304)
T PRK13337 25 LQKLEQAGYETSAHATTGPGDATLAAER----AVERKFDLVIAAGGDGTLNEVVNGIAEKENRPKLGIIPVGTTNDFARA 100 (304)
T ss_pred HHHHHHcCCEEEEEEecCCCCHHHHHHH----HHhcCCCEEEEEcCCCHHHHHHHHHhhCCCCCcEEEECCcCHhHHHHH
Confidence 346888998755332 223333233332 225678999999999999999986544332 2234443344468887
Q ss_pred hcccccHHH
Q 039912 114 SYACFSWWD 122 (198)
Q Consensus 114 AD~~fsW~e 122 (198)
-.+-.++++
T Consensus 101 lgi~~~~~~ 109 (304)
T PRK13337 101 LHVPRDIEK 109 (304)
T ss_pred cCCCCCHHH
Confidence 777666665
No 295
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=46.94 E-value=57 Score=21.84 Aligned_cols=44 Identities=20% Similarity=0.104 Sum_probs=28.0
Q ss_pred HHHHHHHHHhhcCccEEEEEeCC-cchHHHHHHHHhcCCcEEEEccC
Q 039912 60 LLRNHLVITHKRRIEYLVVVSDD-SDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 60 ALkrhm~~m~~~gv~clvLVSDd-sdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
-++++|..| ..| +.|.+.+|+ .-..++.+.+++.|.+-+.+=+.
T Consensus 15 ~~~~~l~~l-~~g-~~l~v~~d~~~~~~~i~~~~~~~g~~~~~~~~~ 59 (69)
T cd00291 15 KTKKALEKL-KSG-EVLEVLLDDPGAVEDIPAWAKETGHEVLEVEEE 59 (69)
T ss_pred HHHHHHhcC-CCC-CEEEEEecCCcHHHHHHHHHHHcCCEEEEEEEe
Confidence 355666655 333 445555555 55788888899999986665443
No 296
>PF02254 TrkA_N: TrkA-N domain; InterPro: IPR003148 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus. The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the N-terminal subdomain of RCK.; GO: 0006813 potassium ion transport; PDB: 3L4B_E 1LSS_C 3LLV_A 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A 2AEJ_A 3RBZ_A ....
Probab=46.89 E-value=22 Score=25.58 Aligned_cols=61 Identities=28% Similarity=0.375 Sum_probs=34.7
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
|+.++..|++.|.-|..+...|+..+.+... |+. .+..|..=.++|+.|.-...++||+.-
T Consensus 10 ~~~i~~~L~~~~~~vvvid~d~~~~~~~~~~--------~~~---~i~gd~~~~~~l~~a~i~~a~~vv~~~ 70 (116)
T PF02254_consen 10 GREIAEQLKEGGIDVVVIDRDPERVEELREE--------GVE---VIYGDATDPEVLERAGIEKADAVVILT 70 (116)
T ss_dssp HHHHHHHHHHTTSEEEEEESSHHHHHHHHHT--------TSE---EEES-TTSHHHHHHTTGGCESEEEEES
T ss_pred HHHHHHHHHhCCCEEEEEECCcHHHHHHHhc--------ccc---cccccchhhhHHhhcCccccCEEEEcc
Confidence 4557888999777888888888876554432 322 233333334444444444444444443
No 297
>COG1712 Predicted dinucleotide-utilizing enzyme [General function prediction only]
Probab=46.76 E-value=1.1e+02 Score=28.16 Aligned_cols=90 Identities=21% Similarity=0.120 Sum_probs=61.5
Q ss_pred hhhhhhhhhhhhHHHHHHHHhccCCCCCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEE-e--CC
Q 039912 6 RVHWVGKYSIKMEKYKRAARAVLTPEVGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVV-S--DD 82 (198)
Q Consensus 6 R~k~~~k~~~K~~KY~~AAr~lltPkvgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLV-S--Dd 82 (198)
+.++..-|-.-++|-+++++.+-.+.+ --|..-+.+.-+-|.- |+-.|++.|....-++|++|||+- . -|
T Consensus 25 ~~e~v~v~D~~~ek~~~~~~~~~~~~~-s~ide~~~~~DlvVEa------AS~~Av~e~~~~~L~~g~d~iV~SVGALad 97 (255)
T COG1712 25 DFELVAVYDRDEEKAKELEASVGRRCV-SDIDELIAEVDLVVEA------ASPEAVREYVPKILKAGIDVIVMSVGALAD 97 (255)
T ss_pred ceeEEEEecCCHHHHHHHHhhcCCCcc-ccHHHHhhccceeeee------CCHHHHHHHhHHHHhcCCCEEEEechhccC
Confidence 344555566677888888887777777 4454444666666665 334788999996669999998862 1 27
Q ss_pred cchHHHHHHHHhcCCcEEEE
Q 039912 83 SDFVEVLLEANLRCLKTVVV 102 (198)
Q Consensus 83 sdF~~~Lr~Ar~r~l~TVVV 102 (198)
..|.+.|+.+-+.+=++|-+
T Consensus 98 ~~l~erl~~lak~~~~rv~~ 117 (255)
T COG1712 98 EGLRERLRELAKCGGARVYL 117 (255)
T ss_pred hHHHHHHHHHHhcCCcEEEe
Confidence 78888887766666565543
No 298
>cd06364 PBP1_CaSR Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. CaSR provides feedback control of extracellular calcium homeostasis by responding sensitively to acute fluctuations in extracellular ionized Ca2+ concentration. This ligand-binding domain has homology to the bacterial leucine-isoleucine-valine binding protein (LIVBP) and a leucine binding protein (LBP). CaSR is widely expressed in mammalian tissues and is active in tissues that are not directly involved in extracellular calcium homeostasis. Moreover, CaSR responds to aromatic, aliphatic, and polar amino acids, but not to positively charged or branched chain amino acids, which suggests that changes in plasma amino acid levels are likely to modulate whole body calci
Probab=46.57 E-value=50 Score=30.99 Aligned_cols=77 Identities=12% Similarity=0.175 Sum_probs=51.7
Q ss_pred hccCCCCCCCc------hhHhhhcceEEEe---cCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcC
Q 039912 26 AVLTPEVGNGL------IGELKRGGLWVRT---ASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRC 96 (198)
Q Consensus 26 ~lltPkvgyGL------a~ELrRAGv~Vrt---VsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~ 96 (198)
.++.+...||. ..++++.|+-|-. ++..+... -+.+.+..+...+.+-||+.+...+...+++.|+++|
T Consensus 191 aiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~~~~~--d~~~~l~klk~~~a~vVvl~~~~~~~~~ll~qa~~~g 268 (510)
T cd06364 191 GTIAADDDYGRPGIEKFREEAEERDICIDFSELISQYSDEE--EIQRVVEVIQNSTAKVIVVFSSGPDLEPLIKEIVRRN 268 (510)
T ss_pred EEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCCCCHH--HHHHHHHHHHhcCCeEEEEEeCcHHHHHHHHHHHHhC
Confidence 45556667774 3567788987743 33322233 3444554554568999999999999999999999999
Q ss_pred CcE-EEEcc
Q 039912 97 LKT-VVVGD 104 (198)
Q Consensus 97 l~T-VVVGd 104 (198)
+.- +.||.
T Consensus 269 ~~~~iwI~s 277 (510)
T cd06364 269 ITGKIWLAS 277 (510)
T ss_pred CCCcEEEEE
Confidence 853 33444
No 299
>PRK06947 glucose-1-dehydrogenase; Provisional
Probab=46.28 E-value=81 Score=25.10 Aligned_cols=59 Identities=14% Similarity=0.035 Sum_probs=36.3
Q ss_pred CCCCCchhHhhhcceEEEec-CCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHH
Q 039912 31 EVGNGLIGELKRGGLWVRTA-SDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEAN 93 (198)
Q Consensus 31 kvgyGLa~ELrRAGv~VrtV-sdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar 93 (198)
-+|+.++..|.+.|..|-.+ ...|+.+ .++..++. ..+..+..+.+|-++...+.+...
T Consensus 13 giG~~la~~l~~~g~~v~~~~~~~~~~~-~~~~~~~~---~~~~~~~~~~~Dl~~~~~~~~~~~ 72 (248)
T PRK06947 13 GIGRATAVLAAARGWSVGINYARDAAAA-EETADAVR---AAGGRACVVAGDVANEADVIAMFD 72 (248)
T ss_pred cHHHHHHHHHHHCCCEEEEEeCCCHHHH-HHHHHHHH---hcCCcEEEEEeccCCHHHHHHHHH
Confidence 35788999999999988643 3444433 23444443 335566677777777666555443
No 300
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=46.22 E-value=8 Score=32.55 Aligned_cols=78 Identities=19% Similarity=0.140 Sum_probs=48.5
Q ss_pred CCCchhHhhhcceEEEecC---CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc--hHHHHHHHHh--cCCcEEEEccC
Q 039912 33 GNGLIGELKRGGLWVRTAS---DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD--FVEVLLEANL--RCLKTVVVGDI 105 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVs---dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd--F~~~Lr~Ar~--r~l~TVVVGd~ 105 (198)
+..|+..|+..|+.|-.++ =.|......+...+..+ ...+|||++|-+.- |.+.|+.+.. ++++...||..
T Consensus 15 ~~~l~~~l~~~G~~~~~~P~i~i~p~~~~~~~~~~l~~l--~~~d~iifTS~naV~~~~~~l~~~~~~~~~~~~~aVG~~ 92 (255)
T PRK05752 15 CAALAASLAEAGIFSSSLPLLAIEPLPETPEQRALLLEL--DRYCAVIVVSKPAARLGLELLDRYWPQPPQQPWFSVGAA 92 (255)
T ss_pred HHHHHHHHHHcCCCEEEcCcEEEeeCCCCHHHHHHHhcC--CCCCEEEEECHHHHHHHHHHHHhhCCCCcCCEEEEECHH
Confidence 5678999999999986431 12222112333333333 37899999998763 4444443321 35788899998
Q ss_pred CCccccc
Q 039912 106 NDGALKR 112 (198)
Q Consensus 106 ~~~~L~R 112 (198)
+..+|..
T Consensus 93 Ta~al~~ 99 (255)
T PRK05752 93 TAAILQD 99 (255)
T ss_pred HHHHHHH
Confidence 8766654
No 301
>PRK05967 cystathionine beta-lyase; Provisional
Probab=46.18 E-value=47 Score=30.80 Aligned_cols=69 Identities=12% Similarity=0.006 Sum_probs=44.5
Q ss_pred hccCCCCCCCchh-----HhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEe------CCcchHHHHHHHHh
Q 039912 26 AVLTPEVGNGLIG-----ELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVS------DDSDFVEVLLEANL 94 (198)
Q Consensus 26 ~lltPkvgyGLa~-----ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVS------DdsdF~~~Lr~Ar~ 94 (198)
.|++|..+||... -++|.|+.|+.+...+ ..+|++.+ ..+...|++-| .-.|+..+.+.|++
T Consensus 105 ~Vlv~~~~Y~~~~~l~~~~l~~~Gi~v~~vd~~~---~e~l~~al----~~~TklV~lesPsNP~l~v~dl~~I~~la~~ 177 (395)
T PRK05967 105 HALIVDSVYYPTRHFCDTMLKRLGVEVEYYDPEI---GAGIAKLM----RPNTKVVHTEAPGSNTFEMQDIPAIAEAAHR 177 (395)
T ss_pred EEEEccCCcHHHHHHHHHHHHhcCeEEEEeCCCC---HHHHHHhc----CcCceEEEEECCCCCCCcHHHHHHHHHHHHH
Confidence 4677777998754 4689999999984321 13344433 33444444443 44578889999999
Q ss_pred cCCcEEE
Q 039912 95 RCLKTVV 101 (198)
Q Consensus 95 r~l~TVV 101 (198)
+|+-.||
T Consensus 178 ~g~~vvV 184 (395)
T PRK05967 178 HGAIVMM 184 (395)
T ss_pred hCCEEEE
Confidence 9875444
No 302
>cd08182 HEPD Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP). Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP) with either NADH or NADPH as a cofactor. NADH is the preferred cofactor. PnAA is a biosynthetic intermediate for several phosphonates such as the antibiotic fosfomycin, phosphinothricin tripeptide (PTT), and 2-aminoethylphosphonate (AEP). This enzyme is named PhpC in PTT biosynthesis pathway in Streptomyces hygroscopicus and S. viridochromogenes. Members of this family are only found in bacteria.
Probab=45.96 E-value=96 Score=27.71 Aligned_cols=74 Identities=18% Similarity=-0.001 Sum_probs=42.9
Q ss_pred hhHhhhcce-EEEecCCCcchHHHHHHHHHHHHhhcCccEEEE--EeCCcchH---HHHHHHHhcCCcEEE-EccCCCcc
Q 039912 37 IGELKRGGL-WVRTASDKPQATDVLLRNHLVITHKRRIEYLVV--VSDDSDFV---EVLLEANLRCLKTVV-VGDINDGA 109 (198)
Q Consensus 37 a~ELrRAGv-~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvL--VSDdsdF~---~~Lr~Ar~r~l~TVV-VGd~~~~~ 109 (198)
..+|++-|. .+-.|.|+-...-..++. .+...|++..+. |.-++.+. .+++.+|+.+...|| ||+++-..
T Consensus 15 ~~~~~~~g~~~~livtd~~~~~~~~~~~---~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGs~~D 91 (367)
T cd08182 15 PSLLKGLGGKRVLLVTGPRSAIASGLTD---ILKPLGTLVVVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAVGGGSVLD 91 (367)
T ss_pred HHHHHhcCCCeEEEEeCchHHHHHHHHH---HHHHcCCeEEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCcHHHH
Confidence 445566553 355666755542222333 444667776554 44454444 667778888888887 88876444
Q ss_pred ccch
Q 039912 110 LKRI 113 (198)
Q Consensus 110 L~R~ 113 (198)
.++.
T Consensus 92 ~aK~ 95 (367)
T cd08182 92 TAKA 95 (367)
T ss_pred HHHH
Confidence 4433
No 303
>cd08187 BDH Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. The butanol dehydrogenase (BDH) is involved in the final step of the butanol formation pathway in anaerobic micro-organism. Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. Activity in the reverse direction was 50-fold lower than that in the forward direction. The NADH-BDH had higher activity with longer chained aldehydes and was inhibited by metabolites containing an adenine moiety. This protein family belongs to the so-called iron-containing alcohol dehydrogenase superfamily. Since members of this superfamily use different divalent ions, preferentially iron or zinc, it has been suggested to be renamed to family III metal-dependent polyol dehydrogenases.
Probab=45.86 E-value=65 Score=29.07 Aligned_cols=79 Identities=16% Similarity=0.051 Sum_probs=48.7
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCc---chHHHHHHHHhcCCcEEE-EccCCCc
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDS---DFVEVLLEANLRCLKTVV-VGDINDG 108 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDds---dF~~~Lr~Ar~r~l~TVV-VGd~~~~ 108 (198)
|.++|++-|-.+-.|.+++...-..+..++. .+...|++..+. |.-++ ....+++++|+.+..-|| ||.++-.
T Consensus 20 l~~~~~~~~~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~i 99 (382)
T cd08187 20 LGKELKKYGKKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPNPRLETVREGIELCKEEKVDFILAVGGGSVI 99 (382)
T ss_pred HHHHHHHhCCEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEeCChHHH
Confidence 4566676566666777765543233334454 665678875443 22244 344677888888888877 8887755
Q ss_pred cccchh
Q 039912 109 ALKRIS 114 (198)
Q Consensus 109 ~L~R~A 114 (198)
..++.+
T Consensus 100 D~aK~i 105 (382)
T cd08187 100 DSAKAI 105 (382)
T ss_pred HHHHHH
Confidence 555544
No 304
>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=45.85 E-value=31 Score=28.99 Aligned_cols=61 Identities=16% Similarity=0.097 Sum_probs=39.4
Q ss_pred hhHhhhcceEEEec-CCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 37 IGELKRGGLWVRTA-SDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 37 a~ELrRAGv~VrtV-sdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
-..|++.|+-+.-. .-.|...|. ...+..+...+.+.|++.++-.+...+++.+++.|++-
T Consensus 154 ~~~~~~~G~~v~~~~~~~~~~~d~--~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~ 215 (341)
T cd06341 154 ARSLAAAGVSVAGIVVITATAPDP--TPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTP 215 (341)
T ss_pred HHHHHHcCCccccccccCCCCCCH--HHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCC
Confidence 45567778765432 222333332 22333333568999988888779999999999998863
No 305
>PRK09456 ?-D-glucose-1-phosphatase; Provisional
Probab=45.84 E-value=54 Score=26.11 Aligned_cols=21 Identities=19% Similarity=0.294 Sum_probs=16.3
Q ss_pred chhHhhhcceEEEecCCCcch
Q 039912 36 LIGELKRGGLWVRTASDKPQA 56 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqA 56 (198)
+-..|+..|+.+-.+|.+|+.
T Consensus 92 ~L~~l~~~g~~~~i~Sn~~~~ 112 (199)
T PRK09456 92 IMHKLREQGHRVVVLSNTNRL 112 (199)
T ss_pred HHHHHHhCCCcEEEEcCCchh
Confidence 556778889888888888763
No 306
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=45.71 E-value=56 Score=22.31 Aligned_cols=56 Identities=27% Similarity=0.240 Sum_probs=35.7
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHH-----HHHHHHhcCCcEEEE
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVE-----VLLEANLRCLKTVVV 102 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~-----~Lr~Ar~r~l~TVVV 102 (198)
|.++..|++.|+.|+.+.. |.. +|.. .=..|++++.+..+.+ -|+.--++| .|+||
T Consensus 8 ~a~~~~L~~~g~~v~~~~~-~~~---~l~~--------~~~tll~i~~~~~~~~~~~~~~l~~~v~~G-~~lvl 68 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWRK-PYE---ALEA--------DDGTLLVIGPDLRLSEPEEAEALLEWVEAG-NTLVL 68 (70)
T ss_pred HHHHHHHHHCCCeeEEecc-cHH---HhCC--------CCCEEEEEeCCCCCCchHHHHHHHHHHHcC-CEEEE
Confidence 4577889999999998544 522 3422 4557888888866653 333333366 56665
No 307
>PRK11133 serB phosphoserine phosphatase; Provisional
Probab=45.46 E-value=41 Score=30.35 Aligned_cols=80 Identities=24% Similarity=0.194 Sum_probs=46.3
Q ss_pred CCchhHhhhcceEEEecCCCcc-hHHHHHHHHHHHHhhcCccEEE----EEe-------------CCcchHHHHHH-HHh
Q 039912 34 NGLIGELKRGGLWVRTASDKPQ-ATDVLLRNHLVITHKRRIEYLV----VVS-------------DDSDFVEVLLE-ANL 94 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPq-AAD~ALkrhm~~m~~~gv~clv----LVS-------------DdsdF~~~Lr~-Ar~ 94 (198)
--+-..|++.|+.+-.+|..+. -++..++ ..|++.++ .+. +...=.++|+. |++
T Consensus 187 ~elL~~Lk~~G~~~aIvSgg~~~~~~~l~~-------~Lgld~~~an~lei~dg~ltg~v~g~iv~~k~K~~~L~~la~~ 259 (322)
T PRK11133 187 TELVLKLQALGWKVAIASGGFTYFADYLRD-------KLRLDAAVANELEIMDGKLTGNVLGDIVDAQYKADTLTRLAQE 259 (322)
T ss_pred HHHHHHHHHcCCEEEEEECCcchhHHHHHH-------HcCCCeEEEeEEEEECCEEEeEecCccCCcccHHHHHHHHHHH
Confidence 3457889999999999999885 3332222 23544321 111 11122344544 455
Q ss_pred cCC---cEEEEccCC-CccccchhcccccH
Q 039912 95 RCL---KTVVVGDIN-DGALKRISYACFSW 120 (198)
Q Consensus 95 r~l---~TVVVGd~~-~~~L~R~AD~~fsW 120 (198)
.|+ +||+|||+. |-...+.|.+.+-|
T Consensus 260 lgi~~~qtIaVGDg~NDl~m~~~AGlgiA~ 289 (322)
T PRK11133 260 YEIPLAQTVAIGDGANDLPMIKAAGLGIAY 289 (322)
T ss_pred cCCChhhEEEEECCHHHHHHHHHCCCeEEe
Confidence 675 699999964 33344566666655
No 308
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=44.95 E-value=69 Score=29.18 Aligned_cols=66 Identities=14% Similarity=0.085 Sum_probs=41.6
Q ss_pred hhHhhhcceEEE---ecCCCcchHHHHHHHHHHHHhhcCccEEEEE--eCCcchHHHHHHHHhcCCc--EEEEcc
Q 039912 37 IGELKRGGLWVR---TASDKPQATDVLLRNHLVITHKRRIEYLVVV--SDDSDFVEVLLEANLRCLK--TVVVGD 104 (198)
Q Consensus 37 a~ELrRAGv~Vr---tVsdKPqAAD~ALkrhm~~m~~~gv~clvLV--SDdsdF~~~Lr~Ar~r~l~--TVVVGd 104 (198)
..++++.|+-|- +++..|.+. -+..++..+.+.+.+..|+| +...+...+++.|++.|+. .+.||-
T Consensus 207 ~~~~~~~gi~i~~~~~i~~~~~~~--d~~~~l~~lk~~~~da~vvv~~~~~~~~~~~l~~a~~~g~~~~~~wi~s 279 (472)
T cd06374 207 KELAAHEGLCIAHSDKIYSNAGEQ--SFDRLLRKLRSRLPKARVVVCFCEGMTVRGLLMAMRRLGVGGEFQLIGS 279 (472)
T ss_pred HHHHHHCCeeEEEEEEecCCCchH--HHHHHHHHHHhcCCCcEEEEEEechHHHHHHHHHHHHhcCCCceEEEEe
Confidence 356778887765 333344433 44555555534455554444 6666788999999999996 366664
No 309
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=44.89 E-value=45 Score=34.73 Aligned_cols=58 Identities=17% Similarity=0.176 Sum_probs=39.5
Q ss_pred HHHHHHHHHHhhc----CccEEEEEeCCcch--HHHHHHHHhcCCc--EEEEccCCCccccchhcc
Q 039912 59 VLLRNHLVITHKR----RIEYLVVVSDDSDF--VEVLLEANLRCLK--TVVVGDINDGALKRISYA 116 (198)
Q Consensus 59 ~ALkrhm~~m~~~----gv~clvLVSDdsdF--~~~Lr~Ar~r~l~--TVVVGd~~~~~L~R~AD~ 116 (198)
.||+..+..+.+. ....|||+||-.+- ..+++.++++|+. ||-+|...+..|.+.|+.
T Consensus 387 ~GL~~Alq~L~~~~~~~~~~~IILLTDGedn~~~~~l~~lk~~gVtI~TIg~G~dad~~L~~IA~~ 452 (863)
T TIGR00868 387 SGLKAAFQVIKKSYQSTDGSEIVLLTDGEDNTISSCFEEVKQSGAIIHTIALGPSAAKELEELSDM 452 (863)
T ss_pred HHHHHHHHHHHhcccccCCCEEEEEeCCCCCCHHHHHHHHHHcCCEEEEEEeCCChHHHHHHHHHh
Confidence 4555555555432 24689999997654 6778888888876 888887666666666553
No 310
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR 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. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. 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 structurally homologous to the periplasmic sugar bindi
Probab=44.84 E-value=54 Score=26.46 Aligned_cols=60 Identities=12% Similarity=0.023 Sum_probs=41.3
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
+|+...++..|+.+..... +... . ....+++.|++++..+. +.++.+.++++..|+++-.
T Consensus 24 ~gi~~~~~~~g~~~~~~~~-~~~~----~-----~~~~~vdgii~~~~~~~--~~~~~~~~~~~pvV~~~~~ 83 (270)
T cd01544 24 LGIEKRAQELGIELTKFFR-DDDL----L-----EILEDVDGIIAIGKFSQ--EQLAKLAKLNPNLVFVDSN 83 (270)
T ss_pred HHHHHHHHHcCCEEEEEec-cchh----H-----HhccCcCEEEEecCCCH--HHHHHHHhhCCCEEEECCC
Confidence 4667778888888765432 1111 1 12578999999876544 7788888899999999753
No 311
>PLN03243 haloacid dehalogenase-like hydrolase; Provisional
Probab=44.77 E-value=90 Score=26.91 Aligned_cols=64 Identities=19% Similarity=0.259 Sum_probs=39.1
Q ss_pred chhHhhhcceEEEecCCCcch-HHHHHHHHHHHHhhcCccE---EEEEeCCcch-----HHHHHHHHhcCCc---EEEEc
Q 039912 36 LIGELKRGGLWVRTASDKPQA-TDVLLRNHLVITHKRRIEY---LVVVSDDSDF-----VEVLLEANLRCLK---TVVVG 103 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqA-AD~ALkrhm~~m~~~gv~c---lvLVSDdsdF-----~~~Lr~Ar~r~l~---TVVVG 103 (198)
+-.+|+..|+.+-.+|.++.. +...|++ .|+.- .++.|++... .-+++.+++.|+. +|+||
T Consensus 117 ~L~~L~~~g~~l~I~Tn~~~~~~~~~l~~-------~gl~~~Fd~ii~~~d~~~~KP~Pe~~~~a~~~l~~~p~~~l~Ig 189 (260)
T PLN03243 117 FVQALKKHEIPIAVASTRPRRYLERAIEA-------VGMEGFFSVVLAAEDVYRGKPDPEMFMYAAERLGFIPERCIVFG 189 (260)
T ss_pred HHHHHHHCCCEEEEEeCcCHHHHHHHHHH-------cCCHhhCcEEEecccCCCCCCCHHHHHHHHHHhCCChHHeEEEc
Confidence 557888899999999999863 3222222 23321 3455665431 2344555556665 89999
Q ss_pred cCC
Q 039912 104 DIN 106 (198)
Q Consensus 104 d~~ 106 (198)
|+.
T Consensus 190 Ds~ 192 (260)
T PLN03243 190 NSN 192 (260)
T ss_pred CCH
Confidence 964
No 312
>PF01565 FAD_binding_4: FAD binding domain This is only a subset of the Pfam family; InterPro: IPR006094 Various enzymes use FAD as a co-factor, most of these enzymes are oxygen-dependent oxidoreductases, containing a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. One of the enzymes Vanillyl-alcohol oxidase (VAO, 1.1.3.38 from EC) has a solved structure, the alignment includes the FAD binding site, called the PP-loop, between residues 99-110 []. The FAD molecule is covalently bound in the known structure, however the residue that links to the FAD is not in the alignment. VAO catalyses the oxidation of a wide variety of substrates, ranging from aromatic amines to 4-alkylphenols. ; GO: 0008762 UDP-N-acetylmuramate dehydrogenase activity, 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZR6_A 3HSU_A 2AXR_A 3D2J_A 3D2H_A 3FW9_A 3FW8_A 3FW7_A 3GSY_A 3FWA_A ....
Probab=44.63 E-value=31 Score=25.79 Aligned_cols=33 Identities=15% Similarity=0.033 Sum_probs=29.9
Q ss_pred cEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 74 EYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 74 ~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
.++|-.+.-.++..+++.|++.+++..+.|.++
T Consensus 2 ~~vv~P~s~~ev~~~v~~a~~~~~~v~~~g~G~ 34 (139)
T PF01565_consen 2 AAVVRPKSVEEVQAIVKFANENGVPVRVRGGGH 34 (139)
T ss_dssp SEEEEESSHHHHHHHHHHHHHTTSEEEEESSST
T ss_pred cEEEEeCCHHHHHHHHHHHHHcCCcEEEEcCCC
Confidence 467888888999999999999999999999875
No 313
>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=44.63 E-value=43 Score=28.21 Aligned_cols=76 Identities=17% Similarity=0.201 Sum_probs=50.6
Q ss_pred ccCCCCCCC------chhHhhhcceEEEecCCC-cchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 27 VLTPEVGNG------LIGELKRGGLWVRTASDK-PQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 27 lltPkvgyG------La~ELrRAGv~VrtVsdK-PqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
++.+...|| +...|++.|+-|-....- |...| ...++..+...+.+.|++.....+...+++.+++.|++.
T Consensus 140 ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d--~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~ 217 (340)
T cd06349 140 ILSVNTDWGRTSADIFVKAAEKLGGQVVAHEEYVPGEKD--FRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDI 217 (340)
T ss_pred EEecCChHhHHHHHHHHHHHHHcCCEEEEEEEeCCCCCc--HHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCC
Confidence 555666665 345667778877632221 22222 233444455778999999999999999999999999876
Q ss_pred EEEcc
Q 039912 100 VVVGD 104 (198)
Q Consensus 100 VVVGd 104 (198)
=++|-
T Consensus 218 ~~~~~ 222 (340)
T cd06349 218 PVVAS 222 (340)
T ss_pred cEEcc
Confidence 66654
No 314
>cd02172 RfaE_N N-terminal domain of RfaE. RfaE is a protein involved in the biosynthesis of ADP-L-glycero-D-manno-heptose, a precursor for LPS inner core biosynthesis. RfaE is a bifunctional protein in Escherichia coli, and separate proteins in other organisms. Domain I is suggested to act in D-glycero-D-manno-heptose 1-phosphate biosynthesis, while domain II (this family) adds ADP to yield ADP-D-glycero-D-manno-heptose .
Probab=44.26 E-value=61 Score=25.66 Aligned_cols=41 Identities=12% Similarity=0.121 Sum_probs=28.6
Q ss_pred HHHHHHHhhcC-ccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 62 RNHLVITHKRR-IEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 62 krhm~~m~~~g-v~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
..-++.+.+.| |+++++.. ...-.++++ +-+.+.||+|.-.
T Consensus 56 ~eR~~~l~~lg~VD~vi~~~-~~~~~~fi~---~l~~~~vv~G~d~ 97 (144)
T cd02172 56 DLRAEVLAALGFVDYVVLFD-NPTALEIID---ALQPNIYVKGGDY 97 (144)
T ss_pred HHHHHHHHccCCccEEEECC-CCCHHHHHH---HhCCCEEEECCCc
Confidence 44455666788 99999874 233455554 6899999999754
No 315
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=44.20 E-value=45 Score=28.01 Aligned_cols=62 Identities=13% Similarity=0.062 Sum_probs=40.9
Q ss_pred CchhHhhhcce---EEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 35 GLIGELKRGGL---WVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 35 GLa~ELrRAGv---~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
++..-+++.|. .|....-.|.. -+...+..+...+.+.||+.+...+-..+++.|++.|+.+
T Consensus 144 ~l~~~~~~~~~~g~~v~~~~~~~~~---d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~ 208 (327)
T cd06382 144 RLQELLQAFGISGITITVRQLDDDL---DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMS 208 (327)
T ss_pred HHHHHHHhhccCCCeEEEEEccCCc---cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccc
Confidence 34556666664 23321111222 3444555555678899999999999999999999998865
No 316
>PRK12937 short chain dehydrogenase; Provisional
Probab=44.14 E-value=96 Score=24.46 Aligned_cols=68 Identities=16% Similarity=0.104 Sum_probs=40.8
Q ss_pred CCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh-----cCCcEEEE
Q 039912 32 VGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL-----RCLKTVVV 102 (198)
Q Consensus 32 vgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~-----r~l~TVVV 102 (198)
+|..+|..|.+.|..|-.+....+.....+...+. ..+....++..|-++...+.+...+ ..+..|+-
T Consensus 17 iG~~la~~l~~~g~~v~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~Dl~~~~~~~~~~~~~~~~~~~id~vi~ 89 (245)
T PRK12937 17 IGAAIARRLAADGFAVAVNYAGSAAAADELVAEIE---AAGGRAIAVQADVADAAAVTRLFDAAETAFGRIDVLVN 89 (245)
T ss_pred HHHHHHHHHHHCCCEEEEecCCCHHHHHHHHHHHH---hcCCeEEEEECCCCCHHHHHHHHHHHHHHcCCCCEEEE
Confidence 47889999999999886544332222223333332 3455667777788887766555443 24655554
No 317
>TIGR03772 anch_rpt_subst anchored repeat ABC transporter, substrate-binding protein. Members of this protein family are ABC transporter permease subunits as identified by pfam00950, but additionally contain the Actinobacterial insert domain described by TIGR03769. Some homologs (lacking the insert) have been described as transporters of manganese or of chelated iron. Members of this family typically are found along with an ATP-binding cassette protein, a permease, and an LPXTG-anchored protein with two or three copies of the TIGR03769 insert that occurs just once in this protein family.
Probab=43.96 E-value=2.9e+02 Score=26.82 Aligned_cols=105 Identities=11% Similarity=0.098 Sum_probs=60.0
Q ss_pred hhhhhhhHHHHHHHHhccC--CCCC-------CCchhHhhhcceEEEec-----CCCcchHHHHHHHHHHHHhhcCccEE
Q 039912 11 GKYSIKMEKYKRAARAVLT--PEVG-------NGLIGELKRGGLWVRTA-----SDKPQATDVLLRNHLVITHKRRIEYL 76 (198)
Q Consensus 11 ~k~~~K~~KY~~AAr~llt--Pkvg-------yGLa~ELrRAGv~VrtV-----sdKPqAAD~ALkrhm~~m~~~gv~cl 76 (198)
++|..+++...+..++.+. |.-+ ..+.--+++.|+.+..+ ...|.+++. ++=+..+.+.+|.||
T Consensus 347 ~ay~~eL~~Ld~~~~~~la~ip~k~r~vvt~H~af~YLa~~YGL~~~~~~~~~~~~ePS~~~L--~~Li~~IK~~~V~~I 424 (479)
T TIGR03772 347 SAYIHRLERLDTYVRRTIATIPPSRRHLITTHDAYSYLGQAYGLNIAGFVTPNPAVEPSLADR--RRLTRTIENLKVPAV 424 (479)
T ss_pred HHHHHHHHHHHHHHHHHhhhccccCCEEEEECCcHHHHHHHCCCeEEeeeccCCCCCCCHHHH--HHHHHHHHHcCCCEE
Confidence 3455555555555555555 3322 23444566777776532 456777753 232334457899999
Q ss_pred EEEeCCc-chHHHHHHHHhcCCcEEEE-ccCCCccccchhcccccHH
Q 039912 77 VVVSDDS-DFVEVLLEANLRCLKTVVV-GDINDGALKRISYACFSWW 121 (198)
Q Consensus 77 vLVSDds-dF~~~Lr~Ar~r~l~TVVV-Gd~~~~~L~R~AD~~fsW~ 121 (198)
+.=+--+ .-..+-..|++.|++.+.+ ||. |...++-|+.|-
T Consensus 425 F~Epq~~~~~~~l~~IA~e~Gv~V~~l~~d~----l~~~~~tY~~~M 467 (479)
T TIGR03772 425 FLEPNLAARSTTLNEIADELGVRVCAIYGDT----FDDDVTNYVDLM 467 (479)
T ss_pred EEeCCCCCchHHHHHHHHHcCCcEEeeecCC----CCCccccHHHHH
Confidence 9865543 2224667899999987665 554 333345444443
No 318
>cd05009 SIS_GlmS_GlmD_2 SIS (Sugar ISomerase) domain repeat 2 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=43.86 E-value=51 Score=24.55 Aligned_cols=43 Identities=21% Similarity=0.352 Sum_probs=29.4
Q ss_pred cEEEEEe-CCc---chHHHHHHHHhcCCcEEEEccCCCccccchhcccc
Q 039912 74 EYLVVVS-DDS---DFVEVLLEANLRCLKTVVVGDINDGALKRISYACF 118 (198)
Q Consensus 74 ~clvLVS-Dds---dF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~f 118 (198)
++++++| .+. .-..+++.++++|.++|+|.+... . .+.+|.-+
T Consensus 63 ~~vi~is~~g~t~~~~~~~~~~~~~~~~~vi~it~~~~-s-~~~~d~~i 109 (153)
T cd05009 63 TPVIFLAPEDRLEEKLESLIKEVKARGAKVIVITDDGD-A-KDLADVVI 109 (153)
T ss_pred CcEEEEecCChhHHHHHHHHHHHHHcCCEEEEEecCCc-c-cccCCeEE
Confidence 4567777 333 255688999999999999988653 2 55565543
No 319
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=43.83 E-value=1.4e+02 Score=25.37 Aligned_cols=67 Identities=13% Similarity=0.084 Sum_probs=39.3
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCc-EEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLK-TVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~-TVVVGd~ 105 (198)
|+..++++.|+.+-......... -....+..+.+.+++-|++++...+. +.+....+ ... .|+|+..
T Consensus 80 gi~~~~~~~gy~~~~~~~~~~~~--~~~~~i~~l~~~~vdGiIi~~~~~~~-~~~~~~~~-~~p~vV~i~~~ 147 (346)
T PRK10401 80 AVDLVAQQHQKYVLIGNSYHEAE--KERHAIEVLIRQRCNALIVHSKALSD-DELAQFMD-QIPGMVLINRV 147 (346)
T ss_pred HHHHHHHHCCCEEEEEcCCCChH--HHHHHHHHHHhcCCCEEEEeCCCCCh-HHHHHHHh-cCCCEEEEecc
Confidence 77889999999987543222211 12234445667899999999743332 23333333 344 6777763
No 320
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=43.67 E-value=54 Score=27.54 Aligned_cols=58 Identities=7% Similarity=0.086 Sum_probs=39.7
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
|+..+++..|+.+-+..+..+- ....+|+.|++++-++ .++++..++.++..|+++..
T Consensus 88 ~i~~~~~~~g~~~~~~~~~~~~-----------~~~~~vDgiI~~~~~~--~~~~~~l~~~~~pvV~~~~~ 145 (327)
T PRK10339 88 GIETQCEKLGIELTNCYEHSGL-----------PDIKNVTGILIVGKPT--PALRAAASALTDNICFIDFH 145 (327)
T ss_pred HHHHHHHHCCCEEEEeeccccc-----------cccccCCEEEEeCCCC--HHHHHHHHhcCCCEEEEeCC
Confidence 5667888888887655432211 1146899999988543 36777888888999998753
No 321
>TIGR01116 ATPase-IIA1_Ca sarco/endoplasmic reticulum calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIA based on a phylogenetic analysis which distinguishes this group from the Type IIB PMCA calcium pump modelled by TIGR01517. A separate analysis divides Type IIA into sub-types, SERCA and PMR1, the latter of which is modelled by TIGR01522.
Probab=43.34 E-value=32 Score=34.97 Aligned_cols=36 Identities=14% Similarity=-0.001 Sum_probs=25.8
Q ss_pred HHHHHHHHhcCCcEEEEccC-CCccccchhcccccHH
Q 039912 86 VEVLLEANLRCLKTVVVGDI-NDGALKRISYACFSWW 121 (198)
Q Consensus 86 ~~~Lr~Ar~r~l~TVVVGd~-~~~~L~R~AD~~fsW~ 121 (198)
..+++.-++.|-.+.+|||+ ||-.--+.||+++++.
T Consensus 620 ~~iV~~lq~~g~~va~iGDG~ND~~alk~AdVGia~g 656 (917)
T TIGR01116 620 SELVELLQEQGEIVAMTGDGVNDAPALKKADIGIAMG 656 (917)
T ss_pred HHHHHHHHhcCCeEEEecCCcchHHHHHhCCeeEECC
Confidence 44556666677777779994 5555568999998874
No 322
>PRK15122 magnesium-transporting ATPase; Provisional
Probab=43.20 E-value=61 Score=33.24 Aligned_cols=45 Identities=20% Similarity=0.091 Sum_probs=29.5
Q ss_pred HHHHHHHhcCCcEEEEccC-CCccccchhcccccHHHHhhchhhhhhhhhh
Q 039912 87 EVLLEANLRCLKTVVVGDI-NDGALKRISYACFSWWDILMGKARKEAVSVV 136 (198)
Q Consensus 87 ~~Lr~Ar~r~l~TVVVGd~-~~~~L~R~AD~~fsW~eV~~Gka~k~A~~~~ 136 (198)
.+++.-+++|-...++||+ ||-.-=+.||++++ +|.+...|-+++
T Consensus 628 ~iV~~Lq~~G~vVamtGDGvNDaPALk~ADVGIA-----mg~gtdvAkeaA 673 (903)
T PRK15122 628 RVLKALQANGHTVGFLGDGINDAPALRDADVGIS-----VDSGADIAKESA 673 (903)
T ss_pred HHHHHHHhCCCEEEEECCCchhHHHHHhCCEEEE-----eCcccHHHHHhc
Confidence 3455566778778889995 44323367999876 666665555554
No 323
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=43.19 E-value=47 Score=28.51 Aligned_cols=37 Identities=14% Similarity=0.203 Sum_probs=30.2
Q ss_pred hcCccEEEEEeCCcchHHHHHHHHhcCCc----EEEEccCC
Q 039912 70 KRRIEYLVVVSDDSDFVEVLLEANLRCLK----TVVVGDIN 106 (198)
Q Consensus 70 ~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~----TVVVGd~~ 106 (198)
+.+.+-+||.+...+...+++.|++.|+. ..+++|..
T Consensus 192 ~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~~ 232 (362)
T cd06367 192 KLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIVGELA 232 (362)
T ss_pred hcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECccc
Confidence 45678899999999999999999999984 55666654
No 324
>cd02760 MopB_Phenylacetyl-CoA-OR The MopB_Phenylacetyl-CoA-OR CD contains the phenylacetyl-CoA:acceptor oxidoreductase, large subunit (PadB2), and other related proteins. The phenylacetyl-CoA:acceptor oxidoreductase has been characterized as a membrane-bound molybdenum-iron-sulfur enzyme involved in anaerobic metabolism of phenylalanine in the denitrifying bacterium Thauera aromatica. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=42.94 E-value=38 Score=34.08 Aligned_cols=75 Identities=13% Similarity=0.039 Sum_probs=51.7
Q ss_pred CccEEEEEeCCcc------hHHHHHHHHhcCCcEEEEccCCCccccchhcccccHH-----HHhhchhhhhhhhhhcccc
Q 039912 72 RIEYLVVVSDDSD------FVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWW-----DILMGKARKEAVSVVGKWK 140 (198)
Q Consensus 72 gv~clvLVSDdsd------F~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~-----eV~~Gka~k~A~~~~g~W~ 140 (198)
.-+|||++--+.. +...+..||++|.+-||| |--.....+.||.|++-. -++.|-+...-.+-.-.|-
T Consensus 173 ~ad~Il~~G~Np~~s~~~~~~~~~~~ar~~GaKlIvV-DPr~t~ta~~AD~wlpirPGTD~AL~lam~~~Ii~e~~~~ly 251 (760)
T cd02760 173 LANYVISFGSNVEASGGPCAVTRHADARVRGYKRVQV-EPHLSVTGACSAEWVPIRPKTDPAFMFAMIHVMVHEQGLGKL 251 (760)
T ss_pred cCCEEEEECCCchHhcCcHHHHHHHHHHHcCCeEEEE-cCCCCcchhhcCeEeCcCCCcHHHHHHHHHHHHHhccccccc
Confidence 5678999976653 334566788999999999 533467889999999765 5666655554333111477
Q ss_pred ccccchh
Q 039912 141 DGDVLKR 147 (198)
Q Consensus 141 d~dvlk~ 147 (198)
|.+++++
T Consensus 252 D~~Fl~~ 258 (760)
T cd02760 252 DVPFLRD 258 (760)
T ss_pred hHHHHHH
Confidence 8888884
No 325
>TIGR02252 DREG-2 REG-2-like, HAD superfamily (subfamily IA) hydrolase. Most likely, these sequences, like the vast majority of HAD sequences, represent phosphatase enzymes.
Probab=42.73 E-value=96 Score=24.36 Aligned_cols=64 Identities=19% Similarity=0.149 Sum_probs=36.9
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCcc---EEEEEeCCcch-----HHHHHHHHhcCC---cEEEEcc
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIE---YLVVVSDDSDF-----VEVLLEANLRCL---KTVVVGD 104 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~---clvLVSDdsdF-----~~~Lr~Ar~r~l---~TVVVGd 104 (198)
+-..|++.|+.+-.+|..+......| ...|+. ..|+.|++... .-+...+++-|+ ++|+|||
T Consensus 113 ~l~~L~~~g~~~~i~Sn~~~~~~~~l-------~~~~l~~~fd~i~~s~~~~~~KP~~~~~~~~~~~~~~~~~~~~~IgD 185 (203)
T TIGR02252 113 LLKDLRERGLILGVISNFDSRLRGLL-------EALGLLEYFDFVVTSYEVGAEKPDPKIFQEALERAGISPEEALHIGD 185 (203)
T ss_pred HHHHHHHCCCEEEEEeCCchhHHHHH-------HHCCcHHhcceEEeecccCCCCCCHHHHHHHHHHcCCChhHEEEECC
Confidence 34567888999888898876432222 123442 24556655322 123444455554 5899999
Q ss_pred CC
Q 039912 105 IN 106 (198)
Q Consensus 105 ~~ 106 (198)
..
T Consensus 186 ~~ 187 (203)
T TIGR02252 186 SL 187 (203)
T ss_pred Cc
Confidence 73
No 326
>PRK14649 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=42.65 E-value=24 Score=31.37 Aligned_cols=37 Identities=16% Similarity=0.118 Sum_probs=31.9
Q ss_pred hcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 70 KRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 70 ~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
..-.++++.+.+-.++..+++.|+++++...|+|.++
T Consensus 18 Gg~a~~~v~p~~~~dl~~~l~~~~~~~ip~~vlG~GS 54 (295)
T PRK14649 18 GGPARYFVEPTTPDEAIAAAAWAEQRQLPLFWLGGGS 54 (295)
T ss_pred CceeeEEEEcCCHHHHHHHHHHHHHCCCCEEEEecce
Confidence 3445678889999999999999999999999999876
No 327
>PRK15456 universal stress protein UspG; Provisional
Probab=42.55 E-value=1.1e+02 Score=22.74 Aligned_cols=35 Identities=26% Similarity=-0.037 Sum_probs=26.5
Q ss_pred CccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 72 RIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 72 gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
++..-+.+...+-...|++.|.+.+..-||+|-..
T Consensus 81 ~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g 115 (142)
T PRK15456 81 PSRIKQHVRFGSVRDEVNELAEELGADVVVIGSRN 115 (142)
T ss_pred CcceEEEEcCCChHHHHHHHHhhcCCCEEEEcCCC
Confidence 44444455555667779999999999999999863
No 328
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=42.46 E-value=36 Score=33.87 Aligned_cols=76 Identities=18% Similarity=0.156 Sum_probs=40.7
Q ss_pred hHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC-CCccccchhcc
Q 039912 38 GELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI-NDGALKRISYA 116 (198)
Q Consensus 38 ~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~-~~~~L~R~AD~ 116 (198)
..|++.|+.+..++..++.+=.++-+ ..||+...-+. ..+=..+++.-++.+ .++.|||+ ||-..-+.||+
T Consensus 578 ~~L~~~gi~~~llTGd~~~~a~~ia~------~lgi~~~~~~~-p~~K~~~v~~l~~~~-~v~mvGDgiNDapAl~~A~v 649 (741)
T PRK11033 578 SELKALGIKGVMLTGDNPRAAAAIAG------ELGIDFRAGLL-PEDKVKAVTELNQHA-PLAMVGDGINDAPAMKAASI 649 (741)
T ss_pred HHHHHCCCEEEEEcCCCHHHHHHHHH------HcCCCeecCCC-HHHHHHHHHHHhcCC-CEEEEECCHHhHHHHHhCCe
Confidence 35666677776666666544333333 33444211000 112233455544443 68899995 45445577998
Q ss_pred cccHH
Q 039912 117 CFSWW 121 (198)
Q Consensus 117 ~fsW~ 121 (198)
.+++-
T Consensus 650 gia~g 654 (741)
T PRK11033 650 GIAMG 654 (741)
T ss_pred eEEec
Confidence 88764
No 329
>PRK13055 putative lipid kinase; Reviewed
Probab=42.40 E-value=97 Score=27.48 Aligned_cols=82 Identities=10% Similarity=0.065 Sum_probs=45.0
Q ss_pred hhHhhhcceEEEec-C-CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhc--CCcEEEEccCCCccccc
Q 039912 37 IGELKRGGLWVRTA-S-DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLR--CLKTVVVGDINDGALKR 112 (198)
Q Consensus 37 a~ELrRAGv~VrtV-s-dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r--~l~TVVVGd~~~~~L~R 112 (198)
...|+.+|+.+... + ..|-.+....+.. ...+.++||.+.-|=-..+++.-.... .+---||=-++.-.++|
T Consensus 26 ~~~l~~~g~~~~i~~t~~~~~~a~~~~~~~----~~~~~d~vvv~GGDGTl~evvngl~~~~~~~~LgiiP~GTgNdfAr 101 (334)
T PRK13055 26 LDILEQAGYETSAFQTTPEPNSAKNEAKRA----AEAGFDLIIAAGGDGTINEVVNGIAPLEKRPKMAIIPAGTTNDYAR 101 (334)
T ss_pred HHHHHHcCCeEEEEEeecCCccHHHHHHHH----hhcCCCEEEEECCCCHHHHHHHHHhhcCCCCcEEEECCCchhHHHH
Confidence 34678888765432 2 2332332222222 245788999999998888888765433 22223333333345777
Q ss_pred hhcccc-cHHH
Q 039912 113 ISYACF-SWWD 122 (198)
Q Consensus 113 ~AD~~f-sW~e 122 (198)
.-.+-. .+.+
T Consensus 102 ~Lgi~~~~~~~ 112 (334)
T PRK13055 102 ALKIPRDNPVE 112 (334)
T ss_pred HcCCCCcCHHH
Confidence 665554 4443
No 330
>PF13707 RloB: RloB-like protein
Probab=42.01 E-value=85 Score=24.77 Aligned_cols=61 Identities=13% Similarity=0.145 Sum_probs=40.5
Q ss_pred hHhhhcceEEEecCCCc-chHHHHHHHHHHHHh----hcCccEEEEEeCCc-------chHHHHHHHHhcCCc
Q 039912 38 GELKRGGLWVRTASDKP-QATDVLLRNHLVITH----KRRIEYLVVVSDDS-------DFVEVLLEANLRCLK 98 (198)
Q Consensus 38 ~ELrRAGv~VrtVsdKP-qAAD~ALkrhm~~m~----~~gv~clvLVSDds-------dF~~~Lr~Ar~r~l~ 98 (198)
...+...+.|+.++.+. ..+...++....... ...-+-+++|.|-. .|..+++.|++.+++
T Consensus 20 ~~~~~~~~~i~~~~~~~~~~p~~lv~~a~~~~~~~~~~~~~d~v~~V~D~D~~~~~~~~~~~~~~~a~~~~i~ 92 (183)
T PF13707_consen 20 KKRRRSNLDIKVIPSKGGSDPSSLVEKAKKKRKKKKNDNEYDEVWCVFDRDQNDFEHEKLEEAIKKAKRNKIN 92 (183)
T ss_pred HhcCCCceEEEEeecCCCCCHHHHHHHHHHHHhhhccccCCCEEEEEEeCCCCcCcHHHHHHHHHhccccCeE
Confidence 44566778888888774 445344444333332 25678889999887 777788888877544
No 331
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=41.73 E-value=25 Score=25.84 Aligned_cols=47 Identities=19% Similarity=0.098 Sum_probs=31.8
Q ss_pred ceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCc
Q 039912 44 GLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLK 98 (198)
Q Consensus 44 Gv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~ 98 (198)
|-.|-|..|.++..-. ....++.||+|+.+..-=..++++|++.++-
T Consensus 41 ~~lvIt~gdR~di~~~--------a~~~~i~~iIltg~~~~~~~v~~la~~~~i~ 87 (105)
T PF07085_consen 41 GDLVITPGDREDIQLA--------AIEAGIACIILTGGLEPSEEVLELAKELGIP 87 (105)
T ss_dssp TEEEEEETT-HHHHHH--------HCCTTECEEEEETT----HHHHHHHHHHT-E
T ss_pred CeEEEEeCCcHHHHHH--------HHHhCCCEEEEeCCCCCCHHHHHHHHHCCCE
Confidence 7778887887665422 2356799999999888888999999999943
No 332
>TIGR01304 IMP_DH_rel_2 IMP dehydrogenase family protein. This model represents a family of proteins, often annotated as a putative IMP dehydrogenase, related to IMP dehydrogenase and GMP reductase. Most species with a member of this family belong to the high GC Gram-positive bacteria, and these also have the IMP dehydrogenase described by TIGRFAMs equivalog model TIGR01302.
Probab=41.72 E-value=1.3e+02 Score=28.12 Aligned_cols=69 Identities=22% Similarity=0.240 Sum_probs=45.6
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEE---------eCCcchHHHHHHHHhcCCcEEEEc
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVV---------SDDSDFVEVLLEANLRCLKTVVVG 103 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLV---------SDdsdF~~~Lr~Ar~r~l~TVVVG 103 (198)
=+-+..++|++||.|++ .-.|+-+ ..+...+.+.|++-|++- |-..+..++.+..++.++. |++|
T Consensus 121 ~~~ii~~vr~a~Vtvki-Rl~~~~~----~e~a~~l~eAGad~I~ihgrt~~q~~~sg~~~p~~l~~~i~~~~IP-VI~G 194 (369)
T TIGR01304 121 LGERIAEVRDSGVITAV-RVSPQNA----REIAPIVVKAGADLLVIQGTLVSAEHVSTSGEPLNLKEFIGELDVP-VIAG 194 (369)
T ss_pred HHHHHHHHHhcceEEEE-ecCCcCH----HHHHHHHHHCCCCEEEEeccchhhhccCCCCCHHHHHHHHHHCCCC-EEEe
Confidence 34446788999998886 3356533 223334557899999984 5556777888888777764 4457
Q ss_pred cCCC
Q 039912 104 DIND 107 (198)
Q Consensus 104 d~~~ 107 (198)
+...
T Consensus 195 ~V~t 198 (369)
T TIGR01304 195 GVND 198 (369)
T ss_pred CCCC
Confidence 7543
No 333
>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if n
Probab=41.67 E-value=86 Score=23.58 Aligned_cols=35 Identities=9% Similarity=0.049 Sum_probs=21.9
Q ss_pred cCccEEEEEeCCcc------hHH---HHHHHHhcCCcEEEEccC
Q 039912 71 RRIEYLVVVSDDSD------FVE---VLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 71 ~gv~clvLVSDdsd------F~~---~Lr~Ar~r~l~TVVVGd~ 105 (198)
++...|||+||=.+ +.+ .++.++.+++...+||-+
T Consensus 95 ~~~~~ivl~TDG~~~~~~~~~~~~~~~~~~~~~~~v~i~~i~~g 138 (170)
T cd01465 95 GGVNRILLATDGDFNVGETDPDELARLVAQKRESGITLSTLGFG 138 (170)
T ss_pred CCeeEEEEEeCCCCCCCCCCHHHHHHHHHHhhcCCeEEEEEEeC
Confidence 44577999998642 333 445555677766666654
No 334
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=41.59 E-value=37 Score=32.47 Aligned_cols=70 Identities=16% Similarity=0.187 Sum_probs=51.2
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCCCccccch
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDINDGALKRI 113 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~ 113 (198)
+.+|..||.+|+.|.+--..- .++.||...++.|+..+|++-++. ..-++|.|=|.. ..
T Consensus 352 ~~la~~LR~~g~~~~~~~~~r-----~~k~q~k~A~~~g~~~~viiGe~E-----------~~~g~v~vKdl~-----t~ 410 (429)
T COG0124 352 LKLAQKLRAAGISVEVDYSGR-----KLKKQFKYADKLGARFAVILGEDE-----------LANGVVTVKDLA-----TG 410 (429)
T ss_pred HHHHHHHHHcCCcEEEEeccc-----cHHHHHHHHHHCCCCEEEEEcchH-----------HhcCCEEEeeCC-----CC
Confidence 457899999999998643322 299999988999999999998764 345677777743 23
Q ss_pred hcccccHHHHh
Q 039912 114 SYACFSWWDIL 124 (198)
Q Consensus 114 AD~~fsW~eV~ 124 (198)
-..-++++++.
T Consensus 411 eq~~v~~~~~~ 421 (429)
T COG0124 411 EQEEVPLDELV 421 (429)
T ss_pred ccceecHHHHH
Confidence 56666666664
No 335
>cd02762 MopB_1 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=41.44 E-value=32 Score=32.16 Aligned_cols=49 Identities=16% Similarity=0.114 Sum_probs=37.1
Q ss_pred cCccEEEEEeCCcchH-----------HHHHHHHhcCCcEEEEccCCCccccchhcccccH
Q 039912 71 RRIEYLVVVSDDSDFV-----------EVLLEANLRCLKTVVVGDINDGALKRISYACFSW 120 (198)
Q Consensus 71 ~gv~clvLVSDdsdF~-----------~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW 120 (198)
..-++|+++--|.--+ ..++.|+++|.+-|||.=. .....+.||.|++=
T Consensus 155 ~~ad~il~~G~N~~~s~~~~~~~~~~~~~~~~a~~~G~kliviDPr-~t~ta~~AD~~l~i 214 (539)
T cd02762 155 DRTDYLLILGANPLQSNGSLRTAPDRVLRLKAAKDRGGSLVVIDPR-RTETAKLADEHLFV 214 (539)
T ss_pred hhCCEEEEEecChHhhCCccccccCHHHHHHHHHhCCCEEEEECCC-CchhhHhcCEeeCc
Confidence 3568899997665433 4677899999999999654 36788899999873
No 336
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=41.30 E-value=1.3e+02 Score=25.04 Aligned_cols=64 Identities=20% Similarity=0.260 Sum_probs=40.2
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC-cchHHHHHHHHhcCCcEEEEcc
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD-SDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd-sdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
|+..++++.|+.+-......... -..+.+..+..++++.+|+.+.. .+ .+.++ +.+...|++|-
T Consensus 80 ~i~~~~~~~gy~~~i~~~~~~~~--~~~~~~~~l~~~~vdGvIi~~~~~~~-~~~l~---~~~~p~V~i~~ 144 (311)
T TIGR02405 80 GMLPVFYTAGYDPIIMESQFSPQ--LTNEHLSVLQKRNVDGVILFGFTGCD-EEILE---SWNHKAVVIAR 144 (311)
T ss_pred HHHHHHHHCCCeEEEecCCCChH--HHHHHHHHHHhcCCCEEEEeCCCCCC-HHHHH---hcCCCEEEEec
Confidence 77889999999987654322221 11233345667899999998743 22 23443 34567888874
No 337
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=41.24 E-value=75 Score=25.34 Aligned_cols=54 Identities=19% Similarity=0.151 Sum_probs=43.5
Q ss_pred HHHHHHhhcCccEEEEEeCCcc----hHHHHHHHHhcCCcEEEEccCCCccccchhcccc
Q 039912 63 NHLVITHKRRIEYLVVVSDDSD----FVEVLLEANLRCLKTVVVGDINDGALKRISYACF 118 (198)
Q Consensus 63 rhm~~m~~~gv~clvLVSDdsd----F~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~f 118 (198)
+|..-.+.+|.--||+++-|.+ ...+-.++.+.++--|.|++. ..|++++.+.+
T Consensus 33 ~e~~Kai~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vpyv~V~sk--~~LG~a~g~~~ 90 (116)
T COG1358 33 NEVTKAIERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYVYVGSK--KELGKAVGKEV 90 (116)
T ss_pred HHHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCCEEEeCCH--HHHHHHhCCCc
Confidence 3444444789999999999998 566677888999999999997 47999888775
No 338
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=41.23 E-value=32 Score=28.34 Aligned_cols=32 Identities=28% Similarity=0.259 Sum_probs=24.4
Q ss_pred cEEEEEeCC---cchHHHHHHHHhcCCcEEEEccC
Q 039912 74 EYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 74 ~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
.-|||++|- .+...+.+.+|+.|+...+||-+
T Consensus 110 kvvillTDG~s~~~~~~~a~~lk~~gv~i~~VgvG 144 (224)
T cd01475 110 RVGIVVTDGRPQDDVSEVAAKARALGIEMFAVGVG 144 (224)
T ss_pred eEEEEEcCCCCcccHHHHHHHHHHCCcEEEEEeCC
Confidence 347899986 34667788889999998888765
No 339
>PRK00046 murB UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=41.19 E-value=26 Score=32.23 Aligned_cols=36 Identities=25% Similarity=0.344 Sum_probs=26.8
Q ss_pred cCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 71 RRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 71 ~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
.-.++++..++-.+|..+++.|++.++...|||.++
T Consensus 19 G~A~~~~~p~~~~el~~~~~~~~~~~~p~~vlG~GS 54 (334)
T PRK00046 19 ARARHLVEAESEEQLLEALADARAAGLPVLVLGGGS 54 (334)
T ss_pred cEEeEEEeeCCHHHHHHHHHHHHHcCCCEEEEeceE
Confidence 345667777888888888888888887777777654
No 340
>TIGR02247 HAD-1A3-hyp Epoxide hydrolase N-terminal domain-like phosphatase. These appear to be members of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases by general homology and the conservation of all of the recognized catalytic motifs (although the first motif is unusual in the replacement of the more common aspartate with glycine...). The variable domain is found in between motifs 1 and 2, indicating membership in subfamily I and phylogeny and prediction of the alpha helical nature of the variable domain (by PSI-PRED) indicate membership in subfamily IA.
Probab=41.08 E-value=56 Score=25.91 Aligned_cols=20 Identities=15% Similarity=0.174 Sum_probs=15.2
Q ss_pred chhHhhhcceEEEecCCCcc
Q 039912 36 LIGELKRGGLWVRTASDKPQ 55 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPq 55 (198)
+-..|++.|+.+-.+|..|.
T Consensus 102 ~L~~L~~~g~~l~i~Sn~~~ 121 (211)
T TIGR02247 102 AIKTLRAKGFKTACITNNFP 121 (211)
T ss_pred HHHHHHHCCCeEEEEeCCCC
Confidence 44578888988888887765
No 341
>PRK15488 thiosulfate reductase PhsA; Provisional
Probab=40.82 E-value=40 Score=33.00 Aligned_cols=72 Identities=11% Similarity=0.055 Sum_probs=46.4
Q ss_pred CccEEEEEeCCcc------hHHHHHHHH-hcCCcEEEEccCCCccccchhcccccHH-----HHhhchhhhhhhhhhccc
Q 039912 72 RIEYLVVVSDDSD------FVEVLLEAN-LRCLKTVVVGDINDGALKRISYACFSWW-----DILMGKARKEAVSVVGKW 139 (198)
Q Consensus 72 gv~clvLVSDdsd------F~~~Lr~Ar-~r~l~TVVVGd~~~~~L~R~AD~~fsW~-----eV~~Gka~k~A~~~~g~W 139 (198)
.-+|||++.-+.- +...++.|+ ++|.+-|||.=. .......||.|++-. .+++|-++.-. ...|
T Consensus 196 ~ad~Il~~G~N~~~~~~~~~~~~~~~a~~~~G~kiivIDPr-~s~ta~~Ad~~l~i~PGtD~al~~al~~~ii---~~~~ 271 (759)
T PRK15488 196 NSKYIINFGHNLYEGINMSDTRGLMTAQMEKGAKLVVFEPR-FSVVASKADEWHAIRPGTDLAVVLALCHVLI---EENL 271 (759)
T ss_pred hCcEEEEeccChHhcCCcHHHHHHHHHHHhCCCEEEEECCC-CCcchhhCCeeeccCCCcHHHHHHHHHHHHH---HcCc
Confidence 4688999976631 334455666 799999999543 467889999999755 33444433322 2346
Q ss_pred cccccchh
Q 039912 140 KDGDVLKR 147 (198)
Q Consensus 140 ~d~dvlk~ 147 (198)
-|.+++++
T Consensus 272 ~D~~fi~~ 279 (759)
T PRK15488 272 YDKAFVER 279 (759)
T ss_pred ccHHHHHH
Confidence 67666653
No 342
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=40.77 E-value=98 Score=26.13 Aligned_cols=76 Identities=16% Similarity=0.133 Sum_probs=45.9
Q ss_pred ccCCCCCCC--chhHhhhc--ceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCC--cEE
Q 039912 27 VLTPEVGNG--LIGELKRG--GLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCL--KTV 100 (198)
Q Consensus 27 lltPkvgyG--La~ELrRA--Gv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l--~TV 100 (198)
++.+...|| ++..++++ |..|....-.+...|.. .++..+.+.+.+-|++.....+...++|.+++.|+ +..
T Consensus 139 il~~~~~~g~~~~~~~~~~~~~~v~~~~~~~~~~~d~~--~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~ 216 (333)
T cd06359 139 LIAPNYQAGKDALAGFKRTFKGEVVGEVYTKLGQLDFS--AELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKKDIP 216 (333)
T ss_pred EEecCchhhHHHHHHHHHHhCceeeeeecCCCCCcchH--HHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCcccCCe
Confidence 344444443 33444333 23333333333444432 24444557789988887777788999999999999 667
Q ss_pred EEcc
Q 039912 101 VVGD 104 (198)
Q Consensus 101 VVGd 104 (198)
++|-
T Consensus 217 ~~~~ 220 (333)
T cd06359 217 LYSP 220 (333)
T ss_pred eecc
Confidence 7764
No 343
>TIGR00179 murB UDP-N-acetylenolpyruvoylglucosamine reductase. This model describes MurB, UDP-N-acetylenolpyruvoylglucosamine reductase, which is also called UDP-N-acetylmuramate dehydrogenase. It is part of the pathway for the biosynthesis of the UDP-N-acetylmuramoyl-pentapeptide that is a precursor of bacterial peptidoglycan.
Probab=40.41 E-value=31 Score=30.45 Aligned_cols=34 Identities=18% Similarity=0.168 Sum_probs=29.6
Q ss_pred ccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 73 IEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 73 v~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
.+.++.+.+-.|+..+++.|++.++..+|+|.++
T Consensus 13 a~~~v~p~s~edl~~~l~~a~~~~~p~~vlGgGS 46 (284)
T TIGR00179 13 ARHIVCPESIEQLVNVLDNAKEEDQPLLILGEGS 46 (284)
T ss_pred eeEEEEeCCHHHHHHHHHHHHHcCCCEEEEecce
Confidence 3457788888999999999999999999999876
No 344
>TIGR00213 GmhB_yaeD D,D-heptose 1,7-bisphosphate phosphatase. This family of proteins formerly designated yaeD resembles the histidinol phosphatase domain of the bifunctional protein HisB. The member from E. coli has been characterized as D,D-heptose 1,7-bisphosphate phosphatase, GmhB, involved in inner core LPS assembly (PubMed:11751812).
Probab=40.41 E-value=92 Score=24.57 Aligned_cols=20 Identities=20% Similarity=0.282 Sum_probs=16.7
Q ss_pred chhHhhhcceEEEecCCCcc
Q 039912 36 LIGELKRGGLWVRTASDKPQ 55 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPq 55 (198)
+-..|+.+|+.+=.+|.+|.
T Consensus 34 ~L~~Lk~~G~~l~i~TN~~~ 53 (176)
T TIGR00213 34 ALRELKKMGYALVLVTNQSG 53 (176)
T ss_pred HHHHHHHCCCEEEEEeCCcc
Confidence 45678889999999999985
No 345
>cd02770 MopB_DmsA-EC This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-terminal iron-sulfur [4Fe-4S] cluster binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=40.34 E-value=40 Score=32.22 Aligned_cols=73 Identities=12% Similarity=0.089 Sum_probs=47.9
Q ss_pred cCccEEEEEeCCcc--------hHHHHHHHHhcCCcEEEEccCCCccccc-hhcccccHH-----HHhhchhhhhhhhhh
Q 039912 71 RRIEYLVVVSDDSD--------FVEVLLEANLRCLKTVVVGDINDGALKR-ISYACFSWW-----DILMGKARKEAVSVV 136 (198)
Q Consensus 71 ~gv~clvLVSDdsd--------F~~~Lr~Ar~r~l~TVVVGd~~~~~L~R-~AD~~fsW~-----eV~~Gka~k~A~~~~ 136 (198)
..-+|||++.-|.- ....++.||++|.+-|||.=.. ....+ .||+|++=. .+.+|-+..-- .
T Consensus 165 ~~a~~ii~wG~N~~~~~~~~~~~~~~~~~a~~~G~klivIDPr~-t~tA~~~AD~~i~irPGTD~AL~lam~~~ii---~ 240 (617)
T cd02770 165 KDSKLVVLFGHNPAETRMGGGGSTYYYLQAKKAGAKFIVIDPRY-TDTAVTLADEWIPIRPGTDAALVAAMAYVMI---T 240 (617)
T ss_pred hcCCEEEEECCCHHHhcCCCCchHHHHHHHHHcCCeEEEECCCC-CccccccCCEEECCCCCcHHHHHHHHHHHHH---H
Confidence 35789999987742 3456788999999999995543 55665 899998733 23333333222 2
Q ss_pred ccccccccchh
Q 039912 137 GKWKDGDVLKR 147 (198)
Q Consensus 137 g~W~d~dvlk~ 147 (198)
..|-|.+++++
T Consensus 241 e~l~D~~Fi~~ 251 (617)
T cd02770 241 ENLHDQAFLDR 251 (617)
T ss_pred CCCccHHHHHH
Confidence 34667777765
No 346
>TIGR01591 Fdh-alpha formate dehydrogenase, alpha subunit, archaeal-type. This model is well-defined, with only a single fragmentary sequence falling between trusted and noise. The alpha subunit of a version of nitrate reductase is closely related.
Probab=40.29 E-value=43 Score=31.90 Aligned_cols=47 Identities=13% Similarity=0.177 Sum_probs=36.2
Q ss_pred CccEEEEEeCCc-----chHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 72 RIEYLVVVSDDS-----DFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 72 gv~clvLVSDds-----dF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
..++|+++..|. .+...|+.|+++|.+.|||.=.. ..+...||.|++
T Consensus 155 ~ad~il~~G~n~~~~~~~~~~~i~~a~~~G~klvvidp~~-s~ta~~ad~~i~ 206 (671)
T TIGR01591 155 NADLIVIIGYNPAESHPVVAQYLKNAKRNGAKIIVIDPRK-TETAKIADLHIP 206 (671)
T ss_pred hCCEEEEECCChhhccCHHHHHHHHHHHCCCeEEEECCCC-ChhhHhhCcccC
Confidence 467888886654 35667888999999999996543 567788999886
No 347
>TIGR03351 PhnX-like phosphonatase-like hydrolase. This clade of sequences are the closest homologs to the PhnX enzyme, phosphonoacetaldehyde (Pald) hydrolase (phosphonatase, TIGR01422). This phosphonatase-like enzyme and PhnX itself are members of the haloacid dehalogenase (HAD) superfamily (pfam00702) having a a number of distinctive features that set them apart from typical HAD enzymes. The typical HAD N-terminal motif DxDx(T/V) here is DxAGT and the usual conserved lysine prior to the C-terminal motif is instead an arginine. Also distinctive of phosphonatase, and particular to its bi-catalytic mechanism is a conserved lysine in the variable "cap" domain. This lysine forms a Schiff base with the aldehyde of phosphonoacetaldehyde, providing, through the resulting positive charge, a polarization of the C-P bond necesary for cleavage as well as a route to the initial product of cleavage, an ene-amine. The conservation of these elements in this phosphonatase-like enzyme suggests that the
Probab=40.24 E-value=1.6e+02 Score=23.44 Aligned_cols=69 Identities=20% Similarity=0.240 Sum_probs=38.5
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhh-cCccEEEEEeCCcc----hHHHHHH-HHhcCC----cEEEEccC
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHK-RRIEYLVVVSDDSD----FVEVLLE-ANLRCL----KTVVVGDI 105 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~-~gv~clvLVSDdsd----F~~~Lr~-Ar~r~l----~TVVVGd~ 105 (198)
+-..|+..|+.+=.||.++...=...-+|+. +.. .-.+ .++.|++.. -.+++.. +++.++ ++|+|||.
T Consensus 95 ~L~~L~~~g~~~~ivT~~~~~~~~~~l~~~~-l~~~~~f~-~i~~~~~~~~~KP~p~~~~~a~~~~~~~~~~~~~~igD~ 172 (220)
T TIGR03351 95 AFRSLRSSGIKVALTTGFDRDTAERLLEKLG-WTVGDDVD-AVVCPSDVAAGRPAPDLILRAMELTGVQDVQSVAVAGDT 172 (220)
T ss_pred HHHHHHHCCCEEEEEeCCchHHHHHHHHHhh-hhhhccCC-EEEcCCcCCCCCCCHHHHHHHHHHcCCCChhHeEEeCCC
Confidence 4477888899999999998753222222221 110 2233 345555521 1234444 455565 38999996
Q ss_pred C
Q 039912 106 N 106 (198)
Q Consensus 106 ~ 106 (198)
.
T Consensus 173 ~ 173 (220)
T TIGR03351 173 P 173 (220)
T ss_pred H
Confidence 3
No 348
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=39.93 E-value=59 Score=28.60 Aligned_cols=62 Identities=13% Similarity=0.153 Sum_probs=42.7
Q ss_pred CchhHhhhcceEEEecCC-CcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 35 GLIGELKRGGLWVRTASD-KPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsd-KPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
|++..|++.|+-|....- .|... -+...+..+. .+.+-|++.+...+...+++.|++.|+..
T Consensus 167 ~~~~~~~~~gi~v~~~~~~~~~~~--d~~~~l~~ik-~~~~vIi~~~~~~~~~~i~~qa~~~g~~~ 229 (399)
T cd06384 167 GVFLALQEENANVSAHPYHIEKNS--DIIEIIQFIK-QNGRIVYICGPLETFLEIMLQAQREGLTP 229 (399)
T ss_pred HHHHHHHhcCceEEEEEEeccchh--hHHHHHHHHh-hcccEEEEeCCchHHHHHHHHHHHcCCCC
Confidence 578888889977653221 22222 3345555553 47777888899999999999999988754
No 349
>cd08179 NADPH_BDH NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria. NADPH-dependent butanol dehydrogenase (BDH) is involved in the butanol and ethanol formation pathway of some bacteria. The fermentation process is characterized by an acid producing growth phase, followed by a solvent producing phase. The latter phase is associated with the induction of solventogenic enzymes such as butanol dehydrogenase. The activity of the enzymes require NADPH as cofactor, as well as divalent ions zinc or iron. This family is a member of the iron-containing alcohol dehydrogenase superfamily. Protein structure has a dehydroquinate synthase-like fold.
Probab=39.76 E-value=1.3e+02 Score=27.01 Aligned_cols=81 Identities=12% Similarity=-0.006 Sum_probs=44.1
Q ss_pred CCCchhHhhhcc-eEEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcchH---HHHHHHHhcCCcEEE-Ecc
Q 039912 33 GNGLIGELKRGG-LWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDFV---EVLLEANLRCLKTVV-VGD 104 (198)
Q Consensus 33 gyGLa~ELrRAG-v~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF~---~~Lr~Ar~r~l~TVV-VGd 104 (198)
|-|-..+|...+ -.+-.|.++.......+..++. .+-..|+++.+. |.-++.+. .+++.+|+.+...|| ||.
T Consensus 11 G~g~l~~l~~~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGG 90 (375)
T cd08179 11 GKGSLEYLKTLKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPDPSVETVLKGAEAMREFEPDWIIALGG 90 (375)
T ss_pred CcCHHHHHHHhcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 444444443322 2344556665543333334444 554678887544 33366665 556777888887666 788
Q ss_pred CCCccccch
Q 039912 105 INDGALKRI 113 (198)
Q Consensus 105 ~~~~~L~R~ 113 (198)
++-...++.
T Consensus 91 GSviD~AK~ 99 (375)
T cd08179 91 GSPIDAAKA 99 (375)
T ss_pred ccHHHHHHH
Confidence 764444443
No 350
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=39.66 E-value=1.6e+02 Score=24.60 Aligned_cols=61 Identities=13% Similarity=0.101 Sum_probs=42.5
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC----cchHHHHHHHHhcCCcEEE
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD----SDFVEVLLEANLRCLKTVV 101 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd----sdF~~~Lr~Ar~r~l~TVV 101 (198)
++..|+-+||-|-. ..--|+.++++...++ ..++-|++-|=+ ..|..+++..|++|+.-+.
T Consensus 32 ia~~l~d~GfeVi~-~g~~~tp~e~v~aA~~----~dv~vIgvSsl~g~h~~l~~~lve~lre~G~~~i~ 96 (143)
T COG2185 32 IARALADAGFEVIN-LGLFQTPEEAVRAAVE----EDVDVIGVSSLDGGHLTLVPGLVEALREAGVEDIL 96 (143)
T ss_pred HHHHHHhCCceEEe-cCCcCCHHHHHHHHHh----cCCCEEEEEeccchHHHHHHHHHHHHHHhCCcceE
Confidence 46789999999975 4444555666665433 466666665543 5678889999999998654
No 351
>cd01476 VWA_integrin_invertebrates VWA_integrin (invertebrates): Integrins are a family of cell surface receptors that have diverse functions in cell-cell and cell-extracellular matrix interactions. Because of their involvement in many biologically important adhesion processes, integrins are conserved across a wide range of multicellular animals. Integrins from invertebrates have been identified from six phyla. There are no data to date to suggest any immunological functions for the invertebrate integrins. The members of this sub-group have the conserved MIDAS motif that is charateristic of this domain suggesting the involvement of the integrins in the recognition and binding of multi-ligands.
Probab=39.48 E-value=1.3e+02 Score=22.77 Aligned_cols=51 Identities=22% Similarity=0.190 Sum_probs=32.8
Q ss_pred hHHHHHHHHHHHHh-----hcCc-cEEEEEeCCc---chHHHHHHHHh-cCCcEEEEccCC
Q 039912 56 ATDVLLRNHLVITH-----KRRI-EYLVVVSDDS---DFVEVLLEANL-RCLKTVVVGDIN 106 (198)
Q Consensus 56 AAD~ALkrhm~~m~-----~~gv-~clvLVSDds---dF~~~Lr~Ar~-r~l~TVVVGd~~ 106 (198)
+...||+.....+- ..++ .-+||+||-. +-....+..+. .++.++.||-++
T Consensus 81 ~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~~~~~~~~~~l~~~~~v~v~~vg~g~ 141 (163)
T cd01476 81 ATGAAIEVALQQLDPSEGRREGIPKVVVVLTDGRSHDDPEKQARILRAVPNIETFAVGTGD 141 (163)
T ss_pred cHHHHHHHHHHHhccccCCCCCCCeEEEEECCCCCCCchHHHHHHHhhcCCCEEEEEECCC
Confidence 55567776665552 1133 3589999842 24456667777 888888888765
No 352
>COG0241 HisB Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]
Probab=39.40 E-value=1.2e+02 Score=25.91 Aligned_cols=80 Identities=20% Similarity=0.144 Sum_probs=51.4
Q ss_pred hHhhhcceEEEecCC--------CcchHHHHHHHHHH-HHhhcCcc-EEEEEeCC-----cch----HHHHHHHHh-cC-
Q 039912 38 GELKRGGLWVRTASD--------KPQATDVLLRNHLV-ITHKRRIE-YLVVVSDD-----SDF----VEVLLEANL-RC- 96 (198)
Q Consensus 38 ~ELrRAGv~VrtVsd--------KPqAAD~ALkrhm~-~m~~~gv~-clvLVSDd-----sdF----~~~Lr~Ar~-r~- 96 (198)
..|+++|+.+-.|+. -|+++=..+-++|. ++.+.||. +-+|.|-+ ++. .+|+..+.+ .+
T Consensus 41 ~~l~~~gy~lVvvTNQsGi~rgyf~~~~f~~~~~~m~~~l~~~gv~id~i~~Cph~p~~~c~cRKP~~gm~~~~~~~~~i 120 (181)
T COG0241 41 LKLQRAGYKLVVVTNQSGIGRGYFTEADFDKLHNKMLKILASQGVKIDGILYCPHHPEDNCDCRKPKPGMLLSALKEYNI 120 (181)
T ss_pred HHHHhCCCeEEEEECCCCccccCccHHHHHHHHHHHHHHHHHcCCccceEEECCCCCCCCCcccCCChHHHHHHHHHhCC
Confidence 467899999988776 35566556666677 78788854 24444422 222 456665555 55
Q ss_pred --CcEEEEccC-CCccccchhccc
Q 039912 97 --LKTVVVGDI-NDGALKRISYAC 117 (198)
Q Consensus 97 --l~TVVVGd~-~~~~L~R~AD~~ 117 (198)
-+++||||. +|..++..|.+.
T Consensus 121 D~~~s~~VGD~~~Dlq~a~n~gi~ 144 (181)
T COG0241 121 DLSRSYVVGDRLTDLQAAENAGIK 144 (181)
T ss_pred CccceEEecCcHHHHHHHHHCCCC
Confidence 689999997 455555555554
No 353
>PRK13226 phosphoglycolate phosphatase; Provisional
Probab=39.32 E-value=1.6e+02 Score=24.18 Aligned_cols=22 Identities=23% Similarity=0.418 Sum_probs=18.3
Q ss_pred CchhHhhhcceEEEecCCCcch
Q 039912 35 GLIGELKRGGLWVRTASDKPQA 56 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqA 56 (198)
.+-..|++.|+.+-.+|.++..
T Consensus 102 ~~L~~L~~~g~~l~i~Tn~~~~ 123 (229)
T PRK13226 102 GMLQRLECAGCVWGIVTNKPEY 123 (229)
T ss_pred HHHHHHHHCCCeEEEECCCCHH
Confidence 3677899999999999998864
No 354
>TIGR01993 Pyr-5-nucltdase pyrimidine 5'-nucleotidase. These enzymes are members of the haloacid dehalogenase (HAD) superfamily of hydrolases, specifically the IA subfamily (variant 3, TIGR01509).
Probab=39.25 E-value=84 Score=24.45 Aligned_cols=67 Identities=13% Similarity=0.009 Sum_probs=34.3
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccE---EEEEeCCcch--------HHHHHH-HHhcCC---c
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEY---LVVVSDDSDF--------VEVLLE-ANLRCL---K 98 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~c---lvLVSDdsdF--------~~~Lr~-Ar~r~l---~ 98 (198)
-|+..-|++-...+-.+|.+|... +.+ .+...|+.- .|+.|++... -++++. +++.|+ +
T Consensus 87 ~g~~~~L~~L~~~~~i~Tn~~~~~---~~~---~l~~~gl~~~fd~i~~~~~~~~~~~~~KP~p~~~~~~~~~~~~~~~~ 160 (184)
T TIGR01993 87 PELRNLLLRLPGRKIIFTNGDRAH---ARR---ALNRLGIEDCFDGIFCFDTANPDYLLPKPSPQAYEKALREAGVDPER 160 (184)
T ss_pred HHHHHHHHhCCCCEEEEeCCCHHH---HHH---HHHHcCcHhhhCeEEEeecccCccCCCCCCHHHHHHHHHHhCCCccc
Confidence 456666666555556677777532 222 222334432 3555555432 224443 334454 4
Q ss_pred EEEEccCC
Q 039912 99 TVVVGDIN 106 (198)
Q Consensus 99 TVVVGd~~ 106 (198)
+++|||..
T Consensus 161 ~l~vgD~~ 168 (184)
T TIGR01993 161 AIFFDDSA 168 (184)
T ss_pred eEEEeCCH
Confidence 89999963
No 355
>COG0569 TrkA K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]
Probab=39.25 E-value=39 Score=28.60 Aligned_cols=32 Identities=22% Similarity=0.276 Sum_probs=27.2
Q ss_pred CCCCCchhHhhhcceEEEecCCCcchHHHHHH
Q 039912 31 EVGNGLIGELKRGGLWVRTASDKPQATDVLLR 62 (198)
Q Consensus 31 kvgyGLa~ELrRAGv~VrtVsdKPqAAD~ALk 62 (198)
.+|+.+|..|.+.|.-|-++...|......+.
T Consensus 10 ~vG~~va~~L~~~g~~Vv~Id~d~~~~~~~~~ 41 (225)
T COG0569 10 RVGRSVARELSEEGHNVVLIDRDEERVEEFLA 41 (225)
T ss_pred HHHHHHHHHHHhCCCceEEEEcCHHHHHHHhh
Confidence 46899999999999999999999987755444
No 356
>TIGR01656 Histidinol-ppas histidinol-phosphate phosphatase family domain. This domain is a member of the haloacid-dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. This superfamily is distinguished by the presence of three motifs: an N-terminal motif containing the nucleophilic aspartate, a central motif containing an conserved serine or threonine, and a C-terminal motif containing a conserved lysine (or arginine) and conserved aspartates. More specifically, the domian modelled here is a member of subfamily III of the HAD-superfamily by virtue of lacking a "capping" domain in either of the two common positions, between motifs 1 and 2, or between motifs 2 and 3.
Probab=39.19 E-value=94 Score=23.85 Aligned_cols=47 Identities=26% Similarity=0.249 Sum_probs=29.6
Q ss_pred CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 52 DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 52 dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
.||... .+...|..| +-..+..+.|.|+ ..+ ++.|+..|++||.|=+
T Consensus 100 ~KP~~~--~~~~~~~~~-~~~~~e~i~IGDs--~~D-i~~A~~~Gi~~v~i~~ 146 (147)
T TIGR01656 100 RKPKPG--LILEALKRL-GVDASRSLVVGDR--LRD-LQAARNAGLAAVLLVD 146 (147)
T ss_pred CCCCHH--HHHHHHHHc-CCChHHEEEEcCC--HHH-HHHHHHCCCCEEEecC
Confidence 377654 555555544 3344446666665 333 7789999999998754
No 357
>TIGR01497 kdpB K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR.
Probab=39.04 E-value=69 Score=32.28 Aligned_cols=47 Identities=11% Similarity=0.071 Sum_probs=29.6
Q ss_pred hHHHHHHHHhcCCcEEEEccC-CCccccchhcccccHHHHhhchhhhhhhhhh
Q 039912 85 FVEVLLEANLRCLKTVVVGDI-NDGALKRISYACFSWWDILMGKARKEAVSVV 136 (198)
Q Consensus 85 F~~~Lr~Ar~r~l~TVVVGd~-~~~~L~R~AD~~fsW~eV~~Gka~k~A~~~~ 136 (198)
=..+++.-+++|-...++||+ ||-..=+.||+.+.- |.+...|.+++
T Consensus 497 K~~~v~~lq~~g~~VamvGDG~NDapAL~~AdvGiAm-----~~gt~~akeaa 544 (675)
T TIGR01497 497 KIALIRQEQAEGKLVAMTGDGTNDAPALAQADVGVAM-----NSGTQAAKEAA 544 (675)
T ss_pred HHHHHHHHHHcCCeEEEECCCcchHHHHHhCCEeEEe-----CCCCHHHHHhC
Confidence 345566667777778899995 443334678998764 44444444443
No 358
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=39.02 E-value=59 Score=32.70 Aligned_cols=45 Identities=22% Similarity=0.203 Sum_probs=29.1
Q ss_pred HHHHHHHhcCCcEEEEccC-CC-ccccchhcccccHHHHhhchhhhhhhhhhc
Q 039912 87 EVLLEANLRCLKTVVVGDI-ND-GALKRISYACFSWWDILMGKARKEAVSVVG 137 (198)
Q Consensus 87 ~~Lr~Ar~r~l~TVVVGd~-~~-~~L~R~AD~~fsW~eV~~Gka~k~A~~~~g 137 (198)
.+++.-+++|-....+||+ || .+| +.||+++ .||.+...|.+++.
T Consensus 494 ~iV~~lQ~~G~~VaMtGDGvNDAPAL-a~ADVGI-----AMgsGTdvAkeAAD 540 (673)
T PRK14010 494 NVIREEQAKGHIVAMTGDGTNDAPAL-AEANVGL-----AMNSGTMSAKEAAN 540 (673)
T ss_pred HHHHHHHhCCCEEEEECCChhhHHHH-HhCCEEE-----EeCCCCHHHHHhCC
Confidence 3455556666556689995 33 333 5689976 57777777766654
No 359
>smart00857 Resolvase Resolvase, N terminal domain. The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.
Probab=39.00 E-value=1e+02 Score=23.02 Aligned_cols=29 Identities=17% Similarity=0.243 Sum_probs=21.7
Q ss_pred cchHHHHHHHHhcCCcEEEEccCCCccccch
Q 039912 83 SDFVEVLLEANLRCLKTVVVGDINDGALKRI 113 (198)
Q Consensus 83 sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~ 113 (198)
+.|..+|+.++...+.+|||-+.+ -|+|.
T Consensus 52 p~l~~ll~~~~~g~~~~ivv~~~~--Rl~R~ 80 (148)
T smart00857 52 PGLQRLLADLRAGDIDVLVVYKLD--RLGRS 80 (148)
T ss_pred HHHHHHHHHHHcCCCCEEEEeccc--hhhCc
Confidence 568888888888777788888875 36664
No 360
>PRK11587 putative phosphatase; Provisional
Probab=38.98 E-value=80 Score=25.48 Aligned_cols=66 Identities=20% Similarity=0.185 Sum_probs=36.9
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCcc--EEEEEeCCc-----chHHHHHHHHhcCC---cEEEEcc
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIE--YLVVVSDDS-----DFVEVLLEANLRCL---KTVVVGD 104 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~--clvLVSDds-----dF~~~Lr~Ar~r~l---~TVVVGd 104 (198)
.+-..|+..|+.+-.||.++...-..... ..|+. -.++.+|+. +=..++..+++-|+ ++|+|||
T Consensus 90 e~L~~L~~~g~~~~ivTn~~~~~~~~~l~------~~~l~~~~~i~~~~~~~~~KP~p~~~~~~~~~~g~~p~~~l~igD 163 (218)
T PRK11587 90 ALLNHLNKLGIPWAIVTSGSVPVASARHK------AAGLPAPEVFVTAERVKRGKPEPDAYLLGAQLLGLAPQECVVVED 163 (218)
T ss_pred HHHHHHHHcCCcEEEEcCCCchHHHHHHH------hcCCCCccEEEEHHHhcCCCCCcHHHHHHHHHcCCCcccEEEEec
Confidence 35568889999999999888653222211 12222 123333332 22334445555665 4789999
Q ss_pred CC
Q 039912 105 IN 106 (198)
Q Consensus 105 ~~ 106 (198)
+.
T Consensus 164 s~ 165 (218)
T PRK11587 164 AP 165 (218)
T ss_pred ch
Confidence 64
No 361
>PLN02530 histidine-tRNA ligase
Probab=38.85 E-value=1.5e+02 Score=28.10 Aligned_cols=82 Identities=21% Similarity=0.200 Sum_probs=49.4
Q ss_pred HHHHHHHhc---cCCCCCCCchhHh-----hhcce----------EEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEe
Q 039912 19 KYKRAARAV---LTPEVGNGLIGEL-----KRGGL----------WVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVS 80 (198)
Q Consensus 19 KY~~AAr~l---ltPkvgyGLa~EL-----rRAGv----------~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVS 80 (198)
+|.+-.... -+|++|+++..++ ...|. .|-.+.+. .-+.|+ +....+.+.|+.+.+-..
T Consensus 360 RYD~Li~~fgg~~~pAvGFa~g~~~l~~~l~~~g~~p~~~~~~dVlVi~~~~~--~~~~A~-~ia~~LR~~Gi~vevd~~ 436 (487)
T PLN02530 360 RYDRLLSTFGGEDTPACGFGFGDAVIVELLKEKGLLPELPHQVDDVVFALDED--LQGAAA-GVASRLREKGRSVDLVLE 436 (487)
T ss_pred cHHHHHHHhCCCCCCeeEEEEhHHHHHHHHHhcCCCCCCCCCCcEEEEEcChH--HHHHHH-HHHHHHHHCCCeEEEecC
Confidence 466555442 4799999887442 33342 22222221 112222 233356688999977655
Q ss_pred CCcchHHHHHHHHhcCCcE-EEEcc
Q 039912 81 DDSDFVEVLLEANLRCLKT-VVVGD 104 (198)
Q Consensus 81 DdsdF~~~Lr~Ar~r~l~T-VVVGd 104 (198)
+ ..+...++.|.+.++.. |+||+
T Consensus 437 ~-~~l~k~ik~A~k~g~~~iviiG~ 460 (487)
T PLN02530 437 P-KKLKWVFKHAERIGAKRLVLVGA 460 (487)
T ss_pred C-CCHHHHHHHHHHCCCCEEEEEch
Confidence 5 45899999999988876 67786
No 362
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=38.83 E-value=78 Score=21.51 Aligned_cols=45 Identities=13% Similarity=-0.004 Sum_probs=30.5
Q ss_pred HHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 60 LLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 60 ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
-++++|..| ..|-.-.|+++|.+-..++-+.|++.|.+-+.+-..
T Consensus 16 ~~~~~l~~l-~~G~~l~v~~d~~~~~~di~~~~~~~g~~~~~~~~~ 60 (70)
T PF01206_consen 16 KAKKALKEL-PPGEVLEVLVDDPAAVEDIPRWCEENGYEVVEVEEE 60 (70)
T ss_dssp HHHHHHHTS-GTT-EEEEEESSTTHHHHHHHHHHHHTEEEEEEEES
T ss_pred HHHHHHHhc-CCCCEEEEEECCccHHHHHHHHHHHCCCEEEEEEEe
Confidence 456666666 446455566666666788999999999976766553
No 363
>PRK14652 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=38.81 E-value=33 Score=30.70 Aligned_cols=37 Identities=14% Similarity=0.106 Sum_probs=32.5
Q ss_pred hcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 70 KRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 70 ~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
..-.++++...+-.|+..+++.|++.++..+|+|.++
T Consensus 33 gg~a~~~v~p~~~edl~~~v~~a~~~~ip~~vlGgGS 69 (302)
T PRK14652 33 GGPADLLVRPADPDALSALLRAVRELGVPLSILGGGA 69 (302)
T ss_pred CCcceEEEEcCCHHHHHHHHHHHHHCCCcEEEEcCCc
Confidence 3445678889999999999999999999999999976
No 364
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=38.74 E-value=1.3e+02 Score=24.47 Aligned_cols=51 Identities=18% Similarity=0.122 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHHHhhc----CccEEEEEeCCc-----chHHHHHHHHhcCCcEEEEccCC
Q 039912 56 ATDVLLRNHLVITHKR----RIEYLVVVSDDS-----DFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 56 AAD~ALkrhm~~m~~~----gv~clvLVSDds-----dF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
+-..||.-.+..+.+. +-..|||+||-+ ++..+++.+++.|++-.+||=+.
T Consensus 87 ~l~~aL~~A~~~l~~~~~~~~~~iiil~sd~~~~~~~~~~~~~~~l~~~~I~v~~IgiG~ 146 (183)
T cd01453 87 SLQNGLEMALESLKHMPSHGSREVLIIFSSLSTCDPGNIYETIDKLKKENIRVSVIGLSA 146 (183)
T ss_pred hHHHHHHHHHHHHhcCCccCceEEEEEEcCCCcCChhhHHHHHHHHHHcCcEEEEEEech
Confidence 5566776666655332 123477777633 35578899999999887777653
No 365
>PRK05557 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Validated
Probab=38.44 E-value=1.3e+02 Score=23.50 Aligned_cols=70 Identities=19% Similarity=0.084 Sum_probs=41.0
Q ss_pred CCCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHH---h--cCCcEEEEc
Q 039912 31 EVGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEAN---L--RCLKTVVVG 103 (198)
Q Consensus 31 kvgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar---~--r~l~TVVVG 103 (198)
.+|..++..|.+.|..|..+...|......+... +...+....++..|-++...+.+... + .++..||..
T Consensus 16 ~iG~~l~~~l~~~G~~v~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~Dl~~~~~~~~~~~~~~~~~~~id~vi~~ 90 (248)
T PRK05557 16 GIGRAIAERLAAQGANVVINYASSEAGAEALVAE---IGALGGKALAVQGDVSDAESVERAVDEAKAEFGGVDILVNN 90 (248)
T ss_pred hHHHHHHHHHHHCCCEEEEEeCCchhHHHHHHHH---HHhcCCceEEEEcCCCCHHHHHHHHHHHHHHcCCCCEEEEC
Confidence 3577788889999999977666665333333332 22334445555557777665544333 2 357766654
No 366
>PRK09456 ?-D-glucose-1-phosphatase; Provisional
Probab=38.25 E-value=1.6e+02 Score=23.34 Aligned_cols=50 Identities=20% Similarity=0.215 Sum_probs=30.7
Q ss_pred CCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 51 SDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 51 sdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
..||... .....+..+ +..-+..+.|- |+. .+ +.-|++.|++||.|.+..
T Consensus 139 ~~KP~p~--~~~~~~~~~-~~~p~~~l~vg-D~~-~d-i~aA~~aG~~~i~~~~~~ 188 (199)
T PRK09456 139 MRKPEAR--IYQHVLQAE-GFSAADAVFFD-DNA-DN-IEAANALGITSILVTDKQ 188 (199)
T ss_pred CCCCCHH--HHHHHHHHc-CCChhHeEEeC-CCH-HH-HHHHHHcCCEEEEecCCc
Confidence 3478755 444444444 22334455554 443 45 888999999999998854
No 367
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=38.19 E-value=1.2e+02 Score=25.10 Aligned_cols=80 Identities=14% Similarity=0.045 Sum_probs=44.6
Q ss_pred ccCCCC---CCCchhHhhhcceEEEecC---CCcc-hHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh-----
Q 039912 27 VLTPEV---GNGLIGELKRGGLWVRTAS---DKPQ-ATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL----- 94 (198)
Q Consensus 27 lltPkv---gyGLa~ELrRAGv~VrtVs---dKPq-AAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~----- 94 (198)
+|-|.- ..-|+..|+..|+.|..+. -.|. .....+... +.+.+++++++-|-.+ ...++.....
T Consensus 121 vL~~rg~~~r~~l~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~---l~~~~~d~i~f~S~~~-~~~f~~~~~~~~~~~ 196 (240)
T PRK09189 121 LLYLAGRPRAPVFEDRLAAAGIPFRVAECYDMLPVMYSPATLSAI---LGGAPFDAVLLYSRVA-ARRFFALMRLSIAPP 196 (240)
T ss_pred EEEeccCcccchhHHHHHhCCCeeEEEEEEEeecCCCChHHHHHH---HhcCCCCEEEEeCHHH-HHHHHHHHhhhcCcc
Confidence 444443 3358899999998875322 1111 111233332 2356899999999654 3444443321
Q ss_pred --cCCcEEEEccCCCccc
Q 039912 95 --RCLKTVVVGDINDGAL 110 (198)
Q Consensus 95 --r~l~TVVVGd~~~~~L 110 (198)
.+++-|+||-....++
T Consensus 197 ~l~~~~~v~Ig~~ta~al 214 (240)
T PRK09189 197 ADEKTRFLCLSARVAAAL 214 (240)
T ss_pred cccccCeEEeCHHHHHHH
Confidence 3566788888653333
No 368
>PRK10725 fructose-1-P/6-phosphogluconate phosphatase; Provisional
Probab=38.17 E-value=69 Score=24.67 Aligned_cols=66 Identities=20% Similarity=0.135 Sum_probs=35.8
Q ss_pred CCCchhHhhhcceEEEecCCCcch-HHHHHHHHHHHHhhcCcc---EEEEEeCCc-----chHHHHHHHHhcCC---cEE
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQA-TDVLLRNHLVITHKRRIE---YLVVVSDDS-----DFVEVLLEANLRCL---KTV 100 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqA-AD~ALkrhm~~m~~~gv~---clvLVSDds-----dF~~~Lr~Ar~r~l---~TV 100 (198)
|-.+-..|++ ++..-.+|.+|+. +...|++ .|+. -.|+.|++. +=..+++.+++-|+ ++|
T Consensus 92 ~~e~L~~L~~-~~~l~I~T~~~~~~~~~~l~~-------~~l~~~fd~i~~~~~~~~~KP~p~~~~~~~~~~~~~~~~~l 163 (188)
T PRK10725 92 LIEVVKAWHG-RRPMAVGTGSESAIAEALLAH-------LGLRRYFDAVVAADDVQHHKPAPDTFLRCAQLMGVQPTQCV 163 (188)
T ss_pred HHHHHHHHHh-CCCEEEEcCCchHHHHHHHHh-------CCcHhHceEEEehhhccCCCCChHHHHHHHHHcCCCHHHeE
Confidence 3344455654 3556667887763 3333333 3332 135556553 33345556666665 489
Q ss_pred EEccCC
Q 039912 101 VVGDIN 106 (198)
Q Consensus 101 VVGd~~ 106 (198)
+|||..
T Consensus 164 ~igDs~ 169 (188)
T PRK10725 164 VFEDAD 169 (188)
T ss_pred EEeccH
Confidence 999963
No 369
>TIGR02663 nifX nitrogen fixation protein NifX. Members of this family are NifX proteins encoded within operons for nitrogen fixation in a number of bacteria. NifX, NafY, and the C-terminal region of NifB all belong to the Pfam family pfam02579 and are involved in MoFe cofactor biosynthesis. NifX is a nitrogenase accessory protein with a role in expression of the MoFe cofactor.
Probab=38.12 E-value=37 Score=25.95 Aligned_cols=50 Identities=8% Similarity=0.106 Sum_probs=37.6
Q ss_pred HHhccCCCCCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCcc
Q 039912 24 ARAVLTPEVGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIE 74 (198)
Q Consensus 24 Ar~lltPkvgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~ 74 (198)
+.-|++-..|.+....|.++|+.|-++ ..+.-.+.||+.=...|....--
T Consensus 64 c~vvi~~~IG~~a~~~L~~~gI~~~~~-~~~~~v~eal~~l~~~~~~~~~~ 113 (119)
T TIGR02663 64 CAILYCLAIGGPAAAKVVAAKIHPIKV-NEPESISELLERLQKMLKGNPPP 113 (119)
T ss_pred CcEEEEhhcCccHHHHHHHcCCeeEec-CCCccHHHHHHHHHHHHcCCCCH
Confidence 456888999999999999999999875 55555667887766677554433
No 370
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=38.11 E-value=56 Score=30.98 Aligned_cols=34 Identities=24% Similarity=0.250 Sum_probs=17.6
Q ss_pred hcCccEEEEEeCCcchHHHHHHHHhcCCc-EEEEcc
Q 039912 70 KRRIEYLVVVSDDSDFVEVLLEANLRCLK-TVVVGD 104 (198)
Q Consensus 70 ~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~-TVVVGd 104 (198)
+.||.+.+-.++ .-+..-++.|...|.. .|+||+
T Consensus 501 ~~gi~v~~d~~~-~~l~kk~~~A~~~g~p~~iivG~ 535 (575)
T PRK12305 501 AAGIRVEVDTSN-ERLNKKIRNAQKQKIPYMLVVGD 535 (575)
T ss_pred HCCCEEEEECCC-CCHHHHHHHHHhcCCCEEEEEec
Confidence 445555544333 2356666666666555 344554
No 371
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=38.02 E-value=1.2e+02 Score=22.14 Aligned_cols=58 Identities=19% Similarity=0.180 Sum_probs=36.2
Q ss_pred HHHHHHHHHHhhc------CccEEEEEeCCcc-----hHHHHHHHHhcCCcEEEEccC--CCccccchhcc
Q 039912 59 VLLRNHLVITHKR------RIEYLVVVSDDSD-----FVEVLLEANLRCLKTVVVGDI--NDGALKRISYA 116 (198)
Q Consensus 59 ~ALkrhm~~m~~~------gv~clvLVSDdsd-----F~~~Lr~Ar~r~l~TVVVGd~--~~~~L~R~AD~ 116 (198)
.||......+.+. ...-|||+||-.. ...+++..++.++..++||-+ +...|...|+.
T Consensus 84 ~al~~a~~~~~~~~~~~~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~v~v~~i~~g~~~~~~l~~la~~ 154 (161)
T cd01450 84 KALQYALEQLFSESNARENVPKVIIVLTDGRSDDGGDPKEAAAKLKDEGIKVFVVGVGPADEEELREIASC 154 (161)
T ss_pred HHHHHHHHHhcccccccCCCCeEEEEECCCCCCCCcchHHHHHHHHHCCCEEEEEeccccCHHHHHHHhCC
Confidence 4666555544332 2224899988422 788999999999997666654 33445555543
No 372
>PRK06194 hypothetical protein; Provisional
Probab=37.96 E-value=1.1e+02 Score=25.03 Aligned_cols=66 Identities=18% Similarity=0.058 Sum_probs=41.1
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh-----cCCcEEEE
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL-----RCLKTVVV 102 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~-----r~l~TVVV 102 (198)
|..|+.+|.+.|..|..+...+... .+....+...|..+.++..|=++...+-+.... -++..|+-
T Consensus 19 G~~la~~l~~~G~~V~~~~r~~~~~----~~~~~~~~~~~~~~~~~~~D~~d~~~~~~~~~~~~~~~g~id~vi~ 89 (287)
T PRK06194 19 GLAFARIGAALGMKLVLADVQQDAL----DRAVAELRAQGAEVLGVRTDVSDAAQVEALADAALERFGAVHLLFN 89 (287)
T ss_pred HHHHHHHHHHCCCEEEEEeCChHHH----HHHHHHHHhcCCeEEEEECCCCCHHHHHHHHHHHHHHcCCCCEEEE
Confidence 6779999999999998766554433 222233334477777787777776665444433 24555543
No 373
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=37.82 E-value=90 Score=21.33 Aligned_cols=65 Identities=31% Similarity=0.322 Sum_probs=41.8
Q ss_pred CchhHhhhcce-EEEecCCCcchHHHHHHHHHHHHhhcCccEEEEE--eCCcchHHHHHHHHhc--CCcEEEEccCCC
Q 039912 35 GLIGELKRGGL-WVRTASDKPQATDVLLRNHLVITHKRRIEYLVVV--SDDSDFVEVLLEANLR--CLKTVVVGDIND 107 (198)
Q Consensus 35 GLa~ELrRAGv-~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLV--SDdsdF~~~Lr~Ar~r--~l~TVVVGd~~~ 107 (198)
++..-|++.|+ -|.++++..+|- ..++ +...+.+++= ..+-+-.++++.-|.. +.+.|++++..+
T Consensus 13 ~l~~~l~~~~~~~v~~~~~~~~~~-~~~~-------~~~~d~iiid~~~~~~~~~~~~~~i~~~~~~~~ii~~t~~~~ 82 (112)
T PF00072_consen 13 LLEKLLERAGYEEVTTASSGEEAL-ELLK-------KHPPDLIIIDLELPDGDGLELLEQIRQINPSIPIIVVTDEDD 82 (112)
T ss_dssp HHHHHHHHTTEEEEEEESSHHHHH-HHHH-------HSTESEEEEESSSSSSBHHHHHHHHHHHTTTSEEEEEESSTS
T ss_pred HHHHHHHhCCCCEEEEECCHHHHH-HHhc-------ccCceEEEEEeeeccccccccccccccccccccEEEecCCCC
Confidence 45667889999 888877754444 2222 3345555543 2455666777777774 488999997653
No 374
>PRK10517 magnesium-transporting ATPase MgtA; Provisional
Probab=37.82 E-value=90 Score=32.10 Aligned_cols=45 Identities=18% Similarity=0.053 Sum_probs=28.7
Q ss_pred HHHHHHHhcCCcEEEEccC-CCccccchhcccccHHHHhhchhhhhhhhhh
Q 039912 87 EVLLEANLRCLKTVVVGDI-NDGALKRISYACFSWWDILMGKARKEAVSVV 136 (198)
Q Consensus 87 ~~Lr~Ar~r~l~TVVVGd~-~~~~L~R~AD~~fsW~eV~~Gka~k~A~~~~ 136 (198)
.+++.-+++|-...++||+ ||-.-=+.||++++ +|.+...|-+++
T Consensus 628 ~IV~~Lq~~G~vVam~GDGvNDaPALk~ADVGIA-----mg~gtdvAkeaA 673 (902)
T PRK10517 628 RIVTLLKREGHVVGFMGDGINDAPALRAADIGIS-----VDGAVDIAREAA 673 (902)
T ss_pred HHHHHHHHCCCEEEEECCCcchHHHHHhCCEEEE-----eCCcCHHHHHhC
Confidence 3455556778778899995 44333467999986 555554454443
No 375
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=37.71 E-value=90 Score=26.03 Aligned_cols=40 Identities=20% Similarity=0.260 Sum_probs=27.0
Q ss_pred HHhhcCccEEEEEe--CCc----chHHHHHHHHhcCCcEEEEccCC
Q 039912 67 ITHKRRIEYLVVVS--DDS----DFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 67 ~m~~~gv~clvLVS--Dds----dF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
+....||..+++-. ++. +|..+|+.++++|+..||-||..
T Consensus 53 ~A~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~g~~~vv~G~i~ 98 (194)
T cd01994 53 QAEAMGIPLIRIEISGEEEDEVEDLKELLRKLKEEGVDAVVFGAIL 98 (194)
T ss_pred HHHHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHcCCCEEEECccc
Confidence 33456999776653 333 44455666666689999999975
No 376
>PRK07454 short chain dehydrogenase; Provisional
Probab=37.62 E-value=1.1e+02 Score=24.21 Aligned_cols=69 Identities=13% Similarity=0.137 Sum_probs=41.4
Q ss_pred CCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHH---HHHHHh--cCCcEEEEcc
Q 039912 32 VGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEV---LLEANL--RCLKTVVVGD 104 (198)
Q Consensus 32 vgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~---Lr~Ar~--r~l~TVVVGd 104 (198)
+|..++.+|.+.|..|..+...|+... .+...+. ..+....++..|-.+...+ +..+.+ .++..||-.-
T Consensus 18 iG~~la~~l~~~G~~V~~~~r~~~~~~-~~~~~~~---~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~id~lv~~a 91 (241)
T PRK07454 18 IGKATALAFAKAGWDLALVARSQDALE-ALAAELR---STGVKAAAYSIDLSNPEAIAPGIAELLEQFGCPDVLINNA 91 (241)
T ss_pred HHHHHHHHHHHCCCEEEEEeCCHHHHH-HHHHHHH---hCCCcEEEEEccCCCHHHHHHHHHHHHHHcCCCCEEEECC
Confidence 467789999999999987766554332 2333333 3344555666776666554 444333 3577776543
No 377
>cd01454 vWA_norD_type norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial denitrification has been established as NO3- ------ NO2- ------ NO ------- N2O --------- N2. This reaction generally occurs under oxygen limiting conditions. Genetic and biochemical studies have shown that the first srep of the biochemical pathway is catalyzed by periplasmic nitrate reductases. This family is widely present in proteobacteria and firmicutes. This version of the domain is also present in some archaeal members. The function of the vWA domain in this sub-group is not known. Members of this subgroup have a conserved MIDAS motif.
Probab=37.58 E-value=1.6e+02 Score=22.88 Aligned_cols=48 Identities=17% Similarity=0.149 Sum_probs=31.5
Q ss_pred HHHHHHHHHhh--cCccEEEEEeCCcc------------hHHH---HHHHHhcCCcEEEEccCCC
Q 039912 60 LLRNHLVITHK--RRIEYLVVVSDDSD------------FVEV---LLEANLRCLKTVVVGDIND 107 (198)
Q Consensus 60 ALkrhm~~m~~--~gv~clvLVSDdsd------------F~~~---Lr~Ar~r~l~TVVVGd~~~ 107 (198)
||......+.. .+-.-|||+||=.+ +.+. .+.|++.|+...+||-+++
T Consensus 89 al~~a~~~l~~~~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~igig~~ 153 (174)
T cd01454 89 AIRHAAERLLARPEKRKILLVISDGEPNDLDYYEGNVFATEDALRAVIEARKLGIEVFGITIDRD 153 (174)
T ss_pred HHHHHHHHHhcCCCcCcEEEEEeCCCcCcccccCcchhHHHHHHHHHHHHHhCCcEEEEEEecCc
Confidence 55554444422 23456999998543 2344 6788889999988888763
No 378
>cd01461 vWA_interalpha_trypsin_inhibitor vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to the extracellular matrix by binding to hyaluronic acid. The heavy chains carry the VWA domain with a conserved MIDAS motif. Although the exact role of the VWA domains remains unknown, it has been speculated to be involved in mediating protein-protein interactions with the components of the extracellular matrix.
Probab=37.55 E-value=74 Score=23.88 Aligned_cols=46 Identities=20% Similarity=0.212 Sum_probs=26.7
Q ss_pred HHHHHHHHHh--hcCccEEEEEeCC-----cchHHHHHHHHh--cCCcEEEEccC
Q 039912 60 LLRNHLVITH--KRRIEYLVVVSDD-----SDFVEVLLEANL--RCLKTVVVGDI 105 (198)
Q Consensus 60 ALkrhm~~m~--~~gv~clvLVSDd-----sdF~~~Lr~Ar~--r~l~TVVVGd~ 105 (198)
+|......+. ..+...|||+||= .++...++.+.+ ..+.+|.||..
T Consensus 85 al~~a~~~l~~~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~i~i~~i~~g~~ 139 (171)
T cd01461 85 ALEAALELLNSSPGSVPQIILLTDGEVTNESQILKNVREALSGRIRLFTFGIGSD 139 (171)
T ss_pred HHHHHHHhhccCCCCccEEEEEeCCCCCCHHHHHHHHHHhcCCCceEEEEEeCCc
Confidence 5555444442 2356789999992 334455555544 34566777753
No 379
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=37.45 E-value=18 Score=35.64 Aligned_cols=78 Identities=28% Similarity=0.221 Sum_probs=51.0
Q ss_pred CCCchhHhhhcceEEEec---CCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc--hHHHHHHHHhcCCcEEEEccCCC
Q 039912 33 GNGLIGELKRGGLWVRTA---SDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD--FVEVLLEANLRCLKTVVVGDIND 107 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtV---sdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd--F~~~Lr~Ar~r~l~TVVVGd~~~ 107 (198)
+..|+..|++.|+.|-.. .=.|-.....|...+..+ ...+|||++|-+.- |.+.|+..+-.+++.++||..+.
T Consensus 15 a~~la~~L~~~G~~vi~~Pli~i~p~~~~~~l~~~l~~L--~~yd~iIFTS~nAV~~~~~~l~~~~~~~~~i~AVG~~Ta 92 (656)
T PRK06975 15 SAALAAQLAAAGLDVLDFPLLDIAPVADDAPLRAALARL--SDYALVVFVSPNAVDRALARLDAIWPHALPVAVVGPGSV 92 (656)
T ss_pred HHHHHHHHHHcCCCEEEcccEEeeCCCChHHHHHHHHhC--CCCCEEEEECHHHHHHHHHHHHhhCccCCeEEEECHHHH
Confidence 567889999999888632 112211112344444444 37899999998763 44555555556889999999886
Q ss_pred ccccc
Q 039912 108 GALKR 112 (198)
Q Consensus 108 ~~L~R 112 (198)
.+|..
T Consensus 93 ~aL~~ 97 (656)
T PRK06975 93 AALAR 97 (656)
T ss_pred HHHHH
Confidence 66654
No 380
>cd02196 PurM PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis. The N-terminal domain of PurM is related to the ATP-binding domains of hydrogen expression/formation protein HypE, the AIR synthases, selenophosphate synthetase (SelD), and FGAM synthase and is thought to bind ATP.
Probab=37.44 E-value=2.8e+02 Score=24.11 Aligned_cols=96 Identities=21% Similarity=0.195 Sum_probs=53.2
Q ss_pred hhhhhhhhhhHHHHHHHHhccC-CCC-------CCCchhHhhh---cceEEEecCCC-c--chHHHHHH------HHHHH
Q 039912 8 HWVGKYSIKMEKYKRAARAVLT-PEV-------GNGLIGELKR---GGLWVRTASDK-P--QATDVLLR------NHLVI 67 (198)
Q Consensus 8 k~~~k~~~K~~KY~~AAr~llt-Pkv-------gyGLa~ELrR---AGv~VrtVsdK-P--qAAD~ALk------rhm~~ 67 (198)
+|.+++......|.+....++. +.+ +.||...|.+ +|+-+..=.++ | +..-...+ .++..
T Consensus 180 ~~~~~~~~~~~~~~~~~~~l~~~~~v~a~~DiS~gGL~~~L~e~a~~~~g~~Id~~~iPv~~~~~~~~e~~~~~p~~~~~ 259 (297)
T cd02196 180 TLGEELLTPTRIYVKPILPLLEKVLVKGMAHITGGGLPENLPRVLPEGLGAVIDLGSWEIPPIFKWIQKAGNVSEEEMYR 259 (297)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhcCCceEEEeCCCCchhhccHhhccCCceEEEecCCCCCCHHHHHHHHhCCCCHHHHHH
Confidence 4666666666666555444331 111 4799766654 35555433333 3 32211111 12233
Q ss_pred HhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 68 THKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 68 m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
..+-|-. |++..+..+-..+++.+++.|+.-.+||-
T Consensus 260 ~~~~g~g-ll~~v~~~~~~~~~~~l~~~gi~a~~IG~ 295 (297)
T cd02196 260 TFNMGIG-MVLIVSEEDADEVLEILEKLGEKAYVIGE 295 (297)
T ss_pred HHhCCCC-EEEEECHHHHHHHHHHHHhcCCCeEEEEE
Confidence 3344533 45555556777889999999999999983
No 381
>cd01473 vWA_CTRP CTRP for CS protein-TRAP-related protein: Adhesion of Plasmodium to host cells is an important phenomenon in parasite invasion and in malaria associated pathology.CTRP encodes a protein containing a putative signal sequence followed by a long extracellular region of 1990 amino acids, a transmembrane domain, and a short cytoplasmic segment. The extracellular region of CTRP contains two separated adhesive domains. The first domain contains six 210-amino acid-long homologous VWA domain repeats. The second domain contains seven repeats of 87-60 amino acids in length, which share similarities with the thrombospondin type 1 domain found in a variety of adhesive molecules. Finally, CTRP also contains consensus motifs found in the superfamily of haematopoietin receptors. The VWA domains in these proteins likely mediate protein-protein interactions.
Probab=37.17 E-value=58 Score=26.64 Aligned_cols=51 Identities=20% Similarity=0.117 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHHHhh-cC-----ccEEEEEeCCcc-------hHHHHHHHHhcCCcEEEEccCC
Q 039912 56 ATDVLLRNHLVITHK-RR-----IEYLVVVSDDSD-------FVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 56 AAD~ALkrhm~~m~~-~g-----v~clvLVSDdsd-------F~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
....||+-.+..+-. .| -.-+||++|-.. ...+.+.+|+.|+...+||-+.
T Consensus 86 ~~~~AL~~a~~~~~~~~~~r~~~~kv~IllTDG~s~~~~~~~~~~~a~~lk~~gV~i~~vGiG~ 149 (192)
T cd01473 86 YIVEALKYGLKNYTKHGNRRKDAPKVTMLFTDGNDTSASKKELQDISLLYKEENVKLLVVGVGA 149 (192)
T ss_pred cHHHHHHHHHHHhccCCCCcccCCeEEEEEecCCCCCcchhhHHHHHHHHHHCCCEEEEEEecc
Confidence 345566655553321 11 233889988644 4566778899999987777763
No 382
>PRK13054 lipid kinase; Reviewed
Probab=37.07 E-value=1.3e+02 Score=26.06 Aligned_cols=83 Identities=7% Similarity=-0.086 Sum_probs=49.4
Q ss_pred chhHhhhcceEEE-ecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhc--C--CcEEEEccCCCccc
Q 039912 36 LIGELKRGGLWVR-TASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLR--C--LKTVVVGDINDGAL 110 (198)
Q Consensus 36 La~ELrRAGv~Vr-tVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r--~--l~TVVVGd~~~~~L 110 (198)
+...|+++|+-+. ..+.+|.-+. .+-+ .....+.+.||.+.-|=-+.+++.-...+ . +.--||=-++.-.+
T Consensus 23 ~~~~l~~~g~~~~v~~t~~~~~a~-~~a~---~~~~~~~d~vvv~GGDGTl~evv~~l~~~~~~~~~~lgiiP~GTgNdf 98 (300)
T PRK13054 23 AVGLLREEGHTLHVRVTWEKGDAA-RYVE---EALALGVATVIAGGGDGTINEVATALAQLEGDARPALGILPLGTANDF 98 (300)
T ss_pred HHHHHHHcCCEEEEEEecCCCcHH-HHHH---HHHHcCCCEEEEECCccHHHHHHHHHHhhccCCCCcEEEEeCCcHhHH
Confidence 3456889997755 2234443332 2222 22256889999999999999998776543 2 23344433333457
Q ss_pred cchhcccccHHH
Q 039912 111 KRISYACFSWWD 122 (198)
Q Consensus 111 ~R~AD~~fsW~e 122 (198)
.|.-.+--.|.+
T Consensus 99 ar~lgi~~~~~~ 110 (300)
T PRK13054 99 ATAAGIPLEPDK 110 (300)
T ss_pred HHhcCCCCCHHH
Confidence 777666555544
No 383
>TIGR01672 AphA HAD superfamily (subfamily IIIB) phosphatase, TIGR01672. Supporting evidence for the inclusion in the HAD superfamily, whose phosphatase members are magnesium dependent, is the inhibition by EDTA and calcium ions, and stimulation by magnesium ion.
Probab=37.05 E-value=87 Score=27.23 Aligned_cols=82 Identities=15% Similarity=0.167 Sum_probs=44.2
Q ss_pred hHHHHHHHHhccCCCC-CCCchhHhhhcceEEEecCCCcc----hHHHHHHHHHHHHhhcCcc---EEEEEeCCcc---h
Q 039912 17 MEKYKRAARAVLTPEV-GNGLIGELKRGGLWVRTASDKPQ----ATDVLLRNHLVITHKRRIE---YLVVVSDDSD---F 85 (198)
Q Consensus 17 ~~KY~~AAr~lltPkv-gyGLa~ELrRAGv~VrtVsdKPq----AAD~ALkrhm~~m~~~gv~---clvLVSDdsd---F 85 (198)
.++|.+...+-..|.. .-.+-..|+..|+.+=.|+.|++ ..=..|.+ ..|+. .+++=+|+.. .
T Consensus 102 w~~~~~~~~~~s~p~~~a~elL~~l~~~G~~i~iVTnr~~~k~~~~a~~ll~------~lGi~~~f~~i~~~d~~~~~Kp 175 (237)
T TIGR01672 102 WEKVNNGWDEFSIPKEVARQLIDMHQRRGDAIFFVTGRTPGKTDTVSKTLAK------NFHIPAMNPVIFAGDKPGQYQY 175 (237)
T ss_pred HHHHHHhcccCCcchhHHHHHHHHHHHCCCEEEEEeCCCCCcCHHHHHHHHH------HhCCchheeEEECCCCCCCCCC
Confidence 3455555544444442 33566788899999999998843 21112222 23554 2444444421 1
Q ss_pred HHHHHHHHhcCCcEEEEccCC
Q 039912 86 VEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 86 ~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
... ....+.++ ++.|||..
T Consensus 176 ~~~-~~l~~~~i-~i~vGDs~ 194 (237)
T TIGR01672 176 TKT-QWIQDKNI-RIHYGDSD 194 (237)
T ss_pred CHH-HHHHhCCC-eEEEeCCH
Confidence 122 33345565 79999974
No 384
>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=36.85 E-value=73 Score=25.82 Aligned_cols=63 Identities=13% Similarity=0.195 Sum_probs=36.7
Q ss_pred hhHhhhcceEEEe-cCCCcchHHHHHHHHHHHHhhcCccEEEE----EeCCcchHHHHHHHHhcCCc--EEEEccC
Q 039912 37 IGELKRGGLWVRT-ASDKPQATDVLLRNHLVITHKRRIEYLVV----VSDDSDFVEVLLEANLRCLK--TVVVGDI 105 (198)
Q Consensus 37 a~ELrRAGv~Vrt-VsdKPqAAD~ALkrhm~~m~~~gv~clvL----VSDdsdF~~~Lr~Ar~r~l~--TVVVGd~ 105 (198)
+..|+.+||-|-- =.+.| ++.-++... +.+++-|.+ .+--..+..++++.+++|++ .|+||..
T Consensus 22 ~~~l~~~GfeVi~LG~~v~--~e~~v~aa~----~~~adiVglS~l~~~~~~~~~~~~~~l~~~gl~~~~vivGG~ 91 (134)
T TIGR01501 22 DHAFTNAGFNVVNLGVLSP--QEEFIKAAI----ETKADAILVSSLYGHGEIDCKGLRQKCDEAGLEGILLYVGGN 91 (134)
T ss_pred HHHHHHCCCEEEECCCCCC--HHHHHHHHH----HcCCCEEEEecccccCHHHHHHHHHHHHHCCCCCCEEEecCC
Confidence 6789999999974 22333 222333322 334544433 23344588888888998873 3556763
No 385
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=36.83 E-value=35 Score=26.59 Aligned_cols=25 Identities=32% Similarity=0.149 Sum_probs=21.8
Q ss_pred CCcchHHHHHHHHhcCCcEEEEccC
Q 039912 81 DDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 81 DdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
+..|+..++.+|++.++.-||||=.
T Consensus 47 ~~~d~~~l~~~a~~~~idlvvvGPE 71 (100)
T PF02844_consen 47 DITDPEELADFAKENKIDLVVVGPE 71 (100)
T ss_dssp -TT-HHHHHHHHHHTTESEEEESSH
T ss_pred CCCCHHHHHHHHHHcCCCEEEECCh
Confidence 8899999999999999999999975
No 386
>PRK13903 murB UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=36.77 E-value=37 Score=31.55 Aligned_cols=37 Identities=16% Similarity=0.168 Sum_probs=32.6
Q ss_pred hcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 70 KRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 70 ~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
..-.++++.+.+-.++..+|+.|++.++...|+|.++
T Consensus 30 Gg~A~~~~~p~s~edl~~~l~~a~~~~~p~~vlGgGS 66 (363)
T PRK13903 30 GGPARRLVTCTSTEELVAAVRELDAAGEPLLVLGGGS 66 (363)
T ss_pred CccceEEEEeCCHHHHHHHHHHHHHCCCCEEEEeCCe
Confidence 4446678999999999999999999999999999876
No 387
>cd01467 vWA_BatA_type VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=36.55 E-value=1.7e+02 Score=22.42 Aligned_cols=47 Identities=15% Similarity=0.145 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHhh--cCccEEEEEeCCc------chHHHHHHHHhcCCc--EEEEcc
Q 039912 58 DVLLRNHLVITHK--RRIEYLVVVSDDS------DFVEVLLEANLRCLK--TVVVGD 104 (198)
Q Consensus 58 D~ALkrhm~~m~~--~gv~clvLVSDds------dF~~~Lr~Ar~r~l~--TVVVGd 104 (198)
..+|...+.++.+ ..-..|||+||-. ....+.+.++++|+. +|.||+
T Consensus 86 ~~al~~a~~~l~~~~~~~~~iiliTDG~~~~g~~~~~~~~~~~~~~gi~i~~i~ig~ 142 (180)
T cd01467 86 GDAIGLAIKRLKNSEAKERVIVLLTDGENNAGEIDPATAAELAKNKGVRIYTIGVGK 142 (180)
T ss_pred HHHHHHHHHHHHhcCCCCCEEEEEeCCCCCCCCCCHHHHHHHHHHCCCEEEEEEecC
Confidence 4466665554432 2336799999852 234567778777765 455554
No 388
>PRK15005 universal stress protein F; Provisional
Probab=36.44 E-value=1.7e+02 Score=21.39 Aligned_cols=34 Identities=15% Similarity=0.010 Sum_probs=24.0
Q ss_pred CccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 72 RIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 72 gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
++.+=..+....-...+++.|.+.+..-||+|-.
T Consensus 83 ~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~ 116 (144)
T PRK15005 83 TDRVHVHVEEGSPKDRILELAKKIPADMIIIASH 116 (144)
T ss_pred CCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeCC
Confidence 4433333334445577999999999999999965
No 389
>TIGR01518 g3p_cytidyltrns glycerol-3-phosphate cytidylyltransferase. Glycerol-3-phosphate cytidyltransferase acts in pathways of teichoic acid biosynthesis. Teichoic acids are substituted polymers, linked by phosphodiester bonds, of glycerol, ribitol, etc. An example is poly(glycerol phosphate), the major teichoic acid of the Bacillus subtilis cell wall. Most but not all species encoding proteins in this family are Gram-positive bacteria.
Probab=36.35 E-value=82 Score=23.89 Aligned_cols=39 Identities=13% Similarity=0.052 Sum_probs=26.6
Q ss_pred HHHHhhcC-ccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 65 LVITHKRR-IEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 65 m~~m~~~g-v~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
++.+-+.| |++++.-..-.+|.+.| +.-+++.||+|+-.
T Consensus 53 ~~~l~~~~~Vd~vi~~~~~~~f~~~l---~~~~~~~vv~G~D~ 92 (125)
T TIGR01518 53 KLILETIRYVDLVIPEKSWEQKKQDI---IDFNIDVFVMGDDW 92 (125)
T ss_pred HHHHHcCCCccEEecCCCccchHHHH---HHcCCCEEEECCCc
Confidence 44444565 99993322235688877 47899999999954
No 390
>PF13528 Glyco_trans_1_3: Glycosyl transferase family 1
Probab=36.10 E-value=43 Score=27.90 Aligned_cols=42 Identities=17% Similarity=0.110 Sum_probs=30.5
Q ss_pred EEEEEeCCcchHHHHHHHHhcCCcEEEEccCCCccccchhcccccHH
Q 039912 75 YLVVVSDDSDFVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWW 121 (198)
Q Consensus 75 clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~ 121 (198)
.=++|||-.-+ .+..|+..|+..|+|++.. .-.+.+.+++|.
T Consensus 95 pDlVIsD~~~~--~~~aa~~~giP~i~i~~~~---~~~~~~~~~~~~ 136 (318)
T PF13528_consen 95 PDLVISDFYPL--AALAARRAGIPVIVISNQY---WFLHPNFWLPWD 136 (318)
T ss_pred CCEEEEcChHH--HHHHHHhcCCCEEEEEehH---HcccccCCcchh
Confidence 33567886555 3688999999999999974 333456777765
No 391
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=36.00 E-value=1e+02 Score=22.52 Aligned_cols=49 Identities=16% Similarity=0.114 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHhhc--CccEEEEEeCCcchH---HHHHHHHhcCCcEEEEccCC
Q 039912 58 DVLLRNHLVITHKR--RIEYLVVVSDDSDFV---EVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 58 D~ALkrhm~~m~~~--gv~clvLVSDdsdF~---~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
..||......+.+. .-..|||+||-.+-. ++++.++..+++..+||-+.
T Consensus 83 ~~al~~a~~~~~~~~~~~~~iv~iTDG~~~~~~~~~~~~~~~~~i~i~~v~~~~ 136 (172)
T PF13519_consen 83 YDALQEAAKMLASSDNRRRAIVLITDGEDNSSDIEAAKALKQQGITIYTVGIGS 136 (172)
T ss_dssp HHHHHHHHHHHHC-SSEEEEEEEEES-TTHCHHHHHHHHHHCTTEEEEEEEES-
T ss_pred HHHHHHHHHHHHhCCCCceEEEEecCCCCCcchhHHHHHHHHcCCeEEEEEECC
Confidence 34555555555433 345699999965433 67888888888776666654
No 392
>PRK10669 putative cation:proton antiport protein; Provisional
Probab=35.97 E-value=34 Score=32.29 Aligned_cols=70 Identities=13% Similarity=0.135 Sum_probs=41.0
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHH----------HHHHHHhhcCccE----EEEEeCCcchHHHHHHHHhc--CC
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLR----------NHLVITHKRRIEY----LVVVSDDSDFVEVLLEANLR--CL 97 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALk----------rhm~~m~~~gv~c----lvLVSDdsdF~~~Lr~Ar~r--~l 97 (198)
+.+|.+|++.|..|-.+...|+..+.+-+ .+...+.+.|+++ ++.++||.+=..+...+|++ +.
T Consensus 430 ~~la~~L~~~g~~vvvId~d~~~~~~~~~~g~~~i~GD~~~~~~L~~a~i~~a~~viv~~~~~~~~~~iv~~~~~~~~~~ 509 (558)
T PRK10669 430 SLLGEKLLAAGIPLVVIETSRTRVDELRERGIRAVLGNAANEEIMQLAHLDCARWLLLTIPNGYEAGEIVASAREKRPDI 509 (558)
T ss_pred HHHHHHHHHCCCCEEEEECCHHHHHHHHHCCCeEEEcCCCCHHHHHhcCccccCEEEEEcCChHHHHHHHHHHHHHCCCC
Confidence 44899999999999888888887766532 1122333455554 23344544444455555553 34
Q ss_pred cEEEEc
Q 039912 98 KTVVVG 103 (198)
Q Consensus 98 ~TVVVG 103 (198)
++|+--
T Consensus 510 ~iiar~ 515 (558)
T PRK10669 510 EIIARA 515 (558)
T ss_pred eEEEEE
Confidence 444443
No 393
>PRK07478 short chain dehydrogenase; Provisional
Probab=35.84 E-value=1.2e+02 Score=24.43 Aligned_cols=67 Identities=16% Similarity=0.094 Sum_probs=43.4
Q ss_pred CCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh-----cCCcEEEE
Q 039912 32 VGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL-----RCLKTVVV 102 (198)
Q Consensus 32 vgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~-----r~l~TVVV 102 (198)
+|..++..|.+.|..|-.+...|+..+.+ ..++. ..|.+..++.+|-++...+.+...+ ..+..+|.
T Consensus 18 iG~~ia~~l~~~G~~v~~~~r~~~~~~~~-~~~~~---~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~id~li~ 89 (254)
T PRK07478 18 IGRAAAKLFAREGAKVVVGARRQAELDQL-VAEIR---AEGGEAVALAGDVRDEAYAKALVALAVERFGGLDIAFN 89 (254)
T ss_pred HHHHHHHHHHHCCCEEEEEeCCHHHHHHH-HHHHH---hcCCcEEEEEcCCCCHHHHHHHHHHHHHhcCCCCEEEE
Confidence 46678889999999998776666555433 33333 3466677777888877766655543 15655553
No 394
>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=35.81 E-value=1.8e+02 Score=21.44 Aligned_cols=66 Identities=14% Similarity=0.107 Sum_probs=37.3
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeC-CcchHH---HHHHHHhcCC--cEEEEccCC
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSD-DSDFVE---VLLEANLRCL--KTVVVGDIN 106 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSD-dsdF~~---~Lr~Ar~r~l--~TVVVGd~~ 106 (198)
++.-|+++|+.|.-.. +.-+..-+.+ .+...+.+.++|-+- ...+.. +++..|+++. -+|+||...
T Consensus 19 ~~~~l~~~G~~V~~lg--~~~~~~~l~~---~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~~ 90 (119)
T cd02067 19 VARALRDAGFEVIDLG--VDVPPEEIVE---AAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGAI 90 (119)
T ss_pred HHHHHHHCCCEEEECC--CCCCHHHHHH---HHHHcCCCEEEEeccccccHHHHHHHHHHHHHcCCCCCeEEEECCC
Confidence 4678999999996432 2222233444 333567776665432 444444 4455566655 346777753
No 395
>PRK09526 lacI lac repressor; Reviewed
Probab=35.80 E-value=1.7e+02 Score=24.50 Aligned_cols=67 Identities=6% Similarity=0.058 Sum_probs=38.7
Q ss_pred CCchhHhhhcceEEEecC-CCcchHHHHHHHHHHHHhhcCccEEEEE-eCCcc-hHHHHHHHHhcCCcEEEEcc
Q 039912 34 NGLIGELKRGGLWVRTAS-DKPQATDVLLRNHLVITHKRRIEYLVVV-SDDSD-FVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVs-dKPqAAD~ALkrhm~~m~~~gv~clvLV-SDdsd-F~~~Lr~Ar~r~l~TVVVGd 104 (198)
.|+..+++..|+.+.... +..+.. -....+..+...+++-|++. +.+++ ...++ .+..++..|+++-
T Consensus 83 ~gi~~~a~~~g~~~~i~~~~~~~~~--~~~~~l~~l~~~~vdGiii~~~~~~~~~~~~~--~~~~~iPvV~~d~ 152 (342)
T PRK09526 83 AAIKSRADQLGYSVVISMVERSGVE--ACQAAVNELLAQRVSGVIINVPLEDADAEKIV--ADCADVPCLFLDV 152 (342)
T ss_pred HHHHHHHHHCCCEEEEEeCCCChHH--HHHHHHHHHHhcCCCEEEEecCCCcchHHHHH--hhcCCCCEEEEec
Confidence 356677888999987642 222111 12334445668899999986 33333 22222 1235788888863
No 396
>PF10566 Glyco_hydro_97: Glycoside hydrolase 97 ; InterPro: IPR019563 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is the 97th family of glycosidases, in this case bacterial. The central part of the GH97 family protein sequences represents a typical and complete (beta/alpha)8-barrel or catalytic TIM-barrel type domain. The N- and C-terminal parts of the sequences, mainly consisting of beta-strands, most probably form two additional non-catalytic domains with as yet unknown functions. The non-catalytic domains of glycosidases from the alpha-galactosidase and alpha-glucosidase superfamilies are also predominantly composed of beta-strands, and at least some of these domains are involved in oligomerisation and carbohydrate binding. In all known glycosidases with the (beta-alpha)8-barrel fold, the amino acid residues at the active site are located on the C-termini of the beta-strands []. ; PDB: 2JKP_A 2JKE_A 2D73_B 2ZQ0_B 2JKA_A 3A24_A.
Probab=35.68 E-value=1e+02 Score=27.86 Aligned_cols=69 Identities=19% Similarity=0.116 Sum_probs=44.0
Q ss_pred CCcchHHHHHHHHHHHHhhcCccEEEE-----------------EeCCcchHHHHHHHHhcCCcEEEEccCCC----ccc
Q 039912 52 DKPQATDVLLRNHLVITHKRRIEYLVV-----------------VSDDSDFVEVLLEANLRCLKTVVVGDIND----GAL 110 (198)
Q Consensus 52 dKPqAAD~ALkrhm~~m~~~gv~clvL-----------------VSDdsdF~~~Lr~Ar~r~l~TVVVGd~~~----~~L 110 (198)
.+..+.-.-.|+.|--..+.|++.+++ +.++.+.-++++-||++||+-.+...... ..|
T Consensus 25 ~~~g~~t~~~k~yIDfAa~~G~eYvlvD~GW~~~~~~~~~d~~~~~~~~dl~elv~Ya~~KgVgi~lw~~~~~~~~~~~~ 104 (273)
T PF10566_consen 25 FKHGATTETQKRYIDFAAEMGIEYVLVDAGWYGWEKDDDFDFTKPIPDFDLPELVDYAKEKGVGIWLWYHSETGGNVANL 104 (273)
T ss_dssp S-BSSSHHHHHHHHHHHHHTT-SEEEEBTTCCGS--TTT--TT-B-TT--HHHHHHHHHHTT-EEEEEEECCHTTBHHHH
T ss_pred CcCCCCHHHHHHHHHHHHHcCCCEEEeccccccccccccccccccCCccCHHHHHHHHHHcCCCEEEEEeCCcchhhHhH
Confidence 344444455667666666899999887 34678899999999999999999998742 014
Q ss_pred cchhcccccH
Q 039912 111 KRISYACFSW 120 (198)
Q Consensus 111 ~R~AD~~fsW 120 (198)
.+..|-.|++
T Consensus 105 ~~~~~~~f~~ 114 (273)
T PF10566_consen 105 EKQLDEAFKL 114 (273)
T ss_dssp HCCHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 4444555544
No 397
>cd00368 Molybdopterin-Binding Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-containing enzymes, including formate dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide reductase (DMSOR), thiosulfate reductase, formylmethanofuran dehydrogenase, and arsenite oxidase. Molybdenum is present in most of these enzymes in the form of molybdopterin, a modified pterin ring with a dithiolene side chain, which is responsible for ligating the Mo. In many bacterial and archaeal species, molybdopterin is in the form of a dinucleotide, with two molybdopterin dinucleotide units per molybdenum. These proteins can function as monomers, heterodimers, or heterotrimers, depending on the protein and organism. Also included in the MopB superfamily is
Probab=35.62 E-value=65 Score=27.62 Aligned_cols=48 Identities=10% Similarity=0.106 Sum_probs=36.6
Q ss_pred cCccEEEEEeCCc-----chHHHHHHHHhcCCcEEEEccCCCccccchhccccc
Q 039912 71 RRIEYLVVVSDDS-----DFVEVLLEANLRCLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 71 ~gv~clvLVSDds-----dF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
..-++||++--|. .+..-++.|+++|.+.|||+-.- ..++..||.|++
T Consensus 155 ~~ad~il~~G~n~~~~~~~~~~~~~~a~~~g~kvv~idp~~-s~t~~~ad~~i~ 207 (374)
T cd00368 155 ENADLILLWGSNPAETHPVLAARLRRAKKRGAKLIVIDPRR-TETAAKADEWLP 207 (374)
T ss_pred hhCCEEEEEcCChHHhChHHHHHHHHHHHCCCeEEEEcCCC-CcchHhhCEeeC
Confidence 3678888887554 34566788888999999998754 567888999874
No 398
>PRK08334 translation initiation factor IF-2B subunit beta; Validated
Probab=35.52 E-value=73 Score=29.95 Aligned_cols=64 Identities=14% Similarity=0.207 Sum_probs=41.4
Q ss_pred CCCc-hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEE----------EeCCcchHHHHHHHHhcCCcEEE
Q 039912 33 GNGL-IGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVV----------VSDDSDFVEVLLEANLRCLKTVV 101 (198)
Q Consensus 33 gyGL-a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvL----------VSDdsdF~~~Lr~Ar~r~l~TVV 101 (198)
|-.| |.||.++|+-|..+.| .++-- .|-+..|+++++ |.....=..+--.|++.|+..+|
T Consensus 207 G~rlta~eL~~~GI~vtlI~D------sav~~---~M~~~~Vd~VivGAd~I~~nG~v~NKiGTy~lA~~Ak~~~vPfyV 277 (356)
T PRK08334 207 GARLSAWEYHYDGIPLKLISD------NMAGF---VMQQGKVDAIIVGADRIVANGDFANKIGTYTLAVLAKEHGIPFFT 277 (356)
T ss_pred HHHHHHHHHHHCCCCEEEEeh------hHHHH---HhhhcCCCEEEECccEEecCCCEeehhhHHHHHHHHHHhCCCEEE
Confidence 4446 5789999999998887 23322 232345777666 22233333456788999999999
Q ss_pred EccC
Q 039912 102 VGDI 105 (198)
Q Consensus 102 VGd~ 105 (198)
+.-.
T Consensus 278 ~Ap~ 281 (356)
T PRK08334 278 VAPL 281 (356)
T ss_pred Eccc
Confidence 8753
No 399
>PTZ00287 6-phosphofructokinase; Provisional
Probab=35.51 E-value=1e+02 Score=34.19 Aligned_cols=104 Identities=19% Similarity=0.245 Sum_probs=62.8
Q ss_pred hhHhhhcceEE-EecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh---cCCcEEEEccCC--Cccc
Q 039912 37 IGELKRGGLWV-RTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL---RCLKTVVVGDIN--DGAL 110 (198)
Q Consensus 37 a~ELrRAGv~V-rtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~---r~l~TVVVGd~~--~~~L 110 (198)
..-+.+.|+.. .|-...|--...-.++-+..+.+.||++||.+-.|.-++....+|.. +|+.|-|||--- |..|
T Consensus 892 ~~i~n~GGtiLlgssR~~~f~t~e~~~ka~~~lk~l~ID~LVvIGGDgS~t~A~~LaE~f~~~gi~i~VIGVPkTIDNDL 971 (1419)
T PTZ00287 892 AKHVNQGGLELTGNSPEHSLFDKENRNKVCETVTNLQLNGLVMPGSNVTITEAALLAEYFLEKKIPTSVVGIPLTGSNNL 971 (1419)
T ss_pred hhHHHcCCeeecCCcCCCCCCCHHHHHHHHHHHHHhCCCEEEEECCchHHHHHHHHHHHHHhcCCCccEEEeCceeeCCC
Confidence 34467888888 24222332222334444446668899999999999999999888874 899988888410 1223
Q ss_pred c-chhcccccHHH------Hhhchhhhhhhhhhcccc
Q 039912 111 K-RISYACFSWWD------ILMGKARKEAVSVVGKWK 140 (198)
Q Consensus 111 ~-R~AD~~fsW~e------V~~Gka~k~A~~~~g~W~ 140 (198)
. ..-|..|=.+- -.-|+....|.|....|.
T Consensus 972 ~~~~tD~TiGFDTAv~~~seaI~nL~~dA~S~~ry~~ 1008 (1419)
T PTZ00287 972 IHELIETCVGFDSSTKVYASLIGNVLTDAVSMPKYWH 1008 (1419)
T ss_pred CCCCCcCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEE
Confidence 3 23343333222 223566666666655554
No 400
>PRK13226 phosphoglycolate phosphatase; Provisional
Probab=35.16 E-value=1.7e+02 Score=23.93 Aligned_cols=66 Identities=15% Similarity=-0.089 Sum_probs=37.6
Q ss_pred CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCCC---ccc-cchhccccc-HHHH
Q 039912 52 DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIND---GAL-KRISYACFS-WWDI 123 (198)
Q Consensus 52 dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~~---~~L-~R~AD~~fs-W~eV 123 (198)
.||... .+...+..+ +...+..+.|-|. ..+ +..|+..|++||.|.-+.. ..+ ...+|..+. +.++
T Consensus 150 ~KP~p~--~~~~~~~~l-~~~p~~~l~IGDs--~~D-i~aA~~aG~~~i~v~~g~~~~~~~~~~~~~~~~i~~~~el 220 (229)
T PRK13226 150 RKPHPL--PLLVAAERI-GVAPTDCVYVGDD--ERD-ILAARAAGMPSVAALWGYRLHDDDPLAWQADVLVEQPQLL 220 (229)
T ss_pred CCCCHH--HHHHHHHHh-CCChhhEEEeCCC--HHH-HHHHHHCCCcEEEEeecCCCCCcChhhcCCCeeeCCHHHH
Confidence 467542 444444444 3334556667666 356 6689999999998854321 112 234666653 5554
No 401
>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax. ATR is the cellular receptor for the anthrax protective antigen and facilitates entry of the toxin into cells. The VWA domain in ATR contains the toxin binding site and mediates interaction with protective antigen. The binding is mediated by divalent cations that binds to the MIDAS motif. These proteins are a family of vertebrate ECM receptors expressed by endothelial cells.
Probab=35.08 E-value=99 Score=24.43 Aligned_cols=49 Identities=10% Similarity=-0.041 Sum_probs=29.0
Q ss_pred hHHHHHHHHHHHHh--hc----CccEEEEEeCCcch-------HHHHHHHHhcCCcEEEEcc
Q 039912 56 ATDVLLRNHLVITH--KR----RIEYLVVVSDDSDF-------VEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 56 AAD~ALkrhm~~m~--~~----gv~clvLVSDdsdF-------~~~Lr~Ar~r~l~TVVVGd 104 (198)
+-..||+.....+. .. ++..|||+||=... ....+.+|+.|+....||-
T Consensus 81 ~~~~aL~~a~~~l~~~~~~~r~~~~~villTDG~~~~~~~~~~~~~a~~l~~~gv~i~~vgv 142 (185)
T cd01474 81 YIHEGLENANEQIFNRNGGGRETVSVIIALTDGQLLLNGHKYPEHEAKLSRKLGAIVYCVGV 142 (185)
T ss_pred cHHHHHHHHHHHHHhhccCCCCCCeEEEEEcCCCcCCCCCcchHHHHHHHHHcCCEEEEEee
Confidence 33456666655442 11 33679999986552 2346677888887555553
No 402
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=35.07 E-value=1.4e+02 Score=27.56 Aligned_cols=91 Identities=11% Similarity=0.039 Sum_probs=63.5
Q ss_pred EecCCCcchHHHHHHHHHHH-HhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccC---CCccccchhcccccHHHH
Q 039912 48 RTASDKPQATDVLLRNHLVI-THKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDI---NDGALKRISYACFSWWDI 123 (198)
Q Consensus 48 rtVsdKPqAAD~ALkrhm~~-m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~---~~~~L~R~AD~~fsW~eV 123 (198)
-|.+|....--..-.+++.+ .+.--+.+||+.++.+.-+..++.-||+.=.-+.|... +..-+...||+.+.=+.+
T Consensus 37 ~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vpGt~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aDi~~~~D~~ 116 (275)
T PF12683_consen 37 VTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVPGTAEAFRKIKEKRPDILLIAGEPHEDPEVISSAADIVVNPDEI 116 (275)
T ss_dssp EE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS---HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSSEEEE--HH
T ss_pred EeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCcchHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccCeEeccchh
Confidence 47788877666777888884 45678999999999999999999999976666655442 226789999999999999
Q ss_pred hhchhhhhhhhhhcc
Q 039912 124 LMGKARKEAVSVVGK 138 (198)
Q Consensus 124 ~~Gka~k~A~~~~g~ 138 (198)
.+|+.-.++.+--|.
T Consensus 117 ~~G~~i~~~Ak~mGA 131 (275)
T PF12683_consen 117 SRGYTIVWAAKKMGA 131 (275)
T ss_dssp HHHHHHHHHHHHTT-
T ss_pred hccHHHHHHHHHcCC
Confidence 999988877766553
No 403
>PF13242 Hydrolase_like: HAD-hyrolase-like; PDB: 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A 2HX1_D 2X4D_A 3HLT_C 3L1U_B ....
Probab=35.05 E-value=1.5e+02 Score=20.31 Aligned_cols=32 Identities=19% Similarity=0.060 Sum_probs=22.7
Q ss_pred ccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 73 IEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 73 v~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
-+..+.|.|+ -.+| ++.|++.|++||.|..+.
T Consensus 21 ~~~~~~VGD~-~~~D-i~~a~~~G~~~ilV~tG~ 52 (75)
T PF13242_consen 21 PSRCVMVGDS-LETD-IEAAKAAGIDTILVLTGV 52 (75)
T ss_dssp GGGEEEEESS-TTTH-HHHHHHTTSEEEEESSSS
T ss_pred HHHEEEEcCC-cHhH-HHHHHHcCCcEEEECCCC
Confidence 3557777776 1222 458999999999998764
No 404
>TIGR03702 lip_kinase_YegS lipid kinase YegS. Members of this protein family are designated YegS, an apparent lipid kinase family in the Proteobacteria. Bakali, et al. report phosphatidylglycerol kinase activity for the member from Escherichia coli, but refrain from calling that activity synonymous with its biological role. Note that a broader, subfamily-type model (TIGR00147), includes this family but also multiple paralogs in some species and varied functions.
Probab=34.96 E-value=1.3e+02 Score=25.91 Aligned_cols=79 Identities=10% Similarity=0.012 Sum_probs=41.2
Q ss_pred hHhhhcceEEE--ecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcC--Cc--EEEEccCCCcccc
Q 039912 38 GELKRGGLWVR--TASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRC--LK--TVVVGDINDGALK 111 (198)
Q Consensus 38 ~ELrRAGv~Vr--tVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~--l~--TVVVGd~~~~~L~ 111 (198)
..|+++|+-+. +.+..-.|.. +-+. +...+.+.||.|.-|=-+.+++.-....+ .. --||--++.-.++
T Consensus 21 ~~l~~~g~~~~v~~t~~~~~a~~--~a~~---~~~~~~d~vv~~GGDGTi~ev~ngl~~~~~~~~~~lgiiP~GTgNdfA 95 (293)
T TIGR03702 21 GDLRDEGIQLHVRVTWEKGDAQR--YVAE---ALALGVSTVIAGGGDGTLREVATALAQIRDDAAPALGLLPLGTANDFA 95 (293)
T ss_pred HHHHHCCCeEEEEEecCCCCHHH--HHHH---HHHcCCCEEEEEcCChHHHHHHHHHHhhCCCCCCcEEEEcCCchhHHH
Confidence 35777776643 2222223432 2221 12456778888888888888777665432 21 2334333334566
Q ss_pred chhcccccHH
Q 039912 112 RISYACFSWW 121 (198)
Q Consensus 112 R~AD~~fsW~ 121 (198)
|.-.+-..++
T Consensus 96 r~l~ip~~~~ 105 (293)
T TIGR03702 96 TAAGIPLEPA 105 (293)
T ss_pred HhcCCCCCHH
Confidence 6655544333
No 405
>TIGR00509 bisC_fam molybdopterin guanine dinucleotide-containing S/N-oxide reductases. This enzyme family shares sequence similarity and a requirement for a molydenum cofactor as the only prosthetic group. The form of the cofactor is a single molybdenum atom coordinated by two molybdopterin guanine dinucleotide molecules. Members of the family include biotin sulfoxide reductase, dimethylsulfoxide reductase, and trimethylamine-N-oxide reductase, although a single member may show all those activities and related activities; it may not be possible to resolve the primary function for members of this family by sequence comparison alone. A number of similar molybdoproteins in which the N-terminal region contains a CXXXC motif and may bind an iron-sulfur cluster are excluded from this set, including formate dehydrogenases and nitrate reductases. Also excluded is the A chain of a heteromeric, anaerobic DMSO reductase, which also contains the CXXXC motif.
Probab=34.88 E-value=55 Score=32.26 Aligned_cols=49 Identities=10% Similarity=0.033 Sum_probs=35.7
Q ss_pred cCccEEEEEeCCcc-------------hHHHHHHHHhcCCcEEEEccCCCccccch-hcccccH
Q 039912 71 RRIEYLVVVSDDSD-------------FVEVLLEANLRCLKTVVVGDINDGALKRI-SYACFSW 120 (198)
Q Consensus 71 ~gv~clvLVSDdsd-------------F~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~-AD~~fsW 120 (198)
..-+|||++.-+.- ....|+.||++|.+-|||-=.- ...++. ||+|++=
T Consensus 166 ~~a~~il~~G~Np~~t~~~~~~~~~~~~~~~~~~a~~~G~klIvIDPr~-t~tA~~aaD~~l~i 228 (770)
T TIGR00509 166 ENSKVLVLWGADPLKTSQIAWGIPDHGGYEYLERLKAKGKRVISIDPVR-TETAEFFGAEWIPP 228 (770)
T ss_pred hcCCEEEEeCCCHHHhCccccccCCcchHHHHHHHHHcCCEEEEEcCCC-CcchhhccCeEeCc
Confidence 36789999876643 2367888999999999886553 456665 5899863
No 406
>PRK07050 cystathionine beta-lyase; Provisional
Probab=34.74 E-value=1.1e+02 Score=27.91 Aligned_cols=69 Identities=16% Similarity=0.139 Sum_probs=42.2
Q ss_pred hccCCCCCCCchh-----HhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEE--Ee----CCcchHHHHHHHHh
Q 039912 26 AVLTPEVGNGLIG-----ELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVV--VS----DDSDFVEVLLEANL 94 (198)
Q Consensus 26 ~lltPkvgyGLa~-----ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvL--VS----DdsdF~~~Lr~Ar~ 94 (198)
+|++|...|+-.. .+++.|+-|+.+...+ ...|++.+ ..+...|++ .+ .-.++..+.+.|++
T Consensus 106 ~Vl~~~~~y~~~~~~~~~~~~~~Gi~v~~vd~~~---~~~l~~~i----~~~tklV~le~p~Np~~~~~di~~I~~ia~~ 178 (394)
T PRK07050 106 DVLIPDNAYGPNRDHGEWLARDFGITVRFYDPLI---GAGIADLI----QPNTRLIWLEAPGSVTMEVPDVPAITAAARA 178 (394)
T ss_pred EEEEecCCcccHHHHHHHHHHhcCeEEEEECCCC---HHHHHHhc----CCCCeEEEEECCCCCCccHhhHHHHHHHHHH
Confidence 5777788888533 4688899999875322 12344432 334444443 22 33477888899999
Q ss_pred cCCcEEE
Q 039912 95 RCLKTVV 101 (198)
Q Consensus 95 r~l~TVV 101 (198)
+|+-.|+
T Consensus 179 ~gi~liv 185 (394)
T PRK07050 179 RGVVTAI 185 (394)
T ss_pred cCCEEEE
Confidence 8864443
No 407
>TIGR01662 HAD-SF-IIIA HAD-superfamily hydrolase, subfamily IIIA. In the case of histidinol phosphatase and PNK-3'-phosphatase, this model represents a domain of a bifunctional system. In the histidinol phosphatase HisB, a C-terminal domain is an imidazoleglycerol-phosphate dehydratase which catalyzes a related step in histidine biosynthesis. In PNK-3'-phosphatase, N- and C-terminal domains constitute the polynucleotide kinase and DNA-binding components of the enzyme.
Probab=34.50 E-value=1e+02 Score=22.68 Aligned_cols=19 Identities=26% Similarity=0.412 Sum_probs=14.5
Q ss_pred chhHhhhcceEEEecCCCc
Q 039912 36 LIGELKRGGLWVRTASDKP 54 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKP 54 (198)
+-..|+++|+.+=.+|.+|
T Consensus 33 ~l~~L~~~g~~l~i~Sn~~ 51 (132)
T TIGR01662 33 ALAELKEAGYKVVIVTNQS 51 (132)
T ss_pred HHHHHHHCCCEEEEEECCc
Confidence 3467788888888888877
No 408
>PF02219 MTHFR: Methylenetetrahydrofolate reductase; InterPro: IPR003171 This family includes the 5,10-methylenetetrahydrofolate reductase 1.7.99.5 from EC from bacteria and methylenetetrahydrofolate reductase 1.5.1.20 from EC from eukaryotes. The structure for this domain is known [] to be a TIM barrel.; GO: 0004489 methylenetetrahydrofolate reductase (NADPH) activity, 0006555 methionine metabolic process, 0055114 oxidation-reduction process; PDB: 3IJD_B 1B5T_B 3FSU_C 1ZPT_C 2FMO_B 3FST_C 2FMN_C 1ZP3_A 1ZP4_B 1ZRQ_B ....
Probab=34.46 E-value=1.3e+02 Score=26.10 Aligned_cols=79 Identities=22% Similarity=0.285 Sum_probs=40.9
Q ss_pred hccCCCCCCC---c---hhHhhhcceEEEecCCCcch--HHHHHH--HHHHHHhhcCccEEEEEeCCc----chHHHHHH
Q 039912 26 AVLTPEVGNG---L---IGELKRGGLWVRTASDKPQA--TDVLLR--NHLVITHKRRIEYLVVVSDDS----DFVEVLLE 91 (198)
Q Consensus 26 ~lltPkvgyG---L---a~ELrRAGv~VrtVsdKPqA--AD~ALk--rhm~~m~~~gv~clvLVSDds----dF~~~Lr~ 91 (198)
|+.+||-..+ | +..|.+.++-.-+|+|-|.+ .+.++. .++. ...|++.++=++-.. .+...|..
T Consensus 16 E~~PPk~~~~~~~l~~~~~~l~~~~pd~vsVTd~~~~~~~~~s~~~a~~l~--~~~g~~~i~Hlt~rd~n~~~l~~~L~~ 93 (287)
T PF02219_consen 16 ELFPPKGADGEEKLLEAAERLKDLGPDFVSVTDNPGGSSRMMSLLAAAKLL--KETGIEPIPHLTCRDRNREALQSDLLG 93 (287)
T ss_dssp EE---SSHHHHHHHHHHHHHHHTT--SEEEE---GCGTTHHHHHHHHHHHH--HHTT--EEEEEESTTSBHHHHHHHHHH
T ss_pred EEeCCCCchHHHHHHHHHHHhcCCCCCEEEeecCCCCcccCCcHHHHHHHH--HHhCCceEEeecccCCCHHHHHHHHHH
Confidence 6778887554 2 34567777556688898887 222222 2222 146999988777543 56677888
Q ss_pred HHhcCCcEEEE--ccCC
Q 039912 92 ANLRCLKTVVV--GDIN 106 (198)
Q Consensus 92 Ar~r~l~TVVV--Gd~~ 106 (198)
+...|++.|++ ||..
T Consensus 94 ~~~~Gi~niL~l~GD~~ 110 (287)
T PF02219_consen 94 AHALGIRNILALTGDPP 110 (287)
T ss_dssp HHHTT--EEEEESS-TS
T ss_pred HHHcCCCeEEEecCCCC
Confidence 89999999877 7753
No 409
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=34.32 E-value=94 Score=24.31 Aligned_cols=58 Identities=21% Similarity=0.227 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHhhc-----------CccEEEEEeCCcc---hH---HHHHHHHhcCCc--EEEEcc-CCCccccchhc
Q 039912 58 DVLLRNHLVITHKR-----------RIEYLVVVSDDSD---FV---EVLLEANLRCLK--TVVVGD-INDGALKRISY 115 (198)
Q Consensus 58 D~ALkrhm~~m~~~-----------gv~clvLVSDdsd---F~---~~Lr~Ar~r~l~--TVVVGd-~~~~~L~R~AD 115 (198)
..||+.-+..+... ....|||+||=.. .. ..++.+++.+++ ||.||. .+...|++.|+
T Consensus 82 ~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~~~i~~igiG~~~~~~~L~~ia~ 159 (176)
T cd01464 82 GAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPTDDLTAAIERIKEARDSKGRIVACAVGPKADLDTLKQITE 159 (176)
T ss_pred HHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCCchHHHHHHHHHhhcccCCcEEEEEeccccCHHHHHHHHC
Confidence 45776666544221 1247999999432 33 345555554444 555553 22233444443
No 410
>PLN02607 1-aminocyclopropane-1-carboxylate synthase
Probab=34.31 E-value=2.1e+02 Score=26.53 Aligned_cols=26 Identities=23% Similarity=0.280 Sum_probs=16.8
Q ss_pred hccCCCCCCCchh-Hhh-hcceEEEecC
Q 039912 26 AVLTPEVGNGLIG-ELK-RGGLWVRTAS 51 (198)
Q Consensus 26 ~lltPkvgyGLa~-ELr-RAGv~VrtVs 51 (198)
.+|+|.-.|+... .++ |.|+-+..|+
T Consensus 146 ~Vlv~~P~Y~~f~~~~~~~~g~~vv~v~ 173 (447)
T PLN02607 146 ALLVPTPYYPGFDRDLRWRTGVKIVPIH 173 (447)
T ss_pred EEEEcCCCCcchHHHHHhcCCcEEEEEe
Confidence 4666766777654 355 7888776554
No 411
>PRK14650 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=34.02 E-value=18 Score=32.93 Aligned_cols=57 Identities=16% Similarity=0.098 Sum_probs=40.7
Q ss_pred EecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 48 RTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 48 rtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
+.+.-|||-- -|++|-.-=+..-.++++.+.+-.++..+++.+++.++...|+|.++
T Consensus 10 ~~~~~~~~~~--~L~~~tt~~iGG~A~~~~~p~~~~eL~~~l~~~~~~~~p~~vlG~GS 66 (302)
T PRK14650 10 KKINIKPQTK--NLANYTTYKIGGISKLFLTPKTIKDAEHIFKAAIEEKIKIFILGGGS 66 (302)
T ss_pred HHcCCCCCCc--cccccceeeeCcEEEEEEecCCHHHHHHHHHHHHHcCCCEEEEecee
Confidence 3345677764 45555441124445668888899999999999999999988888765
No 412
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=34.00 E-value=1.1e+02 Score=21.18 Aligned_cols=44 Identities=14% Similarity=0.078 Sum_probs=29.6
Q ss_pred HHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 60 LLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 60 ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
-++++|..| +.|-.-.|++.|..-..++-+.+++.|...+.+=+
T Consensus 15 ~~k~~l~~l-~~G~~l~V~~dd~~s~~di~~~~~~~g~~~~~~~~ 58 (69)
T cd03423 15 MLHKKVRKM-KPGDTLLVLATDPSTTRDIPKFCTFLGHELLAQET 58 (69)
T ss_pred HHHHHHHcC-CCCCEEEEEeCCCchHHHHHHHHHHcCCEEEEEEE
Confidence 356767666 33443445555556666999999999998876644
No 413
>PRK13906 murB UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=33.97 E-value=41 Score=30.18 Aligned_cols=35 Identities=9% Similarity=0.188 Sum_probs=31.6
Q ss_pred CccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 72 RIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 72 gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
-.++++...+-.|+..+++.|++.++..+|+|.++
T Consensus 36 ~A~~~v~p~~~edv~~~v~~a~~~~ip~~vlGgGS 70 (307)
T PRK13906 36 NADFYITPTKNEEVQAVVKYAYQNEIPVTYLGNGS 70 (307)
T ss_pred eeEEEEEcCCHHHHHHHHHHHHHcCCCEEEEcCce
Confidence 36778889999999999999999999999999886
No 414
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=33.77 E-value=26 Score=28.10 Aligned_cols=71 Identities=21% Similarity=0.245 Sum_probs=42.3
Q ss_pred CchhHhhhcceEEEecCCCcchHHHHHHHHHH-HHhhcCccEEEEEeCCcc--hHHHHHHH--HhcCCcEEEEccCC
Q 039912 35 GLIGELKRGGLWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVVVSDDSD--FVEVLLEA--NLRCLKTVVVGDIN 106 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvLVSDdsd--F~~~Lr~A--r~r~l~TVVVGd~~ 106 (198)
-|...|+.+|+.|..+.=--... .-...++. .+....+++|++-|-.+- |.+++... ...++.-|+||-..
T Consensus 131 ~l~~~L~~~g~~v~~~~vY~~~~-~~~~~~~~~~l~~~~~~~v~ftS~~~~~~~~~~~~~~~~~~~~~~~~~ig~~t 206 (231)
T PF02602_consen 131 DLPEKLREAGIEVTEVIVYETPP-EELSPELKEALDRGEIDAVVFTSPSAVRAFLELLKKNGALLKRVPIVAIGPRT 206 (231)
T ss_dssp HHHHHHHHTTEEEEEEECEEEEE-HHHHHHHHHHHHHTTTSEEEESSHHHHHHHHHHSSGHHHHHTTSEEEESSHHH
T ss_pred HHHHHHHHCCCeEEEEEEeeccc-ccchHHHHHHHHcCCCCEEEECCHHHHHHHHHHhHhhhhhhhCCEEEEECHHH
Confidence 47788999998885322111111 11333333 555678888888876654 55555443 45778888888764
No 415
>cd02039 cytidylyltransferase_like Cytidylyltransferase-like domain. Cytidylyltransferase-like domain. Many of these proteins are known to use CTP or ATP and release pyrophosphate. Protein families that contain at least one copy of this domain include citrate lyase ligase, pantoate-beta-alanine ligase, glycerol-3-phosphate cytidyltransferase, ADP-heptose synthase, phosphocholine cytidylyltransferase, lipopolysaccharide core biosynthesis protein KdtB, the bifunctional protein NadR, and a number whose function is unknown.
Probab=33.65 E-value=1.9e+02 Score=21.06 Aligned_cols=70 Identities=14% Similarity=-0.017 Sum_probs=40.6
Q ss_pred ceEEEecCCCcch----HHHHHHHHHHHHhhcC--ccEEEEEeCCcchH-----HHHHHHHhcCCcEEEEccCCCccccc
Q 039912 44 GLWVRTASDKPQA----TDVLLRNHLVITHKRR--IEYLVVVSDDSDFV-----EVLLEANLRCLKTVVVGDINDGALKR 112 (198)
Q Consensus 44 Gv~VrtVsdKPqA----AD~ALkrhm~~m~~~g--v~clvLVSDdsdF~-----~~Lr~Ar~r~l~TVVVGd~~~~~L~R 112 (198)
.++|-+.++.|.. ....+...+.++...+ ++.+++.-...... .+....+..+...+|+|.-....+.+
T Consensus 29 ~~~v~~~~~~~~~~~~~~~~~~~~R~~~l~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~G~d~~~~~~~ 108 (143)
T cd02039 29 EVIIIIVSNPPKKKRNKDPFSLHERVEMLKEILKDRLKVVPVDFPEVKILLAVVFILKILLKVGPDKVVVGEDFAFGKNA 108 (143)
T ss_pred ceEEEEcCCChhhcccccCCCHHHHHHHHHHhccCCcEEEEEecChhhccCHHHHHHHHHHHcCCcEEEECCccccCCch
Confidence 4556565665432 1123344444454555 78877776655432 23344556789999999977555655
Q ss_pred h
Q 039912 113 I 113 (198)
Q Consensus 113 ~ 113 (198)
+
T Consensus 109 ~ 109 (143)
T cd02039 109 S 109 (143)
T ss_pred h
Confidence 4
No 416
>TIGR00676 fadh2 5,10-methylenetetrahydrofolate reductase, prokaryotic form. This protein is an FAD-containing flavoprotein.
Probab=33.65 E-value=1.3e+02 Score=26.08 Aligned_cols=79 Identities=11% Similarity=0.150 Sum_probs=47.6
Q ss_pred hccCCCCCCC------chhHhhhcceEEEecCCCcchHHH----HHHHHHHHHhhcCccEEEEEe--CCc--chHHHHHH
Q 039912 26 AVLTPEVGNG------LIGELKRGGLWVRTASDKPQATDV----LLRNHLVITHKRRIEYLVVVS--DDS--DFVEVLLE 91 (198)
Q Consensus 26 ~lltPkvgyG------La~ELrRAGv~VrtVsdKPqAAD~----ALkrhm~~m~~~gv~clvLVS--Dds--dF~~~Lr~ 91 (198)
|+.+|+-..+ -+..|+..|+-.-+|++-|.+... ++=.++. ...|++.++=+| |.+ .+...|..
T Consensus 4 E~~PP~~~~~~~~l~~~~~~l~~~~pd~isvT~~~~~~~~~~t~~~a~~l~--~~~g~~~i~Hlt~r~~n~~~l~~~L~~ 81 (272)
T TIGR00676 4 EFFPPKTDEGEENLWETVDRLSPLDPDFVSVTYGAGGSTRDRTVRIVRRIK--KETGIPTVPHLTCIGATREEIREILRE 81 (272)
T ss_pred EEECcCCchhHHHHHHHHHHHhcCCCCEEEeccCCCCCcHHHHHHHHHHHH--HhcCCCeeEEeeecCCCHHHHHHHHHH
Confidence 4556666443 356788888777777888875311 1112222 124888766544 222 46777788
Q ss_pred HHhcCCcEEE--EccCC
Q 039912 92 ANLRCLKTVV--VGDIN 106 (198)
Q Consensus 92 Ar~r~l~TVV--VGd~~ 106 (198)
+.+.|++.|+ .||..
T Consensus 82 ~~~~Gi~nvL~l~GD~~ 98 (272)
T TIGR00676 82 YRELGIRHILALRGDPP 98 (272)
T ss_pred HHHCCCCEEEEeCCCCC
Confidence 8888888665 57754
No 417
>PTZ00170 D-ribulose-5-phosphate 3-epimerase; Provisional
Probab=33.63 E-value=2.9e+02 Score=23.50 Aligned_cols=68 Identities=15% Similarity=0.095 Sum_probs=48.7
Q ss_pred ccCCCCCCCc--hhHhhhcc----eEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCc-c-hHHHHHHHHhcCCc
Q 039912 27 VLTPEVGNGL--IGELKRGG----LWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDS-D-FVEVLLEANLRCLK 98 (198)
Q Consensus 27 lltPkvgyGL--a~ELrRAG----v~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDds-d-F~~~Lr~Ar~r~l~ 98 (198)
..+|...+|+ -.+||+.+ +-|.++.+.|. +++..+.+.|++++.+-..-+ . ...+++.+++.|.+
T Consensus 44 ~fvpn~~~G~~~v~~lr~~~~~~~lDvHLm~~~p~-------~~i~~~~~~Gad~itvH~ea~~~~~~~~l~~ik~~G~~ 116 (228)
T PTZ00170 44 HFVPNLSFGPPVVKSLRKHLPNTFLDCHLMVSNPE-------KWVDDFAKAGASQFTFHIEATEDDPKAVARKIREAGMK 116 (228)
T ss_pred ccCCCcCcCHHHHHHHHhcCCCCCEEEEECCCCHH-------HHHHHHHHcCCCEEEEeccCCchHHHHHHHHHHHCCCe
Confidence 4678887775 56898887 66788866554 334456678999987776533 3 67899999999976
Q ss_pred EEE
Q 039912 99 TVV 101 (198)
Q Consensus 99 TVV 101 (198)
.-|
T Consensus 117 ~gv 119 (228)
T PTZ00170 117 VGV 119 (228)
T ss_pred EEE
Confidence 544
No 418
>PRK13059 putative lipid kinase; Reviewed
Probab=33.62 E-value=1.7e+02 Score=25.45 Aligned_cols=72 Identities=11% Similarity=0.027 Sum_probs=41.5
Q ss_pred hhHhhhcceEEE--ecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcC--CcEEEEccCCCccccc
Q 039912 37 IGELKRGGLWVR--TASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRC--LKTVVVGDINDGALKR 112 (198)
Q Consensus 37 a~ELrRAGv~Vr--tVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~--l~TVVVGd~~~~~L~R 112 (198)
...|+++|+-+. ..+. +..+..+ + .....+.+.||.+.-|--+.+++.-.-+.+ +.--||=-++.-.+.|
T Consensus 25 ~~~l~~~g~~~~~~~~~~-~~~~~~~--~---~~~~~~~d~vi~~GGDGTv~evv~gl~~~~~~~~lgviP~GTgNdfAr 98 (295)
T PRK13059 25 IRIHQEKGYLVVPYRISL-EYDLKNA--F---KDIDESYKYILIAGGDGTVDNVVNAMKKLNIDLPIGILPVGTANDFAK 98 (295)
T ss_pred HHHHHHCCcEEEEEEccC-cchHHHH--H---HHhhcCCCEEEEECCccHHHHHHHHHHhcCCCCcEEEECCCCHhHHHH
Confidence 346888997643 2232 2223222 1 222567899999999999999988776554 3233333333334555
Q ss_pred hh
Q 039912 113 IS 114 (198)
Q Consensus 113 ~A 114 (198)
.-
T Consensus 99 ~l 100 (295)
T PRK13059 99 FL 100 (295)
T ss_pred Hh
Confidence 43
No 419
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=33.58 E-value=1e+02 Score=23.98 Aligned_cols=43 Identities=21% Similarity=0.250 Sum_probs=31.7
Q ss_pred hcCccEEEEEeCCcc---h-HHHHHHHHhcCCcEEEEccCCCccccchh
Q 039912 70 KRRIEYLVVVSDDSD---F-VEVLLEANLRCLKTVVVGDINDGALKRIS 114 (198)
Q Consensus 70 ~~gv~clvLVSDdsd---F-~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~A 114 (198)
++|--.||+++.|.. . ..+...|++.++..+.+|+. ..|++..
T Consensus 39 kkgka~LVilA~D~s~~~~~~~i~~lc~~~~Ip~~~~~sk--~eLG~a~ 85 (117)
T TIGR03677 39 ERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYVYVKKK--EDLGAAA 85 (117)
T ss_pred HcCCccEEEEeCCCCcHHHHHHHHHHHHHcCCCEEEeCCH--HHHHHHh
Confidence 567677777777763 2 67888999999999999875 3455543
No 420
>PRK14072 6-phosphofructokinase; Provisional
Probab=33.32 E-value=1.2e+02 Score=28.74 Aligned_cols=65 Identities=11% Similarity=0.051 Sum_probs=47.1
Q ss_pred HhhhcceEEEecCCCcc---hHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh---cCCcEEEEc
Q 039912 39 ELKRGGLWVRTASDKPQ---ATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL---RCLKTVVVG 103 (198)
Q Consensus 39 ELrRAGv~VrtVsdKPq---AAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~---r~l~TVVVG 103 (198)
-+.+.|-...|-..+|. ..+.-+++-+..+.+.+|++||.+--|--|....+++.. .|.+.-|||
T Consensus 67 i~~~gGt~LgssR~~~~~~~~~~~~~~~~~~~l~~~~Id~LivIGGdgS~~~a~~L~e~~~~~g~~i~vIg 137 (416)
T PRK14072 67 LAHTPSGALGSCRYKLKSLEEDRAEYERLLEVFKAHDIGYFFYNGGNDSMDTALKVSQLAKKMGYPIRCIG 137 (416)
T ss_pred HhcCCCeEeccCCCCCcccccChHHHHHHHHHHHHcCCCEEEEECChHHHHHHHHHHHHHHHhCCCceEEE
Confidence 45677888888665651 122334444447889999999999999999999988875 675566666
No 421
>PRK06849 hypothetical protein; Provisional
Probab=33.05 E-value=62 Score=28.77 Aligned_cols=23 Identities=17% Similarity=-0.006 Sum_probs=18.8
Q ss_pred CCCchhHhhhcceEEEecCCCcc
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQ 55 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPq 55 (198)
+++++..|+++|+.|-.+...|.
T Consensus 17 ~l~iar~l~~~G~~Vi~~d~~~~ 39 (389)
T PRK06849 17 ALELARLFHNAGHTVILADSLKY 39 (389)
T ss_pred HHHHHHHHHHCCCEEEEEeCCch
Confidence 67899999999999987766653
No 422
>cd07371 2A5CPDO_AB The alpha and beta subunits of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. This subfamily contains both alpha and beta subunits of 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO), which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, an intermediate during p-chloronitrobenzene degradation. 2A5CPDO is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. Alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication.
Probab=33.03 E-value=1.6e+02 Score=25.68 Aligned_cols=69 Identities=19% Similarity=0.156 Sum_probs=40.7
Q ss_pred hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhh-cCccEEEEEe-CCc--------chHHHHHHH-HhcCCcEEEEccC
Q 039912 37 IGELKRGGLWVRTASDKPQATDVLLRNHLVITHK-RRIEYLVVVS-DDS--------DFVEVLLEA-NLRCLKTVVVGDI 105 (198)
Q Consensus 37 a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~-~gv~clvLVS-Dds--------dF~~~Lr~A-r~r~l~TVVVGd~ 105 (198)
+..|+.+|+.+.++.+..---|....-=+.-|-. ..|- +|.|| .-. .|...|+.+ |+.+-+.+|||-+
T Consensus 94 ~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l~p~~~ip-vV~vs~~~~~~~~~~~~~lG~al~~~l~~~~~rv~iIgSG 172 (268)
T cd07371 94 VEEGRKAGLVTRMMRYPRFPIDTGTITALTLMRPGTDIP-PVVISANNLYLSGEETEGEMDLAGKATRDAGKRVAVLGSG 172 (268)
T ss_pred HHHHHHCCCcEEEecCCCCCCCchhHHHHHHhcCCCCCC-eEEEEecCcCCCHHHHHHHHHHHHHHHHHcCCcEEEEEec
Confidence 4456788888887555444456666655554422 2222 44444 322 567788654 7777778888765
Q ss_pred C
Q 039912 106 N 106 (198)
Q Consensus 106 ~ 106 (198)
.
T Consensus 173 ~ 173 (268)
T cd07371 173 G 173 (268)
T ss_pred C
Confidence 3
No 423
>cd02754 MopB_Nitrate-R-NapA-like Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol oxidation via a membrane-anchored tetraheme cytochrome. Members of the MopB_Nitrate-R-NapA CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=32.80 E-value=67 Score=29.98 Aligned_cols=48 Identities=13% Similarity=0.173 Sum_probs=36.0
Q ss_pred cCccEEEEEeCCcc-----hHHHHHHHHhc--CCcEEEEccCCCccccchhccccc
Q 039912 71 RRIEYLVVVSDDSD-----FVEVLLEANLR--CLKTVVVGDINDGALKRISYACFS 119 (198)
Q Consensus 71 ~gv~clvLVSDdsd-----F~~~Lr~Ar~r--~l~TVVVGd~~~~~L~R~AD~~fs 119 (198)
..-++|+++.-|.. ....++.|+++ |.+.|||.=.. ......||.|++
T Consensus 156 ~~ad~Il~~G~n~~~s~~~~~~~~~~a~~~~~G~klividP~~-t~ta~~Ad~~l~ 210 (565)
T cd02754 156 EHADCFFLIGSNMAECHPILFRRLLDRKKANPGAKIIVVDPRR-TRTADIADLHLP 210 (565)
T ss_pred hhCCEEEEECCChhhhhhHHHHHHHHHHhcCCCCEEEEEcCCC-CcchHHhCeeeC
Confidence 35688998877753 33456788888 99999996643 678889999885
No 424
>cd04630 CBS_pair_17 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=32.70 E-value=92 Score=21.61 Aligned_cols=30 Identities=17% Similarity=0.149 Sum_probs=19.8
Q ss_pred EEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 77 VVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 77 vLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
+.|+.+..+.++++..++.+.+.++|.|.+
T Consensus 4 ~~v~~~~~~~~~~~~~~~~~~~~~~V~~~~ 33 (114)
T cd04630 4 VTIDGLATVAEALQLMKEHGVSSLVVEKRR 33 (114)
T ss_pred EEECCCCcHHHHHHHHHHcCCCEEEEEECC
Confidence 455666667777777777777677766643
No 425
>cd08171 GlyDH-like2 Glycerol dehydrogenase-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=32.66 E-value=1.2e+02 Score=26.89 Aligned_cols=77 Identities=10% Similarity=0.065 Sum_probs=44.4
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHH-HHhhcCccEEE--EEeCCcchHH---HHHHHHhcCCcEEE-EccCCCc
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLV--VVSDDSDFVE---VLLEANLRCLKTVV-VGDINDG 108 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clv--LVSDdsdF~~---~Lr~Ar~r~l~TVV-VGd~~~~ 108 (198)
|..++++.|=.|-.|.|+.... .....+. .+...|++..+ -|..++.+.. +.+.+|+.+...|| ||.++-.
T Consensus 14 l~~~~~~~~~r~liv~d~~~~~--~~~~~v~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGGGs~~ 91 (345)
T cd08171 14 IPEVCEKYGKKVVVIGGKTALA--AAKDKIKAALEQSGIEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGGGKAI 91 (345)
T ss_pred HHHHHHhcCCEEEEEeCHHHHH--HHHHHHHHHHHHCCCeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCCcHHH
Confidence 3455666555556677754332 2233444 55567887643 3556666664 44556677777776 8887654
Q ss_pred cccchh
Q 039912 109 ALKRIS 114 (198)
Q Consensus 109 ~L~R~A 114 (198)
..++.+
T Consensus 92 D~aK~i 97 (345)
T cd08171 92 DTVKVL 97 (345)
T ss_pred HHHHHH
Confidence 455443
No 426
>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=32.63 E-value=2.5e+02 Score=22.20 Aligned_cols=64 Identities=17% Similarity=0.072 Sum_probs=39.5
Q ss_pred hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc----hHHHHHHHHhcCC--cEEEEccC
Q 039912 37 IGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD----FVEVLLEANLRCL--KTVVVGDI 105 (198)
Q Consensus 37 a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd----F~~~Lr~Ar~r~l--~TVVVGd~ 105 (198)
+.-|+-+||-|-... .=+.++..+... .+.+.+.++|-|=+.. +..+++.-+++++ -.|++|..
T Consensus 23 ~~~l~~~GfeVi~lg-~~~s~e~~v~aa----~e~~adii~iSsl~~~~~~~~~~~~~~L~~~g~~~i~vivGG~ 92 (132)
T TIGR00640 23 ATAYADLGFDVDVGP-LFQTPEEIARQA----VEADVHVVGVSSLAGGHLTLVPALRKELDKLGRPDILVVVGGV 92 (132)
T ss_pred HHHHHhCCcEEEECC-CCCCHHHHHHHH----HHcCCCEEEEcCchhhhHHHHHHHHHHHHhcCCCCCEEEEeCC
Confidence 567899999997522 223333333332 2468999999887754 4445555666776 35777753
No 427
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=32.50 E-value=89 Score=26.63 Aligned_cols=60 Identities=15% Similarity=0.149 Sum_probs=36.9
Q ss_pred hhhhhhHHHHHHHHhccCCCC-----CCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHH----hhcCccEEEEE
Q 039912 12 KYSIKMEKYKRAARAVLTPEV-----GNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVIT----HKRRIEYLVVV 79 (198)
Q Consensus 12 k~~~K~~KY~~AAr~lltPkv-----gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m----~~~gv~clvLV 79 (198)
.++..+.+|.. +.|.. --.|+.-|++.||-|.+..|..... +++.|... +..+.+|++++
T Consensus 11 alII~n~~f~~-----~~~r~g~~~D~~~l~~~f~~lgF~V~~~~dlt~~e---m~~~l~~~~~~~~~~~~d~~v~~ 79 (241)
T smart00115 11 ALIINNENFHS-----LPRRNGTDVDAENLTELFQSLGYEVHVKNNLTAEE---MLEELKEFAERPEHSDSDSFVCV 79 (241)
T ss_pred EEEEECccCCC-----CcCCCCcHHHHHHHHHHHHHCCCEEEEecCCCHHH---HHHHHHHHHhccccCCCCEEEEE
Confidence 34556667753 33333 4568999999999999988866533 33333322 23367775443
No 428
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=32.47 E-value=1.5e+02 Score=24.63 Aligned_cols=44 Identities=7% Similarity=0.101 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHHHhhcCccEEEEEeCCc---------------chHHHHHHHHhcCCcE
Q 039912 56 ATDVLLRNHLVITHKRRIEYLVVVSDDS---------------DFVEVLLEANLRCLKT 99 (198)
Q Consensus 56 AAD~ALkrhm~~m~~~gv~clvLVSDds---------------dF~~~Lr~Ar~r~l~T 99 (198)
++-..++++|......|+.+|++..-.. .+..+...|.+.|++-
T Consensus 87 ~~~~~~~~~i~~a~~lGa~~i~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~a~~~gv~l 145 (275)
T PRK09856 87 ESLDMIKLAMDMAKEMNAGYTLISAAHAGYLTPPNVIWGRLAENLSELCEYAENIGMDL 145 (275)
T ss_pred HHHHHHHHHHHHHHHhCCCEEEEcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCEE
Confidence 3444666777766688999998865422 2566777788888743
No 429
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=32.46 E-value=46 Score=23.01 Aligned_cols=21 Identities=33% Similarity=0.428 Sum_probs=19.1
Q ss_pred EEEEeCCcchHHHHHHHHhcC
Q 039912 76 LVVVSDDSDFVEVLLEANLRC 96 (198)
Q Consensus 76 lvLVSDdsdF~~~Lr~Ar~r~ 96 (198)
+|.++.|+||..++..+++.+
T Consensus 53 ~V~i~sd~Dl~~a~~~~~~~~ 73 (84)
T PF00564_consen 53 LVTISSDEDLQEAIEQAKESG 73 (84)
T ss_dssp EEEESSHHHHHHHHHHHHHCT
T ss_pred EEEeCCHHHHHHHHHHHHhcC
Confidence 799999999999999999853
No 430
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=32.45 E-value=1.2e+02 Score=21.19 Aligned_cols=43 Identities=12% Similarity=0.019 Sum_probs=33.4
Q ss_pred HHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEc
Q 039912 60 LLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVG 103 (198)
Q Consensus 60 ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVG 103 (198)
-++++|..| ..|-.-.|++.|..-..++-+.|++.|.+-+.+=
T Consensus 15 ~~kkal~~l-~~G~~l~V~~d~~~s~~ni~~~~~~~g~~v~~~~ 57 (69)
T cd03422 15 ATLEALPSL-KPGEILEVISDCPQSINNIPIDARNHGYKVLAIE 57 (69)
T ss_pred HHHHHHHcC-CCCCEEEEEecCchHHHHHHHHHHHcCCEEEEEE
Confidence 456777777 5566677888888889999999999998876553
No 431
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=32.40 E-value=2.4e+02 Score=23.81 Aligned_cols=38 Identities=18% Similarity=0.220 Sum_probs=28.2
Q ss_pred hhcCccEEEEEeC------CcchHHHHHHHHhcCCcEEEEccCC
Q 039912 69 HKRRIEYLVVVSD------DSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 69 ~~~gv~clvLVSD------dsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
...||.-.++-.+ ..+|...|+.+++.|+..||.||..
T Consensus 53 ~~lgip~~~i~~~~~~~~~~~~l~~~l~~~~~~g~~~vv~G~i~ 96 (218)
T TIGR03679 53 EALGIPLVKIETSGEKEKEVEDLKGALKELKREGVEGIVTGAIA 96 (218)
T ss_pred HHhCCCEEEEECCCCChHHHHHHHHHHHHHHHcCCCEEEECCcc
Confidence 3568886555443 1347888888888899999999975
No 432
>PLN02522 ATP citrate (pro-S)-lyase
Probab=32.38 E-value=1.1e+02 Score=30.77 Aligned_cols=61 Identities=16% Similarity=0.253 Sum_probs=41.3
Q ss_pred cceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccc
Q 039912 43 GGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGAL 110 (198)
Q Consensus 43 AGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L 110 (198)
+.+.|..|+ -|+|+|.+|+. +..+||..+|++|.- .+=..+++.||+.|++ +||=.+-|-+
T Consensus 79 ~~~~vifvp-~~~a~da~lEa----~~a~GIk~~VIiteGfpe~d~~~l~~~Ar~~g~r--lIGPNc~Gii 142 (608)
T PLN02522 79 ADVFINFAS-FRSAAASSMEA----LKQPTIRVVAIIAEGVPESDTKQLIAYARANNKV--VIGPATVGGI 142 (608)
T ss_pred CcEEEEeCC-hHHhHHHHHHH----HhhCCCCEEEEECCCCChhhHHHHHHHHHHcCCE--EECCCCCeeE
Confidence 345555654 46788777664 446899999999853 3346677888887765 7887664433
No 433
>PRK08248 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=32.27 E-value=1.5e+02 Score=27.46 Aligned_cols=68 Identities=12% Similarity=0.082 Sum_probs=42.5
Q ss_pred hccCCCCCCCc-----hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC------cchHHHHHHHHh
Q 039912 26 AVLTPEVGNGL-----IGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD------SDFVEVLLEANL 94 (198)
Q Consensus 26 ~lltPkvgyGL-----a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd------sdF~~~Lr~Ar~ 94 (198)
.|++|...||- ...+++.|+.|..|.-. . . .+|++++ +.+...|++.|=. .|...+.+.|++
T Consensus 105 ~Vlv~~~~y~~t~~~~~~~~~~~Gv~v~~vd~~-d-~-e~l~~ai----~~~tklV~l~sp~NPtG~v~di~~I~~la~~ 177 (431)
T PRK08248 105 EIVSSSSLYGGTYNLFAHTLPKLGITVKFVDPS-D-P-ENFEAAI----TDKTKALFAETIGNPKGDVLDIEAVAAIAHE 177 (431)
T ss_pred EEEEccCchhhHHHHHHHHHHhCCEEEEEECCC-C-H-HHHHHhc----CCCCeEEEEECCCCCCCcccCHHHHHHHHHH
Confidence 47777777763 24578899999988532 1 1 1344322 3456666665433 467888999999
Q ss_pred cCCcEE
Q 039912 95 RCLKTV 100 (198)
Q Consensus 95 r~l~TV 100 (198)
.|+-.|
T Consensus 178 ~gi~vI 183 (431)
T PRK08248 178 HGIPLI 183 (431)
T ss_pred cCCEEE
Confidence 876433
No 434
>PRK08278 short chain dehydrogenase; Provisional
Probab=32.21 E-value=1.3e+02 Score=24.90 Aligned_cols=70 Identities=14% Similarity=0.036 Sum_probs=42.4
Q ss_pred CCCchhHhhhcceEEEecCCCcchHH---HHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh-----cCCcEEEE
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATD---VLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL-----RCLKTVVV 102 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD---~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~-----r~l~TVVV 102 (198)
|..+|..|.+.|..|-.+...+.... ..|+.....+.+.|..+.++.+|-++...+-+...+ ..+..||-
T Consensus 19 G~~ia~~l~~~G~~V~~~~r~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~D~~~~~~i~~~~~~~~~~~g~id~li~ 96 (273)
T PRK08278 19 GLAIALRAARDGANIVIAAKTAEPHPKLPGTIHTAAEEIEAAGGQALPLVGDVRDEDQVAAAVAKAVERFGGIDICVN 96 (273)
T ss_pred HHHHHHHHHHCCCEEEEEecccccccchhhHHHHHHHHHHhcCCceEEEEecCCCHHHHHHHHHHHHHHhCCCCEEEE
Confidence 67788889999988876544332211 123333334445677788888887777665544433 25776664
No 435
>cd07766 DHQ_Fe-ADH Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH). Dehydroquinate synthase-like. This superfamily divides into two subgroups: the dehydroquinate synthase-like, and a large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. Dehydroquinate synthase-like group includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. The alcohol dehydrogenases in this superfamily contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alc
Probab=32.20 E-value=1.2e+02 Score=26.31 Aligned_cols=77 Identities=21% Similarity=0.210 Sum_probs=42.9
Q ss_pred chhHhhhcce-EEEecCCCcchHHHHHHHHHH-HHhhcCccEEE--EEeCCcchH---HHHHHHHhcCCcEEE-EccCCC
Q 039912 36 LIGELKRGGL-WVRTASDKPQATDVLLRNHLV-ITHKRRIEYLV--VVSDDSDFV---EVLLEANLRCLKTVV-VGDIND 107 (198)
Q Consensus 36 La~ELrRAGv-~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clv--LVSDdsdF~---~~Lr~Ar~r~l~TVV-VGd~~~ 107 (198)
|..+|++.|. .+=.|.|+-. .+ .+..++. .+-+. +.+.+ .+..++.+. .++..+++.+...|| ||+++-
T Consensus 14 l~~~~~~~g~~~~liv~~~~~-~~-~~~~~v~~~l~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs~ 90 (332)
T cd07766 14 IGEEIKRGGFDRALVVSDEGV-VK-GVGEKVADSLKKL-IAVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGGGST 90 (332)
T ss_pred HHHHHHhcCCCeEEEEeCCch-hh-hHHHHHHHHHHhc-CcEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCchH
Confidence 4455666553 3445566433 33 4444444 44343 55533 344456655 555666777788877 898775
Q ss_pred ccccchhc
Q 039912 108 GALKRISY 115 (198)
Q Consensus 108 ~~L~R~AD 115 (198)
..+++.+-
T Consensus 91 ~D~aK~ia 98 (332)
T cd07766 91 LDTAKAVA 98 (332)
T ss_pred HHHHHHHH
Confidence 55665543
No 436
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=32.16 E-value=1.8e+02 Score=26.13 Aligned_cols=73 Identities=11% Similarity=0.045 Sum_probs=38.8
Q ss_pred Hhhhcce--EEEecCCCcchHHHHHHHHHH-HHhhcCccEEEEEeCCcchH---HHHHHHHhcCCcEEE-EccCCCcccc
Q 039912 39 ELKRGGL--WVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVVVSDDSDFV---EVLLEANLRCLKTVV-VGDINDGALK 111 (198)
Q Consensus 39 ELrRAGv--~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvLVSDdsdF~---~~Lr~Ar~r~l~TVV-VGd~~~~~L~ 111 (198)
+|++-|. .|-.|.|.-.. +. ...++. .+.+.| +..+.+..++.+. .++..+++.+...|| ||.++-..++
T Consensus 27 ~l~~~~~~~~~livtd~~~~-~~-~~~~l~~~l~~~~-~~~~~~~~~~t~~~v~~~~~~~~~~~~d~IIaiGGGsv~D~a 103 (350)
T PRK00843 27 VCSDLKLTGRALIVTGPTTK-KI-AGDRVEENLEDAG-DVEVVIVDEATMEEVEKVEEKAKDVNAGFLIGVGGGKVIDVA 103 (350)
T ss_pred HHHHhCCCCeEEEEECCcHH-HH-HHHHHHHHHHhcC-CeeEEeCCCCCHHHHHHHHHHhhccCCCEEEEeCCchHHHHH
Confidence 3444442 44455564333 22 234444 555566 6655676777766 445556666766665 6665544444
Q ss_pred chh
Q 039912 112 RIS 114 (198)
Q Consensus 112 R~A 114 (198)
+.+
T Consensus 104 k~v 106 (350)
T PRK00843 104 KLA 106 (350)
T ss_pred HHH
Confidence 443
No 437
>cd01477 vWA_F09G8-8_type VWA F09G8.8 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of mo
Probab=32.02 E-value=2e+02 Score=23.85 Aligned_cols=34 Identities=12% Similarity=0.131 Sum_probs=25.2
Q ss_pred ccE-EEEEeCC------cchHHHHHHHHhcCCcEEEEccCC
Q 039912 73 IEY-LVVVSDD------SDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 73 v~c-lvLVSDd------sdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
+.. |||++|+ .+...+.+.+++.|+....||-++
T Consensus 131 v~kvvIllTDg~~~~~~~~~~~~a~~l~~~GI~i~tVGiG~ 171 (193)
T cd01477 131 YKKVVIVFASDYNDEGSNDPRPIAARLKSTGIAIITVAFTQ 171 (193)
T ss_pred CCeEEEEEecCccCCCCCCHHHHHHHHHHCCCEEEEEEeCC
Confidence 545 8888874 256788888999999966666654
No 438
>PF00465 Fe-ADH: Iron-containing alcohol dehydrogenase ; InterPro: IPR001670 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of ethanol to acetaldehyde with the concomitant reduction of NAD. Currently three, structurally and catalytically, different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Iron-containing ADH's have been found in yeast (gene ADH4) [], as well as in Zymomonas mobilis (gene adhB) []. These two iron-containing ADH's are closely related to the following enzymes: Escherichia coli propanediol oxidoreductase (1.1.1.77 from EC) (gene fucO) [], an enzyme involved in the metabolism of fucose and which also seems to contain ferrous ion(s). Clostridium acetobutylicum NADPH- and NADH-dependent butanol dehydrogenases (1.1.1 from EC) (genes adh1, bdhA and bdhB) [], an enzyme which has activity using butanol and ethanol as substrates. E. coli adhE [], an iron-dependent enzyme which harbor three different activities: alcohol dehydrogenase, acetaldehyde dehydrogenase (acetylating) (1.2.1.10 from EC) and pyruvate-formate-lyase deactivase. Bacterial glycerol dehydrogenase (1.1.1.6 from EC) (gene gldA or dhaD) []. Clostridium kluyveri NAD-dependent 4-hydroxybutyrate dehydrogenase (4hbd) (1.1.1.61 from EC). Citrobacter freundii and Klebsiella pneumoniae 1,3-propanediol dehydrogenase (1.1.1.202 from EC) (gene dhaT). Bacillus methanolicus NAD-dependent methanol dehydrogenase (1.1.1.244 from EC) []. E. coli and Salmonella typhimurium ethanolamine utilization protein eutG. E. coli hypothetical protein yiaY. ; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1RRM_A 2BL4_A 2BI4_A 3BFJ_R 1KQ3_A 1JQ5_A 1JPU_A 1JQA_A 3JZD_A 3UHJ_A ....
Probab=31.98 E-value=89 Score=27.75 Aligned_cols=69 Identities=22% Similarity=0.191 Sum_probs=47.0
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHH-HHhhcCccEEEEE--eCCcchHHHHH---HHHhcCCcEEE-EccCC
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVVV--SDDSDFVEVLL---EANLRCLKTVV-VGDIN 106 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvLV--SDdsdF~~~Lr---~Ar~r~l~TVV-VGd~~ 106 (198)
|..+|++.| .|=.|+++ ......+..++. .+...|+++.+.- .-++.+..+.+ .+|+.+...|| ||+++
T Consensus 14 l~~~l~~~g-r~lvVt~~-~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 89 (366)
T PF00465_consen 14 LGEELKRLG-RVLVVTDP-SLSKSGLVDRVLDALEEAGIEVQVFDGVGPNPTLEDVDEAAEQARKFGADCIIAIGGGS 89 (366)
T ss_dssp HHHHHHCTT-EEEEEEEH-HHHHHTHHHHHHHHHHHTTCEEEEEEEESSS-BHHHHHHHHHHHHHTTSSEEEEEESHH
T ss_pred HHHHHHhcC-CEEEEECc-hHHhCccHHHHHHHHhhCceEEEEEecCCCCCcHHHHHHHHHHHHhcCCCEEEEcCCCC
Confidence 567788888 88888987 544443566666 6667899986654 77777776654 55566776554 67765
No 439
>PF00781 DAGK_cat: Diacylglycerol kinase catalytic domain; InterPro: IPR001206 The DAG-kinase catalytic domain or DAGKc domain is present in mammalian lipid kinases, such as diacylglycerol (DAG), ceramide and sphingosine kinases, as well as in related bacterial proteins [, ]. Eukaryotic DAG-kinase (2.7.1.107 from EC) catalyses the phosphorylation of DAG to phosphatidic acid, thus modulating the balance between the two signaling lipids. At least ten different isoforms have been identified in mammals, which form 5 groups characterised by different functional domains, such as the calcium-binding EF hand (see PDOC00018 from PROSITEDOC), PH (see PDOC50003 from PROSITEDOC), SAM (see PDOC50105 from PROSITEDOC) , DAG/PE-binding C1 domain (see PDOC00379 from PROSITEDOC) and ankyrin repeats (see PDOC50088 from PROSITEDOC) []. In bacteria, an integral membrane DAG kinase forms a homotrimeric protein that lacks the DAGKc domain (see PDOC00820 from PROSITEDOC). In contrast, the bacterial yegS protein is a soluble cytosolic protein that contains the DAGKc domain in the N-terminal part. YegS is a lipid kinase with two structural domains, wherein the active site is located in the interdomain cleft, C-terminal to the DAGKc domain which forms an alpha/beta fold []. The tertiary structure resembles that of NAD kinases and contains a metal-binding site in the C-terminal region [, ]. This domain is usually associated with an accessory domain (see IPR000756 from INTERPRO).; GO: 0004143 diacylglycerol kinase activity, 0007205 activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway; PDB: 2JGR_A 2BON_A 3T5P_D 3S40_A 2P1R_A 2QV7_A 2QVL_A.
Probab=31.97 E-value=2.2e+02 Score=21.34 Aligned_cols=48 Identities=21% Similarity=0.297 Sum_probs=21.9
Q ss_pred HHhhcCccEEEEEeCCcchHHHHHH-HHhcCC-cEEEEccCCCccccchhc
Q 039912 67 ITHKRRIEYLVVVSDDSDFVEVLLE-ANLRCL-KTVVVGDINDGALKRISY 115 (198)
Q Consensus 67 ~m~~~gv~clvLVSDdsdF~~~Lr~-Ar~r~l-~TVVVGd~~~~~L~R~AD 115 (198)
.+...+.++-+..+...+....+.. +....- .+|||..++ +.+...++
T Consensus 23 ~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~ivv~GGD-GTl~~vv~ 72 (130)
T PF00781_consen 23 ALRAAGIDYEVIETESAGHAEALARILALDDYPDVIVVVGGD-GTLNEVVN 72 (130)
T ss_dssp HHHHTTCEEEEEEESSTTHHHHHHHHHHHTTS-SEEEEEESH-HHHHHHHH
T ss_pred HHHHcCCceEEEEEeccchHHHHHHHHhhccCccEEEEEcCc-cHHHHHHH
Confidence 4444555555555555555555544 222222 355544442 44544443
No 440
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=31.93 E-value=1.2e+02 Score=23.97 Aligned_cols=45 Identities=24% Similarity=0.231 Sum_probs=34.9
Q ss_pred hcCccEEEEEeCCcch----HHHHHHHHhcCCcEEEEccCCCccccchhcc
Q 039912 70 KRRIEYLVVVSDDSDF----VEVLLEANLRCLKTVVVGDINDGALKRISYA 116 (198)
Q Consensus 70 ~~gv~clvLVSDdsdF----~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~ 116 (198)
++|--.||+++.|.+- ..+..+|++.++.-+-+|+. ..|++..-.
T Consensus 43 kkgkakLVilA~D~s~~~i~~~~~~lc~~~~Vp~~~~~tk--~eLG~a~Gk 91 (122)
T PRK04175 43 ERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVPSK--KDLGKAAGL 91 (122)
T ss_pred HcCCccEEEEeCCCChHHHHHHHHHHHHHcCCCEEEECCH--HHHHHHhCC
Confidence 6788889999988832 57889999999999999975 356655433
No 441
>cd02763 MopB_2 The MopB_2 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins
Probab=31.78 E-value=76 Score=31.76 Aligned_cols=72 Identities=18% Similarity=0.175 Sum_probs=45.1
Q ss_pred CccEEEEEeCCcc-----hHHHHHHHHhcCCcEEEEccCCCccccchhcccccHH-----HHhhchhhhhhhhhhccccc
Q 039912 72 RIEYLVVVSDDSD-----FVEVLLEANLRCLKTVVVGDINDGALKRISYACFSWW-----DILMGKARKEAVSVVGKWKD 141 (198)
Q Consensus 72 gv~clvLVSDdsd-----F~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~-----eV~~Gka~k~A~~~~g~W~d 141 (198)
.-+|||++.-+.+ +.--++.||++|.+-|||.=. ....++.||.|++=. -+.+|-+..-. ...|-|
T Consensus 155 ~Ad~Ivl~G~n~~~~~~p~~~~i~~ak~~GaKlIvIDPr-~t~ta~~AD~wl~irPGTD~aL~lal~~~Li---~~g~~D 230 (679)
T cd02763 155 HTKYFMMIGVAEDHHSNPFKIGIQKLKRRGGKFVAVNPV-RTGYAAIADEWVPIKPGTDGAFILALAHELL---KAGLID 230 (679)
T ss_pred hCCEEEEECCCCcccCchHHHHHHHHHhCCCcEEEEcCc-CCcchHhhCeecCcCCCcHHHHHHHHHHHHH---HCCCcC
Confidence 5678888864332 334567889999999999554 357889999998643 22333333221 223556
Q ss_pred cccchh
Q 039912 142 GDVLKR 147 (198)
Q Consensus 142 ~dvlk~ 147 (198)
.+++++
T Consensus 231 ~~Fl~~ 236 (679)
T cd02763 231 WEFLKR 236 (679)
T ss_pred HHHHHH
Confidence 666664
No 442
>PRK06077 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=31.68 E-value=2e+02 Score=22.81 Aligned_cols=68 Identities=16% Similarity=0.100 Sum_probs=38.7
Q ss_pred CCCCCchhHhhhcceEEEecC-CCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHH---h--cCCcEEEE
Q 039912 31 EVGNGLIGELKRGGLWVRTAS-DKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEAN---L--RCLKTVVV 102 (198)
Q Consensus 31 kvgyGLa~ELrRAGv~VrtVs-dKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar---~--r~l~TVVV 102 (198)
-+|..++.+|.+.|..|..+. ..|+.....+ .++. ..+.+..++.+|-++...+-+... + .++..||-
T Consensus 17 ~iG~~l~~~l~~~g~~v~~~~~~~~~~~~~~~-~~~~---~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~~d~vi~ 90 (252)
T PRK06077 17 GIGRAIAVRLAKEGSLVVVNAKKRAEEMNETL-KMVK---ENGGEGIGVLADVSTREGCETLAKATIDRYGVADILVN 90 (252)
T ss_pred hHHHHHHHHHHHCCCEEEEEeCCChHHHHHHH-HHHH---HcCCeeEEEEeccCCHHHHHHHHHHHHHHcCCCCEEEE
Confidence 457889999999999886543 3444332222 3333 334444556667666665544333 2 35666654
No 443
>PRK11263 cardiolipin synthase 2; Provisional
Probab=31.60 E-value=1.7e+02 Score=27.32 Aligned_cols=61 Identities=7% Similarity=0.050 Sum_probs=46.5
Q ss_pred ceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEe----CCcchHHHHHHHHhcCCcEEEEcc
Q 039912 44 GLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVS----DDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 44 Gv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVS----DdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
...++.|++-|.-....+.+++..+++.-=..|.+.+ -+..+...|+.|.+|||+--+|-+
T Consensus 190 ~~~~~~v~~~p~~~~~~i~~~~~~~i~~A~~~I~I~tpYf~p~~~l~~aL~~Aa~RGV~V~ii~~ 254 (411)
T PRK11263 190 EAQALLVWRDNEEHRDDIERHYLKALRQARREVIIANAYFFPGYRLLRALRNAARRGVRVRLILQ 254 (411)
T ss_pred CeEEEEEECCCcchHHHHHHHHHHHHHHhceEEEEEecCcCCCHHHHHHHHHHHHCCCEEEEEeC
Confidence 3578888888876666778888866665556777776 367789999999999998777644
No 444
>PRK05576 cobalt-precorrin-2 C(20)-methyltransferase; Validated
Probab=31.56 E-value=1.5e+02 Score=24.70 Aligned_cols=51 Identities=12% Similarity=0.015 Sum_probs=40.9
Q ss_pred hcCccEEEEEeCCcch----HHHHHHHHhcCCcEEEEccCCCccccchhcccccHH
Q 039912 70 KRRIEYLVVVSDDSDF----VEVLLEANLRCLKTVVVGDINDGALKRISYACFSWW 121 (198)
Q Consensus 70 ~~gv~clvLVSDdsdF----~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~ 121 (198)
..|-+..+|+|-|+-| ..+++.+++.++.--||-..+ ..-.=.|=+.+||.
T Consensus 88 ~~g~~V~~l~~GDP~~y~~~~~l~~~~~~~~~~v~viPGiS-s~~~a~a~~g~~l~ 142 (229)
T PRK05576 88 EEGKNVAFITLGDPNLYSTFSHLLEYLKCHDIEVETVPGIS-SFTAIASRAGVPLA 142 (229)
T ss_pred HcCCcEEEEeCcCccccccHHHHHHHHHhCCCCEEEeCChh-HHHHHHHHcCCCcc
Confidence 5677899999999988 677888887788888888876 45556677888998
No 445
>COG0794 GutQ Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]
Probab=31.49 E-value=82 Score=27.54 Aligned_cols=76 Identities=12% Similarity=0.072 Sum_probs=50.8
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHH-HHhhcCccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCcccc
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALK 111 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~ 111 (198)
+|.-|---|..+-.|... .|+ |.- =|++ .-|.||+.|-. +....++..|+++|..-|-|=-.-++.|+
T Consensus 57 ~Aa~L~s~G~~a~fv~p~-----ea~--hgdlg~i~-~~DvviaiS~SGeT~el~~~~~~aK~~g~~liaiT~~~~SsLa 128 (202)
T COG0794 57 FAARLASTGTPAFFVGPA-----EAL--HGDLGMIT-PGDVVIAISGSGETKELLNLAPKAKRLGAKLIAITSNPDSSLA 128 (202)
T ss_pred HHHHHHccCCceEEecCc-----hhc--cCCccCCC-CCCEEEEEeCCCcHHHHHHHHHHHHHcCCcEEEEeCCCCChHH
Confidence 455566666655555420 121 222 2222 45889999976 45667778888999998888776678999
Q ss_pred chhccccc
Q 039912 112 RISYACFS 119 (198)
Q Consensus 112 R~AD~~fs 119 (198)
+.||+-+.
T Consensus 129 k~aDvvl~ 136 (202)
T COG0794 129 KAADVVLV 136 (202)
T ss_pred HhcCeEEE
Confidence 99999774
No 446
>cd04623 CBS_pair_10 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=31.40 E-value=1e+02 Score=20.80 Aligned_cols=30 Identities=23% Similarity=0.189 Sum_probs=22.9
Q ss_pred EEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 77 VVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 77 vLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
+.++.+..+.++++..++.+...++|.|.+
T Consensus 4 ~~i~~~~~~~~~~~~~~~~~~~~~~V~~~~ 33 (113)
T cd04623 4 ITVRPDATVAEAAKLMAEKNIGAVVVVDDG 33 (113)
T ss_pred EEECCCCcHHHHHHHHHHcCCCeEEEECCC
Confidence 446777788888888888888888887764
No 447
>CHL00194 ycf39 Ycf39; Provisional
Probab=31.38 E-value=61 Score=27.67 Aligned_cols=69 Identities=13% Similarity=0.126 Sum_probs=40.5
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHH-------------HHHHHHH-HHhhcCccEEEEEeC-----Ccch--------
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDV-------------LLRNHLV-ITHKRRIEYLVVVSD-----DSDF-------- 85 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~-------------ALkrhm~-~m~~~gv~clvLVSD-----dsdF-------- 85 (198)
|--|+.+|..+|+.|+.+...|..+.. .=...+. .+ .|++.++-.+- ...|
T Consensus 13 G~~lv~~Ll~~g~~V~~l~R~~~~~~~l~~~~v~~v~~Dl~d~~~l~~al--~g~d~Vi~~~~~~~~~~~~~~~~~~~~~ 90 (317)
T CHL00194 13 GRQIVRQALDEGYQVRCLVRNLRKASFLKEWGAELVYGDLSLPETLPPSF--KGVTAIIDASTSRPSDLYNAKQIDWDGK 90 (317)
T ss_pred HHHHHHHHHHCCCeEEEEEcChHHhhhHhhcCCEEEECCCCCHHHHHHHH--CCCCEEEECCCCCCCCccchhhhhHHHH
Confidence 445788888899988866555432211 0011222 23 47887665421 1122
Q ss_pred HHHHHHHHhcCCcEEEEc
Q 039912 86 VEVLLEANLRCLKTVVVG 103 (198)
Q Consensus 86 ~~~Lr~Ar~r~l~TVVVG 103 (198)
..+++.|++.|++.+|.-
T Consensus 91 ~~l~~aa~~~gvkr~I~~ 108 (317)
T CHL00194 91 LALIEAAKAAKIKRFIFF 108 (317)
T ss_pred HHHHHHHHHcCCCEEEEe
Confidence 468889999999776653
No 448
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=31.33 E-value=78 Score=24.47 Aligned_cols=31 Identities=13% Similarity=0.090 Sum_probs=24.0
Q ss_pred EEEEEeCC---cchHHHHHHHHhcCCcEEEEccC
Q 039912 75 YLVVVSDD---SDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 75 clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
-|+|+||- .++..+.+.+|+.|+...+||-+
T Consensus 106 ~iillTDG~~~~~~~~~a~~lk~~gi~i~~ig~g 139 (164)
T cd01482 106 VVILITDGKSQDDVELPARVLRNLGVNVFAVGVK 139 (164)
T ss_pred EEEEEcCCCCCchHHHHHHHHHHCCCEEEEEecC
Confidence 48888882 34566777888899999999875
No 449
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=31.33 E-value=84 Score=24.03 Aligned_cols=27 Identities=33% Similarity=0.496 Sum_probs=23.3
Q ss_pred EEEEeCCcchHHHHHHHHhcCCcEEEE
Q 039912 76 LVVVSDDSDFVEVLLEANLRCLKTVVV 102 (198)
Q Consensus 76 lvLVSDdsdF~~~Lr~Ar~r~l~TVVV 102 (198)
.||++=|+|+.+.+..||..|-++|.+
T Consensus 55 ~VllT~D~DL~e~v~iar~~g~~~v~L 81 (86)
T cd06409 55 IVLITSDSDLVAAVLVARSAGLKKLDL 81 (86)
T ss_pred EEEEeccchHHHHHHHHHHcCCCEEEE
Confidence 466677899999999999999999865
No 450
>PRK09496 trkA potassium transporter peripheral membrane component; Reviewed
Probab=31.31 E-value=96 Score=27.66 Aligned_cols=70 Identities=14% Similarity=0.061 Sum_probs=41.7
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHHHHHHH-----------HHHHhh---cCccEEEEEeCCcchHH-HHHHHHhc-C
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDVLLRNH-----------LVITHK---RRIEYLVVVSDDSDFVE-VLLEANLR-C 96 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrh-----------m~~m~~---~gv~clvLVSDdsdF~~-~Lr~Ar~r-~ 96 (198)
|..++..|.+.|+.|..+...|+....+-.+. ...+.+ .+.+.+++.+++.+..- +...||+. +
T Consensus 12 g~~~a~~L~~~g~~v~vid~~~~~~~~~~~~~~~~~~~gd~~~~~~l~~~~~~~a~~vi~~~~~~~~n~~~~~~~r~~~~ 91 (453)
T PRK09496 12 GYTLAENLSGENNDVTVIDTDEERLRRLQDRLDVRTVVGNGSSPDVLREAGAEDADLLIAVTDSDETNMVACQIAKSLFG 91 (453)
T ss_pred HHHHHHHHHhCCCcEEEEECCHHHHHHHHhhcCEEEEEeCCCCHHHHHHcCCCcCCEEEEecCChHHHHHHHHHHHHhcC
Confidence 45578889989999988877777654432211 112222 35666666666555544 44667775 5
Q ss_pred CcEEEE
Q 039912 97 LKTVVV 102 (198)
Q Consensus 97 l~TVVV 102 (198)
..++|+
T Consensus 92 ~~~ii~ 97 (453)
T PRK09496 92 APTTIA 97 (453)
T ss_pred CCeEEE
Confidence 555554
No 451
>TIGR02979 phageshock_pspD phage shock protein PspD. Members of this family are phage shock protein PspD, found in a minority of bacteria that carry the defining genes of the phage shock regulon (pspA, pspB, pspC, and pspF). It is found in Escherichia coli, Yersinia pestis, and closely related species, where it is part of the phage shock operon. It is known to be expressed but its function is unknown.
Probab=31.30 E-value=11 Score=27.56 Aligned_cols=39 Identities=21% Similarity=0.353 Sum_probs=29.5
Q ss_pred HhccCCCCCCCchhHhhhcceEEEecCCCcc------hHHHHHHHHHH
Q 039912 25 RAVLTPEVGNGLIGELKRGGLWVRTASDKPQ------ATDVLLRNHLV 66 (198)
Q Consensus 25 r~lltPkvgyGLa~ELrRAGv~VrtVsdKPq------AAD~ALkrhm~ 66 (198)
+=+++-+.-||+|.. ||..|++|+.||- |.+-.|++-|.
T Consensus 9 K~i~~~Al~YGPAG~---aGw~vKsVsrkPLr~lLa~aLEPllkr~~~ 53 (59)
T TIGR02979 9 KLVLLTALRYGPAGV---AGWAMKSVARRPLKMLLAIALEPMLKRAAN 53 (59)
T ss_pred HHHHHHHHHhCchhH---HHHHHHHHhhccHHHHHHHHHHHHHHHHHH
Confidence 445666778999985 8999999999998 55555555544
No 452
>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=31.26 E-value=2.8e+02 Score=22.27 Aligned_cols=39 Identities=26% Similarity=0.234 Sum_probs=25.1
Q ss_pred CccEEEEEeCCcchHHHHHHHHhcCCc--EEEEc-cCCCcccc
Q 039912 72 RIEYLVVVSDDSDFVEVLLEANLRCLK--TVVVG-DINDGALK 111 (198)
Q Consensus 72 gv~clvLVSDdsdF~~~Lr~Ar~r~l~--TVVVG-d~~~~~L~ 111 (198)
.+++|+.. .|.-..++++..+++|++ .+||| |.+...+.
T Consensus 185 ~~~ai~~~-~d~~a~g~~~al~~~g~~~~~~ivg~d~~~~~~~ 226 (274)
T cd06311 185 KIDAVWAH-DDDMAVGVLAAIKQAGRTDIKFVVGGAGSKDMIK 226 (274)
T ss_pred CcCEEEEC-CCcHHHHHHHHHHHcCCCCCceEEEeCCCHHHHH
Confidence 46665444 444567899999998886 45565 66654443
No 453
>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=31.25 E-value=1.1e+02 Score=27.37 Aligned_cols=71 Identities=10% Similarity=0.041 Sum_probs=48.2
Q ss_pred ccCCCCCCCc------hhHhhhcceEEEe-cCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcE
Q 039912 27 VLTPEVGNGL------IGELKRGGLWVRT-ASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKT 99 (198)
Q Consensus 27 lltPkvgyGL------a~ELrRAGv~Vrt-VsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~T 99 (198)
++.+...||- -..|++.|+-|-. ..-.+-+.| +..++..+...+.+.|++.+.-.+...++|.+++.|++.
T Consensus 138 ~l~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~g~~D--f~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~ 215 (374)
T TIGR03669 138 TIAADYNFGQLSADWVRVIAKENGAEVVGEEFIPLSVSQ--FSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNL 215 (374)
T ss_pred EEcCCcHHHHHHHHHHHHHHHHcCCeEEeEEecCCCcch--HHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCC
Confidence 4555556653 2466788877642 222233444 334444554778999999998899999999999999974
No 454
>cd02769 MopB_DMSOR-BSOR-TMAOR The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=31.19 E-value=69 Score=30.78 Aligned_cols=73 Identities=12% Similarity=0.097 Sum_probs=47.3
Q ss_pred cCccEEEEEeCCcc--------------hHHHHHHHHhcCCcEEEEccCCCccccchhc-ccccHH-----HHhhchhhh
Q 039912 71 RRIEYLVVVSDDSD--------------FVEVLLEANLRCLKTVVVGDINDGALKRISY-ACFSWW-----DILMGKARK 130 (198)
Q Consensus 71 ~gv~clvLVSDdsd--------------F~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD-~~fsW~-----eV~~Gka~k 130 (198)
.+-+|||++.-+.- ....|..||++|.+-|||-=.- ...++.|| .|++=. -+.+|-+..
T Consensus 169 ~~a~~il~wG~Np~~t~~~~~~~~~~~~~~~~~~~ar~~GaklIvIDPr~-t~tA~~add~~l~irPGTD~ALalam~~~ 247 (609)
T cd02769 169 EHTELVVAFGADPLKNAQIAWGGIPDHQAYSYLKALKDRGIRFISISPLR-DDTAAELGAEWIAIRPGTDVALMLALAHT 247 (609)
T ss_pred hhCCeEEEECCChHHhCcccccccCCcchHHHHHHHHhCCCEEEEEcCCC-CcchhhhcCcEeccCCCcHHHHHHHHHHH
Confidence 46789999987743 2356778999999999997653 56777776 788643 223333332
Q ss_pred hhhhhhccccccccchh
Q 039912 131 EAVSVVGKWKDGDVLKR 147 (198)
Q Consensus 131 ~A~~~~g~W~d~dvlk~ 147 (198)
.- ...|-|.+++++
T Consensus 248 ii---~e~~~D~~Fv~~ 261 (609)
T cd02769 248 LV---TEGLHDKAFLAR 261 (609)
T ss_pred HH---HcCCccHHHHHH
Confidence 22 234666666654
No 455
>TIGR00442 hisS histidyl-tRNA synthetase. This model finds a histidyl-tRNA synthetase in every completed genome. Apparent second copies from Bacillus subtilis, Synechocystis sp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and actually serve as regulatory subunits for an enzyme of histidine biosynthesis. They were excluded from the seed alignment and score much lower than do single copy histidyl-tRNA synthetases of other genomes not included in the seed alignment. These putative second copies of HisS score below the trusted cutoff. The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation; these regulatory proteins are not orthologous and so score below the noise cutoff.
Probab=31.17 E-value=88 Score=27.98 Aligned_cols=35 Identities=17% Similarity=0.058 Sum_probs=26.2
Q ss_pred HHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEE
Q 039912 67 ITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVV 102 (198)
Q Consensus 67 ~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVV 102 (198)
.+.+.|+.|.+.... ......++.|++.|...+|+
T Consensus 344 ~Lr~~gi~v~~~~~~-~~l~k~~~~a~~~g~~~~i~ 378 (397)
T TIGR00442 344 KLRKAGIRVEVDLGG-RKLKKQLKYADKLGARFAVI 378 (397)
T ss_pred HHHhCCCeEEEeCCC-CCHHHHHHHHHHcCCCEEEE
Confidence 556788888765543 45789999999988877665
No 456
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=31.10 E-value=1.5e+02 Score=20.26 Aligned_cols=42 Identities=19% Similarity=0.160 Sum_probs=34.2
Q ss_pred cCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCCCccccc
Q 039912 71 RRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDINDGALKR 112 (198)
Q Consensus 71 ~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R 112 (198)
.+....+.+...+-+..++..|++.+...||+|-...+.+.+
T Consensus 77 ~~~~~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~ 118 (140)
T PF00582_consen 77 GGIVIEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLER 118 (140)
T ss_dssp TTSEEEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTT
T ss_pred ccceeEEEEEeeccchhhhhccccccceeEEEeccCCCCccC
Confidence 466677777888899999999999999999999976444444
No 457
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=31.05 E-value=1.9e+02 Score=20.21 Aligned_cols=58 Identities=12% Similarity=0.120 Sum_probs=38.8
Q ss_pred eEEEecCCCcchHHHHHHHHHH-HHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEE-EEcc
Q 039912 45 LWVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTV-VVGD 104 (198)
Q Consensus 45 v~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TV-VVGd 104 (198)
|.|-.+..+ ...-..+-.++. .+-+.|+.+.+-- .+..+..-++.|...|...+ +||+
T Consensus 2 v~Ii~~~~~-~~~~~~~a~~l~~~L~~~gi~v~~d~-~~~~~~k~~~~a~~~g~p~~iiiG~ 61 (94)
T PF03129_consen 2 VVIIPVGKK-DEEIIEYAQELANKLRKAGIRVELDD-SDKSLGKQIKYADKLGIPFIIIIGE 61 (94)
T ss_dssp EEEEESSCS-HHHHHHHHHHHHHHHHHTTSEEEEES-SSSTHHHHHHHHHHTTESEEEEEEH
T ss_pred EEEEEeCCC-cHHHHHHHHHHHHHHHHCCCEEEEEC-CCCchhHHHHHHhhcCCeEEEEECc
Confidence 445555553 111122233444 6668898887777 78889999999999999875 4565
No 458
>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.
Probab=31.05 E-value=1.6e+02 Score=27.69 Aligned_cols=98 Identities=19% Similarity=0.180 Sum_probs=48.1
Q ss_pred chhHhhhcc-eEEEecCCCcc-hHHHHHHHHHHHHhhcCccEEEEEeCCcchH---HHHHHHHhcCCc-EEEEccCCCcc
Q 039912 36 LIGELKRGG-LWVRTASDKPQ-ATDVLLRNHLVITHKRRIEYLVVVSDDSDFV---EVLLEANLRCLK-TVVVGDINDGA 109 (198)
Q Consensus 36 La~ELrRAG-v~VrtVsdKPq-AAD~ALkrhm~~m~~~gv~clvLVSDdsdF~---~~Lr~Ar~r~l~-TVVVGd~~~~~ 109 (198)
||+-|+.+| .-|+.+.-.-. ..+..+.+++. ..+-+.|.+-+=-+.+- .+++.+|+++=+ +||+|+..-..
T Consensus 28 lAa~L~~~G~~~V~iiD~~~~~~~~~~~~~~l~---~~~pdvVgis~~t~~~~~a~~~~~~~k~~~P~~~iV~GG~h~t~ 104 (497)
T TIGR02026 28 IGGALLDAGYHDVTFLDAMTGPLTDEKLVERLR---AHCPDLVLITAITPAIYIACETLKFARERLPNAIIVLGGIHPTF 104 (497)
T ss_pred HHHHHHhcCCcceEEecccccCCCHHHHHHHHH---hcCcCEEEEecCcccHHHHHHHHHHHHHHCCCCEEEEcCCCcCc
Confidence 466799999 57886532111 22334444443 44566555543334444 455666776323 57777754222
Q ss_pred ccchhcccccH-HHHhhchhhhhhhhhh
Q 039912 110 LKRISYACFSW-WDILMGKARKEAVSVV 136 (198)
Q Consensus 110 L~R~AD~~fsW-~eV~~Gka~k~A~~~~ 136 (198)
+-+.+=.-+|| +-|+.|++-..-++..
T Consensus 105 ~~~~~l~~~p~vD~Vv~GEGE~~~~~Ll 132 (497)
T TIGR02026 105 MFHQVLTEAPWIDFIVRGEGEETVVKLI 132 (497)
T ss_pred CHHHHHhcCCCccEEEeCCcHHHHHHHH
Confidence 22111001233 3456666655444443
No 459
>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]. It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].
Probab=30.91 E-value=83 Score=30.52 Aligned_cols=40 Identities=23% Similarity=0.345 Sum_probs=35.4
Q ss_pred HHhhcCccEEEEEeCCcchHHHHHHHHh-cCCcEEEEccCC
Q 039912 67 ITHKRRIEYLVVVSDDSDFVEVLLEANL-RCLKTVVVGDIN 106 (198)
Q Consensus 67 ~m~~~gv~clvLVSDdsdF~~~Lr~Ar~-r~l~TVVVGd~~ 106 (198)
.+...+|..+|.+|+|..++..|-+|.- +=.+|+..||-+
T Consensus 177 ~Lv~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das 217 (431)
T PF10443_consen 177 SLVQNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDAS 217 (431)
T ss_pred HHHhcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCC
Confidence 3446799999999999999999999986 788999999976
No 460
>PRK12436 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=30.87 E-value=49 Score=29.63 Aligned_cols=35 Identities=17% Similarity=0.246 Sum_probs=32.0
Q ss_pred CccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 72 RIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 72 gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
-.+.++...+-.|+..+++.|++.++..+|+|.++
T Consensus 36 ~a~~vv~p~~~edv~~~l~~a~~~~ip~~v~GgGS 70 (305)
T PRK12436 36 KADVFVAPTNYDEIQEVIKYANKYNIPVTFLGNGS 70 (305)
T ss_pred eEEEEEecCCHHHHHHHHHHHHHcCCCEEEEcCCe
Confidence 36778889999999999999999999999999987
No 461
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=30.86 E-value=92 Score=26.36 Aligned_cols=65 Identities=14% Similarity=0.087 Sum_probs=37.2
Q ss_pred hhhhhhHHHHH-HHHhccCCCCCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHH---HhhcCccEEEEE
Q 039912 12 KYSIKMEKYKR-AARAVLTPEVGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVI---THKRRIEYLVVV 79 (198)
Q Consensus 12 k~~~K~~KY~~-AAr~lltPkvgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~---m~~~gv~clvLV 79 (198)
.++..+.+|.. ....-=+.+..-.|+..|++.||.|.+..|.-... +++.+.. ....+.+|+++|
T Consensus 12 aLII~n~~f~~~~~~r~g~~~D~~~l~~~f~~lgF~V~~~~nlt~~~---~~~~l~~f~~~~~~~~d~~v~~ 80 (243)
T cd00032 12 ALIINNENFDKGLKDRDGTDVDAENLTKLFESLGYEVEVKNNLTAEE---ILEELKEFASPDHSDSDSFVCV 80 (243)
T ss_pred EEEEechhcCCCCCCCCChHHHHHHHHHHHHHCCCEEEEeCCCCHHH---HHHHHHHHHhccCCCCCeeEEE
Confidence 35667777764 10000011225678999999999999888754422 3333332 234677775443
No 462
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=30.84 E-value=1.4e+02 Score=22.91 Aligned_cols=60 Identities=15% Similarity=0.147 Sum_probs=35.6
Q ss_pred CchhHhhh-cceEEEecCCCc--chHHHHHHHHHHHHhhcCccEEEEEeC--C-----cchHHHHHHHHhcCCcE
Q 039912 35 GLIGELKR-GGLWVRTASDKP--QATDVLLRNHLVITHKRRIEYLVVVSD--D-----SDFVEVLLEANLRCLKT 99 (198)
Q Consensus 35 GLa~ELrR-AGv~VrtVsdKP--qAAD~ALkrhm~~m~~~gv~clvLVSD--d-----sdF~~~Lr~Ar~r~l~T 99 (198)
|-+..|++ .|+.|+.| |. .-.+.-+.. .+-+..|+-+|-.++ + .|--.+-|.|-+.++-.
T Consensus 35 gTa~~L~~~~Gi~v~~v--k~~~~~g~~~i~~---~i~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~ 104 (115)
T cd01422 35 TTGLLIQEATGLTVNRM--KSGPLGGDQQIGA---LIAEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPL 104 (115)
T ss_pred hHHHHHHHhhCCcEEEE--ecCCCCchhHHHH---HHHcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCE
Confidence 44778999 99999988 43 333222222 222567777777776 2 23345566666666543
No 463
>TIGR03333 salvage_mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase. Members of this family are the methionine salvage enzyme MnxX, a member of the HAD-superfamily hydrolases, subfamily IB (see TIGR01488). Members are found in Bacillus subtilis and related species, paired with MtnW (TIGR03332). In most species that recycle methionine from methylthioadenosine, the single protein MtnC replaces the MtnW/MtnX pair. In B. subtilis, mtnX was first known as ykrX.
Probab=30.63 E-value=1.7e+02 Score=23.80 Aligned_cols=98 Identities=18% Similarity=0.142 Sum_probs=50.6
Q ss_pred HHHHHHHHhccCCCCC-CCchhHhhhcceEEEecCCCcch-HHHHHHHHHHHHhhcCccEE-EEEeCC---------cc-
Q 039912 18 EKYKRAARAVLTPEVG-NGLIGELKRGGLWVRTASDKPQA-TDVLLRNHLVITHKRRIEYL-VVVSDD---------SD- 84 (198)
Q Consensus 18 ~KY~~AAr~lltPkvg-yGLa~ELrRAGv~VrtVsdKPqA-AD~ALkrhm~~m~~~gv~cl-vLVSDd---------sd- 84 (198)
+.+.+.+++-+.+.-| ..+-..|++.|+.+-.||+++.. ....|+.+.. ...|-|- ..++++ +.
T Consensus 59 ~~~~~~~~~~~~l~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~~~---~~~i~~n~~~~~~~~~~~~~p~~~~~ 135 (214)
T TIGR03333 59 EEITSFVLETAEIREGFREFVAFINEHGIPFYVISGGMDFFVYPLLEGIVE---KDRIYCNEADFSNEYIHIDWPHPCDG 135 (214)
T ss_pred HHHHHHHHhcCcccccHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHhhCC---cccEEeceeEeeCCeeEEeCCCCCcc
Confidence 3555544442333322 24566778889999999999873 3333433211 1122220 122221 11
Q ss_pred ---------hHHHHHHHHhcCCcEEEEccCC-Cccccchhcccc
Q 039912 85 ---------FVEVLLEANLRCLKTVVVGDIN-DGALKRISYACF 118 (198)
Q Consensus 85 ---------F~~~Lr~Ar~r~l~TVVVGd~~-~~~L~R~AD~~f 118 (198)
-..+++.-+...=++++|||+. |-...+.||+.|
T Consensus 136 ~~~~~cg~~K~~~l~~~~~~~~~~i~iGDg~~D~~~a~~Ad~~~ 179 (214)
T TIGR03333 136 TCQNQCGCCKPSLIRKLSEPNDYHIVIGDSVTDVEAAKQSDLCF 179 (214)
T ss_pred ccccCCCCCHHHHHHHHhhcCCcEEEEeCCHHHHHHHHhCCeeE
Confidence 1366665555666789999964 223344455533
No 464
>cd03174 DRE_TIM_metallolyase DRE-TIM metallolyase superfamily. The DRE-TIM metallolyase superfamily includes 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. In addition, the catalytic site includes three invariant residues - an aspartate (D), an arginine (R), and a glutamate (E) - which is the basis for the domain name "DRE-TIM".
Probab=30.60 E-value=2.7e+02 Score=22.84 Aligned_cols=72 Identities=11% Similarity=0.013 Sum_probs=46.5
Q ss_pred CCchhHhhhcceEEEecCCCcc--------------hHHHHHHHHHHHHhhcCccEEEEEeCCcc-------hHHHHHHH
Q 039912 34 NGLIGELKRGGLWVRTASDKPQ--------------ATDVLLRNHLVITHKRRIEYLVVVSDDSD-------FVEVLLEA 92 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPq--------------AAD~ALkrhm~~m~~~gv~clvLVSDdsd-------F~~~Lr~A 92 (198)
-..+..++.+|+-.-.++..+. .-+. ....+....+.|+...+-+++-+. +.++++.+
T Consensus 77 ~~~i~~a~~~g~~~i~i~~~~s~~~~~~~~~~~~~~~~~~-~~~~i~~a~~~G~~v~~~~~~~~~~~~~~~~l~~~~~~~ 155 (265)
T cd03174 77 EKGIERALEAGVDEVRIFDSASETHSRKNLNKSREEDLEN-AEEAIEAAKEAGLEVEGSLEDAFGCKTDPEYVLEVAKAL 155 (265)
T ss_pred hhhHHHHHhCCcCEEEEEEecCHHHHHHHhCCCHHHHHHH-HHHHHHHHHHCCCeEEEEEEeecCCCCCHHHHHHHHHHH
Confidence 4456667777754443343322 2222 333344444778887776655554 78899999
Q ss_pred HhcCCcEEEEccCC
Q 039912 93 NLRCLKTVVVGDIN 106 (198)
Q Consensus 93 r~r~l~TVVVGd~~ 106 (198)
.+.|+.+|.+-|..
T Consensus 156 ~~~g~~~i~l~Dt~ 169 (265)
T cd03174 156 EEAGADEISLKDTV 169 (265)
T ss_pred HHcCCCEEEechhc
Confidence 99999999999975
No 465
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=30.59 E-value=1.8e+02 Score=30.85 Aligned_cols=78 Identities=15% Similarity=0.146 Sum_probs=54.5
Q ss_pred ccCCCCCCCchhHhhhcc-------------eEEEecCCCc---chHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHH
Q 039912 27 VLTPEVGNGLIGELKRGG-------------LWVRTASDKP---QATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLL 90 (198)
Q Consensus 27 lltPkvgyGLa~ELrRAG-------------v~VrtVsdKP---qAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr 90 (198)
+|+---|+.-..-|.|.+ |||.| ++.+ .+....|..+++-.-..|-+-..|.+ +.-=..+++
T Consensus 251 ilvcI~~~~~~e~liR~a~RlA~~~~a~~~av~v~~-~~~~~~~~~~~~~l~~~~~Lae~lGae~~~l~~-~dv~~~i~~ 328 (890)
T COG2205 251 ILVCISGSPGSEKLIRRAARLASRLHAKWTAVYVET-PELHRLSEKEARRLHENLRLAEELGAEIVTLYG-GDVAKAIAR 328 (890)
T ss_pred EEEEECCCCchHHHHHHHHHHHHHhCCCeEEEEEec-cccccccHHHHHHHHHHHHHHHHhCCeEEEEeC-CcHHHHHHH
Confidence 333333666555665554 56666 4433 25667888888866678888777766 555677999
Q ss_pred HHHhcCCcEEEEccCC
Q 039912 91 EANLRCLKTVVVGDIN 106 (198)
Q Consensus 91 ~Ar~r~l~TVVVGd~~ 106 (198)
.||+.++..+|||=..
T Consensus 329 ya~~~~~TkiViG~~~ 344 (890)
T COG2205 329 YAREHNATKIVIGRSR 344 (890)
T ss_pred HHHHcCCeeEEeCCCc
Confidence 9999999999999875
No 466
>TIGR01449 PGP_bact 2-phosphoglycolate phosphatase, prokaryotic. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolase enzymes (pfam00702).
Probab=30.47 E-value=2.7e+02 Score=21.82 Aligned_cols=67 Identities=24% Similarity=0.296 Sum_probs=36.0
Q ss_pred chhHhhhcceEEEecCCCcc-hHHHHHHHHHHHHhhcCccEEEEEeCCc-----chHHHHHHHHhcCC---cEEEEccCC
Q 039912 36 LIGELKRGGLWVRTASDKPQ-ATDVLLRNHLVITHKRRIEYLVVVSDDS-----DFVEVLLEANLRCL---KTVVVGDIN 106 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPq-AAD~ALkrhm~~m~~~gv~clvLVSDds-----dF~~~Lr~Ar~r~l---~TVVVGd~~ 106 (198)
+-..|+..|+.+-.+|..+. .+...|+++ . + ..-.+ .++.|++. +-..+++.+++.|+ ++++|||+.
T Consensus 93 ~L~~l~~~g~~~~i~S~~~~~~~~~~l~~~-~-l-~~~f~-~~~~~~~~~~~Kp~p~~~~~~~~~~~~~~~~~~~igDs~ 168 (213)
T TIGR01449 93 TLGALRAKGLRLGLVTNKPTPLARPLLELL-G-L-AKYFS-VLIGGDSLAQRKPHPDPLLLAAERLGVAPQQMVYVGDSR 168 (213)
T ss_pred HHHHHHHCCCeEEEEeCCCHHHHHHHHHHc-C-c-HhhCc-EEEecCCCCCCCCChHHHHHHHHHcCCChhHeEEeCCCH
Confidence 34578889998888888775 333333321 1 0 01123 23445442 22234444555554 589999964
No 467
>cd08550 GlyDH-like Glycerol_dehydrogenase-like. Families of proteins related to glycerol dehydrogenases. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site. Some subfamilies have not been characterized till now.
Probab=30.46 E-value=1.7e+02 Score=25.99 Aligned_cols=76 Identities=16% Similarity=0.092 Sum_probs=43.3
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHH-HHhhcCccE-EEEEeCCcchH---HHHHHHHhcCCcEEE-EccCCCcc
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLV-ITHKRRIEY-LVVVSDDSDFV---EVLLEANLRCLKTVV-VGDINDGA 109 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~c-lvLVSDdsdF~---~~Lr~Ar~r~l~TVV-VGd~~~~~ 109 (198)
|..+|++-|-.+-.|.|+.... .. ..++. .+...|+.. ++..+.++.+. .+++.+|+.+...|| ||.++-..
T Consensus 14 l~~~~~~~g~~~liv~~~~~~~-~~-~~~v~~~l~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavGGGs~~D 91 (349)
T cd08550 14 IAAILSTFGSKVAVVGGKTVLK-KS-RPRFEAALAKSIIVVDVIVFGGECSTEEVVKALCGAEEQEADVIIGVGGGKTLD 91 (349)
T ss_pred HHHHHHHcCCeEEEEEChHHHH-HH-HHHHHHHHHhcCCeeEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEecCcHHHH
Confidence 4455666554455567755433 23 34444 665667653 23346564544 456677778888877 88876444
Q ss_pred ccch
Q 039912 110 LKRI 113 (198)
Q Consensus 110 L~R~ 113 (198)
.++.
T Consensus 92 ~aK~ 95 (349)
T cd08550 92 TAKA 95 (349)
T ss_pred HHHH
Confidence 4443
No 468
>TIGR00524 eIF-2B_rel eIF-2B alpha/beta/delta-related uncharacterized proteins. This model, eIF-2B_rel, describes half of a superfamily, where the other half consists of eukaryotic translation initiation factor 2B (eIF-2B) subunits alpha, beta, and delta. It is unclear whether the eIF-2B_rel set is monophyletic, or whether they are all more closely related to each other than to any eIF-2B subunit because the eIF-2B clade is highly derived. Members of this branch of the family are all uncharacterized with respect to function and are found in the Archaea, Bacteria, and Eukarya, although a number are described as putative translation intiation factor components. Proteins found by eIF-2B_rel include at least three clades, including a set of uncharacterized eukaryotic proteins, a set found in some but not all Archaea, and a set universal so far among the Archaea and closely related to several uncharacterized bacterial proteins.
Probab=30.36 E-value=99 Score=27.90 Aligned_cols=62 Identities=18% Similarity=0.185 Sum_probs=37.6
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEE----------EeCCcchHHHHHHHHhcCCcEEEEccC
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVV----------VSDDSDFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvL----------VSDdsdF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
+|.+|..+|+-|..++| .|+-..|. ...|+.+++ |--...=..+--.|+..|+..+|+-..
T Consensus 170 ~a~~L~~~gI~vtlI~D------sa~~~~m~---~~~vd~VlvGAd~v~~nG~v~nk~GT~~lA~~Ak~~~vPv~V~a~s 240 (303)
T TIGR00524 170 TAWELMQDGIDVTLITD------SMAAYFMQ---KGEIDAVIVGADRIARNGDVANKIGTYQLAVLAKEFRIPFFVAAPL 240 (303)
T ss_pred HHHHHHHCCCCEEEECh------hHHHHHcc---ccCCCEEEEcccEEecCCCEeEhhhHHHHHHHHHHhCCCEEEeccc
Confidence 57777777777777666 33333222 235555544 222222334566788899999998876
Q ss_pred C
Q 039912 106 N 106 (198)
Q Consensus 106 ~ 106 (198)
.
T Consensus 241 ~ 241 (303)
T TIGR00524 241 S 241 (303)
T ss_pred c
Confidence 4
No 469
>TIGR00418 thrS threonyl-tRNA synthetase. This model represents the threonyl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. Note that B. subtilis has closely related isozymes thrS and thrZ. The N-terminal regions are quite dissimilar between archaeal and eubacterial forms, while some eukaryotic forms are missing sequence there altogether..
Probab=30.28 E-value=63 Score=30.51 Aligned_cols=37 Identities=24% Similarity=0.215 Sum_probs=22.5
Q ss_pred HHhhcCccEEEEEeCCcchHHHHHHHHhcCCc-EEEEcc
Q 039912 67 ITHKRRIEYLVVVSDDSDFVEVLLEANLRCLK-TVVVGD 104 (198)
Q Consensus 67 ~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~-TVVVGd 104 (198)
.+-+.|+.+.+-.++. .+..-++.|.+.|.. .|+||+
T Consensus 492 ~LR~~Gi~v~~d~~~~-sl~~q~k~A~~~g~~~~iiiG~ 529 (563)
T TIGR00418 492 KLKKAGIRVDVDDRNE-RLGKKIREAQKQKIPYMLVVGD 529 (563)
T ss_pred HHHHcCCEEEEECCCC-CHHHHHHHHHhcCCCEEEEEch
Confidence 3445677666544443 477777777777776 445564
No 470
>cd00851 MTH1175 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=30.22 E-value=72 Score=22.56 Aligned_cols=38 Identities=13% Similarity=0.319 Sum_probs=26.9
Q ss_pred HHhccCCCCCCCchhHhhhcceEEEecCCCcchHHHHHHH
Q 039912 24 ARAVLTPEVGNGLIGELKRGGLWVRTASDKPQATDVLLRN 63 (198)
Q Consensus 24 Ar~lltPkvgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkr 63 (198)
+.-|++...|.+....|+.+|+.|-+... .-.+.+|++
T Consensus 64 v~~vi~~~iG~~~~~~l~~~gI~v~~~~~--~~i~~vl~~ 101 (103)
T cd00851 64 VDVVIVGGIGPRALNKLRNAGIKVYKGAE--GTVEEAIEA 101 (103)
T ss_pred CCEEEeCCCCcCHHHHHHHCCCEEEEcCC--CCHHHHHHh
Confidence 34577888888899999999998876554 334445543
No 471
>PRK05854 short chain dehydrogenase; Provisional
Probab=30.10 E-value=1.6e+02 Score=25.25 Aligned_cols=61 Identities=15% Similarity=0.090 Sum_probs=41.7
Q ss_pred CCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh
Q 039912 32 VGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL 94 (198)
Q Consensus 32 vgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~ 94 (198)
+|+.+|.+|.+.|..|-.+...++.++.++ ..+... ..+....++..|=+++..+-+.+.+
T Consensus 26 IG~~~a~~La~~G~~Vil~~R~~~~~~~~~-~~l~~~-~~~~~v~~~~~Dl~d~~sv~~~~~~ 86 (313)
T PRK05854 26 LGLGLARRLAAAGAEVILPVRNRAKGEAAV-AAIRTA-VPDAKLSLRALDLSSLASVAALGEQ 86 (313)
T ss_pred HHHHHHHHHHHCCCEEEEEeCCHHHHHHHH-HHHHHh-CCCCceEEEEecCCCHHHHHHHHHH
Confidence 377889999999999987766665554443 333322 2244556677888898888777765
No 472
>TIGR01686 FkbH FkbH-like domain. The C-terminal portion of this domain is unique to this family (by BLAST).
Probab=30.03 E-value=1.4e+02 Score=26.20 Aligned_cols=68 Identities=13% Similarity=0.052 Sum_probs=41.1
Q ss_pred chhHhhhcceEEEecCCCcch-HHHHHHHHHHHHhhcCcc--EEE-EEeCCcchHHHHHHHHhcCC---cEEEEccCC
Q 039912 36 LIGELKRGGLWVRTASDKPQA-TDVLLRNHLVITHKRRIE--YLV-VVSDDSDFVEVLLEANLRCL---KTVVVGDIN 106 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqA-AD~ALkrhm~~m~~~gv~--clv-LVSDdsdF~~~Lr~Ar~r~l---~TVVVGd~~ 106 (198)
+-.+|++.|+..=.+|.+|.. +...|++|=. | .++. ..+ -.+-.+.-..+++.+++-|+ .+|.|||..
T Consensus 39 ~L~~L~~~Gi~lai~S~n~~~~a~~~l~~~~~-~--~~~~~~f~~~~~~~~pk~~~i~~~~~~l~i~~~~~vfidD~~ 113 (320)
T TIGR01686 39 KIKTLKKQGFLLALASKNDEDDAKKVFERRKD-F--ILQAEDFDARSINWGPKSESLRKIAKKLNLGTDSFLFIDDNP 113 (320)
T ss_pred HHHHHHhCCCEEEEEcCCCHHHHHHHHHhCcc-c--cCcHHHeeEEEEecCchHHHHHHHHHHhCCCcCcEEEECCCH
Confidence 345788899999999999874 4444544322 2 1222 111 23334555666666677665 578899953
No 473
>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=29.94 E-value=2.7e+02 Score=21.65 Aligned_cols=22 Identities=9% Similarity=0.037 Sum_probs=18.8
Q ss_pred EEEEeCCcchHHHHHHHHhcCC
Q 039912 76 LVVVSDDSDFVEVLLEANLRCL 97 (198)
Q Consensus 76 lvLVSDdsdF~~~Lr~Ar~r~l 97 (198)
.|++++|.....+++.++++|+
T Consensus 184 ~i~~~~d~~a~~~~~~l~~~g~ 205 (267)
T cd01536 184 AIFAANDSMALGAVAALKAAGR 205 (267)
T ss_pred EEEEecCCchHHHHHHHHhcCC
Confidence 6777777888899999999997
No 474
>COG2084 MmsB 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]
Probab=29.86 E-value=82 Score=28.59 Aligned_cols=71 Identities=17% Similarity=0.198 Sum_probs=47.2
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHHHHHHH-------HHHHhhcCccE-EEEEeCCcchHHHHH----HHHhcCCcEE
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDVLLRNH-------LVITHKRRIEY-LVVVSDDSDFVEVLL----EANLRCLKTV 100 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrh-------m~~m~~~gv~c-lvLVSDdsdF~~~Lr----~Ar~r~l~TV 100 (198)
|+++|.-|.+||+.|..-...|.++-..++.+ .... -.+.|+ |..|+|+..-..++. .+.-..-+++
T Consensus 12 G~pmA~~L~~aG~~v~v~~r~~~ka~~~~~~~Ga~~a~s~~ea-a~~aDvVitmv~~~~~V~~V~~g~~g~~~~~~~G~i 90 (286)
T COG2084 12 GSPMAANLLKAGHEVTVYNRTPEKAAELLAAAGATVAASPAEA-AAEADVVITMLPDDAAVRAVLFGENGLLEGLKPGAI 90 (286)
T ss_pred hHHHHHHHHHCCCEEEEEeCChhhhhHHHHHcCCcccCCHHHH-HHhCCEEEEecCCHHHHHHHHhCccchhhcCCCCCE
Confidence 78899999999999998788888754444431 1112 346677 556888888777775 3333344667
Q ss_pred EEcc
Q 039912 101 VVGD 104 (198)
Q Consensus 101 VVGd 104 (198)
||==
T Consensus 91 ~IDm 94 (286)
T COG2084 91 VIDM 94 (286)
T ss_pred EEEC
Confidence 6643
No 475
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=29.79 E-value=1.4e+02 Score=22.00 Aligned_cols=61 Identities=8% Similarity=0.009 Sum_probs=37.8
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcc----hHHHHHHHHhcCCcEE
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSD----FVEVLLEANLRCLKTV 100 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsd----F~~~Lr~Ar~r~l~TV 100 (198)
-+..|+..|+.|+.|..-+. .+..+..++. +..|+.+|-+++..+ --.+.|.|-+.|+--+
T Consensus 35 T~~~l~~~gi~~~~v~~~~~-~~~~i~~~i~---~~~id~vIn~~~~~~~~~~~~~iRR~Av~~~ipl~ 99 (110)
T cd01424 35 TAKYLQEAGIPVEVVNKVSE-GRPNIVDLIK---NGEIQLVINTPSGKRAIRDGFSIRRAALEYKVPYF 99 (110)
T ss_pred HHHHHHHcCCeEEEEeecCC-CchhHHHHHH---cCCeEEEEECCCCCccCccHHHHHHHHHHhCCCEE
Confidence 36679999999776644332 2233444333 678888877766532 2367777777776543
No 476
>TIGR01670 YrbI-phosphatas 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase, YrbI family. The Methanosarcina sequence is distinctive in that it is linked to an N-terminal cytidylyltransferase domain (pfam02348) and is annotated as acylneuraminate cytidylyltransferase. This may give some clue as the function of these phosphatases. Several eukaryotic sequences scoring between trusted and noise are also closely related to this function such as the CMP-N-acetylneuraminic acid synthetase from mouse, but in these cases the phosphatase domain is clearly inactive as many of the active site residues are not conserved.
Probab=29.78 E-value=2.7e+02 Score=21.73 Aligned_cols=63 Identities=14% Similarity=0.048 Sum_probs=39.2
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh-cCC---cEEEEccCC
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL-RCL---KTVVVGDIN 106 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~-r~l---~TVVVGd~~ 106 (198)
...+|+..|+.+-.+|.+|... +.. .+...|+..++--. ..=.+++..+.+ -|+ +++.|||+.
T Consensus 36 ~i~~Lk~~G~~i~IvTn~~~~~---~~~---~l~~~gi~~~~~~~--~~k~~~~~~~~~~~~~~~~~~~~vGDs~ 102 (154)
T TIGR01670 36 GIRCALKSGIEVAIITGRKAKL---VED---RCKTLGITHLYQGQ--SNKLIAFSDILEKLALAPENVAYIGDDL 102 (154)
T ss_pred HHHHHHHCCCEEEEEECCCCHH---HHH---HHHHcCCCEEEecc--cchHHHHHHHHHHcCCCHHHEEEECCCH
Confidence 4789999999999999999742 122 22245676544322 223555555543 343 589999964
No 477
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=29.67 E-value=1.3e+02 Score=26.68 Aligned_cols=71 Identities=11% Similarity=0.084 Sum_probs=40.9
Q ss_pred ccCCCCCCC--chh----HhhhcceEEEecCCCcch------HHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh
Q 039912 27 VLTPEVGNG--LIG----ELKRGGLWVRTASDKPQA------TDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL 94 (198)
Q Consensus 27 lltPkvgyG--La~----ELrRAGv~VrtVsdKPqA------AD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~ 94 (198)
++.+...|| ++. .|++.|+-|-....-|.- .+.-+.+.+..+ +....-+|+++...+-..+|+.|++
T Consensus 141 ii~~~~~~g~~~~~~~~~~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~v~~~~~~~~~~~l~qa~~ 219 (404)
T cd06370 141 VVYENDSKYSSVFETLKEEAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRT-KETTRIYVFIGEANELRQFLMSMLD 219 (404)
T ss_pred EEEecCcccHHHHHHHHHHHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhc-cCCCEEEEEEcCHHHHHHHHHHHHH
Confidence 444445554 333 555778777533322221 123444444444 3344556666655678899999999
Q ss_pred cCCc
Q 039912 95 RCLK 98 (198)
Q Consensus 95 r~l~ 98 (198)
.|+.
T Consensus 220 ~g~~ 223 (404)
T cd06370 220 EGLL 223 (404)
T ss_pred cCCC
Confidence 9997
No 478
>PRK00075 cbiD cobalt-precorrin-6A synthase; Reviewed
Probab=29.62 E-value=1.1e+02 Score=28.70 Aligned_cols=55 Identities=18% Similarity=0.294 Sum_probs=36.3
Q ss_pred HHHHHHHH----HHhhcCccEEEEEeCC--------------------cchH-HHHHHHHhcCCcEEEEccCCCccccch
Q 039912 59 VLLRNHLV----ITHKRRIEYLVVVSDD--------------------SDFV-EVLLEANLRCLKTVVVGDINDGALKRI 113 (198)
Q Consensus 59 ~ALkrhm~----~m~~~gv~clvLVSDd--------------------sdF~-~~Lr~Ar~r~l~TVVVGd~~~~~L~R~ 113 (198)
.|++.++. +....|.+.|||+.-. +||. .+|+.|.+++++.|++...- ++|-+.
T Consensus 183 ~a~~~si~~~l~va~a~g~~~vvl~~G~~ge~~a~~~~~l~~~~~V~~gnfiG~~L~~A~~~g~~~i~l~G~~-GKl~Kl 261 (361)
T PRK00075 183 EAYLASIKQELDVARANGLDHVVLVTGNNGEDYARKLLGLPEDAIIKMGNFVGPMLKAAARLGVKKVLLVGHP-GKLIKL 261 (361)
T ss_pred HHHHHHHHHHHHHHHHcCCCeEEEccChHHHHHHHHhcCCChhhEEEeehhHHHHHHHHHHcCCCEEEEEeeH-HHHHHH
Confidence 35555444 2224577777776543 2343 78999999999999998875 566555
Q ss_pred h
Q 039912 114 S 114 (198)
Q Consensus 114 A 114 (198)
|
T Consensus 262 A 262 (361)
T PRK00075 262 A 262 (361)
T ss_pred h
Confidence 4
No 479
>cd00763 Bacterial_PFK Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent phosphofructokinases. These are allosrterically regulated homotetramers; the subunits are of about 320 amino acids.
Probab=29.58 E-value=2.1e+02 Score=26.04 Aligned_cols=66 Identities=17% Similarity=0.209 Sum_probs=46.5
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEE
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVV 102 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVV 102 (198)
+..-+.+.|-...|-..+|--.+.-+++-...+.+.+|++|+.+--|.-|....++++. ++..|.|
T Consensus 56 v~~~~~~gGt~LgtsR~~~~~~~~~~~~~~~~l~~~~Id~Li~IGGdgs~~~a~~L~e~-~i~vigi 121 (317)
T cd00763 56 VSDIINRGGTFLGSARFPEFKDEEGQAKAIEQLKKHGIDALVVIGGDGSYMGAMRLTEH-GFPCVGL 121 (317)
T ss_pred hhhHHhCCCeeeccCCCCccCCHHHHHHHHHHHHHcCCCEEEEECCchHHHHHHHHHHc-CCCEEEe
Confidence 33346778888887444343333344444447779999999999999999999999886 5665544
No 480
>PRK07666 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=29.43 E-value=1.6e+02 Score=23.34 Aligned_cols=67 Identities=13% Similarity=0.223 Sum_probs=40.8
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHH---h--cCCcEEEEc
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEAN---L--RCLKTVVVG 103 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar---~--r~l~TVVVG 103 (198)
|-.|+..|...|..|..+...|+..+.. ...+ ...+....++..|-++...+....+ + .++..||..
T Consensus 20 G~~l~~~L~~~G~~Vi~~~r~~~~~~~~-~~~~---~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~id~vi~~ 91 (239)
T PRK07666 20 GRAVAIALAKEGVNVGLLARTEENLKAV-AEEV---EAYGVKVVIATADVSDYEEVTAAIEQLKNELGSIDILINN 91 (239)
T ss_pred HHHHHHHHHHCCCEEEEEeCCHHHHHHH-HHHH---HHhCCeEEEEECCCCCHHHHHHHHHHHHHHcCCccEEEEc
Confidence 5567888888999999877666654332 2222 2345556666677666655544433 2 367766654
No 481
>PRK12420 histidyl-tRNA synthetase; Provisional
Probab=29.42 E-value=2.3e+02 Score=26.02 Aligned_cols=71 Identities=13% Similarity=0.158 Sum_probs=44.8
Q ss_pred cCCCCCCCchhH-----hhhcc-------eEEEecCCCcchHHHHHHHHHHHHhh-cCccEEEEEeCCcchHHHHHHHHh
Q 039912 28 LTPEVGNGLIGE-----LKRGG-------LWVRTASDKPQATDVLLRNHLVITHK-RRIEYLVVVSDDSDFVEVLLEANL 94 (198)
Q Consensus 28 ltPkvgyGLa~E-----LrRAG-------v~VrtVsdKPqAAD~ALkrhm~~m~~-~gv~clvLVSDdsdF~~~Lr~Ar~ 94 (198)
-+|++|+.+.-+ |...+ |.|-.+.+.+ .|++ ....+.+ .|+.+-+-.++ ..+...++.|++
T Consensus 312 ~~pAvGfa~~~~~l~~~l~~~~~~~~~~dvlI~~~~~~~----~a~~-ia~~Lr~~~Gi~ve~~~~~-~~l~~~i~~A~~ 385 (423)
T PRK12420 312 NYPTVGISFGLDVIYTALSQKETISSTADVFIIPLGTEL----QCLQ-IAQQLRSTTGLKVELELAG-RKLKKALNYANK 385 (423)
T ss_pred CCCceeEEEcHHHHHHHHHhcCCCCCCceEEEEEcCCHH----HHHH-HHHHHHhhcCCeEEEecCC-cCHHHHHHHHHH
Confidence 369999988744 22212 4454544332 2332 2334556 89999776664 577999999999
Q ss_pred cCCc-EEEEcc
Q 039912 95 RCLK-TVVVGD 104 (198)
Q Consensus 95 r~l~-TVVVGd 104 (198)
.+.. .|+||+
T Consensus 386 ~g~~~iviig~ 396 (423)
T PRK12420 386 ENIPYVLIIGE 396 (423)
T ss_pred cCCCEEEEECh
Confidence 8874 566787
No 482
>PRK12429 3-hydroxybutyrate dehydrogenase; Provisional
Probab=29.38 E-value=1.8e+02 Score=23.05 Aligned_cols=58 Identities=19% Similarity=0.091 Sum_probs=39.1
Q ss_pred CCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHH
Q 039912 32 VGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEAN 93 (198)
Q Consensus 32 vgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar 93 (198)
+|..++..|.+.|..|..+...|...+. +...+. +.+....++..|-++...+-....
T Consensus 16 iG~~la~~l~~~g~~v~~~~r~~~~~~~-~~~~~~---~~~~~~~~~~~Dl~~~~~~~~~~~ 73 (258)
T PRK12429 16 IGLEIALALAKEGAKVVIADLNDEAAAA-AAEALQ---KAGGKAIGVAMDVTDEEAINAGID 73 (258)
T ss_pred HHHHHHHHHHHCCCeEEEEeCCHHHHHH-HHHHHH---hcCCcEEEEEcCCCCHHHHHHHHH
Confidence 4678889999999999887766665543 333232 356667777888887776655444
No 483
>TIGR01467 cobI_cbiL precorrin-2 C20-methyltransferase. This model represents precorrin-2 C20-methyltransferase, one of several closely related S-adenosylmethionine-dependent methyltransferases involved in cobalamin (vitamin B12) biosynthesis.
Probab=29.35 E-value=1.7e+02 Score=24.30 Aligned_cols=52 Identities=13% Similarity=0.041 Sum_probs=39.9
Q ss_pred hcCccEEEEEeCCcch----HHHHHHHHhcCCcEEEEccCCCccccchhcccccHHH
Q 039912 70 KRRIEYLVVVSDDSDF----VEVLLEANLRCLKTVVVGDINDGALKRISYACFSWWD 122 (198)
Q Consensus 70 ~~gv~clvLVSDdsdF----~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD~~fsW~e 122 (198)
..|-...+|+|-|+-| ..+++.+.+.++..-||-..+ ....=.|-+.+||.+
T Consensus 88 ~~g~~Vv~l~~GDP~~y~~~~~l~~~~~~~~~~veviPGiS-s~~~a~a~~g~~l~~ 143 (230)
T TIGR01467 88 EEGRDVAFLTLGDPSLYSTFSYLLQRLQGMGIEVEVVPGIT-SFAACASAAGLPLVE 143 (230)
T ss_pred HCCCcEEEEeCCCCCcccCHHHHHHHHHHCCCcEEEeCChh-HHHHHHHHhCCCccc
Confidence 5677899999999977 456666767788888887766 566667778888775
No 484
>cd08170 GlyDH Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway . In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=29.24 E-value=2.5e+02 Score=24.82 Aligned_cols=77 Identities=14% Similarity=-0.012 Sum_probs=43.9
Q ss_pred chhHhhhcceEEEecCCCcchHHHHHHHHHH-HHhhcCccEE-EEEeCCcchH---HHHHHHHhcCCcEE-EEccCCCcc
Q 039912 36 LIGELKRGGLWVRTASDKPQATDVLLRNHLV-ITHKRRIEYL-VVVSDDSDFV---EVLLEANLRCLKTV-VVGDINDGA 109 (198)
Q Consensus 36 La~ELrRAGv~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~cl-vLVSDdsdF~---~~Lr~Ar~r~l~TV-VVGd~~~~~ 109 (198)
|..+|++.|=.+-.|.|+-... .+...+. .+...|++.. ..+.-++... .+++.+|+.+...| -||.++-..
T Consensus 14 l~~~~~~~~~r~livt~~~~~~--~~~~~v~~~L~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS~iD 91 (351)
T cd08170 14 LGEYLARLGKRALIIADEFVLD--LVGAKIEESLAAAGIDARFEVFGGECTRAEIERLAEIARDNGADVVIGIGGGKTLD 91 (351)
T ss_pred HHHHHHHhCCeEEEEECHHHHH--HHHHHHHHHHHhCCCeEEEEEeCCcCCHHHHHHHHHHHhhcCCCEEEEecCchhhH
Confidence 3445565554555666755544 3444444 6767788763 3466666665 45556666666654 477776544
Q ss_pred ccchh
Q 039912 110 LKRIS 114 (198)
Q Consensus 110 L~R~A 114 (198)
.++.+
T Consensus 92 ~aK~i 96 (351)
T cd08170 92 TAKAV 96 (351)
T ss_pred HHHHH
Confidence 44443
No 485
>PRK12823 benD 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional
Probab=29.22 E-value=1.7e+02 Score=23.54 Aligned_cols=65 Identities=12% Similarity=0.123 Sum_probs=38.7
Q ss_pred CCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh-----cCCcEEE
Q 039912 32 VGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL-----RCLKTVV 101 (198)
Q Consensus 32 vgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~-----r~l~TVV 101 (198)
+|..+|..|.+.|..|-.+...+. .+ .+..++ ...|.+..++..|=++...+-+...+ -++..+|
T Consensus 20 IG~~la~~l~~~G~~v~~~~r~~~-~~-~~~~~~---~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~id~lv 89 (260)
T PRK12823 20 IGRGVALRAAAEGARVVLVDRSEL-VH-EVAAEL---RAAGGEALALTADLETYAGAQAAMAAAVEAFGRIDVLI 89 (260)
T ss_pred HHHHHHHHHHHCCCEEEEEeCchH-HH-HHHHHH---HhcCCeEEEEEEeCCCHHHHHHHHHHHHHHcCCCeEEE
Confidence 367789999999999876544332 21 233322 24466666777777776655444443 2455554
No 486
>PRK05876 short chain dehydrogenase; Provisional
Probab=29.22 E-value=1.8e+02 Score=24.38 Aligned_cols=59 Identities=22% Similarity=0.105 Sum_probs=37.5
Q ss_pred CCCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh
Q 039912 32 VGNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL 94 (198)
Q Consensus 32 vgyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~ 94 (198)
+|..+|..|.+.|..|-.+...+...+. +...+. ..|....++.+|=++...+.+...+
T Consensus 18 IG~ala~~La~~G~~Vv~~~r~~~~l~~-~~~~l~---~~~~~~~~~~~Dv~d~~~v~~~~~~ 76 (275)
T PRK05876 18 IGLATGTEFARRGARVVLGDVDKPGLRQ-AVNHLR---AEGFDVHGVMCDVRHREEVTHLADE 76 (275)
T ss_pred HHHHHHHHHHHCCCEEEEEeCCHHHHHH-HHHHHH---hcCCeEEEEeCCCCCHHHHHHHHHH
Confidence 4778899999999998765444433332 223222 4466666677787777777665554
No 487
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=29.18 E-value=2.4e+02 Score=20.98 Aligned_cols=47 Identities=15% Similarity=0.079 Sum_probs=29.9
Q ss_pred HHHHHHHHHHhhcCccEEEEEeCCc--------------chHHHHHHHHhcCCcEEEEccC
Q 039912 59 VLLRNHLVITHKRRIEYLVVVSDDS--------------DFVEVLLEANLRCLKTVVVGDI 105 (198)
Q Consensus 59 ~ALkrhm~~m~~~gv~clvLVSDds--------------dF~~~Lr~Ar~r~l~TVVVGd~ 105 (198)
..+.++|..-.+.|..-+..++|+. ++.++...+++.++++|+|=..
T Consensus 90 ~~~~~~l~~~~~~g~~vvg~~d~~~~~~~~~~~~~~~lg~~~~l~~~~~~~~id~v~ial~ 150 (175)
T PF13727_consen 90 RELAEALRSNPRLGYRVVGFVDDDPSDRGPEIDGVPVLGDLDDLPELVREHDIDEVIIALP 150 (175)
T ss_dssp HHHHHHHHH--SSSEEEEEEE-S-GGGTT-EETTEEEE--GGGHHHHHHHHT--EEEE--T
T ss_pred HHHHHHHHhhhhcCceEEEEEeCchhhccCcccCceeEcCHHHHHHHHHhCCCCEEEEEcC
Confidence 3555666655567888888888877 3578899999999999998754
No 488
>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=29.01 E-value=65 Score=22.16 Aligned_cols=43 Identities=23% Similarity=0.113 Sum_probs=26.9
Q ss_pred CCCchhHhhhcceEEEecCCCcc---hHHHHHHHHHH-HHhhcCccE
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQ---ATDVLLRNHLV-ITHKRRIEY 75 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPq---AAD~ALkrhm~-~m~~~gv~c 75 (198)
|-.+|..|++.|..|..+...|. ..|.-+...+. .|.++||+=
T Consensus 11 g~E~A~~l~~~g~~vtli~~~~~~~~~~~~~~~~~~~~~l~~~gV~v 57 (80)
T PF00070_consen 11 GIELAEALAELGKEVTLIERSDRLLPGFDPDAAKILEEYLRKRGVEV 57 (80)
T ss_dssp HHHHHHHHHHTTSEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEE
T ss_pred HHHHHHHHHHhCcEEEEEeccchhhhhcCHHHHHHHHHHHHHCCCEE
Confidence 34578899999988876655554 23444444444 555777764
No 489
>cd04643 CBS_pair_30 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=28.97 E-value=1.1e+02 Score=20.93 Aligned_cols=31 Identities=19% Similarity=0.184 Sum_probs=21.8
Q ss_pred EEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 76 LVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 76 lvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
++.|+.+....++++..++.+++.++|-|.+
T Consensus 3 ~~~v~~~~~~~~~~~~~~~~~~~~~~V~d~~ 33 (116)
T cd04643 3 VAYVQDTNTLRHALLVLTKHGYSAIPVLDKE 33 (116)
T ss_pred cEEECCCCcHHHHHHHHHHCCCceeeeECCC
Confidence 3456666677778877777777777776654
No 490
>cd06556 ICL_KPHMT Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate lyase (ICL), 2-methylisocitrate lyase (MICL), and ketopantoate hydroxymethyltransferase (KPHMT).
Probab=28.92 E-value=3.2e+02 Score=23.94 Aligned_cols=48 Identities=10% Similarity=0.030 Sum_probs=34.6
Q ss_pred hHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 56 ATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 56 AAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
..+.+++|.. .+.+.|.+||++-+- +-..+.+.+++-.+-++.+|-++
T Consensus 154 ~~~~ai~Ra~-ay~~AGAd~i~~e~~--~~e~~~~i~~~~~~P~~~~gag~ 201 (240)
T cd06556 154 AGEQLIADAL-AYAPAGADLIVMECV--PVELAKQITEALAIPLAGIGAGS 201 (240)
T ss_pred HHHHHHHHHH-HHHHcCCCEEEEcCC--CHHHHHHHHHhCCCCEEEEecCc
Confidence 4566777643 455889999999765 56666677777788888877653
No 491
>cd08190 HOT Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism. Hydroxyacid-oxoacid transhydrogenase (HOT), also known as D-2-hydroxyglutarate transhydrogenase. It catalyzes the conversion of gamma-hydroxybutyrate (GHB) to succinic semialdehyde (SSA), coupled to the stoichiometric conversion of alpha-ketoglutarate to D-2-hydroxyglutarate in gamma-Hydroxybutyrate catabolism. Unlike many other alcohols, which are oxidized by NAD-linked dehydrogenases, gamma-hydroxybutyrate is metabolized to succinate semialdehyde by hydroxyacid-oxoacid transhydrogenase which does not require free NAD or NADP, but instead using alpha -ketoglutarate as an acceptor, converting it to d-2-hydroxyglutarate. Alpha-ketoglutarate serves as an intermediate acceptor to regenerate NAD(P) required for the oxidation of GHB. HOT also catalyzes the reversible oxidation of a hydroxyacid obligatorily coupled to the reduction of an oxoacid, and requires no cofactor. In mammals, the HOT
Probab=28.91 E-value=1.5e+02 Score=27.27 Aligned_cols=71 Identities=17% Similarity=0.078 Sum_probs=38.8
Q ss_pred chhHhhhcce-EEEecCCCcchHHHHHHHHHH-HHhhcCccEEEE--EeCCcchH---HHHHHHHhcCCcEEE-EccCCC
Q 039912 36 LIGELKRGGL-WVRTASDKPQATDVLLRNHLV-ITHKRRIEYLVV--VSDDSDFV---EVLLEANLRCLKTVV-VGDIND 107 (198)
Q Consensus 36 La~ELrRAGv-~VrtVsdKPqAAD~ALkrhm~-~m~~~gv~clvL--VSDdsdF~---~~Lr~Ar~r~l~TVV-VGd~~~ 107 (198)
|..+|++-|. .|-.|.|+- .....+-.++. .+.+.|+++.+. |.-++.+. .+++.+|+.+...|| ||.++-
T Consensus 14 l~~~l~~~g~~~vlivt~~~-~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGSv 92 (414)
T cd08190 14 VGMDLKNLGARRVCLVTDPN-LAQLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAVGGGSV 92 (414)
T ss_pred HHHHHHHcCCCeEEEEECcc-hhhcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccH
Confidence 3456666663 344555532 22233333344 565788988664 33355444 556677777776543 666653
No 492
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=28.78 E-value=1.1e+02 Score=25.67 Aligned_cols=72 Identities=18% Similarity=0.061 Sum_probs=42.2
Q ss_pred CCchhHhhhcceEEEecCCCcchHHHHHHHHHH-HHh--------hcCccEEEEEeCCc-chHHHHHHHHhcCCcEEEEc
Q 039912 34 NGLIGELKRGGLWVRTASDKPQATDVLLRNHLV-ITH--------KRRIEYLVVVSDDS-DFVEVLLEANLRCLKTVVVG 103 (198)
Q Consensus 34 yGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~-~m~--------~~gv~clvLVSDds-dF~~~Lr~Ar~r~l~TVVVG 103 (198)
+.-+.-|.++|-.|..|+.++...=..|..+-. ..+ -.+.+-++.-++|+ --..+...|+++|+-.-+++
T Consensus 22 ~rk~~~Ll~~ga~VtVvsp~~~~~l~~l~~~~~i~~~~~~~~~~dl~~~~lVi~at~d~~ln~~i~~~a~~~~ilvn~~d 101 (205)
T TIGR01470 22 LRKARLLLKAGAQLRVIAEELESELTLLAEQGGITWLARCFDADILEGAFLVIAATDDEELNRRVAHAARARGVPVNVVD 101 (205)
T ss_pred HHHHHHHHHCCCEEEEEcCCCCHHHHHHHHcCCEEEEeCCCCHHHhCCcEEEEECCCCHHHHHHHHHHHHHcCCEEEECC
Confidence 334566778888888888776532222222100 000 12334455555666 55678889999888776677
Q ss_pred cC
Q 039912 104 DI 105 (198)
Q Consensus 104 d~ 105 (198)
+.
T Consensus 102 ~~ 103 (205)
T TIGR01470 102 DP 103 (205)
T ss_pred Cc
Confidence 64
No 493
>TIGR02128 G6PI_arch bifunctional phosphoglucose/phosphomannose isomerase. This bifunctional isomerase is a member of the larger PGI superfamily and only distantly related to other glucose-6-phosphate isomerases. The family is limited to the archaea.
Probab=28.77 E-value=76 Score=28.45 Aligned_cols=41 Identities=20% Similarity=0.269 Sum_probs=29.1
Q ss_pred CccEEEEEeCC---cchHHHHHHHHhcCCcEEEEccCCCccccchh
Q 039912 72 RIEYLVVVSDD---SDFVEVLLEANLRCLKTVVVGDINDGALKRIS 114 (198)
Q Consensus 72 gv~clvLVSDd---sdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~A 114 (198)
.-+.++.+|.+ .+-...++.|+++|.++|+|.+. +.|.+.|
T Consensus 66 ~~dlvI~iS~SG~t~e~~~a~~~A~~~g~~ii~iT~~--g~L~~~a 109 (308)
T TIGR02128 66 GKTLLIAVSYSGNTEETLSAVEEAKKKGAKVIAITSG--GRLEEMA 109 (308)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHcCCEEEEECCC--cHHHHHH
Confidence 34567777755 35556678888899998888863 4577766
No 494
>TIGR00262 trpA tryptophan synthase, alpha subunit. Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.
Probab=28.71 E-value=2.1e+02 Score=24.98 Aligned_cols=55 Identities=15% Similarity=0.075 Sum_probs=36.5
Q ss_pred hhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchHHHHHHHHh
Q 039912 37 IGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFVEVLLEANL 94 (198)
Q Consensus 37 a~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~~~Lr~Ar~ 94 (198)
..+++.+|+.--++.|-|-- -....+..+.+.|++.++||+..+....+-..++.
T Consensus 108 ~~~~~~aGvdgviipDlp~e---e~~~~~~~~~~~gl~~i~lv~P~T~~eri~~i~~~ 162 (256)
T TIGR00262 108 YAKCKEVGVDGVLVADLPLE---ESGDLVEAAKKHGVKPIFLVAPNADDERLKQIAEK 162 (256)
T ss_pred HHHHHHcCCCEEEECCCChH---HHHHHHHHHHHCCCcEEEEECCCCCHHHHHHHHHh
Confidence 44888888888888887751 12333334456788888888888877665555554
No 495
>TIGR01656 Histidinol-ppas histidinol-phosphate phosphatase family domain. This domain is a member of the haloacid-dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. This superfamily is distinguished by the presence of three motifs: an N-terminal motif containing the nucleophilic aspartate, a central motif containing an conserved serine or threonine, and a C-terminal motif containing a conserved lysine (or arginine) and conserved aspartates. More specifically, the domian modelled here is a member of subfamily III of the HAD-superfamily by virtue of lacking a "capping" domain in either of the two common positions, between motifs 1 and 2, or between motifs 2 and 3.
Probab=28.71 E-value=2.7e+02 Score=21.33 Aligned_cols=71 Identities=17% Similarity=0.246 Sum_probs=40.7
Q ss_pred CchhHhhhcceEEEecCCCcch-----HHHHHH---HHHH-HHhhcCccEE--EEE----eCC----cchHHHHHHH-Hh
Q 039912 35 GLIGELKRGGLWVRTASDKPQA-----TDVLLR---NHLV-ITHKRRIEYL--VVV----SDD----SDFVEVLLEA-NL 94 (198)
Q Consensus 35 GLa~ELrRAGv~VrtVsdKPqA-----AD~ALk---rhm~-~m~~~gv~cl--vLV----SDd----sdF~~~Lr~A-r~ 94 (198)
.+-..|++.|+.+-.+|.+|.. .-.+++ .++. .+...|+... +.. |++ .--.+++..+ ++
T Consensus 34 ~~l~~Lk~~g~~~~I~Sn~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~KP~~~~~~~~~~~ 113 (147)
T TIGR01656 34 PALLTLRAAGYTVVVVTNQSGIGRGYFSAEAFRAPNGRVLELLRQLGVAVDGVLFCPHHPADNCSCRKPKPGLILEALKR 113 (147)
T ss_pred HHHHHHHHCCCEEEEEeCCCcccCCcCCHHHHHHHHHHHHHHHHhCCCceeEEEECCCCCCCCCCCCCCCHHHHHHHHHH
Confidence 4678899999999999998842 011222 2222 3446677632 221 232 1223444444 44
Q ss_pred cCCc---EEEEccC
Q 039912 95 RCLK---TVVVGDI 105 (198)
Q Consensus 95 r~l~---TVVVGd~ 105 (198)
-++. +++|||.
T Consensus 114 ~~~~~~e~i~IGDs 127 (147)
T TIGR01656 114 LGVDASRSLVVGDR 127 (147)
T ss_pred cCCChHHEEEEcCC
Confidence 5544 8999996
No 496
>PRK05613 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=28.65 E-value=1.7e+02 Score=27.33 Aligned_cols=70 Identities=16% Similarity=0.070 Sum_probs=44.3
Q ss_pred hccCCCCCCCch-----hHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCC------cchHHHHHHHHh
Q 039912 26 AVLTPEVGNGLI-----GELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDD------SDFVEVLLEANL 94 (198)
Q Consensus 26 ~lltPkvgyGLa-----~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDd------sdF~~~Lr~Ar~ 94 (198)
+|++|..-||=. ..|.|.|+-|..+.+ |.-. .+|++.+ ..+...|++.+=- .|...+-+.|++
T Consensus 110 ~VI~~~~~y~~t~~~~~~~l~~~Gi~v~~vd~-~~d~-e~l~~~l----~~~tk~V~~e~~~Np~~~v~di~~I~~la~~ 183 (437)
T PRK05613 110 HIVTSPRLYGGTETLFLVTLNRLGIEVTFVEN-PDDP-ESWQAAV----QPNTKAFFGETFANPQADVLDIPAVAEVAHR 183 (437)
T ss_pred EEEECCCccHHHHHHHHHHHHhcCeEEEEECC-CCCH-HHHHHhC----CccCeEEEEECCCCCCCcccCHHHHHHHHHH
Confidence 467777777743 457899999999873 3211 2344322 3345555543322 478899999999
Q ss_pred cCCcEEE
Q 039912 95 RCLKTVV 101 (198)
Q Consensus 95 r~l~TVV 101 (198)
+|+-+||
T Consensus 184 ~gi~liv 190 (437)
T PRK05613 184 NQVPLIV 190 (437)
T ss_pred cCCeEEE
Confidence 9977655
No 497
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=28.51 E-value=81 Score=29.14 Aligned_cols=66 Identities=21% Similarity=0.245 Sum_probs=41.4
Q ss_pred CCCchhHhhhcceEEEecCCCcchHHHHHHHHHHHHhhcCccEEEEEeCCcchH-----------HHHHHHHhcCCcEEE
Q 039912 33 GNGLIGELKRGGLWVRTASDKPQATDVLLRNHLVITHKRRIEYLVVVSDDSDFV-----------EVLLEANLRCLKTVV 101 (198)
Q Consensus 33 gyGLa~ELrRAGv~VrtVsdKPqAAD~ALkrhm~~m~~~gv~clvLVSDdsdF~-----------~~Lr~Ar~r~l~TVV 101 (198)
|.-+|.+|+.+|+-|-.+.| +..+|.+ ..+++ |+|--|+-++ .+.-.||+.++.++|
T Consensus 159 G~~~ak~L~~~gI~~~~I~D-------sa~~~~~----~~vd~-VivGad~I~~nG~lvnkiGT~~lA~~A~e~~~Pf~v 226 (301)
T COG1184 159 GRIMAKELRQSGIPVTVIVD-------SAVGAFM----SRVDK-VLVGADAILANGALVNKIGTSPLALAARELRVPFYV 226 (301)
T ss_pred HHHHHHHHHHcCCceEEEec-------hHHHHHH----HhCCE-EEECccceecCCcEEeccchHHHHHHHHHhCCCEEE
Confidence 66677777777777777766 3333333 13343 3344444443 467789999999999
Q ss_pred EccCCCccccc
Q 039912 102 VGDINDGALKR 112 (198)
Q Consensus 102 VGd~~~~~L~R 112 (198)
+...- ++..
T Consensus 227 ~aesy--Kf~p 235 (301)
T COG1184 227 VAESY--KFVP 235 (301)
T ss_pred Eeeee--cccc
Confidence 98863 4444
No 498
>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications. While the biological role of many of these modifications is unknown, some have been shown to be necessary for cell growth or for resistance to antibiotics [, ]. One of the most common modifications is 2'O-ribose methylation catalysed by the RNA 2'O-ribose methyltransferases, a large enzyme family that transfer a methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the backbone ribose []. This entry represents a substrate-binding domain found in a variety of bacterial and mitochondrial RNA 2'-O ribose methyltransferases. These include the bacterial enzyme RlmB, which specifically methylates the conserved nucleotide guanosine 2251 in 23S RNA, and PET56, which specifically methylates the equivalent guanosine in mitochondrial 21S RNA [, ]. This domain forms a four-stranded mixed beta sheet similar to that found in other RNA binding enzymes []. It shows considerable conformational flexibility which is thought to be important for its ability to bind RNA.; GO: 0008168 methyltransferase activity; PDB: 1GZ0_D 1IPA_A.
Probab=28.45 E-value=1.9e+02 Score=19.48 Aligned_cols=40 Identities=25% Similarity=0.300 Sum_probs=28.0
Q ss_pred ccEEEEEeC--CcchHHHHHHHHhcCCcEEEEccCCCccccchhc
Q 039912 73 IEYLVVVSD--DSDFVEVLLEANLRCLKTVVVGDINDGALKRISY 115 (198)
Q Consensus 73 v~clvLVSD--dsdF~~~Lr~Ar~r~l~TVVVGd~~~~~L~R~AD 115 (198)
|..|++-.+ +..+.+++..|+++|++...|.+. .|.+.++
T Consensus 18 i~~l~~~~~~~~~~~~~i~~~~~~~~i~v~~v~~~---~l~~ls~ 59 (76)
T PF08032_consen 18 IKKLFVTEEKADKRIKEILKLAKKKGIPVYEVSKK---VLDKLSD 59 (76)
T ss_dssp EEEEEEETT---CCTHHHHHHHHHCT-EEEEE-HH---HHHHCTT
T ss_pred ccEEEEEcCccchhHHHHHHHHHHcCCeEEEeCHH---HHHHHcC
Confidence 777766655 466899999999999999988764 3555544
No 499
>PRK13905 murB UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=28.44 E-value=58 Score=28.69 Aligned_cols=34 Identities=26% Similarity=0.310 Sum_probs=29.9
Q ss_pred ccEEEEEeCCcchHHHHHHHHhcCCcEEEEccCC
Q 039912 73 IEYLVVVSDDSDFVEVLLEANLRCLKTVVVGDIN 106 (198)
Q Consensus 73 v~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd~~ 106 (198)
.++++...+-.|+..+++.|++.++..+++|.++
T Consensus 31 a~~vv~P~s~edv~~~v~~a~~~~~p~~v~GgGs 64 (298)
T PRK13905 31 ADYLVEPADIEDLQEFLKLLKENNIPVTVLGNGS 64 (298)
T ss_pred EeEEEeCCCHHHHHHHHHHHHHcCCCEEEEeCCc
Confidence 4567778899999999999999999999999876
No 500
>cd06344 PBP1_ABC_ligand_binding_like_9 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. 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=28.35 E-value=1.4e+02 Score=25.21 Aligned_cols=35 Identities=17% Similarity=0.188 Sum_probs=28.2
Q ss_pred hcCccEEEEEeCCcchHHHHHHHHhcCCcEEEEcc
Q 039912 70 KRRIEYLVVVSDDSDFVEVLLEANLRCLKTVVVGD 104 (198)
Q Consensus 70 ~~gv~clvLVSDdsdF~~~Lr~Ar~r~l~TVVVGd 104 (198)
..+.+-|++...-.++..+++.+++++.+.-++|-
T Consensus 189 ~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~i~~~ 223 (332)
T cd06344 189 NNGATVLVLFPDTDTLDKALEVAKANKGRLTLLGG 223 (332)
T ss_pred hcCCCEEEEeCChhHHHHHHHHHHhcCCCceEEec
Confidence 56888888888877899999999998877666653
Done!