Query 016960
Match_columns 380
No_of_seqs 107 out of 1043
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 04:22:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016960.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016960hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02821 1-hydroxy-2-methyl-2- 100.0 3E-119 7E-124 910.0 39.0 379 1-379 81-460 (460)
2 PRK13371 4-hydroxy-3-methylbut 100.0 6E-113 1E-117 854.1 38.3 368 1-374 14-381 (387)
3 PRK12360 4-hydroxy-3-methylbut 100.0 2E-100 5E-105 740.1 32.7 280 25-371 1-281 (281)
4 TIGR00216 ispH_lytB (E)-4-hydr 100.0 8E-100 2E-104 735.8 31.9 278 26-371 1-280 (280)
5 PRK01045 ispH 4-hydroxy-3-meth 100.0 1.7E-99 4E-104 739.2 33.3 282 25-374 1-285 (298)
6 PF02401 LYTB: LytB protein; 100.0 4E-100 9E-105 738.9 23.8 279 27-371 1-281 (281)
7 COG0761 lytB 4-Hydroxy-3-methy 100.0 6.1E-99 1E-103 724.1 31.7 283 24-372 1-285 (294)
8 PRK00087 4-hydroxy-3-methylbut 100.0 3.7E-91 8E-96 741.3 32.9 277 25-371 1-278 (647)
9 PF02401 LYTB: LytB protein; 96.4 0.061 1.3E-06 53.2 13.2 173 35-242 93-280 (281)
10 PRK01045 ispH 4-hydroxy-3-meth 94.0 0.54 1.2E-05 47.0 11.0 170 35-242 95-281 (298)
11 TIGR00216 ispH_lytB (E)-4-hydr 91.8 1.4 3.1E-05 43.7 10.2 170 35-242 95-279 (280)
12 PRK12360 4-hydroxy-3-methylbut 91.3 2.2 4.7E-05 42.4 10.9 170 35-242 98-280 (281)
13 cd01537 PBP1_Repressors_Sugar_ 89.7 3 6.6E-05 37.5 9.7 90 219-318 1-90 (264)
14 COG1587 HemD Uroporphyrinogen- 87.9 6.1 0.00013 37.7 10.9 152 5-183 12-193 (248)
15 PRK00087 4-hydroxy-3-methylbut 86.3 4.9 0.00011 44.1 10.3 167 126-371 11-179 (647)
16 PRK13371 4-hydroxy-3-methylbut 85.8 8.3 0.00018 40.1 11.1 111 119-243 263-378 (387)
17 PF02602 HEM4: Uroporphyrinoge 85.0 9.8 0.00021 35.0 10.4 133 7-146 1-170 (231)
18 PF02571 CbiJ: Precorrin-6x re 84.9 4 8.6E-05 39.7 7.9 107 68-180 13-124 (249)
19 PRK08057 cobalt-precorrin-6x r 83.2 5.3 0.00012 38.8 8.0 116 58-180 5-123 (248)
20 PRK04175 rpl7ae 50S ribosomal 80.3 6.9 0.00015 34.1 6.9 74 280-372 45-121 (122)
21 PF13407 Peripla_BP_4: Peripla 79.3 15 0.00032 33.8 9.3 88 220-316 1-89 (257)
22 cd06308 PBP1_sensor_kinase_lik 78.8 46 0.001 30.7 12.5 89 220-316 2-90 (270)
23 TIGR03590 PseG pseudaminic aci 78.5 67 0.0015 31.1 19.4 42 39-83 17-58 (279)
24 PRK05752 uroporphyrinogen-III 77.9 54 0.0012 31.2 12.9 121 4-129 13-168 (255)
25 TIGR03677 rpl7ae 50S ribosomal 77.8 9.9 0.00021 32.8 7.1 74 279-371 40-116 (117)
26 PF00532 Peripla_BP_1: Peripla 77.5 49 0.0011 31.9 12.6 138 219-370 3-144 (279)
27 PRK13600 putative ribosomal pr 77.2 3.5 7.6E-05 34.0 3.9 48 274-321 22-69 (84)
28 cd01391 Periplasmic_Binding_Pr 76.4 20 0.00043 31.5 8.9 93 220-319 2-94 (269)
29 COG1023 Gnd Predicted 6-phosph 75.9 30 0.00065 34.4 10.4 108 40-154 10-122 (300)
30 KOG0238 3-Methylcrotonyl-CoA c 75.8 20 0.00043 38.9 9.9 153 4-182 8-178 (670)
31 PRK10014 DNA-binding transcrip 75.5 59 0.0013 31.3 12.6 127 218-356 65-193 (342)
32 cd06310 PBP1_ABC_sugar_binding 74.4 25 0.00054 32.4 9.3 90 219-316 1-91 (273)
33 PLN02821 1-hydroxy-2-methyl-2- 74.2 44 0.00096 35.6 11.9 111 118-242 336-451 (460)
34 cd04509 PBP1_ABC_transporter_G 73.6 27 0.00059 31.8 9.3 60 256-318 42-102 (299)
35 cd06320 PBP1_allose_binding Pe 73.2 25 0.00053 32.6 9.0 89 220-316 2-91 (275)
36 cd06342 PBP1_ABC_LIVBP_like Ty 73.2 22 0.00047 34.0 8.9 59 255-316 41-99 (334)
37 cd06281 PBP1_LacI_like_5 Ligan 73.0 67 0.0014 29.6 11.9 123 220-355 2-126 (269)
38 cd08191 HHD 6-hydroxyhexanoate 72.8 19 0.00042 36.7 8.9 79 218-306 23-104 (386)
39 PRK05928 hemD uroporphyrinogen 72.6 35 0.00077 31.3 9.9 116 3-123 10-152 (249)
40 PF03446 NAD_binding_2: NAD bi 72.5 19 0.00042 31.9 7.8 97 41-148 12-116 (163)
41 TIGR00109 hemH ferrochelatase. 72.4 36 0.00077 34.2 10.5 88 36-143 132-223 (322)
42 cd01536 PBP1_ABC_sugar_binding 71.5 42 0.00092 30.3 10.0 90 220-318 2-91 (267)
43 cd06319 PBP1_ABC_sugar_binding 71.2 39 0.00085 31.1 9.9 88 220-316 2-89 (277)
44 cd06273 PBP1_GntR_like_1 This 70.3 87 0.0019 28.6 13.2 86 220-317 2-88 (268)
45 PF14542 Acetyltransf_CG: GCN5 69.7 5.1 0.00011 32.0 3.1 34 102-136 34-71 (78)
46 COG2099 CobK Precorrin-6x redu 69.1 21 0.00046 35.2 7.7 116 57-180 4-123 (257)
47 PRK11070 ssDNA exonuclease Rec 69.0 29 0.00062 37.9 9.5 107 37-157 53-164 (575)
48 PRK09453 phosphodiesterase; Pr 68.9 43 0.00092 30.1 9.3 44 41-84 14-71 (182)
49 cd06331 PBP1_AmiC_like Type I 68.0 23 0.0005 34.3 7.9 56 255-312 41-96 (333)
50 COG3340 PepE Peptidase E [Amin 67.8 3.7 7.9E-05 39.6 2.2 97 218-355 33-129 (224)
51 cd06286 PBP1_CcpB_like Ligand- 67.8 89 0.0019 28.5 11.4 113 228-354 9-123 (260)
52 cd06349 PBP1_ABC_ligand_bindin 67.5 8.8 0.00019 37.2 4.9 56 255-312 41-96 (340)
53 PF06414 Zeta_toxin: Zeta toxi 66.9 11 0.00023 34.6 5.1 43 109-151 83-126 (199)
54 TIGR00715 precor6x_red precorr 66.6 21 0.00045 34.9 7.2 104 68-180 13-121 (256)
55 PF02896 PEP-utilizers_C: PEP- 66.3 10 0.00022 37.9 5.1 51 32-83 226-276 (293)
56 cd06312 PBP1_ABC_sugar_binding 65.8 44 0.00095 31.0 9.0 91 219-316 1-91 (271)
57 PF10087 DUF2325: Uncharacteri 64.8 19 0.00041 29.4 5.7 51 264-315 30-83 (97)
58 cd02958 UAS UAS family; UAS is 64.3 71 0.0015 26.4 9.2 83 259-369 24-112 (114)
59 PRK05282 (alpha)-aspartyl dipe 63.6 16 0.00034 35.3 5.7 70 218-307 32-101 (233)
60 cd06301 PBP1_rhizopine_binding 63.5 52 0.0011 30.2 9.0 88 220-316 2-90 (272)
61 PRK09189 uroporphyrinogen-III 63.4 37 0.00079 31.9 8.1 121 4-129 10-156 (240)
62 COG1358 RPL8A Ribosomal protei 62.7 23 0.0005 30.8 6.0 47 275-321 37-84 (116)
63 PRK06718 precorrin-2 dehydroge 62.4 25 0.00054 32.9 6.6 74 281-375 70-147 (202)
64 PRK14072 6-phosphofructokinase 62.4 11 0.00024 39.3 4.8 47 267-313 89-138 (416)
65 cd06306 PBP1_TorT-like TorT-li 62.0 99 0.0021 28.8 10.7 87 220-315 2-89 (268)
66 cd06344 PBP1_ABC_ligand_bindin 61.7 13 0.00027 36.1 4.7 114 255-370 40-161 (332)
67 PF02254 TrkA_N: TrkA-N domain 60.8 15 0.00034 30.0 4.5 72 100-179 2-76 (116)
68 cd06335 PBP1_ABC_ligand_bindin 60.4 14 0.0003 36.2 4.8 56 255-312 41-96 (347)
69 TIGR02069 cyanophycinase cyano 60.3 17 0.00037 35.3 5.3 53 272-355 75-127 (250)
70 COG1609 PurR Transcriptional r 60.3 1.5E+02 0.0032 29.5 12.2 137 218-368 59-198 (333)
71 cd06318 PBP1_ABC_sugar_binding 58.7 83 0.0018 29.1 9.5 87 220-316 2-89 (282)
72 PRK10444 UMP phosphatase; Prov 58.6 88 0.0019 30.0 9.9 30 49-82 76-105 (248)
73 cd06268 PBP1_ABC_transporter_L 58.5 64 0.0014 29.3 8.6 60 256-318 42-101 (298)
74 cd06356 PBP1_Amide_Urea_BP_lik 58.1 12 0.00025 36.6 3.8 56 255-312 41-96 (334)
75 PRK05562 precorrin-2 dehydroge 58.0 36 0.00079 32.7 7.0 72 281-372 85-160 (223)
76 TIGR03190 benz_CoA_bzdN benzoy 57.9 27 0.00059 35.7 6.6 107 34-151 201-321 (377)
77 KOG2882 p-Nitrophenyl phosphat 57.8 48 0.001 33.6 8.0 27 54-84 105-131 (306)
78 cd06299 PBP1_LacI_like_13 Liga 57.5 1.5E+02 0.0033 27.0 11.6 128 220-360 2-131 (265)
79 TIGR03127 RuMP_HxlB 6-phospho 57.4 84 0.0018 28.0 9.0 23 94-116 70-93 (179)
80 cd00861 ProRS_anticodon_short 56.9 16 0.00036 28.7 3.9 52 99-153 4-64 (94)
81 cd06354 PBP1_BmpA_PnrA_like Pe 56.0 1.8E+02 0.0038 27.2 12.6 116 228-356 12-132 (265)
82 PRK00414 gmhA phosphoheptose i 55.1 81 0.0017 29.2 8.7 86 261-370 93-180 (192)
83 cd06323 PBP1_ribose_binding Pe 55.1 96 0.0021 28.2 9.2 81 228-317 9-90 (268)
84 cd06338 PBP1_ABC_ligand_bindin 54.9 22 0.00048 34.3 5.1 61 255-317 45-105 (345)
85 cd06367 PBP1_iGluR_NMDA N-term 54.7 38 0.00083 33.3 6.9 59 253-313 35-96 (362)
86 cd01413 SIR2_Af2 SIR2_Af2: Arc 54.6 28 0.0006 33.0 5.6 43 273-316 164-207 (222)
87 COG0761 lytB 4-Hydroxy-3-methy 54.6 83 0.0018 31.7 9.0 117 219-373 68-185 (294)
88 cd08551 Fe-ADH iron-containing 53.8 64 0.0014 32.5 8.4 77 218-304 24-103 (370)
89 cd06267 PBP1_LacI_sugar_bindin 53.7 1E+02 0.0022 27.6 8.9 122 220-356 2-127 (264)
90 cd06328 PBP1_SBP_like_2 Peripl 53.5 20 0.00044 34.9 4.6 113 256-370 43-162 (333)
91 cd06345 PBP1_ABC_ligand_bindin 53.5 21 0.00046 34.7 4.8 62 256-319 42-104 (344)
92 cd06343 PBP1_ABC_ligand_bindin 53.0 66 0.0014 31.4 8.2 114 255-370 48-170 (362)
93 COG0276 HemH Protoheme ferro-l 52.4 80 0.0017 32.2 8.7 91 32-142 126-218 (320)
94 TIGR01481 ccpA catabolite cont 52.3 1.7E+02 0.0038 27.9 10.9 125 218-355 60-186 (329)
95 smart00852 MoCF_biosynth Proba 52.1 15 0.00032 31.6 3.1 66 292-369 16-83 (135)
96 TIGR01470 cysG_Nterm siroheme 51.6 59 0.0013 30.5 7.3 75 281-375 69-147 (205)
97 PRK06555 pyrophosphate--fructo 51.4 25 0.00054 36.8 5.1 45 269-313 100-147 (403)
98 cd06346 PBP1_ABC_ligand_bindin 51.4 16 0.00035 35.1 3.5 57 255-313 41-98 (312)
99 PRK10653 D-ribose transporter 51.4 1.6E+02 0.0035 27.8 10.4 89 218-316 27-116 (295)
100 cd06311 PBP1_ABC_sugar_binding 51.0 1.2E+02 0.0026 28.0 9.2 92 220-316 2-94 (274)
101 cd06353 PBP1_BmpA_Med_like Per 50.9 1.1E+02 0.0024 29.2 9.2 87 266-358 42-133 (258)
102 TIGR02634 xylF D-xylose ABC tr 50.6 89 0.0019 30.0 8.5 85 224-317 4-89 (302)
103 cd05006 SIS_GmhA Phosphoheptos 50.4 1.2E+02 0.0026 27.1 8.8 76 38-116 18-122 (177)
104 cd06339 PBP1_YraM_LppC_lipopro 50.2 55 0.0012 32.1 7.2 96 255-355 35-134 (336)
105 COG0041 PurE Phosphoribosylcar 50.0 48 0.001 30.6 6.1 31 100-152 35-65 (162)
106 PRK06683 hypothetical protein; 50.0 23 0.0005 28.8 3.7 45 277-321 23-67 (82)
107 cd03146 GAT1_Peptidase_E Type 49.9 32 0.00069 32.2 5.2 71 218-307 32-102 (212)
108 PRK10423 transcriptional repre 49.8 2.4E+02 0.0051 26.9 12.0 88 218-316 57-145 (327)
109 cd01080 NAD_bind_m-THF_DH_Cycl 49.2 27 0.00059 31.9 4.5 87 43-132 32-122 (168)
110 cd08188 Fe-ADH4 Iron-containin 49.1 74 0.0016 32.4 8.1 78 218-305 29-109 (377)
111 cd06276 PBP1_FucR_like Ligand- 49.1 1.1E+02 0.0023 28.5 8.6 82 270-355 41-127 (247)
112 cd06292 PBP1_LacI_like_10 Liga 48.9 2.1E+02 0.0047 26.2 12.0 81 228-316 9-92 (273)
113 cd06355 PBP1_FmdD_like Peripla 48.8 20 0.00044 35.2 3.9 53 256-310 42-94 (348)
114 cd06382 PBP1_iGluR_Kainate N-t 48.7 17 0.00038 35.0 3.3 52 259-313 41-93 (327)
115 cd06298 PBP1_CcpA_like Ligand- 48.6 2.1E+02 0.0046 26.0 12.2 123 220-356 2-127 (268)
116 TIGR02417 fruct_sucro_rep D-fr 48.3 2.5E+02 0.0055 26.8 13.6 126 218-356 61-189 (327)
117 cd06282 PBP1_GntR_like_2 Ligan 48.3 1.5E+02 0.0033 26.8 9.4 78 229-316 10-88 (266)
118 PRK09860 putative alcohol dehy 48.2 83 0.0018 32.2 8.3 79 218-306 32-113 (383)
119 PRK00035 hemH ferrochelatase; 47.7 2E+02 0.0044 28.6 10.8 84 42-142 139-223 (333)
120 PRK10838 spr outer membrane li 47.6 41 0.00089 31.6 5.5 73 4-104 65-139 (190)
121 PLN02251 pyrophosphate-depende 47.6 32 0.0007 37.6 5.4 53 267-319 176-229 (568)
122 cd06309 PBP1_YtfQ_like Peripla 47.4 1.1E+02 0.0023 28.3 8.3 80 228-316 9-89 (273)
123 cd06315 PBP1_ABC_sugar_binding 47.2 1.4E+02 0.003 28.0 9.1 88 219-316 2-90 (280)
124 COG2861 Uncharacterized protei 47.2 38 0.00083 33.3 5.3 70 70-159 143-220 (250)
125 PRK13602 putative ribosomal pr 47.2 29 0.00062 28.1 3.8 46 274-320 20-66 (82)
126 TIGR02477 PFKA_PPi diphosphate 47.2 30 0.00065 37.5 5.1 44 267-310 147-191 (539)
127 PF00389 2-Hacid_dh: D-isomer 47.1 35 0.00076 29.0 4.6 83 58-147 1-86 (133)
128 TIGR01452 PGP_euk phosphoglyco 46.5 2.6E+02 0.0057 26.9 11.1 27 54-84 84-110 (279)
129 PRK08811 uroporphyrinogen-III 46.4 1.8E+02 0.004 28.2 10.0 118 6-128 30-175 (266)
130 cd06329 PBP1_SBP_like_3 Peripl 46.4 17 0.00037 35.4 2.9 113 255-370 41-169 (342)
131 PRK14138 NAD-dependent deacety 45.9 40 0.00086 32.5 5.3 58 255-315 155-213 (244)
132 PF00762 Ferrochelatase: Ferro 45.6 73 0.0016 32.0 7.3 112 7-143 103-219 (316)
133 cd06296 PBP1_CatR_like Ligand- 45.6 2.4E+02 0.0052 25.7 11.3 85 220-316 2-87 (270)
134 cd01575 PBP1_GntR Ligand-bindi 45.6 2.3E+02 0.0051 25.6 11.9 85 220-316 2-87 (268)
135 PRK15408 autoinducer 2-binding 45.5 3.2E+02 0.007 27.2 13.4 128 218-357 24-160 (336)
136 cd07766 DHQ_Fe-ADH Dehydroquin 45.0 1E+02 0.0023 30.3 8.2 88 218-316 24-113 (332)
137 PF01726 LexA_DNA_bind: LexA D 45.0 24 0.00052 27.4 2.9 38 102-146 19-56 (65)
138 cd01574 PBP1_LacI Ligand-bindi 44.9 1.7E+02 0.0038 26.5 9.2 88 220-318 2-90 (264)
139 cd06340 PBP1_ABC_ligand_bindin 44.8 37 0.0008 33.2 5.0 58 256-315 45-102 (347)
140 PLN03028 pyrophosphate--fructo 44.6 36 0.00078 37.5 5.2 45 269-313 161-208 (610)
141 PF00994 MoCF_biosynth: Probab 44.6 13 0.00028 32.4 1.5 70 284-368 1-81 (144)
142 TIGR02263 benz_CoA_red_C benzo 44.4 70 0.0015 32.8 7.1 120 12-144 184-324 (380)
143 TIGR01768 GGGP-family geranylg 44.3 1.6E+02 0.0036 28.4 9.1 77 273-371 19-100 (223)
144 PLN02884 6-phosphofructokinase 44.3 31 0.00068 36.1 4.6 45 269-313 131-178 (411)
145 cd01979 Pchlide_reductase_N Pc 43.9 3.7E+02 0.008 27.5 12.3 105 24-129 118-233 (396)
146 cd06304 PBP1_BmpA_like Peripla 43.9 1.9E+02 0.0041 26.8 9.4 87 219-317 1-90 (260)
147 PRK10355 xylF D-xylose transpo 43.9 1.8E+02 0.004 28.5 9.8 89 218-316 26-115 (330)
148 COG1038 PycA Pyruvate carboxyl 43.8 66 0.0014 37.0 7.1 100 61-182 88-188 (1149)
149 cd01409 SIRT4 SIRT4: Eukaryoti 43.6 43 0.00093 32.7 5.1 59 255-316 181-240 (260)
150 cd06337 PBP1_ABC_ligand_bindin 43.6 36 0.00078 33.6 4.7 56 256-313 44-99 (357)
151 cd01540 PBP1_arabinose_binding 43.5 1.6E+02 0.0034 27.4 8.8 86 220-316 2-88 (289)
152 cd06363 PBP1_Taste_receptor Li 43.5 26 0.00057 35.4 3.8 33 282-314 106-138 (410)
153 TIGR03669 urea_ABC_arch urea A 43.3 27 0.00059 35.2 3.9 55 255-311 42-96 (374)
154 cd06348 PBP1_ABC_ligand_bindin 43.2 37 0.00081 32.9 4.7 56 256-313 42-97 (344)
155 cd01538 PBP1_ABC_xylose_bindin 43.2 2.5E+02 0.0055 26.4 10.3 87 220-316 2-89 (288)
156 cd01410 SIRT7 SIRT7: Eukaryoti 43.1 56 0.0012 30.7 5.7 59 255-316 132-191 (206)
157 PF15498 Dendrin: Nephrin and 43.1 5.1 0.00011 42.4 -1.4 33 99-131 378-410 (657)
158 cd06270 PBP1_GalS_like Ligand 42.9 2.7E+02 0.0058 25.5 11.8 77 229-316 10-87 (268)
159 COG1494 GlpX Fructose-1,6-bisp 42.9 15 0.00033 36.9 1.9 42 67-112 248-289 (332)
160 TIGR00441 gmhA phosphoheptose 42.7 1.8E+02 0.004 25.6 8.7 39 280-318 78-117 (154)
161 cd05006 SIS_GmhA Phosphoheptos 42.7 1.8E+02 0.0039 25.9 8.7 68 280-369 100-168 (177)
162 cd06327 PBP1_SBP_like_1 Peripl 42.3 38 0.00082 32.8 4.6 63 256-320 41-104 (334)
163 PTZ00409 Sir2 (Silent Informat 42.1 51 0.0011 32.5 5.4 59 255-316 176-235 (271)
164 cd06302 PBP1_LsrB_Quorum_Sensi 41.5 2.2E+02 0.0047 27.1 9.6 88 220-316 2-90 (298)
165 cd06321 PBP1_ABC_sugar_binding 41.4 1.7E+02 0.0037 26.8 8.7 126 220-356 2-132 (271)
166 PRK13601 putative L7Ae-like ri 41.3 37 0.00079 27.7 3.6 45 277-321 20-64 (82)
167 cd06330 PBP1_Arsenic_SBP_like 41.2 48 0.001 32.1 5.1 59 256-316 42-100 (346)
168 PRK10886 DnaA initiator-associ 40.9 61 0.0013 30.4 5.5 47 269-318 100-147 (196)
169 cd00765 Pyrophosphate_PFK Phos 40.5 45 0.00097 36.4 5.1 52 268-319 153-205 (550)
170 cd06314 PBP1_tmGBP Periplasmic 40.5 2E+02 0.0043 26.5 9.0 86 220-316 2-88 (271)
171 cd06366 PBP1_GABAb_receptor Li 40.3 47 0.001 32.3 4.9 58 255-314 40-97 (350)
172 cd07394 MPP_Vps29 Homo sapiens 40.3 2.1E+02 0.0046 25.9 8.9 85 56-161 31-123 (178)
173 cd06272 PBP1_hexuronate_repres 40.2 2.9E+02 0.0063 25.2 10.9 83 220-317 2-84 (261)
174 PRK09190 hypothetical protein; 40.0 85 0.0018 30.2 6.4 86 226-321 81-173 (220)
175 PTZ00287 6-phosphofructokinase 39.9 44 0.00094 40.2 5.2 54 267-320 914-968 (1419)
176 cd06322 PBP1_ABC_sugar_binding 39.9 2.2E+02 0.0047 26.0 9.1 81 227-316 8-89 (267)
177 cd06578 HemD Uroporphyrinogen- 39.6 1.7E+02 0.0036 26.5 8.1 66 55-125 78-151 (239)
178 TIGR02638 lactal_redase lactal 39.6 1.2E+02 0.0026 30.8 7.9 78 218-305 30-110 (379)
179 PF03575 Peptidase_S51: Peptid 39.5 14 0.00031 32.6 1.0 41 261-307 17-57 (154)
180 cd06372 PBP1_GC_G_like Ligand- 39.4 41 0.00089 33.5 4.4 63 256-320 43-106 (391)
181 cd06357 PBP1_AmiC Periplasmic 39.3 37 0.00081 33.6 4.1 54 256-311 42-95 (360)
182 cd08176 LPO Lactadehyde:propan 39.2 1E+02 0.0023 31.2 7.4 77 218-304 29-108 (377)
183 PRK10877 protein disulfide iso 39.1 32 0.00069 32.9 3.4 31 122-152 114-144 (232)
184 PRK06975 bifunctional uroporph 39.0 1.6E+02 0.0034 32.7 9.2 140 5-149 14-198 (656)
185 PRK07085 diphosphate--fructose 39.0 48 0.001 36.1 5.1 46 268-313 151-199 (555)
186 cd06336 PBP1_ABC_ligand_bindin 39.0 43 0.00094 32.7 4.5 98 256-357 46-149 (347)
187 cd06303 PBP1_LuxPQ_Quorum_Sens 39.0 1.8E+02 0.0039 27.2 8.5 86 220-313 2-90 (280)
188 TIGR02764 spore_ybaN_pdaB poly 38.8 97 0.0021 27.9 6.4 45 39-83 79-125 (191)
189 PRK09701 D-allose transporter 38.6 2.3E+02 0.0049 27.3 9.3 92 218-317 25-117 (311)
190 KOG3043 Predicted hydrolase re 38.3 8.1 0.00018 37.7 -0.8 32 7-46 107-138 (242)
191 cd08187 BDH Butanol dehydrogen 38.2 1.2E+02 0.0025 30.9 7.6 76 218-303 29-108 (382)
192 PRK15404 leucine ABC transport 38.2 48 0.001 33.2 4.7 55 255-312 67-121 (369)
193 PF13458 Peripla_BP_6: Peripla 38.2 36 0.00078 32.5 3.6 113 255-370 43-161 (343)
194 cd06324 PBP1_ABC_sugar_binding 37.8 1.7E+02 0.0037 27.9 8.3 87 220-316 2-91 (305)
195 PF01904 DUF72: Protein of unk 37.8 1E+02 0.0022 29.2 6.7 115 21-151 85-211 (230)
196 cd01539 PBP1_GGBP Periplasmic 37.7 2.4E+02 0.0051 27.0 9.2 89 220-316 2-91 (303)
197 cd06305 PBP1_methylthioribose_ 37.6 2.8E+02 0.0062 25.3 9.5 87 220-316 2-89 (273)
198 PF15608 PELOTA_1: PELOTA RNA 37.5 62 0.0013 27.7 4.5 38 272-310 46-83 (100)
199 COG1832 Predicted CoA-binding 37.4 77 0.0017 28.7 5.3 67 56-123 17-101 (140)
200 PF01380 SIS: SIS domain SIS d 36.8 57 0.0012 26.8 4.2 43 95-137 52-98 (131)
201 TIGR03407 urea_ABC_UrtA urea A 36.7 41 0.00089 33.2 3.9 53 256-310 43-95 (359)
202 PRK06719 precorrin-2 dehydroge 36.7 1.9E+02 0.004 25.9 7.8 78 281-379 70-151 (157)
203 cd03145 GAT1_cyanophycinase Ty 36.6 77 0.0017 29.8 5.5 99 218-356 30-129 (217)
204 cd06313 PBP1_ABC_sugar_binding 36.4 2.4E+02 0.0052 26.3 8.9 87 220-316 2-89 (272)
205 cd00419 Ferrochelatase_C Ferro 36.4 49 0.0011 29.0 3.9 37 96-143 17-53 (135)
206 cd06371 PBP1_sensory_GC_DEF_li 36.3 49 0.0011 33.3 4.4 52 256-311 43-94 (382)
207 PRK12435 ferrochelatase; Provi 36.3 1.2E+02 0.0026 30.4 7.1 86 42-143 124-209 (311)
208 PTZ00365 60S ribosomal protein 36.2 64 0.0014 32.1 5.0 71 284-371 150-222 (266)
209 cd06347 PBP1_ABC_ligand_bindin 36.0 73 0.0016 30.3 5.4 58 256-315 42-99 (334)
210 PRK02287 hypothetical protein; 35.8 82 0.0018 29.4 5.4 57 71-140 19-78 (171)
211 cd06350 PBP1_GPCR_family_C_lik 35.7 58 0.0012 31.4 4.7 56 256-313 53-121 (348)
212 cd06359 PBP1_Nba_like Type I p 35.7 55 0.0012 31.7 4.5 57 256-314 40-96 (333)
213 cd00738 HGTP_anticodon HGTP an 35.4 74 0.0016 24.6 4.5 42 110-154 22-65 (94)
214 COG4821 Uncharacterized protei 35.1 1.2E+02 0.0025 29.5 6.4 36 92-127 100-139 (243)
215 PF13986 DUF4224: Domain of un 35.0 36 0.00077 25.0 2.4 26 70-105 20-45 (47)
216 PRK15395 methyl-galactoside AB 35.0 2.6E+02 0.0056 27.3 9.2 91 218-317 25-116 (330)
217 cd06300 PBP1_ABC_sugar_binding 35.0 3.2E+02 0.0069 25.0 9.4 93 219-316 1-94 (272)
218 cd01542 PBP1_TreR_like Ligand- 34.5 2.8E+02 0.0061 25.1 8.9 85 220-316 2-87 (259)
219 PF03698 UPF0180: Uncharacteri 34.3 1.3E+02 0.0028 24.7 5.7 19 99-117 58-77 (80)
220 COG1648 CysG Siroheme synthase 34.1 84 0.0018 29.8 5.4 73 282-370 73-145 (210)
221 cd00758 MoCF_BD MoCF_BD: molyb 33.9 41 0.0009 29.0 3.0 67 292-369 17-84 (133)
222 TIGR01417 PTS_I_fam phosphoeno 33.9 72 0.0016 34.7 5.4 50 33-83 474-523 (565)
223 PF04273 DUF442: Putative phos 33.9 3E+02 0.0065 23.4 8.5 85 57-154 8-96 (110)
224 cd07948 DRE_TIM_HCS Saccharomy 33.8 4.6E+02 0.0099 25.6 12.8 123 7-151 25-161 (262)
225 cd01412 SIRT5_Af1_CobB SIRT5_A 33.8 1.1E+02 0.0024 28.6 6.2 58 255-316 142-200 (224)
226 PRK09484 3-deoxy-D-manno-octul 33.8 1.5E+02 0.0032 26.8 6.8 49 107-155 74-123 (183)
227 PF12850 Metallophos_2: Calcin 33.6 2E+02 0.0044 24.1 7.3 98 43-160 16-125 (156)
228 PF10096 DUF2334: Uncharacteri 33.6 77 0.0017 30.5 5.1 62 100-162 2-85 (243)
229 cd00858 GlyRS_anticodon GlyRS 33.4 72 0.0016 26.9 4.4 55 96-154 26-88 (121)
230 PRK10703 DNA-binding transcrip 33.3 4.4E+02 0.0096 25.3 12.1 87 218-316 60-148 (341)
231 TIGR00274 N-acetylmuramic acid 33.3 89 0.0019 31.1 5.6 35 94-128 124-162 (291)
232 TIGR03863 PQQ_ABC_bind ABC tra 33.3 51 0.0011 33.1 4.0 109 257-369 37-153 (347)
233 cd06341 PBP1_ABC_ligand_bindin 33.3 2.4E+02 0.0052 27.2 8.5 111 256-370 42-159 (341)
234 PF14359 DUF4406: Domain of un 33.2 60 0.0013 26.9 3.7 31 281-311 59-90 (92)
235 COG4007 Predicted dehydrogenas 33.1 48 0.0011 33.3 3.6 87 37-134 32-126 (340)
236 cd06358 PBP1_NHase Type I peri 33.0 47 0.001 32.1 3.6 54 256-312 42-95 (333)
237 PF13380 CoA_binding_2: CoA bi 33.0 84 0.0018 26.7 4.7 57 57-131 58-114 (116)
238 PTZ00408 NAD-dependent deacety 33.0 83 0.0018 30.4 5.2 58 255-317 151-209 (242)
239 PRK00002 aroB 3-dehydroquinate 33.0 1.7E+02 0.0036 29.6 7.7 92 218-316 32-127 (358)
240 PRK09526 lacI lac repressor; R 32.8 4.5E+02 0.0098 25.2 12.7 126 218-355 64-191 (342)
241 cd01543 PBP1_XylR Ligand-bindi 32.8 3.8E+02 0.0083 24.5 9.5 79 220-316 2-80 (265)
242 PRK14071 6-phosphofructokinase 32.7 62 0.0013 33.2 4.5 44 269-314 95-138 (360)
243 PF13580 SIS_2: SIS domain; PD 32.6 58 0.0013 28.2 3.8 31 93-123 100-134 (138)
244 TIGR02884 spore_pdaA delta-lac 32.6 1.3E+02 0.0027 28.4 6.3 72 4-83 139-219 (224)
245 cd08189 Fe-ADH5 Iron-containin 32.6 2.5E+02 0.0055 28.4 8.9 78 218-305 27-107 (374)
246 cd08173 Gro1PDH Sn-glycerol-1- 32.5 1.8E+02 0.004 28.9 7.8 87 218-317 26-112 (339)
247 PRK05569 flavodoxin; Provision 32.4 1.9E+02 0.004 24.6 6.9 21 284-305 4-24 (141)
248 cd01541 PBP1_AraR Ligand-bindi 32.3 3.6E+02 0.0077 24.7 9.2 85 220-316 2-92 (273)
249 TIGR00423 radical SAM domain p 32.1 4.5E+02 0.0097 25.9 10.3 72 8-82 40-121 (309)
250 PRK00481 NAD-dependent deacety 32.0 91 0.002 29.7 5.3 44 271-316 169-213 (242)
251 cd06332 PBP1_aromatic_compound 31.8 77 0.0017 30.1 4.8 97 256-355 40-144 (333)
252 cd02518 GT2_SpsF SpsF is a gly 31.7 1.3E+02 0.0029 27.7 6.2 44 118-161 89-135 (233)
253 TIGR03151 enACPred_II putative 31.7 90 0.0019 31.1 5.4 49 97-150 87-135 (307)
254 PLN02449 ferrochelatase 31.6 3E+02 0.0066 29.7 9.5 37 96-142 275-311 (485)
255 cd06294 PBP1_ycjW_transcriptio 31.6 4E+02 0.0086 24.2 12.3 81 269-356 47-133 (270)
256 PF05159 Capsule_synth: Capsul 31.4 62 0.0013 30.9 4.1 67 283-360 1-67 (269)
257 cd06352 PBP1_NPR_GC_like Ligan 31.4 61 0.0013 32.0 4.2 63 256-320 43-106 (389)
258 cd06334 PBP1_ABC_ligand_bindin 31.3 54 0.0012 32.6 3.8 57 256-315 42-98 (351)
259 PRK11303 DNA-binding transcrip 31.2 4.7E+02 0.01 24.9 13.0 89 218-317 62-151 (328)
260 cd00296 SIR2 SIR2 superfamily 31.0 1.1E+02 0.0025 28.1 5.7 46 270-317 160-206 (222)
261 COG0378 HypB Ni2+-binding GTPa 30.7 87 0.0019 30.0 4.8 77 284-374 15-96 (202)
262 TIGR00732 dprA DNA protecting 30.6 83 0.0018 29.9 4.7 36 281-316 155-190 (220)
263 PRK10886 DnaA initiator-associ 30.5 2.2E+02 0.0047 26.7 7.5 23 94-116 107-130 (196)
264 PRK13914 invasion associated s 30.5 95 0.0021 33.4 5.5 69 7-104 367-437 (481)
265 PRK15317 alkyl hydroperoxide r 30.5 2.7E+02 0.0059 29.4 9.0 52 25-83 120-171 (517)
266 cd01917 ACS_2 Acetyl-CoA synth 30.4 77 0.0017 31.9 4.5 38 114-151 114-161 (287)
267 TIGR02483 PFK_mixed phosphofru 30.4 80 0.0017 31.9 4.8 44 268-314 81-124 (324)
268 cd06836 PLPDE_III_ODC_DapDC_li 30.3 1.3E+02 0.0028 30.6 6.3 72 66-139 38-113 (379)
269 cd06269 PBP1_glutamate_recepto 30.3 1.1E+02 0.0024 27.8 5.4 60 256-316 42-104 (298)
270 cd06333 PBP1_ABC-type_HAAT_lik 30.3 1.3E+02 0.0028 28.7 6.0 98 256-355 41-143 (312)
271 PRK10537 voltage-gated potassi 30.2 96 0.0021 32.2 5.5 75 96-180 240-317 (393)
272 TIGR01668 YqeG_hyp_ppase HAD s 30.0 1.4E+02 0.003 26.8 5.8 78 274-371 74-156 (170)
273 PRK10624 L-1,2-propanediol oxi 29.9 2.3E+02 0.0049 28.9 8.0 78 218-305 31-111 (382)
274 TIGR02482 PFKA_ATP 6-phosphofr 29.5 88 0.0019 31.4 4.9 44 268-313 78-121 (301)
275 PRK13936 phosphoheptose isomer 29.5 1.2E+02 0.0026 28.1 5.5 40 277-317 108-148 (197)
276 PTZ00222 60S ribosomal protein 29.4 1.4E+02 0.003 29.7 6.0 71 283-371 149-222 (263)
277 cd02985 TRX_CDSP32 TRX family, 29.1 2.6E+02 0.0056 22.6 6.9 77 257-366 20-101 (103)
278 PRK13938 phosphoheptose isomer 29.0 1.2E+02 0.0026 28.4 5.5 55 261-318 95-151 (196)
279 COG2008 GLY1 Threonine aldolas 29.0 5.6E+02 0.012 26.5 10.5 65 218-292 132-201 (342)
280 PLN02564 6-phosphofructokinase 28.8 1.2E+02 0.0025 32.7 5.9 53 269-321 164-217 (484)
281 PLN02424 ketopantoate hydroxym 28.6 2E+02 0.0043 29.6 7.2 99 27-131 98-207 (332)
282 PF00465 Fe-ADH: Iron-containi 28.4 1.4E+02 0.0031 29.9 6.3 78 219-306 23-103 (366)
283 COG4822 CbiK Cobalamin biosynt 28.4 2.1E+02 0.0045 28.2 6.9 45 99-151 36-80 (265)
284 cd01544 PBP1_GalR Ligand-bindi 28.2 4.8E+02 0.01 24.0 11.0 70 277-354 49-121 (270)
285 PTZ00468 phosphofructokinase f 28.2 86 0.0019 37.6 5.1 46 268-313 183-229 (1328)
286 PRK13937 phosphoheptose isomer 28.2 1.4E+02 0.0031 27.2 5.7 38 280-317 105-143 (188)
287 cd06360 PBP1_alkylbenzenes_lik 27.9 1.2E+02 0.0025 29.1 5.3 111 256-369 40-159 (336)
288 cd06279 PBP1_LacI_like_3 Ligan 27.8 3.7E+02 0.0081 25.0 8.7 76 274-355 49-126 (283)
289 PRK10669 putative cation:proto 27.7 85 0.0019 33.6 4.7 68 97-172 418-488 (558)
290 cd08186 Fe-ADH8 Iron-containin 27.6 3E+02 0.0066 28.0 8.5 78 218-305 27-108 (383)
291 cd06374 PBP1_mGluR_groupI Liga 27.6 75 0.0016 32.9 4.2 30 282-311 116-145 (472)
292 PF00919 UPF0004: Uncharacteri 27.6 3.6E+02 0.0078 22.4 7.9 39 68-115 17-55 (98)
293 cd08185 Fe-ADH1 Iron-containin 27.4 2.8E+02 0.006 28.2 8.2 77 218-304 26-106 (380)
294 cd03130 GATase1_CobB Type 1 gl 27.4 3.7E+02 0.008 24.7 8.4 44 93-149 37-80 (198)
295 TIGR02873 spore_ylxY probable 27.4 1.8E+02 0.0039 28.5 6.5 82 57-150 178-263 (268)
296 PRK15461 NADH-dependent gamma- 27.3 3.7E+02 0.0081 26.2 8.8 93 43-147 14-116 (296)
297 cd00363 PFK Phosphofructokinas 27.3 52 0.0011 33.4 2.8 47 267-313 78-127 (338)
298 PRK05333 NAD-dependent deacety 27.3 1.2E+02 0.0027 29.7 5.4 58 255-315 191-249 (285)
299 cd06293 PBP1_LacI_like_11 Liga 27.2 4.8E+02 0.01 23.8 12.2 122 220-355 2-126 (269)
300 cd01407 SIR2-fam SIR2 family o 27.2 1.6E+02 0.0035 27.5 6.0 58 255-316 145-203 (218)
301 cd02201 FtsZ_type1 FtsZ is a G 27.2 1.6E+02 0.0034 29.3 6.2 44 271-315 75-122 (304)
302 cd08182 HEPD Hydroxyethylphosp 27.1 3E+02 0.0065 27.7 8.3 75 218-304 24-100 (367)
303 TIGR01081 mpl UDP-N-acetylmura 27.0 4.9E+02 0.011 26.8 10.0 59 60-123 27-88 (448)
304 cd06381 PBP1_iGluR_delta_like 27.0 68 0.0015 32.4 3.7 55 257-314 39-93 (363)
305 COG1737 RpiR Transcriptional r 26.9 3.3E+02 0.0072 26.5 8.3 77 56-133 131-218 (281)
306 cd01299 Met_dep_hydrolase_A Me 26.9 5.4E+02 0.012 25.0 9.9 92 38-131 118-225 (342)
307 TIGR00824 EIIA-man PTS system, 26.9 47 0.001 28.3 2.1 33 25-62 2-34 (116)
308 KOG2947 Carbohydrate kinase [C 26.8 90 0.0019 31.2 4.2 64 216-288 129-192 (308)
309 TIGR01357 aroB 3-dehydroquinat 26.6 2.6E+02 0.0055 27.9 7.7 91 218-315 21-115 (344)
310 cd00763 Bacterial_PFK Phosphof 26.5 96 0.0021 31.3 4.6 43 267-313 78-121 (317)
311 cd06289 PBP1_MalI_like Ligand- 26.5 4.8E+02 0.01 23.5 12.3 86 220-316 2-88 (268)
312 PF12146 Hydrolase_4: Putative 26.3 34 0.00074 27.2 1.1 49 99-166 17-65 (79)
313 PTZ00286 6-phospho-1-fructokin 26.1 1E+02 0.0022 32.9 4.8 54 268-321 163-217 (459)
314 cd06307 PBP1_uncharacterized_s 26.1 3.3E+02 0.0072 25.0 7.9 87 220-315 2-91 (275)
315 PF02310 B12-binding: B12 bind 26.1 1.1E+02 0.0024 25.0 4.2 19 283-301 81-100 (121)
316 TIGR03310 matur_ygfJ molybdenu 26.1 2.3E+02 0.0049 24.8 6.5 39 119-157 92-135 (188)
317 PRK05301 pyrroloquinoline quin 26.1 6.8E+02 0.015 25.1 11.6 42 98-147 116-157 (378)
318 cd04908 ACT_Bt0572_1 N-termina 26.0 94 0.002 23.2 3.5 46 69-123 17-65 (66)
319 TIGR01511 ATPase-IB1_Cu copper 26.0 2.4E+02 0.0052 30.5 7.7 44 109-154 433-476 (562)
320 cd02430 PTH2 Peptidyl-tRNA hyd 26.0 1.4E+02 0.003 25.9 4.8 62 283-368 49-112 (115)
321 PRK06464 phosphoenolpyruvate s 26.0 1.1E+02 0.0024 34.8 5.3 48 35-83 723-771 (795)
322 PF10087 DUF2325: Uncharacteri 25.9 2.8E+02 0.0061 22.5 6.5 72 68-139 13-95 (97)
323 COG2454 Uncharacterized conser 25.8 3.3E+02 0.0071 26.3 7.7 66 39-104 112-188 (211)
324 cd06373 PBP1_NPR_like Ligand b 25.7 95 0.0021 30.9 4.4 54 256-311 44-101 (396)
325 TIGR02260 benz_CoA_red_B benzo 25.7 2.1E+02 0.0045 29.9 7.0 133 9-154 201-361 (413)
326 PF00455 DeoRC: DeoR C termina 25.4 79 0.0017 28.3 3.4 64 94-164 17-82 (161)
327 PRK06559 nicotinate-nucleotide 25.4 5.7E+02 0.012 25.7 9.7 100 24-130 168-273 (290)
328 COG0205 PfkA 6-phosphofructoki 25.3 77 0.0017 32.6 3.7 49 269-321 82-130 (347)
329 cd08193 HVD 5-hydroxyvalerate 25.3 3.4E+02 0.0073 27.5 8.3 77 218-304 27-106 (376)
330 cd05014 SIS_Kpsf KpsF-like pro 25.1 1.3E+02 0.0028 24.9 4.5 39 280-318 46-85 (128)
331 TIGR01279 DPOR_bchN light-inde 25.0 7.7E+02 0.017 25.4 13.1 103 24-129 115-231 (407)
332 cd06271 PBP1_AglR_RafR_like Li 25.0 5.1E+02 0.011 23.3 9.8 42 272-316 49-91 (268)
333 TIGR01752 flav_long flavodoxin 24.9 2.7E+02 0.0059 24.8 6.8 21 284-305 2-22 (167)
334 COG4770 Acetyl/propionyl-CoA c 24.9 98 0.0021 34.1 4.5 149 5-181 13-181 (645)
335 TIGR00283 arch_pth2 peptidyl-t 24.8 1.5E+02 0.0032 25.7 4.8 61 286-369 52-113 (115)
336 TIGR02144 LysX_arch Lysine bio 24.8 2E+02 0.0043 27.2 6.2 59 66-124 11-77 (280)
337 cd06368 PBP1_iGluR_non_NMDA_li 24.7 1.2E+02 0.0027 28.8 4.9 50 264-316 46-95 (324)
338 TIGR02637 RhaS rhamnose ABC tr 24.6 5.6E+02 0.012 24.1 9.3 48 268-316 42-90 (302)
339 cd06283 PBP1_RegR_EndR_KdgR_li 24.5 5.2E+02 0.011 23.3 8.8 94 272-370 46-145 (267)
340 cd06297 PBP1_LacI_like_12 Liga 24.5 5E+02 0.011 23.9 8.8 45 269-316 42-87 (269)
341 TIGR01290 nifB nitrogenase cof 24.3 3.9E+02 0.0085 28.2 8.8 107 40-146 63-189 (442)
342 cd06362 PBP1_mGluR Ligand bind 24.3 82 0.0018 32.1 3.7 30 282-311 102-131 (452)
343 PF01248 Ribosomal_L7Ae: Ribos 24.2 67 0.0015 25.8 2.5 44 277-320 27-71 (95)
344 cd02191 FtsZ FtsZ is a GTPase 24.2 1.8E+02 0.004 29.0 6.1 44 271-315 75-122 (303)
345 cd06277 PBP1_LacI_like_1 Ligan 24.2 5.5E+02 0.012 23.4 11.6 85 220-316 2-89 (268)
346 PRK11657 dsbG disulfide isomer 24.2 77 0.0017 30.6 3.3 29 122-150 124-153 (251)
347 PF01380 SIS: SIS domain SIS d 24.1 1.2E+02 0.0026 24.9 4.0 54 263-318 36-91 (131)
348 PRK11557 putative DNA-binding 24.1 5.4E+02 0.012 24.5 9.1 39 280-318 174-213 (278)
349 TIGR02122 TRAP_TAXI TRAP trans 24.0 4.6E+02 0.01 24.9 8.6 25 347-371 257-281 (320)
350 cd08175 G1PDH Glycerol-1-phosp 23.9 2.7E+02 0.0058 27.9 7.2 34 281-316 80-113 (348)
351 COG0104 PurA Adenylosuccinate 23.6 1.2E+02 0.0025 32.2 4.6 49 103-151 130-223 (430)
352 cd04795 SIS SIS domain. SIS (S 23.5 1.5E+02 0.0032 22.5 4.2 35 280-314 46-81 (87)
353 TIGR00290 MJ0570_dom MJ0570-re 23.4 2E+02 0.0044 27.6 6.0 52 102-153 40-94 (223)
354 PF08485 Polysacc_syn_2C: Poly 23.2 26 0.00056 26.2 -0.1 12 288-299 21-32 (48)
355 PF05706 CDKN3: Cyclin-depende 23.1 82 0.0018 29.3 3.1 43 110-152 91-141 (168)
356 PRK06830 diphosphate--fructose 23.0 1.2E+02 0.0027 32.1 4.8 45 269-313 160-207 (443)
357 TIGR01489 DKMTPPase-SF 2,3-dik 23.0 3.8E+02 0.0083 23.1 7.3 19 136-154 153-172 (188)
358 PRK03562 glutathione-regulated 23.0 1.2E+02 0.0027 33.1 4.9 67 97-171 401-470 (621)
359 TIGR02667 moaB_proteo molybden 22.9 1E+02 0.0022 27.8 3.7 73 285-368 9-88 (163)
360 PF06722 DUF1205: Protein of u 22.9 47 0.001 27.8 1.4 34 339-372 32-74 (97)
361 PRK11337 DNA-binding transcrip 22.9 1.8E+02 0.0038 28.1 5.6 55 263-318 170-225 (292)
362 cd01994 Alpha_ANH_like_IV This 22.8 2.3E+02 0.0049 26.4 6.0 51 104-154 42-98 (194)
363 cd08180 PDD 1,3-propanediol de 22.7 3.8E+02 0.0082 26.6 8.0 88 218-316 23-118 (332)
364 COG1139 Uncharacterized conser 22.7 5.4E+02 0.012 27.6 9.2 113 24-145 78-193 (459)
365 TIGR01418 PEP_synth phosphoeno 22.6 1.5E+02 0.0032 33.7 5.5 49 34-83 715-764 (782)
366 COG1654 BirA Biotin operon rep 22.5 88 0.0019 25.5 2.8 25 131-155 34-58 (79)
367 PF00702 Hydrolase: haloacid d 22.5 2.3E+02 0.005 25.0 5.9 67 68-153 133-204 (215)
368 PF01513 NAD_kinase: ATP-NAD k 22.4 87 0.0019 30.6 3.3 24 219-242 1-26 (285)
369 TIGR00854 pts-sorbose PTS syst 22.4 5.2E+02 0.011 23.2 8.1 73 36-116 58-130 (151)
370 PRK11177 phosphoenolpyruvate-p 22.2 1.6E+02 0.0034 32.3 5.5 95 32-140 474-568 (575)
371 cd05710 SIS_1 A subgroup of th 22.2 1.7E+02 0.0036 24.6 4.7 39 280-318 46-85 (120)
372 TIGR00408 proS_fam_I prolyl-tR 22.2 2.2E+02 0.0048 30.2 6.5 55 96-153 282-348 (472)
373 PRK03202 6-phosphofructokinase 22.1 1.2E+02 0.0026 30.6 4.3 43 267-313 79-122 (320)
374 TIGR03006 pepcterm_polyde poly 22.1 5.7E+02 0.012 25.0 8.9 95 35-129 22-142 (265)
375 cd03108 AdSS Adenylosuccinate 21.9 1.3E+02 0.0028 31.2 4.5 41 105-151 129-169 (363)
376 cd06325 PBP1_ABC_uncharacteriz 21.9 4.5E+02 0.0097 24.1 7.9 88 220-316 2-90 (281)
377 PF00365 PFK: Phosphofructokin 21.8 61 0.0013 32.1 2.1 43 269-313 80-122 (282)
378 cd03466 Nitrogenase_NifN_2 Nit 21.8 9.1E+02 0.02 25.0 11.7 119 23-143 117-244 (429)
379 COG3980 spsG Spore coat polysa 21.7 3.4E+02 0.0074 27.7 7.2 99 25-131 1-107 (318)
380 cd06284 PBP1_LacI_like_6 Ligan 21.5 6E+02 0.013 22.9 12.1 84 220-316 2-86 (267)
381 PRK01438 murD UDP-N-acetylmura 21.4 3.1E+02 0.0067 28.4 7.4 87 24-123 16-106 (480)
382 cd02513 CMP-NeuAc_Synthase CMP 21.4 5.3E+02 0.011 23.1 8.1 38 119-156 100-139 (223)
383 cd06280 PBP1_LacI_like_4 Ligan 21.1 6.3E+02 0.014 23.0 12.0 85 220-317 2-87 (263)
384 cd01408 SIRT1 SIRT1: Eukaryoti 21.0 2.1E+02 0.0045 27.4 5.5 56 255-314 152-208 (235)
385 cd08177 MAR Maleylacetate redu 20.8 2.4E+02 0.0051 28.2 6.1 36 280-317 76-111 (337)
386 PTZ00287 6-phosphofructokinase 20.8 1.5E+02 0.0031 36.1 5.1 52 268-319 258-310 (1419)
387 PF03358 FMN_red: NADPH-depend 20.8 1.2E+02 0.0025 26.1 3.4 23 284-306 3-26 (152)
388 PF04392 ABC_sub_bind: ABC tra 20.8 94 0.002 30.1 3.2 46 266-312 170-216 (294)
389 cd08190 HOT Hydroxyacid-oxoaci 20.4 3E+02 0.0064 28.5 6.9 78 218-305 24-104 (414)
390 TIGR01508 rib_reduct_arch 2,5- 20.4 2.8E+02 0.006 25.8 6.1 107 40-151 27-144 (210)
391 PRK09417 mogA molybdenum cofac 20.4 1.2E+02 0.0026 28.5 3.7 78 284-371 7-94 (193)
392 cd05013 SIS_RpiR RpiR-like pro 20.3 4E+02 0.0086 21.6 6.5 82 271-376 4-88 (139)
393 cd06380 PBP1_iGluR_AMPA N-term 20.2 1.1E+02 0.0025 30.2 3.7 46 264-312 46-91 (382)
394 PRK02006 murD UDP-N-acetylmura 20.2 3.5E+02 0.0077 28.3 7.5 72 45-123 22-101 (498)
395 COG0683 LivK ABC-type branched 20.1 1E+02 0.0022 30.8 3.4 116 255-372 52-176 (366)
396 PF15088 NADH_dh_m_C1: NADH de 20.0 56 0.0012 24.3 1.0 17 339-360 13-29 (49)
No 1
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=100.00 E-value=3.5e-119 Score=909.99 Aligned_cols=379 Identities=85% Similarity=1.312 Sum_probs=365.0
Q ss_pred CCccc-chhHHHHHHHcCCcceecceEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCc
Q 016960 1 MNQEY-TSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAV 79 (380)
Q Consensus 1 ~~~~~-~~~~~~~~~~~~~~~~~g~mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv 79 (380)
|.++| +|.||+.||++|+.+.||+|+|+||+++||||||+|||++|+++++++++++||+||||||||+|+++|+++||
T Consensus 81 ~~~~y~~s~li~~~r~~~~~~~~g~m~I~LA~~~GFC~GVeRAV~~A~ea~~~~p~~~Iy~lgeIIHNp~Vv~~L~~~GV 160 (460)
T PLN02821 81 MGVEYSTSDLVKTLKENGNVYTWGDVTVKLAKAYGFCWGVERAVQIAYEARKQFPDEKLWITNEIIHNPTVNKRLEEMNV 160 (460)
T ss_pred hhhhhhccHHHHHHHhCCCeEEecceEEEEeCCCCCCccHHHHHHHHHHHHhhCCCCCeEEecCCccCHHHHHHHHHCCC
Confidence 46788 99999999999999999999999999999999999999999999887777899999999999999999999999
Q ss_pred EEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceee
Q 016960 80 QNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETV 159 (380)
Q Consensus 80 ~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~ 159 (380)
.++++.++.++++++++|++|||||||++|++++.|+++|+.|||||||||+|+|+.|+++.++||+|||+|+++||||+
T Consensus 161 ~~I~~~~~~~~~~~v~~gdvVIirAHGvs~~~~~~l~~kg~~IVDaTCP~V~KV~~~v~k~~k~gy~iII~Gk~~HpEv~ 240 (460)
T PLN02821 161 QFIEVEEGGKDFSVVGEGDVVILPAFGASVEEMQTLNDKNVQIVDTTCPWVSKVWNTVEKHKKKDYTSVIHGKYAHEETV 240 (460)
T ss_pred EEecccccccccccCCCCCEEEEeCCCCCHHHHHHHHHCCCeEEecCCcchHHHHHHHHHHHhCCCEEEEECCCCCccee
Confidence 99997766677899998999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecccCCcEEEEcChhhHHHhhhhhcCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHH
Q 016960 160 ATASFAGKYIIVKNMKEAEYVCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKL 239 (380)
Q Consensus 160 gi~g~~~~~~vv~~~~e~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~ 239 (380)
|+.||+++++||++++|++++++||.++.+||++++++.|+++|+++++.+|||+.+++|+++++||||+.++|++|++.
T Consensus 241 gt~s~a~~~~VV~~~~ea~~v~~yi~~~~~~~~~~~~~~f~~~f~~a~s~~fdpd~~l~kvgvvnQTTm~~~et~~I~~~ 320 (460)
T PLN02821 241 ATASFAGKYIIVKNMKEATYVCDYILGGQLDGSSGTKEEFLEKFKNAVSKGFDPDTDLVKVGIANQTTMLKGETEEIGKL 320 (460)
T ss_pred ecccccCCeEEECCHHHHHHHhhhcccccccccccchhhhhhhhcccccccCCcccccccEEEEECCCCcHHHHHHHHHH
Confidence 99999988999999999999999999999999999999999999999999999877788999999999999999999999
Q ss_pred HHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCcc
Q 016960 240 VEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRI 319 (380)
Q Consensus 240 l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL 319 (380)
|+++|+++++|++.+.||.+|||||+||++||+|+.+|+..++|+||||||+|||||+||+|||++.|+|+||||+++||
T Consensus 321 l~~~~~~k~gp~~~~~~~~vfnTIC~ATqeRQdA~~~L~~~~vDlmiVVGG~NSSNT~~L~eIa~~~g~~sy~Ie~~~eI 400 (460)
T PLN02821 321 LEKTMMQKYGVENVNDHFMSFNTICDATQERQDAMYKLVEEKLDLMLVVGGWNSSNTSHLQEIAEHKGIPSYWIDSEERI 400 (460)
T ss_pred HHHhhhhhcCCcccCccccccCCcchhHHHHHHHHHHHhhcCCCEEEEECCCCCccHHHHHHHHHHhCCCEEEECCHHHc
Confidence 99999999999888899999999999999999999999635899999999999999999999999999999999999999
Q ss_pred CCCCcchhhhccchhhhhcccCCCCCCEEEEEeCCCCCHHHHHHHHHHHHhhhhhhhhhc
Q 016960 320 GPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAVEDVLKKVFEIKREEALQL 379 (380)
Q Consensus 320 ~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGASTP~~lI~eV~~~l~~~~~~~~~~~ 379 (380)
++.+.|+|++.|+++.++++||+.++.+||||||||||+|+|++|+.+|.++...+++|+
T Consensus 401 ~~~~~i~h~~~~~e~~~~~~wl~~~~~~VGITAGASTPd~lIeeVi~~l~~~~~~~~~~~ 460 (460)
T PLN02821 401 GPGNTIAHKLNHGELVEKENWLPEGPVTIGVTSGASTPDKVVEDVLDKVFDIKREEALQL 460 (460)
T ss_pred CcccccccccccchhhhhHHHhccCCCEEEEecCCCCCHHHHHHHHHHHHHhhccccccC
Confidence 999999999999999999999977799999999999999999999999999988887774
No 2
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=100.00 E-value=5.9e-113 Score=854.08 Aligned_cols=368 Identities=66% Similarity=1.111 Sum_probs=343.6
Q ss_pred CCcccchhHHHHHHHcCCcceecceEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcE
Q 016960 1 MNQEYTSDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQ 80 (380)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~g~mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~ 80 (380)
+..+|||.||++|+++|+.+.+|+|+|++|+++||||||+|||++|+++++.+++++||+||||||||+|+++|+++||.
T Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~m~I~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~vytlG~IIHNp~Vv~~L~~~Gv~ 93 (387)
T PRK13371 14 LETAYQSSLIQSIRENGYVLQFGDVTIKLARAFGFCWGVERAVAMAYETRRHFPDERIWITNEIIHNPSVNQHLREMGVR 93 (387)
T ss_pred HHHHHhHHHHHHHHhCCCeeeeCCeEEEEeCCCCCCccHHHHHHHHHHHHhhcCCCCeEEecCCcCCHHHHHHHHhCCCE
Confidence 35799999999999999999999999999999999999999999999988766567999999999999999999999999
Q ss_pred EecCCccccccccccCCCEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeee
Q 016960 81 NIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVA 160 (380)
Q Consensus 81 ~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~g 160 (380)
++++.++.++++++++|++|||||||+||+++++|+++|+.|||||||+|+|+|++|++++++||+|||+|+++||||+|
T Consensus 94 ~v~~~~~~~~~~~v~~~~~VIIrAHGv~~~v~~~~~~rgl~iiDATCP~V~kvh~~v~~~~~~Gy~iIIiG~~~HpEV~G 173 (387)
T PRK13371 94 FIPVEKGVKDFSVVTPGDVVILPAFGATVQEMQLLNEKGCHIVDTTCPWVSKVWNTVEKHKKKDFTSIIHGKYKHEETRA 173 (387)
T ss_pred EEcCcCcccchhcCCCCCEEEEeCCCCCHHHHHHHHHCCCeEEecCCccchHHHHHHHHHHhCCCEEEEEcCCCCcceee
Confidence 99865445568899889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecccCCcEEEEcChhhHHHhhhhhcCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHH
Q 016960 161 TASFAGKYIIVKNMKEAEYVCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLV 240 (380)
Q Consensus 161 i~g~~~~~~vv~~~~e~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l 240 (380)
+.||++.++||++++|++++++++.++ .++..|+++|..+.+.+++|.++++|+++|+||||+.++|.+|++.|
T Consensus 174 i~g~a~~~~VV~~~~e~~~l~~~~~~~------~~~~~~~~~f~~~~s~~~~~~~~~~kv~vvsQTT~~~~~~~~iv~~l 247 (387)
T PRK13371 174 TSSFAGTYLVVLDLEEAQYVADYILGG------GDREEFLERFAKAYSPGFDPDRDLERVGVANQTTMLKSETEEIGKLF 247 (387)
T ss_pred eccccCceEEECCHHHHHHHhhhhccc------cchhhhhhhhhhcccccCCccCCCccEEEEECCCCcHHHHHHHHHHH
Confidence 999997789999999999998887765 46788999999999999988666789999999999999999999999
Q ss_pred HHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccC
Q 016960 241 EKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIG 320 (380)
Q Consensus 241 ~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~ 320 (380)
+++|+++++|.+.+++++++||||+||++||+|+++||..++|+||||||+|||||+||++||++.|++|||||+++||+
T Consensus 248 ~~~~~~~~~~~~~~~~~~v~nTIC~AT~~RQ~A~~~La~~~vD~miVVGG~nSSNT~rL~eia~~~g~~ty~Ie~~~eL~ 327 (387)
T PRK13371 248 ERTMLRKYGPANLNEHFLSFNTICDATQERQDAMFSLVEEPLDLMVVIGGYNSSNTTHLQEIAIERGIPSYHIDSPERIL 327 (387)
T ss_pred HHhhhhhcCCccccccccccCCcchhHHHHHHHHHHHhhcCCCEEEEECCCCCccHHHHHHHHHhcCCCEEEECCHHHcC
Confidence 99999998877677899999999999999999999998337999999999999999999999999999999999999999
Q ss_pred CCCcchhhhccchhhhhcccCCCCCCEEEEEeCCCCCHHHHHHHHHHHHhhhhh
Q 016960 321 PGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAVEDVLKKVFEIKRE 374 (380)
Q Consensus 321 ~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGASTP~~lI~eV~~~l~~~~~~ 374 (380)
+++.|.|+...++..++++||+.++.+||||||||||+|+|++|+++|+++++.
T Consensus 328 ~~~~i~h~~~~~~~~~t~~wl~~~~~~VGITAGASTP~~lI~eVi~~l~~l~~~ 381 (387)
T PRK13371 328 SGNSIEHKPLGKELVVTENWLPEGPVTVGITSGASTPDKVVEDVIEKIFALKED 381 (387)
T ss_pred CccccccccccchhhhhhhhhccCCCEEEEecCCCCCHHHHHHHHHHHHHhhcc
Confidence 988999996688889999999556889999999999999999999999988653
No 3
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=100.00 E-value=2.3e-100 Score=740.07 Aligned_cols=280 Identities=34% Similarity=0.561 Sum_probs=260.7
Q ss_pred eEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcC
Q 016960 25 VKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPA 104 (380)
Q Consensus 25 mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrA 104 (380)
|+|++|+++||||||+|||++|+++++.+++++||+||||||||+|+++|+++||.++++. +++++++|++|||||
T Consensus 1 M~I~lA~~~GFC~GV~rAi~~a~~~~~~~~~~~vy~lG~iVHN~~Vv~~L~~~Gv~~v~~~----~~~~v~~~~~ViirA 76 (281)
T PRK12360 1 MKILIAKNAGFCFGVKRAIDTAYDEIEKNDGKKIYTLGPLIHNNQVVSDLEEKGVKTIEES----EIDSLKEGDVVIIRS 76 (281)
T ss_pred CEEEEeCCCCCCccHHHHHHHHHHHHHhcCCCCeEEecCCcCCHHHHHHHHHCcCEEECcC----chhhCCCCCEEEEeC
Confidence 8999999999999999999999998766556789999999999999999999999999321 478888899999999
Q ss_pred CCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccCC-cEEEEcChhhHHHhhhh
Q 016960 105 FGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAG-KYIIVKNMKEAEYVCDY 183 (380)
Q Consensus 105 HGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~~-~~~vv~~~~e~~~~~~~ 183 (380)
||+||+++++|+++|+.|||||||||+|+|+.|++++++||+|||+|+++||||+|+.||++ .++||++++|++.+.
T Consensus 77 HGv~~~~~~~~~~~g~~viDaTCP~V~k~~~~v~~~~~~Gy~iviiG~~~HpEv~gi~g~~~~~~~vv~~~~d~~~l~-- 154 (281)
T PRK12360 77 HGVSKKVYKDLKDKGLEIIDATCPFVKKIQNIVEEYYNKGYSIIIVGDKNHPEVIGINGWCDNSAYIVNSIEEVENIP-- 154 (281)
T ss_pred CCCCHHHHHHHHHCCCeEEeCCCccchHHHHHHHHHHhCCCEEEEEcCCCCceeeEeccCcCCCeEEECCHHHHhhCc--
Confidence 99999999999999999999999999999999999999999999999999999999999996 578999999987651
Q ss_pred hcCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccc
Q 016960 184 ILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTI 263 (380)
Q Consensus 184 ~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTI 263 (380)
+ .+++++++||||+.++|++|++.|+++| ++++++|||
T Consensus 155 -----------------------------~---~~kv~~vsQTT~~~~~~~~iv~~l~~~~----------~~~~v~~TI 192 (281)
T PRK12360 155 -----------------------------F---LDKACVVAQTTIIPELWEDILNVIKLKS----------KELVFFNTI 192 (281)
T ss_pred -----------------------------c---ccCEEEEECCCCcHHHHHHHHHHHHHhC----------cccccCCCc
Confidence 1 2589999999999999999999998732 457789999
Q ss_pred cHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCC
Q 016960 264 CDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPK 343 (380)
Q Consensus 264 C~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~ 343 (380)
|+||++||+|+++|| +++|+||||||+|||||+||+++|++.|+++||||+++||++ +|| .
T Consensus 193 C~aT~~RQ~a~~~La-~~vD~miVVGg~~SsNT~rL~eia~~~~~~t~~Ie~~~el~~-----------------~~~-~ 253 (281)
T PRK12360 193 CSATKKRQESAKELS-KEVDVMIVIGGKHSSNTQKLVKICEKNCPNTFHIETADELDL-----------------EML-K 253 (281)
T ss_pred chhhhhHHHHHHHHH-HhCCEEEEecCCCCccHHHHHHHHHHHCCCEEEECChHHCCH-----------------HHh-C
Confidence 999999999999999 799999999999999999999999999999999999999999 999 6
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHhh
Q 016960 344 GQITIGITSGASTPDKAVEDVLKKVFEI 371 (380)
Q Consensus 344 ~~~~VGITAGASTP~~lI~eV~~~l~~~ 371 (380)
++.+||||||||||+|+|++|+++|+++
T Consensus 254 ~~~~VGitaGASTP~~li~eV~~~l~~~ 281 (281)
T PRK12360 254 DYKIIGITAGASTPDWIIEEVIKKIKNL 281 (281)
T ss_pred CCCEEEEEccCCCCHHHHHHHHHHHHhC
Confidence 8999999999999999999999999764
No 4
>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming). Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response.
Probab=100.00 E-value=8.4e-100 Score=735.80 Aligned_cols=278 Identities=40% Similarity=0.644 Sum_probs=257.5
Q ss_pred EEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCc-EEecCCccccccccccCCCEEEEcC
Q 016960 26 KVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAV-QNIPVEEGKKQFDVVNKGDVVVLPA 104 (380)
Q Consensus 26 kI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv-~~v~~~~~~~~~~el~~g~~VIIrA 104 (380)
+|++|+++||||||+|||++|++++++. +++||+||||||||+|+++|+++|| .+++ +++++++|++|||||
T Consensus 1 ~I~lA~~~GFC~GV~rAi~~a~~~~~~~-~~~iy~lG~iIHN~~Vv~~L~~~Gv~~~v~------~~~~v~~~~~ViirA 73 (280)
T TIGR00216 1 DIILAKPRGFCFGVKRAIQMAEEALKES-GKPVYTLGPIVHNPQVVERLRERGVFFFLE------DLDEVAAGDTVIIRA 73 (280)
T ss_pred CEEEccCCCCCccHHHHHHHHHHHHhhc-CCCeEEecCCccCHHHHHHHHHCCCEEeec------CcccCCCCCEEEEeC
Confidence 5899999999999999999999988643 5789999999999999999999997 7775 468888899999999
Q ss_pred CCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccCC-cEEEEcChhhHHHhhhh
Q 016960 105 FGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAG-KYIIVKNMKEAEYVCDY 183 (380)
Q Consensus 105 HGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~~-~~~vv~~~~e~~~~~~~ 183 (380)
||+||+++++|+++|+.|||||||||+|+|+.|++++++||+|||+|+++||||+|+.||++ .++||++++|++.+.
T Consensus 74 HGv~~~~~~~~~~~gl~viDaTCP~V~kv~~~v~~~~~~Gy~iiiiG~~~HpEv~gi~g~~~~~~~vv~~~~d~~~l~-- 151 (280)
T TIGR00216 74 HGVPPEVREELEKKGLEVIDATCPLVTKVHNAVKKYAKEGYHVILIGKKNHPEVIGTRGYAPDKAIVVETLEDLENFK-- 151 (280)
T ss_pred CCCCHHHHHHHHHCCCeEEeCCCcccHHHHHHHHHHHhCCCEEEEEeCCCCCeeeeeccCcCCCEEEECCHHHHHhCC--
Confidence 99999999999999999999999999999999999999999999999999999999999996 578999999887640
Q ss_pred hcCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccc
Q 016960 184 ILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTI 263 (380)
Q Consensus 184 ~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTI 263 (380)
. .+++++++||||+.++|++|+++|+++||. .++.++|||
T Consensus 152 -----------------------------~---~~~v~vvsQTT~~~~~~~~i~~~l~~~~~~--------~~~~~~nTI 191 (280)
T TIGR00216 152 -----------------------------V---EDLLGVVSQTTLSQEDTKEIVAELKARVPQ--------KEVPVFNTI 191 (280)
T ss_pred -----------------------------C---CCcEEEEEcCCCcHHHHHHHHHHHHHhCCC--------cCCCCCCCc
Confidence 1 258999999999999999999999885443 246789999
Q ss_pred cHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCC
Q 016960 264 CDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPK 343 (380)
Q Consensus 264 C~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~ 343 (380)
|+||++||+|+++|| +++|+||||||+|||||+||+++|++.|+++||||+++||++ +|| .
T Consensus 192 C~AT~~RQ~a~~~la-~~vD~miVVGg~nSsNT~rL~ei~~~~~~~t~~Ie~~~el~~-----------------~~l-~ 252 (280)
T TIGR00216 192 CYATQNRQDAVKELA-PEVDLMIVIGGKNSSNTTRLYEIAEEHGPPSYLIETAEELPE-----------------EWL-K 252 (280)
T ss_pred ccccHHHHHHHHHHH-hhCCEEEEECCCCCchHHHHHHHHHHhCCCEEEECChHHCCH-----------------HHh-C
Confidence 999999999999999 699999999999999999999999999999999999999999 999 6
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHhh
Q 016960 344 GQITIGITSGASTPDKAVEDVLKKVFEI 371 (380)
Q Consensus 344 ~~~~VGITAGASTP~~lI~eV~~~l~~~ 371 (380)
++++||||||||||+|+|++|+++|+++
T Consensus 253 ~~~~VGiTAGASTP~~li~eVi~~l~~~ 280 (280)
T TIGR00216 253 GVKVVGITAGASTPDWIIEEVIRKIKEL 280 (280)
T ss_pred CCCEEEEEecCCCCHHHHHHHHHHHHhC
Confidence 8999999999999999999999999763
No 5
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=100.00 E-value=1.7e-99 Score=739.15 Aligned_cols=282 Identities=33% Similarity=0.547 Sum_probs=261.3
Q ss_pred eEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcC
Q 016960 25 VKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPA 104 (380)
Q Consensus 25 mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrA 104 (380)
|+|++|+++||||||+|||++|++++.++ +++||+||||||||+|+++|+++||.++++ ++++++|++|||||
T Consensus 1 MkI~lA~~~GFC~GV~rAi~~a~~~~~~~-~~~iytlG~iIHN~~vv~~L~~~GV~~v~~------~~~v~~~~~ViirA 73 (298)
T PRK01045 1 MKILLANPRGFCAGVDRAIEIVERALEKY-GAPIYVRHEIVHNRYVVERLEKKGAIFVEE------LDEVPDGAIVIFSA 73 (298)
T ss_pred CEEEEeCCCCCCccHHHHHHHHHHHHHhc-CCCeEEEecCccCHHHHHHHHHCCCEEecC------cccCCCCCEEEEeC
Confidence 89999999999999999999999987654 478999999999999999999999999974 67888899999999
Q ss_pred CCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccCC-cEEEEcChhhHHHhhhh
Q 016960 105 FGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAG-KYIIVKNMKEAEYVCDY 183 (380)
Q Consensus 105 HGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~~-~~~vv~~~~e~~~~~~~ 183 (380)
||+||++++.|+++|+.|||||||||+|+|+.|++++++||+|||+|+++||||+|+.||++ .++||++++|++++.
T Consensus 74 HGv~~~~~~~~~~~g~~viDaTCP~V~k~~~~v~~~~~~Gy~vvi~G~~~HpEv~gi~g~~~~~~~vv~~~~e~~~l~-- 151 (298)
T PRK01045 74 HGVSPAVREEAKERGLTVIDATCPLVTKVHKEVARMSREGYEIILIGHKGHPEVEGTMGQAPGGVYLVESPEDVAKLE-- 151 (298)
T ss_pred CCCCHHHHHHHHHCCCeEEeCCCccchHHHHHHHHHHhCCCEEEEEeCCCCCeeeeeccCcCCCEEEEcCHHHHhhcc--
Confidence 99999999999999999999999999999999999999999999999999999999999996 578999999987651
Q ss_pred hcCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccc--cc
Q 016960 184 ILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFIS--FN 261 (380)
Q Consensus 184 ~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~--~n 261 (380)
+ .+.++++++|||||+.++|++|+++|+++| +++++ +|
T Consensus 152 -----------------------------~-~~~~~v~vvsQTT~~~~~~~~i~~~l~~~~----------~~~~v~~~n 191 (298)
T PRK01045 152 -----------------------------V-KDPDKLALVTQTTLSVDDTAEIIAALKERF----------PEIQGPPKD 191 (298)
T ss_pred -----------------------------c-CCCCcEEEEEcCCCcHHHHHHHHHHHHHhC----------cCcccCCCC
Confidence 0 123689999999999999999999998743 23455 99
Q ss_pred cccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccC
Q 016960 262 TICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWL 341 (380)
Q Consensus 262 TIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl 341 (380)
|||+||++||+|+++|| +++|+||||||+|||||+||+++|++.|+++||||+++||++ +||
T Consensus 192 TIC~aT~~RQ~a~~~La-~~vD~miVVGg~~SsNT~kL~~i~~~~~~~t~~Ie~~~el~~-----------------~~l 253 (298)
T PRK01045 192 DICYATQNRQEAVKELA-PQADLVIVVGSKNSSNSNRLREVAEEAGAPAYLIDDASEIDP-----------------EWF 253 (298)
T ss_pred CcchhhHHHHHHHHHHH-hhCCEEEEECCCCCccHHHHHHHHHHHCCCEEEECChHHCcH-----------------HHh
Confidence 99999999999999999 699999999999999999999999999999999999999999 999
Q ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHhhhhh
Q 016960 342 PKGQITIGITSGASTPDKAVEDVLKKVFEIKRE 374 (380)
Q Consensus 342 ~~~~~~VGITAGASTP~~lI~eV~~~l~~~~~~ 374 (380)
.++.+||||||||||+|+|++|+.+|+++.+.
T Consensus 254 -~~~~~VGitaGASTP~~li~eV~~~l~~~~~~ 285 (298)
T PRK01045 254 -KGVKTVGVTAGASAPEWLVQEVIARLKELGAT 285 (298)
T ss_pred -cCCCEEEEEecCCCCHHHHHHHHHHHHHhCCC
Confidence 79999999999999999999999999988543
No 6
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=100.00 E-value=3.9e-100 Score=738.90 Aligned_cols=279 Identities=39% Similarity=0.625 Sum_probs=230.5
Q ss_pred EEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCC
Q 016960 27 VKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFG 106 (380)
Q Consensus 27 I~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHG 106 (380)
|++|+++||||||+|||++|++++++++ ++||+||||||||+|+++|+++||.++++ ++++|+|++|||||||
T Consensus 1 I~lA~~~GfC~GV~rAi~~a~~~~~~~~-~~vy~lG~iIHN~~vv~~L~~~Gv~~v~~------~~~~~~g~~ViirAHG 73 (281)
T PF02401_consen 1 IILAKPAGFCFGVKRAIEIAEEALEEYP-GPVYTLGPIIHNPQVVERLEKRGVKVVDD------IDEVPEGDTVIIRAHG 73 (281)
T ss_dssp EEE-TT-SS-HHHHHHHHHHHHHCCCHS-S-EEECS-SSS-HHHHHHHHHCTEEEESS------GCGS-TTEEEEE-TT-
T ss_pred CEecCCCCcCccHHHHHHHHHHHHHhcC-CCEEEecCcccCHHHHHHHHHCCCEEecC------ccccCCCCEEEEeCCC
Confidence 7899999999999999999999998754 58999999999999999999999999984 5788899999999999
Q ss_pred CCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccCC--cEEEEcChhhHHHhhhhh
Q 016960 107 AAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAG--KYIIVKNMKEAEYVCDYI 184 (380)
Q Consensus 107 v~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~~--~~~vv~~~~e~~~~~~~~ 184 (380)
+||+++++|+++|+.|||||||||+|+|++|++++++||+|||+|+++||||+|++||++ +++||++.+|++.+.
T Consensus 74 v~~~~~~~l~~~g~~viDaTCP~V~k~~~~v~~~~~~Gy~iviiG~~~HpEv~gi~g~~~~~~~~vv~~~~~~~~l~--- 150 (281)
T PF02401_consen 74 VPPEVYEELKERGLEVIDATCPFVKKIHKIVRKYAKEGYQIVIIGDKNHPEVIGILGYAPEEKAIVVESPEDVEKLP--- 150 (281)
T ss_dssp --HHHHHHHHHTTEEEEE---HHHHHHHHHHHHHHHCT-EEEEES-TT-HHHHHHHCCHHTS-EEEESSHHHHHHGG---
T ss_pred CCHHHHHHHHHcCCEEEECCChhHHHHHHHHHHHHhcCCEEEEECCCCCceEEEecccccCCceEEeCChhhhcccC---
Confidence 999999999999999999999999999999999999999999999999999999999997 679999999987651
Q ss_pred cCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHHHHhhhccccccccccccccccc
Q 016960 185 LGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTIC 264 (380)
Q Consensus 185 ~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC 264 (380)
..+.+++++|+||||+.++|++|+++|+++|++.. +.++||||
T Consensus 151 -----------------------------~~~~~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~--------~~~~nTIC 193 (281)
T PF02401_consen 151 -----------------------------ISDPKKVAVVSQTTQSVEKFEEIVEALKKRFPELE--------GPVFNTIC 193 (281)
T ss_dssp -----------------------------GSSTTCEEEEE-TTS-HHHHHHHHHHHHHHSTCEE---------SCC-S--
T ss_pred -----------------------------CCCCCeEEEEEeecccHHHHHHHHHHHHHhCcccc--------CCCCCCCC
Confidence 11236999999999999999999999998544332 34899999
Q ss_pred HHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCCC
Q 016960 265 DATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKG 344 (380)
Q Consensus 265 ~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~ 344 (380)
+||++||+|+++|| ++||+||||||+|||||+|||++|++.|+++||||+++||++ +|| ++
T Consensus 194 ~aT~~RQ~a~~~La-~~vD~miVIGg~~SsNT~kL~eia~~~~~~t~~Ie~~~el~~-----------------~~l-~~ 254 (281)
T PF02401_consen 194 YATQNRQEAARELA-KEVDAMIVIGGKNSSNTRKLAEIAKEHGKPTYHIETADELDP-----------------EWL-KG 254 (281)
T ss_dssp CHHHHHHHHHHHHH-CCSSEEEEES-TT-HHHHHHHHHHHHCTTCEEEESSGGG--H-----------------HHH-TT
T ss_pred HhHHHHHHHHHHHH-hhCCEEEEecCCCCccHHHHHHHHHHhCCCEEEeCCccccCH-----------------hHh-CC
Confidence 99999999999999 799999999999999999999999999999999999999998 999 78
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHhh
Q 016960 345 QITIGITSGASTPDKAVEDVLKKVFEI 371 (380)
Q Consensus 345 ~~~VGITAGASTP~~lI~eV~~~l~~~ 371 (380)
+++||||||||||+|+|++|+++|++|
T Consensus 255 ~~~VGItaGASTP~~ii~eVi~~l~~~ 281 (281)
T PF02401_consen 255 VKKVGITAGASTPDWIIEEVIDRLEEI 281 (281)
T ss_dssp -SEEEEEE-TTS-HHHHHHHHHHHHHH
T ss_pred CCEEEEEccCCCCHHHHHHHHHHHhcC
Confidence 999999999999999999999999875
No 7
>COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]
Probab=100.00 E-value=6.1e-99 Score=724.05 Aligned_cols=283 Identities=35% Similarity=0.579 Sum_probs=264.7
Q ss_pred ceEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEc
Q 016960 24 NVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLP 103 (380)
Q Consensus 24 ~mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIr 103 (380)
.|+|+||+|+||||||+|||++|++++++++ +|||++||||||++|+++|+++|+.|+++ ++++|+|++||||
T Consensus 1 ~~~I~lA~prGFCaGV~RAI~ive~al~~~g-~pIyv~~eIVHN~~Vv~~L~~~g~~fve~------l~e~p~~~~VIfs 73 (294)
T COG0761 1 MMKILLAKPRGFCAGVDRAIQIVERALEEYG-APIYVRHEIVHNRYVVDRLREKGAIFVEE------LDEVPDGATVIFS 73 (294)
T ss_pred CceEEEecCCccchhHHHHHHHHHHHHHHcC-CCeEEEeccccCHHHHHHHHHcCCEeccc------cccCCCCCEEEEE
Confidence 4899999999999999999999999999884 78999999999999999999999999973 6889999999999
Q ss_pred CCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecc-cCC-cEEEEcChhhHHHhh
Q 016960 104 AFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATAS-FAG-KYIIVKNMKEAEYVC 181 (380)
Q Consensus 104 AHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g-~~~-~~~vv~~~~e~~~~~ 181 (380)
|||+||++++.|++||+.++|||||||+|+|+.|++++++||+||++|+++||||+|++| |++ ..+++++++|+..+.
T Consensus 74 AHGVs~~v~~~a~~r~l~v~DATCPlVtKvh~~v~~~~~~G~~iIliG~~gHpEv~Gt~Gq~~~~~~~lve~~~d~~~l~ 153 (294)
T COG0761 74 AHGVSPAVREEAKERGLKVIDATCPLVTKVHKEVERYAREGYEIILIGHKGHPEVIGTMGQYPEGGVLLVESVEDVANLK 153 (294)
T ss_pred CCCCCHHHHHHHHHCCCEEEecCCCcchHHHHHHHHHHhCCCEEEEEccCCCCceeeeccccCCCceEEEecHHHHHhcc
Confidence 999999999999999999999999999999999999999999999999999999999999 555 389999999997751
Q ss_pred hhhcCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccc
Q 016960 182 DYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFN 261 (380)
Q Consensus 182 ~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~n 261 (380)
.. ..+++++++|||+|.++|.+|+++|+.+||+. ++.++|
T Consensus 154 -----------------------------~~---~~~~l~~~tQTTls~ddt~~Iv~~l~~r~p~~--------~~~~~~ 193 (294)
T COG0761 154 -----------------------------VQ---LPDKLAFVTQTTLSVDDTAEIVAALKERFPKI--------EVPPFN 193 (294)
T ss_pred -----------------------------cC---CcccEEEEeeeecCHHHHHHHHHHHHHhCccc--------cCCccc
Confidence 11 12489999999999999999999999876654 356789
Q ss_pred cccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccC
Q 016960 262 TICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWL 341 (380)
Q Consensus 262 TIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl 341 (380)
||||||++||+|+++|| .+||+||||||+|||||+||+|+|++.|.++|+|++++||++ +||
T Consensus 194 ~ICyAT~nRQ~Avk~la-~~~Dl~iVVG~~nSSNs~rL~eiA~~~g~~aylId~~~ei~~-----------------~w~ 255 (294)
T COG0761 194 DICYATQNRQDAVKELA-PEVDLVIVVGSKNSSNSNRLAEIAKRHGKPAYLIDDAEEIDP-----------------EWL 255 (294)
T ss_pred ccchhhhhHHHHHHHHh-hcCCEEEEECCCCCccHHHHHHHHHHhCCCeEEeCChHhCCH-----------------HHh
Confidence 99999999999999999 699999999999999999999999999999999999999999 999
Q ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHhhh
Q 016960 342 PKGQITIGITSGASTPDKAVEDVLKKVFEIK 372 (380)
Q Consensus 342 ~~~~~~VGITAGASTP~~lI~eV~~~l~~~~ 372 (380)
.+.++||||||||||||||++|+.+|+++.
T Consensus 256 -~~~~~VGvTAGAStPd~lV~~Vi~~l~~~~ 285 (294)
T COG0761 256 -KGVKTVGVTAGASTPDWLVQEVIAKLRELG 285 (294)
T ss_pred -cCccEEEEecCCCCCHHHHHHHHHHHHHhc
Confidence 689999999999999999999999999986
No 8
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=100.00 E-value=3.7e-91 Score=741.35 Aligned_cols=277 Identities=34% Similarity=0.568 Sum_probs=260.2
Q ss_pred eEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcC
Q 016960 25 VKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPA 104 (380)
Q Consensus 25 mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrA 104 (380)
|+|++|+++||||||+|||++|+++++++ +++||+||||||||+|+++|+++||.++++ ++++++|++|||||
T Consensus 1 m~i~~a~~~GfC~GV~rAi~~~~~~~~~~-~~~i~~lg~ivHN~~vv~~l~~~Gv~~v~~------~~~~~~~~~vii~a 73 (647)
T PRK00087 1 MEIILAKKAGFCFGVKRAVDTAIKTAEEL-KGKIYTLGPLIHNNQVVEKLKKKGIKPIED------IDELNEGDTIIIRS 73 (647)
T ss_pred CEEEEeCCCCcCccHHHHHHHHHHHHHhc-CCCEEEeCCCcCCHHHHHHHHHCCCEEeCC------HhhCCCCCEEEEeC
Confidence 89999999999999999999999987655 478999999999999999999999999974 68888899999999
Q ss_pred CCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccCC-cEEEEcChhhHHHhhhh
Q 016960 105 FGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAG-KYIIVKNMKEAEYVCDY 183 (380)
Q Consensus 105 HGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~~-~~~vv~~~~e~~~~~~~ 183 (380)
||+||++++.|+++|+.|||||||||+|+|+.|++++++||+|||+|+++||||+|+.||++ .++||++++|++.+.
T Consensus 74 HG~~~~~~~~~~~~~~~viDaTCP~V~k~~~~~~~~~~~g~~ivi~G~~~HpEv~g~~g~~~~~~~vv~~~~~~~~~~-- 151 (647)
T PRK00087 74 HGVPPEVLEELKDKGLKVIDATCPFVKNIQKLAKKYYEEGYQIVIVGDKNHPEVIGINGWCNNSAIIVEDGEEAEKLP-- 151 (647)
T ss_pred CCCCHHHHHHHHHCCCeEEECCCcCchHHHHHHHHHHhCCCEEEEEeCCCCCeeeeeccccCCCEEEECCHHHHhhCC--
Confidence 99999999999999999999999999999999999999999999999999999999999996 579999999987641
Q ss_pred hcCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccc
Q 016960 184 ILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTI 263 (380)
Q Consensus 184 ~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTI 263 (380)
. .+++++++||||+.++|++|++.|+++ .++++++|||
T Consensus 152 -----------------------------~---~~~~~~~~QTT~~~~~~~~~~~~l~~~----------~~~~~~~~ti 189 (647)
T PRK00087 152 -----------------------------F---DKKICVVSQTTEKQENFEKVLKELKKK----------GKEVKVFNTI 189 (647)
T ss_pred -----------------------------C---CCCEEEEEcCCCcHHHHHHHHHHHHHh----------CCCcccCCCc
Confidence 1 258999999999999999999999873 2457789999
Q ss_pred cHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCC
Q 016960 264 CDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPK 343 (380)
Q Consensus 264 C~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~ 343 (380)
|+||++||+|+++|| +++|+||||||+|||||+||+++|++.|++|||||+++||++ +|| .
T Consensus 190 C~at~~Rq~a~~~la-~~~d~~~vvGg~~SsNt~~L~~i~~~~~~~~~~ie~~~el~~-----------------~~~-~ 250 (647)
T PRK00087 190 CNATEVRQEAAEKLA-KKVDVMIVVGGKNSSNTTKLYEICKSNCTNTIHIENAGELPE-----------------EWF-K 250 (647)
T ss_pred chhhhhHHHHHHHHH-hhCCEEEEECCCCCccHHHHHHHHHHHCCCEEEECChHHCCH-----------------HHh-C
Confidence 999999999999999 799999999999999999999999999999999999999999 999 6
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHhh
Q 016960 344 GQITIGITSGASTPDKAVEDVLKKVFEI 371 (380)
Q Consensus 344 ~~~~VGITAGASTP~~lI~eV~~~l~~~ 371 (380)
++.+||||||||||+|+|++|+.+|+++
T Consensus 251 ~~~~vgitagaStP~~~i~~v~~~l~~~ 278 (647)
T PRK00087 251 GVKIIGVTAGASTPDWIIEEVIKKMSEL 278 (647)
T ss_pred CCCEEEEEeccCCCHHHHHHHHHHHHHh
Confidence 8999999999999999999999999976
No 9
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=96.42 E-value=0.061 Score=53.24 Aligned_cols=173 Identities=19% Similarity=0.174 Sum_probs=113.7
Q ss_pred CcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHH--H-cCcEEecCCccccccccccCCCEEEEcCCCCCH--
Q 016960 35 FCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLE--E-MAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAV-- 109 (380)
Q Consensus 35 FC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~--~-~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~-- 109 (380)
=|.=|+++-+.+.+..++ +-.|.+.|+-=| |.|..-+- . ....++++.+..+.+..-.+....++.=--.+.
T Consensus 93 TCP~V~k~~~~v~~~~~~--Gy~iviiG~~~H-pEv~gi~g~~~~~~~~vv~~~~~~~~l~~~~~~kv~vvsQTT~~~~~ 169 (281)
T PF02401_consen 93 TCPFVKKIHKIVRKYAKE--GYQIVIIGDKNH-PEVIGILGYAPEEKAIVVESPEDVEKLPISDPKKVAVVSQTTQSVEK 169 (281)
T ss_dssp --HHHHHHHHHHHHHHHC--T-EEEEES-TT--HHHHHHHCCHHTS-EEEESSHHHHHHGGGSSTTCEEEEE-TTS-HHH
T ss_pred CChhHHHHHHHHHHHHhc--CCEEEEECCCCC-ceEEEecccccCCceEEeCChhhhcccCCCCCCeEEEEEeecccHHH
Confidence 378888888888887765 458999999666 55554442 1 345666654322222211123467777777777
Q ss_pred --HHHHHHHhcCCcEE----eccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccC----CcEEEEcChhhHHH
Q 016960 110 --EEMVTLNNKNVQIV----DTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFA----GKYIIVKNMKEAEY 179 (380)
Q Consensus 110 --~~~~~l~~~g~~vi----DaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~----~~~~vv~~~~e~~~ 179 (380)
++.+.|+++.-.+. |+-|+--..=|..+++++++-.-+|++|.++-.-+.=+...| .+++.|++.+|+..
T Consensus 170 ~~~i~~~l~~~~~~~~~~~~nTIC~aT~~RQ~a~~~La~~vD~miVIGg~~SsNT~kL~eia~~~~~~t~~Ie~~~el~~ 249 (281)
T PF02401_consen 170 FEEIVEALKKRFPELEGPVFNTICYATQNRQEAARELAKEVDAMIVIGGKNSSNTRKLAEIAKEHGKPTYHIETADELDP 249 (281)
T ss_dssp HHHHHHHHHHHSTCEE-SCC-S--CHHHHHHHHHHHHHCCSSEEEEES-TT-HHHHHHHHHHHHCTTCEEEESSGGG--H
T ss_pred HHHHHHHHHHhCccccCCCCCCCCHhHHHHHHHHHHHHhhCCEEEEecCCCCccHHHHHHHHHHhCCCEEEeCCccccCH
Confidence 46677888887776 999999999999999999999999999999998888776544 46899999999852
Q ss_pred hhhhhcCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHH
Q 016960 180 VCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEK 242 (380)
Q Consensus 180 ~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~ 242 (380)
- + |. ..++||+.+=+.=+.+..++++++|++
T Consensus 250 ~------------------~---l~-----------~~~~VGItaGASTP~~ii~eVi~~l~~ 280 (281)
T PF02401_consen 250 E------------------W---LK-----------GVKKVGITAGASTPDWIIEEVIDRLEE 280 (281)
T ss_dssp H------------------H---HT-----------T-SEEEEEE-TTS-HHHHHHHHHHHHH
T ss_pred h------------------H---hC-----------CCCEEEEEccCCCCHHHHHHHHHHHhc
Confidence 1 1 11 125899999999999999999998864
No 10
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=94.04 E-value=0.54 Score=47.05 Aligned_cols=170 Identities=13% Similarity=0.167 Sum_probs=119.2
Q ss_pred CcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHc--CcEEecCCccccccccc--cC-CCEEEEcCCCCCH
Q 016960 35 FCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEM--AVQNIPVEEGKKQFDVV--NK-GDVVVLPAFGAAV 109 (380)
Q Consensus 35 FC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~--Gv~~v~~~~~~~~~~el--~~-g~~VIIrAHGv~~ 109 (380)
=|.=|+++-..+.+..++ +-.|.++|+==| |.|..-+--- ...++.+.+ +++.+ +. ....++.=--.+.
T Consensus 95 TCP~V~k~~~~v~~~~~~--Gy~vvi~G~~~H-pEv~gi~g~~~~~~~vv~~~~---e~~~l~~~~~~~v~vvsQTT~~~ 168 (298)
T PRK01045 95 TCPLVTKVHKEVARMSRE--GYEIILIGHKGH-PEVEGTMGQAPGGVYLVESPE---DVAKLEVKDPDKLALVTQTTLSV 168 (298)
T ss_pred CCccchHHHHHHHHHHhC--CCEEEEEeCCCC-CeeeeeccCcCCCEEEEcCHH---HHhhcccCCCCcEEEEEcCCCcH
Confidence 377788888888777664 356888888555 3333322211 133454432 23333 22 3345665555555
Q ss_pred H----HHHHHHhcC--CcE--EeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccC----CcEEEEcChhhH
Q 016960 110 E----EMVTLNNKN--VQI--VDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFA----GKYIIVKNMKEA 177 (380)
Q Consensus 110 ~----~~~~l~~~g--~~v--iDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~----~~~~vv~~~~e~ 177 (380)
+ +.+.|+++. +.+ .|+-|.-...=|..+++++++=--+|++|.++-.-+.=+...| .+++.|++.+|+
T Consensus 169 ~~~~~i~~~l~~~~~~~~v~~~nTIC~aT~~RQ~a~~~La~~vD~miVVGg~~SsNT~kL~~i~~~~~~~t~~Ie~~~el 248 (298)
T PRK01045 169 DDTAEIIAALKERFPEIQGPPKDDICYATQNRQEAVKELAPQADLVIVVGSKNSSNSNRLREVAEEAGAPAYLIDDASEI 248 (298)
T ss_pred HHHHHHHHHHHHhCcCcccCCCCCcchhhHHHHHHHHHHHhhCCEEEEECCCCCccHHHHHHHHHHHCCCEEEECChHHC
Confidence 5 555566665 777 9999999999999999999999999999999999888776544 368899999987
Q ss_pred HHhhhhhcCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHH
Q 016960 178 EYVCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEK 242 (380)
Q Consensus 178 ~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~ 242 (380)
.. ++ | . +.++||+.+=+.=+....++++.+|+.
T Consensus 249 ~~------------------~~---l--------~---~~~~VGitaGASTP~~li~eV~~~l~~ 281 (298)
T PRK01045 249 DP------------------EW---F--------K---GVKTVGVTAGASAPEWLVQEVIARLKE 281 (298)
T ss_pred cH------------------HH---h--------c---CCCEEEEEecCCCCHHHHHHHHHHHHH
Confidence 42 11 1 1 225899999999999999999999876
No 11
>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming). Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response.
Probab=91.79 E-value=1.4 Score=43.73 Aligned_cols=170 Identities=15% Similarity=0.115 Sum_probs=115.5
Q ss_pred CcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHH--cCcEEecCCccccccccccC-CCEEEEcCCCCCHH-
Q 016960 35 FCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEE--MAVQNIPVEEGKKQFDVVNK-GDVVVLPAFGAAVE- 110 (380)
Q Consensus 35 FC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~--~Gv~~v~~~~~~~~~~el~~-g~~VIIrAHGv~~~- 110 (380)
=|.=|+++-..+.+..++ +-.|.+.|+==| |.|..-+-. ....++.+.+ +++.++. ....++.=--.+.+
T Consensus 95 TCP~V~kv~~~v~~~~~~--Gy~iiiiG~~~H-pEv~gi~g~~~~~~~vv~~~~---d~~~l~~~~~v~vvsQTT~~~~~ 168 (280)
T TIGR00216 95 TCPLVTKVHNAVKKYAKE--GYHVILIGKKNH-PEVIGTRGYAPDKAIVVETLE---DLENFKVEDLLGVVSQTTLSQED 168 (280)
T ss_pred CCcccHHHHHHHHHHHhC--CCEEEEEeCCCC-CeeeeeccCcCCCEEEECCHH---HHHhCCCCCcEEEEEcCCCcHHH
Confidence 366677777777766664 346777777544 333322211 1234454432 2333332 23445555555555
Q ss_pred ---HHHHHHhcC----CcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccC----CcEEEEcChhhHHH
Q 016960 111 ---EMVTLNNKN----VQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFA----GKYIIVKNMKEAEY 179 (380)
Q Consensus 111 ---~~~~l~~~g----~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~----~~~~vv~~~~e~~~ 179 (380)
+.+.|+++. ..+.|+-|.-...=|+.+++++++=--+|++|.++-.-+.=+...| .+++.|++.+|+..
T Consensus 169 ~~~i~~~l~~~~~~~~~~~~nTIC~AT~~RQ~a~~~la~~vD~miVVGg~nSsNT~rL~ei~~~~~~~t~~Ie~~~el~~ 248 (280)
T TIGR00216 169 TKEIVAELKARVPQKEVPVFNTICYATQNRQDAVKELAPEVDLMIVIGGKNSSNTTRLYEIAEEHGPPSYLIETAEELPE 248 (280)
T ss_pred HHHHHHHHHHhCCCcCCCCCCCcccccHHHHHHHHHHHhhCCEEEEECCCCCchHHHHHHHHHHhCCCEEEECChHHCCH
Confidence 444577766 7789999999999999999999999999999999999888776443 36889999998742
Q ss_pred hhhhhcCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHH
Q 016960 180 VCDYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEK 242 (380)
Q Consensus 180 ~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~ 242 (380)
+ . | . +.++||+.+=+.=+....++++++|++
T Consensus 249 -----------------~-~---l--------~---~~~~VGiTAGASTP~~li~eVi~~l~~ 279 (280)
T TIGR00216 249 -----------------E-W---L--------K---GVKVVGITAGASTPDWIIEEVIRKIKE 279 (280)
T ss_pred -----------------H-H---h--------C---CCCEEEEEecCCCCHHHHHHHHHHHHh
Confidence 1 1 1 1 125899999999999999999888753
No 12
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=91.25 E-value=2.2 Score=42.43 Aligned_cols=170 Identities=17% Similarity=0.127 Sum_probs=114.5
Q ss_pred CcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHc--CcEEecCCccccccccccC-CCEEEEcCCCCCHHH
Q 016960 35 FCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEM--AVQNIPVEEGKKQFDVVNK-GDVVVLPAFGAAVEE 111 (380)
Q Consensus 35 FC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~--Gv~~v~~~~~~~~~~el~~-g~~VIIrAHGv~~~~ 111 (380)
=|.=|+++-..+.+..++ +-.|.+.|+==| |.|..-+-.- ...++++.+ +++.++. ....++.=--.+.+.
T Consensus 98 TCP~V~k~~~~v~~~~~~--Gy~iviiG~~~H-pEv~gi~g~~~~~~~vv~~~~---d~~~l~~~~kv~~vsQTT~~~~~ 171 (281)
T PRK12360 98 TCPFVKKIQNIVEEYYNK--GYSIIIVGDKNH-PEVIGINGWCDNSAYIVNSIE---EVENIPFLDKACVVAQTTIIPEL 171 (281)
T ss_pred CCccchHHHHHHHHHHhC--CCEEEEEcCCCC-ceeeEeccCcCCCeEEECCHH---HHhhCccccCEEEEECCCCcHHH
Confidence 377777777777776664 346777787444 3333322111 133454432 2333332 334555555555554
Q ss_pred H----HHHHhcC--CcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccC----CcEEEEcChhhHHHhh
Q 016960 112 M----VTLNNKN--VQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFA----GKYIIVKNMKEAEYVC 181 (380)
Q Consensus 112 ~----~~l~~~g--~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~----~~~~vv~~~~e~~~~~ 181 (380)
+ +.|+++. +.+.|+-|.-...=|..+++++++=--+|++|.++-.-+.=+...| .+++.|++.+|+..
T Consensus 172 ~~~iv~~l~~~~~~~~v~~TIC~aT~~RQ~a~~~La~~vD~miVVGg~~SsNT~rL~eia~~~~~~t~~Ie~~~el~~-- 249 (281)
T PRK12360 172 WEDILNVIKLKSKELVFFNTICSATKKRQESAKELSKEVDVMIVIGGKHSSNTQKLVKICEKNCPNTFHIETADELDL-- 249 (281)
T ss_pred HHHHHHHHHHhCcccccCCCcchhhhhHHHHHHHHHHhCCEEEEecCCCCccHHHHHHHHHHHCCCEEEECChHHCCH--
Confidence 3 4455554 6669999999999999999999999999999999998888766443 45889999998742
Q ss_pred hhhcCCCCCCCCChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHH
Q 016960 182 DYILGGELNGSSSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEK 242 (380)
Q Consensus 182 ~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~ 242 (380)
++ |+ ..++||+.+=+.=+....++++++|++
T Consensus 250 ----------------~~---~~-----------~~~~VGitaGASTP~~li~eV~~~l~~ 280 (281)
T PRK12360 250 ----------------EM---LK-----------DYKIIGITAGASTPDWIIEEVIKKIKN 280 (281)
T ss_pred ----------------HH---hC-----------CCCEEEEEccCCCCHHHHHHHHHHHHh
Confidence 11 11 125899999999999999999988763
No 13
>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=89.70 E-value=3 Score=37.45 Aligned_cols=90 Identities=18% Similarity=0.239 Sum_probs=58.2
Q ss_pred eeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 219 KVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 219 kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
+++++.+.+ ...-+..+.+-++....+. + -++.++++-... ...++.+.++.+..+|++|+.+...++- .
T Consensus 1 ~ig~v~~~~-~~~~~~~~~~g~~~~~~~~-g-----~~l~~~~~~~~~-~~~~~~~~~~~~~~~d~ii~~~~~~~~~-~- 70 (264)
T cd01537 1 TIGVLVPDL-DNPFFAQVLKGIEEAAKAA-G-----YQVLLANSQNDA-EKQLSALENLIARGVDGIIIAPSDLTAP-T- 70 (264)
T ss_pred CeEEEEcCC-CChHHHHHHHHHHHHHHHc-C-----CeEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEEecCCCcch-h-
Confidence 477888776 4456777777777643332 2 245555555543 2344556666656899999877655543 3
Q ss_pred HHHHHHHhCCCeEeeCCCCc
Q 016960 299 LQEIAEDRGIPSYWIDSEKR 318 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~~d 318 (380)
+++.+.+.+.|.+.+.+..+
T Consensus 71 ~~~~l~~~~ip~v~~~~~~~ 90 (264)
T cd01537 71 IVKLARKAGIPVVLVDRDIP 90 (264)
T ss_pred HHHHhhhcCCCEEEeccCCC
Confidence 67888888899988876643
No 14
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=87.87 E-value=6.1 Score=37.69 Aligned_cols=152 Identities=18% Similarity=0.214 Sum_probs=89.0
Q ss_pred cchhHHHHHHHcCCcce-ecc--------eEEEEeCCCCCccc---HHHHHHHHHHHHhhCC-----CCceEEecccccC
Q 016960 5 YTSDIIKKLKENGFEYT-WGN--------VKVKLAESYGFCWG---VERAVQIAYEARKQFP-----EEKIWITNEIIHN 67 (380)
Q Consensus 5 ~~~~~~~~~~~~~~~~~-~g~--------mkI~lA~~~GFC~G---V~RAI~~a~~~~~~~~-----~~~Iy~lG~LIHN 67 (380)
.-++....|+..|+... +-. ++..+..-.+|++= =.+|++...+.+.... ..++++.|+
T Consensus 12 ~~~~~~~~l~~~G~~~~~~P~i~~~~~~~l~~~l~~l~~~d~vvfTS~~av~~~~~~l~~~~~~~~~~~~i~aVG~---- 87 (248)
T COG1587 12 QAEELAALLRKAGAEPLELPLIEIEPLPDLEVALEDLDSADWVVFTSPNAVRFFFEALKEQGLDALKNKKIAAVGE---- 87 (248)
T ss_pred hhHHHHHHHHhCCCcceeecceeeecchhHHHHHhccccCCEEEEECHHHHHHHHHHHHhhcccccccCeEEEEcH----
Confidence 45677788888886322 211 22222222233331 1455555555444322 368999995
Q ss_pred HHHHHHHHHcCcEEecCCcc---cccccccc---C-C-CEEEEcCCCCCHHHHHHHHhcCCcE-----EeccCchhHHHH
Q 016960 68 PTVNKRLEEMAVQNIPVEEG---KKQFDVVN---K-G-DVVVLPAFGAAVEEMVTLNNKNVQI-----VDTTCPWVSKVW 134 (380)
Q Consensus 68 ~~Vv~~L~~~Gv~~v~~~~~---~~~~~el~---~-g-~~VIIrAHGv~~~~~~~l~~~g~~v-----iDaTCP~V~kv~ 134 (380)
..-+.|++.|+...--.+. ...++.++ + | .++++|++|..+...+.|.++|..| +++.+|... .+
T Consensus 88 -~Ta~~l~~~G~~~~~~p~~~~~~~l~~~l~~~~~~~~~vl~~~~~~~r~~l~~~L~~~G~~v~~~~~Y~~~~~~~~-~~ 165 (248)
T COG1587 88 -KTAEALRKLGIKVDFIPEDGDSEGLLEELPELLKGGKRVLILRGNGGREVLEEKLEERGAEVREVEVYRTEPPPLD-EA 165 (248)
T ss_pred -HHHHHHHHhCCCCCcCCCccchHHHHHHhhhhccCCCeEEEEcCCCchHHHHHHHHhCCCEEEEEeeeeecCCCcc-HH
Confidence 6779999999875543221 11122222 2 2 4578888898889999999999988 444444444 55
Q ss_pred HHHHHHhhCCCeEEEEecCCCceeeeecccCCcEEEEcChhhHHHhhhh
Q 016960 135 TSVEKHKKGDYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYVCDY 183 (380)
Q Consensus 135 ~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~~~~~vv~~~~e~~~~~~~ 183 (380)
.....+...++. ++++.+...++.+.++
T Consensus 166 ~~~~~~~~~~~d---------------------~v~ftS~~~v~~~~~~ 193 (248)
T COG1587 166 TLIELLKLGEVD---------------------AVVFTSSSAVRALLAL 193 (248)
T ss_pred HHHHHHHhCCCC---------------------EEEEeCHHHHHHHHHH
Confidence 555555555544 4556666666665443
No 15
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=86.27 E-value=4.9 Score=44.06 Aligned_cols=167 Identities=15% Similarity=0.131 Sum_probs=115.7
Q ss_pred cCchhHHHHHHHHHHhhC-CCeEEEEecCCC-ceeeeecccCCcEEEEcChhhHHHhhhhhcCCCCCCCCChHHHHHHHH
Q 016960 126 TCPWVSKVWTSVEKHKKG-DYTSIIHGKYSH-EETVATASFAGKYIIVKNMKEAEYVCDYILGGELNGSSSTKEAFLEKF 203 (380)
Q Consensus 126 TCP~V~kv~~~v~~~~~~-Gy~iIIiG~~~H-pEv~gi~g~~~~~~vv~~~~e~~~~~~~~~~~~~~~~~~~~~~f~~~~ 203 (380)
-|.=|++.=+.|.+..++ |-.|...|.-=| |.|..-+- .....++.+.+++
T Consensus 11 fC~GV~rAi~~~~~~~~~~~~~i~~lg~ivHN~~vv~~l~-~~Gv~~v~~~~~~-------------------------- 63 (647)
T PRK00087 11 FCFGVKRAVDTAIKTAEELKGKIYTLGPLIHNNQVVEKLK-KKGIKPIEDIDEL-------------------------- 63 (647)
T ss_pred cCccHHHHHHHHHHHHHhcCCCEEEeCCCcCCHHHHHHHH-HCCCEEeCCHhhC--------------------------
Confidence 388889888889885544 778888887665 22221110 0123344443332
Q ss_pred HhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCC
Q 016960 204 KKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVD 283 (380)
Q Consensus 204 ~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD 283 (380)
|+ ....++.==-.+.+.++ .+++ + .+.+.|+-|+--..=|..+++++ .+-.
T Consensus 64 ---------~~---~~~vii~aHG~~~~~~~----~~~~----~--------~~~viDaTCP~V~k~~~~~~~~~-~~g~ 114 (647)
T PRK00087 64 ---------NE---GDTIIIRSHGVPPEVLE----ELKD----K--------GLKVIDATCPFVKNIQKLAKKYY-EEGY 114 (647)
T ss_pred ---------CC---CCEEEEeCCCCCHHHHH----HHHH----C--------CCeEEECCCcCchHHHHHHHHHH-hCCC
Confidence 10 12444444444444333 3343 1 26678999999999999999998 6899
Q ss_pred EEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCCCCCEEEEEeCCCCCHHHHHH
Q 016960 284 LILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAVED 363 (380)
Q Consensus 284 ~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGASTP~~lI~e 363 (380)
-+|++|.++=.-+.-+.--| ..+++.|++.+|++. + ...+++++++=+.-+.+..++
T Consensus 115 ~ivi~G~~~HpEv~g~~g~~---~~~~~vv~~~~~~~~-------------------~-~~~~~~~~~~QTT~~~~~~~~ 171 (647)
T PRK00087 115 QIVIVGDKNHPEVIGINGWC---NNSAIIVEDGEEAEK-------------------L-PFDKKICVVSQTTEKQENFEK 171 (647)
T ss_pred EEEEEeCCCCCeeeeecccc---CCCEEEECCHHHHhh-------------------C-CCCCCEEEEEcCCCcHHHHHH
Confidence 99999999988888877665 235899999999875 2 134789999999999999999
Q ss_pred HHHHHHhh
Q 016960 364 VLKKVFEI 371 (380)
Q Consensus 364 V~~~l~~~ 371 (380)
++++|.+-
T Consensus 172 ~~~~l~~~ 179 (647)
T PRK00087 172 VLKELKKK 179 (647)
T ss_pred HHHHHHHh
Confidence 99999864
No 16
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=85.79 E-value=8.3 Score=40.11 Aligned_cols=111 Identities=14% Similarity=0.068 Sum_probs=75.6
Q ss_pred CCcEEeccCchhHHHHHHHHHHhh-CCCeEEEEecCCCceeeeecccC----CcEEEEcChhhHHHhhhhhcCCCCCCCC
Q 016960 119 NVQIVDTTCPWVSKVWTSVEKHKK-GDYTSIIHGKYSHEETVATASFA----GKYIIVKNMKEAEYVCDYILGGELNGSS 193 (380)
Q Consensus 119 g~~viDaTCP~V~kv~~~v~~~~~-~Gy~iIIiG~~~HpEv~gi~g~~----~~~~vv~~~~e~~~~~~~~~~~~~~~~~ 193 (380)
.+.+.|+-|.-...=|+.++++++ +=--+|+||.++-.=+.=+.-.| .+++.|++.+|+..- +.|.+..+....
T Consensus 263 ~~~v~nTIC~AT~~RQ~A~~~La~~~vD~miVVGG~nSSNT~rL~eia~~~g~~ty~Ie~~~eL~~~-~~i~h~~~~~~~ 341 (387)
T PRK13371 263 HFLSFNTICDATQERQDAMFSLVEEPLDLMVVIGGYNSSNTTHLQEIAIERGIPSYHIDSPERILSG-NSIEHKPLGKEL 341 (387)
T ss_pred cccccCCcchhHHHHHHHHHHHhhcCCCEEEEECCCCCccHHHHHHHHHhcCCCEEEECCHHHcCCc-cccccccccchh
Confidence 677899999999999999999976 68899999999887776655333 368899999988521 001110000000
Q ss_pred ChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHHH
Q 016960 194 STKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEKT 243 (380)
Q Consensus 194 ~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~~ 243 (380)
.--+.++ .. ..++||+.+=+.-+....++++++|+..
T Consensus 342 ~~t~~wl-----------~~--~~~~VGITAGASTP~~lI~eVi~~l~~l 378 (387)
T PRK13371 342 VVTENWL-----------PE--GPVTVGITSGASTPDKVVEDVIEKIFAL 378 (387)
T ss_pred hhhhhhh-----------cc--CCCEEEEecCCCCCHHHHHHHHHHHHHh
Confidence 0000011 10 1258999999999999999999998763
No 17
>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=85.01 E-value=9.8 Score=34.99 Aligned_cols=133 Identities=17% Similarity=0.190 Sum_probs=77.1
Q ss_pred hhHHHHHHHcCCcceecc-eEEEE-----------e-----CCCCCcccHHHHHHHHHHHHh-------hCCCCceEEec
Q 016960 7 SDIIKKLKENGFEYTWGN-VKVKL-----------A-----ESYGFCWGVERAVQIAYEARK-------QFPEEKIWITN 62 (380)
Q Consensus 7 ~~~~~~~~~~~~~~~~g~-mkI~l-----------A-----~~~GFC~GV~RAI~~a~~~~~-------~~~~~~Iy~lG 62 (380)
|++.+.|++.|+...+=+ +++.- . ...++.|==.+||+...+.+. ...+.++|+.|
T Consensus 1 ~~l~~~l~~~G~~~~~~P~i~~~~~~~~~~l~~~l~~l~~~~~d~viftS~~av~~~~~~l~~~~~~~~~~~~~~i~avG 80 (231)
T PF02602_consen 1 SELAALLRALGAEVIELPLIEIEPLPDLASLEAALEQLPPGNYDWVIFTSPNAVRAFFKALQSAGADLRLLKNIKIFAVG 80 (231)
T ss_dssp -HHHHHHHHTTEEEEEEESEEEEECCHHHHHHHHHHHHTGCCSSEEEESSHHHHHHHHHHHHHTTHHHHHHHHSEEEESS
T ss_pred CHHHHHHHHCCCcEEEECCEEEEeCCCHHHHHHHHHhcccCCCCEEEEECHHHHHHHHHHHhhhhhhhhhccCCeEEEEc
Confidence 456778888886555533 23332 1 344455544555655444332 11135799988
Q ss_pred ccccCHHHHHHHHHcCcEE--ecC-Ccccc----ccc-cccCCCEEEEcCCCCCHHHHHHHHhcCCcE-----EeccCch
Q 016960 63 EIIHNPTVNKRLEEMAVQN--IPV-EEGKK----QFD-VVNKGDVVVLPAFGAAVEEMVTLNNKNVQI-----VDTTCPW 129 (380)
Q Consensus 63 ~LIHN~~Vv~~L~~~Gv~~--v~~-~~~~~----~~~-el~~g~~VIIrAHGv~~~~~~~l~~~g~~v-----iDaTCP~ 129 (380)
+ ..-+.|++.|+.. +.. ....+ .+. .+..+..+++|+.+..+...+.|++.|+.| |+. |-
T Consensus 81 ~-----~Ta~~l~~~G~~~~~~~~~~~~s~~L~~~l~~~~~~~~vl~~~g~~~~~~l~~~L~~~g~~v~~~~vY~~--~~ 153 (231)
T PF02602_consen 81 P-----KTAEALREYGFQPDFVPSSEGSSEGLAELLKEQLRGKRVLILRGEGGRPDLPEKLREAGIEVTEVIVYET--PP 153 (231)
T ss_dssp H-----HHHHHHHHTT-EECEE-TTSSSHHHHHGGHHHCCTTEEEEEEESSSSCHHHHHHHHHTTEEEEEEECEEE--EE
T ss_pred H-----HHHHHHHHcCCCccccCCCCCCHHHHHHHHHhhCCCCeEEEEcCCCccHHHHHHHHHCCCeEEEEEEeec--cc
Confidence 5 6778999999997 443 11111 122 233344678999999999999999999887 444 33
Q ss_pred hHHHHHHHHHHhhCCCe
Q 016960 130 VSKVWTSVEKHKKGDYT 146 (380)
Q Consensus 130 V~kv~~~v~~~~~~Gy~ 146 (380)
........+.+...++.
T Consensus 154 ~~~~~~~~~~l~~~~~~ 170 (231)
T PF02602_consen 154 EELSPELKEALDRGEID 170 (231)
T ss_dssp HHHHHHHHHHHHHTTTS
T ss_pred ccchHHHHHHHHcCCCC
Confidence 33444444455444443
No 18
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=84.93 E-value=4 Score=39.70 Aligned_cols=107 Identities=14% Similarity=0.148 Sum_probs=69.5
Q ss_pred HHHHHHHHHcCc---EEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHhcCCcE-EeccCchhHHHHHHHHHHhhC
Q 016960 68 PTVNKRLEEMAV---QNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQI-VDTTCPWVSKVWTSVEKHKKG 143 (380)
Q Consensus 68 ~~Vv~~L~~~Gv---~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~~v-iDaTCP~V~kv~~~v~~~~~~ 143 (380)
..+.+.|.++|. .++.+- +.+....-..+..|.+-..|-..+..+.++++|+.. ||||=||-..+++.+.+.+++
T Consensus 13 r~la~~L~~~g~v~~sv~t~~-g~~~~~~~~~~~~v~~G~lg~~~~l~~~l~~~~i~~vIDATHPfA~~is~na~~a~~~ 91 (249)
T PF02571_consen 13 RKLAERLAEAGYVIVSVATSY-GGELLKPELPGLEVRVGRLGDEEGLAEFLRENGIDAVIDATHPFAAEISQNAIEACRE 91 (249)
T ss_pred HHHHHHHHhcCCEEEEEEhhh-hHhhhccccCCceEEECCCCCHHHHHHHHHhCCCcEEEECCCchHHHHHHHHHHHHhh
Confidence 456677888884 333321 111111111234588888887888889999999876 999999999999999998875
Q ss_pred -CCeEEEEecCCCceeeeecccCCcEEEEcChhhHHHh
Q 016960 144 -DYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYV 180 (380)
Q Consensus 144 -Gy~iIIiG~~~HpEv~gi~g~~~~~~vv~~~~e~~~~ 180 (380)
|-..+=+-.+.=+... ..+.+.|.|.+|+...
T Consensus 92 ~~ipylR~eRp~~~~~~-----~~~~~~v~~~~eA~~~ 124 (249)
T PF02571_consen 92 LGIPYLRFERPSWQPEP-----DDNWHYVDSYEEAAEL 124 (249)
T ss_pred cCcceEEEEcCCcccCC-----CCeEEEeCCHHHHHHH
Confidence 6665555544311100 1235778888888654
No 19
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=83.18 E-value=5.3 Score=38.82 Aligned_cols=116 Identities=13% Similarity=0.169 Sum_probs=70.7
Q ss_pred eEEecccccCHHHHHHHHHcCcEEecCCc-cccccccccCCCEEEEcCCCCCHHHHHHHHhcCCcE-EeccCchhHHHHH
Q 016960 58 IWITNEIIHNPTVNKRLEEMAVQNIPVEE-GKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQI-VDTTCPWVSKVWT 135 (380)
Q Consensus 58 Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~-~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~~v-iDaTCP~V~kv~~ 135 (380)
|.++|==---+.+.+.|.++|+.++-... +..... ..+..|..-..|-..+..+.++++++.. ||||=||-..+.+
T Consensus 5 IlvlgGT~egr~la~~L~~~g~~v~~Svat~~g~~~--~~~~~v~~G~l~~~~~l~~~l~~~~i~~VIDATHPfA~~is~ 82 (248)
T PRK08057 5 ILLLGGTSEARALARALAAAGVDIVLSLAGRTGGPA--DLPGPVRVGGFGGAEGLAAYLREEGIDLVIDATHPYAAQISA 82 (248)
T ss_pred EEEEechHHHHHHHHHHHhCCCeEEEEEccCCCCcc--cCCceEEECCCCCHHHHHHHHHHCCCCEEEECCCccHHHHHH
Confidence 33333333345566777777776554211 111111 1133455666665677888898999776 9999999999999
Q ss_pred HHHHHhhC-CCeEEEEecCCCceeeeecccCCcEEEEcChhhHHHh
Q 016960 136 SVEKHKKG-DYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYV 180 (380)
Q Consensus 136 ~v~~~~~~-Gy~iIIiG~~~HpEv~gi~g~~~~~~vv~~~~e~~~~ 180 (380)
.+.+.+++ |-..+=+=.+ +.. ..-.+..+.+.|.+|+..+
T Consensus 83 ~a~~ac~~~~ipyiR~eR~---~~~--~~~~~~~~~v~s~~~a~~~ 123 (248)
T PRK08057 83 NAAAACRALGIPYLRLERP---SWL--PQPGDRWIEVDDIEEAAEA 123 (248)
T ss_pred HHHHHHHHhCCcEEEEeCC---CcC--CCCCCCEEEECCHHHHHHH
Confidence 99998775 6666666543 210 0001235678888887554
No 20
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=80.29 E-value=6.9 Score=34.10 Aligned_cols=74 Identities=24% Similarity=0.430 Sum_probs=53.1
Q ss_pred hcCCEEEEEccCCCchh-HHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCC--CCCEEEEEeCCCC
Q 016960 280 EKVDLILVVGGWNSSNT-SHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPK--GQITIGITSGAST 356 (380)
Q Consensus 280 ~~vD~miVVGG~nSSNT-~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~--~~~~VGITAGAST 356 (380)
+++-++|+-++-+..++ .++-.+|++.+.|-+++.+-+||- .|+-. ....||||-. .-
T Consensus 45 gkakLVilA~D~s~~~i~~~~~~lc~~~~Vp~~~~~tk~eLG------------------~a~Gk~~~~svvaI~d~-g~ 105 (122)
T PRK04175 45 GIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVPSKKDLG------------------KAAGLEVGAAAAAIVDA-GK 105 (122)
T ss_pred CCccEEEEeCCCChHHHHHHHHHHHHHcCCCEEEECCHHHHH------------------HHhCCCCCeEEEEEech-hh
Confidence 45666665555554453 799999999999999999998885 35511 2468999863 34
Q ss_pred CHHHHHHHHHHHHhhh
Q 016960 357 PDKAVEDVLKKVFEIK 372 (380)
Q Consensus 357 P~~lI~eV~~~l~~~~ 372 (380)
-+.+++++...+++++
T Consensus 106 a~~~~~~~~~~i~~~~ 121 (122)
T PRK04175 106 AKELVEDIVEKVNELK 121 (122)
T ss_pred hHHHHHHHHHHHHHhh
Confidence 5778888888887764
No 21
>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=79.28 E-value=15 Score=33.78 Aligned_cols=88 Identities=18% Similarity=0.177 Sum_probs=57.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++.-++-+. -|..+.+-+++...+. + -++.+. .-+..+.++| +.+..+.+..+|++|| ....++.+..
T Consensus 1 I~vi~~~~~~~-~~~~~~~g~~~~a~~~-g-----~~~~~~-~~~~~d~~~q~~~i~~~i~~~~d~Iiv-~~~~~~~~~~ 71 (257)
T PF13407_consen 1 IGVIVPSMDNP-FWQQVIKGAKAAAKEL-G-----YEVEIV-FDAQNDPEEQIEQIEQAISQGVDGIIV-SPVDPDSLAP 71 (257)
T ss_dssp EEEEESSSSSH-HHHHHHHHHHHHHHHH-T-----CEEEEE-EESTTTHHHHHHHHHHHHHTTESEEEE-ESSSTTTTHH
T ss_pred cEEEeCCCCCH-HHHHHHHHHHHHHHHc-C-----CEEEEe-CCCCCCHHHHHHHHHHHHHhcCCEEEe-cCCCHHHHHH
Confidence 35555555555 7777877777643332 2 123332 2345555666 5555555578998884 5555566678
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
+++-|++.|.|.+.+.+.
T Consensus 72 ~l~~~~~~gIpvv~~d~~ 89 (257)
T PF13407_consen 72 FLEKAKAAGIPVVTVDSD 89 (257)
T ss_dssp HHHHHHHTTSEEEEESST
T ss_pred HHHHHhhcCceEEEEecc
Confidence 888899999999999988
No 22
>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=78.83 E-value=46 Score=30.73 Aligned_cols=89 Identities=13% Similarity=0.240 Sum_probs=48.9
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHL 299 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL 299 (380)
|+++.- +++-..|..++..+.+...+.. .-.+.++++ .+....-.+.+..+.+..+|.+|+.+...+. ...+
T Consensus 2 ig~~~~-~~~~~~~~~~~~~i~~~~~~~~-----g~~~~~~~~-~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~ 73 (270)
T cd06308 2 IGFSQC-NLADPWRAAMNDEIQREASNYP-----DVELIIADA-ADDNSKQVADIENFIRQGVDLLIISPNEAAP-LTPV 73 (270)
T ss_pred EEEEee-CCCCHHHHHHHHHHHHHHHhcC-----CcEEEEEcC-CCCHHHHHHHHHHHHHhCCCEEEEecCchhh-chHH
Confidence 555553 3445567777777765333211 122333332 2222222344555544689999988654332 2345
Q ss_pred HHHHHHhCCCeEeeCCC
Q 016960 300 QEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 300 ~eia~~~~~~t~~Ie~~ 316 (380)
++.+.+.+.|.+.+.+.
T Consensus 74 ~~~~~~~~ipvV~~~~~ 90 (270)
T cd06308 74 VEEAYRAGIPVILLDRK 90 (270)
T ss_pred HHHHHHCCCCEEEeCCC
Confidence 55566788999999864
No 23
>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=78.53 E-value=67 Score=31.14 Aligned_cols=42 Identities=12% Similarity=0.022 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEec
Q 016960 39 VERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIP 83 (380)
Q Consensus 39 V~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~ 83 (380)
|-|.+.+|++..+. +..|+.+..= +.....+.|++.|..+..
T Consensus 17 v~Rcl~LA~~l~~~--g~~v~f~~~~-~~~~~~~~i~~~g~~v~~ 58 (279)
T TIGR03590 17 VMRCLTLARALHAQ--GAEVAFACKP-LPGDLIDLLLSAGFPVYE 58 (279)
T ss_pred HHHHHHHHHHHHHC--CCEEEEEeCC-CCHHHHHHHHHcCCeEEE
Confidence 78999999988654 2344443222 345567889999987653
No 24
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=77.88 E-value=54 Score=31.23 Aligned_cols=121 Identities=12% Similarity=0.118 Sum_probs=72.7
Q ss_pred ccchhHHHHHHHcCCcceecc-eEEEEe-----------CCCCCcccH---HHHHHHHHHHHhhCC----CCceEEeccc
Q 016960 4 EYTSDIIKKLKENGFEYTWGN-VKVKLA-----------ESYGFCWGV---ERAVQIAYEARKQFP----EEKIWITNEI 64 (380)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~g~-mkI~lA-----------~~~GFC~GV---~RAI~~a~~~~~~~~----~~~Iy~lG~L 64 (380)
++.+.+.+.|++.|+....-+ ++|.-. .-..|.+=| .+||+...+.+.+.. ..++|..|+
T Consensus 13 ~~~~~l~~~l~~~G~~~~~~P~i~i~p~~~~~~~~~~l~~l~~~d~iifTS~naV~~~~~~l~~~~~~~~~~~~~aVG~- 91 (255)
T PRK05752 13 EECAALAASLAEAGIFSSSLPLLAIEPLPETPEQRALLLELDRYCAVIVVSKPAARLGLELLDRYWPQPPQQPWFSVGA- 91 (255)
T ss_pred HHHHHHHHHHHHcCCCEEEcCcEEEeeCCCCHHHHHHHhcCCCCCEEEEECHHHHHHHHHHHHhhCCCCcCCEEEEECH-
Confidence 456788899999986655443 233211 112333222 666666655553321 247999995
Q ss_pred ccCHHHHHHHHHcCcEEec--CCc---cccc---ccc---ccCCCEEEEcCCCCCHHHHHHHHhcCCcE-----EeccCc
Q 016960 65 IHNPTVNKRLEEMAVQNIP--VEE---GKKQ---FDV---VNKGDVVVLPAFGAAVEEMVTLNNKNVQI-----VDTTCP 128 (380)
Q Consensus 65 IHN~~Vv~~L~~~Gv~~v~--~~~---~~~~---~~e---l~~g~~VIIrAHGv~~~~~~~l~~~g~~v-----iDaTCP 128 (380)
..-+.|++.|+...- ... ++.. +.. .+...++++|+.+-.+...+.|+++|..| |++.||
T Consensus 92 ----~Ta~al~~~G~~~~~~p~~~~se~Ll~~~~l~~~~~~~~~~vLi~rg~~~r~~L~~~L~~~G~~v~~~~vY~~~~~ 167 (255)
T PRK05752 92 ----ATAAILQDYGLDVSYPEQGDDSEALLALPALRQALAVPDPRVLIMRGEGGRELLAERLREQGASVDYLELYRRCLP 167 (255)
T ss_pred ----HHHHHHHHcCCCcccCCCCCCcHHHHhChhhhccccCCCCEEEEEccCccHHHHHHHHHHCCCEEeEEEEEeecCC
Confidence 566889999987432 111 1111 111 12234679999999999999999999766 555555
Q ss_pred h
Q 016960 129 W 129 (380)
Q Consensus 129 ~ 129 (380)
.
T Consensus 168 ~ 168 (255)
T PRK05752 168 D 168 (255)
T ss_pred C
Confidence 4
No 25
>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=77.79 E-value=9.9 Score=32.80 Aligned_cols=74 Identities=16% Similarity=0.415 Sum_probs=51.9
Q ss_pred hhcCCEEEEEccCCCchh-HHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCC--CCCCEEEEEeCCC
Q 016960 279 EEKVDLILVVGGWNSSNT-SHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLP--KGQITIGITSGAS 355 (380)
Q Consensus 279 ~~~vD~miVVGG~nSSNT-~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~--~~~~~VGITAGAS 355 (380)
.+++-++|+-++-...++ .++-.+|+..+.|-+++.+-+||-. |+- .....||||- ..
T Consensus 40 kgka~LVilA~D~s~~~~~~~i~~lc~~~~Ip~~~~~sk~eLG~------------------a~Gk~~~~svvaI~d-~g 100 (117)
T TIGR03677 40 RGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYVYVKKKEDLGA------------------AAGLEVGAASAAIVD-EG 100 (117)
T ss_pred cCCccEEEEeCCCCcHHHHHHHHHHHHHcCCCEEEeCCHHHHHH------------------HhCCCCCeEEEEEEc-hh
Confidence 356777777666665555 8999999999999999999988853 441 1356888884 34
Q ss_pred CCHHHHHHHHHHHHhh
Q 016960 356 TPDKAVEDVLKKVFEI 371 (380)
Q Consensus 356 TP~~lI~eV~~~l~~~ 371 (380)
--+.+++++...++++
T Consensus 101 ~a~~~~~~~~~~i~~~ 116 (117)
T TIGR03677 101 KAEELLKEIIEKVEAL 116 (117)
T ss_pred hhHHHHHHHHHHHHhc
Confidence 4456666676666554
No 26
>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=77.53 E-value=49 Score=31.89 Aligned_cols=138 Identities=19% Similarity=0.192 Sum_probs=79.0
Q ss_pred eeEEEE-cCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhH
Q 016960 219 KVGIAN-QTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTS 297 (380)
Q Consensus 219 kv~vvs-QTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~ 297 (380)
.+|+|- +. +-.-|.+++..+.+...+. + -.+...+|=-+...+ +.+..|.+.+||.+|+.+..++ ..
T Consensus 3 ~IGvivp~~--~npff~~ii~gIe~~a~~~-G-----y~l~l~~t~~~~~~e--~~i~~l~~~~vDGiI~~s~~~~--~~ 70 (279)
T PF00532_consen 3 TIGVIVPDI--SNPFFAEIIRGIEQEAREH-G-----YQLLLCNTGDDEEKE--EYIELLLQRRVDGIILASSEND--DE 70 (279)
T ss_dssp EEEEEESSS--TSHHHHHHHHHHHHHHHHT-T-----CEEEEEEETTTHHHH--HHHHHHHHTTSSEEEEESSSCT--CH
T ss_pred EEEEEECCC--CCcHHHHHHHHHHHHHHHc-C-----CEEEEecCCCchHHH--HHHHHHHhcCCCEEEEecccCC--hH
Confidence 355443 33 3344778887777643322 2 234444444444333 7777787789999999955444 56
Q ss_pred HHHHHHHHhCCCeEeeCCCCccC-CCCcchhhh-ccchhhhhcccCCCCCCE-EEEEeCCCCCHHHHHHHHHHHHh
Q 016960 298 HLQEIAEDRGIPSYWIDSEKRIG-PGNKIAYKL-MHGELVEKENWLPKGQIT-IGITSGASTPDKAVEDVLKKVFE 370 (380)
Q Consensus 298 kL~eia~~~~~~t~~Ie~~~dL~-~~~~~~~~~-~~~~~~~~~~wl~~~~~~-VGITAGASTP~~lI~eV~~~l~~ 370 (380)
.|..+.+. +.|..++....+-+ .-+-+.... ..+.. -.+..+..|.++ |++.+|...-.+..+...-+...
T Consensus 71 ~l~~~~~~-~iPvV~~~~~~~~~~~~~~V~~D~~~a~~~-a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~A 144 (279)
T PF00532_consen 71 ELRRLIKS-GIPVVLIDRYIDNPEGVPSVYIDNYEAGYE-ATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDA 144 (279)
T ss_dssp HHHHHHHT-TSEEEEESS-SCTTCTSCEEEEEHHHHHHH-HHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHH
T ss_pred HHHHHHHc-CCCEEEEEeccCCcccCCEEEEcchHHHHH-HHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHH
Confidence 77777766 88999999985444 211111000 11111 111112258899 99999987777777776555443
No 27
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=77.20 E-value=3.5 Score=33.96 Aligned_cols=48 Identities=10% Similarity=0.270 Sum_probs=41.3
Q ss_pred HHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCC
Q 016960 274 MYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGP 321 (380)
Q Consensus 274 ~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~ 321 (380)
++.|-.+++-++++-++-..-.+.+|-++|++.+.|..+|+|-.||-.
T Consensus 22 ~Kai~kg~~~~v~iA~Da~~~vv~~l~~lceek~Ip~v~V~s~~~LGk 69 (84)
T PRK13600 22 LKALKKDQVTSLIIAEDVEVYLMTRVLSQINQKNIPVSFFKSKHALGK 69 (84)
T ss_pred HHHHhcCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEEEECCHHHHHH
Confidence 333433678899999999999999999999999999999999999854
No 28
>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=76.41 E-value=20 Score=31.54 Aligned_cols=93 Identities=17% Similarity=0.150 Sum_probs=56.0
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHL 299 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL 299 (380)
|+++.-.......+..+.+.++..+.+. + ..-++.++++-|.... -.+.+.+++...+|++|..+.. .+...+
T Consensus 2 Ig~i~~~~~~~~~~~~~~~~~~~~~~~~-g---~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~d~ii~~~~~--~~~~~~ 74 (269)
T cd01391 2 IGVLLPLSGSAPFGAQLLAGIELAAEEI-G---RGLEVILADSQSDPER-ALEALRDLIQQGVDGIIGPPSS--SSALAV 74 (269)
T ss_pred ceEEeecCCCcHHHHHHHHHHHHHHHHh-C---CceEEEEecCCCCHHH-HHHHHHHHHHcCCCEEEecCCC--HHHHHH
Confidence 4444433313455666666666544432 0 1235677888887733 3344555664568888776554 344448
Q ss_pred HHHHHHhCCCeEeeCCCCcc
Q 016960 300 QEIAEDRGIPSYWIDSEKRI 319 (380)
Q Consensus 300 ~eia~~~~~~t~~Ie~~~dL 319 (380)
.+.+.+.+.|.+.+....+.
T Consensus 75 ~~~~~~~~ip~v~~~~~~~~ 94 (269)
T cd01391 75 VELAAAAGIPVVSLDATAPD 94 (269)
T ss_pred HHHHHHcCCcEEEecCCCCc
Confidence 88888999999988776543
No 29
>COG1023 Gnd Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]
Probab=75.86 E-value=30 Score=34.42 Aligned_cols=108 Identities=7% Similarity=0.019 Sum_probs=82.2
Q ss_pred HHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCE--EEEcCCCCCHHHHHHHH-
Q 016960 40 ERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDV--VVLPAFGAAVEEMVTLN- 116 (380)
Q Consensus 40 ~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~--VIIrAHGv~~~~~~~l~- 116 (380)
|.-..+++++++. +..|+.+- +|+.-+++|...|+....+.+ +.+..+++..+ |.++|--+++++.+.|.
T Consensus 10 rMG~n~v~rl~~~--ghdvV~yD---~n~~av~~~~~~ga~~a~sl~--el~~~L~~pr~vWlMvPag~it~~vi~~la~ 82 (300)
T COG1023 10 RMGANLVRRLLDG--GHDVVGYD---VNQTAVEELKDEGATGAASLD--ELVAKLSAPRIVWLMVPAGDITDAVIDDLAP 82 (300)
T ss_pred hhhHHHHHHHHhC--CCeEEEEc---CCHHHHHHHHhcCCccccCHH--HHHHhcCCCcEEEEEccCCCchHHHHHHHHh
Confidence 3456778888874 34577763 899999999999977665422 13345544444 45554449999988876
Q ss_pred --hcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCC
Q 016960 117 --NKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYS 154 (380)
Q Consensus 117 --~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~ 154 (380)
+.|=.|||.--.+-+-.+++.+++.++|.+.+=+|-++
T Consensus 83 ~L~~GDivIDGGNS~y~Ds~rr~~~l~~kgi~flD~GTSG 122 (300)
T COG1023 83 LLSAGDIVIDGGNSNYKDSLRRAKLLAEKGIHFLDVGTSG 122 (300)
T ss_pred hcCCCCEEEECCccchHHHHHHHHHHHhcCCeEEeccCCC
Confidence 47899999999999999999999999999999998665
No 30
>KOG0238 consensus 3-Methylcrotonyl-CoA carboxylase, biotin-containing subunit/Propionyl-CoA carboxylase, alpha chain/Acetyl-CoA carboxylase, biotin carboxylase subunit [Lipid transport and metabolism; Amino acid transport and metabolism]
Probab=75.76 E-value=20 Score=38.89 Aligned_cols=153 Identities=18% Similarity=0.149 Sum_probs=107.9
Q ss_pred ccchhHHHHHHHcC-------CcceecceEEEEeCCCCCcccH----------HHHHHHHHHHHhhCCCCceEEeccccc
Q 016960 4 EYTSDIIKKLKENG-------FEYTWGNVKVKLAESYGFCWGV----------ERAVQIAYEARKQFPEEKIWITNEIIH 66 (380)
Q Consensus 4 ~~~~~~~~~~~~~~-------~~~~~g~mkI~lA~~~GFC~GV----------~RAI~~a~~~~~~~~~~~Iy~lG~LIH 66 (380)
+--|++|...|..| .+.+.-.|-+..|.. -+|.|= .+-++.|.+.-.+ .-.==+|=|--
T Consensus 8 EIAcRVirTakkmGI~tVAV~Sd~D~~SlHVk~ADe-av~ig~a~~~~SYL~~~~I~~aa~~tgaq---aihPGYGFLSE 83 (670)
T KOG0238|consen 8 EIACRVIRTAKKMGIRTVAVYSDADRNSLHVKMADE-AVCIGPAPAAQSYLRMDKIIDAAKRTGAQ---AIHPGYGFLSE 83 (670)
T ss_pred ceeehhhhHHHHhCCeEEEEEccCccccceeecccc-eeecCCCchhhhhhhHHHHHHHHHhcCCc---eecCCcccccc
Confidence 34578999999998 344455788888854 477773 2333333332211 00113688889
Q ss_pred CHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCe
Q 016960 67 NPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYT 146 (380)
Q Consensus 67 N~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~ 146 (380)
|....+.+++.|+.|+- |+++ .||.-|.--.-++.++..|+.+|-.--..........+...+=||.
T Consensus 84 n~~Fae~c~~~Gi~FiG-----------P~~~--aIrdMG~K~~sk~im~~AgVp~vpG~~g~~qs~e~~~~~a~eIgyP 150 (670)
T KOG0238|consen 84 NAEFAELCEDAGITFIG-----------PPPS--AIRDMGDKSTSKQIMKAAGVPLVPGYHGEDQSDEEAKKVAREIGYP 150 (670)
T ss_pred chHHHHHHHHcCCeEEC-----------CCHH--HHHHhcchHHHHHHHHhcCCccccCcccccccHHHHHHHHHhcCCc
Confidence 99999999999999996 2332 4888888888888899999999877777777777777777778999
Q ss_pred EEEEecCCCceeeeecccCCc-EEEEcChhhHHHhhh
Q 016960 147 SIIHGKYSHEETVATASFAGK-YIIVKNMKEAEYVCD 182 (380)
Q Consensus 147 iIIiG~~~HpEv~gi~g~~~~-~~vv~~~~e~~~~~~ 182 (380)
|.| +++.|=.+. .-++.+.+|.....+
T Consensus 151 vMi---------Ka~~GGGGkGMria~~~~ef~~~~~ 178 (670)
T KOG0238|consen 151 VMI---------KATAGGGGKGMRIAWSEEEFEEGLE 178 (670)
T ss_pred EEE---------EeccCCCCcceEeecChHHHHHHHH
Confidence 986 556654444 468888888765433
No 31
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=75.51 E-value=59 Score=31.33 Aligned_cols=127 Identities=16% Similarity=0.288 Sum_probs=66.5
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHH-HHHhhhhcCCEEEEEccCCCchh
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDA-MYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a-~~eLa~~~vD~miVVGG~nSSNT 296 (380)
+.++++... ++-..|..+.+-+.+...+. + ..+.+. .|....++|.. +..|....+|.+|+.+... +.
T Consensus 65 ~~Igvv~~~-~~~~~~~~i~~gi~~~a~~~-g-----~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~--~~ 133 (342)
T PRK10014 65 GVIGLIVRD-LSAPFYAELTAGLTEALEAQ-G-----RMVFLL--QGGKDGEQLAQRFSTLLNQGVDGVVIAGAAG--SS 133 (342)
T ss_pred CEEEEEeCC-CccchHHHHHHHHHHHHHHc-C-----CEEEEE--eCCCCHHHHHHHHHHHHhCCCCEEEEeCCCC--Cc
Confidence 468888754 44456777776665532222 1 112222 22334455543 4445556899999998643 23
Q ss_pred HHHHHHHHHhCCCeEeeCCCCccCCCCcchhh-hccchhhhhcccCCCCCCEEEEEeCCCC
Q 016960 297 SHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYK-LMHGELVEKENWLPKGQITIGITSGAST 356 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~-~~~~~~~~~~~wl~~~~~~VGITAGAST 356 (380)
..+++.+++.+.|..+++...+.+.-.-+... ...+... .+..+..|.++||+.+|..+
T Consensus 134 ~~~~~~l~~~~iPvV~~~~~~~~~~~~~V~~D~~~~~~~a-~~~L~~~G~~~I~~i~g~~~ 193 (342)
T PRK10014 134 DDLREMAEEKGIPVVFASRASYLDDVDTVRPDNMQAAQLL-TEHLIRNGHQRIAWLGGQSS 193 (342)
T ss_pred HHHHHHHhhcCCCEEEEecCCCCCCCCEEEeCCHHHHHHH-HHHHHHCCCCEEEEEcCCcc
Confidence 45666777888999999765332211111100 0111110 00111237899999887543
No 32
>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=74.40 E-value=25 Score=32.44 Aligned_cols=90 Identities=17% Similarity=0.124 Sum_probs=52.7
Q ss_pred eeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhH
Q 016960 219 KVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTS 297 (380)
Q Consensus 219 kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~ 297 (380)
||+++.. +++-.-|..+.+.+.+...+. + -++.+.++-......+| +.+..|....+|.+|+.+... .-+.
T Consensus 1 ~Igvi~~-~~~~~~~~~~~~g~~~~~~~~-g-----~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~-~~~~ 72 (273)
T cd06310 1 KIALVPK-GTTSDFWQAVKAGAEAAAKEL-G-----VKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDA-KALV 72 (273)
T ss_pred CeEEEec-CCCcHHHHHHHHHHHHHHHHc-C-----CEEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCCh-hhhH
Confidence 5778775 466677888887776643332 1 22333322112344455 345555556899999976432 2223
Q ss_pred HHHHHHHHhCCCeEeeCCC
Q 016960 298 HLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 298 kL~eia~~~~~~t~~Ie~~ 316 (380)
..++.+++.+.|.+.+++.
T Consensus 73 ~~l~~~~~~~ipvV~~~~~ 91 (273)
T cd06310 73 PPLKEAKDAGIPVVLIDSG 91 (273)
T ss_pred HHHHHHHHCCCCEEEecCC
Confidence 4445555788899999874
No 33
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=74.19 E-value=44 Score=35.60 Aligned_cols=111 Identities=14% Similarity=0.096 Sum_probs=83.5
Q ss_pred cCCcEEeccCchhHHHHHHHHHHh-hCCCeEEEEecCCCceeeeecccC----CcEEEEcChhhHHHhhhhhcCCCCCCC
Q 016960 118 KNVQIVDTTCPWVSKVWTSVEKHK-KGDYTSIIHGKYSHEETVATASFA----GKYIIVKNMKEAEYVCDYILGGELNGS 192 (380)
Q Consensus 118 ~g~~viDaTCP~V~kv~~~v~~~~-~~Gy~iIIiG~~~HpEv~gi~g~~----~~~~vv~~~~e~~~~~~~~~~~~~~~~ 192 (380)
..+.+.|+-|.-...=|+.+.+++ ++---+|+||.++-.=+.=+.-.| .+++.|++.+|+..- +.|..+.+.|+
T Consensus 336 ~~~~vfnTIC~ATqeRQdA~~~L~~~~vDlmiVVGG~NSSNT~~L~eIa~~~g~~sy~Ie~~~eI~~~-~~i~h~~~~~e 414 (460)
T PLN02821 336 DHFMSFNTICDATQERQDAMYKLVEEKLDLMLVVGGWNSSNTSHLQEIAEHKGIPSYWIDSEERIGPG-NTIAHKLNHGE 414 (460)
T ss_pred ccccccCCcchhHHHHHHHHHHHhhcCCCEEEEECCCCCccHHHHHHHHHHhCCCEEEECCHHHcCcc-cccccccccch
Confidence 456778999999999999999995 678899999988876665554333 357889999988532 44566656665
Q ss_pred CChHHHHHHHHHhhhcCCCCCCCCCceeEEEEcCCCChHHHHHHHHHHHH
Q 016960 193 SSTKEAFLEKFKKAVSKGFDPDVDLVKVGIANQTTMLKGETEEIGKLVEK 242 (380)
Q Consensus 193 ~~~~~~f~~~~~~~~~~~~~~~~~~~kv~vvsQTT~~~~~~~~i~~~l~~ 242 (380)
....+++++. ...+|||.+=+.=+....++++++|.+
T Consensus 415 ~~~~~~wl~~-------------~~~~VGITAGASTPd~lIeeVi~~l~~ 451 (460)
T PLN02821 415 LVEKENWLPE-------------GPVTIGVTSGASTPDKVVEDVLDKVFD 451 (460)
T ss_pred hhhhHHHhcc-------------CCCEEEEecCCCCCHHHHHHHHHHHHH
Confidence 5555555421 125899999999999999999988876
No 34
>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=73.65 E-value=27 Score=31.82 Aligned_cols=60 Identities=18% Similarity=0.248 Sum_probs=43.3
Q ss_pred cccccccccHHHHHhHHHHHHhhhh-cCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCc
Q 016960 256 HFISFNTICDATQERQDAMYKMVEE-KVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKR 318 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~-~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~d 318 (380)
++.+.|+-|.....+ +++.+|... .||+ |||+..|+++..+.+++...+.|.+.+.+..+
T Consensus 42 ~~~~~d~~~~~~~~~-~~~~~l~~~~~v~~--iig~~~~~~~~~~~~~~~~~~iP~i~~~~~~~ 102 (299)
T cd04509 42 ELVIYDDQSDPARAL-AAARRLCQQEGVDA--LVGPVSSGVALAVAPVAEALKIPLISPGATAP 102 (299)
T ss_pred EEEEecCCCCHHHHH-HHHHHHhcccCceE--EEcCCCcHHHHHHHHHHhhCCceEEeccCCCc
Confidence 456778888665555 455666633 4664 57888888888999999989999888776543
No 35
>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=73.20 E-value=25 Score=32.58 Aligned_cols=89 Identities=16% Similarity=0.131 Sum_probs=50.6
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
++++. ..++-.-|..+++.+++...+. + -++.+..+-.......| +.++.|....+|.+|+.+ ..|++...
T Consensus 2 igvi~-~~~~~~~~~~~~~gi~~~~~~~-g-----~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~-~~~~~~~~ 73 (275)
T cd06320 2 YGVVL-KTLSNEFWRSLKEGYENEAKKL-G-----VSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSP-ISDVNLVP 73 (275)
T ss_pred eeEEE-ecCCCHHHHHHHHHHHHHHHHh-C-----CeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECC-CChHHhHH
Confidence 44444 2345566777777776643322 2 12333222223344444 455566556799998764 34445445
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
.++.+++.+.|...+.+.
T Consensus 74 ~~~~~~~~~iPvV~~~~~ 91 (275)
T cd06320 74 AVERAKKKGIPVVNVNDK 91 (275)
T ss_pred HHHHHHHCCCeEEEECCC
Confidence 566677888999888764
No 36
>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=73.17 E-value=22 Score=33.97 Aligned_cols=59 Identities=24% Similarity=0.205 Sum_probs=46.6
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCC
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
-++.+.|+-|....-+ +++++|. .+ ++..|+|+..|+.+..+..++++.+.|.+..-..
T Consensus 41 i~~~~~D~~~~~~~~~-~~~~~li-~~-~v~aiiG~~~s~~~~~~~~~~~~~~ip~i~~~~~ 99 (334)
T cd06342 41 LELVVEDDQADPKQAV-AVAQKLV-DD-GVVGVVGHLNSGVTIPASPIYADAGIVMISPAAT 99 (334)
T ss_pred EEEEEecCCCChHHHH-HHHHHHH-hC-CceEEECCCccHhHHHhHHHHHhCCCeEEecCCC
Confidence 3567889999887664 5666777 45 7888999999999999999999998887765443
No 37
>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=72.98 E-value=67 Score=29.64 Aligned_cols=123 Identities=15% Similarity=0.203 Sum_probs=62.6
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHH-HHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDA-MYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a-~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
++++...+. -.-|..+.+.+.+...+. + -.+.+.++ +...++|.. +..|.+..+|.+|+.++.. ++..
T Consensus 2 Igvv~~~~~-~~~~~~~~~~i~~~a~~~-g-----~~~~~~~~--~~~~~~~~~~i~~l~~~~vdgii~~~~~~--~~~~ 70 (269)
T cd06281 2 IGCLVSDIT-NPLLAQLFSGAEDRLRAA-G-----YSLLIANS--LNDPERELEILRSFEQRRMDGIIIAPGDE--RDPE 70 (269)
T ss_pred EEEEecCCc-cccHHHHHHHHHHHHHHc-C-----CEEEEEeC--CCChHHHHHHHHHHHHcCCCEEEEecCCC--CcHH
Confidence 456665433 345566665555432222 1 12323322 112345533 4445556899999998643 3355
Q ss_pred HHHHHHHhCCCeEeeCCCCccCCCCcchhhh-ccchhhhhcccCCCCCCEEEEEeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSEKRIGPGNKIAYKL-MHGELVEKENWLPKGQITIGITSGAS 355 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~-~~~~~~~~~~wl~~~~~~VGITAGAS 355 (380)
+.+.+++.+.|.+.+++..+ ....-+...- ..+.. -....+..|.++|++-+|..
T Consensus 71 ~~~~~~~~~ipvV~i~~~~~-~~~~~V~~d~~~~g~~-a~~~l~~~G~~~i~~l~~~~ 126 (269)
T cd06281 71 LVDALASLDLPIVLLDRDMG-GGADAVLFDHAAGMRQ-AVEYLISLGHRRIALVGGGS 126 (269)
T ss_pred HHHHHHhCCCCEEEEecccC-CCCCEEEECcHHHHHH-HHHHHHHCCCcEEEEecCcc
Confidence 66677778899999987654 2111111110 11111 01112224789999988754
No 38
>cd08191 HHD 6-hydroxyhexanoate dehydrogenase (HHD) catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. 6-hydroxyhexanoate dehydrogenase (HHD). The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. Some bacteria can grow on cyclic ketones, cyclohexylamine, and alcohols as sole carbon source. Cyclohexylamine is an insecticide and antiseptic in various industries and is considered a possible environmental pollutant. The degradation of these chemical compounds are through the cyclohexanol and cyclohexanone biological oxidation pathway. The intermediates of this pathway include cyclohexanol, cyclohexanone, e-caprolactone, 6-hydroxyhexanoate, 6-oxohexanoate and adipate. The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate.
Probab=72.82 E-value=19 Score=36.70 Aligned_cols=79 Identities=14% Similarity=0.161 Sum_probs=50.1
Q ss_pred ceeEEEEcCCCCh-HHHHHHHHHHHHHHhhhccccccccccccccccc-HHHHHhH-HHHHHhhhhcCCEEEEEccCCCc
Q 016960 218 VKVGIANQTTMLK-GETEEIGKLVEKTMMRKFGVENVNEHFISFNTIC-DATQERQ-DAMYKMVEEKVDLILVVGGWNSS 294 (380)
Q Consensus 218 ~kv~vvsQTT~~~-~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC-~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSS 294 (380)
+++.+|+...+.. ..++.+.+.|++ ...++.+|+.+| ..+..-- +.+..+.+..+|++|-|||=.+-
T Consensus 23 ~~~livt~~~~~~~~~~~~v~~~L~~----------~~~~~~~f~~v~~~~~~~~v~~~~~~~~~~~~D~IIaiGGGS~i 92 (386)
T cd08191 23 SRALIVTDERMAGTPVFAELVQALAA----------AGVEVEVFDGVLPDLPRSELCDAASAAARAGPDVIIGLGGGSCI 92 (386)
T ss_pred CeEEEEECcchhhcchHHHHHHHHHH----------cCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCchHH
Confidence 4788888655543 566667666654 122356788888 2222212 22333333579999999999999
Q ss_pred hhHHHHHHHHHh
Q 016960 295 NTSHLQEIAEDR 306 (380)
Q Consensus 295 NT~kL~eia~~~ 306 (380)
.+-|..-+.-..
T Consensus 93 D~aK~ia~~~~~ 104 (386)
T cd08191 93 DLAKIAGLLLAH 104 (386)
T ss_pred HHHHHHHHHHhC
Confidence 999988776443
No 39
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=72.62 E-value=35 Score=31.31 Aligned_cols=116 Identities=15% Similarity=0.113 Sum_probs=71.8
Q ss_pred cccchhHHHHHHHcCCcceecce-EE-------------EEeCCCCCcccHHHHHHHHHHHHh-----hCCCCceEEecc
Q 016960 3 QEYTSDIIKKLKENGFEYTWGNV-KV-------------KLAESYGFCWGVERAVQIAYEARK-----QFPEEKIWITNE 63 (380)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~g~m-kI-------------~lA~~~GFC~GV~RAI~~a~~~~~-----~~~~~~Iy~lG~ 63 (380)
+++..++.+.|++.|+....-++ ++ .+....++.|==.+|++...+.+. ...+.++|+.|+
T Consensus 10 ~~~~~~l~~~l~~~G~~v~~~p~~~~~~~~~~~~~~~~~~~~~~d~iiftS~~av~~~~~~~~~~~~~~~~~~~~~avG~ 89 (249)
T PRK05928 10 SPKAEELVELLRELGFVALHFPLIEIEPGRQLPQLAAQLAALGADWVIFTSKNAVEFLLSALKKKKLKWPKNKKYAAIGE 89 (249)
T ss_pred HHHHHHHHHHHHHcCCCEEEeccEEEecCCCcChHHHHhhCCCCCEEEEECHHHHHHHHHHHHhcCcCCCCCCEEEEECH
Confidence 34567888999999866655432 22 233445667766777777766543 122457999996
Q ss_pred cccCHHHHHHHHHcCcEEec--CC-ccc---ccccc--ccCCCEEEEcCCCCCHHHHHHHHhcCCcEE
Q 016960 64 IIHNPTVNKRLEEMAVQNIP--VE-EGK---KQFDV--VNKGDVVVLPAFGAAVEEMVTLNNKNVQIV 123 (380)
Q Consensus 64 LIHN~~Vv~~L~~~Gv~~v~--~~-~~~---~~~~e--l~~g~~VIIrAHGv~~~~~~~l~~~g~~vi 123 (380)
..-+.|++.|+...- .. +.. ..+.. +....++++|+-+..+...+.|++.|..++
T Consensus 90 -----~Ta~~l~~~G~~~~~~~~~~~~~~l~~~l~~~~~~~~~ili~~~~~~~~~l~~~L~~~G~~v~ 152 (249)
T PRK05928 90 -----KTALALKKLGGKVVFVPEDGESSELLLELPELLLKGKRVLYLRGNGGREVLGDTLEERGAEVD 152 (249)
T ss_pred -----HHHHHHHHcCCCccccCCCCcChHHHHhChhhhcCCCEEEEECCCCCHHHHHHHHHHCCCEEe
Confidence 455899999987542 11 000 01111 222345677777777788899999997763
No 40
>PF03446 NAD_binding_2: NAD binding domain of 6-phosphogluconate dehydrogenase; InterPro: IPR006115 6-Phosphogluconate dehydrogenase (1.1.1.44 from EC) (6PGD) is an oxidative carboxylase that catalyses the decarboxylating reduction of 6-phosphogluconate into ribulose 5-phosphate in the presence of NADP. This reaction is a component of the hexose mono-phosphate shunt and pentose phosphate pathways (PPP) [, ]. Prokaryotic and eukaryotic 6PGD are proteins of about 470 amino acids whose sequence are highly conserved []. The protein is a homodimer in which the monomers act independently []: each contains a large, mainly alpha-helical domain and a smaller beta-alpha-beta domain, containing a mixed parallel and anti-parallel 6-stranded beta sheet []. NADP is bound in a cleft in the small domain, the substrate binding in an adjacent pocket []. This family represents the NADP binding domain of 6-phosphogluconate dehydrogenase which adopts a Rossman fold. The C-terminal domain is described in IPR006114 from INTERPRO.; GO: 0004616 phosphogluconate dehydrogenase (decarboxylating) activity, 0006098 pentose-phosphate shunt, 0055114 oxidation-reduction process; PDB: 3AX6_D 3PDU_G 3Q3C_A 3OBB_A 4DLL_B 1PGP_A 1PGN_A 2PGD_A 1PGQ_A 1PGO_A ....
Probab=72.47 E-value=19 Score=31.92 Aligned_cols=97 Identities=11% Similarity=0.021 Sum_probs=67.4
Q ss_pred HHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHh---
Q 016960 41 RAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNN--- 117 (380)
Q Consensus 41 RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~--- 117 (380)
..-.+|...++. +-+|+.+- .++...++|.+.|+...++ ..++-.+.-|||.+---++++.+.+..
T Consensus 12 mG~~~a~~L~~~--g~~v~~~d---~~~~~~~~~~~~g~~~~~s------~~e~~~~~dvvi~~v~~~~~v~~v~~~~~i 80 (163)
T PF03446_consen 12 MGSAMARNLAKA--GYEVTVYD---RSPEKAEALAEAGAEVADS------PAEAAEQADVVILCVPDDDAVEAVLFGENI 80 (163)
T ss_dssp HHHHHHHHHHHT--TTEEEEEE---SSHHHHHHHHHTTEEEESS------HHHHHHHBSEEEE-SSSHHHHHHHHHCTTH
T ss_pred HHHHHHHHHHhc--CCeEEeec---cchhhhhhhHHhhhhhhhh------hhhHhhcccceEeecccchhhhhhhhhhHH
Confidence 344567777664 34687765 6789999999999998875 344433333667766666666665553
Q ss_pred -----cCCcEEeccCchhHHHHHHHHHHhhCCCeEE
Q 016960 118 -----KNVQIVDTTCPWVSKVWTSVEKHKKGDYTSI 148 (380)
Q Consensus 118 -----~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iI 148 (380)
.|-.+||.|=-.....++.++++.++|...|
T Consensus 81 ~~~l~~g~iiid~sT~~p~~~~~~~~~~~~~g~~~v 116 (163)
T PF03446_consen 81 LAGLRPGKIIIDMSTISPETSRELAERLAAKGVRYV 116 (163)
T ss_dssp GGGS-TTEEEEE-SS--HHHHHHHHHHHHHTTEEEE
T ss_pred hhccccceEEEecCCcchhhhhhhhhhhhhccceee
Confidence 6888999999999999999999999995544
No 41
>TIGR00109 hemH ferrochelatase. Human ferrochelatase, found at the mitochondrial inner membrane inner surface, was shown in an active recombinant form to be a homodimer. This contrasts to an earlier finding by gel filtration that overexpressed E. coli ferrochelatase runs as a monomer.
Probab=72.40 E-value=36 Score=34.17 Aligned_cols=88 Identities=14% Similarity=0.129 Sum_probs=50.6
Q ss_pred cccHHHHHHHHHHHHhhCCC--CceEEecccccCHHHHHHHHHcCcEEecCCcccccccccc--CCCEEEEcCCCCCHHH
Q 016960 36 CWGVERAVQIAYEARKQFPE--EKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVN--KGDVVVLPAFGAAVEE 111 (380)
Q Consensus 36 C~GV~RAI~~a~~~~~~~~~--~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~--~g~~VIIrAHGv~~~~ 111 (380)
|+.+.-+.+.+.+++.+.+. .++-+.-.-==+|..++.|.++--..+ +..+ +...|||+|||+|...
T Consensus 132 ~~t~gs~~~~~~~~l~~~~~~~~~~~~i~~~~~~p~yi~a~~~~I~~~l---------~~~~~~~~~~llfSaHglP~~~ 202 (322)
T TIGR00109 132 SSTTGSSFNELAEALKKLRSLRPTISVIESWYDNPKYIKALADSIKETL---------ASFPEPDNAVLLFSAHGLPQSY 202 (322)
T ss_pred cccHHHHHHHHHHHHHhcccCCCeEEEeCccccCcHHHHHHHHHHHHHH---------HhcCCcCCcEEEEeCCCCchhH
Confidence 45556666666666654322 123333333345666666654321111 2222 2237999999999887
Q ss_pred HHHHHhcCCcEEeccCchhHHHHHHHHHHhhC
Q 016960 112 MVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKG 143 (380)
Q Consensus 112 ~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~ 143 (380)
.+. | .||...++..++.+.+.
T Consensus 203 ~~~----G-------d~Y~~~~~~ta~~l~~~ 223 (322)
T TIGR00109 203 VDE----G-------DPYPAECEATTRLIAEK 223 (322)
T ss_pred hhC----C-------CChHHHHHHHHHHHHHH
Confidence 654 3 47888888888877654
No 42
>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=71.53 E-value=42 Score=30.29 Aligned_cols=90 Identities=17% Similarity=0.204 Sum_probs=53.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHL 299 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL 299 (380)
|+++...+ +...|..+.+.+.+...+. +-++.++++--.. ..-++.+.+|...++|.+|+.+. +++.....
T Consensus 2 ig~i~p~~-~~~~~~~~~~~~~~~a~~~------g~~~~~~~~~~~~-~~~~~~~~~l~~~~vdgvi~~~~-~~~~~~~~ 72 (267)
T cd01536 2 IGLVVPSL-NNPFWQAMNKGAEAAAKEL------GVELIVLDAQNDV-SKQIQQIEDLIAQGVDGIIISPV-DSAALTPA 72 (267)
T ss_pred EEEEeccc-cCHHHHHHHHHHHHHHHhc------CceEEEECCCCCH-HHHHHHHHHHHHcCCCEEEEeCC-CchhHHHH
Confidence 66666554 5566777777776543322 2334455444322 22235666666568999998764 34444445
Q ss_pred HHHHHHhCCCeEeeCCCCc
Q 016960 300 QEIAEDRGIPSYWIDSEKR 318 (380)
Q Consensus 300 ~eia~~~~~~t~~Ie~~~d 318 (380)
.+..++.+.|...+....+
T Consensus 73 ~~~l~~~~ip~V~~~~~~~ 91 (267)
T cd01536 73 LKKANAAGIPVVTVDSDID 91 (267)
T ss_pred HHHHHHCCCcEEEecCCCC
Confidence 5666678889988877543
No 43
>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=71.19 E-value=39 Score=31.11 Aligned_cols=88 Identities=17% Similarity=0.163 Sum_probs=51.2
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHL 299 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL 299 (380)
++++.-. ++-.-|..+.+-+.....+. + -++.++++.-....+. +++..+....+|.+|+.+ ..|+....+
T Consensus 2 i~vi~~~-~~~~~~~~~~~~i~~~~~~~-g-----~~~~~~~~~~~~~~~~-~~i~~~~~~~~dgiii~~-~~~~~~~~~ 72 (277)
T cd06319 2 IAYIVSD-LRIPFWQIMGRGVKSKAKAL-G-----YDAVELSAENSAKKEL-ENLRTAIDKGVSGIIISP-TNSSAAVTL 72 (277)
T ss_pred eEEEeCC-CCchHHHHHHHHHHHHHHhc-C-----CeEEEecCCCCHHHHH-HHHHHHHhcCCCEEEEcC-CchhhhHHH
Confidence 4444422 34456777777776543332 2 2344555544333222 445555446899998754 444445567
Q ss_pred HHHHHHhCCCeEeeCCC
Q 016960 300 QEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 300 ~eia~~~~~~t~~Ie~~ 316 (380)
++.+++.+.|...++..
T Consensus 73 l~~~~~~~ipvV~~~~~ 89 (277)
T cd06319 73 LKLAAQAKIPVVIADIG 89 (277)
T ss_pred HHHHHHCCCCEEEEecC
Confidence 78888889999888754
No 44
>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=70.28 E-value=87 Score=28.61 Aligned_cols=86 Identities=19% Similarity=0.224 Sum_probs=48.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
++++.-. ++-.-|..+..-+.+...+. + -++.++++=.. .++| +.+..|.+..+|++|++|...+. .
T Consensus 2 i~vv~p~-~~~~~~~~~~~~i~~~~~~~-g-----~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~~---~ 69 (268)
T cd06273 2 IGAIVPT-LDNAIFARVIQAFQETLAAH-G-----YTLLVASSGYD--LDREYAQARKLLERGVDGLALIGLDHSP---A 69 (268)
T ss_pred eEEEeCC-CCCchHHHHHHHHHHHHHHC-C-----CEEEEecCCCC--HHHHHHHHHHHHhcCCCEEEEeCCCCCH---H
Confidence 4455433 33345666666665533322 1 23334333222 2444 34455655679999999765443 4
Q ss_pred HHHHHHHhCCCeEeeCCCC
Q 016960 299 LQEIAEDRGIPSYWIDSEK 317 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~~ 317 (380)
+++.+++.+.|.+.+.+..
T Consensus 70 ~~~~l~~~~iPvv~~~~~~ 88 (268)
T cd06273 70 LLDLLARRGVPYVATWNYS 88 (268)
T ss_pred HHHHHHhCCCCEEEEcCCC
Confidence 4556677889999987643
No 45
>PF14542 Acetyltransf_CG: GCN5-related N-acetyl-transferase; PDB: 2H5M_A 2Q44_A 1XMT_A 2Q4Y_A 2IL4_A 2EVN_A 1R57_A.
Probab=69.67 E-value=5.1 Score=31.95 Aligned_cols=34 Identities=24% Similarity=0.453 Sum_probs=25.9
Q ss_pred EcCCCCCHH----HHHHHHhcCCcEEeccCchhHHHHHH
Q 016960 102 LPAFGAAVE----EMVTLNNKNVQIVDTTCPWVSKVWTS 136 (380)
Q Consensus 102 IrAHGv~~~----~~~~l~~~g~~viDaTCP~V~kv~~~ 136 (380)
+|-+|+... ..+.++++|.+|+ .+||||.+--+.
T Consensus 34 ~rGqGia~~L~~~~l~~a~~~~~kv~-p~C~y~~~~~~~ 71 (78)
T PF14542_consen 34 LRGQGIAKKLVEAALDYARENGLKVV-PTCSYVAKYFRR 71 (78)
T ss_dssp SSTTTHHHHHHHHHHHHHHHTT-EEE-ETSHHHHHHHHH
T ss_pred ccCCcHHHHHHHHHHHHHHHCCCEEE-EECHHHHHHHHh
Confidence 566788776 5667888999998 999999976543
No 46
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=69.11 E-value=21 Score=35.23 Aligned_cols=116 Identities=15% Similarity=0.207 Sum_probs=75.2
Q ss_pred ceEEecccccCHHHHHHHHHcC-cEEecCCccc-cccccccCCCEEEEcCCCCCHHHHHHHHhcCCcE-EeccCchhHHH
Q 016960 57 KIWITNEIIHNPTVNKRLEEMA-VQNIPVEEGK-KQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQI-VDTTCPWVSKV 133 (380)
Q Consensus 57 ~Iy~lG~LIHN~~Vv~~L~~~G-v~~v~~~~~~-~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~~v-iDaTCP~V~kv 133 (380)
.|+++|=----....++|...+ ..++.+..+. ..+.+. .+. +.+.-.|-.....+.+++.++.+ ||||=||-..+
T Consensus 4 ~ilvlGGT~Dar~la~~L~~~~~~~~~ss~t~~g~~l~~~-~~~-~~~~G~l~~e~l~~~l~e~~i~llIDATHPyAa~i 81 (257)
T COG2099 4 RILLLGGTSDARALAKKLAAAPVDIILSSLTGYGAKLAEQ-IGP-VRVGGFLGAEGLAAFLREEGIDLLIDATHPYAARI 81 (257)
T ss_pred eEEEEeccHHHHHHHHHhhccCccEEEEEcccccccchhc-cCC-eeecCcCCHHHHHHHHHHcCCCEEEECCChHHHHH
Confidence 3555555555555666666665 3333332211 111111 132 78889999999999999999887 99999999999
Q ss_pred HHHHHHHhhC-CCeEEEEecCCCceeeeecccCCcEEEEcChhhHHHh
Q 016960 134 WTSVEKHKKG-DYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYV 180 (380)
Q Consensus 134 ~~~v~~~~~~-Gy~iIIiG~~~HpEv~gi~g~~~~~~vv~~~~e~~~~ 180 (380)
-+-+-+.+++ |-..+-+-.+.-... ....+-|.|.+|+..+
T Consensus 82 S~Na~~aake~gipy~r~eRP~~~~~------gd~~~~V~d~~ea~~~ 123 (257)
T COG2099 82 SQNAARAAKETGIPYLRLERPPWAPN------GDNWIEVADIEEAAEA 123 (257)
T ss_pred HHHHHHHHHHhCCcEEEEECCccccC------CCceEEecCHHHHHHH
Confidence 8888877764 666666655432222 1345778888887654
No 47
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=69.00 E-value=29 Score=37.91 Aligned_cols=107 Identities=15% Similarity=0.216 Sum_probs=73.5
Q ss_pred ccHHHHHHHHHHHHhhCCCCceEEeccc-----ccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHH
Q 016960 37 WGVERAVQIAYEARKQFPEEKIWITNEI-----IHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEE 111 (380)
Q Consensus 37 ~GV~RAI~~a~~~~~~~~~~~Iy~lG~L-----IHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~ 111 (380)
.+.++|++...+++++ +++|.++|+- -=---..+-|++.|...+.- -+|.- +---||++++.
T Consensus 53 ~~m~~a~~ri~~ai~~--~e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~--------~IP~R---~~eGYGl~~~~ 119 (575)
T PRK11070 53 SGIEKAVELLYNALRE--GTRIIVVGDFDADGATSTALSVLALRSLGCSNVDY--------LVPNR---FEDGYGLSPEV 119 (575)
T ss_pred hCHHHHHHHHHHHHHC--CCEEEEEEecCccHHHHHHHHHHHHHHcCCCceEE--------EeCCC---CcCCCCCCHHH
Confidence 5999999999999986 4689999873 11223466778788732210 01110 11248999999
Q ss_pred HHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCce
Q 016960 112 MVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEE 157 (380)
Q Consensus 112 ~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpE 157 (380)
.+.+.+.|..+| =||=.-..-+..++...+.|..|||.-+...++
T Consensus 120 i~~~~~~~~~Li-ItvD~Gi~~~e~i~~a~~~gidvIVtDHH~~~~ 164 (575)
T PRK11070 120 VDQAHARGAQLI-VTVDNGISSHAGVAHAHALGIPVLVTDHHLPGE 164 (575)
T ss_pred HHHHHhcCCCEE-EEEcCCcCCHHHHHHHHHCCCCEEEECCCCCCC
Confidence 999999887664 344444667778888888899999998775544
No 48
>PRK09453 phosphodiesterase; Provisional
Probab=68.88 E-value=43 Score=30.10 Aligned_cols=44 Identities=16% Similarity=0.101 Sum_probs=28.9
Q ss_pred HHHHHHHHHHhhCCCCceEEecccccC------------HHHHHHHHHcC--cEEecC
Q 016960 41 RAVQIAYEARKQFPEEKIWITNEIIHN------------PTVNKRLEEMA--VQNIPV 84 (380)
Q Consensus 41 RAI~~a~~~~~~~~~~~Iy~lG~LIHN------------~~Vv~~L~~~G--v~~v~~ 84 (380)
.|.+.+.+.+++.+...|+.+|+|++- ..+.+.|++.| +.+|..
T Consensus 14 ~~~~~~l~~~~~~~~d~ii~lGDi~~~~~~~~~~~~~~~~~~~~~l~~~~~~v~~V~G 71 (182)
T PRK09453 14 PATEKALELFAQSGADWLVHLGDVLYHGPRNPLPEGYAPKKVAELLNAYADKIIAVRG 71 (182)
T ss_pred HHHHHHHHHHHhcCCCEEEEcccccccCcCCCCccccCHHHHHHHHHhcCCceEEEcc
Confidence 345555555543333579999999962 45788888886 656654
No 49
>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=68.04 E-value=23 Score=34.25 Aligned_cols=56 Identities=11% Similarity=0.166 Sum_probs=44.9
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEe
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYW 312 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~ 312 (380)
-++.+.||=|++..-.+ ++++|. .+-.+..|+|+.+|+.|..+..++++.+.|.+.
T Consensus 41 i~l~~~D~~~~p~~a~~-~a~~Li-~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~ 96 (333)
T cd06331 41 LELVVEDPASDPAFAAK-AARRLI-RDDKVDAVFGCYTSASRKAVLPVVERGRGLLFY 96 (333)
T ss_pred EEEEEECCCCCHHHHHH-HHHHHH-hccCCcEEEecccHHHHHHHHHHHHhcCceEEe
Confidence 36778899997766664 667887 455788899999999999999999998876654
No 50
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=67.79 E-value=3.7 Score=39.61 Aligned_cols=97 Identities=22% Similarity=0.306 Sum_probs=55.9
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhH
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTS 297 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~ 297 (380)
++|++++--+-+.+. ...++..++.|... +-+ ...+=..+... +++..-. .++|.+.|=|| ||.
T Consensus 33 ~~i~FIPtAs~~~~~-~~Yv~k~~~~l~~l-g~~--------v~~L~l~~~~~-~~Ie~~l-~~~d~IyVgGG----NTF 96 (224)
T COG3340 33 KTIAFIPTASVDSED-DFYVEKVRNALAKL-GLE--------VSELHLSKPPL-AAIENKL-MKADIIYVGGG----NTF 96 (224)
T ss_pred ceEEEEecCccccch-HHHHHHHHHHHHHc-CCe--------eeeeeccCCCH-HHHHHhh-hhccEEEECCc----hHH
Confidence 478888754444332 33344444433322 211 11222233333 3344433 36998888776 999
Q ss_pred HHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCCCCCEEEEEeCCC
Q 016960 298 HLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGAS 355 (380)
Q Consensus 298 kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGAS 355 (380)
.|.+..++.|.... | .+.|= +|..-||.+|||=
T Consensus 97 ~LL~~lke~gld~i-------------I-----------r~~vk-~G~~YiG~SAGA~ 129 (224)
T COG3340 97 NLLQELKETGLDDI-------------I-----------RERVK-AGTPYIGWSAGAN 129 (224)
T ss_pred HHHHHHHHhCcHHH-------------H-----------HHHHH-cCCceEEeccCce
Confidence 99999999984221 1 12454 7899999999983
No 51
>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=67.76 E-value=89 Score=28.48 Aligned_cols=113 Identities=13% Similarity=0.097 Sum_probs=56.5
Q ss_pred CChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHH-HHHhhhhcCCEEEEEccCCCchhHHHHHHHHHh
Q 016960 228 MLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDA-MYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDR 306 (380)
Q Consensus 228 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a-~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~ 306 (380)
++-.-|..+.+-+.+...+. + -++.++++ .-..++|.+ +..+.+..+|.+|+.+...+ .. .++.+.+.
T Consensus 9 ~~~~~~~~i~~gi~~~~~~~-g-----~~~~~~~~--~~~~~~~~~~i~~l~~~~vdgiii~~~~~~--~~-~~~~~~~~ 77 (260)
T cd06286 9 INHPYFSQLVDGIEKAALKH-G-----YKVVLLQT--NYDKEKELEYLELLKTKQVDGLILCSREND--WE-VIEPYTKY 77 (260)
T ss_pred CCCchHHHHHHHHHHHHHHc-C-----CEEEEEeC--CCChHHHHHHHHHHHHcCCCEEEEeCCCCC--HH-HHHHHhcC
Confidence 44455666666666543322 2 23333332 334456644 44454567999999876433 23 33344455
Q ss_pred CCCeEeeCCCCccCCCCcchhhh-ccchhhhhcccCCCCCCEEEEEeCC
Q 016960 307 GIPSYWIDSEKRIGPGNKIAYKL-MHGELVEKENWLPKGQITIGITSGA 354 (380)
Q Consensus 307 ~~~t~~Ie~~~dL~~~~~~~~~~-~~~~~~~~~~wl~~~~~~VGITAGA 354 (380)
+ |.+++.+..+ ....-+...- ..+.. .....+..|.++||+-+|.
T Consensus 78 ~-pvv~~~~~~~-~~~~~v~~d~~~~~~~-~~~~l~~~g~~~i~~i~~~ 123 (260)
T cd06286 78 G-PIVLCEEYDS-KNISSVYIDHYEAFYE-ALKYLIQKGYRKIAYCIGR 123 (260)
T ss_pred C-CEEEEecccC-CCCCEEEECChHHHHH-HHHHHHHCCCceEEEEcCC
Confidence 5 8888887644 2111111111 11111 1111222478999998875
No 52
>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=67.50 E-value=8.8 Score=37.18 Aligned_cols=56 Identities=16% Similarity=0.197 Sum_probs=43.6
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEe
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYW 312 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~ 312 (380)
-++.+.||-|.++.-++ ++++|. .+-.+.+++|+..|+.+..+..++++.+.|.+-
T Consensus 41 i~l~~~D~~~~~~~a~~-~a~~li-~~~~V~~i~G~~~s~~~~a~~~~~~~~~vp~i~ 96 (340)
T cd06349 41 LNIVFEDSKSDPRQAVT-IAQKFV-ADPRIVAVLGDFSSGVSMAASPIYQRAGLVQLS 96 (340)
T ss_pred EEEEEeCCCCChHHHHH-HHHHHh-ccCCeEEEECCCccHhHHHhHHHHHhCCCeEEe
Confidence 35668899998887774 445665 344577888999999999999999999887654
No 53
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=66.92 E-value=11 Score=34.56 Aligned_cols=43 Identities=14% Similarity=0.050 Sum_probs=31.8
Q ss_pred HHHHHHHHhcCCcE-EeccCchhHHHHHHHHHHhhCCCeEEEEe
Q 016960 109 VEEMVTLNNKNVQI-VDTTCPWVSKVWTSVEKHKKGDYTSIIHG 151 (380)
Q Consensus 109 ~~~~~~l~~~g~~v-iDaTCP~V~kv~~~v~~~~~~Gy~iIIiG 151 (380)
....+.+.++|..+ +|+|+..-....+.++.+.+.||+|.|+-
T Consensus 83 ~~~~~~a~~~~~nii~E~tl~~~~~~~~~~~~~k~~GY~v~l~~ 126 (199)
T PF06414_consen 83 EKLIEYAIENRYNIIFEGTLSNPSKLRKLIREAKAAGYKVELYY 126 (199)
T ss_dssp HHHHHHHHHCT--EEEE--TTSSHHHHHHHHHHHCTT-EEEEEE
T ss_pred HHHHHHHHHcCCCEEEecCCCChhHHHHHHHHHHcCCceEEEEE
Confidence 45667777777655 89999999999999999999999998875
No 54
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=66.62 E-value=21 Score=34.87 Aligned_cols=104 Identities=16% Similarity=0.119 Sum_probs=60.9
Q ss_pred HHHHHHHHHcCcEEecCCccccccccccC--CCEEEEcCCCCCHH-HHHHHHhcCCcE-EeccCchhHHHHHHHHHHhhC
Q 016960 68 PTVNKRLEEMAVQNIPVEEGKKQFDVVNK--GDVVVLPAFGAAVE-EMVTLNNKNVQI-VDTTCPWVSKVWTSVEKHKKG 143 (380)
Q Consensus 68 ~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~--g~~VIIrAHGv~~~-~~~~l~~~g~~v-iDaTCP~V~kv~~~v~~~~~~ 143 (380)
..+.+.|.++|..++-..-....-..+.. +..|+.-. .+.+ ..+.+++.++.+ ||||=||-..+.+.+.+.+++
T Consensus 13 r~la~~L~~~g~~v~~s~~t~~~~~~~~~~g~~~v~~g~--l~~~~l~~~l~~~~i~~VIDAtHPfA~~is~~a~~a~~~ 90 (256)
T TIGR00715 13 RAIAKGLIAQGIEILVTVTTSEGKHLYPIHQALTVHTGA--LDPQELREFLKRHSIDILVDATHPFAAQITTNATAVCKE 90 (256)
T ss_pred HHHHHHHHhCCCeEEEEEccCCccccccccCCceEEECC--CCHHHHHHHHHhcCCCEEEEcCCHHHHHHHHHHHHHHHH
Confidence 44566777777655432111000111222 22344443 3344 447888887765 999999999999999988774
Q ss_pred -CCeEEEEecCCCceeeeecccCCcEEEEcChhhHHHh
Q 016960 144 -DYTSIIHGKYSHEETVATASFAGKYIIVKNMKEAEYV 180 (380)
Q Consensus 144 -Gy~iIIiG~~~HpEv~gi~g~~~~~~vv~~~~e~~~~ 180 (380)
|-..+=+-.+ +.. . .+..+.+.|.+++..+
T Consensus 91 ~~ipylR~eR~---~~~---~-~~~~~~v~~~~ea~~~ 121 (256)
T TIGR00715 91 LGIPYVRFERP---PLA---L-GKNIIEVPDIEEATRV 121 (256)
T ss_pred hCCcEEEEECC---CCC---C-CCCeEEeCCHHHHHHH
Confidence 7777766543 210 0 1235677888876543
No 55
>PF02896 PEP-utilizers_C: PEP-utilising enzyme, TIM barrel domain; InterPro: IPR000121 A number of enzymes that catalyze the transfer of a phosphoryl group from phosphoenolpyruvate (PEP) via a phospho-histidine intermediate have been shown to be structurally related [, , , ]. All these enzymes share the same catalytic mechanism: they bind PEP and transfer the phosphoryl group from it to a histidine residue. The sequence around that residue is highly conserved. This domain is often found associated with the pyruvate phosphate dikinase, PEP/pyruvate-binding domain (IPR002192 from INTERPRO) at its N terminus and the PEP-utilizing enzyme mobile domain.; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0016310 phosphorylation; PDB: 2HRO_A 2OLS_A 2DIK_A 2R82_A 1JDE_A 1DIK_A 1GGO_A 1KBL_A 1KC7_A 2BG5_B ....
Probab=66.28 E-value=10 Score=37.91 Aligned_cols=51 Identities=12% Similarity=0.163 Sum_probs=42.5
Q ss_pred CCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEec
Q 016960 32 SYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIP 83 (380)
Q Consensus 32 ~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~ 83 (380)
...|-..|.|+|+.+-++.++. +++|.+.|++.+||..+..|-..||..++
T Consensus 226 ~d~~~Pavl~li~~vi~~a~~~-g~~vsvCGe~a~~p~~~~~Ll~lGi~~lS 276 (293)
T PF02896_consen 226 YDPLHPAVLRLIKQVIDAAHKA-GKPVSVCGEMASDPEAIPLLLGLGIRSLS 276 (293)
T ss_dssp S-TTSHHHHHHHHHHHHHHHHT-T-EEEEESGGGGSHHHHHHHHHHT-SEEE
T ss_pred cCcchHHHHHHHHHHHHHHhhc-CcEEEEecCCCCCHHHHHHHHHcCCCEEE
Confidence 3456678999999998888765 58999999999999999999999998886
No 56
>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=65.75 E-value=44 Score=30.97 Aligned_cols=91 Identities=12% Similarity=-0.023 Sum_probs=52.5
Q ss_pred eeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 219 KVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 219 kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
||+++...+.+-.-|..+.+-+++...+. + -++.++++--+......+.+..|....+|.+|+.+..... ...
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~-g-----~~v~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~-~~~ 73 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDL-G-----VDVEYRGPETFDVADMARLIEAAIAAKPDGIVVTIPDPDA-LDP 73 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHh-C-----CEEEEECCCCCCHHHHHHHHHHHHHhCCCEEEEeCCChHH-hHH
Confidence 35666654424566777887777643332 1 2344444433122223355555555689999998753222 234
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
.++.+++.+.|...+.+.
T Consensus 74 ~l~~~~~~~ipvV~~~~~ 91 (271)
T cd06312 74 AIKRAVAAGIPVISFNAG 91 (271)
T ss_pred HHHHHHHCCCeEEEeCCC
Confidence 456667888999999864
No 57
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=64.79 E-value=19 Score=29.45 Aligned_cols=51 Identities=24% Similarity=0.376 Sum_probs=39.2
Q ss_pred cHHHHHhHHH--HHHhhhhcCCEEEEEccCCCchh-HHHHHHHHHhCCCeEeeCC
Q 016960 264 CDATQERQDA--MYKMVEEKVDLILVVGGWNSSNT-SHLQEIAEDRGIPSYWIDS 315 (380)
Q Consensus 264 C~AT~~RQ~a--~~eLa~~~vD~miVVGG~nSSNT-~kL~eia~~~~~~t~~Ie~ 315 (380)
+.....++.+ +.... +++|++||+=+..|=|+ ++.-+.|++.+.|.++..+
T Consensus 30 g~~~~~~~~~~~l~~~i-~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~~~~ 83 (97)
T PF10087_consen 30 GRDGGDEKKASRLPSKI-KKADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIYSRS 83 (97)
T ss_pred ecCCCCccchhHHHHhc-CCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEEEECC
Confidence 4444455555 77776 58999999999999995 4677899999999888763
No 58
>cd02958 UAS UAS family; UAS is a domain of unknown function. Most members of this family are uncharacterized proteins with similarity to FAS-associated factor 1 (FAF1) and ETEA because of the presence of a UAS domain N-terminal to a ubiquitin-associated UBX domain. FAF1 is a longer protein, compared to the other members of this family, having additional N-terminal domains, a ubiquitin-associated UBA domain and a nuclear targeting domain. FAF1 is an apoptotic signaling molecule that acts downstream in the Fas signal transduction pathway. It interacts with the cytoplasmic domain of Fas, but not to a Fas mutant that is deficient in signal transduction. ETEA is the protein product of a highly expressed gene in T-cells and eosinophils of atopic dermatitis patients. The presence of the ubiquitin-associated UBX domain in the proteins of this family suggests the possibility of their involvement in ubiquitination. Recently, FAF1 has been shown to interact with valosin-containing protein (VCP),
Probab=64.32 E-value=71 Score=26.35 Aligned_cols=83 Identities=13% Similarity=0.117 Sum_probs=57.5
Q ss_pred ccccccHHHHH--hH----HHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccc
Q 016960 259 SFNTICDATQE--RQ----DAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHG 332 (380)
Q Consensus 259 ~~nTIC~AT~~--RQ----~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~ 332 (380)
+++..|..... |+ +++.++. . -..+++....+|+....|.+.....+.|++.+=++.
T Consensus 24 ~~~~~c~~c~~~~~~vl~~~~v~~~l-~-~~~v~~~~d~~~~e~~~~~~~~~~~~~P~~~~i~~~--------------- 86 (114)
T cd02958 24 LQSEDEFDSQVLNRDLWSNESVKEFI-R-ENFIFWQCDIDSSEGQRFLQSYKVDKYPHIAIIDPR--------------- 86 (114)
T ss_pred EecCCcchHHHHHHHHcCCHHHHHHH-H-hCEEEEEecCCCccHHHHHHHhCccCCCeEEEEeCc---------------
Confidence 45666644333 43 6777776 2 378888889998888888777776777775543321
Q ss_pred hhhhhcccCCCCCCEEEEEeCCCCCHHHHHHHHHHHH
Q 016960 333 ELVEKENWLPKGQITIGITSGASTPDKAVEDVLKKVF 369 (380)
Q Consensus 333 ~~~~~~~wl~~~~~~VGITAGASTP~~lI~eV~~~l~ 369 (380)
+...|....|..+|+.++..+..++.
T Consensus 87 -----------~g~~l~~~~G~~~~~~f~~~L~~~~~ 112 (114)
T cd02958 87 -----------TGEVLKVWSGNITPEDLLSQLIEFLE 112 (114)
T ss_pred -----------cCcEeEEEcCCCCHHHHHHHHHHHHh
Confidence 24567788999999988888777654
No 59
>PRK05282 (alpha)-aspartyl dipeptidase; Validated
Probab=63.65 E-value=16 Score=35.31 Aligned_cols=70 Identities=20% Similarity=0.275 Sum_probs=39.1
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhH
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTS 297 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~ 297 (380)
++|++++=.+.. ++++.-++..++.|.+. +-+ +...++. .+....|. ++|+++|-|| ||.
T Consensus 32 ~~v~fIPtAs~~-~~~~~y~~~~~~af~~l-G~~-----v~~l~~~-------~d~~~~l~--~ad~I~v~GG----nt~ 91 (233)
T PRK05282 32 RKAVFIPYAGVT-QSWDDYTAKVAEALAPL-GIE-----VTGIHRV-------ADPVAAIE--NAEAIFVGGG----NTF 91 (233)
T ss_pred CeEEEECCCCCC-CCHHHHHHHHHHHHHHC-CCE-----EEEeccc-------hhhHHHHh--cCCEEEECCc----cHH
Confidence 479998866643 34444444455544443 221 2222211 22344454 6997777665 778
Q ss_pred HHHHHHHHhC
Q 016960 298 HLQEIAEDRG 307 (380)
Q Consensus 298 kL~eia~~~~ 307 (380)
+|.++-++.+
T Consensus 92 ~l~~~l~~~g 101 (233)
T PRK05282 92 QLLKQLYERG 101 (233)
T ss_pred HHHHHHHHCC
Confidence 8888887775
No 60
>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=63.47 E-value=52 Score=30.24 Aligned_cols=88 Identities=14% Similarity=0.188 Sum_probs=52.4
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++... .+-.-|..+.+-+.+...+.. +-++.+.++ +....+| +.+..+.+..+|.+|+.+. .++.+..
T Consensus 2 igvi~~~-~~~~~~~~~~~gi~~~~~~~~-----~~~~~~~~~--~~~~~~~~~~i~~l~~~~vdgiii~~~-~~~~~~~ 72 (272)
T cd06301 2 IGVSMAN-FDDNFLTLLRNAMKEHAKVLG-----GVELQFEDA--KNDVATQLSQVENFIAQGVDAIIVVPV-DTAATAP 72 (272)
T ss_pred eeEeecc-cCCHHHHHHHHHHHHHHHHcC-----CcEEEEeCC--CCCHHHHHHHHHHHHHcCCCEEEEecC-chhhhHH
Confidence 5666544 344667777777765433311 123444333 2233344 4555555568999998764 4555566
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
+++.+.+.+.|.+.+.+.
T Consensus 73 ~~~~l~~~~iPvv~~~~~ 90 (272)
T cd06301 73 IVKAANAAGIPLVYVNRR 90 (272)
T ss_pred HHHHHHHCCCeEEEecCC
Confidence 777778888999988764
No 61
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=63.41 E-value=37 Score=31.88 Aligned_cols=121 Identities=12% Similarity=0.039 Sum_probs=71.4
Q ss_pred ccchhHHHHHHHcCCcceecc-eEEE---------EeCC-CCCcccHHHHHHHHHHH---HhhCCCCceEEecccccCHH
Q 016960 4 EYTSDIIKKLKENGFEYTWGN-VKVK---------LAES-YGFCWGVERAVQIAYEA---RKQFPEEKIWITNEIIHNPT 69 (380)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~g~-mkI~---------lA~~-~GFC~GV~RAI~~a~~~---~~~~~~~~Iy~lG~LIHN~~ 69 (380)
++.+.+.+.|++.|+....-+ ++|. +... .+..|==.+||+...+. .+...+.++|+.|+=
T Consensus 10 ~~~~~l~~~L~~~G~~~~~~P~i~i~~~~~~~~~~l~~~~d~iifTS~naV~~~~~~~~~~~~~~~~~~~aVG~~----- 84 (240)
T PRK09189 10 PAAERTAARLRAMGHEPVLLPLSRPVHDVAAAFTALSEPHGAIAVTSAEAVRHLAALGERLLPHLALPLFAVGEA----- 84 (240)
T ss_pred CchHHHHHHHHHCCCceEEecccccccChhhhhhhhcCCcCEEEEECHHHHHHHHhcchhhHHhcCCeEEEEcHH-----
Confidence 456778889999986555432 1221 1111 12233336777765432 111224589999964
Q ss_pred HHHHHHHcCcEEecCCcc-ccccc-----cc-cCCCEEEEcCCCCCHHHHHHHHhcCCcE-----EeccCch
Q 016960 70 VNKRLEEMAVQNIPVEEG-KKQFD-----VV-NKGDVVVLPAFGAAVEEMVTLNNKNVQI-----VDTTCPW 129 (380)
Q Consensus 70 Vv~~L~~~Gv~~v~~~~~-~~~~~-----el-~~g~~VIIrAHGv~~~~~~~l~~~g~~v-----iDaTCP~ 129 (380)
.-+.|++.|+..+-.... .+.|- .. +.+.++++|+-+-.+...+.|+++|+.| |++.||-
T Consensus 85 Ta~~l~~~G~~~~~~~~~~~e~L~~~~~~~~~~~~~vL~~rg~~~r~~l~~~L~~~G~~v~~~~vY~~~~~~ 156 (240)
T PRK09189 85 TAEAARELGFRHVIEGGGDGVRLAETVAAALAPTARLLYLAGRPRAPVFEDRLAAAGIPFRVAECYDMLPVM 156 (240)
T ss_pred HHHHHHHcCCCCCcCCCCCHHHHHHHHHHhcCCCCcEEEeccCcccchhHHHHHhCCCeeEEEEEEEeecCC
Confidence 558899999873321111 11111 11 2345789999999999999999999665 7766653
No 62
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=62.67 E-value=23 Score=30.81 Aligned_cols=47 Identities=19% Similarity=0.441 Sum_probs=40.2
Q ss_pred HHhhhhcCCEEEEEccCC-CchhHHHHHHHHHhCCCeEeeCCCCccCC
Q 016960 275 YKMVEEKVDLILVVGGWN-SSNTSHLQEIAEDRGIPSYWIDSEKRIGP 321 (380)
Q Consensus 275 ~eLa~~~vD~miVVGG~n-SSNT~kL~eia~~~~~~t~~Ie~~~dL~~ 321 (380)
+.+-.+++.++++..+-. .-.+.+|-.+|++++.|-.+|.|..+|-.
T Consensus 37 Kai~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vpyv~V~sk~~LG~ 84 (116)
T COG1358 37 KAIERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYVYVGSKKELGK 84 (116)
T ss_pred HHHHcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCCEEEeCCHHHHHH
Confidence 333346899999999988 77888999999999999999999999973
No 63
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=62.44 E-value=25 Score=32.87 Aligned_cols=74 Identities=15% Similarity=0.252 Sum_probs=46.0
Q ss_pred cCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCC----CCCCEEEEEeCCCC
Q 016960 281 KVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLP----KGQITIGITSGAST 356 (380)
Q Consensus 281 ~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~----~~~~~VGITAGAST 356 (380)
..|++|..-+...-| .++++.|++ +.....+++++ +.. -+|| .+.-+||||+|...
T Consensus 70 ~adlViaaT~d~elN-~~i~~~a~~-~~lvn~~d~~~-~~~-----------------f~~Pa~~~~g~l~iaIsT~G~s 129 (202)
T PRK06718 70 DAFLVIAATNDPRVN-EQVKEDLPE-NALFNVITDAE-SGN-----------------VVFPSALHRGKLTISVSTDGAS 129 (202)
T ss_pred CceEEEEcCCCHHHH-HHHHHHHHh-CCcEEECCCCc-cCe-----------------EEEeeEEEcCCeEEEEECCCCC
Confidence 578766665555555 678888844 44433333322 222 3343 46789999998888
Q ss_pred CHHHHHHHHHHHHhhhhhh
Q 016960 357 PDKAVEDVLKKVFEIKREE 375 (380)
Q Consensus 357 P~~lI~eV~~~l~~~~~~~ 375 (380)
|- +-..+-+.|.++.+++
T Consensus 130 P~-la~~lr~~ie~~~~~~ 147 (202)
T PRK06718 130 PK-LAKKIRDELEALYDES 147 (202)
T ss_pred hH-HHHHHHHHHHHHcchh
Confidence 84 4566777777766554
No 64
>PRK14072 6-phosphofructokinase; Provisional
Probab=62.39 E-value=11 Score=39.33 Aligned_cols=47 Identities=19% Similarity=0.290 Sum_probs=36.6
Q ss_pred HHHhHHHHHHhhhhcCCEEEEEccCCCchhH-HHHHHHHHhC--CCeEee
Q 016960 267 TQERQDAMYKMVEEKVDLILVVGGWNSSNTS-HLQEIAEDRG--IPSYWI 313 (380)
Q Consensus 267 T~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~-kL~eia~~~~--~~t~~I 313 (380)
...++.++..|-+-.+|.+|||||-.|-.+- +|.+.+++.| .+...|
T Consensus 89 ~~~~~~~~~~l~~~~Id~LivIGGdgS~~~a~~L~e~~~~~g~~i~vIgI 138 (416)
T PRK14072 89 RAEYERLLEVFKAHDIGYFFYNGGNDSMDTALKVSQLAKKMGYPIRCIGI 138 (416)
T ss_pred hHHHHHHHHHHHHcCCCEEEEECChHHHHHHHHHHHHHHHhCCCceEEEe
Confidence 3466777777766789999999999998665 8899888777 555554
No 65
>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=62.01 E-value=99 Score=28.76 Aligned_cols=87 Identities=8% Similarity=-0.085 Sum_probs=47.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
++++. .++.-.-|..+..-+.+...+. +-++.++++-.+...+.| +.+..+.+..+|.+|+.+...... .
T Consensus 2 Igvi~-~~~~~~f~~~~~~gi~~~a~~~------g~~~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~-~- 72 (268)
T cd06306 2 LCVLY-PHLKDAYWLSVNYGMVEEAKRL------GVSLKLLEAGGYPNLAKQIAQLEDCAAWGADAILLGAVSPDGL-N- 72 (268)
T ss_pred eEEEc-CCCCCHHHHHHHHHHHHHHHHc------CCEEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhH-H-
Confidence 44444 2345567777777776543322 223433332222222334 455555556899999986433222 2
Q ss_pred HHHHHHHhCCCeEeeCC
Q 016960 299 LQEIAEDRGIPSYWIDS 315 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~ 315 (380)
.+..+++.|.|...+.+
T Consensus 73 ~~~~~~~~giPvV~~~~ 89 (268)
T cd06306 73 EILQQVAASIPVIALVN 89 (268)
T ss_pred HHHHHHHCCCCEEEecc
Confidence 34446678899988854
No 66
>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=61.68 E-value=13 Score=36.13 Aligned_cols=114 Identities=12% Similarity=0.138 Sum_probs=66.1
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCC-CCccCCCCcchhhh-ccc
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDS-EKRIGPGNKIAYKL-MHG 332 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~-~~dL~~~~~~~~~~-~~~ 332 (380)
-++.+.||-|++..-+ .++++|. .+=.+..|+|+..|+++.....++.+.+.|.+...+ ...|.......|+. .+.
T Consensus 40 ielv~~D~~~~p~~a~-~~a~~li-~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~a~~~~lt~~~~~~fr~~~~~ 117 (332)
T cd06344 40 LKVVIANDGNDPEIAK-KVADELV-KDPEILGVVGHYSSDATLAALDIYQKAKLVLISPTSTSVKLSNPGPYFFRTVPSN 117 (332)
T ss_pred EEEEEECCCCChHHHH-HHHHHHh-cccCceEEEcCCCcHHHHHHHHHHhhcCceEEccCcCchhhcCCCCcEEEeCCCc
Confidence 3567889999876666 4667787 444677888999999999999999988877654333 33442111122221 111
Q ss_pred --hhhhhcccCC-CC-CCEEEEEeCCCC--CHHHHHHHHHHHHh
Q 016960 333 --ELVEKENWLP-KG-QITIGITSGAST--PDKAVEDVLKKVFE 370 (380)
Q Consensus 333 --~~~~~~~wl~-~~-~~~VGITAGAST--P~~lI~eV~~~l~~ 370 (380)
+.....+|+. .+ .++|++..-... ...+.+.+...+.+
T Consensus 118 ~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g~~~~~~~~~~~~~ 161 (332)
T cd06344 118 AVAARALAKYLKKKNKIKKVAIFYNSTSPYSQSLKQEFTSALLE 161 (332)
T ss_pred HHHHHHHHHHHHhhcCCCeEEEEeCCCchHhHHHHHHHHHHHHH
Confidence 1122223432 12 578887654433 34444445555444
No 67
>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=60.75 E-value=15 Score=29.98 Aligned_cols=72 Identities=15% Similarity=0.201 Sum_probs=49.2
Q ss_pred EEEcCCCCCHHHHHHHHhcCC--cEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccCC-cEEEEcChhh
Q 016960 100 VVLPAFGAAVEEMVTLNNKNV--QIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAG-KYIIVKNMKE 176 (380)
Q Consensus 100 VIIrAHGv~~~~~~~l~~~g~--~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~~-~~~vv~~~~e 176 (380)
||+-.--++..+.+.|++.+. .+||.. +..++++.++|+. ++.|+..++++---.+... +.+++-+.+|
T Consensus 2 vI~G~g~~~~~i~~~L~~~~~~vvvid~d-------~~~~~~~~~~~~~-~i~gd~~~~~~l~~a~i~~a~~vv~~~~~d 73 (116)
T PF02254_consen 2 VIIGYGRIGREIAEQLKEGGIDVVVIDRD-------PERVEELREEGVE-VIYGDATDPEVLERAGIEKADAVVILTDDD 73 (116)
T ss_dssp EEES-SHHHHHHHHHHHHTTSEEEEEESS-------HHHHHHHHHTTSE-EEES-TTSHHHHHHTTGGCESEEEEESSSH
T ss_pred EEEcCCHHHHHHHHHHHhCCCEEEEEECC-------cHHHHHHHhcccc-cccccchhhhHHhhcCccccCEEEEccCCH
Confidence 455555567788899999883 446554 6668888899977 6779999999987766554 4566655555
Q ss_pred HHH
Q 016960 177 AEY 179 (380)
Q Consensus 177 ~~~ 179 (380)
..+
T Consensus 74 ~~n 76 (116)
T PF02254_consen 74 EEN 76 (116)
T ss_dssp HHH
T ss_pred HHH
Confidence 544
No 68
>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=60.45 E-value=14 Score=36.21 Aligned_cols=56 Identities=11% Similarity=0.159 Sum_probs=44.5
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEe
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYW 312 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~ 312 (380)
-++.+.|+-+..+.-+ +++++|. .+-.+..|+|+..|+++..+..++++.+.|.+.
T Consensus 41 i~lv~~D~~~~p~~a~-~~a~~Li-~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~ 96 (347)
T cd06335 41 LELVERDDRGNPARGL-QNAQELA-ADEKVVAVLGGLHTPVALANLEFIQQNKIPLIG 96 (347)
T ss_pred EEEEeccCCCCcHHHH-HHHHHHh-ccCCeEEEEcCCCCHHHHhhhHHHHhcCCcEEe
Confidence 3567889988777666 4556787 444678888999999999999999999887764
No 69
>TIGR02069 cyanophycinase cyanophycinase. This model describes both cytosolic and extracellular cyanophycinases. The former are part of a system in many Cyanobacteria and a few other species of generating and later utilizing a storage polymer for nitrogen, carbon, and energy, called cyanophycin. The latter are found in species such as Pseudomonas anguilliseptica that can use external cyanophycin. The polymer has a backbone of L-aspartic acid, with most Asp side chain carboxyl groups attached to L-arginine.
Probab=60.31 E-value=17 Score=35.28 Aligned_cols=53 Identities=19% Similarity=0.354 Sum_probs=34.4
Q ss_pred HHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCCCCCEEEEE
Q 016960 272 DAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGIT 351 (380)
Q Consensus 272 ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGIT 351 (380)
+.+..|. ++|++++-|| ||.+|.+.-+..+. ++.|+ +++.++.-.+|.+
T Consensus 75 ~~~~~l~--~ad~I~~~GG----nq~~l~~~l~~t~l-------------~~~l~------------~~~~~G~vi~G~S 123 (250)
T TIGR02069 75 NAIALLS--NATGIFFTGG----DQLRITSLLGDTPL-------------LDRLR------------KRVHEGIILGGTS 123 (250)
T ss_pred HHHHHHh--hCCEEEEeCC----CHHHHHHHHcCCcH-------------HHHHH------------HHHHcCCeEEEcc
Confidence 3445553 7999999998 67788777644321 01111 3333678889999
Q ss_pred eCCC
Q 016960 352 SGAS 355 (380)
Q Consensus 352 AGAS 355 (380)
|||+
T Consensus 124 AGA~ 127 (250)
T TIGR02069 124 AGAA 127 (250)
T ss_pred HHHH
Confidence 9996
No 70
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=60.26 E-value=1.5e+02 Score=29.52 Aligned_cols=137 Identities=20% Similarity=0.268 Sum_probs=72.5
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHH-HHhhhhcCCEEEEEccCCCchh
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAM-YKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~-~eLa~~~vD~miVVGG~nSSNT 296 (380)
.-++++.-...+ ..|.+++.-+.+...+. + -++.+.+ |.-..++++.+ ..|.+.++|.+|+.| .++|
T Consensus 59 ~~Ig~i~p~~~~-~~~~~i~~gi~~~~~~~-g-----y~~~l~~--~~~~~~~e~~~~~~l~~~~vdGiIi~~--~~~~- 126 (333)
T COG1609 59 KTIGLVVPDITN-PFFAEILKGIEEAAREA-G-----YSLLLAN--TDDDPEKEREYLETLLQKRVDGLILLG--ERPN- 126 (333)
T ss_pred CEEEEEeCCCCC-chHHHHHHHHHHHHHHc-C-----CEEEEEC--CCCCHHHHHHHHHHHHHcCCCEEEEec--CCCC-
Confidence 457777664333 77888888877643322 1 1222222 22233444444 344457899999999 4444
Q ss_pred HHHHHHHHHhCCCeEeeCCCCccCCC-CcchhhhccchhhhhcccC-CCCCCEEEEEeCCCCCHHHHHHHHHHH
Q 016960 297 SHLQEIAEDRGIPSYWIDSEKRIGPG-NKIAYKLMHGELVEKENWL-PKGQITIGITSGASTPDKAVEDVLKKV 368 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~~~dL~~~-~~~~~~~~~~~~~~~~~wl-~~~~~~VGITAGASTP~~lI~eV~~~l 368 (380)
..+.+...+.+.|...|..... ++. .-+..-...+ ....-++| ..|+++||+.+|......-.+....+.
T Consensus 127 ~~~~~~l~~~~~P~V~i~~~~~-~~~~~~V~~Dn~~~-~~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~ 198 (333)
T COG1609 127 DSLLELLAAAGIPVVVIDRSPP-GLGVPSVGIDNFAG-AYLATEHLIELGHRRIAFIGGPLDSSASRERLEGYR 198 (333)
T ss_pred HHHHHHHHhcCCCEEEEeCCCc-cCCCCEEEEChHHH-HHHHHHHHHHCCCceEEEEeCCCccccHhHHHHHHH
Confidence 4455556677899999998655 221 0011000111 11111233 246899999999863333344444333
No 71
>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=58.73 E-value=83 Score=29.09 Aligned_cols=87 Identities=14% Similarity=0.182 Sum_probs=50.5
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++.- +++-.-|..+..-+.+...+. + -++.+.+ |......| +.+..+....+|.+|+.+.. ++....
T Consensus 2 igv~~~-~~~~~~~~~~~~~i~~~~~~~-g-----~~v~~~~--~~~~~~~~~~~i~~~~~~~~Dgiii~~~~-~~~~~~ 71 (282)
T cd06318 2 IGFSQY-TLNSPFFAALTEAAKAHAKAL-G-----YELISTD--AQGDLTKQIADVEDLLTRGVNVLIINPVD-PEGLVP 71 (282)
T ss_pred eeEEec-cccCHHHHHHHHHHHHHHHHc-C-----CEEEEEc--CCCCHHHHHHHHHHHHHcCCCEEEEecCC-ccchHH
Confidence 455542 355566777777776643332 2 2233332 22222333 45556655789999986643 333345
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
+++.+++.+.|...+++.
T Consensus 72 ~i~~~~~~~iPvV~~~~~ 89 (282)
T cd06318 72 AVAAAKAAGVPVVVVDSS 89 (282)
T ss_pred HHHHHHHCCCCEEEecCC
Confidence 667777889999988863
No 72
>PRK10444 UMP phosphatase; Provisional
Probab=58.60 E-value=88 Score=30.05 Aligned_cols=30 Identities=10% Similarity=0.091 Sum_probs=22.5
Q ss_pred HHhhCCCCceEEecccccCHHHHHHHHHcCcEEe
Q 016960 49 ARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNI 82 (380)
Q Consensus 49 ~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v 82 (380)
.+.+.+++++|++|+ +...+.|++.|+...
T Consensus 76 ~L~~~~~~~v~~~g~----~~l~~~l~~~g~~~~ 105 (248)
T PRK10444 76 FLRRQEGKKAYVIGE----GALIHELYKAGFTIT 105 (248)
T ss_pred HHHhCCCCEEEEEcC----HHHHHHHHHCcCEec
Confidence 333333457999998 788999999998855
No 73
>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=58.51 E-value=64 Score=29.31 Aligned_cols=60 Identities=20% Similarity=0.287 Sum_probs=42.7
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCc
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKR 318 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~d 318 (380)
++.+.|+=|++.... +.+.+|....+|++ ||+..|.++..+.+++++.+.|.+...+..+
T Consensus 42 ~~~~~d~~~~~~~~~-~~~~~l~~~~v~~i--ig~~~~~~~~~~~~~~~~~~ip~i~~~~~~~ 101 (298)
T cd06268 42 ELVVEDTQGDPEAAA-AAARELVDDGVDAV--IGPLSSGVALAAAPVAEEAGVPLISPGATSP 101 (298)
T ss_pred EEEEecCCCCHHHHH-HHHHHHHhCCceEE--EcCCcchhHHhhHHHHHhCCCcEEccCCCCc
Confidence 456778887665433 45566664457754 6888888888899999999999888766544
No 74
>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=58.11 E-value=12 Score=36.63 Aligned_cols=56 Identities=14% Similarity=0.262 Sum_probs=42.9
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEe
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYW 312 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~ 312 (380)
-++.+.||-|+++.- +.++++|. .+=.+..|||+.+|+++..+..++++.+.+.+.
T Consensus 41 v~lv~~D~~~~p~~a-~~~~~~Li-~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~ 96 (334)
T cd06356 41 VELVDYDTQSDNERY-QQYAQRLA-LQDKVDVVWGGISSASREAIRPIMDRTKQLYFY 96 (334)
T ss_pred EEEEEECCCCCHHHH-HHHHHHHH-HhCCCCEEEeCcchHHHHHHHHHHHhcCceEEe
Confidence 357788999988544 45667776 334577788999999999999999998876654
No 75
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=58.03 E-value=36 Score=32.74 Aligned_cols=72 Identities=11% Similarity=0.129 Sum_probs=47.0
Q ss_pred cCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCC----CCCCEEEEEeCCCC
Q 016960 281 KVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLP----KGQITIGITSGAST 356 (380)
Q Consensus 281 ~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~----~~~~~VGITAGAST 356 (380)
..++++..-+ +-.-..++++.|++.+.....+.+++. .. -+|| .+.-+|+|++|...
T Consensus 85 g~~LViaATd-D~~vN~~I~~~a~~~~~lvn~vd~p~~-~d-----------------Fi~PAiv~rg~l~IaIST~G~s 145 (223)
T PRK05562 85 DKHLIVIATD-DEKLNNKIRKHCDRLYKLYIDCSDYKK-GL-----------------CIIPYQRSTKNFVFALNTKGGS 145 (223)
T ss_pred CCcEEEECCC-CHHHHHHHHHHHHHcCCeEEEcCCccc-Ce-----------------EEeeeEEecCCEEEEEECCCcC
Confidence 3665555443 444557899999998877776666543 32 4444 46789999999988
Q ss_pred CHHHHHHHHHHHHhhh
Q 016960 357 PDKAVEDVLKKVFEIK 372 (380)
Q Consensus 357 P~~lI~eV~~~l~~~~ 372 (380)
|- +...+-+.|+++.
T Consensus 146 P~-lar~lR~~ie~~l 160 (223)
T PRK05562 146 PK-TSVFIGEKVKNFL 160 (223)
T ss_pred cH-HHHHHHHHHHHHH
Confidence 84 3345555555544
No 76
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=57.88 E-value=27 Score=35.66 Aligned_cols=107 Identities=6% Similarity=-0.028 Sum_probs=68.3
Q ss_pred CCcccHHHHHHHHHHHHhh--------CCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCC
Q 016960 34 GFCWGVERAVQIAYEARKQ--------FPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAF 105 (380)
Q Consensus 34 GFC~GV~RAI~~a~~~~~~--------~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAH 105 (380)
.| +|.+..+++.++.+++ ..+.+|.+.|....|+.+.+.+++.|..+|-+. .-.|..-...-=
T Consensus 201 ~~-~~~~~~~~~l~~l~~el~~~~~~~~~~~ril~tG~~~~~~~i~~~iE~~G~~VV~~e--------~c~g~r~~~~~v 271 (377)
T TIGR03190 201 QF-IDKREHNEMLKKVLAALPSRKVERKTGARFMTIGSENDDIAFMAMVESVGATIVIDD--------QCSGTRYFWNAS 271 (377)
T ss_pred cC-CCHHHHHHHHHHHHHHHHhccccCCCCeEEEEECCCCCcHHHHHHHHHCCCEEEEEC--------CCcccccccccC
Confidence 45 7999999887665531 122378999999988889999999999998642 222221100000
Q ss_pred CCCHHHHHHHHhcCCcEEeccCc------hhHHHHHHHHHHhhCCCeEEEEe
Q 016960 106 GAAVEEMVTLNNKNVQIVDTTCP------WVSKVWTSVEKHKKGDYTSIIHG 151 (380)
Q Consensus 106 Gv~~~~~~~l~~~g~~viDaTCP------~V~kv~~~v~~~~~~Gy~iIIiG 151 (380)
-.+.+.++.+.++-+..+-++|. ....+.+.++++.-+| ||.+.
T Consensus 272 ~~~~dpl~alA~~yl~~~~C~~~~~p~~~R~~~i~~lv~~~~~DG--VI~~~ 321 (377)
T TIGR03190 272 KPEDDVIKAIAERYCDRPACPTKDYPVHTRYDHVLGLAKEYNVQG--AIFLQ 321 (377)
T ss_pred CCCccHHHHHHHHhcCCCCCCCcCCCHHHHHHHHHHHHHHhCCCE--EEEec
Confidence 01224577777777776777773 3556667777777776 55554
No 77
>KOG2882 consensus p-Nitrophenyl phosphatase [Inorganic ion transport and metabolism]
Probab=57.75 E-value=48 Score=33.56 Aligned_cols=27 Identities=15% Similarity=0.223 Sum_probs=21.9
Q ss_pred CCCceEEecccccCHHHHHHHHHcCcEEecC
Q 016960 54 PEEKIWITNEIIHNPTVNKRLEEMAVQNIPV 84 (380)
Q Consensus 54 ~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~ 84 (380)
.+++||++|+-- ..+.|++.|+.....
T Consensus 105 ~~k~Vyvig~~g----i~~eL~~aG~~~~g~ 131 (306)
T KOG2882|consen 105 FGKKVYVIGEEG----IREELDEAGFEYFGG 131 (306)
T ss_pred CCCeEEEecchh----hhHHHHHcCceeecC
Confidence 357899999864 567999999998875
No 78
>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=57.48 E-value=1.5e+02 Score=26.95 Aligned_cols=128 Identities=20% Similarity=0.196 Sum_probs=63.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHH-HHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQD-AMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~-a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++...+ +-..|..+.+-+.+... +.+ -++..+++ ....++|. .+..+.+..+|.+|+.+...+. .
T Consensus 2 igvv~~~~-~~~~~~~~~~gi~~~~~-~~g-----~~~~~~~~--~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~---~ 69 (265)
T cd06299 2 IGVIVPDI-RNPYFASLATAIQDAAS-AAG-----YSTIIGNS--DENPETENRYLDNLLSQRVDGIIVVPHEQSA---E 69 (265)
T ss_pred EEEEecCC-CCccHHHHHHHHHHHHH-HcC-----CEEEEEeC--CCCHHHHHHHHHHHHhcCCCEEEEcCCCCCh---H
Confidence 45554332 33455666666655322 222 22333332 22334553 3445555689999999864332 2
Q ss_pred HHHHHHHhCCCeEeeCCCCccCCCCcchhhh-ccchhhhhcccCCCCCCEEEEEeCCCCCHHH
Q 016960 299 LQEIAEDRGIPSYWIDSEKRIGPGNKIAYKL-MHGELVEKENWLPKGQITIGITSGASTPDKA 360 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~-~~~~~~~~~~wl~~~~~~VGITAGASTP~~l 360 (380)
.++-+++.+.|...+.+.-+=....-+.... ..+... .+..+..+.++|++-.|..+..+.
T Consensus 70 ~~~~l~~~~ipvV~~~~~~~~~~~~~v~~d~~~~~~~~-~~~l~~~g~~~I~~i~~~~~~~~~ 131 (265)
T cd06299 70 QLEDLLKRGIPVVFVDREITGSPIPFVTSDPQPGMTEA-VSLLVALGHKKIGYISGPQDTSTG 131 (265)
T ss_pred HHHHHHhCCCCEEEEecccCCCCCCEEEECcHHHHHHH-HHHHHHcCCCcEEEEeCCCCcccH
Confidence 3566667889999898742211111111111 111110 001111368899998876554333
No 79
>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=57.45 E-value=84 Score=28.05 Aligned_cols=23 Identities=17% Similarity=0.410 Sum_probs=16.8
Q ss_pred ccCCCE-EEEcCCCCCHHHHHHHH
Q 016960 94 VNKGDV-VVLPAFGAAVEEMVTLN 116 (380)
Q Consensus 94 l~~g~~-VIIrAHGv~~~~~~~l~ 116 (380)
+.++|. ++|+-.|-++++.+.++
T Consensus 70 ~~~~Dv~I~iS~sG~t~~~i~~~~ 93 (179)
T TIGR03127 70 IKKGDLLIAISGSGETESLVTVAK 93 (179)
T ss_pred CCCCCEEEEEeCCCCcHHHHHHHH
Confidence 345665 57888899999887763
No 80
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS 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=56.92 E-value=16 Score=28.71 Aligned_cols=52 Identities=19% Similarity=0.190 Sum_probs=34.0
Q ss_pred EEEEcCCC-------CCHHHHHHHHhcCCcE-EeccCchhHHHHHHHHHHhhCCCe-EEEEecC
Q 016960 99 VVVLPAFG-------AAVEEMVTLNNKNVQI-VDTTCPWVSKVWTSVEKHKKGDYT-SIIHGKY 153 (380)
Q Consensus 99 ~VIIrAHG-------v~~~~~~~l~~~g~~v-iDaTCP~V~kv~~~v~~~~~~Gy~-iIIiG~~ 153 (380)
++|++.+. ..-++...|++.|+.+ +|-. -.++-+..+...+.|+. ++|+|+.
T Consensus 4 v~i~p~~~~~~~~~~~a~~la~~Lr~~g~~v~~d~~---~~~l~k~i~~a~~~g~~~~iiiG~~ 64 (94)
T cd00861 4 VVIIPMNMKDEVQQELAEKLYAELQAAGVDVLLDDR---NERPGVKFADADLIGIPYRIVVGKK 64 (94)
T ss_pred EEEEEcCCCcHHHHHHHHHHHHHHHHCCCEEEEECC---CCCcccchhHHHhcCCCEEEEECCc
Confidence 45666554 2334567777788887 6654 34677777777788888 6667744
No 81
>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=56.00 E-value=1.8e+02 Score=27.24 Aligned_cols=116 Identities=16% Similarity=0.095 Sum_probs=61.4
Q ss_pred CChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHh-
Q 016960 228 MLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDR- 306 (380)
Q Consensus 228 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~- 306 (380)
.+-..|..+++-+.+...+. + -++.+.++- +. ...++.+..|....+|.+|+.+.. ++..+.++.++.
T Consensus 12 ~~~~f~~~~~~gi~~~~~~~-g-----y~~~i~~~~-~~-~~~~~~i~~l~~~~vdgiI~~~~~---~~~~~~~~~~~~~ 80 (265)
T cd06354 12 GDKSFNQSAWEGLERAAKEL-G-----IEYKYVESK-SD-ADYEPNLEQLADAGYDLIVGVGFL---LADALKEVAKQYP 80 (265)
T ss_pred CchhHHHHHHHHHHHHHHHc-C-----CeEEEEecC-CH-HHHHHHHHHHHhCCCCEEEEcCcc---hHHHHHHHHHHCC
Confidence 45566777777776543322 2 223333332 22 334566777776799999998743 233555666554
Q ss_pred CCCeEeeCCCCcc-CCCCcchhhh-ccchhhhhcccCC--CCCCEEEEEeCCCC
Q 016960 307 GIPSYWIDSEKRI-GPGNKIAYKL-MHGELVEKENWLP--KGQITIGITSGAST 356 (380)
Q Consensus 307 ~~~t~~Ie~~~dL-~~~~~~~~~~-~~~~~~~~~~wl~--~~~~~VGITAGAST 356 (380)
+.|...+++..+- +....+.+.. ..+.... ..+. .++++||+-+|...
T Consensus 81 ~~PiV~i~~~~~~~~~~~~v~~d~~~a~~~a~--~ll~~~~G~~~I~~i~~~~~ 132 (265)
T cd06354 81 DQKFAIIDAVVDDPPNVASIVFKEEEGSFLAG--YLAALMTKTGKVGFIGGMDI 132 (265)
T ss_pred CCEEEEEecccCCCCcEEEEEecchhHHHHHH--HHHHhhcCCCeEEEEecccC
Confidence 6788888874332 2111121111 1111110 1121 28999999987543
No 82
>PRK00414 gmhA phosphoheptose isomerase; Reviewed
Probab=55.15 E-value=81 Score=29.16 Aligned_cols=86 Identities=17% Similarity=0.135 Sum_probs=56.1
Q ss_pred ccccHHHH-HhHHHHHHhhhhcCCEEEEEccC-CCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhc
Q 016960 261 NTICDATQ-ERQDAMYKMVEEKVDLILVVGGW-NSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKE 338 (380)
Q Consensus 261 nTIC~AT~-~RQ~a~~eLa~~~vD~miVVGG~-nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~ 338 (380)
|..++.+. .||-+ .++ .+-|++|+|-.. +|.|+...++.|++.|.+++.|.+..+=+
T Consensus 93 ~d~~~~~~~~~~~~--~~~-~~~Dv~I~iS~SG~t~~~i~~~~~ak~~g~~iI~iT~~~~s~------------------ 151 (192)
T PRK00414 93 NDFGYDYVFSRYVE--AVG-REGDVLLGISTSGNSGNIIKAIEAARAKGMKVITLTGKDGGK------------------ 151 (192)
T ss_pred ccCCHHHHHHHHHH--HhC-CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCCh------------------
Confidence 44555554 44443 355 578999988764 78899999999999999999998875422
Q ss_pred ccCCCCCCEEEEEeCCCCCHHHHHHHHHHHHh
Q 016960 339 NWLPKGQITIGITSGASTPDKAVEDVLKKVFE 370 (380)
Q Consensus 339 ~wl~~~~~~VGITAGASTP~~lI~eV~~~l~~ 370 (380)
+ ....-+-|......+.+.++++..++-.
T Consensus 152 --l-~~~ad~~l~~~~~~~~~~~~~~~~~~~~ 180 (192)
T PRK00414 152 --M-AGLADIEIRVPHFGYADRIQEIHIKVIH 180 (192)
T ss_pred --h-HHhCCEEEEeCCCCCcHHHHHHHHHHHH
Confidence 1 1222333444443444577777766543
No 83
>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=55.13 E-value=96 Score=28.21 Aligned_cols=81 Identities=17% Similarity=0.240 Sum_probs=46.7
Q ss_pred CChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHh
Q 016960 228 MLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDR 306 (380)
Q Consensus 228 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~ 306 (380)
++-.-|..+.+.+.+...+. + -++.++++ ....+++ +.+.++.+.++|.+|+. +.+++.+...++.+++.
T Consensus 9 ~~~~~~~~~~~~i~~~~~~~-g-----~~v~~~~~--~~~~~~~~~~~~~~~~~~~dgii~~-~~~~~~~~~~l~~l~~~ 79 (268)
T cd06323 9 LNNPFFVTLKDGAQKEAKEL-G-----YELTVLDA--QNDAAKQLNDIEDLITRGVDAIIIN-PTDSDAVVPAVKAANEA 79 (268)
T ss_pred ccCHHHHHHHHHHHHHHHHc-C-----ceEEecCC--CCCHHHHHHHHHHHHHcCCCEEEEc-CCChHHHHHHHHHHHHC
Confidence 45566777777666533322 1 22333322 1122333 45555554689999885 45555445566666778
Q ss_pred CCCeEeeCCCC
Q 016960 307 GIPSYWIDSEK 317 (380)
Q Consensus 307 ~~~t~~Ie~~~ 317 (380)
+.|.+.+++..
T Consensus 80 ~ipvv~~~~~~ 90 (268)
T cd06323 80 GIPVFTIDREA 90 (268)
T ss_pred CCcEEEEccCC
Confidence 89999998753
No 84
>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=54.87 E-value=22 Score=34.32 Aligned_cols=61 Identities=15% Similarity=0.249 Sum_probs=46.5
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCC
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEK 317 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~ 317 (380)
-++.+.||-|.+..-. +++++|+ .+-.+..|||+..|+.+..+.+++++.+.|.+...+..
T Consensus 45 i~l~~~D~~~~~~~a~-~~~~~li-~~~~v~aviG~~~s~~~~a~~~~~~~~~vp~i~~~~~~ 105 (345)
T cd06338 45 VELIYYDDQSNPARAA-RAYERLI-TQDKVDFLLGPYSSGLTLAAAPVAEKYGVPMVAGSGAS 105 (345)
T ss_pred EEEEEecCCCCHHHHH-HHHHHHH-hhcCccEEecCCcchhHHHHHHHHHHhCCcEEecCCCC
Confidence 3566889988877555 5556777 34467788999999999999999999988887665543
No 85
>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=54.69 E-value=38 Score=33.26 Aligned_cols=59 Identities=14% Similarity=0.001 Sum_probs=46.2
Q ss_pred ccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCch---hHHHHHHHHHhCCCeEee
Q 016960 253 VNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSN---TSHLQEIAEDRGIPSYWI 313 (380)
Q Consensus 253 ~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSN---T~kL~eia~~~~~~t~~I 313 (380)
..-++.+.|+-|+..+--+.+...|. .+ .+.+|+|+..|+. +.-+..+|...+.|-.-.
T Consensus 35 ~~~~l~~~d~~~d~~~~~~~~~~~l~-~~-~v~~iig~~~s~~~~~~~~~~~v~~~~~iP~Is~ 96 (362)
T cd06367 35 LSLEAVAVSNDTDPISLLLSVCDLLV-VQ-VVAGVVFSDPTDEEAVAQILDFTSAQTRIPVVGI 96 (362)
T ss_pred cceEEEEEecCCCHHHHHHHHHHHhc-cc-ceEEEEecCCCCccchhhhhhhhhhhhcCcEEEe
Confidence 34466678888988777777777776 34 7888889999999 999999999999886543
No 86
>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.
Probab=54.57 E-value=28 Score=32.99 Aligned_cols=43 Identities=19% Similarity=0.287 Sum_probs=32.1
Q ss_pred HHHHhhhhcCCEEEEEccCCC-chhHHHHHHHHHhCCCeEeeCCC
Q 016960 273 AMYKMVEEKVDLILVVGGWNS-SNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 273 a~~eLa~~~vD~miVVGG~nS-SNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
.+.+.+ .++|++||||-.-+ .-...|...|++.|.+.+.|.-.
T Consensus 164 ~a~~~~-~~~Dl~lvvGTSl~V~p~~~l~~~a~~~g~~~i~iN~~ 207 (222)
T cd01413 164 EAIEAA-KEADLFIVLGSSLVVYPANLLPLIAKENGAKLVIVNAD 207 (222)
T ss_pred HHHHHH-hcCCEEEEEccCCEeccHhHHHHHHHHcCCeEEEEcCC
Confidence 334444 47999999998655 44567999999999888877653
No 87
>COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]
Probab=54.57 E-value=83 Score=31.74 Aligned_cols=117 Identities=7% Similarity=0.042 Sum_probs=83.8
Q ss_pred eeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 219 KVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 219 kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
.+.+++==-.|....++. ++ + .+.++|.-|+--..=+.++++++ .+---+|.||-++=.-..-
T Consensus 68 ~~VIfsAHGVs~~v~~~a----~~----r--------~l~v~DATCPlVtKvh~~v~~~~-~~G~~iIliG~~gHpEv~G 130 (294)
T COG0761 68 ATVIFSAHGVSPAVREEA----KE----R--------GLKVIDATCPLVTKVHKEVERYA-REGYEIILIGHKGHPEVIG 130 (294)
T ss_pred CEEEEECCCCCHHHHHHH----HH----C--------CCEEEecCCCcchHHHHHHHHHH-hCCCEEEEEccCCCCceee
Confidence 466777666666544433 33 1 36789999999999999999998 6778888999876544332
Q ss_pred HHHHHHHhCC-CeEeeCCCCccCCCCcchhhhccchhhhhcccCCCCCCEEEEEeCCCCCHHHHHHHHHHHHhhhh
Q 016960 299 LQEIAEDRGI-PSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAVEDVLKKVFEIKR 373 (380)
Q Consensus 299 L~eia~~~~~-~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGASTP~~lI~eV~~~l~~~~~ 373 (380)
.. .+... ..|.+|+++|+... -+ ...+++++++=+--.-+-..+++++|++.+|
T Consensus 131 t~---Gq~~~~~~~lve~~~d~~~l-----------------~~-~~~~~l~~~tQTTls~ddt~~Iv~~l~~r~p 185 (294)
T COG0761 131 TM---GQYPEGGVLLVESVEDVANL-----------------KV-QLPDKLAFVTQTTLSVDDTAEIVAALKERFP 185 (294)
T ss_pred ec---cccCCCceEEEecHHHHHhc-----------------cc-CCcccEEEEeeeecCHHHHHHHHHHHHHhCc
Confidence 11 13333 38999999999761 11 1345899998888888889999999998766
No 88
>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=53.77 E-value=64 Score=32.51 Aligned_cols=77 Identities=18% Similarity=0.226 Sum_probs=46.8
Q ss_pred ceeEEEEcCCCCh-HHHHHHHHHHHHHHhhhcccccccccccccccccH-HHH-HhHHHHHHhhhhcCCEEEEEccCCCc
Q 016960 218 VKVGIANQTTMLK-GETEEIGKLVEKTMMRKFGVENVNEHFISFNTICD-ATQ-ERQDAMYKMVEEKVDLILVVGGWNSS 294 (380)
Q Consensus 218 ~kv~vvsQTT~~~-~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~-AT~-~RQ~a~~eLa~~~vD~miVVGG~nSS 294 (380)
+++.+|...+... ..++.+.+.|+. . ..++.+|+.+.. .|. .=++++..+....+|++|-|||-..-
T Consensus 24 ~~~lvv~~~~~~~~~~~~~v~~~L~~----~------~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs~~ 93 (370)
T cd08551 24 RKALIVTDPGLVKTGVLDKVIDSLKE----A------GIEVVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAVGGGSVL 93 (370)
T ss_pred CeEEEEeCcchhhCccHHHHHHHHHH----c------CCeEEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCchHH
Confidence 5788888766554 555667666654 1 112344544421 121 22233433433479999999999999
Q ss_pred hhHHHHHHHH
Q 016960 295 NTSHLQEIAE 304 (380)
Q Consensus 295 NT~kL~eia~ 304 (380)
.+-|.+.+.-
T Consensus 94 D~AK~va~~~ 103 (370)
T cd08551 94 DTAKAIALLA 103 (370)
T ss_pred HHHHHHHHHH
Confidence 9999887654
No 89
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=53.65 E-value=1e+02 Score=27.61 Aligned_cols=122 Identities=16% Similarity=0.162 Sum_probs=64.5
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
++++..++ +..-|..+.+-+++...+. + -++.+++. ....++| +.++.+....+|++++.+...++.-
T Consensus 2 i~~v~~~~-~~~~~~~~~~g~~~~~~~~-g-----~~~~~~~~--~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-- 70 (264)
T cd06267 2 IGVIVPDI-SNPFFAELLRGIEEAAREA-G-----YSVLLCNS--DEDPEKEREALELLLSRRVDGIILAPSRLDDEL-- 70 (264)
T ss_pred EEEEECCC-CCHHHHHHHHHHHHHHHHc-C-----CEEEEEcC--CCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH--
Confidence 56777665 5567777777776643322 1 12332221 2222333 3444555568999988776644322
Q ss_pred HHHHHHHhCCCeEeeCCCCccCCCCcchhhhc--cchhhhhcccCC-CCCCEEEEEeCCCC
Q 016960 299 LQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLM--HGELVEKENWLP-KGQITIGITSGAST 356 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~--~~~~~~~~~wl~-~~~~~VGITAGAST 356 (380)
++.+.+.+.|...+.+..+-.. +.|-.. .........||. .+.++|++-.|...
T Consensus 71 -~~~~~~~~ipvv~~~~~~~~~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~ 127 (264)
T cd06267 71 -LEELAALGIPVVLVDRPLDGLG---VDSVGIDNRAGAYLAVEHLIELGHRRIAFIGGPPD 127 (264)
T ss_pred -HHHHHHcCCCEEEecccccCCC---CCEEeeccHHHHHHHHHHHHHCCCceEEEecCCCc
Confidence 5567788899888877632111 111100 000111123332 36789999877654
No 90
>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=53.51 E-value=20 Score=34.92 Aligned_cols=113 Identities=11% Similarity=0.058 Sum_probs=67.6
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEe-eCCCCccCCCC--cchhhh-cc
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYW-IDSEKRIGPGN--KIAYKL-MH 331 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~-Ie~~~dL~~~~--~~~~~~-~~ 331 (380)
++.+.|+-|+++.-++ ++++|+ .+-++..|+|+..|+-+..+..++++.+.|.+. .-+..+|.... ...|+. ..
T Consensus 43 ~lv~~D~~~~p~~a~~-~~~~li-~~~~V~avvG~~~S~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~f~~~~~ 120 (333)
T cd06328 43 EVIVKDDAGNPEVAVS-LARELI-GDDGVDILVGSTSSGVALAVLPVAEENKKILIVEPAAADSITGKNWNRYTFRTGRN 120 (333)
T ss_pred EEEEecCCCChHHHHH-HHHHHH-HhcCCeEEEccCCcHHHHHHHHHHHHhCCcEEecCCCCchhhccCCCCcEEEecCC
Confidence 5668899998888774 556676 345677777999999999999999999888764 34455554321 122221 11
Q ss_pred c--hhhhhcccCCCCCCEEEEE-eCCCCCHHHHHHHHHHHHh
Q 016960 332 G--ELVEKENWLPKGQITIGIT-SGASTPDKAVEDVLKKVFE 370 (380)
Q Consensus 332 ~--~~~~~~~wl~~~~~~VGIT-AGASTP~~lI~eV~~~l~~ 370 (380)
. +......|+.+..++|++. ...+....+.+.+...+.+
T Consensus 121 ~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~~~~~ 162 (333)
T cd06328 121 SSQDAIAAAAALGKPGKKIATLAQDYAFGRDGVAAFKAALEK 162 (333)
T ss_pred hHHHHHHHHHHHHhcCCeEEEEecCccccHHHHHHHHHHHHh
Confidence 1 1111111221224566554 4444456777777776654
No 91
>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=53.49 E-value=21 Score=34.65 Aligned_cols=62 Identities=21% Similarity=0.283 Sum_probs=45.7
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEee-CCCCcc
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWI-DSEKRI 319 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~I-e~~~dL 319 (380)
++.+.|+-|+.+.-+ +++.+|. .+-.+..|||+..|+.+..+.+++++.+.|.+.. .+..++
T Consensus 42 ~l~~~D~~~~~~~a~-~~~~~li-~~~~v~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~ 104 (344)
T cd06345 42 ELVFEDTEGSPEDAV-RAFERLV-SQDKVDAVVGGYSSEVVLALQDVAAENKVPFIVTGAASPEI 104 (344)
T ss_pred EEEEecCCCCHHHHH-HHHHHHh-ccCCceEEECCcchHHHHHHHHHHHHcCCcEEeccCCCCcc
Confidence 567889999876555 4555666 3335777899999999999999999999887654 333344
No 92
>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=53.00 E-value=66 Score=31.42 Aligned_cols=114 Identities=11% Similarity=0.137 Sum_probs=65.5
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeC-CCCccCCC--Ccchhhh-c
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWID-SEKRIGPG--NKIAYKL-M 330 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie-~~~dL~~~--~~~~~~~-~ 330 (380)
-++.+.|+-+....-++ ++++|. .+-.+..|||+..|+.+.-+.+++++.+.|.+.-. +..++... ....|.. -
T Consensus 48 i~l~~~D~~~~~~~a~~-~a~~li-~~~~v~avvG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~ 125 (362)
T cd06343 48 IELIVEDDGYSPPKTVE-QTRKLV-ESDEVFAMVGGLGTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQP 125 (362)
T ss_pred EEEEEecCCCChHHHHH-HHHHHH-hhcCeEEEEecCCcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCC
Confidence 35667788776655554 555666 34578889999999999999999999998876643 33444321 1122221 1
Q ss_pred c--chhhhhcccCCC--CCCEEEEEeC-CCCCHHHHHHHHHHHHh
Q 016960 331 H--GELVEKENWLPK--GQITIGITSG-ASTPDKAVEDVLKKVFE 370 (380)
Q Consensus 331 ~--~~~~~~~~wl~~--~~~~VGITAG-ASTP~~lI~eV~~~l~~ 370 (380)
. .+..-...|+.+ +.++|+|..- .+......+...+.+.+
T Consensus 126 ~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~~~~~~~~~~ 170 (362)
T cd06343 126 SYQDEARIYAKYLVEEKPNAKIAVLYQNDDFGKDYLKGLKDGLGD 170 (362)
T ss_pred ChHHHHHHHHHHHHHhCCCceEEEEEeccHHHHHHHHHHHHHHHH
Confidence 1 112222244321 4678887753 23333445555554543
No 93
>COG0276 HemH Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]
Probab=52.36 E-value=80 Score=32.16 Aligned_cols=91 Identities=14% Similarity=0.086 Sum_probs=53.7
Q ss_pred CCCCcccHHHHHHHHHHHHhhCCC-CceEEecccccCHHHHHHHHHcCcEEecCCcccccccccc-CCCEEEEcCCCCCH
Q 016960 32 SYGFCWGVERAVQIAYEARKQFPE-EKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVN-KGDVVVLPAFGAAV 109 (380)
Q Consensus 32 ~~GFC~GV~RAI~~a~~~~~~~~~-~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~-~g~~VIIrAHGv~~ 109 (380)
|.-=|+-+--+++-+.+++++..+ .++-+...-=-+|--++.|.+. |.. .+.+.+ +++.+|++|||+|.
T Consensus 126 PqyS~sTt~s~~~~~~~al~~~~~~~~i~~I~~~~~~p~yI~a~a~~----I~~-----~~~~~~~~~~~llfSaHglP~ 196 (320)
T COG0276 126 PQYSSSTTGSYVDELARALKELRGQPKISTIPDYYDEPLYIEALADS----IRE-----KLAKHPRDDDVLLFSAHGLPK 196 (320)
T ss_pred cccccccHHHHHHHHHHHHHhcCCCCceEEecCccCChHHHHHHHHH----HHH-----HHHhcCCCCeEEEEecCCCch
Confidence 444466677777766666654322 2455555555556555555433 221 223332 46789999999998
Q ss_pred HHHHHHHhcCCcEEeccCchhHHHHHHHHHHhh
Q 016960 110 EEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKK 142 (380)
Q Consensus 110 ~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~ 142 (380)
...++ | =||-..++..++..++
T Consensus 197 ~~~~~----G-------DpY~~q~~~t~~li~e 218 (320)
T COG0276 197 RYIDE----G-------DPYPQQCQETTRLIAE 218 (320)
T ss_pred hhhhc----C-------CchHHHHHHHHHHHHH
Confidence 76543 2 2577777777766655
No 94
>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=52.27 E-value=1.7e+02 Score=27.87 Aligned_cols=125 Identities=16% Similarity=0.198 Sum_probs=63.4
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHH-HHHhhhhcCCEEEEEccCCCchh
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDA-MYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a-~~eLa~~~vD~miVVGG~nSSNT 296 (380)
..++++... ++-.-|.++...+.+...+. + -++.+.+ +....++|.. +..|.+..+|.+|+++...+
T Consensus 60 ~~Igvv~~~-~~~~f~~~l~~~i~~~~~~~-g-----~~~~i~~--~~~~~~~~~~~~~~l~~~~vdGiIi~~~~~~--- 127 (329)
T TIGR01481 60 TTVGVIIPD-ISNIYYAELARGIEDIATMY-K-----YNIILSN--SDEDPEKEVQVLNTLLSKQVDGIIFMGGTIT--- 127 (329)
T ss_pred CEEEEEeCC-CCchhHHHHHHHHHHHHHHc-C-----CEEEEEe--CCCCHHHHHHHHHHHHhCCCCEEEEeCCCCC---
Confidence 468888764 34456777777666532222 1 1222221 1222344433 34454468999999875322
Q ss_pred HHHHHHHHHhCCCeEeeCCCCccCCCCcchhhh-ccchhhhhcccCCCCCCEEEEEeCCC
Q 016960 297 SHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKL-MHGELVEKENWLPKGQITIGITSGAS 355 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~-~~~~~~~~~~wl~~~~~~VGITAGAS 355 (380)
..+.+...+.+.|.+++.+..+-....-+...- ..+... .+..+..|.++||+.+|.+
T Consensus 128 ~~~~~~l~~~~iPvV~~~~~~~~~~~~~V~~D~~~~~~~a-~~~L~~~G~~~I~~i~g~~ 186 (329)
T TIGR01481 128 EKLREEFSRSPVPVVLAGTVDKENELPSVNIDYKQATKEA-VGELIAKGHKSIAFVGGPL 186 (329)
T ss_pred hHHHHHHHhcCCCEEEEecCCCCCCCCEEEECcHHHHHHH-HHHHHHCCCCeEEEEecCc
Confidence 344555567788999887643211100011000 111110 1112224789999988754
No 95
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=52.08 E-value=15 Score=31.62 Aligned_cols=66 Identities=18% Similarity=0.166 Sum_probs=43.2
Q ss_pred CCchhHHHHHHHHHhCCCeEeeCCC-CccCCCCcchhhhccchhhhhcccCCCCCCEEEEEeCCC-CCHHHHHHHHHHHH
Q 016960 292 NSSNTSHLQEIAEDRGIPSYWIDSE-KRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGAS-TPDKAVEDVLKKVF 369 (380)
Q Consensus 292 nSSNT~kL~eia~~~~~~t~~Ie~~-~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGAS-TP~~lI~eV~~~l~ 369 (380)
..+|..-|.+.+++.|.......-+ +|.+. |. .....|+ +.+..|=+|.|+| +|+.++.+++..+-
T Consensus 16 ~d~~~~~l~~~l~~~G~~~~~~~~v~Dd~~~---I~--------~~l~~~~-~~~dliittGG~g~g~~D~t~~~l~~~~ 83 (135)
T smart00852 16 YDSNGPALAELLTELGIEVTRYVIVPDDKEA---IK--------EALREAL-ERADLVITTGGTGPGPDDVTPEAVAEAL 83 (135)
T ss_pred ccCcHHHHHHHHHHCCCeEEEEEEeCCCHHH---HH--------HHHHHHH-hCCCEEEEcCCCCCCCCcCcHHHHHHHh
Confidence 4788999999999999655333222 22211 11 1112666 4677777777777 79999999988874
No 96
>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=51.64 E-value=59 Score=30.45 Aligned_cols=75 Identities=16% Similarity=0.270 Sum_probs=46.3
Q ss_pred cCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCC----CCCCEEEEEeCCCC
Q 016960 281 KVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLP----KGQITIGITSGAST 356 (380)
Q Consensus 281 ~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~----~~~~~VGITAGAST 356 (380)
..|+++.--|-..-| .++++.|++.+.+..-+++++. .. -.|| .+.-+|+|++|...
T Consensus 69 ~~~lVi~at~d~~ln-~~i~~~a~~~~ilvn~~d~~e~-~~-----------------f~~pa~~~~g~l~iaisT~G~s 129 (205)
T TIGR01470 69 GAFLVIAATDDEELN-RRVAHAARARGVPVNVVDDPEL-CS-----------------FIFPSIVDRSPVVVAISSGGAA 129 (205)
T ss_pred CcEEEEECCCCHHHH-HHHHHHHHHcCCEEEECCCccc-Ce-----------------EEEeeEEEcCCEEEEEECCCCC
Confidence 466655544433334 6899999988766554444432 21 2233 46789999999888
Q ss_pred CHHHHHHHHHHHHhhhhhh
Q 016960 357 PDKAVEDVLKKVFEIKREE 375 (380)
Q Consensus 357 P~~lI~eV~~~l~~~~~~~ 375 (380)
|- +...+-+.|+++.+++
T Consensus 130 P~-la~~lr~~ie~~l~~~ 147 (205)
T TIGR01470 130 PV-LARLLRERIETLLPPS 147 (205)
T ss_pred cH-HHHHHHHHHHHhcchh
Confidence 84 4466666666665543
No 97
>PRK06555 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated
Probab=51.45 E-value=25 Score=36.84 Aligned_cols=45 Identities=16% Similarity=0.288 Sum_probs=35.0
Q ss_pred HhHHHHHHhhhhcCCEEEEEccCCCchhH-HHHHHHHHh--CCCeEee
Q 016960 269 ERQDAMYKMVEEKVDLILVVGGWNSSNTS-HLQEIAEDR--GIPSYWI 313 (380)
Q Consensus 269 ~RQ~a~~eLa~~~vD~miVVGG~nSSNT~-kL~eia~~~--~~~t~~I 313 (380)
.++.++..|.+..+|.+++|||-.|-.|- +|++-+++. +.+...|
T Consensus 100 ~~~~~~~~L~~~~Id~Li~IGGdgS~~~a~~L~~~~~~~g~~i~vvgI 147 (403)
T PRK06555 100 PLKVAAERLAADGVDILHTIGGDDTNTTAADLAAYLAENGYDLTVVGL 147 (403)
T ss_pred HHHHHHHHHHHcCCCEEEEECChhHHHHHHHHHHHHHHhCCCceEEEe
Confidence 46677777876789999999999997655 888888776 4566555
No 98
>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=51.42 E-value=16 Score=35.12 Aligned_cols=57 Identities=19% Similarity=0.106 Sum_probs=42.2
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHH-HHHHHHhCCCeEee
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHL-QEIAEDRGIPSYWI 313 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL-~eia~~~~~~t~~I 313 (380)
-++.+.||=|++..-. +++++|. .+-++..|+|+..|+++..+ .+++++.+.|.+-.
T Consensus 41 iel~~~D~~~~p~~a~-~~a~~li-~~~~v~~viG~~~s~~~~a~~~~~~~~~~vp~i~~ 98 (312)
T cd06346 41 VTLVTADTQTDPAAGV-AAATKLV-NVDGVPGIVGAACSGVTIAALTSVAVPNGVVMISP 98 (312)
T ss_pred EEEEECCCCCCHHHHH-HHHHHHH-hhcCCCEEEccccchhhHhhhhhhhccCCcEEEec
Confidence 3577889988776655 4555666 33455677799999999999 89998888776543
No 99
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=51.40 E-value=1.6e+02 Score=27.79 Aligned_cols=89 Identities=10% Similarity=0.175 Sum_probs=51.9
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchh
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT 296 (380)
+.++++. .+++-.-|..+...+.+...+. + -.+.++++--. .++| ..+..|....+|.+|+.+. +++=+
T Consensus 27 ~~I~vi~-~~~~~~f~~~~~~~i~~~~~~~-G-----~~~~~~~~~~d--~~~~~~~~~~l~~~~~dgiii~~~-~~~~~ 96 (295)
T PRK10653 27 DTIALVV-STLNNPFFVSLKDGAQKEADKL-G-----YNLVVLDSQNN--PAKELANVQDLTVRGTKILLINPT-DSDAV 96 (295)
T ss_pred CeEEEEe-cCCCChHHHHHHHHHHHHHHHc-C-----CeEEEecCCCC--HHHHHHHHHHHHHcCCCEEEEcCC-ChHHH
Confidence 5788887 4456667888888777643332 2 22334443322 3344 3344454457998876543 22211
Q ss_pred HHHHHHHHHhCCCeEeeCCC
Q 016960 297 SHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~~ 316 (380)
....+.+++.+.|...+++.
T Consensus 97 ~~~l~~~~~~~ipvV~~~~~ 116 (295)
T PRK10653 97 GNAVKMANQANIPVITLDRG 116 (295)
T ss_pred HHHHHHHHHCCCCEEEEccC
Confidence 24456777788999999864
No 100
>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=51.00 E-value=1.2e+02 Score=28.04 Aligned_cols=92 Identities=16% Similarity=0.176 Sum_probs=48.5
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHH-hhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYK-MVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~e-La~~~vD~miVVGG~nSSNT~k 298 (380)
++++.. +++-.-|..+.+-+++...+. +.....-.+.++++- ...+.|..+.+ |.+..+|.+|+.+...++ ...
T Consensus 2 Ig~i~~-~~~~~f~~~~~~gi~~~a~~~-~~~~~g~~~~~~~~~--~~~~~~~~~~~~l~~~~vDgiii~~~~~~~-~~~ 76 (274)
T cd06311 2 IGVSIP-AADHGWTAGIVWHAQAAAKKL-EAAYPDVEFILVTAS--NDTEQQNAQQDLLINRKIDALVILPFESAP-LTQ 76 (274)
T ss_pred eeeecc-CCCCcHHHHHHHHHHHHHHHh-hhhCCCeEEEEEcCC--CCHHHHHHHHHHHHHcCCCEEEEeCCCchh-hHH
Confidence 344443 345556667777666543332 100001123333322 12345544444 554579999998653332 234
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
.++.+++.|.|...+++.
T Consensus 77 ~i~~~~~~gIpvV~~d~~ 94 (274)
T cd06311 77 PVAKAKKAGIFVVVVDRG 94 (274)
T ss_pred HHHHHHHCCCeEEEEcCC
Confidence 445567889999999874
No 101
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=50.91 E-value=1.1e+02 Score=29.22 Aligned_cols=87 Identities=11% Similarity=-0.007 Sum_probs=49.3
Q ss_pred HHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCe-EeeCCCCccCCCCcchhhhccchh----hhhccc
Q 016960 266 ATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPS-YWIDSEKRIGPGNKIAYKLMHGEL----VEKENW 340 (380)
Q Consensus 266 AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t-~~Ie~~~dL~~~~~~~~~~~~~~~----~~~~~w 340 (380)
.+.+-++++++|+++.+|++|..|...+. -+.++|++. |.+ |.+-+.. ....+...+.....|. =.-..+
T Consensus 42 ~~~~~~~~i~~~~~~g~dlIi~~g~~~~~---~~~~vA~~~-p~~~F~~~d~~-~~~~Nv~~~~~~~~e~~ylaG~~Aa~ 116 (258)
T cd06353 42 EGADAERVLRELAAQGYDLIFGTSFGFMD---AALKVAKEY-PDVKFEHCSGY-KTAPNVGSYFARIYEGRYLAGVVAGK 116 (258)
T ss_pred chHhHHHHHHHHHHcCCCEEEECchhhhH---HHHHHHHHC-CCCEEEECCCC-CCCCCeeeEechhhHHHHHHHHHHHH
Confidence 45677788888886679999997766554 455688777 554 4442221 1222222221111111 000123
Q ss_pred CCCCCCEEEEEeCCCCCH
Q 016960 341 LPKGQITIGITSGASTPD 358 (380)
Q Consensus 341 l~~~~~~VGITAGASTP~ 358 (380)
+ .+..+||+.+|...|.
T Consensus 117 ~-t~t~kVG~I~g~~~~~ 133 (258)
T cd06353 117 M-TKTNKVGYVAAFPIPE 133 (258)
T ss_pred h-hcCCcEEEEcCcccHH
Confidence 3 3568999999987774
No 102
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=50.58 E-value=89 Score=30.02 Aligned_cols=85 Identities=12% Similarity=0.136 Sum_probs=52.7
Q ss_pred EcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHHHHHH
Q 016960 224 NQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSHLQEI 302 (380)
Q Consensus 224 sQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~kL~ei 302 (380)
..+++.-+-|..+.+.+++...+. + -++.+.++ .....+| +.+..|.++.+|.+|+.+... +-....++.
T Consensus 4 ~~~~~~~~~~~~~~~~i~~~a~~~-g-----~~v~~~~~--~~~~~~q~~~i~~l~~~~vDgIIi~~~~~-~~~~~~l~~ 74 (302)
T TIGR02634 4 SIDDLRLERWQKDRDIFVAAAESL-G-----AKVFVQSA--NGNEAKQISQIENLIARGVDVLVIIPQNG-QVLSNAVQE 74 (302)
T ss_pred ecCccchhhHHHHHHHHHHHHHhc-C-----CEEEEEeC--CCCHHHHHHHHHHHHHcCCCEEEEeCCCh-hHHHHHHHH
Confidence 456788888999888887753332 1 12322221 2234455 455555556899999986332 223456666
Q ss_pred HHHhCCCeEeeCCCC
Q 016960 303 AEDRGIPSYWIDSEK 317 (380)
Q Consensus 303 a~~~~~~t~~Ie~~~ 317 (380)
+++.+.|...+++..
T Consensus 75 ~~~~~iPvV~~d~~~ 89 (302)
T TIGR02634 75 AKDEGIKVVAYDRLI 89 (302)
T ss_pred HHHCCCeEEEecCcC
Confidence 778899998888753
No 103
>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=50.42 E-value=1.2e+02 Score=27.14 Aligned_cols=76 Identities=18% Similarity=0.199 Sum_probs=41.5
Q ss_pred cHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHH----------HcCcEEecCCc-cc--------cc--------
Q 016960 38 GVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLE----------EMAVQNIPVEE-GK--------KQ-------- 90 (380)
Q Consensus 38 GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~----------~~Gv~~v~~~~-~~--------~~-------- 90 (380)
.+++|+++..+++.+ .++||++|.= ++-.+-..|. +.|+.++--.+ .. ..
T Consensus 18 ~i~~a~~~i~~~i~~--~~~I~i~G~G-~S~~~A~~~~~~l~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (177)
T cd05006 18 AIEQAAQLLAEALLN--GGKILICGNG-GSAADAQHFAAELVKRFEKERPGLPAIALTTDTSILTAIANDYGYEEVFSRQ 94 (177)
T ss_pred HHHHHHHHHHHHHHC--CCEEEEEeCc-HHHHHHHHHHHHHhchhccCCCCCceEeccCCHHHHHHHhccCCHHHHHHHH
Confidence 356666766666553 3568888875 5555543332 12544432110 00 00
Q ss_pred -cccccCCCE-EEEcCCCCCHHHHHHHH
Q 016960 91 -FDVVNKGDV-VVLPAFGAAVEEMVTLN 116 (380)
Q Consensus 91 -~~el~~g~~-VIIrAHGv~~~~~~~l~ 116 (380)
...+.++|. ++|+.-|-++++.+.++
T Consensus 95 ~~~~~~~~Dv~I~iS~SG~t~~~i~~~~ 122 (177)
T cd05006 95 VEALGQPGDVLIGISTSGNSPNVLKALE 122 (177)
T ss_pred HHHhCCCCCEEEEEeCCCCCHHHHHHHH
Confidence 012456776 57788899999876653
No 104
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=50.15 E-value=55 Score=32.08 Aligned_cols=96 Identities=15% Similarity=0.203 Sum_probs=58.0
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhh---cc
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKL---MH 331 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~---~~ 331 (380)
-++.+.||=| +.... .++.+|... .+.+|||+..|+++..+.+++.+.+.|.+...+..++.. ....|.. ..
T Consensus 35 i~l~~~D~~~-~~~a~-~~~~~li~~--~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~-~~~~f~~~~~~~ 109 (336)
T cd06339 35 IELRVYDTAG-AAGAA-AAARQAVAE--GADIIVGPLLKENVAALAAAAAELGVPVLALNNDESVAA-GPNLFYFGLSPE 109 (336)
T ss_pred ceEEEEeCCC-cccHH-HHHHHHHHc--CCCEEEccCCHHHHHHHHhhhccCCCCEEEccCCccccC-CCCEEEecCChH
Confidence 3567889988 55444 445557633 444789999999998888999888888877665554321 1111221 11
Q ss_pred chhhhhcccCC-CCCCEEEEEeCCC
Q 016960 332 GELVEKENWLP-KGQITIGITSGAS 355 (380)
Q Consensus 332 ~~~~~~~~wl~-~~~~~VGITAGAS 355 (380)
.+......|+. .+.++|+|..+.+
T Consensus 110 ~~~~~~~~~~~~~g~k~vaii~~~~ 134 (336)
T cd06339 110 DEARRAAEYARSQGKRRPLVLAPDG 134 (336)
T ss_pred HHHHHHHHHHHhcCccceEEEecCC
Confidence 11121223431 2678999987643
No 105
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=49.98 E-value=48 Score=30.59 Aligned_cols=31 Identities=19% Similarity=0.181 Sum_probs=25.8
Q ss_pred EEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEec
Q 016960 100 VVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGK 152 (380)
Q Consensus 100 VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~ 152 (380)
=|++||=+|...++.+ +...++|+.+||-|-
T Consensus 35 ~VvSAHRTPe~m~~ya----------------------~~a~~~g~~viIAgA 65 (162)
T COG0041 35 RVVSAHRTPEKMFEYA----------------------EEAEERGVKVIIAGA 65 (162)
T ss_pred EEEeccCCHHHHHHHH----------------------HHHHHCCCeEEEecC
Confidence 5799999998888776 457789999999984
No 106
>PRK06683 hypothetical protein; Provisional
Probab=49.97 E-value=23 Score=28.76 Aligned_cols=45 Identities=16% Similarity=0.213 Sum_probs=33.6
Q ss_pred hhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCC
Q 016960 277 MVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGP 321 (380)
Q Consensus 277 La~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~ 321 (380)
+-++++-++||-.+-...-++++.+.|+.++.|.+.+.|-.||-.
T Consensus 23 ik~gkaklViiA~Da~~~~~~~i~~~~~~~~Vpv~~~~t~~eLG~ 67 (82)
T PRK06683 23 IKNGIVKEVVIAEDADMRLTHVIIRTALQHNIPITKVESVRKLGK 67 (82)
T ss_pred HHcCCeeEEEEECCCCHHHHHHHHHHHHhcCCCEEEECCHHHHHH
Confidence 333567676666666555555678999999999999999988854
No 107
>cd03146 GAT1_Peptidase_E Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Peptidase E is believed to be a serine peptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow. Xenopus PepE is developmentally regulated in response to thyroid hormone and, it is thought to play a role in apoptosis during tail reabsorption.
Probab=49.90 E-value=32 Score=32.16 Aligned_cols=71 Identities=21% Similarity=0.220 Sum_probs=39.2
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhH
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTS 297 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~ 297 (380)
.++++++--+-..+++ ...+.+.|.+.-+. ++...+++ . -++....|. ++|++++-|| ||.
T Consensus 32 ~~i~~IptAs~~~~~~---~~~~~~a~~~l~G~-----~~~~~~~~--~---~~~~~~~l~--~ad~I~l~GG----~~~ 92 (212)
T cd03146 32 PKVLFVPTASGDRDEY---TARFYAAFESLRGV-----EVSHLHLF--D---TEDPLDALL--EADVIYVGGG----NTF 92 (212)
T ss_pred CeEEEECCCCCCHHHH---HHHHHHHHhhccCc-----EEEEEecc--C---cccHHHHHh--cCCEEEECCc----hHH
Confidence 5899998777754443 22333322222011 12222221 1 223345554 6999999886 899
Q ss_pred HHHHHHHHhC
Q 016960 298 HLQEIAEDRG 307 (380)
Q Consensus 298 kL~eia~~~~ 307 (380)
+|.+.-++.+
T Consensus 93 ~~~~~l~~~~ 102 (212)
T cd03146 93 NLLAQWREHG 102 (212)
T ss_pred HHHHHHHHcC
Confidence 9888887654
No 108
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=49.79 E-value=2.4e+02 Score=26.87 Aligned_cols=88 Identities=14% Similarity=0.251 Sum_probs=48.6
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchh
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT 296 (380)
..++++..+ ++-.-|..+.+-+.+...+. + -++.++. +.-..++| +.+..|.+..+|.+|+.+...+...
T Consensus 57 ~~Igvi~~~-~~~~~~~~~~~gi~~~~~~~-g-----~~~~~~~--~~~~~~~~~~~~~~l~~~~vdGiI~~~~~~~~~~ 127 (327)
T PRK10423 57 RTIGMLITA-STNPFYSELVRGVERSCFER-G-----YSLVLCN--TEGDEQRMNRNLETLMQKRVDGLLLLCTETHQPS 127 (327)
T ss_pred CeEEEEeCC-CCCCcHHHHHHHHHHHHHHc-C-----CEEEEEe--CCCCHHHHHHHHHHHHHcCCCEEEEeCCCcchhh
Confidence 468887743 44445666766665533322 1 1222221 22233445 4455565568999999987655444
Q ss_pred HHHHHHHHHhCCCeEeeCCC
Q 016960 297 SHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~~ 316 (380)
..+++ +..+.|...++..
T Consensus 128 ~~~l~--~~~~iPvV~i~~~ 145 (327)
T PRK10423 128 REIMQ--RYPSVPTVMMDWA 145 (327)
T ss_pred HHHHH--hcCCCCEEEECCc
Confidence 33332 2246889888763
No 109
>cd01080 NAD_bind_m-THF_DH_Cyclohyd NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NADP binding domain of the Methylene-Tetrahydrofolate Dehydrogenase/cyclohydrolase (m-THF DH/cyclohydrolase) bifunctional enzyme. Tetrahydrofolate is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional DH/cyclodrolase form. In bacteria, monofucntional DH, as well a
Probab=49.21 E-value=27 Score=31.91 Aligned_cols=87 Identities=10% Similarity=0.093 Sum_probs=48.5
Q ss_pred HHHHHHHHhhCCCCceEEecccc-cCHHHHHHHHHcCcE--EecCCccccccc-cccCCCEEEEcCCCCCHHHHHHHHhc
Q 016960 43 VQIAYEARKQFPEEKIWITNEII-HNPTVNKRLEEMAVQ--NIPVEEGKKQFD-VVNKGDVVVLPAFGAAVEEMVTLNNK 118 (380)
Q Consensus 43 I~~a~~~~~~~~~~~Iy~lG~LI-HN~~Vv~~L~~~Gv~--~v~~~~~~~~~~-el~~g~~VIIrAHGv~~~~~~~l~~~ 118 (380)
++++++......+++|.++|-=- =-.-+...|.++|.. +++.. .+++. .+..-| +||.|-|.+.-+....-+.
T Consensus 32 v~l~~~~~~~l~gk~vlViG~G~~~G~~~a~~L~~~g~~V~v~~r~--~~~l~~~l~~aD-iVIsat~~~~ii~~~~~~~ 108 (168)
T cd01080 32 LELLKRYGIDLAGKKVVVVGRSNIVGKPLAALLLNRNATVTVCHSK--TKNLKEHTKQAD-IVIVAVGKPGLVKGDMVKP 108 (168)
T ss_pred HHHHHHcCCCCCCCEEEEECCcHHHHHHHHHHHhhCCCEEEEEECC--chhHHHHHhhCC-EEEEcCCCCceecHHHccC
Confidence 34444443223456788877510 012266778888854 33321 11122 233344 8899999876444444456
Q ss_pred CCcEEeccCchhHH
Q 016960 119 NVQIVDTTCPWVSK 132 (380)
Q Consensus 119 g~~viDaTCP~V~k 132 (380)
+.-+||...|..--
T Consensus 109 ~~viIDla~prdvd 122 (168)
T cd01080 109 GAVVIDVGINRVPD 122 (168)
T ss_pred CeEEEEccCCCccc
Confidence 88889999887543
No 110
>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=49.14 E-value=74 Score=32.36 Aligned_cols=78 Identities=18% Similarity=0.260 Sum_probs=47.6
Q ss_pred ceeEEEEcCCCChH-HHHHHHHHHHHHHhhhcccccccccccccccccH-HHHHhHHHHHHhh-hhcCCEEEEEccCCCc
Q 016960 218 VKVGIANQTTMLKG-ETEEIGKLVEKTMMRKFGVENVNEHFISFNTICD-ATQERQDAMYKMV-EEKVDLILVVGGWNSS 294 (380)
Q Consensus 218 ~kv~vvsQTT~~~~-~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~-AT~~RQ~a~~eLa-~~~vD~miVVGG~nSS 294 (380)
+++.+|....+... .++.+.+.|++ . ..++.+|+.+|. .|.+.=+++.+++ ..++|++|-|||=.+-
T Consensus 29 ~~~livt~~~~~~~~~~~~v~~~L~~----~------~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGsvi 98 (377)
T cd08188 29 KKVLLVSDPGVIKAGWVDRVIESLEE----A------GLEYVVFSDVSPNPRDEEVMAGAELYLENGCDVIIAVGGGSPI 98 (377)
T ss_pred CeEEEEeCcchhhCccHHHHHHHHHH----c------CCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCchHH
Confidence 58888877655432 45666666653 1 123445666653 3332222222222 3579999999999999
Q ss_pred hhHHHHHHHHH
Q 016960 295 NTSHLQEIAED 305 (380)
Q Consensus 295 NT~kL~eia~~ 305 (380)
.+-|..-+...
T Consensus 99 D~AK~ia~~~~ 109 (377)
T cd08188 99 DCAKGIGIVAS 109 (377)
T ss_pred HHHHHHHHHHH
Confidence 99998776543
No 111
>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=49.12 E-value=1.1e+02 Score=28.54 Aligned_cols=82 Identities=9% Similarity=-0.055 Sum_probs=43.6
Q ss_pred hHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCc-cCCCCcchhhh--ccchhhhhcccCC--CC
Q 016960 270 RQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKR-IGPGNKIAYKL--MHGELVEKENWLP--KG 344 (380)
Q Consensus 270 RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~d-L~~~~~~~~~~--~~~~~~~~~~wl~--~~ 344 (380)
.++++..+...++|.+|+++...+.++ +..+.++.+.|..+|..... -..-.-+.... ...+.. +..+. .|
T Consensus 41 ~~~~~~~~~~~~vdGvIi~~~~~~~~~--~~~~~~~~~~PvV~i~~~~~~~~~~~~V~~D~~~~~~~a~--~~L~~~~~G 116 (247)
T cd06276 41 LFKNIISNTKGKYSGYVVMPHFKNEIQ--YFLLKKIPKEKLLILDHSIPEGGEYSSVAQDFEKAIYNAL--QEGLEKLKK 116 (247)
T ss_pred HHHHHHHHHhcCCCEEEEecCCCCcHH--HHHHhccCCCCEEEEcCcCCCCCCCCeEEEccHHHHHHHH--HHHHHHhcC
Confidence 333444333478999999986544443 44555556789999987531 11101111110 101111 11222 48
Q ss_pred CCEEEEEeCCC
Q 016960 345 QITIGITSGAS 355 (380)
Q Consensus 345 ~~~VGITAGAS 355 (380)
.++||+-+|.+
T Consensus 117 ~~~Ia~i~~~~ 127 (247)
T cd06276 117 YKKLILVFPNK 127 (247)
T ss_pred CCEEEEEecCc
Confidence 99999997754
No 112
>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=48.95 E-value=2.1e+02 Score=26.15 Aligned_cols=81 Identities=11% Similarity=0.186 Sum_probs=44.7
Q ss_pred CChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchh--HHHHHHHH
Q 016960 228 MLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNT--SHLQEIAE 304 (380)
Q Consensus 228 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT--~kL~eia~ 304 (380)
+.-..|..+..-+.+...+. + -++.+.+ .+...++| +.++.|.+..+|.+|+.+..++..+ ...++-+.
T Consensus 9 ~~~~~~~~~~~gi~~~~~~~-g-----~~~~~~~--~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~~ 80 (273)
T cd06292 9 LSNPIFPAFAEAIEAALAQY-G-----YTVLLCN--TYRGGVSEADYVEDLLARGVRGVVFISSLHADTHADHSHYERLA 80 (273)
T ss_pred CcCchHHHHHHHHHHHHHHC-C-----CEEEEEe--CCCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHHH
Confidence 34455666666666543332 2 1222211 11223445 4456666678999999985433322 23334455
Q ss_pred HhCCCeEeeCCC
Q 016960 305 DRGIPSYWIDSE 316 (380)
Q Consensus 305 ~~~~~t~~Ie~~ 316 (380)
+.+.|...|.+.
T Consensus 81 ~~~ipvV~i~~~ 92 (273)
T cd06292 81 ERGLPVVLVNGR 92 (273)
T ss_pred hCCCCEEEEcCC
Confidence 788999999864
No 113
>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=48.83 E-value=20 Score=35.19 Aligned_cols=53 Identities=13% Similarity=0.139 Sum_probs=40.5
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCe
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPS 310 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t 310 (380)
++.+.||-++++.-. +++++|. .+-.+..|+|+.+|+.|..+..++++.+.+.
T Consensus 42 elv~~D~~~~p~~a~-~~a~~Li-~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~ 94 (348)
T cd06355 42 EAVVEDGASDWPTFA-EKARKLL-TQDKVAAVFGCWTSASRKAVLPVFERHNGLL 94 (348)
T ss_pred EEEEeCCCCCHHHHH-HHHHHHH-HhCCCcEEEeccchhhHHHHHHHHhccCCce
Confidence 566889999886665 4555666 3446777789999999999999998887553
No 114
>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=48.68 E-value=17 Score=35.01 Aligned_cols=52 Identities=15% Similarity=0.225 Sum_probs=37.4
Q ss_pred ccccc-cHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEee
Q 016960 259 SFNTI-CDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWI 313 (380)
Q Consensus 259 ~~nTI-C~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~I 313 (380)
+.|+- |++..- ..++.+|. .+ .+..|||+.+|+.+.-+..+|++.+.|-+..
T Consensus 41 ~~d~~~~~~~~a-~~~~~~li-~~-~V~aiiG~~~S~~~~av~~~~~~~~vP~Is~ 93 (327)
T cd06382 41 IKRVKPDDSFET-TKKVCDLL-QQ-GVAAIFGPSSSEASSIVQSICDAKEIPHIQT 93 (327)
T ss_pred EEEecCCCcHHH-HHHhhhhh-hc-CcEEEECCCChhHHHHHHHHHhccCCCceec
Confidence 44444 444333 34455666 35 8999999999999999999999998886543
No 115
>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=48.57 E-value=2.1e+02 Score=25.98 Aligned_cols=123 Identities=16% Similarity=0.186 Sum_probs=60.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
++++... +.-..|..+.+.+++...+. + -.+.+.. +.-..++| +.+..|....+|.+|+.+... +..
T Consensus 2 i~vi~~~-~~~~~~~~~~~~~~~~~~~~-g-----~~~~~~~--~~~~~~~~~~~i~~l~~~~vdgiii~~~~~---~~~ 69 (268)
T cd06298 2 VGVIIPD-ITNSYFAELARGIDDIATMY-K-----YNIILSN--SDNDKEKELKVLNNLLAKQVDGIIFMGGKI---SEE 69 (268)
T ss_pred EEEEECC-CcchHHHHHHHHHHHHHHHc-C-----CeEEEEe--CCCCHHHHHHHHHHHHHhcCCEEEEeCCCC---cHH
Confidence 4455433 34455666766666533222 1 1222222 12123455 334445456899999987432 234
Q ss_pred HHHHHHHhCCCeEeeCCCCccCCCCcchhhh-ccchhhhhcccC-CCCCCEEEEEeCCCC
Q 016960 299 LQEIAEDRGIPSYWIDSEKRIGPGNKIAYKL-MHGELVEKENWL-PKGQITIGITSGAST 356 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~-~~~~~~~~~~wl-~~~~~~VGITAGAST 356 (380)
.++.++..+.|...+.+...-....-+...- ..+.. -..+| ..|.++|++.+|...
T Consensus 70 ~~~~l~~~~ipvV~~~~~~~~~~~~~v~~d~~~~~~~--~~~~l~~~g~~~i~~l~~~~~ 127 (268)
T cd06298 70 HREEFKRSPTPVVLAGSVDEDNELPSVNIDYKKAAFE--ATELLIKNGHKKIAFISGPLE 127 (268)
T ss_pred HHHHHhcCCCCEEEEccccCCCCCCEEEECcHHHHHH--HHHHHHHcCCceEEEEeCCcc
Confidence 5555667788999887642111100011100 11111 01222 136889999987654
No 116
>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=48.31 E-value=2.5e+02 Score=26.79 Aligned_cols=126 Identities=10% Similarity=0.091 Sum_probs=63.8
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchh
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT 296 (380)
..++++... +.-..|..+...+.+...+. + -.+.+.++-- ..+++ +.+..|.+..+|.+|+.+.... +.
T Consensus 61 ~~Igvi~~~-~~~~~~~~~~~~i~~~~~~~-g-----y~~~i~~~~~--~~~~~~~~~~~l~~~~vdgiIi~~~~~~-~~ 130 (327)
T TIGR02417 61 RTIGLVIPD-LENYSYARIAKELEQQCREA-G-----YQLLIACSDD--NPDQEKVVIENLLARQVDALIVASCMPP-ED 130 (327)
T ss_pred ceEEEEeCC-CCCccHHHHHHHHHHHHHHC-C-----CEEEEEeCCC--CHHHHHHHHHHHHHcCCCEEEEeCCCCC-Ch
Confidence 478888753 34445677777766543222 1 2233333221 23344 3444455568999999875331 33
Q ss_pred HHHHHHHHHhCCCeEeeCCCC-ccCCCCcchhh-hccchhhhhcccCCCCCCEEEEEeCCCC
Q 016960 297 SHLQEIAEDRGIPSYWIDSEK-RIGPGNKIAYK-LMHGELVEKENWLPKGQITIGITSGAST 356 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~~~-dL~~~~~~~~~-~~~~~~~~~~~wl~~~~~~VGITAGAST 356 (380)
..++...+.+.|..+++... +... .-+... ...+.. -...++..|.++||+.+|...
T Consensus 131 -~~~~~l~~~~iPvV~~~~~~~~~~~-~~V~~dn~~~~~~-~~~~L~~~G~~~I~~i~~~~~ 189 (327)
T TIGR02417 131 -AYYQKLQNEGLPVVALDRSLDDEHF-CSVISDDVDAAAE-LIERLLSQHADEFWYLGAQPE 189 (327)
T ss_pred -HHHHHHHhcCCCEEEEccccCCCCC-CEEEeCcHHHHHH-HHHHHHHCCCCeEEEEeCccc
Confidence 33444556788999998642 2111 001000 011111 111223347899999987543
No 117
>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=48.28 E-value=1.5e+02 Score=26.79 Aligned_cols=78 Identities=15% Similarity=0.156 Sum_probs=43.3
Q ss_pred ChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhC
Q 016960 229 LKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRG 307 (380)
Q Consensus 229 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~ 307 (380)
+-..|..+.+.+.+... .. +-.+.++++-.+. .+| +.+..|...++|.+|+..+... + ...++.+++.|
T Consensus 10 ~~~~~~~~~~~i~~~~~-~~-----g~~~~~~~~~~~~--~~~~~~~~~l~~~~vdgiii~~~~~~-~-~~~~~~~~~~~ 79 (266)
T cd06282 10 ANPVFAECVQGIQEEAR-AA-----GYSLLLATTDYDA--EREADAVETLLRQRVDGLILTVADAA-T-SPALDLLDAER 79 (266)
T ss_pred CcchHHHHHHHHHHHHH-HC-----CCEEEEeeCCCCH--HHHHHHHHHHHhcCCCEEEEecCCCC-c-hHHHHHHhhCC
Confidence 33445556555554322 11 1234444443233 333 4455554468999998665432 2 34677788889
Q ss_pred CCeEeeCCC
Q 016960 308 IPSYWIDSE 316 (380)
Q Consensus 308 ~~t~~Ie~~ 316 (380)
.|...+.+.
T Consensus 80 ipvV~~~~~ 88 (266)
T cd06282 80 VPYVLAYND 88 (266)
T ss_pred CCEEEEecc
Confidence 998888654
No 118
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=48.18 E-value=83 Score=32.20 Aligned_cols=79 Identities=15% Similarity=0.276 Sum_probs=48.3
Q ss_pred ceeEEEEcCCCCh-HHHHHHHHHHHHHHhhhccccccccccccccccc-HHHHHh-HHHHHHhhhhcCCEEEEEccCCCc
Q 016960 218 VKVGIANQTTMLK-GETEEIGKLVEKTMMRKFGVENVNEHFISFNTIC-DATQER-QDAMYKMVEEKVDLILVVGGWNSS 294 (380)
Q Consensus 218 ~kv~vvsQTT~~~-~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC-~AT~~R-Q~a~~eLa~~~vD~miVVGG~nSS 294 (380)
+++.+|.-..+.. ..++++.+.|++ . .-.+.+|+.+. +.|.+- ++++...-+.++|++|-|||-++-
T Consensus 32 ~~~livt~~~~~~~g~~~~v~~~L~~----~------~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiGGGS~i 101 (383)
T PRK09860 32 TRTLIVTDNMLTKLGMAGDVQKALEE----R------NIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVISLGGGSPH 101 (383)
T ss_pred CEEEEEcCcchhhCccHHHHHHHHHH----c------CCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeCCchHH
Confidence 5888888765432 356677766654 1 12245566653 222222 222222323579999999999999
Q ss_pred hhHHHHHHHHHh
Q 016960 295 NTSHLQEIAEDR 306 (380)
Q Consensus 295 NT~kL~eia~~~ 306 (380)
.+-|.+-++-..
T Consensus 102 D~AK~ia~~~~~ 113 (383)
T PRK09860 102 DCAKGIALVAAN 113 (383)
T ss_pred HHHHHHHHHHHC
Confidence 999998876544
No 119
>PRK00035 hemH ferrochelatase; Reviewed
Probab=47.72 E-value=2e+02 Score=28.56 Aligned_cols=84 Identities=12% Similarity=0.116 Sum_probs=47.9
Q ss_pred HHHHHHHHHhhCC-CCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHhcCC
Q 016960 42 AVQIAYEARKQFP-EEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNV 120 (380)
Q Consensus 42 AI~~a~~~~~~~~-~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~ 120 (380)
..+.+.+++++++ ..++.+..++=.+|..++.+.++=-..+.+ ...-.+++.|||.+||+|.... ++|
T Consensus 139 ~~~~i~~~~~~~~~~~~i~~i~~~~~~p~~i~~l~~~I~~~~~~------~~~~~~~~~llfs~HG~P~~~~----~~g- 207 (333)
T PRK00035 139 YFEDLARALAKLRLQPEIRFIRSYYDHPGYIEALAESIREALAK------HGEDPEPDRLLFSAHGLPQRYI----DKG- 207 (333)
T ss_pred HHHHHHHHHHhcCCCCcEEEeCCccCCHHHHHHHHHHHHHHHHh------cCcccCCcEEEEecCCCchHHh----hcC-
Confidence 3444445555443 235666777777777777665542222211 0000034689999999987754 223
Q ss_pred cEEeccCchhHHHHHHHHHHhh
Q 016960 121 QIVDTTCPWVSKVWTSVEKHKK 142 (380)
Q Consensus 121 ~viDaTCP~V~kv~~~v~~~~~ 142 (380)
-||-..+++.++.+.+
T Consensus 208 ------d~Y~~~~~~t~~~l~~ 223 (333)
T PRK00035 208 ------DPYQQQCEETARLLAE 223 (333)
T ss_pred ------CChHHHHHHHHHHHHH
Confidence 3577777777666554
No 120
>PRK10838 spr outer membrane lipoprotein; Provisional
Probab=47.56 E-value=41 Score=31.62 Aligned_cols=73 Identities=21% Similarity=0.439 Sum_probs=41.9
Q ss_pred ccchhHHHHHHH-cCCcceecceEEEEeCCCCC-cccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEE
Q 016960 4 EYTSDIIKKLKE-NGFEYTWGNVKVKLAESYGF-CWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQN 81 (380)
Q Consensus 4 ~~~~~~~~~~~~-~~~~~~~g~mkI~lA~~~GF-C~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~ 81 (380)
+.++.|++.-+. .|.++.||+. .+.|| |.|.-+ .+++.. + + |.-|..-....+.|-.
T Consensus 65 ~~~~~il~~a~~~~G~pY~~GG~-----s~~G~DCSGfv~---~vy~~~--~-G---------i~LPr~t~~Q~~~g~~- 123 (190)
T PRK10838 65 DVKSRIMDQYADWKGVRYRLGGS-----TKKGIDCSAFVQ---RTFREQ--F-G---------LELPRSTYEQQEMGKS- 123 (190)
T ss_pred hHHHHHHHHHHHHCCCCccCCCC-----CCCCeEcHHHHH---HHHHHh--C-C---------CCCCCCHHHHHhcCcC-
Confidence 345566655444 4899999984 46799 999854 454321 1 1 1112222333445532
Q ss_pred ecCCccccccccccCCCEEEEcC
Q 016960 82 IPVEEGKKQFDVVNKGDVVVLPA 104 (380)
Q Consensus 82 v~~~~~~~~~~el~~g~~VIIrA 104 (380)
+. .+++.+||.|+|+.
T Consensus 124 V~-------~~~lqpGDLVfF~~ 139 (190)
T PRK10838 124 VS-------RSKLRTGDLVLFRA 139 (190)
T ss_pred cc-------cCCCCCCcEEEECC
Confidence 22 35677899888874
No 121
>PLN02251 pyrophosphate-dependent phosphofructokinase
Probab=47.55 E-value=32 Score=37.58 Aligned_cols=53 Identities=23% Similarity=0.287 Sum_probs=37.1
Q ss_pred HHHhHHHHHHhhhhcCCEEEEEccCCCc-hhHHHHHHHHHhCCCeEeeCCCCcc
Q 016960 267 TQERQDAMYKMVEEKVDLILVVGGWNSS-NTSHLQEIAEDRGIPSYWIDSEKRI 319 (380)
Q Consensus 267 T~~RQ~a~~eLa~~~vD~miVVGG~nSS-NT~kL~eia~~~~~~t~~Ie~~~dL 319 (380)
..+++.++..|.+-.+|.+|||||-.|. |..+|.|-+++.+.+.-.|.=+.=|
T Consensus 176 ~e~~~~~~~~l~~l~Id~LViIGGddS~~~A~~Lae~~~~~g~~i~VIGVPKTI 229 (568)
T PLN02251 176 PEQFKQAEETATKLDLDGLVVIGGDDSNTNACLLAEYFRAKNLKTRVIGCPKTI 229 (568)
T ss_pred HHHHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHhcCCCeeEEEeCceE
Confidence 3456666666665679999999999987 5558899888887444444334433
No 122
>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=47.41 E-value=1.1e+02 Score=28.30 Aligned_cols=80 Identities=18% Similarity=0.206 Sum_probs=45.6
Q ss_pred CChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHh
Q 016960 228 MLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDR 306 (380)
Q Consensus 228 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~ 306 (380)
++-.-|..+.+.+.+...+. + -++.+++ +....+.| +.+..|....+|.+|+.+. ++.....+++.+.+.
T Consensus 9 ~~~~~~~~~~~~~~~~a~~~-g-----~~~~~~~--~~~~~~~~~~~i~~l~~~~vdgiIi~~~-~~~~~~~~i~~~~~~ 79 (273)
T cd06309 9 AESPWRTAETKSIKDAAEKR-G-----FDLKFAD--AQQKQENQISAIRSFIAQGVDVIILAPV-VETGWDPVLKEAKAA 79 (273)
T ss_pred CCCHHHHHHHHHHHHHHHhc-C-----CEEEEeC--CCCCHHHHHHHHHHHHHcCCCEEEEcCC-ccccchHHHHHHHHC
Confidence 44455666766666543322 1 2233322 22233444 4555665568999998653 333324456667788
Q ss_pred CCCeEeeCCC
Q 016960 307 GIPSYWIDSE 316 (380)
Q Consensus 307 ~~~t~~Ie~~ 316 (380)
+.|...+.+.
T Consensus 80 ~iPvV~~~~~ 89 (273)
T cd06309 80 GIPVILVDRG 89 (273)
T ss_pred CCCEEEEecC
Confidence 8999999875
No 123
>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=47.23 E-value=1.4e+02 Score=28.04 Aligned_cols=88 Identities=17% Similarity=0.171 Sum_probs=48.6
Q ss_pred eeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhH
Q 016960 219 KVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTS 297 (380)
Q Consensus 219 kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~ 297 (380)
+++++. ++++-.-|..+++-+.+...+. + -.+.+.++ ..-.++| +.+..|.+.++|.+|+++...+...
T Consensus 2 ~ig~i~-~~~~~~~~~~~~~gi~~~a~~~-g-----y~~~~~~~--~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~- 71 (280)
T cd06315 2 NIIFVA-SDLKNGGILGVGEGVREAAKAI-G-----WNLRILDG--RGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ- 71 (280)
T ss_pred eEEEEe-cccCCcHHHHHHHHHHHHHHHc-C-----cEEEEECC--CCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH-
Confidence 466665 3455555667776665532222 1 12323222 2123344 4555555679999999974433223
Q ss_pred HHHHHHHHhCCCeEeeCCC
Q 016960 298 HLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 298 kL~eia~~~~~~t~~Ie~~ 316 (380)
..++.+++.+.|...+...
T Consensus 72 ~~~~~~~~~~iPvV~~d~~ 90 (280)
T cd06315 72 AELELAQKAGIPVVGWHAG 90 (280)
T ss_pred HHHHHHHHCCCCEEEecCC
Confidence 4445566778899888764
No 124
>COG2861 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.21 E-value=38 Score=33.30 Aligned_cols=70 Identities=23% Similarity=0.190 Sum_probs=0.0
Q ss_pred HHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHhcCCcEEec--------cCchhHHHHHHHHHHh
Q 016960 70 VNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDT--------TCPWVSKVWTSVEKHK 141 (380)
Q Consensus 70 Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~~viDa--------TCP~V~kv~~~v~~~~ 141 (380)
+++.|+++|+-|+| +|. .++-+++..-+++ |+.++++ |=-.|.|=-+.+.+++
T Consensus 143 ~m~~Lk~r~l~flD------------s~T----~a~S~a~~iAk~~---gVp~~~rdvfLD~e~~~~~V~kql~~~~~~A 203 (250)
T COG2861 143 LMEALKERGLYFLD------------SGT----IANSLAGKIAKEI---GVPVIKRDVFLDDEDTEAAVLKQLDAAEKLA 203 (250)
T ss_pred HHHHHHHCCeEEEc------------ccc----cccchhhhhHhhc---CCceeeeeeeecCcCCHHHHHHHHHHHHHHH
Q ss_pred hCCCeEEEEecCCCceee
Q 016960 142 KGDYTSIIHGKYSHEETV 159 (380)
Q Consensus 142 ~~Gy~iIIiG~~~HpEv~ 159 (380)
++.-+.|-||++ ||+++
T Consensus 204 rk~G~ai~IGh~-~~~Tv 220 (250)
T COG2861 204 RKNGSAIGIGHP-HKNTV 220 (250)
T ss_pred HhcCceEEecCC-chhHH
No 125
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=47.20 E-value=29 Score=28.10 Aligned_cols=46 Identities=20% Similarity=0.422 Sum_probs=32.9
Q ss_pred HHHhhhhcCCEEEEEccCCCchhH-HHHHHHHHhCCCeEeeCCCCccC
Q 016960 274 MYKMVEEKVDLILVVGGWNSSNTS-HLQEIAEDRGIPSYWIDSEKRIG 320 (380)
Q Consensus 274 ~~eLa~~~vD~miVVGG~nSSNT~-kL~eia~~~~~~t~~Ie~~~dL~ 320 (380)
++.|-++++-++|+-.+-.. ||+ ++-.+|++++.|.+.+.|-.||-
T Consensus 20 ~kai~~gkaklViiA~D~~~-~~~~~i~~~c~~~~Vp~~~~~s~~eLG 66 (82)
T PRK13602 20 VKALKRGSVKEVVVAEDADP-RLTEKVEALANEKGVPVSKVDSMKKLG 66 (82)
T ss_pred HHHHHcCCeeEEEEECCCCH-HHHHHHHHHHHHcCCCEEEECCHHHHH
Confidence 34444456666666555555 555 77789999999999999988885
No 126
>TIGR02477 PFKA_PPi diphosphate--fructose-6-phosphate 1-phosphotransferase. Diphosphate--fructose-6-phosphate 1-phosphotransferase catalyzes the addition of phosphate from diphosphate (PPi) to fructose 6-phosphate to give fructose 1,6-bisphosphate (EC 2.7.1.90). The enzyme is also known as pyrophosphate-dependent phosphofructokinase. The usage of PPi-dependent enzymes in glycolysis presumably frees up ATP for other processes. TIGR02482 represents the ATP-dependent 6-phosphofructokinase enzyme contained within Pfam pfam00365: Phosphofructokinase. This model hits primarily bacterial, plant alpha, and plant beta sequences.
Probab=47.15 E-value=30 Score=37.53 Aligned_cols=44 Identities=23% Similarity=0.370 Sum_probs=34.2
Q ss_pred HHHhHHHHHHhhhhcCCEEEEEccCCCc-hhHHHHHHHHHhCCCe
Q 016960 267 TQERQDAMYKMVEEKVDLILVVGGWNSS-NTSHLQEIAEDRGIPS 310 (380)
Q Consensus 267 T~~RQ~a~~eLa~~~vD~miVVGG~nSS-NT~kL~eia~~~~~~t 310 (380)
..+++.++..|-+-.+|.+|+|||-.|- +..+|.|.+++.+.+.
T Consensus 147 ~e~~~~~~~~l~~~~Id~LviIGGdgS~~~A~~Lae~~~~~g~~i 191 (539)
T TIGR02477 147 EEQFAKALTTAKKLKLDGLVIIGGDDSNTNAALLAEYFAKHGLKT 191 (539)
T ss_pred HHHHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHhcCCCc
Confidence 4567777777766789999999999987 5558899888877433
No 127
>PF00389 2-Hacid_dh: D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; InterPro: IPR006139 A number of NAD-dependent 2-hydroxyacid dehydrogenases which seem to be specific for the D-isomer of their substrate have been shown to be functionally and structurally related. The catalytic domain contains a number of conserved charged residues which may play a role in the catalytic mechanism. The NAD-binding domain is described in IPR006140 from INTERPRO ; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0008152 metabolic process, 0055114 oxidation-reduction process; PDB: 2DLD_A 2G76_B 3DC2_B 1YGY_B 3DDN_A 3KB6_B 3K5P_A 3EVT_A 1WWK_B 1GDH_A ....
Probab=47.12 E-value=35 Score=29.02 Aligned_cols=83 Identities=17% Similarity=0.201 Sum_probs=47.7
Q ss_pred eEEecccccCHHHHHHHHHcCc--EEecCCccccccccccCCCEEEEcCCC-CCHHHHHHHHhcCCcEEeccCchhHHHH
Q 016960 58 IWITNEIIHNPTVNKRLEEMAV--QNIPVEEGKKQFDVVNKGDVVVLPAFG-AAVEEMVTLNNKNVQIVDTTCPWVSKVW 134 (380)
Q Consensus 58 Iy~lG~LIHN~~Vv~~L~~~Gv--~~v~~~~~~~~~~el~~g~~VIIrAHG-v~~~~~~~l~~~g~~viDaTCP~V~kv~ 134 (380)
|+++++| ++..++.|++ |+ .+.+..+..+-...+++=|.+|.+... +++++++.+ .++++|=..+-=+-++-
T Consensus 1 ili~~~~--~~~~~~~l~~-~~~v~~~~~~~~~~~~~~l~~~d~ii~~~~~~~~~~~l~~~--~~Lk~I~~~~~G~d~id 75 (133)
T PF00389_consen 1 ILITDPL--PDEEIERLEE-GFEVEFCDSPSEEELAERLKDADAIIVGSGTPLTAEVLEAA--PNLKLISTAGAGVDNID 75 (133)
T ss_dssp EEESSS---SHHHHHHHHH-TSEEEEESSSSHHHHHHHHTTESEEEESTTSTBSHHHHHHH--TT-SEEEESSSSCTTB-
T ss_pred eEEeccC--CHHHHHHHHC-CceEEEeCCCCHHHHHHHhCCCeEEEEcCCCCcCHHHHhcc--ceeEEEEEcccccCccc
Confidence 5677777 8899999999 64 444422111111223334566666666 899999988 78888866655444431
Q ss_pred HHHHHHhhCCCeE
Q 016960 135 TSVEKHKKGDYTS 147 (380)
Q Consensus 135 ~~v~~~~~~Gy~i 147 (380)
...+.+.|-.+
T Consensus 76 --~~~a~~~gI~V 86 (133)
T PF00389_consen 76 --LEAAKERGIPV 86 (133)
T ss_dssp --HHHHHHTTSEE
T ss_pred --HHHHhhCeEEE
Confidence 23344555443
No 128
>TIGR01452 PGP_euk phosphoglycolate/pyridoxal phosphate phosphatase family. This model is closely related to a family of bacterial sequences including the E. coli NagD and B. subtilus AraL genes which are characterized by the ability to hydrolyze para-nitrophenylphosphate (pNPPases or NPPases). The chlamydomonas PGPase does not catalyze this reaction and so presumably these two groups have different functions and substrate specificities. Many of the genes in this alignment have been annotated as pNPPases due to this association.
Probab=46.50 E-value=2.6e+02 Score=26.89 Aligned_cols=27 Identities=7% Similarity=0.219 Sum_probs=21.6
Q ss_pred CCCceEEecccccCHHHHHHHHHcCcEEecC
Q 016960 54 PEEKIWITNEIIHNPTVNKRLEEMAVQNIPV 84 (380)
Q Consensus 54 ~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~ 84 (380)
++++||++|+ +...+.|++.|+..+..
T Consensus 84 ~~~~v~~iG~----~~~~~~l~~~g~~~~~~ 110 (279)
T TIGR01452 84 APKAVYVIGE----EGLRAELDAAGIRLAGD 110 (279)
T ss_pred CCCEEEEEcC----HHHHHHHHHCCCEEecC
Confidence 3467999997 56788999999998754
No 129
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=46.38 E-value=1.8e+02 Score=28.19 Aligned_cols=118 Identities=10% Similarity=0.034 Sum_probs=65.6
Q ss_pred chhHHHHHHHcCCcceecc-eEEEE-------------eCCCCCcccHHHHHHHHHHHHh--hCCCCceEEecccccCHH
Q 016960 6 TSDIIKKLKENGFEYTWGN-VKVKL-------------AESYGFCWGVERAVQIAYEARK--QFPEEKIWITNEIIHNPT 69 (380)
Q Consensus 6 ~~~~~~~~~~~~~~~~~g~-mkI~l-------------A~~~GFC~GV~RAI~~a~~~~~--~~~~~~Iy~lG~LIHN~~ 69 (380)
-+.+++.|++.|+....=+ ++|.- ......-|==.+||+......+ ...+.++|..|+ .
T Consensus 30 ~~~l~~~L~~~G~~~~~~P~i~i~~~~~~~~~~~l~~l~~~d~iiftS~NAV~~~~~~~~~~~~~~~~~~AVG~-----~ 104 (266)
T PRK08811 30 HAPLRRAVARHGGRLLALSPWRLQRLDTAQARDALRQALAAPIVVFTSPAAVRAAHRLLPLQRPARAHWLSVGE-----G 104 (266)
T ss_pred HHHHHHHHHHCCCcEEEcCceeecCCCchhHHHHHhhcccCCEEEEECHHHHHHHHHHhcccCccCCeEEEECH-----H
Confidence 3567888888885433322 22210 1111222222455555443222 112347899995 5
Q ss_pred HHHHHHHcCcEEec--CCcccccc-----ccccCCCEEEEcCCCCCHHHHHHHHhcCCcE-----EeccCc
Q 016960 70 VNKRLEEMAVQNIP--VEEGKKQF-----DVVNKGDVVVLPAFGAAVEEMVTLNNKNVQI-----VDTTCP 128 (380)
Q Consensus 70 Vv~~L~~~Gv~~v~--~~~~~~~~-----~el~~g~~VIIrAHGv~~~~~~~l~~~g~~v-----iDaTCP 128 (380)
.-+.|++.|+..+- ....-+.| ...+.+.++|+|+.|-.+...+.|+++|..| |++.+|
T Consensus 105 TA~aL~~~G~~~~~~P~~~~se~Ll~l~~~~~~g~~vLi~rg~~gr~~L~~~L~~~G~~V~~~~vY~~~~~ 175 (266)
T PRK08811 105 TARALQACGIDEVVRPTRMDSEGLLALPLAQAPLQAVGLITAPGGRGLLAPTLQQRGARILRADVYQRVPL 175 (266)
T ss_pred HHHHHHHcCCCceeCCCCCCcHHHHhChhhhCCCCEEEEEeCCCcHHHHHHHHHHCCCEEeEEEEEeeeCC
Confidence 66889999986432 21111111 1222233467999999999999999999776 565444
No 130
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=46.38 E-value=17 Score=35.41 Aligned_cols=113 Identities=10% Similarity=0.057 Sum_probs=65.3
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHH-------HHHHHHhCCCeEeeCC-CCccCC--CCc
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHL-------QEIAEDRGIPSYWIDS-EKRIGP--GNK 324 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL-------~eia~~~~~~t~~Ie~-~~dL~~--~~~ 324 (380)
-++.+.||=|+.+.-.+. +++|. .+ ++..|||+..|+++..+ ..++...+.|.+...+ ...+.. ...
T Consensus 41 i~l~~~D~~~~p~~a~~~-a~~lv-~~-~v~aiiG~~~s~~~~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~ 117 (342)
T cd06329 41 IELVEEDNKGSPQEALRK-AQKAI-DD-GVRLVVQGNSSSVALALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSF 117 (342)
T ss_pred EEEEeccCCCChHHHHHH-HHHHH-Hh-CCeEEEcccchHHHHHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcc
Confidence 356688999988877654 55566 35 78889999999999998 6666666666554432 223321 112
Q ss_pred chhhh---ccchhhhhcccCCC--CCCEEEEEeCC-CCCHHHHHHHHHHHHh
Q 016960 325 IAYKL---MHGELVEKENWLPK--GQITIGITSGA-STPDKAVEDVLKKVFE 370 (380)
Q Consensus 325 ~~~~~---~~~~~~~~~~wl~~--~~~~VGITAGA-STP~~lI~eV~~~l~~ 370 (380)
..|.. -..+..-..+|+.. +.++|+|.... +......+.+...+.+
T Consensus 118 ~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g~~~~~~~~~~~~~ 169 (342)
T cd06329 118 WHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWGQDVAAAFKAMLAA 169 (342)
T ss_pred eEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHHHHHHHHHHHHHHh
Confidence 22222 11122222345422 36889888643 3345566666555554
No 131
>PRK14138 NAD-dependent deacetylase; Provisional
Probab=45.85 E-value=40 Score=32.51 Aligned_cols=58 Identities=16% Similarity=0.170 Sum_probs=40.3
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCC-chhHHHHHHHHHhCCCeEeeCC
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNS-SNTSHLQEIAEDRGIPSYWIDS 315 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nS-SNT~kL~eia~~~~~~t~~Ie~ 315 (380)
+++..|+.-=+. ...+++... + .++|++||||-.-+ .-...|...++..|.+.+.|.-
T Consensus 155 P~Vv~FgE~~p~-~~~~~~~~~-~-~~aDl~lviGTSl~V~pa~~l~~~~~~~g~~~i~iN~ 213 (244)
T PRK14138 155 PNIVFFGEALPQ-DALREAIRL-S-SKASLMIVMGSSLVVYPAAELPLITVRSGGKLVIVNL 213 (244)
T ss_pred CCEEECCCcCCH-HHHHHHHHH-H-hcCCEEEEeCcCCeeecHhHHHHHHHHcCCeEEEEcC
Confidence 567777773222 234444444 4 47999999998633 5567888899999988888776
No 132
>PF00762 Ferrochelatase: Ferrochelatase; InterPro: IPR001015 Synonym(s): Protohaem ferro-lyase, Iron chelatase, etc. Ferrochelatase catalyses the last step in haem biosynthesis: the chelation of a ferrous ion to proto-porphyrin IX, to form protohaem [, ]. In eukaryotic cells, it binds to the mitochondrial inner membrane with its active site on the matrix side of the membrane. The X-ray structure of Bacillus subtilis and human ferrochelatase have been solved [, ]. The human enzyme exists as a homodimer. Each subunit contains one [2Fe-2S] cluster. The monomer is folded into two similar domains, each with a four-stranded parallel beta-sheet flanked by an alpha-helix in a beta-alpha-beta motif that is reminiscent of the fold found in the periplasmic binding proteins. The topological similarity between the domains suggests that they have arisen from a gene duplication event. However, significant differences exist between the two domains, including an N-terminal section (residues 80-130) that forms part of the active site pocket, and a C-terminal extension (residues 390-423) that is involved in coordination of the [2Fe-2S] cluster and in stabilisation of the homodimer. Ferrochelatase seems to have a structurally conserved core region that is common to the enzyme from bacteria, plants and mammals. Porphyrin binds in the identified cleft; this cleft also includes the metal-binding site of the enzyme. It is likely that the structure of the cleft region will have different conformations upon substrate binding and release [].; GO: 0004325 ferrochelatase activity, 0006783 heme biosynthetic process; PDB: 2QD3_B 2HRE_C 3HCN_B 2PNJ_A 2QD1_C 1HRK_A 2QD4_B 3AQI_B 2HRC_B 3HCO_B ....
Probab=45.64 E-value=73 Score=31.97 Aligned_cols=112 Identities=14% Similarity=0.171 Sum_probs=66.3
Q ss_pred hhHHHHHHHcCCcceecceEEEEe--CCCCCcccHHHHHHHHHHHHhhC-CCCceEEecccccCHHHHHHHHHcCcEEec
Q 016960 7 SDIIKKLKENGFEYTWGNVKVKLA--ESYGFCWGVERAVQIAYEARKQF-PEEKIWITNEIIHNPTVNKRLEEMAVQNIP 83 (380)
Q Consensus 7 ~~~~~~~~~~~~~~~~g~mkI~lA--~~~GFC~GV~RAI~~a~~~~~~~-~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~ 83 (380)
.+.++.|++.|. -+|++- -|.-=+..+.-+.+.+.+++.+. ...++-++.+---+|..++.+.++=-..+
T Consensus 103 ~~~l~~l~~~g~------~~ivvlPLyPqyS~~ttgs~~~~~~~~~~~~~~~~~~~~i~~~~~~p~yi~a~~~~i~~~l- 175 (316)
T PF00762_consen 103 EDALEELKADGV------DRIVVLPLYPQYSSSTTGSYLDEVERALKKSRPNPKVRFIPSFYDHPAYIEALAERIREAL- 175 (316)
T ss_dssp HHHHHHHHHTT-------SEEEEEESSSS--TTTHHHHHHHHHHHHHHTHSSSEEEEE---TT-HHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHcCC------CeEEEEeCCCchhHhhHHHHHHHHHHHHHhcCCCCeEEEeCCccCCHHHHHHHHHHHHHHH-
Confidence 445555555443 234333 34444557777888888877662 23478888999999999998877632223
Q ss_pred CCccccccccc--cCCCEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhC
Q 016960 84 VEEGKKQFDVV--NKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKG 143 (380)
Q Consensus 84 ~~~~~~~~~el--~~g~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~ 143 (380)
+.. ++++.+||+|||+|....+ ++| .||...++..++..++.
T Consensus 176 --------~~~~~~~~~~llfSaHglP~~~~~---~~G-------dpY~~~~~~t~~~i~~~ 219 (316)
T PF00762_consen 176 --------ERFPRGEPDHLLFSAHGLPQRYVE---DKG-------DPYPAQCEETARLIAER 219 (316)
T ss_dssp --------TTS-HCCCEEEEEEEE--BHHHHT---CCT--------SHHHHHHHHHHHHHHH
T ss_pred --------HhcCCCCCCEEEEccCCCCccccc---cCC-------CChHHHHHHHHHHHHHH
Confidence 233 2257899999999987652 223 38888888888877664
No 133
>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=45.62 E-value=2.4e+02 Score=25.73 Aligned_cols=85 Identities=14% Similarity=0.164 Sum_probs=46.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
++++... ++-.-|..+..-+++...+. + -++.++++ +...+.| +.+..|.++.+|.+|+.+...++ .
T Consensus 2 i~vi~~~-~~~~~~~~~~~gi~~~~~~~-g-----~~~~~~~~--~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~---~ 69 (270)
T cd06296 2 IGLVFPD-LDSPWASEVLRGVEEAAAAA-G-----YDVVLSES--GRRTSPERQWVERLSARRTDGVILVTPELTS---A 69 (270)
T ss_pred eEEEECC-CCCccHHHHHHHHHHHHHHc-C-----CeEEEecC--CCchHHHHHHHHHHHHcCCCEEEEecCCCCh---H
Confidence 3445432 33455666666665532222 2 12332222 2122444 45566665689999998764333 2
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
.++.+++.+.|.+.+++.
T Consensus 70 ~~~~~~~~~ipvV~i~~~ 87 (270)
T cd06296 70 QRAALRRTGIPFVVVDPA 87 (270)
T ss_pred HHHHHhcCCCCEEEEecc
Confidence 355667788999999874
No 134
>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=45.55 E-value=2.3e+02 Score=25.61 Aligned_cols=85 Identities=13% Similarity=0.195 Sum_probs=46.4
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
++++... +....|..+.+-+.+...+. + -++.++++ ....++| +.+..|.+.++|.+|+.+...+ ..
T Consensus 2 Ig~i~~~-~~~~~~~~~~~gi~~~~~~~-g-----~~~~~~~~--~~~~~~~~~~~~~l~~~~vdgiii~~~~~~---~~ 69 (268)
T cd01575 2 VAVLVPS-LSNSVFADVLQGISDVLEAA-G-----YQLLLGNT--GYSPEREEELLRTLLSRRPAGLILTGLEHT---ER 69 (268)
T ss_pred EEEEeCC-CcchhHHHHHHHHHHHHHHc-C-----CEEEEecC--CCCchhHHHHHHHHHHcCCCEEEEeCCCCC---HH
Confidence 3444433 33445566666555432221 1 22333332 2223444 4455565568999999975433 44
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
..+.+.+.+.|.+.+.+.
T Consensus 70 ~~~~~~~~~ipvv~~~~~ 87 (268)
T cd01575 70 TRQLLRAAGIPVVEIMDL 87 (268)
T ss_pred HHHHHHhcCCCEEEEecC
Confidence 556666788899888654
No 135
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=45.50 E-value=3.2e+02 Score=27.19 Aligned_cols=128 Identities=13% Similarity=0.113 Sum_probs=70.6
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCch-
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSN- 295 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSN- 295 (380)
.+++++.+++-+ .-|..+.+-+++... ..+ -++.+.. --......| +.+..|.++.+|+++|.+ ++++
T Consensus 24 ~~i~~v~k~~~~-pf~~~~~~Gi~~aa~-~~G-----~~v~~~~-~~~~d~~~q~~~i~~li~~~vdgIiv~~--~d~~a 93 (336)
T PRK15408 24 ERIAFIPKLVGV-GFFTSGGNGAKEAGK-ELG-----VDVTYDG-PTEPSVSGQVQLINNFVNQGYNAIIVSA--VSPDG 93 (336)
T ss_pred cEEEEEECCCCC-HHHHHHHHHHHHHHH-HhC-----CEEEEEC-CCCCCHHHHHHHHHHHHHcCCCEEEEec--CCHHH
Confidence 589999987754 457777776665322 222 1232211 112334555 455556557899999973 3444
Q ss_pred hHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhh-----ccchh--hhhcccCCCCCCEEEEEeCCCCC
Q 016960 296 TSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKL-----MHGEL--VEKENWLPKGQITIGITSGASTP 357 (380)
Q Consensus 296 T~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~-----~~~~~--~~~~~wl~~~~~~VGITAGASTP 357 (380)
.....+-+.+.|.|.+.+++..+-+ ....|-- ..|+. ......+..+..+|++-.|..+.
T Consensus 94 l~~~l~~a~~~gIpVV~~d~~~~~~--~~~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~ 160 (336)
T PRK15408 94 LCPALKRAMQRGVKVLTWDSDTKPE--CRSYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTV 160 (336)
T ss_pred HHHHHHHHHHCCCeEEEeCCCCCCc--cceEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCC
Confidence 2455666778899999998753211 1222210 11211 11223342267899999886653
No 136
>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=45.00 E-value=1e+02 Score=30.32 Aligned_cols=88 Identities=19% Similarity=0.320 Sum_probs=53.9
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccH-HHHH-hHHHHHHhhhhcCCEEEEEccCCCch
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICD-ATQE-RQDAMYKMVEEKVDLILVVGGWNSSN 295 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~-AT~~-RQ~a~~eLa~~~vD~miVVGG~nSSN 295 (380)
+++.+|.-.......++.+.+.|++. . ++.+|+-+-. .|.+ =++.+..+...++|++|-|||=..-.
T Consensus 24 ~~~liv~~~~~~~~~~~~v~~~l~~~-~----------~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs~~D 92 (332)
T cd07766 24 DRALVVSDEGVVKGVGEKVADSLKKL-I----------AVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGGGSTLD 92 (332)
T ss_pred CeEEEEeCCchhhhHHHHHHHHHHhc-C----------cEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCchHHH
Confidence 47888886655555566666666541 1 1122221111 2222 22333333334799999999999999
Q ss_pred hHHHHHHHHHhCCCeEeeCCC
Q 016960 296 TSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 296 T~kL~eia~~~~~~t~~Ie~~ 316 (380)
+-|.+-.....+.|-+.|-|-
T Consensus 93 ~aK~ia~~~~~~~p~i~iPTt 113 (332)
T cd07766 93 TAKAVAALLNRGLPIIIVPTT 113 (332)
T ss_pred HHHHHHHHhcCCCCEEEEeCC
Confidence 999887775558888888765
No 137
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=44.98 E-value=24 Score=27.42 Aligned_cols=38 Identities=11% Similarity=0.064 Sum_probs=29.4
Q ss_pred EcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCe
Q 016960 102 LPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYT 146 (380)
Q Consensus 102 IrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~ 146 (380)
+..||.||.+.+.++.-|+. -...||...+.+.++||-
T Consensus 19 ~~~~G~~Pt~rEIa~~~g~~-------S~~tv~~~L~~Le~kG~I 56 (65)
T PF01726_consen 19 IEENGYPPTVREIAEALGLK-------STSTVQRHLKALERKGYI 56 (65)
T ss_dssp HHHHSS---HHHHHHHHTSS-------SHHHHHHHHHHHHHTTSE
T ss_pred HHHcCCCCCHHHHHHHhCCC-------ChHHHHHHHHHHHHCcCc
Confidence 34589999999999998874 347899999999999985
No 138
>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=44.90 E-value=1.7e+02 Score=26.55 Aligned_cols=88 Identities=14% Similarity=0.223 Sum_probs=48.2
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|++|.++ ++-..|..+.+-+++...+. + -.+.++.+ .+....+| +.+..|.+.++|.+|+.+..++.. .
T Consensus 2 i~vi~~~-~~~~~~~~~~~gi~~~~~~~-~-----~~~~~~~~-~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~--~ 71 (264)
T cd01574 2 IGVVTTD-LALHGPSSTLAAIESAAREA-G-----YAVTLSML-AEADEEALRAAVRRLLAQRVDGVIVNAPLDDAD--A 71 (264)
T ss_pred EEEEeCC-CCcccHHHHHHHHHHHHHHC-C-----CeEEEEeC-CCCchHHHHHHHHHHHhcCCCEEEEeCCCCChH--H
Confidence 5677765 33455666766666532222 1 12222211 11112344 445556556899999988755544 3
Q ss_pred HHHHHHHhCCCeEeeCCCCc
Q 016960 299 LQEIAEDRGIPSYWIDSEKR 318 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~~d 318 (380)
+.+ ..+.|.|...+++..+
T Consensus 72 ~~~-~~~~~ipvv~~~~~~~ 90 (264)
T cd01574 72 ALA-AAPADVPVVFVDGSPS 90 (264)
T ss_pred HHH-HHhcCCCEEEEeccCC
Confidence 333 3467889999987643
No 139
>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=44.81 E-value=37 Score=33.23 Aligned_cols=58 Identities=14% Similarity=0.222 Sum_probs=43.7
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCC
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDS 315 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~ 315 (380)
++.+.|+=|.+..-. +++.+|. .+-++..|+|+..|+.+..+..++++.+.|......
T Consensus 45 ~lv~~D~~~~~~~a~-~~~~~li-~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~~ 102 (347)
T cd06340 45 ELVFGDSQGNPDIGA-TEAERLI-TEEGVVALVGAYQSAVTLAASQVAERYGVPFVVDGA 102 (347)
T ss_pred EEEEecCCCCHHHHH-HHHHHHh-ccCCceEEecccchHhHHHHHHHHHHhCCCEEeccc
Confidence 455667777665544 4566776 456788899999999999999999999888765543
No 140
>PLN03028 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Provisional
Probab=44.57 E-value=36 Score=37.52 Aligned_cols=45 Identities=18% Similarity=0.252 Sum_probs=33.1
Q ss_pred HhHHHHHHhhhhcCCEEEEEccCCCc-hhHHHHHHHHHhC--CCeEee
Q 016960 269 ERQDAMYKMVEEKVDLILVVGGWNSS-NTSHLQEIAEDRG--IPSYWI 313 (380)
Q Consensus 269 ~RQ~a~~eLa~~~vD~miVVGG~nSS-NT~kL~eia~~~~--~~t~~I 313 (380)
+++.+++.|.+-..|.++||||-.|. +..+|++-+++.+ .+...|
T Consensus 161 ~~~~i~e~l~~l~Id~LvvIGGddS~~~A~~Lae~~~~~~~~i~VIGI 208 (610)
T PLN03028 161 QVNAALAACEALKLDGLVIIGGVTSNTDAAQLAETFAEAKCKTKVVGV 208 (610)
T ss_pred HHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHHcCCCceEEEe
Confidence 56666666655679999999999987 5568999888774 444443
No 141
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=44.56 E-value=13 Score=32.36 Aligned_cols=70 Identities=23% Similarity=0.298 Sum_probs=0.0
Q ss_pred EEEEEcc------CCCchhHHHHHHHHHhCCCeEee----CCCCccCCCCcchhhhccchhhhhcccCCCCCCEEEEEeC
Q 016960 284 LILVVGG------WNSSNTSHLQEIAEDRGIPSYWI----DSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSG 353 (380)
Q Consensus 284 ~miVVGG------~nSSNT~kL~eia~~~~~~t~~I----e~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAG 353 (380)
++|++|. ...+|+.-|.+..++.|...... ++.++|.. .+. .|+ .....|=+|.|
T Consensus 1 aIi~~GdEl~~g~~~d~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~--~l~------------~~~-~~~D~VittGG 65 (144)
T PF00994_consen 1 AIISTGDELLSGQIRDSNGPFLAALLEELGIEVIRYGIVPDDPDAIKE--ALR------------RAL-DRADLVITTGG 65 (144)
T ss_dssp EEEEECHHHHTTSSEBHHHHHHHHHHHHTTEEEEEEEEEESSHHHHHH--HHH------------HHH-HTTSEEEEESS
T ss_pred CEEEECccCcCCceEEhHHHHHHHHHHHcCCeeeEEEEECCCHHHHHH--HHH------------hhh-ccCCEEEEcCC
Q ss_pred CC-CCHHHHHHHHHHH
Q 016960 354 AS-TPDKAVEDVLKKV 368 (380)
Q Consensus 354 AS-TP~~lI~eV~~~l 368 (380)
.| +|+.+..+++..+
T Consensus 66 ~g~~~~D~t~~a~~~~ 81 (144)
T PF00994_consen 66 TGPGPDDVTPEALAEA 81 (144)
T ss_dssp SSSSTTCHHHHHHHHH
T ss_pred cCcccCCcccHHHHHh
No 142
>TIGR02263 benz_CoA_red_C benzoyl-CoA reductase, subunit C. This model describes C subunit of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA. This enzyme acts under anaerobic conditions.
Probab=44.39 E-value=70 Score=32.78 Aligned_cols=120 Identities=12% Similarity=0.014 Sum_probs=70.4
Q ss_pred HHHHcCCcceecceEEEEeCCCCCcccHHHHHHHHHHHHhh--------CCCCceEEecccccCH--HHHHHHHHcCcEE
Q 016960 12 KLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQ--------FPEEKIWITNEIIHNP--TVNKRLEEMAVQN 81 (380)
Q Consensus 12 ~~~~~~~~~~~g~mkI~lA~~~GFC~GV~RAI~~a~~~~~~--------~~~~~Iy~lG~LIHN~--~Vv~~L~~~Gv~~ 81 (380)
..+..+.++..-.|- +--..+|+++....+++..+.+++ ..+.+|++.|...=++ .+++.+++.|..+
T Consensus 184 l~~~~p~pitg~e~~--~~~~~~~~~~~~e~~~~L~~~l~el~~~~~~~~~~~RIl~tG~~~~~~~~k~~~~iE~~G~~V 261 (380)
T TIGR02263 184 LRADEPWKVPSADLY--LLLRAGLVIPVEEHNQMLADYLAAARKQEAPIKDNCRVIICGMFCEQPPLNLIKSIELSGCYI 261 (380)
T ss_pred HHhhCCCCCCHHHHH--HHHHhhccCCHHHHHHHHHHHHHHHHhccccCCCCCEEEEECcCCCCchHHHHHHHHHCCCEE
Confidence 333445566632333 334568999999998877665531 1235899999776665 7889999999999
Q ss_pred ecCCccccccccccCCCE---EEEcCCCCCHHHHHHHHhcCCcE-EeccCc-------hhHHHHHHHHHHhhCC
Q 016960 82 IPVEEGKKQFDVVNKGDV---VVLPAFGAAVEEMVTLNNKNVQI-VDTTCP-------WVSKVWTSVEKHKKGD 144 (380)
Q Consensus 82 v~~~~~~~~~~el~~g~~---VIIrAHGv~~~~~~~l~~~g~~v-iDaTCP-------~V~kv~~~v~~~~~~G 144 (380)
|-+ +...|.. .-+. .+.+-++.|.++-+.. ..++|+ .+..+.+.++++.-+|
T Consensus 262 V~d--------d~c~g~r~~~~~v~---e~~dp~~aLA~~Yl~~~~~c~~~~~~~~~~R~~~i~~lvke~~aDG 324 (380)
T TIGR02263 262 VDD--------DFIIVHRFENNDVA---LAGDPLQNLALAFLHDSISTAAKYDDDEADKGKYLLDQVRKNAAEG 324 (380)
T ss_pred EEe--------cCCccchhhhccCC---CCCCHHHHHHHHHhhCCCCCccccCCChhhHHHHHHHHHHHhCCCE
Confidence 853 2222211 0011 1223456666665543 333452 3444666667776666
No 143
>TIGR01768 GGGP-family geranylgeranylglyceryl phosphate synthase family protein. This model represents a family of sequences including geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The clade of bacterial sequences may have the same function or a closely related function. This model supercedes TIGR00265, which has been retired.
Probab=44.31 E-value=1.6e+02 Score=28.37 Aligned_cols=77 Identities=16% Similarity=0.176 Sum_probs=52.0
Q ss_pred HHHHhhhhcCCEEEEEccC--CCchhHHHHHHHHHhCCCeE-eeCCCCccCCCCcchhhhccchhhhhcccCCCCCCEEE
Q 016960 273 AMYKMVEEKVDLILVVGGW--NSSNTSHLQEIAEDRGIPSY-WIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIG 349 (380)
Q Consensus 273 a~~eLa~~~vD~miVVGG~--nSSNT~kL~eia~~~~~~t~-~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VG 349 (380)
.+++++..-.|+++|=|+. +..|+..|++..++...|.+ +..+.+-+.+ ++.-+-
T Consensus 19 ~~~~~~~~gtdai~vGGS~~vt~~~~~~~v~~ik~~~lPvilfp~~~~~i~~----------------------~aDa~l 76 (223)
T TIGR01768 19 IAKAAAESGTDAILIGGSQGVTYEKTDTLIEALRRYGLPIILFPSNPTNVSR----------------------DADALF 76 (223)
T ss_pred HHHHHHhcCCCEEEEcCCCcccHHHHHHHHHHHhccCCCEEEeCCCccccCc----------------------CCCEEE
Confidence 4555653347998776654 44699999999999888876 6666666655 233333
Q ss_pred EEe--CCCCCHHHHHHHHHHHHhh
Q 016960 350 ITS--GASTPDKAVEDVLKKVFEI 371 (380)
Q Consensus 350 ITA--GASTP~~lI~eV~~~l~~~ 371 (380)
+.+ .+..|+|+|..=+..+..+
T Consensus 77 ~~svlNs~~~~~iig~~~~~~~~~ 100 (223)
T TIGR01768 77 FPSVLNSDDPYWIIGAQIEAAPKF 100 (223)
T ss_pred EEEeecCCCchHHHhHHHHHHHHH
Confidence 333 5578999999866666543
No 144
>PLN02884 6-phosphofructokinase
Probab=44.30 E-value=31 Score=36.11 Aligned_cols=45 Identities=11% Similarity=0.297 Sum_probs=35.4
Q ss_pred HhHHHHHHhhhhcCCEEEEEccCCCchhH-HHHHHHHHhC--CCeEee
Q 016960 269 ERQDAMYKMVEEKVDLILVVGGWNSSNTS-HLQEIAEDRG--IPSYWI 313 (380)
Q Consensus 269 ~RQ~a~~eLa~~~vD~miVVGG~nSSNT~-kL~eia~~~~--~~t~~I 313 (380)
.+++++..|-+..+|.++||||-.|-.+- +|.+-|++.| .+...|
T Consensus 131 ~~~~i~~~L~~~~Id~LivIGGdgS~~~a~~L~~~~~~~g~~i~vIGI 178 (411)
T PLN02884 131 KTSDIVDSIEARGINMLFVLGGNGTHAGANAIHNECRKRKMKVSVVGV 178 (411)
T ss_pred cHHHHHHHHHHcCCCEEEEECCchHHHHHHHHHHHHHHcCCCceEEec
Confidence 47778888876789999999999998765 7888888777 455544
No 145
>cd01979 Pchlide_reductase_N Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=43.93 E-value=3.7e+02 Score=27.50 Aligned_cols=105 Identities=12% Similarity=0.200 Sum_probs=57.5
Q ss_pred ceEEEEeCCCCCcccHHHHHHHHHHHHh----h--CCCCceEEecccc--cCHHHHHHHHHcCcEEecCCcccccccccc
Q 016960 24 NVKVKLAESYGFCWGVERAVQIAYEARK----Q--FPEEKIWITNEII--HNPTVNKRLEEMAVQNIPVEEGKKQFDVVN 95 (380)
Q Consensus 24 ~mkI~lA~~~GFC~GV~RAI~~a~~~~~----~--~~~~~Iy~lG~LI--HN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~ 95 (380)
+..|+.+...||-.....+.+.+.+++- + ..+..|-.+|++- -..+...-|++.|+.++.-... .++++++
T Consensus 118 ~~pvi~v~t~gf~g~~~~G~~~~~~alv~~~~~~~~~~~~VnliG~~~~~d~~el~~lL~~~Gi~v~~~~~d-~~~~~~~ 196 (396)
T cd01979 118 GVPILVASASGLDYTFTQGEDTVLAALVPRCPEKPSPERSLVLVGSLPDIVEDQLRRELEQLGIPVVGFLPP-RRYTDLP 196 (396)
T ss_pred CCcEEEeeCCCccccHHHHHHHHHHHHhhhcccccCCCCceEEEEeCCcchHHHHHHHHHHcCCeEEEEeCC-CChHHhh
Confidence 3568888899996434555555544331 1 1224688889731 1134555678899998632111 1345554
Q ss_pred C--CCEEEEcCCCCCHHHHHHHHh-cCCcEEeccCch
Q 016960 96 K--GDVVVLPAFGAAVEEMVTLNN-KNVQIVDTTCPW 129 (380)
Q Consensus 96 ~--g~~VIIrAHGv~~~~~~~l~~-~g~~viDaTCP~ 129 (380)
. ...+++..|......-+.|++ .|+..+...=|+
T Consensus 197 ~~~~a~~~~~~~~~~~~~A~~Le~r~giP~~~~~~P~ 233 (396)
T cd01979 197 VIGPGTYVLGIQPFLSRTATTLMRRRKCKLLSAPFPI 233 (396)
T ss_pred ccCcceEEEEeChhHHHHHHHHHHhcCCCcccCCcCc
Confidence 3 234555555444455666665 467666554444
No 146
>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=43.91 E-value=1.9e+02 Score=26.78 Aligned_cols=87 Identities=16% Similarity=0.125 Sum_probs=48.2
Q ss_pred eeEEEEcC-CCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchh
Q 016960 219 KVGIANQT-TMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 219 kv~vvsQT-T~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT 296 (380)
|++++.-. +++-.-|..+.+-+.+...+. + -++.+.++- . .++| +.+..|....+|.+|+++.. .+
T Consensus 1 ~Igvi~~~~~~~~~f~~~l~~gi~~~~~~~-g-----y~~~~~~~~-~--~~~~~~~~~~l~~~~vdgiii~~~~---~~ 68 (260)
T cd06304 1 KVALVYDGGGGDKSFNQSAYEGLEKAEKEL-G-----VEVKYVESV-E--DADYEPNLRQLAAQGYDLIFGVGFG---FM 68 (260)
T ss_pred CEEEEecCCCCcchHHHHHHHHHHHHHHhc-C-----ceEEEEecC-C--HHHHHHHHHHHHHcCCCEEEECCcc---hh
Confidence 35555543 456667788877776643322 1 233343332 2 2344 34455554679999997522 23
Q ss_pred HHHHHHHHHh-CCCeEeeCCCC
Q 016960 297 SHLQEIAEDR-GIPSYWIDSEK 317 (380)
Q Consensus 297 ~kL~eia~~~-~~~t~~Ie~~~ 317 (380)
..+.+..++. +.|...+++..
T Consensus 69 ~~~~~~~~~~~~ipvv~~~~~~ 90 (260)
T cd06304 69 DAVEKVAKEYPDVKFAIIDGVV 90 (260)
T ss_pred HHHHHHHHHCCCCEEEEecCcc
Confidence 4555666543 56788887643
No 147
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=43.87 E-value=1.8e+02 Score=28.53 Aligned_cols=89 Identities=17% Similarity=0.200 Sum_probs=53.8
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchh
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT 296 (380)
.+|+++. ..+.-.-|..+++-+.+...+. + -.+.+.++- -..++| +.+..|...++|.+|+.+...+...
T Consensus 26 ~~Ig~i~-~~~~~~f~~~~~~gi~~~a~~~-g-----~~l~i~~~~--~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~ 96 (330)
T PRK10355 26 VKIGMAI-DDLRLERWQKDRDIFVKKAESL-G-----AKVFVQSAN--GNEETQMSQIENMINRGVDVLVIIPYNGQVLS 96 (330)
T ss_pred ceEEEEe-cCCCchHHHHHHHHHHHHHHHc-C-----CEEEEECCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhHH
Confidence 4677766 6677778999988887643322 1 223333221 122334 4455565569999999874332233
Q ss_pred HHHHHHHHHhCCCeEeeCCC
Q 016960 297 SHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~~ 316 (380)
..++.+.+.+.|.+.+++.
T Consensus 97 -~~l~~~~~~~iPvV~id~~ 115 (330)
T PRK10355 97 -NVIKEAKQEGIKVLAYDRM 115 (330)
T ss_pred -HHHHHHHHCCCeEEEECCC
Confidence 4445566788899999874
No 148
>COG1038 PycA Pyruvate carboxylase [Energy production and conversion]
Probab=43.82 E-value=66 Score=36.95 Aligned_cols=100 Identities=17% Similarity=0.184 Sum_probs=74.7
Q ss_pred ecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHH
Q 016960 61 TNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKH 140 (380)
Q Consensus 61 lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~ 140 (380)
||=|--|++..++-.+.||.||-... + .++..|=--.-+..+.+.|+.||=+|=|.+.-+....+-.
T Consensus 88 YGfLSEn~efA~~c~eaGI~FIGP~~-----e--------~ld~~GdKv~Ar~~A~~agvPvipgt~~~~~~~ee~~~fa 154 (1149)
T COG1038 88 YGFLSENPEFARACAEAGITFIGPKP-----E--------VLDMLGDKVKARNAAIKAGVPVIPGTDGPIETIEEALEFA 154 (1149)
T ss_pred cccccCCHHHHHHHHHcCCEEeCCCH-----H--------HHHHhccHHHHHHHHHHcCCCccCCCCCCcccHHHHHHHH
Confidence 68888999999999999999997321 1 1233343446778899999999999999999887766656
Q ss_pred hhCCCeEEEEecCCCceeeeecccCC-cEEEEcChhhHHHhhh
Q 016960 141 KKGDYTSIIHGKYSHEETVATASFAG-KYIIVKNMKEAEYVCD 182 (380)
Q Consensus 141 ~~~Gy~iIIiG~~~HpEv~gi~g~~~-~~~vv~~~~e~~~~~~ 182 (380)
.+-||.++| ++..|=.+ .+-+|.+.+|+...++
T Consensus 155 ~~~gyPvmi---------KA~~GGGGRGMR~vr~~~~l~~~~~ 188 (1149)
T COG1038 155 EEYGYPVMI---------KAAAGGGGRGMRVVRSEADLAEAFE 188 (1149)
T ss_pred HhcCCcEEE---------EEccCCCccceeeecCHHHHHHHHH
Confidence 667999986 45555444 3578899888765443
No 149
>cd01409 SIRT4 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=43.65 E-value=43 Score=32.65 Aligned_cols=59 Identities=15% Similarity=0.188 Sum_probs=40.0
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCch-hHHHHHHHHHhCCCeEeeCCC
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSN-TSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSN-T~kL~eia~~~~~~t~~Ie~~ 316 (380)
+++..|+.-=+. ...+.+...+ .++|++||||-.-+-. ...|.+.+++.|.+.+.|.-.
T Consensus 181 P~VV~FGE~lp~-~~~~~a~~~~--~~aDlllviGTSl~V~pa~~l~~~a~~~g~~viiIN~~ 240 (260)
T cd01409 181 PDVVFFGENVPR-DRVVTAAARL--AEADALLVLGSSLMVYSGYRFVLAAAEAGLPIAIVNIG 240 (260)
T ss_pred CCEEECCCCCCH-HHHHHHHHHH--hcCCEEEEeCcCceecchhhHHHHHHHCCCcEEEEcCC
Confidence 445556553222 2344555444 3799999999876665 468999999999999888653
No 150
>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=43.64 E-value=36 Score=33.56 Aligned_cols=56 Identities=13% Similarity=0.210 Sum_probs=41.7
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEee
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWI 313 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~I 313 (380)
++.+.|+-+.+..-. .++++|. .+=++.+|||+.+|+.+..+.+++++.+.|.+--
T Consensus 44 ~lv~~D~~~~p~~a~-~~a~~li-~~d~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~ 99 (357)
T cd06337 44 EIIVRDSQSNPNRAG-LVAQELI-LTDKVDLLLAGGTPDTTNPVSDQCEANGVPCIST 99 (357)
T ss_pred EEEEecCCCCHHHHH-HHHHHHH-hccCccEEEecCCcchhhHHHHHHHHhCCCeEEe
Confidence 566889999887776 4556676 3434666679988888888999999998876543
No 151
>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=43.49 E-value=1.6e+02 Score=27.37 Aligned_cols=86 Identities=10% Similarity=0.041 Sum_probs=47.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++.- +++-.-|..+.+-+.+...+. + -.+.+.++- ..++| +.+..+....+|.+|+.+.- +.-...
T Consensus 2 Ig~v~~-~~~~~~~~~~~~gi~~~~~~~-g-----~~~~~~~~~---~~~~~~~~i~~~~~~~~dgiii~~~~-~~~~~~ 70 (289)
T cd01540 2 IGFIVK-QPEEPWFQTEWKFAKKAAKEK-G-----FTVVKIDVP---DGEKVLSAIDNLGAQGAKGFVICVPD-VKLGPA 70 (289)
T ss_pred eeeecC-CCCCcHHHHHHHHHHHHHHHc-C-----CEEEEccCC---CHHHHHHHHHHHHHcCCCEEEEccCc-hhhhHH
Confidence 444442 233344566665555432222 1 233343332 23444 45555555679999998743 333356
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
+++.+++.+.|.+.+.+.
T Consensus 71 ~~~~~~~~~iPvV~~~~~ 88 (289)
T cd01540 71 IVAKAKAYNMKVVAVDDR 88 (289)
T ss_pred HHHHHHhCCCeEEEecCC
Confidence 667777899999888753
No 152
>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=43.47 E-value=26 Score=35.40 Aligned_cols=33 Identities=15% Similarity=0.049 Sum_probs=28.1
Q ss_pred CCEEEEEccCCCchhHHHHHHHHHhCCCeEeeC
Q 016960 282 VDLILVVGGWNSSNTSHLQEIAEDRGIPSYWID 314 (380)
Q Consensus 282 vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie 314 (380)
-.+..|||+.+|+-+..+..+|.+.+.|-+-..
T Consensus 106 ~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~ 138 (410)
T cd06363 106 PRVVAVIGPDSSTLALTVAPLFSFFLIPQISYG 138 (410)
T ss_pred CCeEEEECCCccHHHHHHHHHhccccccccccc
Confidence 568889999999999999999999988765433
No 153
>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=43.28 E-value=27 Score=35.23 Aligned_cols=55 Identities=9% Similarity=0.190 Sum_probs=41.1
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeE
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSY 311 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~ 311 (380)
-++.+.|+-+.+..-++ ++++|. .+=.+.+|||+..|+.+..+..++++.+.+.+
T Consensus 42 ielv~~D~~~~p~~a~~-~a~~li-~~d~v~~viG~~~S~~~~A~~~~~~~~~~~~i 96 (374)
T TIGR03669 42 IELIDPDPQSDNERYQE-LTRRLL-NRDKVDALWAGYSSATREAIRPIIDRNEQLYF 96 (374)
T ss_pred eEEEEeCCCCCHHHHHH-HHHHHH-HhCCCCEEEcCCchHHHHHHHHHHHhcCceEE
Confidence 35678899888776664 445565 23346668999999999999999998876655
No 154
>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=43.24 E-value=37 Score=32.88 Aligned_cols=56 Identities=18% Similarity=0.221 Sum_probs=41.2
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEee
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWI 313 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~I 313 (380)
++.+.|+-|....-++ ++++|. .+-.+..|+|+..|+.+.....++++.+.|.+.-
T Consensus 42 ~lv~~D~~~~p~~a~~-~~~~li-~~~~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~ 97 (344)
T cd06348 42 KLVIEDSGGDEAEAIN-AFQTLI-NKDRVLAIIGPTLSQQAFAADPIAERAGVPVVGP 97 (344)
T ss_pred EEEEecCCCChHHHHH-HHHHHh-hhcCceEEECCCCcHHHHhhhHHHHhCCCCEEec
Confidence 5668899998765554 455576 3334677789998988998889998888876543
No 155
>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=43.17 E-value=2.5e+02 Score=26.35 Aligned_cols=87 Identities=20% Similarity=0.187 Sum_probs=50.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++.. .++-.-|..+..-+.+...+. +-++.+.++-... ++| +.+..+.+..+|.+|+++...++ ...
T Consensus 2 I~vi~~-~~~~~~~~~~~~gi~~~a~~~------g~~~~~~~~~~~~--~~~~~~i~~~~~~~vdgiii~~~~~~~-~~~ 71 (288)
T cd01538 2 IGLSLP-TKTEERWIRDRPNFEAALKEL------GAEVIVQNANGDP--AKQISQIENMIAKGVDVLVIAPVDGEA-LAS 71 (288)
T ss_pred eEEEEe-CCCcHHHHHHHHHHHHHHHHc------CCEEEEECCCCCH--HHHHHHHHHHHHcCCCEEEEecCChhh-HHH
Confidence 455553 345666777777776643332 2234455554333 344 34444444689999998743332 234
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
+++.+++.+.|...+++.
T Consensus 72 ~l~~l~~~~ipvV~~~~~ 89 (288)
T cd01538 72 AVEKAADAGIPVIAYDRL 89 (288)
T ss_pred HHHHHHHCCCCEEEECCC
Confidence 556666788999888765
No 156
>cd01410 SIRT7 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=43.13 E-value=56 Score=30.69 Aligned_cols=59 Identities=15% Similarity=0.179 Sum_probs=38.4
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCC-chhHHHHHHHHHhCCCeEeeCCC
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNS-SNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nS-SNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
+.+..|+.-= ....-+++. +.+ .++|++||||-.-+ .-...|...+++.|.+.+.|.-.
T Consensus 132 P~VV~FgE~l-p~~~~~~a~-~~~-~~aDlllviGTSl~V~pa~~l~~~~~~~g~~vi~iN~~ 191 (206)
T cd01410 132 DTIVDFGERL-PPENWMGAA-AAA-CRADLFLCLGTSLQVTPAANLPLKAARAGGRLVIVNLQ 191 (206)
T ss_pred CcEEECCCCC-CHHHHHHHH-HHH-hcCCEEEEECcCceehhHHHHHHHHHhcCCeEEEECCC
Confidence 4555666521 222334444 444 47999999998654 34457888899899888877653
No 157
>PF15498 Dendrin: Nephrin and CD2AP-binding protein, Dendrin
Probab=43.12 E-value=5.1 Score=42.35 Aligned_cols=33 Identities=15% Similarity=0.133 Sum_probs=27.9
Q ss_pred EEEEcCCCCCHHHHHHHHhcCCcEEeccCchhH
Q 016960 99 VVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVS 131 (380)
Q Consensus 99 ~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~ 131 (380)
..-=|||-++..-.--+...|+.||||||-..+
T Consensus 378 K~trRaHTlPRssrgpa~geGvFVIDATCVVIr 410 (657)
T PF15498_consen 378 KETRRAHTLPRSSRGPARGEGVFVIDATCVVIR 410 (657)
T ss_pred ccccccccCCcccCCCCCCCceEEEeeeEEEEe
Confidence 456799999988888888999999999996543
No 158
>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=42.93 E-value=2.7e+02 Score=25.51 Aligned_cols=77 Identities=16% Similarity=0.090 Sum_probs=43.4
Q ss_pred ChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHH-HHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhC
Q 016960 229 LKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQD-AMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRG 307 (380)
Q Consensus 229 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~-a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~ 307 (380)
+-..|..+.+-+.+...+. + -.+.++. ++.-.++|. .+..|.+..+|.+||.+...+.. .++-+.+.|
T Consensus 10 ~~~~~~~~~~g~~~~a~~~-g-----~~~~~~~--~~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~---~~~~~~~~~ 78 (268)
T cd06270 10 DGPFFGPLLSGVESVARKA-G-----KHLIITA--GHHSAEKEREAIEFLLERRCDALILHSKALSDD---ELIELAAQV 78 (268)
T ss_pred cCcchHHHHHHHHHHHHHC-C-----CEEEEEe--CCCchHHHHHHHHHHHHcCCCEEEEecCCCCHH---HHHHHhhCC
Confidence 3455666666665543332 2 1233322 122234553 34445557999999998654432 244556788
Q ss_pred CCeEeeCCC
Q 016960 308 IPSYWIDSE 316 (380)
Q Consensus 308 ~~t~~Ie~~ 316 (380)
.|...+++.
T Consensus 79 ipvV~~~~~ 87 (268)
T cd06270 79 PPLVLINRH 87 (268)
T ss_pred CCEEEEecc
Confidence 899988874
No 159
>COG1494 GlpX Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]
Probab=42.88 E-value=15 Score=36.95 Aligned_cols=42 Identities=17% Similarity=0.332 Sum_probs=33.5
Q ss_pred CHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHH
Q 016960 67 NPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEM 112 (380)
Q Consensus 67 N~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~ 112 (380)
+++.+.+++++||. + +..-+++++-.||.|||.|-||++-.+
T Consensus 248 ~~~e~~R~~~mGid-~---~~vl~ledlv~gd~viFaATGvT~G~l 289 (332)
T COG1494 248 GEEERARCKAMGID-V---NKVLSLEDLVRGDNVIFAATGVTDGDL 289 (332)
T ss_pred cHHHHHHHHHhCCC-h---hheeeHHHhcCCCceEEEeccCcCcch
Confidence 78899999999992 2 233467888888889999999998643
No 160
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=42.70 E-value=1.8e+02 Score=25.58 Aligned_cols=39 Identities=26% Similarity=0.337 Sum_probs=32.8
Q ss_pred hcCCEEEEEccC-CCchhHHHHHHHHHhCCCeEeeCCCCc
Q 016960 280 EKVDLILVVGGW-NSSNTSHLQEIAEDRGIPSYWIDSEKR 318 (380)
Q Consensus 280 ~~vD~miVVGG~-nSSNT~kL~eia~~~~~~t~~Ie~~~d 318 (380)
++-|++|+|... +|.++...++.|++.|.++..|.+..+
T Consensus 78 ~~~D~~i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~~~ 117 (154)
T TIGR00441 78 QKGDVLLGISTSGNSKNVLKAIEAAKDKGMKTITLAGKDG 117 (154)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCC
Confidence 478999999864 677888999999999999999988643
No 161
>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=42.68 E-value=1.8e+02 Score=25.94 Aligned_cols=68 Identities=19% Similarity=0.164 Sum_probs=47.2
Q ss_pred hcCCEEEEEc-cCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCCCCCEEEEEeCCCCCH
Q 016960 280 EKVDLILVVG-GWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPD 358 (380)
Q Consensus 280 ~~vD~miVVG-G~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGASTP~ 358 (380)
.+-|++|++- +-+|.++..+++.|++.|.++.-|-+..+= -| .....+-|... +...
T Consensus 100 ~~~Dv~I~iS~SG~t~~~i~~~~~ak~~Ga~vI~IT~~~~s--------------------~L-a~~aD~~l~~~-~~~~ 157 (177)
T cd05006 100 QPGDVLIGISTSGNSPNVLKALEAAKERGMKTIALTGRDGG--------------------KL-LELADIEIHVP-SDDT 157 (177)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCC--------------------ch-hhhCCEEEEeC-CCCh
Confidence 4689999987 467789999999999999999999876331 12 23344555554 3455
Q ss_pred HHHHHHHHHHH
Q 016960 359 KAVEDVLKKVF 369 (380)
Q Consensus 359 ~lI~eV~~~l~ 369 (380)
+.+++....+-
T Consensus 158 ~~~~~~~~~~~ 168 (177)
T cd05006 158 PRIQEVHLLIG 168 (177)
T ss_pred HHHHHHHHHHH
Confidence 56777766553
No 162
>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=42.29 E-value=38 Score=32.76 Aligned_cols=63 Identities=14% Similarity=0.173 Sum_probs=44.9
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeC-CCCccC
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWID-SEKRIG 320 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie-~~~dL~ 320 (380)
++.+.|+-|....-. +++++|. .+-.+.+|+|+..|+++..+..++++.+.|.+.-. +...+.
T Consensus 41 ~l~~~D~~~~p~~a~-~~~~~l~-~~~~V~aviG~~~s~~~~a~~~~~~~~~vp~i~~~s~~~~~~ 104 (334)
T cd06327 41 ELVVADHQNKADVAA-AKAREWI-DRDGVDMIVGGPNSAVALAVQEVAREKKKIYIVTGAGSDDLT 104 (334)
T ss_pred EEEEecCCCCchHHH-HHHHHHH-hhcCceEEECCccHHHHHHHHHHHHHhCceEEecCCCccccc
Confidence 566788888765554 4556676 34467778899999999999999999888776433 333443
No 163
>PTZ00409 Sir2 (Silent Information Regulator) protein; Provisional
Probab=42.06 E-value=51 Score=32.48 Aligned_cols=59 Identities=22% Similarity=0.233 Sum_probs=39.3
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCch-hHHHHHHHHHhCCCeEeeCCC
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSN-TSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSN-T~kL~eia~~~~~~t~~Ie~~ 316 (380)
+++..|+.--... .-+.+.+.+ .++|++||||..-+-. ...|...+++.|.+.+.|.-.
T Consensus 176 P~VV~FGE~lp~~--~~~~a~~~~-~~aDlllviGTSl~V~pa~~l~~~a~~~g~~vi~IN~~ 235 (271)
T PTZ00409 176 PNVILFGEVIPKS--LLKQAEKEI-DKCDLLLVVGTSSSVSTATNLCYRAHRKKKKIVEVNIS 235 (271)
T ss_pred CcEEEeCCcCCHH--HHHHHHHHH-HcCCEEEEECCCCcccCHHHHHHHHHHcCCCEEEECCC
Confidence 4566677654432 223344555 4899999999854433 347888899999998877643
No 164
>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=41.52 E-value=2.2e+02 Score=27.07 Aligned_cols=88 Identities=17% Similarity=0.137 Sum_probs=49.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++.- +++-.-|..+.+.+.+...+. +- .+.+. ..+....+.| +.+..+...++|.+|+.+ .+++....
T Consensus 2 I~vi~~-~~~~~f~~~i~~gi~~~a~~~-g~-----~v~~~-~~~~~d~~~~~~~i~~~~~~~~DgiIi~~-~~~~~~~~ 72 (298)
T cd06302 2 IAFVPK-VTGIPYFNRMEEGAKEAAKEL-GV-----DAIYV-GPTTADAAGQVQIIEDLIAQGVDAIAVVP-NDPDALEP 72 (298)
T ss_pred EEEEEc-CCCChHHHHHHHHHHHHHHHh-CC-----eEEEE-CCCCCCHHHHHHHHHHHHhcCCCEEEEec-CCHHHHHH
Confidence 455553 345566777877776643332 21 12211 0012223444 444445446899999985 44454456
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
+++.+++.+.|...+.+.
T Consensus 73 ~~~~~~~~~iPvV~v~~~ 90 (298)
T cd06302 73 VLKKAREAGIKVVTHDSD 90 (298)
T ss_pred HHHHHHHCCCeEEEEcCC
Confidence 666777888999888864
No 165
>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=41.39 E-value=1.7e+02 Score=26.83 Aligned_cols=126 Identities=17% Similarity=0.172 Sum_probs=64.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHH-HHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAM-YKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~-~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++..+ ++-.-|.++...+.+...+. +. .-.+.++ .+....++|.+. ..+....+|.+|+.+...+.+...
T Consensus 2 Ig~v~~~-~~~~~~~~~~~gi~~~~~~~-~~---~~~~~~~--~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~ 74 (271)
T cd06321 2 IGVSVGD-LGNPFFVALAKGAEAAAKKL-NP---GVKVTVV--SADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPA 74 (271)
T ss_pred eEEEecc-cCCHHHHHHHHHHHHHHHHh-CC---CeEEEEc--cCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHH
Confidence 4555543 45566777777776643331 11 1122222 233445566443 444446899999876443334444
Q ss_pred HHHHHHHhCCCeEeeCCCCccCCCCcchhhh-ccchhhhhcccCC---CCCCEEEEEeCCCC
Q 016960 299 LQEIAEDRGIPSYWIDSEKRIGPGNKIAYKL-MHGELVEKENWLP---KGQITIGITSGAST 356 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~-~~~~~~~~~~wl~---~~~~~VGITAGAST 356 (380)
+ +.+++.+.|.+.+....+ +...-+.+.- ..+ .....||- .|.++|++.+|...
T Consensus 75 i-~~~~~~~ipvv~~~~~~~-~~~~~V~~d~~~~g--~~~~~~l~~~~~g~~~i~~i~g~~~ 132 (271)
T cd06321 75 V-KRAQAAGIVVVAVDVAAE-GADATVTTDNVQAG--EISCQYLADRLGGKGNVAILNGPPV 132 (271)
T ss_pred H-HHHHHCCCeEEEecCCCC-CccceeeechHHHH--HHHHHHHHHHhCCCceEEEEeCCCC
Confidence 4 445577889999976432 1110011110 111 11112332 27899999988643
No 166
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=41.35 E-value=37 Score=27.73 Aligned_cols=45 Identities=20% Similarity=0.351 Sum_probs=34.5
Q ss_pred hhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCC
Q 016960 277 MVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGP 321 (380)
Q Consensus 277 La~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~ 321 (380)
+-.+++-++|+-.+-..+-.++|.+.|+.++.|.+++.|-.||-.
T Consensus 20 Ik~gkakLViiA~Da~~~~~k~i~~~c~~~~Vpv~~~~t~~eLG~ 64 (82)
T PRK13601 20 ITNCNVLQVYIAKDAEEHVTKKIKELCEEKSIKIVYIDTMKELGV 64 (82)
T ss_pred HHcCCeeEEEEeCCCCHHHHHHHHHHHHhCCCCEEEeCCHHHHHH
Confidence 333567777777776655556899999999999999999888853
No 167
>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=41.22 E-value=48 Score=32.06 Aligned_cols=59 Identities=12% Similarity=0.107 Sum_probs=40.4
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCC
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
++.+.|+-|....-. +++.+|.. +-.+..|+|...|+.+..+.+++++.+.|.+...+.
T Consensus 42 ~~~~~D~~~~~~~a~-~~a~~li~-~~~v~aiig~~~s~~~~~~~~~~~~~~ip~i~~~s~ 100 (346)
T cd06330 42 ELVVRDEAGKPDEAI-REARELVE-NEGVDMLIGLISSGVALAVAPVAEELKVFFIATDPG 100 (346)
T ss_pred EEEEecCCCCHHHHH-HHHHHHHh-ccCCcEEEcccchHHHHHHHHHHHHcCCeEEEcCCC
Confidence 455778766554444 44555652 223445568899999999999999999888765554
No 168
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=40.88 E-value=61 Score=30.40 Aligned_cols=47 Identities=17% Similarity=0.147 Sum_probs=37.9
Q ss_pred HhHHHHHHhhhhcCCEEEEEccC-CCchhHHHHHHHHHhCCCeEeeCCCCc
Q 016960 269 ERQDAMYKMVEEKVDLILVVGGW-NSSNTSHLQEIAEDRGIPSYWIDSEKR 318 (380)
Q Consensus 269 ~RQ~a~~eLa~~~vD~miVVGG~-nSSNT~kL~eia~~~~~~t~~Ie~~~d 318 (380)
.||-+ .++ .+-|++|+|-+. +|.|..+.++.|++.|.++..|.+..+
T Consensus 100 ~~ql~--~~~-~~gDvli~iS~SG~s~~v~~a~~~Ak~~G~~vI~IT~~~~ 147 (196)
T PRK10886 100 AKQVR--ALG-HAGDVLLAISTRGNSRDIVKAVEAAVTRDMTIVALTGYDG 147 (196)
T ss_pred HHHHH--HcC-CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCC
Confidence 45544 356 589999998774 788899999999999999999988754
No 169
>cd00765 Pyrophosphate_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 pyrophosphate-dependent phosphofructokinases. These are found in bacteria as well as plants. These may be dimeric nonallosteric enzymes as in bacteria or allosteric heterotetramers as in plants.
Probab=40.54 E-value=45 Score=36.36 Aligned_cols=52 Identities=25% Similarity=0.327 Sum_probs=35.5
Q ss_pred HHhHHHHHHhhhhcCCEEEEEccCCCc-hhHHHHHHHHHhCCCeEeeCCCCcc
Q 016960 268 QERQDAMYKMVEEKVDLILVVGGWNSS-NTSHLQEIAEDRGIPSYWIDSEKRI 319 (380)
Q Consensus 268 ~~RQ~a~~eLa~~~vD~miVVGG~nSS-NT~kL~eia~~~~~~t~~Ie~~~dL 319 (380)
.+++.+++.|.+-.+|.+++|||-.|- +..+|++-+++.|.+.-.|.=+.=|
T Consensus 153 e~~~~i~~~l~~~~Id~LviIGGddS~~~A~~Lae~~~~~g~~i~VIGVPKTI 205 (550)
T cd00765 153 DQFKQAEETAKKLDLDALVVIGGDDSNTNAALLAENFRSKGLKTRVIGVPKTI 205 (550)
T ss_pred HHHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHhcCCCceEEEEeeee
Confidence 355566666655679999999999886 5568999888877433333334333
No 170
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=40.51 E-value=2e+02 Score=26.54 Aligned_cols=86 Identities=15% Similarity=-0.007 Sum_probs=46.3
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHH-HHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQD-AMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~-a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|++|.-. +-.-|..+..-+.+...+. + -++.++.+ .+...++|. .+..|.+..+|.+|+.+...++ +..
T Consensus 2 i~~v~~~--~~~~~~~~~~gi~~~~~~~-g-----~~~~~~~~-~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~-~~~ 71 (271)
T cd06314 2 IAVVTNG--ASPFWKIAEAGVKAAGKEL-G-----VDVEFVVP-QQGTVNAQLRMLEDLIAEGVDGIAISPIDPKA-VIP 71 (271)
T ss_pred eEEEcCC--CcHHHHHHHHHHHHHHHHc-C-----CeEEEeCC-CCCCHHHHHHHHHHHHhcCCCEEEEecCChhH-hHH
Confidence 5666632 3456777777776532222 1 12322211 012344553 3444555689999998644322 233
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
+++-+.+ +.|.+.+.+.
T Consensus 72 ~l~~~~~-~ipvV~~~~~ 88 (271)
T cd06314 72 ALNKAAA-GIKLITTDSD 88 (271)
T ss_pred HHHHHhc-CCCEEEecCC
Confidence 4344445 8899999764
No 171
>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=40.30 E-value=47 Score=32.25 Aligned_cols=58 Identities=19% Similarity=0.309 Sum_probs=42.9
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeC
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWID 314 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie 314 (380)
-++.+.||-|.+..-.+ ++.+|. .+-.+..|+|+..|+.+..+..++.+.+.|-+-..
T Consensus 40 i~~~~~D~~~~~~~a~~-~a~~l~-~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~ 97 (350)
T cd06366 40 LVLHVRDSKCDPVQAAS-AALDLL-ENKPVVAIIGPQCSSVAEFVAEVANEWNVPVLSFA 97 (350)
T ss_pred EEEEecCCCCCHHHHHH-HHHHHh-ccCCceEEECCCcHHHHHHHHHHhhcCCeeEEecc
Confidence 35668899888765544 455566 34467778899999999999999999888765443
No 172
>cd07394 MPP_Vps29 Homo sapiens Vps29 and related proteins, metallophosphatase domain. Vps29 (vacuolar sorting protein 29), also known as vacuolar membrane protein Pep11, is a subunit of the retromer complex which is responsible for the retrieval of mannose-6-phosphate receptors (MPRs) from the endosomes for retrograde transport back to the Golgi. Vps29 has a phosphoesterase fold that acts as a protein interaction scaffold for retromer complex assembly as well as a phosphatase with specificity for the cytoplasmic tail of the MPR. The retromer includes the following 5 subunits: Vps35, Vps26, Vps29, and a dimer of the sorting nexins Vps5 (Snx1), and Vps17 (Snx2). Vps29 belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily incl
Probab=40.27 E-value=2.1e+02 Score=25.91 Aligned_cols=85 Identities=15% Similarity=0.171 Sum_probs=49.5
Q ss_pred CceEEecccccCHHHHHHHHHcC--cEEecCCccccccccccC------CCEEEEcCCCCCHHHHHHHHhcCCcEEeccC
Q 016960 56 EKIWITNEIIHNPTVNKRLEEMA--VQNIPVEEGKKQFDVVNK------GDVVVLPAFGAAVEEMVTLNNKNVQIVDTTC 127 (380)
Q Consensus 56 ~~Iy~lG~LIHN~~Vv~~L~~~G--v~~v~~~~~~~~~~el~~------g~~VIIrAHGv~~~~~~~l~~~g~~viDaTC 127 (380)
..|+.+|+++. +.+.+.|++.+ +..|....... ..+|. ++.=|.=.||-+..
T Consensus 31 d~iih~GDi~~-~~~~~~l~~~~~~~~~V~GN~D~~--~~lp~~~~~~~~g~~i~l~HG~~~~----------------- 90 (178)
T cd07394 31 QHVLCTGNLCS-KETYDYLKTIAPDVHIVRGDFDEN--LNYPETKVITVGQFKIGLIHGHQVV----------------- 90 (178)
T ss_pred CEEEECCCCCC-HHHHHHHHhhCCceEEEECCCCcc--ccCCCcEEEEECCEEEEEEECCcCC-----------------
Confidence 47999999986 88889998854 77777543210 02332 22334456774310
Q ss_pred chhHHHHHHHHHHhhCCCeEEEEecCCCceeeee
Q 016960 128 PWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVAT 161 (380)
Q Consensus 128 P~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi 161 (380)
|+- .-....+...+.++.+++.|+..+|.+.=.
T Consensus 91 ~~~-~~~~~~~~~~~~~~dvii~GHTH~p~~~~~ 123 (178)
T cd07394 91 PWG-DPDSLAALQRQLDVDILISGHTHKFEAFEH 123 (178)
T ss_pred CCC-CHHHHHHHHHhcCCCEEEECCCCcceEEEE
Confidence 000 011122223356889999999998987533
No 173
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=40.23 E-value=2.9e+02 Score=25.16 Aligned_cols=83 Identities=12% Similarity=0.087 Sum_probs=45.5
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHL 299 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL 299 (380)
++++.- +++-.-|..+.+-+.+...+. + -++.+.++- +-++....|.+..+|.+|+.+... +.. .
T Consensus 2 igvv~~-~~~~~~~~~~~~gi~~~~~~~-g-----~~~~~~~~~-----~~~~~~~~l~~~~vdgii~~~~~~--~~~-~ 66 (261)
T cd06272 2 IGLIWP-SVSRVALTELVTGINQAISKN-G-----YNMNVSITP-----SLAEAEDLFKENRFDGVIIFGESA--SDV-E 66 (261)
T ss_pred EEEEec-CCCchhHHHHHHHHHHHHHHc-C-----CEEEEEecc-----cHHHHHHHHHHcCcCEEEEeCCCC--ChH-H
Confidence 445553 355667777777776643322 1 122222221 112334445446899999987432 222 2
Q ss_pred HHHHHHhCCCeEeeCCCC
Q 016960 300 QEIAEDRGIPSYWIDSEK 317 (380)
Q Consensus 300 ~eia~~~~~~t~~Ie~~~ 317 (380)
++...+.+.|.+.+++..
T Consensus 67 ~~~~~~~~ipvV~~~~~~ 84 (261)
T cd06272 67 YLYKIKLAIPVVSYGVDY 84 (261)
T ss_pred HHHHHHcCCCEEEEcccC
Confidence 344457889999998764
No 174
>PRK09190 hypothetical protein; Provisional
Probab=40.00 E-value=85 Score=30.23 Aligned_cols=86 Identities=9% Similarity=0.161 Sum_probs=49.2
Q ss_pred CCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhH-HHHHHHH
Q 016960 226 TTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTS-HLQEIAE 304 (380)
Q Consensus 226 TT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~-kL~eia~ 304 (380)
.+.+.+.++++-+.+.+.+.+..+-..+.. +.++.....+ ..|-++++ .+|++..--|.||+ ||...|+
T Consensus 81 v~v~~~l~~~l~~~l~~ril~lLGLArRAG-----klVsG~~~V~----~alk~gk~-~Lvi~A~DaS~~t~kKl~~~~~ 150 (220)
T PRK09190 81 VKVPPDLADLVEALLARRALDALGLARKAG-----QVVSGFEKVD----AALRSGEA-AALIHASDGAADGKRKLDQARR 150 (220)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHhhhC-----CEeecHHHHH----HHHHcCCc-eEEEEeccCChhHHHHHHHHHH
Confidence 334566667776666665554443221111 2233332222 22323456 55666666777776 7778898
Q ss_pred H------hCCCeEeeCCCCccCC
Q 016960 305 D------RGIPSYWIDSEKRIGP 321 (380)
Q Consensus 305 ~------~~~~t~~Ie~~~dL~~ 321 (380)
. ++.|.+..-+.+||..
T Consensus 151 ~~~~~~~~~Vp~v~~~tk~eLg~ 173 (220)
T PRK09190 151 ALVHETGREIPVIGLFTAAELGL 173 (220)
T ss_pred hhcccccCCccEEEecCHHHHHH
Confidence 7 7788887888888754
No 175
>PTZ00287 6-phosphofructokinase; Provisional
Probab=39.91 E-value=44 Score=40.23 Aligned_cols=54 Identities=11% Similarity=0.132 Sum_probs=39.7
Q ss_pred HHHhHHHHHHhhhhcCCEEEEEccCCCc-hhHHHHHHHHHhCCCeEeeCCCCccC
Q 016960 267 TQERQDAMYKMVEEKVDLILVVGGWNSS-NTSHLQEIAEDRGIPSYWIDSEKRIG 320 (380)
Q Consensus 267 T~~RQ~a~~eLa~~~vD~miVVGG~nSS-NT~kL~eia~~~~~~t~~Ie~~~dL~ 320 (380)
...|+.+++.|-.-.+|.+|||||-.|- +...|.|-+++.|.++--|.=+.=||
T Consensus 914 ~e~~~ka~~~lk~l~ID~LVvIGGDgS~t~A~~LaE~f~~~gi~i~VIGVPkTID 968 (1419)
T PTZ00287 914 KENRNKVCETVTNLQLNGLVMPGSNVTITEAALLAEYFLEKKIPTSVVGIPLTGS 968 (1419)
T ss_pred HHHHHHHHHHHHHhCCCEEEEECCchHHHHHHHHHHHHHhcCCCccEEEeCceee
Confidence 3567787777766689999999999887 56689998888888843343344443
No 176
>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=39.85 E-value=2.2e+02 Score=26.02 Aligned_cols=81 Identities=17% Similarity=0.159 Sum_probs=47.0
Q ss_pred CCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHH
Q 016960 227 TMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAED 305 (380)
Q Consensus 227 T~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~ 305 (380)
+..-.-|..+.+.+.+...+. + -++.+.+ +....++| +.++.+.+..+|.+|+.+.. +.-+...++.+++
T Consensus 8 ~~~~~~~~~~~~~i~~~~~~~-g-----~~~~i~~--~~~~~~~~~~~~~~~~~~~vdgiii~~~~-~~~~~~~~~~~~~ 78 (267)
T cd06322 8 TQQHPFYIELANAMKEEAKKQ-K-----VNLIVSI--ANQDLNKQLSDVEDFITKKVDAIVLSPVD-SKGIRAAIAKAKK 78 (267)
T ss_pred CcccHHHHHHHHHHHHHHHhc-C-----CEEEEec--CCCCHHHHHHHHHHHHHcCCCEEEEcCCC-hhhhHHHHHHHHH
Confidence 344556777777776543322 1 2333332 33345566 44555555689999997642 2223445566778
Q ss_pred hCCCeEeeCCC
Q 016960 306 RGIPSYWIDSE 316 (380)
Q Consensus 306 ~~~~t~~Ie~~ 316 (380)
.+.|...++..
T Consensus 79 ~~ipvV~~~~~ 89 (267)
T cd06322 79 AGIPVITVDIA 89 (267)
T ss_pred CCCCEEEEccc
Confidence 88999988764
No 177
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=39.64 E-value=1.7e+02 Score=26.45 Aligned_cols=66 Identities=12% Similarity=0.062 Sum_probs=40.7
Q ss_pred CCceEEecccccCHHHHHHHHHcCcEEecCCccc------ccccc--ccCCCEEEEcCCCCCHHHHHHHHhcCCcEEec
Q 016960 55 EEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGK------KQFDV--VNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDT 125 (380)
Q Consensus 55 ~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~------~~~~e--l~~g~~VIIrAHGv~~~~~~~l~~~g~~viDa 125 (380)
+.++|+.|+ ..-+.|++.|+......+.. +.+.. ......+++|+-+......+.|++.|..++-.
T Consensus 78 ~~~~~avG~-----~Ta~~l~~~g~~~~~~~~~~~~~~L~~~i~~~~~~~~~il~~~g~~~~~~l~~~L~~~g~~v~~~ 151 (239)
T cd06578 78 GLKIAAVGP-----KTAEALREAGLTADFVPEEGDSEGLLELLELQDGKGKRILRPRGGRAREDLAEALRERGAEVDEV 151 (239)
T ss_pred CCEEEEECH-----HHHHHHHHcCCCceeCCCccCHHHHHHHHHhcCCCCCEEEEEcCcchhHHHHHHHHHCCCEEEEE
Confidence 457888775 45588999998766421110 01111 22333456666666688999999999887543
No 178
>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=39.56 E-value=1.2e+02 Score=30.84 Aligned_cols=78 Identities=14% Similarity=0.227 Sum_probs=48.5
Q ss_pred ceeEEEEcCCCChH-HHHHHHHHHHHHHhhhccccccccccccccccc-HHHHHhHHHHHHhh-hhcCCEEEEEccCCCc
Q 016960 218 VKVGIANQTTMLKG-ETEEIGKLVEKTMMRKFGVENVNEHFISFNTIC-DATQERQDAMYKMV-EEKVDLILVVGGWNSS 294 (380)
Q Consensus 218 ~kv~vvsQTT~~~~-~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC-~AT~~RQ~a~~eLa-~~~vD~miVVGG~nSS 294 (380)
+++.+|....+... .++.+.+.|++ . .-++.+|+.++ +.|.+.=+.+.+++ ..++|++|-|||=..-
T Consensus 30 ~r~lvvt~~~~~~~g~~~~v~~~L~~----~------~i~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiGGGSvi 99 (379)
T TIGR02638 30 KKALVVTDKDLIKFGVADKVTDLLDE----A------GIAYELFDEVKPNPTITVVKAGVAAFKASGADYLIAIGGGSPI 99 (379)
T ss_pred CEEEEEcCcchhhccchHHHHHHHHH----C------CCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCChHHH
Confidence 58888887665443 45666666653 1 12345566554 33333333333332 3579999999999999
Q ss_pred hhHHHHHHHHH
Q 016960 295 NTSHLQEIAED 305 (380)
Q Consensus 295 NT~kL~eia~~ 305 (380)
.+-|...+.-.
T Consensus 100 D~aKaia~~~~ 110 (379)
T TIGR02638 100 DTAKAIGIISN 110 (379)
T ss_pred HHHHHHHHHHh
Confidence 99988777543
No 179
>PF03575 Peptidase_S51: Peptidase family S51; InterPro: IPR005320 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S51 (clan PC(S)). The type example being dipeptidase E (alpha-aspartyl dipeptidase) from Escherichia coli. The family contains alpha-aspartyl dipeptidases (dipeptidase E) and cyanophycinases. The three-dimensional structure of Salmonella typhimurium aspartyl dipeptidase, peptidase E has been determine at 1.2-A resolution. The structure of this 25kDa enzyme consists of two mixed beta-sheets forming a V, flanked by six alpha-helices. The active site contains a Ser-His-Glu catalytic triad and is the first example of a serine peptidase/protease with a glutamate in the catalytic triad. The active site Ser is located on a strand-helix motif reminiscent of that found in alpha/beta-hydrolases, but the polypeptide fold and the organisation of the catalytic triad differ from those of the known serine proteases. This enzyme appears to represent a new example of convergent evolution of peptidase activity []. Alpha-aspartyl dipeptidase hydrolyses dipeptides containing N-terminal aspartate residues, asp-|-xaa. It does not act on peptides with N-terminal Glu, Asn or Gln, nor does it cleave isoaspartyl peptides. In the cyanobacteria, cyanophycinase is an exopeptidase that catalyses the hydrolytic cleavage of multi-l-arginyl-poly-l-aspartic acid (cyanophycin; a water- insoluble reserve polymer) into aspartate-arginine dipeptides.; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis; PDB: 3EN0_B 1FYE_A 1FY2_A 3L4E_A.
Probab=39.53 E-value=14 Score=32.60 Aligned_cols=41 Identities=20% Similarity=0.326 Sum_probs=24.9
Q ss_pred ccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhC
Q 016960 261 NTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRG 307 (380)
Q Consensus 261 nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~ 307 (380)
..++..+.+.++....|. ++|++++-|| ||.+|++.-++.+
T Consensus 17 ~~l~~~~~~~~~~~~~i~--~ad~I~~~GG----~~~~l~~~l~~t~ 57 (154)
T PF03575_consen 17 DQLDLSDRNDADILEAIR--EADAIFLGGG----DTFRLLRQLKETG 57 (154)
T ss_dssp EECCCTSCGHHHHHHHHH--HSSEEEE--S-----HHHHHHHHHHTT
T ss_pred EEEeccCCChHHHHHHHH--hCCEEEECCC----CHHHHHHHHHhCC
Confidence 334444434445555554 6999999998 7888888877764
No 180
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=39.36 E-value=41 Score=33.49 Aligned_cols=63 Identities=14% Similarity=0.215 Sum_probs=45.3
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEee-CCCCccC
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWI-DSEKRIG 320 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~I-e~~~dL~ 320 (380)
++.+.||-|....--+.+.+-+. +-.+..|||+..|+-+.....+|...+.|-+-- -+..+|.
T Consensus 43 ~~~~~D~~~~~~~a~~~~~~l~~--~~~v~aiiGp~~S~~~~av~~va~~~~iP~is~~s~s~~ls 106 (391)
T cd06372 43 EFTYTNSTCSAKESLAGFIDQVQ--KEHISALFGPACPEAAEVTGLLASQWNIPMFGFVGQTAKLD 106 (391)
T ss_pred EEEEecCCCCccHHHHHHHHHHH--hcCceEEECCCCCcHHHHHHHHHhccCccEEEeecCCcccc
Confidence 45578999988765555554443 335677999999999999999999999886532 2344554
No 181
>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=39.27 E-value=37 Score=33.57 Aligned_cols=54 Identities=11% Similarity=0.203 Sum_probs=40.9
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeE
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSY 311 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~ 311 (380)
++.+.||-+..+.-+ .++++|. .+=++..|+|+..|+++..+..++++.+.+.+
T Consensus 42 elv~~D~~~~p~~a~-~~a~~li-~~~~V~aiiG~~~s~~~~a~~~~~~~~~~~~~ 95 (360)
T cd06357 42 EPVEYDPGGDPDAYR-ALAERLL-REDGVRVIFGCYTSSSRKAVLPVVERHDALLW 95 (360)
T ss_pred EEEEECCCCCHHHHH-HHHHHHH-hhCCCcEEEeCccHHHHHHHHHHHHhcCceEE
Confidence 566889988887766 4566676 34456666899999999999999988875554
No 182
>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=39.24 E-value=1e+02 Score=31.23 Aligned_cols=77 Identities=16% Similarity=0.316 Sum_probs=45.2
Q ss_pred ceeEEEEcCCCCh-HHHHHHHHHHHHHHhhhccccccccccccccccc-HHHHHhHHHHHHhh-hhcCCEEEEEccCCCc
Q 016960 218 VKVGIANQTTMLK-GETEEIGKLVEKTMMRKFGVENVNEHFISFNTIC-DATQERQDAMYKMV-EEKVDLILVVGGWNSS 294 (380)
Q Consensus 218 ~kv~vvsQTT~~~-~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC-~AT~~RQ~a~~eLa-~~~vD~miVVGG~nSS 294 (380)
+++.+|+-..+.. ..++++.+.|++ . .-++.+|+.+- +.|.+-=+.+.+++ ...+|++|-|||-.+-
T Consensus 29 ~~~lvv~~~~~~~~~~~~~v~~~L~~----~------~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS~i 98 (377)
T cd08176 29 KKALIVTDKGLVKIGVVEKVTDVLDE----A------GIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIGGGSPH 98 (377)
T ss_pred CeEEEECCchHhhcCcHHHHHHHHHH----c------CCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcHHH
Confidence 4788887655544 456677766654 1 11244454432 22222222222222 2469999999999999
Q ss_pred hhHHHHHHHH
Q 016960 295 NTSHLQEIAE 304 (380)
Q Consensus 295 NT~kL~eia~ 304 (380)
.+-|..-+.-
T Consensus 99 D~aK~ia~~~ 108 (377)
T cd08176 99 DCAKAIGIVA 108 (377)
T ss_pred HHHHHHHHHH
Confidence 9999877653
No 183
>PRK10877 protein disulfide isomerase II DsbC; Provisional
Probab=39.05 E-value=32 Score=32.90 Aligned_cols=31 Identities=16% Similarity=0.173 Sum_probs=27.7
Q ss_pred EEeccCchhHHHHHHHHHHhhCCCeEEEEec
Q 016960 122 IVDTTCPWVSKVWTSVEKHKKGDYTSIIHGK 152 (380)
Q Consensus 122 viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~ 152 (380)
..|-.|||=+|.|+.+.++.+.|++|.++--
T Consensus 114 FtDp~CpyCkkl~~~l~~~~~~~v~v~~~~~ 144 (232)
T PRK10877 114 FTDITCGYCHKLHEQMKDYNALGITVRYLAF 144 (232)
T ss_pred EECCCChHHHHHHHHHHHHhcCCeEEEEEec
Confidence 4899999999999999999888999888743
No 184
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=39.03 E-value=1.6e+02 Score=32.67 Aligned_cols=140 Identities=12% Similarity=0.099 Sum_probs=76.6
Q ss_pred cchhHHHHHHHcCCcceec-ceEEE--------------EeCCCCCcccHHHHHHHHHHHHhh-C-CCCceEEecccccC
Q 016960 5 YTSDIIKKLKENGFEYTWG-NVKVK--------------LAESYGFCWGVERAVQIAYEARKQ-F-PEEKIWITNEIIHN 67 (380)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~g-~mkI~--------------lA~~~GFC~GV~RAI~~a~~~~~~-~-~~~~Iy~lG~LIHN 67 (380)
..+.+.+.|++.|+....- .++|. +....+..|==.+||+.+.+.+.. + .+-++|+.|+=-
T Consensus 14 qa~~la~~L~~~G~~vi~~Pli~i~p~~~~~~l~~~l~~L~~yd~iIFTS~nAV~~~~~~l~~~~~~~~~i~AVG~~T-- 91 (656)
T PRK06975 14 QSAALAAQLAAAGLDVLDFPLLDIAPVADDAPLRAALARLSDYALVVFVSPNAVDRALARLDAIWPHALPVAVVGPGS-- 91 (656)
T ss_pred HHHHHHHHHHHcCCCEEEcccEEeeCCCChHHHHHHHHhCCCCCEEEEECHHHHHHHHHHHHhhCccCCeEEEECHHH--
Confidence 4567888899888554442 22332 112233334335555555443322 1 134799999754
Q ss_pred HHHHHHHHHcCcEEecC------------Cc-----cc-cccc--c--ccCCCEEEEcCCCCCHHHHHHHHhcCCcE---
Q 016960 68 PTVNKRLEEMAVQNIPV------------EE-----GK-KQFD--V--VNKGDVVVLPAFGAAVEEMVTLNNKNVQI--- 122 (380)
Q Consensus 68 ~~Vv~~L~~~Gv~~v~~------------~~-----~~-~~~~--e--l~~g~~VIIrAHGv~~~~~~~l~~~g~~v--- 122 (380)
-+.|++.|+...-. .. ++ +.+. . ++...++|+|+.|-.+...+.|+++|..|
T Consensus 92 ---a~aL~~~Gi~~~~~~~~~P~~~~~~p~~~~~se~Ll~~l~~~~~~~~g~rVLi~rG~~gr~~L~~~L~~~Ga~V~~v 168 (656)
T PRK06975 92 ---VAALARHGIAAPAHRVIAPDAPADGGEARYDSEALFAEIDAAFGALAGKRVLIVRGDGGREWLAERLREAGAEVELV 168 (656)
T ss_pred ---HHHHHHcCCCCceeeccccccccCCCCCccchHHHHHhHHHhccCCCCCEEEEEcCCCCcHHHHHHHHHCCCEEEEE
Confidence 47899999863311 00 00 0111 1 22234679999999999999999999777
Q ss_pred --EeccCchhHH-HHHHHHHHhhCCCeEEE
Q 016960 123 --VDTTCPWVSK-VWTSVEKHKKGDYTSII 149 (380)
Q Consensus 123 --iDaTCP~V~k-v~~~v~~~~~~Gy~iII 149 (380)
|+.++|.-.. .+..++++.+.++.+|+
T Consensus 169 ~vY~~~~~~~~~~~~~~~~~~l~~~idav~ 198 (656)
T PRK06975 169 EAYRRVVPEPSIGAWERVHALLSGAPHAWL 198 (656)
T ss_pred eEEEeeCCCcchhHHHHHHHHHhCCCcEEE
Confidence 5555553221 22334433333444444
No 185
>PRK07085 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional
Probab=39.02 E-value=48 Score=36.11 Aligned_cols=46 Identities=17% Similarity=0.293 Sum_probs=33.9
Q ss_pred HHhHHHHHHhhhhcCCEEEEEccCCCc-hhHHHHHHHHHh--CCCeEee
Q 016960 268 QERQDAMYKMVEEKVDLILVVGGWNSS-NTSHLQEIAEDR--GIPSYWI 313 (380)
Q Consensus 268 ~~RQ~a~~eLa~~~vD~miVVGG~nSS-NT~kL~eia~~~--~~~t~~I 313 (380)
.+++.+++.|.+-.+|.+++|||-.|- +..+|+|.+++. +.+...|
T Consensus 151 e~~~~i~~~l~~~~Id~LviIGGd~S~~~A~~Lae~~~~~~~~i~VIGI 199 (555)
T PRK07085 151 EQKEACLETVKKLKLDGLVIIGGDDSNTNAAILAEYFAKHGCKTQVIGV 199 (555)
T ss_pred HHHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHHhCCCccEEEE
Confidence 466677777765689999999999887 555888888776 3444544
No 186
>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=39.01 E-value=43 Score=32.74 Aligned_cols=98 Identities=13% Similarity=0.199 Sum_probs=59.2
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCcc-C-CCCcchhhh---c
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRI-G-PGNKIAYKL---M 330 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL-~-~~~~~~~~~---~ 330 (380)
++.+.||-|.+..-+| ++++|. .+-++.+|+|+..|+-+.. .+++++.+.|.+..-+.+.. . ..+...|+. .
T Consensus 46 el~~~D~~~~p~~a~~-~~~~li-~~~~v~~iiG~~~s~~~~~-~~~~~~~~ip~i~~~~~~~~~~~~~~~~~fr~~~~~ 122 (347)
T cd06336 46 EIVSYDDKYDPAEAAA-NARRLV-QQDGVKFILGPIGGGITAA-QQITERNKVLLLTAYSSDLSIDTAGNPLTFRVPPIY 122 (347)
T ss_pred EEEEecCCCCHHHHHH-HHHHHH-hhcCceEEEeCCCCchhhh-hhhhhhcCceEEeccCCcccccccCCceEEEecCCc
Confidence 5668899998877764 556676 3446677889988888877 89999988877765554433 2 112222221 1
Q ss_pred cchhhhhcccCC-CCCCEEEEEeCCCCC
Q 016960 331 HGELVEKENWLP-KGQITIGITSGASTP 357 (380)
Q Consensus 331 ~~~~~~~~~wl~-~~~~~VGITAGASTP 357 (380)
..+..-...|+. .+.++|++..- ++|
T Consensus 123 ~~~~~~~~~~~~~~~~~~v~il~~-d~~ 149 (347)
T cd06336 123 NVYGVPFLAYAKKPGGKKVALLGP-NDA 149 (347)
T ss_pred hhHHHHHHHHHhhcCCceEEEEcc-CCc
Confidence 111122224542 26788998864 344
No 187
>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=39.01 E-value=1.8e+02 Score=27.21 Aligned_cols=86 Identities=5% Similarity=-0.026 Sum_probs=41.4
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHH--HHHhHHH-HHHhhhhcCCEEEEEccCCCchh
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDA--TQERQDA-MYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~A--T~~RQ~a-~~eLa~~~vD~miVVGG~nSSNT 296 (380)
++++...-.+-.-|..+.+.+.+.+... + -++.+..+-+.. ..++|.. +..|.+..+|.+|+.++.. ++.
T Consensus 2 Igvi~~~~~~~~~~~~~~~~i~~~~~~~-g-----~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~-~~~ 74 (280)
T cd06303 2 IAVIYPGQQISDYWVRNIASFTARLEEL-N-----IPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSL-RHR 74 (280)
T ss_pred eeEEecCccHHHHHHHHHHHHHHHHHHc-C-----CcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCch-hhH
Confidence 5555433112346666766665533222 1 122222111222 3456644 3455557899999987532 233
Q ss_pred HHHHHHHHHhCCCeEee
Q 016960 297 SHLQEIAEDRGIPSYWI 313 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~I 313 (380)
..|.+ +.+.+.|...+
T Consensus 75 ~~~~~-l~~~~~p~V~i 90 (280)
T cd06303 75 KLIER-VLASGKTKIIL 90 (280)
T ss_pred HHHHH-HHhCCCCeEEE
Confidence 44444 44555454445
No 188
>TIGR02764 spore_ybaN_pdaB polysaccharide deacetylase family sporulation protein PdaB. This model describes the YbaN protein family, also called PdaB and SpoVIE, of Gram-positive bacteria. Although ybaN null mutants have only a mild sporulation defect, ybaN/ytrI double mutants show drastically reducted sporulation efficiencies. This synthetic defect suggests the role of this sigmaE-controlled gene in sporulation had been masked by functional redundancy. Members of this family are homologous to a characterized polysaccharide deacetylase; the exact function this protein family is unknown.
Probab=38.78 E-value=97 Score=27.94 Aligned_cols=45 Identities=13% Similarity=0.164 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHhhCC--CCceEEecccccCHHHHHHHHHcCcEEec
Q 016960 39 VERAVQIAYEARKQFP--EEKIWITNEIIHNPTVNKRLEEMAVQNIP 83 (380)
Q Consensus 39 V~RAI~~a~~~~~~~~--~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~ 83 (380)
+++-|..+.+++++.. ..+.|..----.|+.+++.|++.|..++.
T Consensus 79 ~~~ei~~~~~~l~~~~g~~~~~fr~P~G~~~~~~~~~l~~~G~~~v~ 125 (191)
T TIGR02764 79 IKKDILRAQEIIEKLTGKKPTLFRPPSGAFNKAVLKAAESLGYTVVH 125 (191)
T ss_pred HHHHHHHHHHHHHHHhCCCCCEEECCCcCCCHHHHHHHHHcCCeEEE
Confidence 3444555555554421 12456555556799999999999998875
No 189
>PRK09701 D-allose transporter subunit; Provisional
Probab=38.58 E-value=2.3e+02 Score=27.31 Aligned_cols=92 Identities=11% Similarity=0.010 Sum_probs=55.1
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHH-HHHhhhhcCCEEEEEccCCCchh
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDA-MYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a-~~eLa~~~vD~miVVGG~nSSNT 296 (380)
..++++.-+ ++-.-|..+.+-+.+...+. + -.+.+.++-+..-..+|.+ ++.+....+|.+|+.+...+.+.
T Consensus 25 ~~Igvi~~~-~~~~f~~~~~~gi~~~a~~~-g-----~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 97 (311)
T PRK09701 25 AEYAVVLKT-LSNPFWVDMKKGIEDEAKTL-G-----VSVDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLV 97 (311)
T ss_pred CeEEEEeCC-CCCHHHHHHHHHHHHHHHHc-C-----CeEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 378888754 45566777877776643222 1 2233333333334455644 45554467999999986544454
Q ss_pred HHHHHHHHHhCCCeEeeCCCC
Q 016960 297 SHLQEIAEDRGIPSYWIDSEK 317 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~~~ 317 (380)
..|.++ .+.+.|.+.+.+..
T Consensus 98 ~~l~~~-~~~giPvV~~~~~~ 117 (311)
T PRK09701 98 MPVARA-WKKGIYLVNLDEKI 117 (311)
T ss_pred HHHHHH-HHCCCcEEEeCCCC
Confidence 555444 57889999888653
No 190
>KOG3043 consensus Predicted hydrolase related to dienelactone hydrolase [General function prediction only]
Probab=38.34 E-value=8.1 Score=37.67 Aligned_cols=32 Identities=34% Similarity=0.738 Sum_probs=23.5
Q ss_pred hhHHHHHHHcCCcceecceEEEEeCCCCCcccHHHHHHHH
Q 016960 7 SDIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIA 46 (380)
Q Consensus 7 ~~~~~~~~~~~~~~~~g~mkI~lA~~~GFC~GV~RAI~~a 46 (380)
+.+++.||+.|-+...|. .|||||-+++|+.-
T Consensus 107 ~~v~k~lk~~g~~kkIGv--------~GfCwGak~vv~~~ 138 (242)
T KOG3043|consen 107 TAVVKWLKNHGDSKKIGV--------VGFCWGAKVVVTLS 138 (242)
T ss_pred HHHHHHHHHcCCcceeeE--------EEEeecceEEEEee
Confidence 467788887765655553 59999999988754
No 191
>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=38.23 E-value=1.2e+02 Score=30.93 Aligned_cols=76 Identities=20% Similarity=0.230 Sum_probs=45.1
Q ss_pred ceeEEEE-cCCCCh-HHHHHHHHHHHHHHhhhcccccccccccccccccH-HHHHhH-HHHHHhhhhcCCEEEEEccCCC
Q 016960 218 VKVGIAN-QTTMLK-GETEEIGKLVEKTMMRKFGVENVNEHFISFNTICD-ATQERQ-DAMYKMVEEKVDLILVVGGWNS 293 (380)
Q Consensus 218 ~kv~vvs-QTT~~~-~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~-AT~~RQ-~a~~eLa~~~vD~miVVGG~nS 293 (380)
+|+.+|+ ++++.. ..++.+.+.|+. . .-++.+|+.++. .|.+.= +++..+-...+|++|-|||=..
T Consensus 29 ~r~livt~~~~~~~~~~~~~v~~~L~~----~------g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~ 98 (382)
T cd08187 29 KKVLLVYGGGSIKKNGLYDRVIASLKE----A------GIEVVELGGVEPNPRLETVREGIELCKEEKVDFILAVGGGSV 98 (382)
T ss_pred CEEEEEeCCcHHHhcCcHHHHHHHHHH----c------CCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEeCChHH
Confidence 4677775 444432 345666666653 1 123456676663 222222 2333232357999999999999
Q ss_pred chhHHHHHHH
Q 016960 294 SNTSHLQEIA 303 (380)
Q Consensus 294 SNT~kL~eia 303 (380)
-.+-|.+-+.
T Consensus 99 iD~aK~ia~~ 108 (382)
T cd08187 99 IDSAKAIAAG 108 (382)
T ss_pred HHHHHHHHhH
Confidence 9999987665
No 192
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=38.17 E-value=48 Score=33.15 Aligned_cols=55 Identities=27% Similarity=0.357 Sum_probs=43.2
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEe
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYW 312 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~ 312 (380)
-++.+.||-..+..-+ +++++|. .+ ++..|||+..|+.+..+.+++++.+.|.+.
T Consensus 67 ielv~~D~~~~p~~a~-~~~~~Li-~~-~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~ 121 (369)
T PRK15404 67 LEGVEYDDACDPKQAV-AVANKVV-ND-GIKYVIGHLCSSSTQPASDIYEDEGILMIT 121 (369)
T ss_pred EEEEeecCCCCHHHHH-HHHHHHH-hC-CceEEEcCCCchhHHHhHHHHHHCCCeEEe
Confidence 3566788887776655 4667787 44 677889999999999999999999887665
No 193
>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=38.15 E-value=36 Score=32.55 Aligned_cols=113 Identities=19% Similarity=0.241 Sum_probs=66.0
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhh---cc
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKL---MH 331 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~---~~ 331 (380)
-++.+.|+-+.++.- ++++++|. .+-.+.+|+|+..|..+..+.+++++.+.|.+.--+..+ .......|.+ ..
T Consensus 43 i~l~~~D~~~~~~~a-~~~~~~l~-~~~~v~~vvg~~~s~~~~~~~~~~~~~~ip~i~~~~~~~-~~~~~~~f~~~~~~~ 119 (343)
T PF13458_consen 43 IELVVYDDGGDPAQA-VQAARKLI-DDDGVDAVVGPLSSAQAEAVAPIAEEAGIPYISPSASSP-SPDSPNVFRLSPSDS 119 (343)
T ss_dssp EEEEEEE-TT-HHHH-HHHHHHHH-HTSTESEEEESSSHHHHHHHHHHHHHHT-EEEESSGGGG-TTTHTTEEESS--HH
T ss_pred ceeeeccCCCChHHH-HHHHHHhh-hhcCcEEEEecCCcHHHHHHHHHHHhcCcEEEEeeccCC-CCCCCcEEEEecccc
Confidence 356678888877766 46667776 456788899999999999999999999988776332222 1111122222 11
Q ss_pred chhhhhcccCC--CCCCEEEEEeCCC-CCHHHHHHHHHHHHh
Q 016960 332 GELVEKENWLP--KGQITIGITSGAS-TPDKAVEDVLKKVFE 370 (380)
Q Consensus 332 ~~~~~~~~wl~--~~~~~VGITAGAS-TP~~lI~eV~~~l~~ 370 (380)
.+......|+. .+.++|+|.+... ....+.+.+.+.+++
T Consensus 120 ~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~~~~~~~ 161 (343)
T PF13458_consen 120 QQAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAFRKALEA 161 (343)
T ss_dssp HHHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHHHHHHhh
Confidence 12222334431 2578999887552 333455555555554
No 194
>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=37.83 E-value=1.7e+02 Score=27.93 Aligned_cols=87 Identities=11% Similarity=0.128 Sum_probs=48.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHH-HHHhhhh--cCCEEEEEccCCCchh
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDA-MYKMVEE--KVDLILVVGGWNSSNT 296 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a-~~eLa~~--~vD~miVVGG~nSSNT 296 (380)
|+++.-.+-+-.-|..+...+...+.+. + -.+.+. .+....++|.+ +..|.+. .+|.+|+.+... ..
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~-g-----~~v~~~--~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~--~~ 71 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL-G-----IELEVL--YAERDRFLMLQQARTILQRPDKPDALIFTNEKS--VA 71 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc-C-----CeEEEE--eCCCCHHHHHHHHHHHHHhccCCCEEEEcCCcc--ch
Confidence 3444433213355667766666543222 1 122222 23345566644 4455545 799999976432 34
Q ss_pred HHHHHHHHHhCCCeEeeCCC
Q 016960 297 SHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~~ 316 (380)
.++.+.+++.+.|.+.+.+.
T Consensus 72 ~~~~~~~~~~giPvV~~~~~ 91 (305)
T cd06324 72 PELLRLAEGAGVKLFLVNSG 91 (305)
T ss_pred HHHHHHHHhCCCeEEEEecC
Confidence 55567777889999999864
No 195
>PF01904 DUF72: Protein of unknown function DUF72; InterPro: IPR002763 The function of this family is unknown. Aquifex aeolicus has two copies of this protein. A probable aspartyl-tRNA synthetase from Escherichia coli [] belongs to this group.; PDB: 1VPY_A 1ZTV_A 1VPQ_A.
Probab=37.75 E-value=1e+02 Score=29.24 Aligned_cols=115 Identities=10% Similarity=0.023 Sum_probs=55.6
Q ss_pred eecceEEEEeCCCCCcccHHHHHHHHHHHHhhCC-CCce--EEecccccCHHHHHHHHHcCcEEecCCc-c---cccccc
Q 016960 21 TWGNVKVKLAESYGFCWGVERAVQIAYEARKQFP-EEKI--WITNEIIHNPTVNKRLEEMAVQNIPVEE-G---KKQFDV 93 (380)
Q Consensus 21 ~~g~mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~-~~~I--y~lG~LIHN~~Vv~~L~~~Gv~~v~~~~-~---~~~~~e 93 (380)
.+|.+=+.+.-++.++- ..++.....++..+ +-++ =.-++=-.++.+.+-|+++|+..+-.+. . .....+
T Consensus 85 klg~iL~Q~Ppsf~~~~---~~~~~l~~~l~~~~~~~~~avE~R~~sW~~~~~~~~l~~~~~~~v~~d~~~~~~~p~~~~ 161 (230)
T PF01904_consen 85 KLGPILFQFPPSFRFTP---ENLERLDAFLDRLPRGFRYAVEFRHPSWFTEEVFELLREHGVALVIADSPRLPSLPPPEP 161 (230)
T ss_dssp -EEEEEEE--TT--S-H---HHHHHHHHHHHHTT-TS-EEEE--BGGGGCHHHHHHHHHTT-EEEEEE---BTTC-----
T ss_pred cceEEEEEcCCCcCCCH---HHHHHHHHHHhhcccccceEEecCCcchhhHHHHHHHHHcCCEEEEeCCcccCCCCCccc
Confidence 35555566655555553 33444444454443 2222 2334433389999999999999875321 1 111111
Q ss_pred ccCCCEEEEcCCCCCHHH-----HHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEe
Q 016960 94 VNKGDVVVLPAFGAAVEE-----MVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHG 151 (380)
Q Consensus 94 l~~g~~VIIrAHGv~~~~-----~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG 151 (380)
...++.+.+|-||-+... |.. +-...+-+.++++.++|..|.++=
T Consensus 162 ~~~~~~~y~RlhG~~~~~~~~~~Ys~-------------~eL~~~a~~i~~~~~~~~~v~v~f 211 (230)
T PF01904_consen 162 QTTPDFAYVRLHGRNGEGWYDYRYSD-------------EELEEWAERIRAWAAQGKEVYVFF 211 (230)
T ss_dssp -SSTTEEEEEE--S-TTTTTB----H-------------HHHHHHHHHHHHHHTCSSEEEEEE
T ss_pred ccCCCCeEEeeccCcccccccccCCH-------------HHHHHHHHHHHHHHHcCCCEEEEE
Confidence 112478999999998752 111 223455666777777887666554
No 196
>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=37.67 E-value=2.4e+02 Score=26.97 Aligned_cols=89 Identities=17% Similarity=0.239 Sum_probs=50.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHH-HHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDA-MYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a-~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++. ..+...-|..+.+-|.+..... + ..-.+.++++ .....+|.+ +..|....+|.+|+.+. ++.....
T Consensus 2 Igviv-~~~~~~~~~~~~~gi~~~a~~~-~---~g~~~~~~~~--~~~~~~q~~~i~~l~~~~vdgiii~~~-~~~~~~~ 73 (303)
T cd01539 2 IGVFL-YKFDDTFISLVRKNLEDIQKEN-G---GKVEFTFYDA--KNNQSTQNEQIDTALAKGVDLLAVNLV-DPTAAQT 73 (303)
T ss_pred eEEEe-eCCCChHHHHHHHHHHHHHHhh-C---CCeeEEEecC--CCCHHHHHHHHHHHHHcCCCEEEEecC-chhhHHH
Confidence 44443 2355566777777666543321 0 0112333332 345567755 44555578999998764 3333345
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
.++.+++.|.|.+.+++.
T Consensus 74 ~~~~~~~~giPvV~~~~~ 91 (303)
T cd01539 74 VINKAKQKNIPVIFFNRE 91 (303)
T ss_pred HHHHHHHCCCCEEEeCCC
Confidence 556677888999888764
No 197
>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=37.65 E-value=2.8e+02 Score=25.27 Aligned_cols=87 Identities=17% Similarity=0.180 Sum_probs=48.0
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
++++..+ ++-.-|..+.+-+.+...+. + -.+.++++--. .+.| +.+..+.+..+|.+|+..+..+.+...
T Consensus 2 Ig~i~~~-~~~~~~~~~~~gi~~~~~~~-g-----~~~~~~~~~~~--~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~ 72 (273)
T cd06305 2 IAVVRYG-GSGDFDQAYLAGTKAEAEAL-G-----GDLRVYDAGGD--DAKQADQIDQAIAQKVDAIIIQHGRAEVLKPW 72 (273)
T ss_pred eEEEeec-CCCcHHHHHHHHHHHHHHHc-C-----CEEEEECCCCC--HHHHHHHHHHHHHcCCCEEEEecCChhhhHHH
Confidence 4555443 33345566666665432222 2 23444443222 2333 455555556899999987644434443
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
++-+++.+.|...+.+.
T Consensus 73 -i~~~~~~~ipvV~~~~~ 89 (273)
T cd06305 73 -VKRALDAGIPVVAFDVD 89 (273)
T ss_pred -HHHHHHcCCCEEEecCC
Confidence 44566788899888874
No 198
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=37.51 E-value=62 Score=27.67 Aligned_cols=38 Identities=24% Similarity=0.448 Sum_probs=32.3
Q ss_pred HHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCe
Q 016960 272 DAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPS 310 (380)
Q Consensus 272 ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t 310 (380)
++.+-|. .++=-.|.|-..+..++.+|..+|++.|.|.
T Consensus 46 EaTRvLL-RRvP~~vLVr~~~~pd~~Hl~~LA~ekgVpV 83 (100)
T PF15608_consen 46 EATRVLL-RRVPWKVLVRDPDDPDLAHLLLLAEEKGVPV 83 (100)
T ss_pred HHHHHHH-hcCCCEEEECCCCCccHHHHHHHHHHcCCcE
Confidence 4456688 5888888899999999999999999999764
No 199
>COG1832 Predicted CoA-binding protein [General function prediction only]
Probab=37.35 E-value=77 Score=28.67 Aligned_cols=67 Identities=24% Similarity=0.273 Sum_probs=48.9
Q ss_pred CceEEecccccCH-----HHHHHHHHcCcEEecCCcc-----------ccccccccCC-CEE-EEcCCCCCHHHHHHHHh
Q 016960 56 EKIWITNEIIHNP-----TVNKRLEEMAVQNIPVEEG-----------KKQFDVVNKG-DVV-VLPAFGAAVEEMVTLNN 117 (380)
Q Consensus 56 ~~Iy~lG~LIHN~-----~Vv~~L~~~Gv~~v~~~~~-----------~~~~~el~~g-~~V-IIrAHGv~~~~~~~l~~ 117 (380)
+.|.+.| +=+|| .|.+.|.++|-.++.-.++ ..++.++|.. |+| |||.--..|++.+++-+
T Consensus 17 K~IAvVG-~S~~P~r~sy~V~kyL~~~GY~ViPVNP~~~~~eiLG~k~y~sL~dIpe~IDiVdvFR~~e~~~~i~~eal~ 95 (140)
T COG1832 17 KTIAVVG-ASDKPDRPSYRVAKYLQQKGYRVIPVNPKLAGEEILGEKVYPSLADIPEPIDIVDVFRRSEAAPEVAREALE 95 (140)
T ss_pred ceEEEEe-cCCCCCccHHHHHHHHHHCCCEEEeeCcccchHHhcCchhhhcHHhCCCCCcEEEEecChhhhHHHHHHHHh
Confidence 5677777 35565 6899999999888774332 2377788752 454 89998888898888888
Q ss_pred cCCcEE
Q 016960 118 KNVQIV 123 (380)
Q Consensus 118 ~g~~vi 123 (380)
+|.+++
T Consensus 96 ~~~kv~ 101 (140)
T COG1832 96 KGAKVV 101 (140)
T ss_pred hCCCeE
Confidence 886665
No 200
>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=36.80 E-value=57 Score=26.85 Aligned_cols=43 Identities=14% Similarity=0.142 Sum_probs=31.4
Q ss_pred cCCC-EEEEcCCCCCHHH---HHHHHhcCCcEEeccCchhHHHHHHH
Q 016960 95 NKGD-VVVLPAFGAAVEE---MVTLNNKNVQIVDTTCPWVSKVWTSV 137 (380)
Q Consensus 95 ~~g~-~VIIrAHGv~~~~---~~~l~~~g~~viDaTCP~V~kv~~~v 137 (380)
.++| .++|+..|-+++. .+.|+++|..+|--||.--..+.+.+
T Consensus 52 ~~~d~vi~is~sg~~~~~~~~~~~ak~~g~~vi~iT~~~~~~l~~~a 98 (131)
T PF01380_consen 52 DPDDLVIIISYSGETRELIELLRFAKERGAPVILITSNSESPLARLA 98 (131)
T ss_dssp STTEEEEEEESSSTTHHHHHHHHHHHHTTSEEEEEESSTTSHHHHHS
T ss_pred cccceeEeeeccccchhhhhhhHHHHhcCCeEEEEeCCCCCchhhhC
Confidence 3455 4678889999985 45677788888888887776666544
No 201
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=36.66 E-value=41 Score=33.25 Aligned_cols=53 Identities=13% Similarity=0.155 Sum_probs=40.1
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCe
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPS 310 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t 310 (380)
++.+.||-|.++.-. .++++|. .+-.+.+|+|+..|+.+..+..++.+.+.+.
T Consensus 43 ~l~~~Dd~~~p~~a~-~~a~~Lv-~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~ 95 (359)
T TIGR03407 43 EPVVEDGASDWPTFA-EKARKLI-TQDKVAAVFGCWTSASRKAVLPVFEENNGLL 95 (359)
T ss_pred EEEEeCCCCCHHHHH-HHHHHHH-hhCCCcEEEcCCcHHHHHHHHHHHhccCCce
Confidence 566889999877666 4566676 3344667789999999999999998876543
No 202
>PRK06719 precorrin-2 dehydrogenase; Validated
Probab=36.65 E-value=1.9e+02 Score=25.94 Aligned_cols=78 Identities=12% Similarity=0.143 Sum_probs=47.9
Q ss_pred cCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCC----CCCCEEEEEeCCCC
Q 016960 281 KVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLP----KGQITIGITSGAST 356 (380)
Q Consensus 281 ~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~----~~~~~VGITAGAST 356 (380)
..|+++..-+...-| ..+++.|++. .....+.+++. .. -+|| .+.-.||||+|...
T Consensus 70 ~a~lViaaT~d~e~N-~~i~~~a~~~-~~vn~~d~~~~-~~-----------------f~~pa~v~~~~l~iaisT~G~s 129 (157)
T PRK06719 70 DAHLIYAATNQHAVN-MMVKQAAHDF-QWVNVVSDGTE-SS-----------------FHTPGVIRNDEYVVTISTSGKD 129 (157)
T ss_pred CceEEEECCCCHHHH-HHHHHHHHHC-CcEEECCCCCc-Cc-----------------EEeeeEEEECCeEEEEECCCcC
Confidence 467666655544444 5667777664 34454444432 22 3444 35679999988876
Q ss_pred CHHHHHHHHHHHHhhhhhhhhhc
Q 016960 357 PDKAVEDVLKKVFEIKREEALQL 379 (380)
Q Consensus 357 P~~lI~eV~~~l~~~~~~~~~~~ 379 (380)
| .+-..+-++|++..|+..-+|
T Consensus 130 P-~la~~lr~~ie~~l~~~~~~~ 151 (157)
T PRK06719 130 P-SFTKRLKQELTSILPKLIKKI 151 (157)
T ss_pred h-HHHHHHHHHHHHHhhHHHHHH
Confidence 6 466777777777777655444
No 203
>cd03145 GAT1_cyanophycinase Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. This group contains proteins similar to the extracellular cyanophycinases from Pseudomonas anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803 CphB. Cyanophycinases are intracellular exopeptidases which hydrolyze the polymer cyanophycin (multi L-arginyl-poly-L-aspartic acid) to the dipeptide beta-Asp-Arg. Cyanophycinase is believed to be a serine-type exopeptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow.
Probab=36.55 E-value=77 Score=29.79 Aligned_cols=99 Identities=12% Similarity=0.198 Sum_probs=52.0
Q ss_pred ceeEEEEcCCCCh-HHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchh
Q 016960 218 VKVGIANQTTMLK-GETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 218 ~kv~vvsQTT~~~-~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT 296 (380)
.+++++.=..-.. +.+++..+.+.+ ++. .++.....-+.+..+-.+.+..|. ++|+++|-|| ||
T Consensus 30 ~~i~~iptA~~~~~~~~~~~~~~~~~-----lG~----~~v~~~~~~~~~~a~~~~~~~~l~--~ad~I~~~GG----~~ 94 (217)
T cd03145 30 ARIVVIPAASEEPAEVGEEYRDVFER-----LGA----REVEVLVIDSREAANDPEVVARLR--DADGIFFTGG----DQ 94 (217)
T ss_pred CcEEEEeCCCcChhHHHHHHHHHHHH-----cCC----ceeEEeccCChHHcCCHHHHHHHH--hCCEEEEeCC----cH
Confidence 4788876544332 233334444432 222 123333333333333444455554 7999999998 67
Q ss_pred HHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCCCCCEEEEEeCCCC
Q 016960 297 SHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGAST 356 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGAST 356 (380)
.+|.+.-++.+. .+ .|+ +++..+...+|.+|||..
T Consensus 95 ~~~~~~l~~t~l--------~~-----~l~------------~~~~~G~v~~G~SAGA~i 129 (217)
T cd03145 95 LRITSALGGTPL--------LD-----ALR------------KVYRGGVVIGGTSAGAAV 129 (217)
T ss_pred HHHHHHHcCChH--------HH-----HHH------------HHHHcCCEEEEccHHHHh
Confidence 777766543321 00 011 222257788899999875
No 204
>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=36.43 E-value=2.4e+02 Score=26.25 Aligned_cols=87 Identities=15% Similarity=0.061 Sum_probs=50.6
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
+|+++++ ++-.-|..+.+.+.+...+. + -++.+.+ +....++| +.+..+.+..+|.+|+.+.. +.-...
T Consensus 2 ~~~~~~~-~~~~f~~~~~~gi~~~~~~~-G-----~~~~~~~--~~~d~~~~~~~i~~~~~~~vdgiii~~~~-~~~~~~ 71 (272)
T cd06313 2 AAFSNIG-LQATWCAQGKQAADEAGKLL-G-----VDVTWYG--GALDAVKQVAAIENMASQGWDFIAVDPLG-IGTLTE 71 (272)
T ss_pred cceeecc-cCChHHHHHHHHHHHHHHHc-C-----CEEEEec--CCCCHHHHHHHHHHHHHcCCCEEEEcCCC-hHHhHH
Confidence 5666655 55567777777776543221 2 2233332 22244566 34455555789999997532 222344
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
+++-+.+.+.|...+.+.
T Consensus 72 ~i~~~~~~~iPvV~~~~~ 89 (272)
T cd06313 72 AVQKAIARGIPVIDMGTL 89 (272)
T ss_pred HHHHHHHCCCcEEEeCCC
Confidence 555666778999999874
No 205
>cd00419 Ferrochelatase_C Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=36.43 E-value=49 Score=29.05 Aligned_cols=37 Identities=16% Similarity=0.269 Sum_probs=27.9
Q ss_pred CCCEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhC
Q 016960 96 KGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKG 143 (380)
Q Consensus 96 ~g~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~ 143 (380)
+.+.+||+|||+|....+ +| -|+...+...++...++
T Consensus 17 ~~~~llfsaHgiP~~~~~----~g-------d~Y~~~~~~~~~~v~~~ 53 (135)
T cd00419 17 EKDRLLFSAHGLPVRDIK----KG-------DPYPDQCEETARLVAER 53 (135)
T ss_pred CCCEEEEEcCCCHHHHhh----CC-------CCHHHHHHHHHHHHHHH
Confidence 456799999999987665 22 47888888888777654
No 206
>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=36.29 E-value=49 Score=33.28 Aligned_cols=52 Identities=12% Similarity=0.186 Sum_probs=37.7
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeE
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSY 311 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~ 311 (380)
++.+.|+-|..+. ++..+...+=.+..|||+.+|+-+.-+..+|+..+.|.+
T Consensus 43 ~~~~~d~~~~~~~----a~~~~~~~~~~V~aviGp~~S~~~~a~a~va~~~~iP~I 94 (382)
T cd06371 43 DYVLLPEPCETSR----ALAAFLGYEGYASAFVGPVNPGYCEAAALLAKEWDKALF 94 (382)
T ss_pred EEEEecCCCChhH----HHHHHHcccCCceEEECCCCchHHHHHHHHHHhcCceEE
Confidence 4667899998642 233332112257788999999999999999999988765
No 207
>PRK12435 ferrochelatase; Provisional
Probab=36.25 E-value=1.2e+02 Score=30.43 Aligned_cols=86 Identities=8% Similarity=0.066 Sum_probs=51.8
Q ss_pred HHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHhcCCc
Q 016960 42 AVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQ 121 (380)
Q Consensus 42 AI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~~ 121 (380)
..+.+.++....+..++-++..-=-+|.-++.|.++=-..+.... .+..+...+||+|||+|....+ +|
T Consensus 124 ~~~~~~~~~~~~~~~~~~~i~~~~~~p~yi~a~a~~I~~~l~~~~-----~~~~~~~~llfSaHslP~~~i~----~G-- 192 (311)
T PRK12435 124 YNKRAKEEAEKLGGPTITSIESWYDEPKFIQYWADQIKETFAQIP-----EEEREKAVLIVSAHSLPEKIIA----AG-- 192 (311)
T ss_pred HHHHHHHHhcccCCCeEEEeCCccCChHHHHHHHHHHHHHHHHcC-----cccccceEEEEecCCCchhHhh----CC--
Confidence 445555544433223566666666788888887665211111100 0001234799999999998765 23
Q ss_pred EEeccCchhHHHHHHHHHHhhC
Q 016960 122 IVDTTCPWVSKVWTSVEKHKKG 143 (380)
Q Consensus 122 viDaTCP~V~kv~~~v~~~~~~ 143 (380)
.||-..++..++..++.
T Consensus 193 -----DpY~~q~~~t~~~v~~~ 209 (311)
T PRK12435 193 -----DPYPDQLEETADLIAEQ 209 (311)
T ss_pred -----CCHHHHHHHHHHHHHHH
Confidence 59999988888887654
No 208
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=36.15 E-value=64 Score=32.08 Aligned_cols=71 Identities=11% Similarity=0.152 Sum_probs=50.1
Q ss_pred EEEEEccCCCchhHHHH--HHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCCCCCEEEEEeCCCCCHHHH
Q 016960 284 LILVVGGWNSSNTSHLQ--EIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAV 361 (380)
Q Consensus 284 ~miVVGG~nSSNT~kL~--eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGASTP~~lI 361 (380)
-++||.+--|.||.+.+ .+|+.++.|-+.+.+-++|-.. + + - +....||||-=-+-=..-.
T Consensus 150 kLVIIA~DVsP~t~kk~LP~LC~k~~VPY~iv~sK~eLG~A--I-G-------------k-ktraVVAItdV~~EDk~~l 212 (266)
T PTZ00365 150 KLVVIAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGKL--V-H-------------Q-KTAAVVAIDNVRKEDQAEF 212 (266)
T ss_pred cEEEEeCCCCHHHHHHHHHHHHhccCCCEEEECCHHHHHHH--h-C-------------C-CCceEEEecccCHHHHHHH
Confidence 46677788889999875 9999999999999999998540 0 0 0 2367889987555444555
Q ss_pred HHHHHHHHhh
Q 016960 362 EDVLKKVFEI 371 (380)
Q Consensus 362 ~eV~~~l~~~ 371 (380)
..+++.+...
T Consensus 213 ~~lv~~~~~~ 222 (266)
T PTZ00365 213 DNLCKNFRAM 222 (266)
T ss_pred HHHHHHHHHh
Confidence 5555555543
No 209
>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=35.95 E-value=73 Score=30.27 Aligned_cols=58 Identities=17% Similarity=0.278 Sum_probs=42.0
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCC
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDS 315 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~ 315 (380)
++.+.|+-|+..... +++++|.. +=.+..|||+..|+-+..+.+++++.+.|.+...+
T Consensus 42 ~~~~~D~~~~~~~~~-~~~~~li~-~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~i~~~~ 99 (334)
T cd06347 42 ELVVEDNKSDKEEAA-NAATRLID-QDKVVAIIGPVTSGATLAAGPIAEDAKVPMITPSA 99 (334)
T ss_pred EEEEecCCCChHHHH-HHHHHHhc-ccCeEEEEcCCccHhHHHhHHHHHHCCCeEEcCCC
Confidence 466789988876665 45566663 22444458888888888999999999988776544
No 210
>PRK02287 hypothetical protein; Provisional
Probab=35.83 E-value=82 Score=29.38 Aligned_cols=57 Identities=14% Similarity=0.396 Sum_probs=40.4
Q ss_pred HHHHHHcCcEEecCCccccccccccCCCEEEEcCCC---CCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHH
Q 016960 71 NKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFG---AAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKH 140 (380)
Q Consensus 71 v~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHG---v~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~ 140 (380)
..+|.+.|....-.. ...+|.| .||+..+| ++|+..+..++.|+-|||++ |+.+.+.
T Consensus 19 g~KL~r~g~~~~~~~-----~~~~~~g-~IvL~P~a~~~lSp~D~~~~~~~Gi~vlDcS-------W~~~~~~ 78 (171)
T PRK02287 19 ARKLVRFGLARLVRS-----IRKIPRG-SIVLNPFAEKALSPADRDIVEKRGIVALDCS-------WNEAERV 78 (171)
T ss_pred HHHHHhCCceeEecc-----cccCCCC-eEEECCCCCcCcCHHHHHhhhhCCEEEEECC-------HHHHhhh
Confidence 357888887755421 2234444 37777776 68999999999999999998 6666554
No 211
>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=35.68 E-value=58 Score=31.41 Aligned_cols=56 Identities=16% Similarity=0.225 Sum_probs=41.2
Q ss_pred cccccccccHHHHHhHHHHHHhhhhc-------------CCEEEEEccCCCchhHHHHHHHHHhCCCeEee
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEK-------------VDLILVVGGWNSSNTSHLQEIAEDRGIPSYWI 313 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~-------------vD~miVVGG~nSSNT~kL~eia~~~~~~t~~I 313 (380)
++.+.||-|....-. .++.+|. .+ -.+..|||+..|+.+..+.+++.+.+.|..-.
T Consensus 53 ~l~~~D~~~~~~~a~-~~a~~li-~~~~~~~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~ 121 (348)
T cd06350 53 GYHIYDSCCSPAVAL-RAALDLL-LSGEGTTPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISY 121 (348)
T ss_pred eEEEEecCCcchHHH-HHHHHHH-hcCCCCCCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecc
Confidence 456778877655433 4445555 34 57888999999999999999999988876543
No 212
>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=35.67 E-value=55 Score=31.70 Aligned_cols=57 Identities=9% Similarity=-0.000 Sum_probs=42.0
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeC
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWID 314 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie 314 (380)
++.+.|+=+..+.-. +++++|. .+-.+..|+|+..|+.+..+.+++++.+.|.+...
T Consensus 40 ~l~~~D~~~~p~~a~-~~~~~lv-~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~ 96 (333)
T cd06359 40 EVVVEDDGLKPDVAK-QAAERLI-KRDKVDFVTGVVFSNVLLAVVPPVLESGTFYISTN 96 (333)
T ss_pred EEEecCCCCChHHHH-HHHHHHH-hhcCCcEEEccCCcHHHHHHHHHHHHcCCeEEecC
Confidence 456778888775555 4556776 34455677798899999999999999988876553
No 213
>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=35.38 E-value=74 Score=24.64 Aligned_cols=42 Identities=10% Similarity=0.159 Sum_probs=29.8
Q ss_pred HHHHHHHhcCCcE-EeccCchhHHHHHHHHHHhhCCCe-EEEEecCC
Q 016960 110 EEMVTLNNKNVQI-VDTTCPWVSKVWTSVEKHKKGDYT-SIIHGKYS 154 (380)
Q Consensus 110 ~~~~~l~~~g~~v-iDaTCP~V~kv~~~v~~~~~~Gy~-iIIiG~~~ 154 (380)
++...|++.|+.+ +|-.. .++.+..+...+.||. ++++|+..
T Consensus 22 ~~~~~Lr~~g~~v~~~~~~---~~~~k~~~~a~~~g~~~~iiig~~e 65 (94)
T cd00738 22 KLLNALLANGIRVLYDDRE---RKIGKKFREADLRGVPFAVVVGEDE 65 (94)
T ss_pred HHHHHHHHCCCEEEecCCC---cCHhHHHHHHHhCCCCEEEEECCCh
Confidence 3567788888877 55543 5777777777788966 77888643
No 214
>COG4821 Uncharacterized protein containing SIS (Sugar ISomerase) phosphosugar binding domain [General function prediction only]
Probab=35.05 E-value=1.2e+02 Score=29.53 Aligned_cols=36 Identities=19% Similarity=0.311 Sum_probs=28.2
Q ss_pred ccccCCCE-EEEcCCC---CCHHHHHHHHhcCCcEEeccC
Q 016960 92 DVVNKGDV-VVLPAFG---AAVEEMVTLNNKNVQIVDTTC 127 (380)
Q Consensus 92 ~el~~g~~-VIIrAHG---v~~~~~~~l~~~g~~viDaTC 127 (380)
.++.+||+ +||+.-| +|-++-+.++++|..||=-|-
T Consensus 100 ~~i~~~DVliviSnSGrNpvpie~A~~~rekGa~vI~vTS 139 (243)
T COG4821 100 LQIRPNDVLIVISNSGRNPVPIEVAEYAREKGAKVIAVTS 139 (243)
T ss_pred hcCCCCCEEEEEeCCCCCCcchHHHHHHHhcCCeEEEEeh
Confidence 35667887 4777777 566899999999999997774
No 215
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=35.02 E-value=36 Score=24.96 Aligned_cols=26 Identities=12% Similarity=0.118 Sum_probs=20.6
Q ss_pred HHHHHHHcCcEEecCCccccccccccCCCEEEEcCC
Q 016960 70 VNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAF 105 (380)
Q Consensus 70 Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAH 105 (380)
.++.|+++||.++.. ++|..+|-|+|
T Consensus 20 Q~~~L~~~Gi~~~~~----------~~G~p~V~r~~ 45 (47)
T PF13986_consen 20 QIRWLRRNGIPFVVR----------ADGRPIVTRSH 45 (47)
T ss_pred HHHHHHHCCCeeEEC----------CCCCEEeeHHH
Confidence 568999999999975 35777887776
No 216
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=35.00 E-value=2.6e+02 Score=27.34 Aligned_cols=91 Identities=12% Similarity=0.179 Sum_probs=51.9
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHH-HHHHhhhhcCCEEEEEccCCCchh
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQD-AMYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~-a~~eLa~~~vD~miVVGG~nSSNT 296 (380)
..|+++... ++-.-|..+.+-+.+...+. + ...+.+.++ ....++|. .+..|....+|.+|+.+......
T Consensus 25 ~~Igvv~~~-~~~~f~~~~~~gi~~~a~~~-g----~~~~~~~~~--~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~- 95 (330)
T PRK15395 25 TRIGVTIYK-YDDNFMSVVRKAIEKDAKAA-P----DVQLLMNDS--QNDQSKQNDQIDVLLAKGVKALAINLVDPAAA- 95 (330)
T ss_pred ceEEEEEec-CcchHHHHHHHHHHHHHHhc-C----CeEEEEecC--CCCHHHHHHHHHHHHHcCCCEEEEeccCHHHH-
Confidence 578888754 34556777776666532221 1 112222221 12344553 45556546899999987543223
Q ss_pred HHHHHHHHHhCCCeEeeCCCC
Q 016960 297 SHLQEIAEDRGIPSYWIDSEK 317 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~~~ 317 (380)
...++.+++.+.|...+++..
T Consensus 96 ~~~l~~l~~~giPvV~vd~~~ 116 (330)
T PRK15395 96 PTVIEKARGQDVPVVFFNKEP 116 (330)
T ss_pred HHHHHHHHHCCCcEEEEcCCc
Confidence 334455667889999998853
No 217
>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=34.97 E-value=3.2e+02 Score=25.05 Aligned_cols=93 Identities=16% Similarity=0.170 Sum_probs=48.8
Q ss_pred eeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhH
Q 016960 219 KVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTS 297 (380)
Q Consensus 219 kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~ 297 (380)
||+++.. .++-.-|..+.+.+.+...+. +.....-++.++++- ....+| +.+..+...++|.+|+.+... ....
T Consensus 1 ~Ig~i~~-~~~~~~~~~~~~~i~~~~~~~-~~~g~~~~l~i~~~~--~~~~~~~~~~~~~~~~~vdgiIi~~~~~-~~~~ 75 (272)
T cd06300 1 KIGLSNS-YAGNTWRAQMLDEFKAQAKEL-KKAGLISEFIVTSAD--GDVAQQIADIRNLIAQGVDAIIINPASP-TALN 75 (272)
T ss_pred CeEEecc-ccCChHHHHHHHHHHHHHHhh-hccCCeeEEEEecCC--CCHHHHHHHHHHHHHcCCCEEEEeCCCh-hhhH
Confidence 3556553 334456666776665532222 000000022333222 233444 444455546899999987432 2234
Q ss_pred HHHHHHHHhCCCeEeeCCC
Q 016960 298 HLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 298 kL~eia~~~~~~t~~Ie~~ 316 (380)
..++.+++.+.|...+.+.
T Consensus 76 ~~l~~~~~~~iPvv~~~~~ 94 (272)
T cd06300 76 PVIEEACEAGIPVVSFDGT 94 (272)
T ss_pred HHHHHHHHCCCeEEEEecC
Confidence 4666777888999888764
No 218
>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=34.49 E-value=2.8e+02 Score=25.06 Aligned_cols=85 Identities=18% Similarity=0.252 Sum_probs=48.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++.- .++...|..+.+-+++...+. + -++.+.++ .....+| +.+++|....+|.+|+.+... +..
T Consensus 2 igvv~~-~~~~~~~~~~~~gi~~~~~~~-g-----~~~~~~~~--~~~~~~~~~~i~~l~~~~~dgii~~~~~~---~~~ 69 (259)
T cd01542 2 IGVIVP-RLDSFSTSRTVKGILAALYEN-G-----YQMLLMNT--NFSIEKEIEALELLARQKVDGIILLATTI---TDE 69 (259)
T ss_pred eEEEec-CCccchHHHHHHHHHHHHHHC-C-----CEEEEEeC--CCCHHHHHHHHHHHHhcCCCEEEEeCCCC---CHH
Confidence 344443 244455666766666533222 2 22333322 1123444 455667657899999997532 345
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
+.+.+++.+.|.+.++..
T Consensus 70 ~~~~~~~~~ipvv~~~~~ 87 (259)
T cd01542 70 HREAIKKLNVPVVVVGQD 87 (259)
T ss_pred HHHHHhcCCCCEEEEecc
Confidence 556666778899989764
No 219
>PF03698 UPF0180: Uncharacterised protein family (UPF0180); InterPro: IPR005370 The members of this family are small uncharacterised proteins.
Probab=34.26 E-value=1.3e+02 Score=24.67 Aligned_cols=19 Identities=26% Similarity=0.302 Sum_probs=13.2
Q ss_pred EEEEcCCCCCHH-HHHHHHh
Q 016960 99 VVVLPAFGAAVE-EMVTLNN 117 (380)
Q Consensus 99 ~VIIrAHGv~~~-~~~~l~~ 117 (380)
..||.|+|-+++ +.+.+++
T Consensus 58 ~pVInA~G~T~eEI~~~v~~ 77 (80)
T PF03698_consen 58 VPVINASGLTAEEIVQEVEE 77 (80)
T ss_pred ceEEecCCCCHHHHHHHHHH
Confidence 468899998887 4455544
No 220
>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]
Probab=34.06 E-value=84 Score=29.85 Aligned_cols=73 Identities=15% Similarity=0.214 Sum_probs=45.7
Q ss_pred CCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCCCCCEEEEEeCCCCCHHHH
Q 016960 282 VDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKAV 361 (380)
Q Consensus 282 vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGASTP~~lI 361 (380)
++++++--+ ++.=-.++++.|++++.+..-+++++. +. ...-+++..+.-.|+|++|+-.|- +-
T Consensus 73 ~~lviaAt~-d~~ln~~i~~~a~~~~i~vNv~D~p~~-~~-------------f~~Pa~~~r~~l~iaIsT~G~sP~-la 136 (210)
T COG1648 73 AFLVIAATD-DEELNERIAKAARERRILVNVVDDPEL-CD-------------FIFPAIVDRGPLQIAISTGGKSPV-LA 136 (210)
T ss_pred ceEEEEeCC-CHHHHHHHHHHHHHhCCceeccCCccc-Cc-------------eecceeeccCCeEEEEECCCCChH-HH
Confidence 454444433 333346899999999999988888874 21 000144445789999999998774 33
Q ss_pred HHHHHHHHh
Q 016960 362 EDVLKKVFE 370 (380)
Q Consensus 362 ~eV~~~l~~ 370 (380)
..+..++.+
T Consensus 137 ~~ir~~Ie~ 145 (210)
T COG1648 137 RLLREKIEA 145 (210)
T ss_pred HHHHHHHHH
Confidence 334444443
No 221
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=33.94 E-value=41 Score=28.96 Aligned_cols=67 Identities=13% Similarity=0.095 Sum_probs=39.9
Q ss_pred CCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCCCCCEEEEEeCCC-CCHHHHHHHHHHHH
Q 016960 292 NSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGAS-TPDKAVEDVLKKVF 369 (380)
Q Consensus 292 nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGAS-TP~~lI~eV~~~l~ 369 (380)
..+|+.-|.+..++.|........+.|=+. .|+ ...+.|+ +.+..|=+|.|.| +|+..+.+++..+-
T Consensus 17 ~d~n~~~l~~~l~~~G~~v~~~~~v~Dd~~--~i~--------~~i~~~~-~~~DlvittGG~g~g~~D~t~~ai~~~g 84 (133)
T cd00758 17 EDTNGPALEALLEDLGCEVIYAGVVPDDAD--SIR--------AALIEAS-READLVLTTGGTGVGRRDVTPEALAELG 84 (133)
T ss_pred EEchHHHHHHHHHHCCCEEEEeeecCCCHH--HHH--------HHHHHHH-hcCCEEEECCCCCCCCCcchHHHHHHhc
Confidence 468999999999999865544432222100 011 1112566 4577666666655 47888888877764
No 222
>TIGR01417 PTS_I_fam phosphoenolpyruvate-protein phosphotransferase. This model recognizes a distinct clade of phophoenolpyruvate (PEP)-dependent enzymes. Most members are known or deduced to function as the phosphoenolpyruvate-protein phosphotransferase (or enzyme I) of PTS sugar transport systems. However, some species with both a member of this family and a homolog of the phosphocarrier protein HPr lack a IIC component able to serve as a permease. An HPr homolog designated NPr has been implicated in the regulation of nitrogen assimilation, which demonstrates that not all phosphotransferase system components are associated directly with PTS transport.
Probab=33.94 E-value=72 Score=34.75 Aligned_cols=50 Identities=12% Similarity=0.106 Sum_probs=44.3
Q ss_pred CCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEec
Q 016960 33 YGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIP 83 (380)
Q Consensus 33 ~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~ 83 (380)
..+-..|.++|+.+.++.++. ++++-+.|++.-+|..+..|..+|+.++.
T Consensus 474 ~~~hPaV~~~i~~vi~~a~~~-g~~v~vCGe~a~~p~~~~~l~~~G~~~ls 523 (565)
T TIGR01417 474 QPYNPAVLRLIKLVIDAAKAE-GIWVGMCGEMAGDERAIPLLLGLGLRELS 523 (565)
T ss_pred CCCCHHHHHHHHHHHHHHHHc-CCeEEEeCCcCCCHHHHHHHHHCCCCEEE
Confidence 456789999999998887765 57999999999999999999999999885
No 223
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=33.90 E-value=3e+02 Score=23.45 Aligned_cols=85 Identities=13% Similarity=0.121 Sum_probs=49.3
Q ss_pred ceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHhcCCcEE----eccCchhHH
Q 016960 57 KIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIV----DTTCPWVSK 132 (380)
Q Consensus 57 ~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~~vi----DaTCP~V~k 132 (380)
.+++-|.| +|.-++.|.+.|++.|=.. + |+|.. ...+-..++.+.+++.|+..+ +..=+--..
T Consensus 8 ~~~vs~Q~--~~~d~~~la~~GfktVInl--R------pd~E~---~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~~~~~~ 74 (110)
T PF04273_consen 8 DLSVSGQP--SPEDLAQLAAQGFKTVINL--R------PDGEE---PGQPSSAEEAAAAEALGLQYVHIPVDGGAITEED 74 (110)
T ss_dssp TEEEECS----HHHHHHHHHCT--EEEE---S-------TTST---TT-T-HHCHHHHHHHCT-EEEE----TTT--HHH
T ss_pred CeEECCCC--CHHHHHHHHHCCCcEEEEC--C------CCCCC---CCCCCHHHHHHHHHHcCCeEEEeecCCCCCCHHH
Confidence 57777766 8888999999999987421 0 12210 112233457788999999884 444455566
Q ss_pred HHHHHHHHhhCCCeEEEEecCC
Q 016960 133 VWTSVEKHKKGDYTSIIHGKYS 154 (380)
Q Consensus 133 v~~~v~~~~~~Gy~iIIiG~~~ 154 (380)
+....+-+....+.|+++...+
T Consensus 75 v~~f~~~l~~~~~Pvl~hC~sG 96 (110)
T PF04273_consen 75 VEAFADALESLPKPVLAHCRSG 96 (110)
T ss_dssp HHHHHHHHHTTTTSEEEE-SCS
T ss_pred HHHHHHHHHhCCCCEEEECCCC
Confidence 7777777777778999887654
No 224
>cd07948 DRE_TIM_HCS Saccharomyces cerevisiae homocitrate synthase and related proteins, catalytic TIM barrel domain. Homocitrate synthase (HCS) catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate, the first step in the lysine biosynthesis pathway. This family includes the Yarrowia lipolytica LYS1 protein as well as the Saccharomyces cerevisiae LYS20 and LYS21 proteins. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 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. Th
Probab=33.85 E-value=4.6e+02 Score=25.56 Aligned_cols=123 Identities=13% Similarity=0.112 Sum_probs=70.4
Q ss_pred hhHHHHHHHcCCcc-eecceEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCC
Q 016960 7 SDIIKKLKENGFEY-TWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVE 85 (380)
Q Consensus 7 ~~~~~~~~~~~~~~-~~g~mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~ 85 (380)
-.|++.|.+.|++. +.|. -....+...+++...+. .....+ ++.+..|..=+++..+.|+..+.-
T Consensus 25 ~~i~~~L~~~Gv~~IEvG~--------P~~~~~~~~~~~~l~~~---~~~~~v--~~~~r~~~~di~~a~~~g~~~i~i- 90 (262)
T cd07948 25 IEIAKALDAFGVDYIELTS--------PAASPQSRADCEAIAKL---GLKAKI--LTHIRCHMDDARIAVETGVDGVDL- 90 (262)
T ss_pred HHHHHHHHHcCCCEEEEEC--------CCCCHHHHHHHHHHHhC---CCCCcE--EEEecCCHHHHHHHHHcCcCEEEE-
Confidence 46788888888654 3331 23345555555555321 111234 555789999899988888876631
Q ss_pred ccccccccccCCCEEEEcCCCCCHHH--------HHHHHhcCCcE----Eecc-CchhHHHHHHHHHHhhCCCeEEEEe
Q 016960 86 EGKKQFDVVNKGDVVVLPAFGAAVEE--------MVTLNNKNVQI----VDTT-CPWVSKVWTSVEKHKKGDYTSIIHG 151 (380)
Q Consensus 86 ~~~~~~~el~~g~~VIIrAHGv~~~~--------~~~l~~~g~~v----iDaT-CP~V~kv~~~v~~~~~~Gy~iIIiG 151 (380)
-++-.+.-+-..+|-+++. .+.++++|+.| -|++ || ...+.+.++++.+-|-..|.+.
T Consensus 91 -------~~~~S~~~~~~~~~~~~~e~~~~~~~~i~~a~~~G~~v~~~~eda~r~~-~~~l~~~~~~~~~~g~~~i~l~ 161 (262)
T cd07948 91 -------VFGTSPFLREASHGKSITEIIESAVEVIEFVKSKGIEVRFSSEDSFRSD-LVDLLRVYRAVDKLGVNRVGIA 161 (262)
T ss_pred -------EEecCHHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCeEEEEEEeeCCCC-HHHHHHHHHHHHHcCCCEEEEC
Confidence 0011111112335655543 25667888877 5666 88 5667777887776664444433
No 225
>cd01412 SIRT5_Af1_CobB SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. CobB is a bacterial sirtuin that deacetylates acetyl-CoA synthetase at an active site lysine to stimulate its enzymatic activity.
Probab=33.78 E-value=1.1e+02 Score=28.65 Aligned_cols=58 Identities=24% Similarity=0.227 Sum_probs=34.6
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccC-CCchhHHHHHHHHHhCCCeEeeCCC
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGW-NSSNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~-nSSNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
+++..|+.-=.. +.+.+.+.. .+.|++||||-. .-.-+.+|.+.++..+.+.+.|.-.
T Consensus 142 p~Vv~fge~~p~---~~~~~~~~~-~~~dl~lvlGTsl~v~p~~~l~~~~~~~~~~~i~iN~~ 200 (224)
T cd01412 142 PGVVWFGESLPL---ALLEAVEAL-AKADLFLVIGTSGVVYPAAGLPEEAKERGARVIEINPE 200 (224)
T ss_pred CceEECCCCCHH---HHHHHHHHH-HcCCEEEEECcCccchhHHHHHHHHHHCCCeEEEECCC
Confidence 345555543222 333333344 379999999921 1134558888887787777777654
No 226
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=33.75 E-value=1.5e+02 Score=26.85 Aligned_cols=49 Identities=6% Similarity=-0.116 Sum_probs=36.0
Q ss_pred CCHHHHHHHHhcCCc-EEeccCchhHHHHHHHHHHhhCCCeEEEEecCCC
Q 016960 107 AAVEEMVTLNNKNVQ-IVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSH 155 (380)
Q Consensus 107 v~~~~~~~l~~~g~~-viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~H 155 (380)
-.+.+...+++.|+. +.++..|....+.+..+++.-+.-.++.|||..+
T Consensus 74 ~~~~v~~~l~~lgl~~~f~g~~~k~~~l~~~~~~~gl~~~ev~~VGDs~~ 123 (183)
T PRK09484 74 KSKLVEDRMTTLGITHLYQGQSNKLIAFSDLLEKLAIAPEQVAYIGDDLI 123 (183)
T ss_pred CcHHHHHHHHHcCCceeecCCCcHHHHHHHHHHHhCCCHHHEEEECCCHH
Confidence 445667778888875 5666677777788887777666668999998753
No 227
>PF12850 Metallophos_2: Calcineurin-like phosphoesterase superfamily domain; InterPro: IPR024654 Domains in this entry are members of the calcineurin-like phosphoesterase domain superfamily [].; PDB: 2GJU_A 1Z2W_A 1Z2X_B 3PSO_B 3PSN_B 1W24_A 2R17_B 3QFN_B 3QFO_A 3QFM_A ....
Probab=33.65 E-value=2e+02 Score=24.09 Aligned_cols=98 Identities=12% Similarity=0.139 Sum_probs=56.6
Q ss_pred HHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCcccccccc------c------cCCCEEEEcCCCCCHH
Q 016960 43 VQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDV------V------NKGDVVVLPAFGAAVE 110 (380)
Q Consensus 43 I~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~e------l------~~g~~VIIrAHGv~~~ 110 (380)
++.+.+.+++ ..-|+.+|+|+....+.+.|++..+.+|...-....+.+ + .-+..-++=.||-+..
T Consensus 16 ~~~~~~~~~~--~d~vi~~GDi~~~~~~~~~~~~~~~~~v~GNHD~~~~~~~~~~~~~~~~~~~~~~~~~i~~~H~~~~~ 93 (156)
T PF12850_consen 16 LEAVLEYINE--PDFVIILGDIFDPEEVLELLRDIPVYVVRGNHDNWAFPNENDEEYLLDALRLTIDGFKILLSHGHPYD 93 (156)
T ss_dssp HHHHHHHHTT--ESEEEEES-SCSHHHHHHHHHHHEEEEE--CCHSTHHHSEECTCSSHSEEEEEETTEEEEEESSTSSS
T ss_pred HHHHHHHhcC--CCEEEECCCchhHHHHHHHHhcCCEEEEeCCcccccchhhhhccccccceeeeecCCeEEEECCCCcc
Confidence 4444444432 357999999999999999998887777765321100000 0 0022334445553322
Q ss_pred HHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeee
Q 016960 111 EMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVA 160 (380)
Q Consensus 111 ~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~g 160 (380)
+ ..........+...++..++.|+...|.+.-
T Consensus 94 -----------------~-~~~~~~~~~~~~~~~~~~~~~GH~H~~~~~~ 125 (156)
T PF12850_consen 94 -----------------V-QWDPAELREILSRENVDLVLHGHTHRPQVFK 125 (156)
T ss_dssp -----------------S-TTTHHHHHHHHHHTTSSEEEESSSSSEEEEE
T ss_pred -----------------c-ccChhhhhhhhcccCCCEEEcCCcccceEEE
Confidence 1 1222233356678899999999999988864
No 228
>PF10096 DUF2334: Uncharacterized protein conserved in bacteria (DUF2334); InterPro: IPR018763 This group of proteins has no known function.
Probab=33.64 E-value=77 Score=30.50 Aligned_cols=62 Identities=11% Similarity=0.104 Sum_probs=45.2
Q ss_pred EEEcCCCCCH--------HHHHHHHhcCCcEEeccCch--------------hHHHHHHHHHHhhCCCeEEEEecCCCce
Q 016960 100 VVLPAFGAAV--------EEMVTLNNKNVQIVDTTCPW--------------VSKVWTSVEKHKKGDYTSIIHGKYSHEE 157 (380)
Q Consensus 100 VIIrAHGv~~--------~~~~~l~~~g~~viDaTCP~--------------V~kv~~~v~~~~~~Gy~iIIiG~~~HpE 157 (380)
.+||-|.|+| ++.+.|.+.|+...=+.=|. -.+.++..+.+..+|+.|+++| ..|.-
T Consensus 2 ~lirleDVsP~~~~~~l~~i~d~l~~~~ipf~v~vIP~~~d~~~~~~~~l~~~~~f~~~L~~~~~~Gg~I~lHG-YtHq~ 80 (243)
T PF10096_consen 2 ALIRLEDVSPFSDLEKLKEIADYLYKYGIPFSVAVIPVYVDPNGGITVNLSDNPEFVEYLRYLQARGGEIVLHG-YTHQY 80 (243)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEecccCCCCcccccchhhHHHHHHHHHHHhcCCEEEEEe-cceec
Confidence 3678888888 67777888888764344343 4577788888889999999999 66776
Q ss_pred eeeec
Q 016960 158 TVATA 162 (380)
Q Consensus 158 v~gi~ 162 (380)
.-+..
T Consensus 81 ~~~~s 85 (243)
T PF10096_consen 81 GNSVS 85 (243)
T ss_pred CCCcc
Confidence 44443
No 229
>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=33.40 E-value=72 Score=26.93 Aligned_cols=55 Identities=15% Similarity=0.099 Sum_probs=36.9
Q ss_pred CCCEEEEcCC--C----CCHHHHHHHHhcCCcE-EeccCchhHHHHHHHHHHhhCCCe-EEEEecCC
Q 016960 96 KGDVVVLPAF--G----AAVEEMVTLNNKNVQI-VDTTCPWVSKVWTSVEKHKKGDYT-SIIHGKYS 154 (380)
Q Consensus 96 ~g~~VIIrAH--G----v~~~~~~~l~~~g~~v-iDaTCP~V~kv~~~v~~~~~~Gy~-iIIiG~~~ 154 (380)
+-+++|+... . ..-++.+.|++.|+.+ +|-. +++.++.+...+.|+. ++|+|+..
T Consensus 26 p~~v~Ii~~~~~~~~~~~a~~la~~LR~~gi~v~~d~~----~sl~kqlk~A~k~g~~~~iiiG~~e 88 (121)
T cd00858 26 PIKVAVLPLVKRDELVEIAKEISEELRELGFSVKYDDS----GSIGRRYARQDEIGTPFCVTVDFDT 88 (121)
T ss_pred CcEEEEEecCCcHHHHHHHHHHHHHHHHCCCEEEEeCC----CCHHHHHHHhHhcCCCEEEEECcCc
Confidence 3455666543 2 2234678888889888 5654 5777777877888988 66678554
No 230
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=33.35 E-value=4.4e+02 Score=25.27 Aligned_cols=87 Identities=25% Similarity=0.257 Sum_probs=48.2
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchh
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT 296 (380)
..++++.- .++-..|..+.+-+.+...+. + -++.++. +....+.| +.+..|....+|.+|+.++..+
T Consensus 60 ~~i~vi~~-~~~~~~~~~~~~gi~~~~~~~-g-----~~~~~~~--~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~--- 127 (341)
T PRK10703 60 KSIGLLAT-SSEAPYFAEIIEAVEKNCYQK-G-----YTLILCN--AWNNLEKQRAYLSMLAQKRVDGLLVMCSEYP--- 127 (341)
T ss_pred CeEEEEeC-CCCCchHHHHHHHHHHHHHHC-C-----CEEEEEe--CCCCHHHHHHHHHHHHHcCCCEEEEecCCCC---
Confidence 46777763 345556777776666532222 1 1222221 12223445 3344455567999999986432
Q ss_pred HHHHHHHHH-hCCCeEeeCCC
Q 016960 297 SHLQEIAED-RGIPSYWIDSE 316 (380)
Q Consensus 297 ~kL~eia~~-~~~~t~~Ie~~ 316 (380)
...++.+++ .+.|.+.++..
T Consensus 128 ~~~~~~l~~~~~iPvV~~d~~ 148 (341)
T PRK10703 128 EPLLAMLEEYRHIPMVVMDWG 148 (341)
T ss_pred HHHHHHHHhcCCCCEEEEecc
Confidence 234445556 68899999764
No 231
>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=33.33 E-value=89 Score=31.06 Aligned_cols=35 Identities=20% Similarity=0.269 Sum_probs=24.8
Q ss_pred ccCCCE-EEEcCCCCCHHHHH---HHHhcCCcEEeccCc
Q 016960 94 VNKGDV-VVLPAFGAAVEEMV---TLNNKNVQIVDTTCP 128 (380)
Q Consensus 94 l~~g~~-VIIrAHGv~~~~~~---~l~~~g~~viDaTCP 128 (380)
+.++|. ++|+.-|-+|.+.+ .++++|..+|=-||.
T Consensus 124 l~~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tIaIT~~ 162 (291)
T TIGR00274 124 LTKNDVVVGIAASGRTPYVIAGLQYARSLGALTISIACN 162 (291)
T ss_pred CCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECC
Confidence 446776 57899999998654 556677777766663
No 232
>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are putative substrate-binding proteins of an ABC transporter family that associates, in gene neighborhood and phylogenomic profile, with pyrroloquinoline-quinone (PQQ)-dependent degradation of certain alcohols, such as 2-phenylethanol in Pseudomonas putida U.
Probab=33.30 E-value=51 Score=33.12 Aligned_cols=109 Identities=9% Similarity=0.036 Sum_probs=60.7
Q ss_pred ccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCC-CCccCCC--Ccchhhh-c--
Q 016960 257 FISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDS-EKRIGPG--NKIAYKL-M-- 330 (380)
Q Consensus 257 ~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~-~~dL~~~--~~~~~~~-~-- 330 (380)
+...|+ +.+..- ..++++|. .+ ++..|+|+..|+.+..+.+++++.+.+.+...+ ..+|... +...|.. .
T Consensus 37 lv~~D~-~~p~~a-~~~a~~Li-~~-~V~~vvG~~~S~~~~Av~~~a~~~~vp~i~~~a~~~~lt~~~c~~~~Fr~~~~~ 112 (347)
T TIGR03863 37 LDEVAV-RTPEDL-VAALKALL-AQ-GVRFFVLDLPAAALLALADAAKAKGALLFNAGAPDDALRGADCRANLLHTLPSR 112 (347)
T ss_pred EEEccC-CCHHHH-HHHHHHHH-HC-CCCEEEecCChHHHHHHHHHHHhCCcEEEeCCCCChHHhCCCCCCCEEEecCCh
Confidence 334454 544433 45566676 33 577789999999999999999988776554333 3445321 1222221 1
Q ss_pred cchhhhhcccCC-CCCCEEEEEeCCCCCHHHH-HHHHHHHH
Q 016960 331 HGELVEKENWLP-KGQITIGITSGASTPDKAV-EDVLKKVF 369 (380)
Q Consensus 331 ~~~~~~~~~wl~-~~~~~VGITAGASTP~~lI-~eV~~~l~ 369 (380)
..+......|+. .+.++|.|...-+.-..-. +.+...++
T Consensus 113 ~~~~~ala~~~~~~g~kkvaii~~~~~~g~~~~~~~~~~~~ 153 (347)
T TIGR03863 113 AMLADALAQYLAAKRWRRILLIQGPLPADALYADAFRRSAK 153 (347)
T ss_pred HhHHHHHHHHHHHcCCCEEEEEeCCCcccHHHHHHHHHHHH
Confidence 112222334552 2568999987655544444 33334443
No 233
>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=33.28 E-value=2.4e+02 Score=27.15 Aligned_cols=111 Identities=14% Similarity=0.125 Sum_probs=59.7
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCC-ccCCCCcchhhh---cc
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEK-RIGPGNKIAYKL---MH 331 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~-dL~~~~~~~~~~---~~ 331 (380)
++.+.|+-+++...++. +++|.. +-.+..|||...|+++..+ +++.+.+.|.+...+.. .+.. ....|.. ..
T Consensus 42 ~lv~~D~~~~~~~~~~~-~~~li~-~~~V~~iig~~~s~~~~~~-~~~~~~~ip~v~~~~~~~~~~~-~~~~~~~~~~~~ 117 (341)
T cd06341 42 EYVWCDDQGDPASAAAC-ARDLVE-DDKVVAVVGGSSGAGGSAL-PYLAGAGIPVIGGAGTSAWELT-SPNSFPFSGGTP 117 (341)
T ss_pred EEEEecCCCChhHHHHH-HHHHHH-hcCceEEEecccccchhHH-HHHhhcCCceecCCCCCchhhc-CCCeEEecCCCc
Confidence 46788999988777644 566763 3244455666666665544 88888888887776543 2321 1111111 11
Q ss_pred chhhhhcccCC-CCCCEEEEEeCCC--CCHHHHHHHHHHHHh
Q 016960 332 GELVEKENWLP-KGQITIGITSGAS--TPDKAVEDVLKKVFE 370 (380)
Q Consensus 332 ~~~~~~~~wl~-~~~~~VGITAGAS--TP~~lI~eV~~~l~~ 370 (380)
.+......|+. .+.+++++..... ......+...+.+.+
T Consensus 118 ~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~~~~ 159 (341)
T cd06341 118 ASLTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARSLAA 159 (341)
T ss_pred chhHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHHHHH
Confidence 11122224442 2567888775433 233455555555543
No 234
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=33.25 E-value=60 Score=26.86 Aligned_cols=31 Identities=32% Similarity=0.692 Sum_probs=26.3
Q ss_pred cCCEEEEEccCCCchhHHH-HHHHHHhCCCeE
Q 016960 281 KVDLILVVGGWNSSNTSHL-QEIAEDRGIPSY 311 (380)
Q Consensus 281 ~vD~miVVGG~nSSNT~kL-~eia~~~~~~t~ 311 (380)
.||.++..+|+..|..-+| +.+|++.|.+.+
T Consensus 59 ~cD~i~~l~gWe~S~GA~~E~~~A~~lGl~V~ 90 (92)
T PF14359_consen 59 DCDAIYMLPGWENSRGARLEHELAKKLGLPVI 90 (92)
T ss_pred hCCEEEEcCCcccCcchHHHHHHHHHCCCeEe
Confidence 7999999999888888776 678888887765
No 235
>COG4007 Predicted dehydrogenase related to H2-forming N5,N10-methylenetetrahydromethanopterin dehydrogenase [General function prediction only]
Probab=33.05 E-value=48 Score=33.31 Aligned_cols=87 Identities=20% Similarity=0.237 Sum_probs=51.0
Q ss_pred ccHHHHHHHHHHHHhhCCCCceEEecc--cccCHHHHHHHHHcCcEEecCCccccccccccCCC-EEEEcCCC-----CC
Q 016960 37 WGVERAVQIAYEARKQFPEEKIWITNE--IIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGD-VVVLPAFG-----AA 108 (380)
Q Consensus 37 ~GV~RAI~~a~~~~~~~~~~~Iy~lG~--LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~-~VIIrAHG-----v~ 108 (380)
.|-+.||+.|+. +..|..--| =+-.+.-.++++..||.+++++ .+....|. .|+|.-+| +.
T Consensus 32 GGa~mAiefAeA------GHDVVLaePn~d~~dd~~w~~vedAGV~vv~dD-----~eaa~~~Ei~VLFTPFGk~T~~Ia 100 (340)
T COG4007 32 GGARMAIEFAEA------GHDVVLAEPNRDIMDDEHWKRVEDAGVEVVSDD-----AEAAEHGEIHVLFTPFGKATFGIA 100 (340)
T ss_pred CchHHHHHHHHc------CCcEEeecCCccccCHHHHHHHHhcCcEEecCc-----hhhhhcceEEEEecccchhhHHHH
Confidence 367778877753 112222211 1456677899999999999863 33444454 48999999 44
Q ss_pred HHHHHHHHhcCCcEEeccCchhHHHH
Q 016960 109 VEEMVTLNNKNVQIVDTTCPWVSKVW 134 (380)
Q Consensus 109 ~~~~~~l~~~g~~viDaTCP~V~kv~ 134 (380)
+++.+-+.+.-+..=-+|||=|.--+
T Consensus 101 rei~~hvpEgAVicnTCT~sp~vLy~ 126 (340)
T COG4007 101 REILEHVPEGAVICNTCTVSPVVLYY 126 (340)
T ss_pred HHHHhhCcCCcEecccccCchhHHHH
Confidence 45555554433333445666554333
No 236
>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=33.03 E-value=47 Score=32.14 Aligned_cols=54 Identities=9% Similarity=0.200 Sum_probs=41.7
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEe
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYW 312 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~ 312 (380)
++.+.||-|....-. +++++|. .+-++..|||+.+|..+..+..+++ .+.|...
T Consensus 42 ~l~~~D~~~~p~~a~-~~a~~Li-~~~~v~aviG~~~s~~a~a~~~~~~-~~vp~i~ 95 (333)
T cd06358 42 ELVIVDDGSPPAEAA-AAAARLV-DEGGVDAIIGWHTSAVRNAVAPVVA-GRVPYVY 95 (333)
T ss_pred EEEEECCCCChHHHH-HHHHHHH-HhCCCcEEEecCcHHHHHHHHHHHh-cCceEEe
Confidence 566889999776655 5667887 4567888999999999999999997 6665544
No 237
>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=33.02 E-value=84 Score=26.67 Aligned_cols=57 Identities=12% Similarity=0.136 Sum_probs=36.5
Q ss_pred ceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhH
Q 016960 57 KIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVS 131 (380)
Q Consensus 57 ~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~ 131 (380)
-+.+.-+--|-+.+++++.++|++. |++-+....++..+.+++.|+.++---|+.|.
T Consensus 58 lavv~~~~~~~~~~v~~~~~~g~~~------------------v~~~~g~~~~~~~~~a~~~gi~vigp~C~gv~ 114 (116)
T PF13380_consen 58 LAVVCVPPDKVPEIVDEAAALGVKA------------------VWLQPGAESEELIEAAREAGIRVIGPNCLGVV 114 (116)
T ss_dssp EEEE-S-HHHHHHHHHHHHHHT-SE------------------EEE-TTS--HHHHHHHHHTT-EEEESS-HHHH
T ss_pred EEEEEcCHHHHHHHHHHHHHcCCCE------------------EEEEcchHHHHHHHHHHHcCCEEEeCCcceEE
Confidence 4666666677788888888877543 33333378889999999999999988888763
No 238
>PTZ00408 NAD-dependent deacetylase; Provisional
Probab=33.02 E-value=83 Score=30.44 Aligned_cols=58 Identities=19% Similarity=0.256 Sum_probs=38.3
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCch-hHHHHHHHHHhCCCeEeeCCCC
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSN-TSHLQEIAEDRGIPSYWIDSEK 317 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSN-T~kL~eia~~~~~~t~~Ie~~~ 317 (380)
+++..|+.. . ...+++.+.+ .++|++||||-.-+-. ...|...|++.|.+.+.|.-..
T Consensus 151 P~vV~FGE~--~--~~~~~~~~~~-~~~DlllviGTSl~V~pa~~l~~~a~~~g~~vi~IN~~~ 209 (242)
T PTZ00408 151 PHIVWFGEM--P--LYMDEIESVM-SKTDLFVAVGTSGNVYPAAGFVGRAQFYGATTLELNLEE 209 (242)
T ss_pred CCEEEcCCC--C--CcHHHHHHHH-HhCCEEEEEccCCccccHHHHHHHHHHcCCeEEEECCCC
Confidence 445566662 1 1223444456 5899999999854433 3478889999999888887654
No 239
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=33.01 E-value=1.7e+02 Score=29.56 Aligned_cols=92 Identities=17% Similarity=0.194 Sum_probs=56.0
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhh-hh---cCCEEEEEccCCC
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMV-EE---KVDLILVVGGWNS 293 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa-~~---~vD~miVVGG~nS 293 (380)
+++.+|+..+......+.+.+.|+. . +. ....+.+.+.-++.|.+.=+.+.+.+ +. +.|++|-|||=..
T Consensus 32 ~~~livtd~~~~~~~~~~v~~~L~~----~-gi--~~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIavGGGsv 104 (358)
T PRK00002 32 KKVAIVTDETVAPLYLEKLRASLEA----A-GF--EVDVVVLPDGEQYKSLETLEKIYDALLEAGLDRSDTLIALGGGVI 104 (358)
T ss_pred CeEEEEECCchHHHHHHHHHHHHHh----c-CC--ceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEEEcCcHH
Confidence 4788888777755555555555543 1 11 00111233445555554444443333 11 3499999999999
Q ss_pred chhHHHHHHHHHhCCCeEeeCCC
Q 016960 294 SNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 294 SNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
-.+-|.+...-..+.|-+.|-|-
T Consensus 105 ~D~aK~iA~~~~~gip~i~IPTT 127 (358)
T PRK00002 105 GDLAGFAAATYMRGIRFIQVPTT 127 (358)
T ss_pred HHHHHHHHHHhcCCCCEEEcCch
Confidence 99999887655677888888774
No 240
>PRK09526 lacI lac repressor; Reviewed
Probab=32.77 E-value=4.5e+02 Score=25.18 Aligned_cols=126 Identities=12% Similarity=0.227 Sum_probs=60.0
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhH
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTS 297 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~ 297 (380)
..++++.-. ++-..|..+.+.+.+...+. + -++.++++--+....-++.+..|....+|.+|+.+..++..-.
T Consensus 64 ~~Igvv~~~-~~~~~~~~~~~gi~~~a~~~-g-----~~~~i~~~~~~~~~~~~~~l~~l~~~~vdGiii~~~~~~~~~~ 136 (342)
T PRK09526 64 LTIGLATTS-LALHAPSQIAAAIKSRADQL-G-----YSVVISMVERSGVEACQAAVNELLAQRVSGVIINVPLEDADAE 136 (342)
T ss_pred ceEEEEeCC-CCcccHHHHHHHHHHHHHHC-C-----CEEEEEeCCCChHHHHHHHHHHHHhcCCCEEEEecCCCcchHH
Confidence 468888654 33344556666665432222 1 2233322211111222345666665789999997554443333
Q ss_pred HHHHHHHHhCCCeEeeCCCCccCCCCcchhhh-ccchhhhhcccC-CCCCCEEEEEeCCC
Q 016960 298 HLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKL-MHGELVEKENWL-PKGQITIGITSGAS 355 (380)
Q Consensus 298 kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~-~~~~~~~~~~wl-~~~~~~VGITAGAS 355 (380)
.|.+ +..+.|..+++....... .-+.... ..+.. ..++| ..|.++|++-+|..
T Consensus 137 ~~~~--~~~~iPvV~~d~~~~~~~-~~V~~d~~~~~~~--a~~~L~~~G~~~I~~l~g~~ 191 (342)
T PRK09526 137 KIVA--DCADVPCLFLDVSPQSPV-NSVSFDPEDGTRL--GVEHLVELGHQRIALLAGPE 191 (342)
T ss_pred HHHh--hcCCCCEEEEeccCCCCC-CEEEECcHHHHHH--HHHHHHHCCCCeEEEEeCCC
Confidence 3332 234788888876322110 1111100 11111 11222 13789999988754
No 241
>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=32.76 E-value=3.8e+02 Score=24.55 Aligned_cols=79 Identities=11% Similarity=0.021 Sum_probs=43.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHL 299 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL 299 (380)
++++.-+ +-.-|..+.+-+.+...+..+ -.+.. |. +.. ++.+..|.+.++|.+|+.+ .|.. +
T Consensus 2 ig~i~~~--~~~~~~~~~~gi~~~~~~~~g-----~~~~~----~~-~~~-~~~~~~l~~~~vdGiI~~~----~~~~-~ 63 (265)
T cd01543 2 VALLVET--SSSYGRGVLRGIARYAREHGP-----WSIYL----EP-RGL-QEPLRWLKDWQGDGIIARI----DDPE-M 63 (265)
T ss_pred eEEEecc--cchhhHHHHHHHHHHHHhcCC-----eEEEE----ec-ccc-hhhhhhccccccceEEEEC----CCHH-H
Confidence 5666653 345666776666654333111 11211 11 112 4455556557899999974 2333 3
Q ss_pred HHHHHHhCCCeEeeCCC
Q 016960 300 QEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 300 ~eia~~~~~~t~~Ie~~ 316 (380)
.+..++.+.|.+++.+.
T Consensus 64 ~~~l~~~~~PvV~~~~~ 80 (265)
T cd01543 64 AEALQKLGIPVVDVSGS 80 (265)
T ss_pred HHHHhhCCCCEEEEeCc
Confidence 34445678899999764
No 242
>PRK14071 6-phosphofructokinase; Provisional
Probab=32.73 E-value=62 Score=33.22 Aligned_cols=44 Identities=20% Similarity=0.209 Sum_probs=31.6
Q ss_pred HhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeC
Q 016960 269 ERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWID 314 (380)
Q Consensus 269 ~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie 314 (380)
.++..+..|.+..+|.+++|||-.|-.+-+ ++++..+.+.+.|-
T Consensus 95 ~~~~~~~~l~~~~Id~Li~IGGdgS~~~a~--~L~~~~~i~vIgiP 138 (360)
T PRK14071 95 RSQEIIDGYHSLGLDALIGIGGDGSLAILR--RLAQQGGINLVGIP 138 (360)
T ss_pred HHHHHHHHHHHcCCCEEEEECChhHHHHHH--HHHHhcCCcEEEec
Confidence 566777777667899999999999987653 33433467777663
No 243
>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=32.64 E-value=58 Score=28.23 Aligned_cols=31 Identities=16% Similarity=0.409 Sum_probs=0.0
Q ss_pred cccCCCE-EEEcCCCCCHH---HHHHHHhcCCcEE
Q 016960 93 VVNKGDV-VVLPAFGAAVE---EMVTLNNKNVQIV 123 (380)
Q Consensus 93 el~~g~~-VIIrAHGv~~~---~~~~l~~~g~~vi 123 (380)
.+.+||+ |+|++.|-+|- ..+.++++|+.||
T Consensus 100 ~~~~gDvli~iS~SG~s~~vi~a~~~Ak~~G~~vI 134 (138)
T PF13580_consen 100 DIRPGDVLIVISNSGNSPNVIEAAEEAKERGMKVI 134 (138)
T ss_dssp T--TT-EEEEEESSS-SHHHHHHHHHHHHTT-EEE
T ss_pred CCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEE
No 244
>TIGR02884 spore_pdaA delta-lactam-biosynthetic de-N-acetylase. Muramic delta-lactam is an unusual constituent of peptidoglycan, found only in bacterial spores in the peptidoglycan wall, or spore cortex. The proteins in this family are PdaA (yfjS), a member of a larger family of polysaccharide deacetylases, and are specificially involved in delta-lactam biosynthesis. PdaA acts immediately after CwlD, an N-acetylmuramoyl-L-alanine amidase and performs a de-N-acetylation. PdaA may also perform the following transpeptidation for lactam ring formation, as heterologous expression in E. coli of CwlD and PdaA together is sufficient for delta-lactam production.
Probab=32.63 E-value=1.3e+02 Score=28.38 Aligned_cols=72 Identities=13% Similarity=0.078 Sum_probs=45.3
Q ss_pred ccchhHHHHHHHcCCcceecceEEEEeCCCCCc----ccHHHHHHHHHHHHhhCCCCceEEecccc-----cCHHHHHHH
Q 016960 4 EYTSDIIKKLKENGFEYTWGNVKVKLAESYGFC----WGVERAVQIAYEARKQFPEEKIWITNEII-----HNPTVNKRL 74 (380)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~g~mkI~lA~~~GFC----~GV~RAI~~a~~~~~~~~~~~Iy~lG~LI-----HN~~Vv~~L 74 (380)
.|...+.+.+++.|+....-++. +..|. .|...+++.+.+.+. .+.|.++++.- .-|.+++.|
T Consensus 139 ~~~~~~~~~l~~~Gy~~v~w~v~-----~~Dw~~~~~~~~~~~~~~v~~~~~---~g~IiLlHd~~~~t~~aL~~ii~~l 210 (224)
T TIGR02884 139 VFSERTLAYTKELGYYTVFWSLA-----FKDWKVDEQPGWQYAYKQIMKKIH---PGAILLLHAVSKDNAEALDKIIKDL 210 (224)
T ss_pred CcCHHHHHHHHHcCCcEEecccc-----CcccCCCCCCCHHHHHHHHHhcCC---CCcEEEEECCCCCHHHHHHHHHHHH
Confidence 35667888888888766433321 22222 245555554433322 35799998742 346788999
Q ss_pred HHcCcEEec
Q 016960 75 EEMAVQNIP 83 (380)
Q Consensus 75 ~~~Gv~~v~ 83 (380)
+++|..|+.
T Consensus 211 k~~Gy~fvt 219 (224)
T TIGR02884 211 KEQGYTFKS 219 (224)
T ss_pred HHCCCEEEE
Confidence 999999985
No 245
>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=32.62 E-value=2.5e+02 Score=28.44 Aligned_cols=78 Identities=21% Similarity=0.231 Sum_probs=45.8
Q ss_pred ceeEEEEcCCCChH-HHHHHHHHHHHHHhhhcccccccccccccccc-cHHHHHhHHHHHHhh-hhcCCEEEEEccCCCc
Q 016960 218 VKVGIANQTTMLKG-ETEEIGKLVEKTMMRKFGVENVNEHFISFNTI-CDATQERQDAMYKMV-EEKVDLILVVGGWNSS 294 (380)
Q Consensus 218 ~kv~vvsQTT~~~~-~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTI-C~AT~~RQ~a~~eLa-~~~vD~miVVGG~nSS 294 (380)
+++.+|....+... .++.+.+.|++ . .-++.+|+.+ -+.|.+-=+.+.+++ ..++|++|-|||=.+-
T Consensus 27 ~~~lvvt~~~~~~~g~~~~v~~~L~~----~------g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGS~~ 96 (374)
T cd08189 27 KKVLIVTDKGLVKLGLLDKVLEALEG----A------GIEYAVYDGVPPDPTIENVEAGLALYRENGCDAILAVGGGSVI 96 (374)
T ss_pred CeEEEEeCcchhhcccHHHHHHHHHh----c------CCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHH
Confidence 58888876655432 35666666653 1 1124445544 123322222222222 3579999999999999
Q ss_pred hhHHHHHHHHH
Q 016960 295 NTSHLQEIAED 305 (380)
Q Consensus 295 NT~kL~eia~~ 305 (380)
.+-|.+-+.-.
T Consensus 97 D~aK~ia~~~~ 107 (374)
T cd08189 97 DCAKAIAARAA 107 (374)
T ss_pred HHHHHHHHHHh
Confidence 99998766543
No 246
>cd08173 Gro1PDH Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH, EC 1.1.1.261) plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids. It catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. The activity is zinc-dependent. One characteristic feature of archaea is that their cellular membrane has an ether linkage between the glycerol backbone and the hydrocarbon residues. The polar lipids of the members of Archaea consist of di- and tetraethers of glycerol with isoprenoid alcohols bound at the sn-2 and sn-3 positions of the glycerol moiety. The archaeal polar lipids have the enantiomeric configuration of a glycerophosph
Probab=32.55 E-value=1.8e+02 Score=28.95 Aligned_cols=87 Identities=16% Similarity=0.203 Sum_probs=50.9
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhH
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTS 297 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~ 297 (380)
+++.+|.-.+.....++.+.+.|++ . + + ...+ +...=+..+-+|-- ..+...++|++|-|||=..-.+-
T Consensus 26 ~~~liv~d~~~~~~~~~~v~~~l~~----~-~-~--~~~~-~~~~~~~~~v~~~~--~~~~~~~~d~iIaiGGGs~~D~a 94 (339)
T cd08173 26 GRVLVVTGPTTKSIAGKKVEALLED----E-G-E--VDVV-IVEDATYEEVEKVE--SSARDIGADFVIGVGGGRVIDVA 94 (339)
T ss_pred CeEEEEECCchHHHHHHHHHHHHHh----c-C-C--eEEE-EeCCCCHHHHHHHH--HHhhhcCCCEEEEeCCchHHHHH
Confidence 4788888766655455555555543 1 1 0 0112 11222344443332 22222479999999999999999
Q ss_pred HHHHHHHHhCCCeEeeCCCC
Q 016960 298 HLQEIAEDRGIPSYWIDSEK 317 (380)
Q Consensus 298 kL~eia~~~~~~t~~Ie~~~ 317 (380)
|.+-. ..+.|-+.|-|..
T Consensus 95 K~~a~--~~~~p~i~iPTT~ 112 (339)
T cd08173 95 KVAAY--KLGIPFISVPTAA 112 (339)
T ss_pred HHHHH--hcCCCEEEecCcc
Confidence 98763 3567878777653
No 247
>PRK05569 flavodoxin; Provisional
Probab=32.42 E-value=1.9e+02 Score=24.59 Aligned_cols=21 Identities=14% Similarity=0.164 Sum_probs=15.8
Q ss_pred EEEEEccCCCchhHHHHHHHHH
Q 016960 284 LILVVGGWNSSNTSHLQEIAED 305 (380)
Q Consensus 284 ~miVVGG~nSSNT~kL~eia~~ 305 (380)
++||-++ .+.||.++++...+
T Consensus 4 i~iiY~S-~tGnT~~iA~~i~~ 24 (141)
T PRK05569 4 VSIIYWS-CGGNVEVLANTIAD 24 (141)
T ss_pred EEEEEEC-CCCHHHHHHHHHHH
Confidence 4666666 59999999887655
No 248
>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=32.26 E-value=3.6e+02 Score=24.75 Aligned_cols=85 Identities=18% Similarity=0.283 Sum_probs=49.6
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHH--HHHhH-HHHHHhhhhcCCEEEEEccCCC---
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDA--TQERQ-DAMYKMVEEKVDLILVVGGWNS--- 293 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~A--T~~RQ-~a~~eLa~~~vD~miVVGG~nS--- 293 (380)
|+++.. +++-.-|..+.+-+.+...+. + +.+ ++|++ ..++| ++++.|.+..+|.+|+.++..+
T Consensus 2 igvv~~-~~~~~~~~~~~~gi~~~~~~~-g-------~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (273)
T cd01541 2 IGVITT-YISDYIFPSIIRGIESVLSEK-G-------YSL--LLASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPN 70 (273)
T ss_pred eEEEeC-CccchhHHHHHHHHHHHHHHc-C-------CEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEecccccccc
Confidence 455554 355666777777776643333 1 211 12322 23444 4455666678999999876432
Q ss_pred chhHHHHHHHHHhCCCeEeeCCC
Q 016960 294 SNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 294 SNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
.+...+ +-+.+.+.|...+.+.
T Consensus 71 ~~~~~~-~~~~~~~ipvV~~~~~ 92 (273)
T cd01541 71 PNIDLY-LKLEKLGIPYVFINAS 92 (273)
T ss_pred ccHHHH-HHHHHCCCCEEEEecC
Confidence 233334 4456788999999865
No 249
>TIGR00423 radical SAM domain protein, CofH subfamily. This protein family includes the CofH protein of coenzyme F(420) biosynthesis from Methanocaldococcus jannaschii, but appears to hit genomes more broadly than just the subset that make coenzyme F(420), so that narrower group is being built as a separate family.
Probab=32.11 E-value=4.5e+02 Score=25.88 Aligned_cols=72 Identities=21% Similarity=0.311 Sum_probs=41.9
Q ss_pred hHHHHHHHcCCcceecceEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceE--Eeccccc--------CHHHHHHHHHc
Q 016960 8 DIIKKLKENGFEYTWGNVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIW--ITNEIIH--------NPTVNKRLEEM 77 (380)
Q Consensus 8 ~~~~~~~~~~~~~~~g~mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy--~lG~LIH--------N~~Vv~~L~~~ 77 (380)
+|++.+++. ...|.-+|.+.....+-...++..++++...+.+++-.+. +-+++.| .+.+.++|++.
T Consensus 40 eI~~~~~~~---~~~G~~~i~l~gg~~~~~~~~~~~~i~~~Ik~~~~~i~~~~~s~~e~~~~~~~~g~~~~e~l~~LkeA 116 (309)
T TIGR00423 40 EILEKVKEA---VAKGATEVCIQGGLNPQLDIEYYEELFRAIKQEFPDVHIHAFSPMEVYFLAKNEGLSIEEVLKRLKKA 116 (309)
T ss_pred HHHHHHHHH---HHCCCCEEEEecCCCCCCCHHHHHHHHHHHHHHCCCceEEecCHHHHHHHHHHcCCCHHHHHHHHHHc
Confidence 455555532 2235566766654555567777777777766654322332 2333432 46788888888
Q ss_pred CcEEe
Q 016960 78 AVQNI 82 (380)
Q Consensus 78 Gv~~v 82 (380)
|+..+
T Consensus 117 Gl~~i 121 (309)
T TIGR00423 117 GLDSM 121 (309)
T ss_pred CCCcC
Confidence 87655
No 250
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=32.01 E-value=91 Score=29.74 Aligned_cols=44 Identities=23% Similarity=0.252 Sum_probs=29.8
Q ss_pred HHHHHHhhhhcCCEEEEEccCCC-chhHHHHHHHHHhCCCeEeeCCC
Q 016960 271 QDAMYKMVEEKVDLILVVGGWNS-SNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 271 Q~a~~eLa~~~vD~miVVGG~nS-SNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
+.+...+. ++|++||||-.-. .-..+|.+.++..|.+...|.-.
T Consensus 169 ~~a~~~~~--~~dl~lviGTsl~V~p~~~l~~~~~~~~~~~i~iN~~ 213 (242)
T PRK00481 169 DEAYEALE--EADLFIVIGTSLVVYPAAGLPYEAREHGAKTVEINLE 213 (242)
T ss_pred HHHHHHHh--cCCEEEEECCCceEcCHhHHHHHHHHCCCeEEEECCC
Confidence 34444443 6899999993322 24568888888888777766544
No 251
>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=31.84 E-value=77 Score=30.12 Aligned_cols=97 Identities=14% Similarity=0.070 Sum_probs=57.0
Q ss_pred cccccccccHHHHHhHHHHHHhhhh-cCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCC-ccCCCC--cchhhh--
Q 016960 256 HFISFNTICDATQERQDAMYKMVEE-KVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEK-RIGPGN--KIAYKL-- 329 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~-~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~-dL~~~~--~~~~~~-- 329 (380)
++.+.||=+.....+ +++++|... .||+ |||+..|+.+..+.+.+++.+.|.....+.. ++.... ...|..
T Consensus 40 ~l~~~d~~~~~~~~~-~~~~~l~~~~~v~~--iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~ 116 (333)
T cd06332 40 EVVVEDDELKPDVAV-QAARKLIEQDKVDV--VVGPVFSNVALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSW 116 (333)
T ss_pred EEEEecCCCCHHHHH-HHHHHHHHHcCCcE--EEcCCccHHHHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeC
Confidence 466788888766555 466667633 5665 5688888888889999989888877765543 333211 111211
Q ss_pred -ccchhhhhcccCC-CCCCEEEEEeCCC
Q 016960 330 -MHGELVEKENWLP-KGQITIGITSGAS 355 (380)
Q Consensus 330 -~~~~~~~~~~wl~-~~~~~VGITAGAS 355 (380)
...+......|+. .+.++|++....+
T Consensus 117 ~~~~~~~~~~~~l~~~g~~~v~il~~~~ 144 (333)
T cd06332 117 QNDQVHEAMGKYAADKGYKKVVIIAPDY 144 (333)
T ss_pred ChHHhHHHHHHHHHHhCCceEEEEecCc
Confidence 1111122224442 2578899886544
No 252
>cd02518 GT2_SpsF SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat. Spore coat polysaccharide biosynthesis protein F (spsF) is a glycosyltransferase implicated in the synthesis of the spore coat in a variety of bacteria challenged by stress as starvation. The spsF gene is expressed in the late stage of coat development responsible for a terminal step in coat formation that involves the glycosylation of the coat. SpsF gene mutation resulted in spores that appeared normal. But, the spores tended to aggregate and had abnormal adsorption properties, indicating a surface alteration.
Probab=31.66 E-value=1.3e+02 Score=27.74 Aligned_cols=44 Identities=9% Similarity=0.077 Sum_probs=31.3
Q ss_pred cCCcEEeccCchhH--HHHHHHHHHhhCCCeEEEE-ecCCCceeeee
Q 016960 118 KNVQIVDTTCPWVS--KVWTSVEKHKKGDYTSIIH-GKYSHEETVAT 161 (380)
Q Consensus 118 ~g~~viDaTCP~V~--kv~~~v~~~~~~Gy~iIIi-G~~~HpEv~gi 161 (380)
.++-++++.+|||. -+.+.+..+.+.++.+++. |.++||=..|.
T Consensus 89 d~vli~~~D~P~i~~~~i~~li~~~~~~~~~~~~~~~~~g~Pv~~~~ 135 (233)
T cd02518 89 DVVVRITGDCPLIDPEIIDAVIRLFLKSGADYTSNTLPRTYPDGLDV 135 (233)
T ss_pred CEEEEeCCCCCCCCHHHHHHHHHHHHhCCCCEEecCCCCCCCCceEE
Confidence 45778999999998 4566676666667766664 45688875553
No 253
>TIGR03151 enACPred_II putative enoyl-(acyl-carrier-protein) reductase II. This oxidoreductase of the 2-nitropropane dioxygenase family (pfam03060) is commonly found in apparent operons with genes involved in fatty acid biosynthesis. Furthermore, this genomic context generally includes the fabG 3-oxoacyl-[ACP] reductase and lacks the fabI enoyl-[ACP] reductase.
Probab=31.65 E-value=90 Score=31.15 Aligned_cols=49 Identities=16% Similarity=0.211 Sum_probs=36.5
Q ss_pred CCEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEE
Q 016960 97 GDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIH 150 (380)
Q Consensus 97 g~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIi 150 (380)
+-.+|.-++|.|.+..+++++.|+.|+ ++|+-+. .++++.+.|-..|++
T Consensus 87 ~v~~v~~~~g~p~~~i~~lk~~g~~v~-~~v~s~~----~a~~a~~~GaD~Ivv 135 (307)
T TIGR03151 87 KVPVVTTGAGNPGKYIPRLKENGVKVI-PVVASVA----LAKRMEKAGADAVIA 135 (307)
T ss_pred CCCEEEEcCCCcHHHHHHHHHcCCEEE-EEcCCHH----HHHHHHHcCCCEEEE
Confidence 444555578999899999999999987 5666654 455666778877775
No 254
>PLN02449 ferrochelatase
Probab=31.65 E-value=3e+02 Score=29.65 Aligned_cols=37 Identities=14% Similarity=0.184 Sum_probs=26.3
Q ss_pred CCCEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhh
Q 016960 96 KGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKK 142 (380)
Q Consensus 96 ~g~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~ 142 (380)
++..++|+|||+|....+ ++| .||-..+...++...+
T Consensus 275 ~~~~LlFSAHGlP~~~v~---~~G-------DpY~~q~~~ta~lI~~ 311 (485)
T PLN02449 275 EEVHIFFSAHGVPVSYVE---EAG-------DPYKAQMEECVDLIME 311 (485)
T ss_pred CCcEEEEecCCChhhhhh---hcC-------CChHHHHHHHHHHHHH
Confidence 456899999999987653 223 4787777776666554
No 255
>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=31.62 E-value=4e+02 Score=24.19 Aligned_cols=81 Identities=17% Similarity=0.242 Sum_probs=44.5
Q ss_pred HhHHHHHHhh-hhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhh--h--ccchhhhhcccC-C
Q 016960 269 ERQDAMYKMV-EEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYK--L--MHGELVEKENWL-P 342 (380)
Q Consensus 269 ~RQ~a~~eLa-~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~--~--~~~~~~~~~~wl-~ 342 (380)
+.++.+.++. ++.+|.+|+.++..+ ...++.+.+.+.|...+++..+-.. .+.|- . ..+.. ...+| .
T Consensus 47 ~~~~~~~~~~~~~~~dgiii~~~~~~---~~~~~~~~~~~ipvV~~~~~~~~~~--~~~~v~~d~~~~g~~--~~~~l~~ 119 (270)
T cd06294 47 ELLEEVKKMIQQKRVDGFILLYSRED---DPIIDYLKEEKFPFVVIGKPEDDKE--NITYVDNDNIQAGYD--ATEYLIK 119 (270)
T ss_pred HHHHHHHHHHHHcCcCEEEEecCcCC---cHHHHHHHhcCCCEEEECCCCCCCC--CCCeEEECcHHHHHH--HHHHHHH
Confidence 3445666543 346999999875333 3445566788899999987543211 11111 0 11111 11222 1
Q ss_pred CCCCEEEEEeCCCC
Q 016960 343 KGQITIGITSGAST 356 (380)
Q Consensus 343 ~~~~~VGITAGAST 356 (380)
.|+++|++.+|.+.
T Consensus 120 ~g~~~i~~i~~~~~ 133 (270)
T cd06294 120 LGHKKIAFVGGDLD 133 (270)
T ss_pred cCCccEEEecCCcc
Confidence 36889999987654
No 256
>PF05159 Capsule_synth: Capsule polysaccharide biosynthesis protein; InterPro: IPR007833 This family includes export proteins involved in capsule polysaccharide biosynthesis, such as KpsS P42218 from SWISSPROT and LipB P57038 from SWISSPROT. Capsule polysaccharide modification protein lipB/A is involved in the phospholipid modification of the capsular polysaccharide and is a strong requirement for its translocation to the cell surface. The capsule of Neisseria meningitidis serogroup B and of other meningococcal serogroups and other Gram-negative bacterial pathogens, are anchored in the outer membrane through a 1,2-diacylglycerol moiety. The lipA and lipB genes are located on the 3' end of the ctr operon. lipA and lipB do not encode proteins responsible for diacylglycerophosphatidic acid substitution of the meningococcal capsule polymer, but they are required for proper translocation and surface expression of the lipidated polymer []. KpsS is an unusual sulphate-modified form of the capsular polysaccharide in Rhizobium loti (Mesorhizobium loti). Many plants, including R. loti, enter into symbiotic relationships with bacteria that allow survival in nutrient-limiting environments. KpsS functions as a fucosyl sulphotransferase in vitro. The kpsS gene product shares no significant amino acid similarity with previously identified sulphotransferases []. Sulphated cell surface polysaccharides are required for optimum nodule formation but limit growth rate and nodule colonisation in M. loti [].; GO: 0000271 polysaccharide biosynthetic process, 0015774 polysaccharide transport
Probab=31.45 E-value=62 Score=30.88 Aligned_cols=67 Identities=19% Similarity=0.249 Sum_probs=40.3
Q ss_pred CEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCCCCCEEEEEeCCCCCHHH
Q 016960 283 DLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKA 360 (380)
Q Consensus 283 D~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGASTP~~l 360 (380)
|.+++-||+.+.. +-+.++|++.|.+.+++|.-- |.+ ...+.....-.|+ -....|+-+-+|.|...
T Consensus 1 d~v~~wg~~~~~~-~~~~~~a~~~~i~~~~~E~G~-lR~-------~~~~~~~~~P~s~--~~D~~Gv~~~s~~~~~~ 67 (269)
T PF05159_consen 1 DAVVVWGDKRPYH-RAAIEVAKELGIPVIFFEDGF-LRS-------IGLGSDGYPPDSL--TIDPQGVNADSSLPSDL 67 (269)
T ss_pred CEEEEECCCccHH-HHHHHHHHHhCCCEEEEecCc-ccc-------ccccccCCCCeEE--EECCCCccCCCCCcccH
Confidence 7888888866544 445789999999999999642 220 0000000000333 25677888888776543
No 257
>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=31.37 E-value=61 Score=31.97 Aligned_cols=63 Identities=13% Similarity=0.104 Sum_probs=45.1
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEe-eCCCCccC
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYW-IDSEKRIG 320 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~-Ie~~~dL~ 320 (380)
++.+.||=|....-.+.+.+-+. +-.+..|||+..|+-+.....++.+.+.|-.. .-+...+.
T Consensus 43 ~~~~~D~~~~~~~a~~~a~~l~~--~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~Is~~~~~~~~~ 106 (389)
T cd06352 43 TFVYLDTECSESVALLAAVDLYW--EHNVDAFIGPGCPYACAPVARLAAHWNIPMISWGCVALSLS 106 (389)
T ss_pred EEEEecCCCchhhhHHHHHHHHh--hcCCcEEECCCChhHHHHHHHHHhcCCCCEecccccccccC
Confidence 56688999988777776665554 33456788999999999999999988877542 33334443
No 258
>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=31.35 E-value=54 Score=32.56 Aligned_cols=57 Identities=14% Similarity=0.159 Sum_probs=40.6
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCC
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDS 315 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~ 315 (380)
++.+.||-|++..-+ +++++|. .+ |-+.+|+|..|+.+..+..++++.+.|.+...+
T Consensus 42 elv~~D~~~~p~~a~-~~a~~Li-~~-~~V~~i~~~~S~~~~a~~~~~~~~~vp~i~~~~ 98 (351)
T cd06334 42 EWEECDTGYEVPRGV-ECYERLK-GE-DGAVAFQGWSTGITEALIPKIAADKIPLMSGSY 98 (351)
T ss_pred EEEEecCCCCcHHHH-HHHHHHh-cc-CCcEEEecCcHHHHHHhhHHHhhcCCcEEeccc
Confidence 566888888765544 4677787 33 334455678899999999999999887665443
No 259
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=31.23 E-value=4.7e+02 Score=24.89 Aligned_cols=89 Identities=13% Similarity=0.266 Sum_probs=48.7
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHH-HHHHhhhhcCCEEEEEccCCCchh
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQD-AMYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~-a~~eLa~~~vD~miVVGG~nSSNT 296 (380)
..|+++.-. ++-..|..+.+.+.+...+. + -++.++++ ..-.++|. .+..|.+..+|.+|+.+.... +.
T Consensus 62 ~~Igvv~~~-~~~~~~~~l~~gi~~~~~~~-g-----~~~~~~~~--~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~-~~ 131 (328)
T PRK11303 62 RSIGLIIPD-LENTSYARIAKYLERQARQR-G-----YQLLIACS--DDQPDNEMRCAEHLLQRQVDALIVSTSLPP-EH 131 (328)
T ss_pred ceEEEEeCC-CCCchHHHHHHHHHHHHHHc-C-----CEEEEEeC--CCCHHHHHHHHHHHHHcCCCEEEEcCCCCC-Ch
Confidence 468887643 34456777777766543322 1 12323221 11223443 344454568999999875332 23
Q ss_pred HHHHHHHHHhCCCeEeeCCCC
Q 016960 297 SHLQEIAEDRGIPSYWIDSEK 317 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~~~ 317 (380)
..++...+.+.|.++|+...
T Consensus 132 -~~~~~l~~~~iPvV~v~~~~ 151 (328)
T PRK11303 132 -PFYQRLQNDGLPIIALDRAL 151 (328)
T ss_pred -HHHHHHHhcCCCEEEECCCC
Confidence 33444456788999998753
No 260
>cd00296 SIR2 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer. Also included in this superfamily is a group of uncharacterized Sir2-like proteins which lack certain key catalytic
Probab=31.04 E-value=1.1e+02 Score=28.13 Aligned_cols=46 Identities=28% Similarity=0.411 Sum_probs=36.6
Q ss_pred hHHHHHHhhhhcCCEEEEEcc-CCCchhHHHHHHHHHhCCCeEeeCCCC
Q 016960 270 RQDAMYKMVEEKVDLILVVGG-WNSSNTSHLQEIAEDRGIPSYWIDSEK 317 (380)
Q Consensus 270 RQ~a~~eLa~~~vD~miVVGG-~nSSNT~kL~eia~~~~~~t~~Ie~~~ 317 (380)
...+++.+. ++|++||||- -.-.+...|.+.+++.+.+.+.|.-..
T Consensus 160 ~~~~~~~~~--~~d~llviGtSl~v~~~~~l~~~~~~~~~~~~~in~~~ 206 (222)
T cd00296 160 FDRALEALL--EADLVLVIGTSLTVYPAARLLLRAPERGAPVVIINREP 206 (222)
T ss_pred HHHHHHHHh--cCCEEEEECCCccccCHHHHHHHHHHCCCcEEEECCCC
Confidence 456666664 5999999996 567889999999988888888887554
No 261
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=30.69 E-value=87 Score=29.99 Aligned_cols=77 Identities=18% Similarity=0.125 Sum_probs=48.6
Q ss_pred EEEEEccCCCchhHHHHHHHHHhCCCeEeeCC-CCccCCCCcchhhhccchhhhhcccC-C-CCCCEEEEEeCCCC--CH
Q 016960 284 LILVVGGWNSSNTSHLQEIAEDRGIPSYWIDS-EKRIGPGNKIAYKLMHGELVEKENWL-P-KGQITIGITSGAST--PD 358 (380)
Q Consensus 284 ~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~-~~dL~~~~~~~~~~~~~~~~~~~~wl-~-~~~~~VGITAGAST--P~ 358 (380)
++-|.|...|-=|.=|-++|+..... |-+-= ..|+-. .++ ..-| . .+.+.+||++|-.| |+
T Consensus 15 ~i~v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~Di~t----------~~D---a~~l~~~~g~~i~~v~TG~~CH~da 80 (202)
T COG0378 15 RIGVGGPPGSGKTALIEKTLRALKDE-YKIAVITGDIYT----------KED---ADRLRKLPGEPIIGVETGKGCHLDA 80 (202)
T ss_pred EEEecCCCCcCHHHHHHHHHHHHHhh-CCeEEEeceeec----------hhh---HHHHHhCCCCeeEEeccCCccCCcH
Confidence 45555668888888888888886432 21100 011111 000 0001 0 26899999999999 99
Q ss_pred HHHHHHHHHHHhhhhh
Q 016960 359 KAVEDVLKKVFEIKRE 374 (380)
Q Consensus 359 ~lI~eV~~~l~~~~~~ 374 (380)
.++.+-+..|...+++
T Consensus 81 ~m~~~ai~~l~~~~~~ 96 (202)
T COG0378 81 SMNLEAIEELVLDFPD 96 (202)
T ss_pred HHHHHHHHHHhhcCCc
Confidence 9999999999876654
No 262
>TIGR00732 dprA DNA protecting protein DprA. Disruption of this gene in both Haemophilus influenzae and Helicobacter pylori drastically reduces the efficiency of transformation with exogenous DNA, but with different levels of effect on chromosomal (linear) and plasmid (circular) DNA. This difference suggests the DprA is not active in recombination, and it has been shown not to affect DNA binding, leaving the intermediate step in natural transformation, DNA processing. In Strep. pneumoniae, inactivation of dprA had no effect on the uptake of DNA. All of these data indicated that DprA is required at a later stage in transformation. Subsequently DprA and RecA were both shown in S. pneumoniae to be required to protect incoming ssDNA from immediate degradation. Role of DprA in non-transformable species is not known. The gene symbol smf was assigned in E. coli, but without assignment of function.
Probab=30.58 E-value=83 Score=29.94 Aligned_cols=36 Identities=17% Similarity=0.075 Sum_probs=32.2
Q ss_pred cCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCC
Q 016960 281 KVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 281 ~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
-+|++||+++...|-|...+..|.++|.+.|-+...
T Consensus 155 ls~~vivve~~~~sGtl~ta~~A~~~gr~v~~~pg~ 190 (220)
T TIGR00732 155 LSRAVLVVEAPLKSGALITARYALEQGREVFAYPGD 190 (220)
T ss_pred hcCEEEEEECCCCCchHHHHHHHHHhCCcEEEEcCC
Confidence 468999999999999999999999999999998654
No 263
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=30.52 E-value=2.2e+02 Score=26.67 Aligned_cols=23 Identities=17% Similarity=0.339 Sum_probs=16.7
Q ss_pred ccCCCEE-EEcCCCCCHHHHHHHH
Q 016960 94 VNKGDVV-VLPAFGAAVEEMVTLN 116 (380)
Q Consensus 94 l~~g~~V-IIrAHGv~~~~~~~l~ 116 (380)
..+||.+ +|+.-|-++++.+.++
T Consensus 107 ~~~gDvli~iS~SG~s~~v~~a~~ 130 (196)
T PRK10886 107 GHAGDVLLAISTRGNSRDIVKAVE 130 (196)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHH
Confidence 3567875 6888899988776653
No 264
>PRK13914 invasion associated secreted endopeptidase; Provisional
Probab=30.49 E-value=95 Score=33.39 Aligned_cols=69 Identities=23% Similarity=0.354 Sum_probs=44.1
Q ss_pred hhHHH-HHHHcCCcceecceEEEEeCCCCC-cccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecC
Q 016960 7 SDIIK-KLKENGFEYTWGNVKVKLAESYGF-CWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPV 84 (380)
Q Consensus 7 ~~~~~-~~~~~~~~~~~g~mkI~lA~~~GF-C~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~ 84 (380)
..||. .++-.|.++.||+. .+.|| |.|.-+ .+++. + + |+-|..-......|..+ +
T Consensus 367 ~~iv~~A~~~lG~PY~wGG~-----sp~gfDCSGlV~---~vy~~---~-G---------I~LPR~s~~Q~~~G~~V-s- 423 (481)
T PRK13914 367 SAIIAEAQKHLGKAYSWGGN-----GPTTFDCSGYTK---YVFAK---A-G---------ISLPRTSGAQYASTTRI-S- 423 (481)
T ss_pred HHHHHHHHHHcCCcccCCCC-----CCCCcccHHHHH---HHHHH---c-C---------CCCCCChHHHHhcCccc-c-
Confidence 34555 44455999999985 56799 999853 56543 2 2 45555555555666543 2
Q ss_pred CccccccccccCCCEEEEcC
Q 016960 85 EEGKKQFDVVNKGDVVVLPA 104 (380)
Q Consensus 85 ~~~~~~~~el~~g~~VIIrA 104 (380)
.+++.+||.|+|..
T Consensus 424 ------~selqpGDLVFF~~ 437 (481)
T PRK13914 424 ------ESQAKPGDLVFFDY 437 (481)
T ss_pred ------cccCCCCCEEEeCC
Confidence 35677899888863
No 265
>PRK15317 alkyl hydroperoxide reductase subunit F; Provisional
Probab=30.45 E-value=2.7e+02 Score=29.41 Aligned_cols=52 Identities=12% Similarity=0.047 Sum_probs=32.3
Q ss_pred eEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEec
Q 016960 25 VKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIP 83 (380)
Q Consensus 25 mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~ 83 (380)
+++.+..+..||..|.+|.+. ....++.=..-+. +.-|+|+..+++ ++..|.
T Consensus 120 i~~fv~~~Cp~Cp~~v~~~~~---~a~~~~~i~~~~i-d~~~~~~~~~~~---~v~~VP 171 (517)
T PRK15317 120 FETYVSLSCHNCPDVVQALNL---MAVLNPNITHTMI-DGALFQDEVEAR---NIMAVP 171 (517)
T ss_pred EEEEEcCCCCCcHHHHHHHHH---HHHhCCCceEEEE-EchhCHhHHHhc---CCcccC
Confidence 678999999999977776643 3333432122233 667788766654 555443
No 266
>cd01917 ACS_2 Acetyl-CoA synthase (ACS), also known as acetyl-CoA decarbonylase, is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA. ACS forms a heterotetramer with carbon monoxide dehydrogenase (CODH) consisting of two ACS and two CODH subunits. CODH reduces carbon dioxide to carbon monoxide and ACS then synthesizes acetyl-CoA from carbon monoxide, CoA, and a methyl group donated by another protein (CoFeSP). ACS has three structural domains, an N-terminal rossman fold domain with a helical region at its N-terminus which interacts with CODH, and two alpha + beta fold domains. A Ni-Fe-S center referred to as the A-cluster is located in the C-terminal domain. A large cavity exists between the three domains which may bind CoA.
Probab=30.43 E-value=77 Score=31.86 Aligned_cols=38 Identities=11% Similarity=0.096 Sum_probs=32.4
Q ss_pred HHHhcCCcEEecc----------CchhHHHHHHHHHHhhCCCeEEEEe
Q 016960 114 TLNNKNVQIVDTT----------CPWVSKVWTSVEKHKKGDYTSIIHG 151 (380)
Q Consensus 114 ~l~~~g~~viDaT----------CP~V~kv~~~v~~~~~~Gy~iIIiG 151 (380)
.+++.|+.+||.| ||-.+.+.+++++|.++||-+++.|
T Consensus 114 iiR~~GvplV~G~IPGva~ivG~a~~~e~~~~I~~e~q~r~~lv~l~G 161 (287)
T cd01917 114 IVRGLGIKMVDWTIPGEAVILGRAKDSKALKKIVDDLMGRGFMLFLCD 161 (287)
T ss_pred HHHHcCCceecCCCCeEEEEEecCCChHHHHHHHHHHHHCCcEEEEec
Confidence 4567788888876 4577899999999999999999999
No 267
>TIGR02483 PFK_mixed phosphofructokinase. Members of this family that are characterized, save one, are phosphofructokinases dependent on pyrophosphate (EC 2.7.1.90) rather than ATP (EC 2.7.1.11). The exception is one of three phosphofructokinases from Streptomyces coelicolor. Family members are both bacterial and archaeal.
Probab=30.37 E-value=80 Score=31.95 Aligned_cols=44 Identities=18% Similarity=0.369 Sum_probs=33.2
Q ss_pred HHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeC
Q 016960 268 QERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWID 314 (380)
Q Consensus 268 ~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie 314 (380)
..|+.+++.|-+-.+|.+|||||-.|-.+-+. ++ +.+.+...|-
T Consensus 81 ~~~~~~~~~l~~~~Id~LivIGGdgS~~~a~~--L~-~~gi~vigiP 124 (324)
T TIGR02483 81 DGDDKIVANLKELGLDALIAIGGDGTLGIARR--LA-DKGLPVVGVP 124 (324)
T ss_pred HHHHHHHHHHHHcCCCEEEEECCchHHHHHHH--HH-hcCCCEEeec
Confidence 57888888887678999999999999876643 23 2567776663
No 268
>cd06836 PLPDE_III_ODC_DapDC_like_1 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Uncharacterized Proteins with similarity to Ornithine and Diaminopimelate Decarboxylases. This subfamily contains uncharacterized proteins with similarity to ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine. Proteins in this subfamily may function as PLP-dependent decarbo
Probab=30.35 E-value=1.3e+02 Score=30.61 Aligned_cols=72 Identities=13% Similarity=0.032 Sum_probs=46.4
Q ss_pred cCHHHHHHHHHcCcEEec-CCcccc-ccc-cccCCCEEEEcCCCCCHHHHHHHHhcCCcE-EeccCchhHHHHHHHHH
Q 016960 66 HNPTVNKRLEEMAVQNIP-VEEGKK-QFD-VVNKGDVVVLPAFGAAVEEMVTLNNKNVQI-VDTTCPWVSKVWTSVEK 139 (380)
Q Consensus 66 HN~~Vv~~L~~~Gv~~v~-~~~~~~-~~~-el~~g~~VIIrAHGv~~~~~~~l~~~g~~v-iDaTCP~V~kv~~~v~~ 139 (380)
-||.+++.|.+.|..+-= +..+++ -+. -+ +++.+++...+-+++.++.+.+.|+.| +|.-.-+ .++.+.+++
T Consensus 38 ~~~~il~~l~~~G~g~DvaS~~El~~al~~G~-~~~~Ii~~gp~K~~~~L~~ai~~gv~i~iDS~~El-~~i~~~a~~ 113 (379)
T cd06836 38 PLVPVLRLLAEAGAGAEVASPGELELALAAGF-PPERIVFDSPAKTRAELREALELGVAINIDNFQEL-ERIDALVAE 113 (379)
T ss_pred CCHHHHHHHHHcCCcEEEcCHHHHHHHHHcCC-ChhhEEEeCCCCCHHHHHHHHHCCCEEEECCHHHH-HHHHHHHHH
Confidence 467799999998876411 111110 011 12 356799999999999999999999855 5654443 455555544
No 269
>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=30.32 E-value=1.1e+02 Score=27.80 Aligned_cols=60 Identities=13% Similarity=0.261 Sum_probs=43.4
Q ss_pred cccccccccHHHHHhHHHHHHhhhh---cCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCC
Q 016960 256 HFISFNTICDATQERQDAMYKMVEE---KVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~---~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
++.+.|+-|... +=..++.+++.. ...+..|+|...|+.+..+..+|...+.|.+-....
T Consensus 42 ~~~~~d~~~~~~-~~~~~~~~~~~~~~~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~ 104 (298)
T cd06269 42 GYEIYDSCCSPS-DAFSAALDLCSLLEKSRGVVAVIGPSSSSSAEAVASLLGALHIPQISYSAT 104 (298)
T ss_pred eeEEEecCCChH-HHHHHHHHHHhcCCCCCceEEEECCCCchHHHHHHHHhccCCCcEEecccC
Confidence 345677777443 334556667732 268999999999999999999999999888665443
No 270
>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=30.26 E-value=1.3e+02 Score=28.65 Aligned_cols=98 Identities=16% Similarity=0.190 Sum_probs=54.8
Q ss_pred cccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccC-CCCcchhhh-ccc-
Q 016960 256 HFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIG-PGNKIAYKL-MHG- 332 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~-~~~~~~~~~-~~~- 332 (380)
++.+.|+-|.+... ++.+.+|.. +-.+..|||...|+++..+.+++++.+.|.+.+.+..+.. ......|.. ...
T Consensus 41 ~l~~~d~~~~~~~a-~~~~~~li~-~~~v~~vig~~~s~~~~~~~~~~~~~~vP~v~~~~~~~~~~~~~~~~~~~~~~~~ 118 (312)
T cd06333 41 ELIVLDDGSDPTKA-VTNARKLIE-EDKVDAIIGPSTTPATMAVAPVAEEAKTPMISLAPAAAIVEPKRKWVFKTPQNDR 118 (312)
T ss_pred EEEEecCCCCHHHH-HHHHHHHHh-hCCeEEEECCCCCHHHHHHHHHHHhcCCCEEEccCCccccCCCCCcEEEcCCCcH
Confidence 45566777765433 245555662 2234445677778888888899988899988887654321 111111211 111
Q ss_pred -hhhhhcccCC-CCCCEEEEEeCCC
Q 016960 333 -ELVEKENWLP-KGQITIGITSGAS 355 (380)
Q Consensus 333 -~~~~~~~wl~-~~~~~VGITAGAS 355 (380)
+.....+|+. .+.++|++..+.+
T Consensus 119 ~~~~~~~~~l~~~g~~~vail~~~~ 143 (312)
T cd06333 119 LMAEAILADMKKRGVKTVAFIGFSD 143 (312)
T ss_pred HHHHHHHHHHHHcCCCEEEEEecCc
Confidence 1111113331 3788999997644
No 271
>PRK10537 voltage-gated potassium channel; Provisional
Probab=30.24 E-value=96 Score=32.20 Aligned_cols=75 Identities=16% Similarity=0.223 Sum_probs=51.0
Q ss_pred CCCEEEEcCCCCCHHHHHHHHhcCCcE--EeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccCC-cEEEEc
Q 016960 96 KGDVVVLPAFGAAVEEMVTLNNKNVQI--VDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAG-KYIIVK 172 (380)
Q Consensus 96 ~g~~VIIrAHGv~~~~~~~l~~~g~~v--iDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~~-~~~vv~ 172 (380)
++-+||+-.--+...+.+.|+++|.++ ||.- ..++..++|+. ++.||+.++|+---.|-.. +++++-
T Consensus 240 k~HvII~G~g~lg~~v~~~L~~~g~~vvVId~d---------~~~~~~~~g~~-vI~GD~td~e~L~~AgI~~A~aVI~~ 309 (393)
T PRK10537 240 KDHFIICGHSPLAINTYLGLRQRGQAVTVIVPL---------GLEHRLPDDAD-LIPGDSSDSAVLKKAGAARARAILAL 309 (393)
T ss_pred CCeEEEECCChHHHHHHHHHHHCCCCEEEEECc---------hhhhhccCCCc-EEEeCCCCHHHHHhcCcccCCEEEEc
Confidence 345677888778889999999888654 6632 23445567776 6899999999875555332 466665
Q ss_pred ChhhHHHh
Q 016960 173 NMKEAEYV 180 (380)
Q Consensus 173 ~~~e~~~~ 180 (380)
..+|.+++
T Consensus 310 t~dD~~Nl 317 (393)
T PRK10537 310 RDNDADNA 317 (393)
T ss_pred CCChHHHH
Confidence 55565553
No 272
>TIGR01668 YqeG_hyp_ppase HAD superfamily (subfamily IIIA) phosphatase, TIGR01668. This family consists of sequences from fungi, plants, cyanobacteria, gram-positive bacteria and Deinococcus. There is presently no characterization of any sequence in this family.
Probab=29.96 E-value=1.4e+02 Score=26.75 Aligned_cols=78 Identities=9% Similarity=0.116 Sum_probs=50.5
Q ss_pred HHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCC---eEeeCCC--CccCCCCcchhhhccchhhhhcccCCCCCCEE
Q 016960 274 MYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIP---SYWIDSE--KRIGPGNKIAYKLMHGELVEKENWLPKGQITI 348 (380)
Q Consensus 274 ~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~---t~~Ie~~--~dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~V 348 (380)
+..++ +..++-...+. .=.+..-+..++++.+.+ +++|++- .|+... .. .|..+|
T Consensus 74 ~~~~~-~~~gl~~~~~~-~KP~p~~~~~~l~~~~~~~~~~l~IGDs~~~Di~aA----------------~~--aGi~~i 133 (170)
T TIGR01668 74 AKAVE-KALGIPVLPHA-VKPPGCAFRRAHPEMGLTSEQVAVVGDRLFTDVMGG----------------NR--NGSYTI 133 (170)
T ss_pred HHHHH-HHcCCEEEcCC-CCCChHHHHHHHHHcCCCHHHEEEECCcchHHHHHH----------------HH--cCCeEE
Confidence 33444 34565544442 223455666777777642 7888876 366541 22 488999
Q ss_pred EEEeCCCCCHHHHHHHHHHHHhh
Q 016960 349 GITSGASTPDKAVEDVLKKVFEI 371 (380)
Q Consensus 349 GITAGASTP~~lI~eV~~~l~~~ 371 (380)
+|+.|.++.+++...++.+++.+
T Consensus 134 ~v~~g~~~~~~~~~~~~~~~~~~ 156 (170)
T TIGR01668 134 LVEPLVHPDQWFIKRIWRRVERT 156 (170)
T ss_pred EEccCcCCccccchhhHHHHHHH
Confidence 99999999998887777776654
No 273
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=29.92 E-value=2.3e+02 Score=28.92 Aligned_cols=78 Identities=14% Similarity=0.233 Sum_probs=47.0
Q ss_pred ceeEEEEcCCCChH-HHHHHHHHHHHHHhhhccccccccccccccccc-HHHHHhHH-HHHHhhhhcCCEEEEEccCCCc
Q 016960 218 VKVGIANQTTMLKG-ETEEIGKLVEKTMMRKFGVENVNEHFISFNTIC-DATQERQD-AMYKMVEEKVDLILVVGGWNSS 294 (380)
Q Consensus 218 ~kv~vvsQTT~~~~-~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC-~AT~~RQ~-a~~eLa~~~vD~miVVGG~nSS 294 (380)
+++.||.-..+... .++.+.+.|++ . ..++.+|+.++ +.|.+-=+ ++..+-...+|++|=|||-.+-
T Consensus 31 ~~~lvvtd~~~~~~g~~~~v~~~L~~----~------g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~i 100 (382)
T PRK10624 31 KKALIVTDKTLVKCGVVAKVTDVLDA----A------GLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGGGSPQ 100 (382)
T ss_pred CEEEEEeCcchhhCcchHHHHHHHHH----C------CCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCChHHH
Confidence 57888876544333 56667666654 1 12345565554 33333222 3333323479999999999999
Q ss_pred hhHHHHHHHHH
Q 016960 295 NTSHLQEIAED 305 (380)
Q Consensus 295 NT~kL~eia~~ 305 (380)
.+-|.+-+...
T Consensus 101 D~aK~ia~~~~ 111 (382)
T PRK10624 101 DTCKAIGIISN 111 (382)
T ss_pred HHHHHHHHHHH
Confidence 99988776543
No 274
>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=29.53 E-value=88 Score=31.38 Aligned_cols=44 Identities=25% Similarity=0.390 Sum_probs=31.1
Q ss_pred HHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEee
Q 016960 268 QERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWI 313 (380)
Q Consensus 268 ~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~I 313 (380)
..++.+++.|-+..+|.+++|||-.|-.+-+. +++..+.+...|
T Consensus 78 ~~~~~~~~~l~~~~Id~Li~IGGdgs~~~a~~--L~e~~~i~vigi 121 (301)
T TIGR02482 78 EGRQKAVENLKKLGIEGLVVIGGDGSYTGAQK--LYEEGGIPVIGL 121 (301)
T ss_pred HHHHHHHHHHHHcCCCEEEEeCCchHHHHHHH--HHHhhCCCEEee
Confidence 45777787787678999999999998766532 243355666554
No 275
>PRK13936 phosphoheptose isomerase; Provisional
Probab=29.47 E-value=1.2e+02 Score=28.06 Aligned_cols=40 Identities=18% Similarity=0.228 Sum_probs=34.0
Q ss_pred hhhhcCCEEEEEccC-CCchhHHHHHHHHHhCCCeEeeCCCC
Q 016960 277 MVEEKVDLILVVGGW-NSSNTSHLQEIAEDRGIPSYWIDSEK 317 (380)
Q Consensus 277 La~~~vD~miVVGG~-nSSNT~kL~eia~~~~~~t~~Ie~~~ 317 (380)
++ ++-|++|+|... +|.++..+++.|++.|.++.-|.+..
T Consensus 108 ~~-~~~Dv~i~iS~sG~t~~~~~~~~~ak~~g~~iI~IT~~~ 148 (197)
T PRK13936 108 LG-QPGDVLLAISTSGNSANVIQAIQAAHEREMHVVALTGRD 148 (197)
T ss_pred hC-CCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCC
Confidence 44 478999999874 67789999999999999999998864
No 276
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=29.36 E-value=1.4e+02 Score=29.73 Aligned_cols=71 Identities=14% Similarity=0.222 Sum_probs=52.3
Q ss_pred CEEEEEccCCCchhH--HHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCC-CCCCEEEEEeCCCCCHH
Q 016960 283 DLILVVGGWNSSNTS--HLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLP-KGQITIGITSGASTPDK 359 (380)
Q Consensus 283 D~miVVGG~nSSNT~--kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~-~~~~~VGITAGASTP~~ 359 (380)
=-++||.+--|.||. +|-.+|++++.|-..+.+-++|-. |+- +....|+||--.+--..
T Consensus 149 AkLVIIA~DVsPie~vk~LpaLCrk~~VPY~iVktKaeLG~------------------AIGkKtravVAItD~g~ed~~ 210 (263)
T PTZ00222 149 ARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGD------------------AIGRKTATCVAITDVNAEDEA 210 (263)
T ss_pred ceEEEEeCCCCHHHHHHHHHHHHHhcCCCEEEECCHHHHHH------------------HHCCCCCeEEEEeeCCcccHH
Confidence 346677777888988 489999999999999999998853 331 13678999976665555
Q ss_pred HHHHHHHHHHhh
Q 016960 360 AVEDVLKKVFEI 371 (380)
Q Consensus 360 lI~eV~~~l~~~ 371 (380)
-...+++.+...
T Consensus 211 ~l~~lv~~~~~~ 222 (263)
T PTZ00222 211 ALKNLIRSVNAR 222 (263)
T ss_pred HHHHHHHHHHHh
Confidence 666666666543
No 277
>cd02985 TRX_CDSP32 TRX family, chloroplastic drought-induced stress protein of 32 kD (CDSP32); CDSP32 is composed of two TRX domains, a C-terminal TRX domain which contains a redox active CXXC motif and an N-terminal TRX-like domain which contains an SXXS sequence instead of the redox active motif. CDSP32 is a stress-inducible TRX, i.e., it acts as a TRX by reducing protein disulfides and is induced by environmental and oxidative stress conditions. It plays a critical role in plastid defense against oxidative damage, a role related to its function as a physiological electron donor to BAS1, a plastidic 2-cys peroxiredoxin. Plants lacking CDSP32 exhibit decreased photosystem II photochemical efficiencies and chlorophyll retention compared to WT controls, as well as an increased proportion of BAS1 in its overoxidized monomeric form.
Probab=29.09 E-value=2.6e+02 Score=22.59 Aligned_cols=77 Identities=18% Similarity=0.278 Sum_probs=45.2
Q ss_pred ccccccccHHHHHhHHHHHHhhhhcCC-EEEE-EccCCCchhHHHHHHHHHhC---CCeEeeCCCCccCCCCcchhhhcc
Q 016960 257 FISFNTICDATQERQDAMYKMVEEKVD-LILV-VGGWNSSNTSHLQEIAEDRG---IPSYWIDSEKRIGPGNKIAYKLMH 331 (380)
Q Consensus 257 ~~~~nTIC~AT~~RQ~a~~eLa~~~vD-~miV-VGG~nSSNT~kL~eia~~~~---~~t~~Ie~~~dL~~~~~~~~~~~~ 331 (380)
+.++-+.|..-+.-...+.+|++ +.+ +.++ |-+-.+. ...++|++.+ .|||.+
T Consensus 20 v~F~a~wC~~C~~~~p~l~~la~-~~~~v~~~~vd~d~~~---~~~~l~~~~~V~~~Pt~~~------------------ 77 (103)
T cd02985 20 LEFALKHSGPSVKIYPTMVKLSR-TCNDVVFLLVNGDEND---STMELCRREKIIEVPHFLF------------------ 77 (103)
T ss_pred EEEECCCCHhHHHHhHHHHHHHH-HCCCCEEEEEECCCCh---HHHHHHHHcCCCcCCEEEE------------------
Confidence 34778999888877788888884 433 2222 2222222 2235666644 444422
Q ss_pred chhhhhcccCCCCCCEEEEEeCCCCCHHHHHHHHH
Q 016960 332 GELVEKENWLPKGQITIGITSGASTPDKAVEDVLK 366 (380)
Q Consensus 332 ~~~~~~~~wl~~~~~~VGITAGASTP~~lI~eV~~ 366 (380)
| .+.+.++-..|+. |..|.+.|..
T Consensus 78 ---------~-~~G~~v~~~~G~~-~~~l~~~~~~ 101 (103)
T cd02985 78 ---------Y-KDGEKIHEEEGIG-PDELIGDVLY 101 (103)
T ss_pred ---------E-eCCeEEEEEeCCC-HHHHHHHHHh
Confidence 2 2446678888855 7777777654
No 278
>PRK13938 phosphoheptose isomerase; Provisional
Probab=29.01 E-value=1.2e+02 Score=28.36 Aligned_cols=55 Identities=16% Similarity=0.071 Sum_probs=40.6
Q ss_pred ccccHHHHH-hHHHHHHhhhhcCCEEEEEcc-CCCchhHHHHHHHHHhCCCeEeeCCCCc
Q 016960 261 NTICDATQE-RQDAMYKMVEEKVDLILVVGG-WNSSNTSHLQEIAEDRGIPSYWIDSEKR 318 (380)
Q Consensus 261 nTIC~AT~~-RQ~a~~eLa~~~vD~miVVGG-~nSSNT~kL~eia~~~~~~t~~Ie~~~d 318 (380)
|...+++.- ||-+ ..+ .+-|++|++-. -+|.|+..+++.|++.|.++..|-+..+
T Consensus 95 nd~~~~~~~~~~~~--~~~-~~~DllI~iS~SG~t~~vi~a~~~Ak~~G~~vI~iT~~~~ 151 (196)
T PRK13938 95 NDYDYDTVFARALE--GSA-RPGDTLFAISTSGNSMSVLRAAKTARELGVTVVAMTGESG 151 (196)
T ss_pred ccccHHHHHHHHHH--hcC-CCCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCC
Confidence 444555433 4433 345 57899999876 4788999999999999999999988654
No 279
>COG2008 GLY1 Threonine aldolase [Amino acid transport and metabolism]
Probab=29.00 E-value=5.6e+02 Score=26.48 Aligned_cols=65 Identities=14% Similarity=-0.046 Sum_probs=43.5
Q ss_pred ceeEEEEcCC-----CChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCC
Q 016960 218 VKVGIANQTT-----MLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWN 292 (380)
Q Consensus 218 ~kv~vvsQTT-----~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~n 292 (380)
..+++.+|.| .+.+++++|.+..++. . .| -..+-.+++|-.+. . +.++++++ .-||.+-+-|.|+
T Consensus 132 ~~~~~e~~~te~GtVy~l~el~~i~~~~k~~---~-l~-LHmDGAR~~nA~va---l-g~~~~~~~-~~~D~v~~~~tK~ 201 (342)
T COG2008 132 PLAVLENTATEGGTVYPLDELEAISAVCKEH---G-LP-LHMDGARLANALVA---L-GVALKTIK-SYVDSVSFCLTKG 201 (342)
T ss_pred ceEEEeeccCCCceecCHHHHHHHHHHHHHh---C-Cc-eeechHHHHHHHHH---c-CCCHHHHH-hhCCEEEEecccC
Confidence 4788999999 8899999999888762 1 11 11223344443332 2 27888888 5799988877765
No 280
>PLN02564 6-phosphofructokinase
Probab=28.76 E-value=1.2e+02 Score=32.73 Aligned_cols=53 Identities=13% Similarity=0.243 Sum_probs=41.1
Q ss_pred HhHHHHHHhhhhcCCEEEEEccCCCchhH-HHHHHHHHhCCCeEeeCCCCccCC
Q 016960 269 ERQDAMYKMVEEKVDLILVVGGWNSSNTS-HLQEIAEDRGIPSYWIDSEKRIGP 321 (380)
Q Consensus 269 ~RQ~a~~eLa~~~vD~miVVGG~nSSNT~-kL~eia~~~~~~t~~Ie~~~dL~~ 321 (380)
.+++++..|-+..+|.++||||-.|-.+- +|++-+++.|.+.-.|-=+.=||.
T Consensus 164 ~~~~iv~~L~~~~Id~LivIGGDGS~~gA~~L~e~~~~~g~~i~VIGIPKTIDN 217 (484)
T PLN02564 164 DTSKIVDSIQDRGINQVYIIGGDGTQKGASVIYEEIRRRGLKVAVAGIPKTIDN 217 (484)
T ss_pred hHHHHHHHHHHhCCCEEEEECCchHHHHHHHHHHHHHHcCCCceEEEecccccC
Confidence 67788888876789999999999998665 888888888877444555665654
No 281
>PLN02424 ketopantoate hydroxymethyltransferase
Probab=28.64 E-value=2e+02 Score=29.56 Aligned_cols=99 Identities=14% Similarity=0.136 Sum_probs=63.6
Q ss_pred EEE-eCCCC-CcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEE--E
Q 016960 27 VKL-AESYG-FCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVV--L 102 (380)
Q Consensus 27 I~l-A~~~G-FC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VI--I 102 (380)
+++ .=|+| |.-..+.|++-|.+.+++.+-.-|.+=|-..+.-..++.|.+.||.++-... | -|.-+... +
T Consensus 98 ~vVaDmPfgSY~~s~e~av~nA~rl~~eaGa~aVKlEGg~~~~~~~I~~l~~~GIPV~gHiG----L--tPQs~~~lGGy 171 (332)
T PLN02424 98 LLVGDLPFGSYESSTDQAVESAVRMLKEGGMDAVKLEGGSPSRVTAAKAIVEAGIAVMGHVG----L--TPQAISVLGGF 171 (332)
T ss_pred EEEeCCCCCCCCCCHHHHHHHHHHHHHHhCCcEEEECCCcHHHHHHHHHHHHcCCCEEEeec----c--cceeehhhcCc
Confidence 444 45777 7778999999999987653224588877766667889999999999985321 1 02111111 5
Q ss_pred cCCCCCHHH-------HHHHHhcCCcEEeccCchhH
Q 016960 103 PAFGAAVEE-------MVTLNNKNVQIVDTTCPWVS 131 (380)
Q Consensus 103 rAHGv~~~~-------~~~l~~~g~~viDaTCP~V~ 131 (380)
|..|-+.+. -..+++.|..-|=-.|---.
T Consensus 172 kvqGr~~~~a~~li~dA~ale~AGAf~ivLE~Vp~~ 207 (332)
T PLN02424 172 RPQGRTAESAVKVVETALALQEAGCFAVVLECVPAP 207 (332)
T ss_pred cccCCCHHHHHHHHHHHHHHHHcCCcEEEEcCCcHH
Confidence 667777663 33445566666666665444
No 282
>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=28.45 E-value=1.4e+02 Score=29.91 Aligned_cols=78 Identities=14% Similarity=0.161 Sum_probs=45.1
Q ss_pred eeEEEEcCCCChH-HHHHHHHHHHHHHhhhcccccccccccccc-cccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCch
Q 016960 219 KVGIANQTTMLKG-ETEEIGKLVEKTMMRKFGVENVNEHFISFN-TICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSN 295 (380)
Q Consensus 219 kv~vvsQTT~~~~-~~~~i~~~l~~~~~~~~~~~~~~~~~~~~n-TIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSN 295 (380)
|+.+|+-..+... .++.+.+.|++ . .-++.+|+ .--++|.+-= +++..+....+|++|-|||-+.-.
T Consensus 23 r~lvVt~~~~~~~~~~~~v~~~L~~----~------~i~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~~D 92 (366)
T PF00465_consen 23 RVLVVTDPSLSKSGLVDRVLDALEE----A------GIEVQVFDGVGPNPTLEDVDEAAEQARKFGADCIIAIGGGSVMD 92 (366)
T ss_dssp EEEEEEEHHHHHHTHHHHHHHHHHH----T------TCEEEEEEEESSS-BHHHHHHHHHHHHHTTSSEEEEEESHHHHH
T ss_pred CEEEEECchHHhCccHHHHHHHHhh----C------ceEEEEEecCCCCCcHHHHHHHHHHHHhcCCCEEEEcCCCCcCc
Confidence 6777765544443 45666666643 1 11233333 2222222222 233333335799999999999999
Q ss_pred hHHHHHHHHHh
Q 016960 296 TSHLQEIAEDR 306 (380)
Q Consensus 296 T~kL~eia~~~ 306 (380)
+-|.+.+....
T Consensus 93 ~aK~va~~~~~ 103 (366)
T PF00465_consen 93 AAKAVALLLAN 103 (366)
T ss_dssp HHHHHHHHHTS
T ss_pred HHHHHHhhccC
Confidence 99998888654
No 283
>COG4822 CbiK Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]
Probab=28.41 E-value=2.1e+02 Score=28.16 Aligned_cols=45 Identities=22% Similarity=0.268 Sum_probs=35.4
Q ss_pred EEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEe
Q 016960 99 VVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHG 151 (380)
Q Consensus 99 ~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG 151 (380)
.=++||+ .|..+.+.|++|.-.++|+. .+.-.+++++||.=+||-
T Consensus 36 ydvfrAf-TS~kIIkkLK~rdgi~~dTP-------~~aL~klk~~gy~eviiQ 80 (265)
T COG4822 36 YDVFRAF-TSRKIIKKLKERDGIDFDTP-------IQALNKLKDQGYEEVIIQ 80 (265)
T ss_pred HHHHHHH-hHHHHHHHHHhhcCcccCCH-------HHHHHHHHHccchheeee
Confidence 3468887 57789999999988888886 455677889999977764
No 284
>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=28.22 E-value=4.8e+02 Score=24.03 Aligned_cols=70 Identities=21% Similarity=0.313 Sum_probs=37.3
Q ss_pred hhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCC-ccCCCCcchhhh-ccchhhhhcccC-CCCCCEEEEEeC
Q 016960 277 MVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEK-RIGPGNKIAYKL-MHGELVEKENWL-PKGQITIGITSG 353 (380)
Q Consensus 277 La~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~-dL~~~~~~~~~~-~~~~~~~~~~wl-~~~~~~VGITAG 353 (380)
+. .++|.+|+.+.. + . .+++..++.+.|...+.+.. +..- .-+.... ..+. ..-++| ..|+++|++.+|
T Consensus 49 ~~-~~vdgii~~~~~--~-~-~~~~~~~~~~~pvV~~~~~~~~~~~-~~v~~D~~~a~~--~~~~~l~~~g~~~i~~i~~ 120 (270)
T cd01544 49 IL-EDVDGIIAIGKF--S-Q-EQLAKLAKLNPNLVFVDSNPAPDGF-DSVVPDFEQAVE--KALDYLLELGHTRIGFIGG 120 (270)
T ss_pred hc-cCcCEEEEecCC--C-H-HHHHHHHhhCCCEEEECCCCCCCCC-CEEEECHHHHHH--HHHHHHHHcCCCcEEEECC
Confidence 54 689999998632 2 2 44444556788998887642 2111 0011000 1111 111333 257899999887
Q ss_pred C
Q 016960 354 A 354 (380)
Q Consensus 354 A 354 (380)
.
T Consensus 121 ~ 121 (270)
T cd01544 121 E 121 (270)
T ss_pred C
Confidence 4
No 285
>PTZ00468 phosphofructokinase family protein; Provisional
Probab=28.20 E-value=86 Score=37.61 Aligned_cols=46 Identities=17% Similarity=0.234 Sum_probs=32.6
Q ss_pred HHhHHHHHHhhhhcCCEEEEEccCCCc-hhHHHHHHHHHhCCCeEee
Q 016960 268 QERQDAMYKMVEEKVDLILVVGGWNSS-NTSHLQEIAEDRGIPSYWI 313 (380)
Q Consensus 268 ~~RQ~a~~eLa~~~vD~miVVGG~nSS-NT~kL~eia~~~~~~t~~I 313 (380)
.+++.+++.|-+-.+|.+|||||-.|- +..+|.+-+++.|.+.-.|
T Consensus 183 e~~~~~le~lkkl~Id~LVvIGGDgS~t~A~~LaEy~~~~g~~I~VI 229 (1328)
T PTZ00468 183 EQMRASLEICEKLKLHGLVVIGGDDSNTNAAVLAEYFKRNSSSTVVV 229 (1328)
T ss_pred HHHHHHHHHHHHhCCCEEEEECCchHHHHHHHHHHHHHhcCCCeeEE
Confidence 345555555544579999999999987 5569999888887433333
No 286
>PRK13937 phosphoheptose isomerase; Provisional
Probab=28.17 E-value=1.4e+02 Score=27.25 Aligned_cols=38 Identities=18% Similarity=0.198 Sum_probs=32.1
Q ss_pred hcCCEEEEEcc-CCCchhHHHHHHHHHhCCCeEeeCCCC
Q 016960 280 EKVDLILVVGG-WNSSNTSHLQEIAEDRGIPSYWIDSEK 317 (380)
Q Consensus 280 ~~vD~miVVGG-~nSSNT~kL~eia~~~~~~t~~Ie~~~ 317 (380)
.+-|++|+|.. -+|.++...++.|++.|.+++.|.+..
T Consensus 105 ~~~Dl~i~iS~sG~t~~~~~~~~~ak~~g~~~I~iT~~~ 143 (188)
T PRK13937 105 RPGDVLIGISTSGNSPNVLAALEKARELGMKTIGLTGRD 143 (188)
T ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEeCCC
Confidence 47899999974 477888899999999999999998754
No 287
>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=27.92 E-value=1.2e+02 Score=29.07 Aligned_cols=111 Identities=14% Similarity=0.132 Sum_probs=62.5
Q ss_pred cccccccccHHHHHhHHHHHHhhh-hcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCC-ccCCCC--cchhhh--
Q 016960 256 HFISFNTICDATQERQDAMYKMVE-EKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEK-RIGPGN--KIAYKL-- 329 (380)
Q Consensus 256 ~~~~~nTIC~AT~~RQ~a~~eLa~-~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~-dL~~~~--~~~~~~-- 329 (380)
++.+.||-+.+...+ +++++|.. ..+|+ |||+..|+.+..+.+++++.+.|.....+.. ++.... ...|..
T Consensus 40 ~l~~~D~~~~~~~~~-~~~~~lv~~~~v~~--iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~ 116 (336)
T cd06360 40 EFVVEDDEAKPDVAV-EKARKLIEQDKVDV--VVGPVHSGEALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSF 116 (336)
T ss_pred EEEEcCCCCChHHHH-HHHHHHHHHhCCcE--EEccCccHhHHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeC
Confidence 456778888765444 66667752 35666 6788888888899999988888887776543 332111 122211
Q ss_pred -ccchhhhhcccCC-CCCCEEEEEeCCCC-CHHHHHHHHHHHH
Q 016960 330 -MHGELVEKENWLP-KGQITIGITSGAST-PDKAVEDVLKKVF 369 (380)
Q Consensus 330 -~~~~~~~~~~wl~-~~~~~VGITAGAST-P~~lI~eV~~~l~ 369 (380)
...+.....+|+. .+.++|++..+.+. .....+.....+.
T Consensus 117 ~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~ 159 (336)
T cd06360 117 SNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEAFT 159 (336)
T ss_pred chHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHHHH
Confidence 1111112224442 35788999875432 2223444444444
No 288
>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=27.85 E-value=3.7e+02 Score=25.00 Aligned_cols=76 Identities=20% Similarity=0.121 Sum_probs=42.3
Q ss_pred HHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhh-hccchhhhhcccC-CCCCCEEEEE
Q 016960 274 MYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYK-LMHGELVEKENWL-PKGQITIGIT 351 (380)
Q Consensus 274 ~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~-~~~~~~~~~~~wl-~~~~~~VGIT 351 (380)
...+.+..+|.+++.+...+ ....+.+++.+.|...+++..+ ....-+... ...+.. ..++| ..+.++|++.
T Consensus 49 ~~~~~~~~~dgiii~~~~~~---~~~~~~~~~~~ipvV~~~~~~~-~~~~~v~~d~~~~g~~--~~~~L~~~g~~~i~~i 122 (283)
T cd06279 49 SALVVSALVDGFIVYGVPRD---DPLVAALLRRGLPVVVVDQPLP-PGVPSVGIDDRAAARE--AARHLLDLGHRRIGIL 122 (283)
T ss_pred HHHHHhcCCCEEEEeCCCCC---hHHHHHHHHcCCCEEEEecCCC-CCCCEEeeCcHHHHHH--HHHHHHHcCCCcEEEe
Confidence 33444478999999876433 2455666788899999987654 221101110 011111 11112 1478999998
Q ss_pred eCCC
Q 016960 352 SGAS 355 (380)
Q Consensus 352 AGAS 355 (380)
++-.
T Consensus 123 ~~~~ 126 (283)
T cd06279 123 GLRL 126 (283)
T ss_pred cCcc
Confidence 7654
No 289
>PRK10669 putative cation:proton antiport protein; Provisional
Probab=27.70 E-value=85 Score=33.55 Aligned_cols=68 Identities=12% Similarity=0.199 Sum_probs=48.9
Q ss_pred CCEEEEcCCCCCHHHHHHHHhcCCcE--EeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccCC-cEEEEc
Q 016960 97 GDVVVLPAFGAAVEEMVTLNNKNVQI--VDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAG-KYIIVK 172 (380)
Q Consensus 97 g~~VIIrAHGv~~~~~~~l~~~g~~v--iDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~~-~~~vv~ 172 (380)
+.++|+-.--+...+.+.|+++|.++ ||.- .+.++++.+.|+. +++||..+||+---.|... +.+++.
T Consensus 418 ~hiiI~G~G~~G~~la~~L~~~g~~vvvId~d-------~~~~~~~~~~g~~-~i~GD~~~~~~L~~a~i~~a~~viv~ 488 (558)
T PRK10669 418 NHALLVGYGRVGSLLGEKLLAAGIPLVVIETS-------RTRVDELRERGIR-AVLGNAANEEIMQLAHLDCARWLLLT 488 (558)
T ss_pred CCEEEECCChHHHHHHHHHHHCCCCEEEEECC-------HHHHHHHHHCCCe-EEEcCCCCHHHHHhcCccccCEEEEE
Confidence 55788888889999999999988655 7643 3445666667866 6899999999875555332 455554
No 290
>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=27.64 E-value=3e+02 Score=28.00 Aligned_cols=78 Identities=13% Similarity=0.236 Sum_probs=46.4
Q ss_pred ceeEEEEc-CCCC-hHHHHHHHHHHHHHHhhhccccccccccccccccc-HHHHH-hHHHHHHhhhhcCCEEEEEccCCC
Q 016960 218 VKVGIANQ-TTML-KGETEEIGKLVEKTMMRKFGVENVNEHFISFNTIC-DATQE-RQDAMYKMVEEKVDLILVVGGWNS 293 (380)
Q Consensus 218 ~kv~vvsQ-TT~~-~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC-~AT~~-RQ~a~~eLa~~~vD~miVVGG~nS 293 (380)
+|+.+|.- .++. ...++.+.+.|++ . .-++.+|+.++ +.|.+ =++.+..+....+|++|-|||=..
T Consensus 27 kr~livtd~~~~~~~g~~~~v~~~L~~----~------gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~ 96 (383)
T cd08186 27 SKVLLVTGKSAYKKSGAWDKVEPALDE----H------GIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIAIGGGSP 96 (383)
T ss_pred CEEEEEcCccHHhhcChHHHHHHHHHH----c------CCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCccH
Confidence 47777774 3333 3335677776654 1 12345566554 22222 222333333346999999999999
Q ss_pred chhHHHHHHHHH
Q 016960 294 SNTSHLQEIAED 305 (380)
Q Consensus 294 SNT~kL~eia~~ 305 (380)
-.+-|.+-+.-.
T Consensus 97 iD~aK~ia~~~~ 108 (383)
T cd08186 97 IDSAKSAAILLE 108 (383)
T ss_pred HHHHHHHHHHHh
Confidence 999998877643
No 291
>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=27.60 E-value=75 Score=32.93 Aligned_cols=30 Identities=23% Similarity=0.254 Sum_probs=26.3
Q ss_pred CCEEEEEccCCCchhHHHHHHHHHhCCCeE
Q 016960 282 VDLILVVGGWNSSNTSHLQEIAEDRGIPSY 311 (380)
Q Consensus 282 vD~miVVGG~nSSNT~kL~eia~~~~~~t~ 311 (380)
-.++.|||+..|+-|..+..+++..+.|-+
T Consensus 116 ~~V~aiiGp~~S~~~~ava~~~~~~~iP~I 145 (472)
T cd06374 116 KPIVGVIGPGSSSVAIQVQNLLQLFNIPQI 145 (472)
T ss_pred CCeEEEECCCcchHHHHHHHHhhhhccccc
Confidence 368889999999999999999999887754
No 292
>PF00919 UPF0004: Uncharacterized protein family UPF0004; InterPro: IPR013848 The methylthiotransferase (MTTase) or miaB-like family is named after the (dimethylallyl)adenosine tRNA MTTase miaB protein, which catalyses a C-H to C-S bond conversion in the methylthiolation of tRNA. A related bacterial enzyme rimO performs a similar methylthiolation, but on a protein substrate. RimO acts on the ribosomal protein S12 and forms a separate MTTase subfamily. The miaB-subfamily includes mammalian CDK5 regulatory subunit-associated proteins and similar proteins in other eukaryotes. Two other subfamilies, yqeV and CDKAL1, are named after a Bacillus subtilis and a human protein, respectively. While yqeV-like proteins are found in bacteria, CDKAL1 subfamily members occur in eukaryotes and in archaebacteria. The likely MTTases from these 4 subfamilies contain an N-terminal MTTase domain, a central radical generating fold and a C-terminal TRAM domain (see PDOC50926 from PROSITEDOC). The core forms a radical SAM fold (or AdoMet radical), containing a cysteine motif CxxxCxxC that binds a [4Fe-4S] cluster [, , ]. A reducing equivalent from the [4Fe-4S]+ cluster is used to cleave S-adenosylmethionine (SAM) to generate methionine and a 5'-deoxyadenosyl radical. The latter is thought to produce a reactive substrate radical that is amenable to sulphur insertion [, ]. The N-terminal MTTase domain contains 3 cysteines that bind a second [4Fe-4S] cluster, in addition to the radical-generating [4Fe-4S] cluster, which could be involved in the thiolation reaction. The C-terminal TRAM domain is not shared with other radical SAM proteins outside the MTTase family. The TRAM domain can bind to RNA substrate and seems to be important for substrate recognition. The tertiary structure of the central radical SAM fold has six beta/alpha motifs resembling a three-quarter TIM barrel core (see PDOC00155 from PROSITEDOC) []. The N-terminal MTTase domain might form an additional [beta/alpha]2 TIM barrel unit []. ; GO: 0003824 catalytic activity, 0051539 4 iron, 4 sulfur cluster binding, 0009451 RNA modification
Probab=27.59 E-value=3.6e+02 Score=22.40 Aligned_cols=39 Identities=8% Similarity=0.104 Sum_probs=29.3
Q ss_pred HHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHHHHH
Q 016960 68 PTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTL 115 (380)
Q Consensus 68 ~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l 115 (380)
..+...|.+.|...+++. .+.|.+||.+=+|..+-.++.
T Consensus 17 e~i~~~l~~~G~~~~~~~---------e~AD~iiiNTC~V~~~Ae~k~ 55 (98)
T PF00919_consen 17 ERIASILQAAGYEIVDDP---------EEADVIIINTCTVRESAEQKS 55 (98)
T ss_pred HHHHHHHHhcCCeeeccc---------ccCCEEEEEcCCCCcHHHHHH
Confidence 456778999999988742 346889999999887765544
No 293
>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=27.45 E-value=2.8e+02 Score=28.16 Aligned_cols=77 Identities=17% Similarity=0.212 Sum_probs=46.2
Q ss_pred ceeEEEEcCCC--ChHHHHHHHHHHHHHHhhhccccccccccccccccc-HHHHHhHHHHHHhh-hhcCCEEEEEccCCC
Q 016960 218 VKVGIANQTTM--LKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTIC-DATQERQDAMYKMV-EEKVDLILVVGGWNS 293 (380)
Q Consensus 218 ~kv~vvsQTT~--~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC-~AT~~RQ~a~~eLa-~~~vD~miVVGG~nS 293 (380)
+|+.+|.-... ....++++.+.|+. . .-++.+|+.+. +.|.+-=+.+.+++ ...+|++|=|||=.+
T Consensus 26 ~r~livt~~~~~~~~g~~~~v~~~L~~----~------~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiavGGGS~ 95 (380)
T cd08185 26 KKALIVTGNGSSKKTGYLDRVIELLKQ----A------GVEVVVFDKVEPNPTTTTVMEGAALAREEGCDFVVGLGGGSS 95 (380)
T ss_pred CeEEEEeCCCchhhccHHHHHHHHHHH----c------CCeEEEeCCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCccH
Confidence 47888886543 34556667766654 1 12244455442 22322222222222 347999999999999
Q ss_pred chhHHHHHHHH
Q 016960 294 SNTSHLQEIAE 304 (380)
Q Consensus 294 SNT~kL~eia~ 304 (380)
-.+-|.+-+..
T Consensus 96 iD~aK~ia~~~ 106 (380)
T cd08185 96 MDTAKAIAFMA 106 (380)
T ss_pred HHHHHHHHHHh
Confidence 99999887764
No 294
>cd03130 GATase1_CobB Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase. Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase. CobB plays a role in cobalamin biosythesis catalyzing the conversion of cobyrinic acid to cobyrinic acid a,c-diamide. CobB belongs to the triad family of amidotransferases. Two of the three residues of the catalytic triad that are involved in glutamine binding, hydrolysis and transfer of the resulting ammonia to the acceptor substrate in other triad aminodotransferases are conserved in CobB.
Probab=27.39 E-value=3.7e+02 Score=24.75 Aligned_cols=44 Identities=11% Similarity=0.027 Sum_probs=27.9
Q ss_pred cccCCCEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEE
Q 016960 93 VVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSII 149 (380)
Q Consensus 93 el~~g~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iII 149 (380)
++++-|.|||+- |-+....+.|++. ..+.+.++++.++|-.|+-
T Consensus 37 ~l~~~D~lilPG-G~~~~~~~~L~~~------------~~~~~~i~~~~~~g~pilg 80 (198)
T cd03130 37 ELPDADGLYLGG-GYPELFAEELSAN------------QSMRESIRAFAESGGPIYA 80 (198)
T ss_pred CCCCCCEEEECC-CchHHHHHHHHhh------------HHHHHHHHHHHHcCCCEEE
Confidence 344457899999 8766555566432 3356777777788765443
No 295
>TIGR02873 spore_ylxY probable sporulation protein, polysaccharide deacetylase family. Members of this protein family are most closely related to TIGR02764, a subset of polysaccharide deacetylase family proteins found in a species if and only if the species forms endospores like those of Bacillus subtilis or Clostridium tetani. This family is likewise restricted to spore-formers, but is not universal among them in having sequences with full-length matches to the model.
Probab=27.35 E-value=1.8e+02 Score=28.52 Aligned_cols=82 Identities=11% Similarity=-0.004 Sum_probs=45.2
Q ss_pred ceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHh---cC-CcEEeccCchhHH
Q 016960 57 KIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNN---KN-VQIVDTTCPWVSK 132 (380)
Q Consensus 57 ~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~---~g-~~viDaTCP~V~k 132 (380)
+.|..--=-.|+.+++.+++.|..++.=. +.+.|.. +.-+..+.+.+.+ .| +.+.=.+-.-+..
T Consensus 178 ~~fRpP~G~~n~~~~~~l~~~G~~~v~Ws--------vd~~Dw~----~~~~~~i~~~v~~~~~~G~IILmHd~~~T~~a 245 (268)
T TIGR02873 178 KWFAPPSGSFNDNVVQIAADLQMGTIMWT--------VDTIDWK----NPSPSVMVNRVLSKIHPGAMVLMHPTASSTEG 245 (268)
T ss_pred CEEECCCCCCCHHHHHHHHHCCCeEEEec--------cCCCCCC----CCCHHHHHHHHHhcCCCCcEEEEcCCccHHHH
Confidence 34554444679999999999999987510 1112211 0111222222211 23 2222222344677
Q ss_pred HHHHHHHHhhCCCeEEEE
Q 016960 133 VWTSVEKHKKGDYTSIIH 150 (380)
Q Consensus 133 v~~~v~~~~~~Gy~iIIi 150 (380)
+-.++..+.++||+.+-+
T Consensus 246 L~~iI~~Lk~kGy~fvtl 263 (268)
T TIGR02873 246 LEEMITIIKEKGYKIGTI 263 (268)
T ss_pred HHHHHHHHHHCCCEEEeH
Confidence 888888888999987644
No 296
>PRK15461 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional
Probab=27.29 E-value=3.7e+02 Score=26.19 Aligned_cols=93 Identities=10% Similarity=0.077 Sum_probs=59.9
Q ss_pred HHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCcccccccc-ccCCCEEEEcCCCCCHHHHHHH------
Q 016960 43 VQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDV-VNKGDVVVLPAFGAAVEEMVTL------ 115 (380)
Q Consensus 43 I~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~e-l~~g~~VIIrAHGv~~~~~~~l------ 115 (380)
-.+|...++. +..|+.+. .|+...+.|.+.|+....+ ..+ +...|.||+ +---+..+...+
T Consensus 14 ~~mA~~l~~~--G~~V~v~d---~~~~~~~~~~~~g~~~~~s------~~~~~~~aDvVi~-~vp~~~~~~~vl~~~~~i 81 (296)
T PRK15461 14 SPMASNLLKQ--GHQLQVFD---VNPQAVDALVDKGATPAAS------PAQAAAGAEFVIT-MLPNGDLVRSVLFGENGV 81 (296)
T ss_pred HHHHHHHHHC--CCeEEEEc---CCHHHHHHHHHcCCcccCC------HHHHHhcCCEEEE-ecCCHHHHHHHHcCcccH
Confidence 3456555553 23576664 4888899999999876653 222 233454444 332222233322
Q ss_pred ---HhcCCcEEeccCchhHHHHHHHHHHhhCCCeE
Q 016960 116 ---NNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTS 147 (380)
Q Consensus 116 ---~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~i 147 (380)
...|..+||++--.....++.++.+.++|...
T Consensus 82 ~~~l~~g~lvid~sT~~p~~~~~l~~~l~~~g~~~ 116 (296)
T PRK15461 82 CEGLSRDALVIDMSTIHPLQTDKLIADMQAKGFSM 116 (296)
T ss_pred hhcCCCCCEEEECCCCCHHHHHHHHHHHHHcCCcE
Confidence 13577889999999999999999999988663
No 297
>cd00363 PFK Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases. Some members evolved by gene duplication and thus have a large C-terminal/N-terminal extension comprising a second PFK domain. Generally, ATP-PFKs are allosteric homotetramers, and PPi-PFKs are dimeric and nonallosteric except for plant PPi-PFKs which are allosteric heterotetramers.
Probab=27.26 E-value=52 Score=33.40 Aligned_cols=47 Identities=19% Similarity=0.190 Sum_probs=35.2
Q ss_pred HHHhHHHHHHhhhhcCCEEEEEccCCCchhH-HHHHHHHHhCC--CeEee
Q 016960 267 TQERQDAMYKMVEEKVDLILVVGGWNSSNTS-HLQEIAEDRGI--PSYWI 313 (380)
Q Consensus 267 T~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~-kL~eia~~~~~--~t~~I 313 (380)
...++.+++.|-+..+|.+++|||-.|-.+- +|.+.+++.+. +...|
T Consensus 78 ~~~~~~~~~~l~~~~I~~Lv~IGGd~s~~~a~~L~e~~~~~~~~i~vigi 127 (338)
T cd00363 78 EEGRAKAAENLKKHGIDALVVIGGDGSYTGADLLTEEWPSKYQGFNVIGL 127 (338)
T ss_pred HHHHHHHHHHHHHhCCCEEEEeCCHHHHHHHHHHHHHHHhcCCCccEEEe
Confidence 3456677777766789999999999998665 88888877654 44444
No 298
>PRK05333 NAD-dependent deacetylase; Provisional
Probab=27.26 E-value=1.2e+02 Score=29.74 Aligned_cols=58 Identities=17% Similarity=0.184 Sum_probs=38.3
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhH-HHHHHHHHhCCCeEeeCC
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTS-HLQEIAEDRGIPSYWIDS 315 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~-kL~eia~~~~~~t~~Ie~ 315 (380)
+++..|+.-=. ....+.+...+ .++|++||||-..+.... .|.+.+.+.+.+.+.|.-
T Consensus 191 P~Vv~FgE~lp-~~~~~~a~~~~--~~~DlllvvGTSl~V~p~~~~~~~a~~~g~~~i~IN~ 249 (285)
T PRK05333 191 PDVVFFGENVP-RERVAAARAAL--DAADAVLVVGSSLMVYSGYRFCVWAAQQGKPIAALNL 249 (285)
T ss_pred CCEEEcCCCCC-HHHHHHHHHHH--hcCCEEEEECcCceecchhhhHHHHHHCCCeEEEECC
Confidence 34555555322 22344454444 379999999987777655 678888888887776664
No 299
>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=27.24 E-value=4.8e+02 Score=23.79 Aligned_cols=122 Identities=15% Similarity=0.157 Sum_probs=57.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHH-HHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQD-AMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~-a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++.... +-.-|..+.+-+.+...+. + -++.+++ ++...++|. .+..+.+..+|.+|+.+... |-..
T Consensus 2 Ig~i~~~~-~~~~~~~~~~gi~~~~~~~-g-----y~v~~~~--~~~~~~~~~~~i~~~~~~~~dgiii~~~~~--~~~~ 70 (269)
T cd06293 2 IGLVVPDI-ANPFFAELADAVEEEADAR-G-----LSLVLCA--TRNRPERELTYLRWLDTNHVDGLIFVTNRP--DDGA 70 (269)
T ss_pred EEEEeCCC-CCCcHHHHHHHHHHHHHHC-C-----CEEEEEe--CCCCHHHHHHHHHHHHHCCCCEEEEeCCCC--CHHH
Confidence 55665542 2344555665555432222 1 1222221 122234443 34445456899999997432 2234
Q ss_pred HHHHHHHhCCCeEeeCCCC-ccCCCCcchhhh-ccchhhhhcccCCCCCCEEEEEeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSEK-RIGPGNKIAYKL-MHGELVEKENWLPKGQITIGITSGAS 355 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~~-dL~~~~~~~~~~-~~~~~~~~~~wl~~~~~~VGITAGAS 355 (380)
+.++. +.+.|.++|.+.. +.. ..-+.... ..+.. -....+..|.++||+..|..
T Consensus 71 ~~~~~-~~~~pvV~i~~~~~~~~-~~~V~~d~~~~~~~-~~~~L~~~G~~~i~~i~~~~ 126 (269)
T cd06293 71 LAKLI-NSYGNIVLVDEDVPGAK-VPKVFCDNEQGGRL-ATRHLARAGHRRIAFVGGPD 126 (269)
T ss_pred HHHHH-hcCCCEEEECCCCCCCC-CCEEEECCHHHHHH-HHHHHHHCCCceEEEEecCc
Confidence 44444 4578999998642 211 01111110 11111 11122334789999887743
No 300
>cd01407 SIR2-fam SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer.
Probab=27.16 E-value=1.6e+02 Score=27.52 Aligned_cols=58 Identities=26% Similarity=0.320 Sum_probs=35.5
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCC-chhHHHHHHHHHhCCCeEeeCCC
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNS-SNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nS-SNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
+++..|+.-=... -+++...+. ++|++||||-.-+ .-..+|.+.+++.+.+...|.-.
T Consensus 145 P~Vv~fgE~~p~~--~~~a~~~~~--~~Dl~lvlGTSl~V~p~~~l~~~~~~~~~~~i~iN~~ 203 (218)
T cd01407 145 PDVVFFGESLPEE--LDEAAEALA--KADLLLVIGTSLQVYPAAGLPLYAPERGAPVVIINLE 203 (218)
T ss_pred CCeEECCCCCcHH--HHHHHHHHh--cCCEEEEeCCCcccccHHHHHHHHHHCCCeEEEECCC
Confidence 4566565542222 555666664 5999999993211 22347777777777777777543
No 301
>cd02201 FtsZ_type1 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at the site of bacterial cell division, which is required for constriction of cell membrane and cell envelope to yield two daughter cells.
Probab=27.15 E-value=1.6e+02 Score=29.26 Aligned_cols=44 Identities=16% Similarity=0.382 Sum_probs=34.0
Q ss_pred HHHHHHhhhhcCCEEEEE----ccCCCchhHHHHHHHHHhCCCeEeeCC
Q 016960 271 QDAMYKMVEEKVDLILVV----GGWNSSNTSHLQEIAEDRGIPSYWIDS 315 (380)
Q Consensus 271 Q~a~~eLa~~~vD~miVV----GG~nSSNT~kL~eia~~~~~~t~~Ie~ 315 (380)
++.++++. ..+|.++|+ ||..|.=+..+++++++.+..+|-|-+
T Consensus 75 ~~~I~~~l-~~~d~v~i~aglGGGTGSG~ap~ia~~a~e~g~~~~~vvt 122 (304)
T cd02201 75 REEIKEAL-EGADMVFITAGMGGGTGTGAAPVIAKIAKEMGALTVAVVT 122 (304)
T ss_pred HHHHHHHH-hCCCEEEEeeccCCCcchhHHHHHHHHHHHcCCCEEEEEe
Confidence 34567777 579999998 457777788899999999888776654
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=27.05 E-value=3e+02 Score=27.71 Aligned_cols=75 Identities=16% Similarity=0.192 Sum_probs=46.1
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccc-cHHHHHhHHHHHHhh-hhcCCEEEEEccCCCch
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTI-CDATQERQDAMYKMV-EEKVDLILVVGGWNSSN 295 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTI-C~AT~~RQ~a~~eLa-~~~vD~miVVGG~nSSN 295 (380)
+|+.+|+-.+.. ....+.+.|++ . + -++.+|+.+ .+.|.+.=+++.+++ +..+|++|-|||=.+-.
T Consensus 24 ~~~livtd~~~~--~~~~~~~~l~~----~-~-----~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGs~~D 91 (367)
T cd08182 24 KRVLLVTGPRSA--IASGLTDILKP----L-G-----TLVVVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAVGGGSVLD 91 (367)
T ss_pred CeEEEEeCchHH--HHHHHHHHHHH----c-C-----CeEEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCcHHHH
Confidence 478888755443 34455555543 1 1 123445444 455555544555554 23689999999999999
Q ss_pred hHHHHHHHH
Q 016960 296 TSHLQEIAE 304 (380)
Q Consensus 296 T~kL~eia~ 304 (380)
+-|.+-+.-
T Consensus 92 ~aK~ia~~~ 100 (367)
T cd08182 92 TAKALAALL 100 (367)
T ss_pred HHHHHHHHH
Confidence 999877653
No 303
>TIGR01081 mpl UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase. Alternate name: murein tripeptide ligase
Probab=27.05 E-value=4.9e+02 Score=26.84 Aligned_cols=59 Identities=14% Similarity=0.097 Sum_probs=38.6
Q ss_pred EecccccCHHHHHHHHHcCcEEecCCccccccccccC-CCEEEEcCCCCCHH--HHHHHHhcCCcEE
Q 016960 60 ITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNK-GDVVVLPAFGAAVE--EMVTLNNKNVQIV 123 (380)
Q Consensus 60 ~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~-g~~VIIrAHGv~~~--~~~~l~~~g~~vi 123 (380)
+.-+.-.++...+.|+++|+.+..... -+.+.+ -| +||-+=||+|. .++.++++|+.|+
T Consensus 27 ~~~D~~~~~~~~~~l~~~gi~~~~~~~----~~~~~~~~d-~vV~SpgI~~~~~~~~~a~~~~i~v~ 88 (448)
T TIGR01081 27 TGSDANVYPPMSTQLEAQGIEIIEGFD----AAQLEPKPD-LVVIGNAMKRGNPCVEAVLNLNLPYT 88 (448)
T ss_pred EEECCCCCcHHHHHHHHCCCEEeCCCC----HHHCCCCCC-EEEECCCCCCCCHHHHHHHHCCCCEE
Confidence 345555566666679999998875321 122222 34 67778899875 6778888898885
No 304
>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. This CD represents the N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. 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. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are more homologous to non-NMDA receptors. G
Probab=26.97 E-value=68 Score=32.39 Aligned_cols=55 Identities=16% Similarity=0.300 Sum_probs=41.7
Q ss_pred ccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeC
Q 016960 257 FISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWID 314 (380)
Q Consensus 257 ~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie 314 (380)
+..+++.++..+-= .++.+|. .+ .+.-|+|...|+++..+..+|.+.+.|-+...
T Consensus 39 ~v~~dd~~d~~~a~-~~~c~Li-~~-gV~AI~G~~~s~~~~av~~i~~~~~IP~Is~~ 93 (363)
T cd06381 39 SISFIDLNNHFDAV-QEACDLM-NQ-GILALVTSTGCASAIALQSLTDAMHIPHLFIQ 93 (363)
T ss_pred eeEeecCCChHHHH-HHHHHHH-hc-CcEEEEecCChhHHHHHHHHhhCCCCCEEEee
Confidence 34567777776554 3444566 46 89999999999999999999999988876543
No 305
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=26.93 E-value=3.3e+02 Score=26.53 Aligned_cols=77 Identities=14% Similarity=0.259 Sum_probs=42.2
Q ss_pred CceEEecccccCHHHHH----HHHHcCcEEecCCccc---cccccccCCCE-EEEcCCCCCHHHHHHH---HhcCCcEEe
Q 016960 56 EKIWITNEIIHNPTVNK----RLEEMAVQNIPVEEGK---KQFDVVNKGDV-VVLPAFGAAVEEMVTL---NNKNVQIVD 124 (380)
Q Consensus 56 ~~Iy~lG~LIHN~~Vv~----~L~~~Gv~~v~~~~~~---~~~~el~~g~~-VIIrAHGv~~~~~~~l---~~~g~~viD 124 (380)
++||.+| +=..--|-. +|...|+.+.--.+.. ..+..+.++|. |+|+--|-++++.+.+ +++|.+||=
T Consensus 131 ~rI~~~G-~g~S~~vA~~~~~~l~~ig~~~~~~~d~~~~~~~~~~~~~~Dv~i~iS~sG~t~e~i~~a~~ak~~ga~vIa 209 (281)
T COG1737 131 RRIYFFG-LGSSGLVASDLAYKLMRIGLNVVALSDTHGQLMQLALLTPGDVVIAISFSGYTREIVEAAELAKERGAKVIA 209 (281)
T ss_pred CeEEEEE-echhHHHHHHHHHHHHHcCCceeEecchHHHHHHHHhCCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCcEEE
Confidence 5688888 433333333 4556677655422111 12334556776 4788889999876654 445555544
Q ss_pred ccCchhHHH
Q 016960 125 TTCPWVSKV 133 (380)
Q Consensus 125 aTCP~V~kv 133 (380)
-|......+
T Consensus 210 iT~~~~spl 218 (281)
T COG1737 210 ITDSADSPL 218 (281)
T ss_pred EcCCCCCch
Confidence 444444333
No 306
>cd01299 Met_dep_hydrolase_A Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a conserved metal binding site, involving four histidines and one aspartic acid residue. In the common reaction mechanism, the metal ion (or ions) deprotonate a water molecule for a nucleophilic attack on the substrate. The function of this subgroup is unknown.
Probab=26.91 E-value=5.4e+02 Score=24.97 Aligned_cols=92 Identities=14% Similarity=0.139 Sum_probs=50.9
Q ss_pred cHHHHHHHHHHHHhhCCCC-ceEEecccc----------cCH----HHHHHHHHcCcEEecCCccccccccc-cCCCEEE
Q 016960 38 GVERAVQIAYEARKQFPEE-KIWITNEII----------HNP----TVNKRLEEMAVQNIPVEEGKKQFDVV-NKGDVVV 101 (380)
Q Consensus 38 GV~RAI~~a~~~~~~~~~~-~Iy~lG~LI----------HN~----~Vv~~L~~~Gv~~v~~~~~~~~~~el-~~g~~VI 101 (380)
+.+-+.+.+.+.++...+. ++|+.|... -.+ .+++...+.|+.+.-...+...+... .-|-..|
T Consensus 118 ~~~~~~~~v~~~~~~G~~~iK~~~~g~~~~~~~~~~~~~~~~e~l~~~~~~A~~~g~~v~~H~~~~~~i~~~l~~G~~~i 197 (342)
T cd01299 118 GVEEVRAAVREQLRRGADQIKIMATGGVLSPGDPPPDTQFSEEELRAIVDEAHKAGLYVAAHAYGAEAIRRAIRAGVDTI 197 (342)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEeccCCcCCCCCCCcccCcCHHHHHHHHHHHHHcCCEEEEEeCCHHHHHHHHHcCCCEE
Confidence 3455566666666543221 577766321 122 34556677887765432211111111 1233344
Q ss_pred EcCCCCCHHHHHHHHhcCCcEEeccCchhH
Q 016960 102 LPAFGAAVEEMVTLNNKNVQIVDTTCPWVS 131 (380)
Q Consensus 102 IrAHGv~~~~~~~l~~~g~~viDaTCP~V~ 131 (380)
.=+..++++..+.++++|+.++ +||.+.
T Consensus 198 ~H~~~~~~~~~~~l~~~g~~~~--~t~~~~ 225 (342)
T cd01299 198 EHGFLIDDETIELMKEKGIFLV--PTLATY 225 (342)
T ss_pred eecCCCCHHHHHHHHHCCcEEe--CcHHHH
Confidence 3333478999999999999885 888753
No 307
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=26.86 E-value=47 Score=28.26 Aligned_cols=33 Identities=0% Similarity=0.097 Sum_probs=26.9
Q ss_pred eEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEec
Q 016960 25 VKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITN 62 (380)
Q Consensus 25 mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG 62 (380)
++|++|.|-+||-|...|+++..- +...|++++
T Consensus 2 ~~ili~sHG~~A~gl~~s~~~i~G-----~~~~i~~i~ 34 (116)
T TIGR00824 2 IAIIISGHGQAAIALLKSAEMIFG-----EQNNVGAVP 34 (116)
T ss_pred cEEEEEecHHHHHHHHHHHHHHcC-----CcCCeEEEE
Confidence 579999999999999999998842 123588888
No 308
>KOG2947 consensus Carbohydrate kinase [Carbohydrate transport and metabolism]
Probab=26.75 E-value=90 Score=31.17 Aligned_cols=64 Identities=13% Similarity=0.198 Sum_probs=40.4
Q ss_pred CCceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHHhhhhcCCEEEEE
Q 016960 216 DLVKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVV 288 (380)
Q Consensus 216 ~~~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVV 288 (380)
++.+++++.=---+..+.-.++..|... .++.+++ ..+++ --.-.++-+++.+|+ ..||.++|-
T Consensus 129 dl~qy~WihfE~Rnp~etlkM~~~I~~~-N~r~pe~---qrI~v----Svd~en~req~~~l~-am~DyVf~s 192 (308)
T KOG2947|consen 129 DLTQYGWIHFEARNPSETLKMLQRIDAH-NTRQPEE---QRIRV----SVDVENPREQLFQLF-AMCDYVFVS 192 (308)
T ss_pred ccceeeeEEEecCChHHHHHHHHHHHHh-hcCCCcc---ceEEE----EEEecCcHHHHHHHh-hcccEEEEE
Confidence 4568888887777778877887777651 1121110 11111 112346788899999 699999984
No 309
>TIGR01357 aroB 3-dehydroquinate synthase. This model represents 3-dehydroquinate synthase, the enzyme catalyzing the second of seven steps in the shikimate pathway of chorismate biosynthesis. Chorismate is the last common intermediate in the biosynthesis of all three aromatic amino acids.
Probab=26.62 E-value=2.6e+02 Score=27.95 Aligned_cols=91 Identities=14% Similarity=0.164 Sum_probs=51.4
Q ss_pred ceeEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHH-hhhh---cCCEEEEEccCCC
Q 016960 218 VKVGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYK-MVEE---KVDLILVVGGWNS 293 (380)
Q Consensus 218 ~kv~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~e-La~~---~vD~miVVGG~nS 293 (380)
+++.+|+-.+......+.+.+.|++ . +.+ ...+.+.+.-++.|.+-=+++.+ +... +.|++|.|||=..
T Consensus 21 ~~~livtd~~~~~~~~~~v~~~L~~----~-g~~--~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIavGGGsv 93 (344)
T TIGR01357 21 SKLVIITDETVADLYADKLLEALQA----L-GYN--VLKLTVPDGEESKSLETVQRLYDQLLEAGLDRSSTIIALGGGVV 93 (344)
T ss_pred CeEEEEECCchHHHHHHHHHHHHHh----c-CCc--eeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEEEcChHH
Confidence 4677776555444444455544443 1 110 00112334444444333333322 2211 3499999999999
Q ss_pred chhHHHHHHHHHhCCCeEeeCC
Q 016960 294 SNTSHLQEIAEDRGIPSYWIDS 315 (380)
Q Consensus 294 SNT~kL~eia~~~~~~t~~Ie~ 315 (380)
-.+-|.+......+.|-+.|-|
T Consensus 94 ~D~aK~iA~~~~~~~p~i~VPT 115 (344)
T TIGR01357 94 GDLAGFVAATYMRGIRFIQVPT 115 (344)
T ss_pred HHHHHHHHHHHccCCCEEEecC
Confidence 9999988765567788888887
No 310
>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=26.54 E-value=96 Score=31.33 Aligned_cols=43 Identities=23% Similarity=0.419 Sum_probs=31.5
Q ss_pred HHHhHHHHHHhhhhcCCEEEEEccCCCchhH-HHHHHHHHhCCCeEee
Q 016960 267 TQERQDAMYKMVEEKVDLILVVGGWNSSNTS-HLQEIAEDRGIPSYWI 313 (380)
Q Consensus 267 T~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~-kL~eia~~~~~~t~~I 313 (380)
...|+.+++.|-+..+|.+++|||-.|-.+- +|.+ .+.+...|
T Consensus 78 ~~~~~~~~~~l~~~~Id~Li~IGGdgs~~~a~~L~e----~~i~vigi 121 (317)
T cd00763 78 EEGQAKAIEQLKKHGIDALVVIGGDGSYMGAMRLTE----HGFPCVGL 121 (317)
T ss_pred HHHHHHHHHHHHHcCCCEEEEECCchHHHHHHHHHH----cCCCEEEe
Confidence 4577888888877789999999998877665 3333 36666655
No 311
>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=26.52 E-value=4.8e+02 Score=23.53 Aligned_cols=86 Identities=20% Similarity=0.275 Sum_probs=46.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHH-HHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQD-AMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~-a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
++++... ++...|..+.+-+++... +++ -++.++++ ....+.|. .+..+.+..+|.+|+.+...+ + ..
T Consensus 2 I~vi~~~-~~~~~~~~~~~g~~~~a~-~~g-----~~~~~~~~--~~~~~~~~~~i~~~~~~~vdgiii~~~~~~-~-~~ 70 (268)
T cd06289 2 IGLVIND-LTNPFFAELAAGLEEVLE-EAG-----YTVFLANS--GEDVERQEQLLSTMLEHGVAGIILCPAAGT-S-PD 70 (268)
T ss_pred EEEEecC-CCcchHHHHHHHHHHHHH-HcC-----CeEEEecC--CCChHHHHHHHHHHHHcCCCEEEEeCCCCc-c-HH
Confidence 4455533 344456666666665322 222 12222211 11123443 344454467999999975322 2 23
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
.++.+++.+.|..++++.
T Consensus 71 ~~~~~~~~~ipvV~~~~~ 88 (268)
T cd06289 71 LLKRLAESGIPVVLVARE 88 (268)
T ss_pred HHHHHHhcCCCEEEEecc
Confidence 566677888999998765
No 312
>PF12146 Hydrolase_4: Putative lysophospholipase; InterPro: IPR022742 This domain is found in bacteria and eukaryotes and is approximately 110 amino acids in length. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins.
Probab=26.29 E-value=34 Score=27.20 Aligned_cols=49 Identities=12% Similarity=0.068 Sum_probs=38.1
Q ss_pred EEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccCC
Q 016960 99 VVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAG 166 (380)
Q Consensus 99 ~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~~ 166 (380)
.+|+=.||...-.- +-+..++.++++||.|+.+=.++|-...|..|+.+
T Consensus 17 ~~v~i~HG~~eh~~-------------------ry~~~a~~L~~~G~~V~~~D~rGhG~S~g~rg~~~ 65 (79)
T PF12146_consen 17 AVVVIVHGFGEHSG-------------------RYAHLAEFLAEQGYAVFAYDHRGHGRSEGKRGHID 65 (79)
T ss_pred EEEEEeCCcHHHHH-------------------HHHHHHHHHHhCCCEEEEECCCcCCCCCCcccccC
Confidence 36677899854432 33446789999999999999999999998877754
No 313
>PTZ00286 6-phospho-1-fructokinase; Provisional
Probab=26.11 E-value=1e+02 Score=32.94 Aligned_cols=54 Identities=9% Similarity=0.189 Sum_probs=38.5
Q ss_pred HHhHHHHHHhhhhcCCEEEEEccCCCchhH-HHHHHHHHhCCCeEeeCCCCccCC
Q 016960 268 QERQDAMYKMVEEKVDLILVVGGWNSSNTS-HLQEIAEDRGIPSYWIDSEKRIGP 321 (380)
Q Consensus 268 ~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~-kL~eia~~~~~~t~~Ie~~~dL~~ 321 (380)
.++++.+..|.+..+|.+++|||-.|-.+- +|++-++++|.+-=.|-=+.=||.
T Consensus 163 ~~~~~iv~~L~~~~I~~L~vIGGdgT~~~A~~L~ee~~~~g~~I~VIGIPKTIDN 217 (459)
T PTZ00286 163 FDPKVMVDTLIRHGINILFTLGGDGTHRGALAIYKELRRRKLNISVVGIPKTIDN 217 (459)
T ss_pred hhHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHHhCCCceEEEeccccCC
Confidence 367777777766789999999999998766 788888877743333333444443
No 314
>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=26.10 E-value=3.3e+02 Score=25.02 Aligned_cols=87 Identities=11% Similarity=0.043 Sum_probs=46.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccc--cHHHHHhHH-HHHHhhhhcCCEEEEEccCCCchh
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTI--CDATQERQD-AMYKMVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTI--C~AT~~RQ~-a~~eLa~~~vD~miVVGG~nSSNT 296 (380)
++++.-. ++-.-|..+.+.+.+...+. +. .....++. +..-..+|. .+..|.. ++|.+|+++. +++-+
T Consensus 2 ig~v~~~-~~~~~~~~~~~~i~~~~~~~-g~-----~~~~~~~~~~~~~~~~~~~~~i~~~~~-~vdgiii~~~-~~~~~ 72 (275)
T cd06307 2 LGFLLPK-GSNAFYRELAAALEAAAAAF-PD-----ARIRVRIHFVESFDPAALAAALLRLGA-RSDGVALVAP-DHPQV 72 (275)
T ss_pred eEEEeCC-CCChHHHHHHHHHHHHHhhh-hc-----cCceEEEEEccCCCHHHHHHHHHHHHh-cCCEEEEeCC-CcHHH
Confidence 5555433 45567777777776532222 10 01111221 112234453 3334554 8999998753 33333
Q ss_pred HHHHHHHHHhCCCeEeeCC
Q 016960 297 SHLQEIAEDRGIPSYWIDS 315 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~ 315 (380)
...++-+.+.+.|...+.+
T Consensus 73 ~~~i~~~~~~~ipvV~~~~ 91 (275)
T cd06307 73 RAAVARLAAAGVPVVTLVS 91 (275)
T ss_pred HHHHHHHHHCCCcEEEEeC
Confidence 4556666678889887765
No 315
>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=26.10 E-value=1.1e+02 Score=25.03 Aligned_cols=19 Identities=21% Similarity=0.501 Sum_probs=13.1
Q ss_pred CEEEEEccCC-CchhHHHHH
Q 016960 283 DLILVVGGWN-SSNTSHLQE 301 (380)
Q Consensus 283 D~miVVGG~n-SSNT~kL~e 301 (380)
+..+|+||.+ |.+-..+.+
T Consensus 81 ~~~iv~GG~~~t~~~~~~l~ 100 (121)
T PF02310_consen 81 NIPIVVGGPHATADPEEILR 100 (121)
T ss_dssp TSEEEEEESSSGHHHHHHHH
T ss_pred CCEEEEECCchhcChHHHhc
Confidence 7788888887 655555443
No 316
>TIGR03310 matur_ygfJ molybdenum hydroxylase accessory protein, YgfJ family. Members of this protein family are probable accessory proteins for the biosynthesis of enzymes related to xanthine dehydrogenase. Comparative genomics suggests a role in the maturation of selenium-dependent molybdenum hydroxylases, although a tenuous alternative hypothesis is a role for this protein (with a requirement for SelD, the selenium donor protein in the selenocysteine and selenouridine biosynthesis pathways) metabolizing a selenium-containing substrate such as selenate.
Probab=26.06 E-value=2.3e+02 Score=24.81 Aligned_cols=39 Identities=15% Similarity=0.172 Sum_probs=26.4
Q ss_pred CCcEEeccCchhH--HHHHHHHHHhhCCCeEEEE---ecCCCce
Q 016960 119 NVQIVDTTCPWVS--KVWTSVEKHKKGDYTSIIH---GKYSHEE 157 (380)
Q Consensus 119 g~~viDaTCP~V~--kv~~~v~~~~~~Gy~iIIi---G~~~HpE 157 (380)
.+-|+++..|++. -+.+.++.+.+.+..+++. |.+.||=
T Consensus 92 ~vlv~~~D~P~i~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~Pl 135 (188)
T TIGR03310 92 GYLFLLGDQPFVTPDIIQLLLEAFALKNDEIVVPLYKGKRGHPV 135 (188)
T ss_pred EEEEEeCCcCCCCHHHHHHHHHHHHhCCCcEEEeecCCccCCCE
Confidence 4678999999986 5666666665666656654 3456763
No 317
>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional
Probab=26.06 E-value=6.8e+02 Score=25.13 Aligned_cols=42 Identities=17% Similarity=0.030 Sum_probs=26.4
Q ss_pred CEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeE
Q 016960 98 DVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTS 147 (380)
Q Consensus 98 ~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~i 147 (380)
+.|-|+-+|.+++..+.++..+ ..-.++.+.++.+.+.|..+
T Consensus 116 ~~v~iSldg~~~e~~d~irg~~--------g~f~~~~~~i~~l~~~g~~v 157 (378)
T PRK05301 116 DHIQLSFQDSDPELNDRLAGTK--------GAFAKKLAVARLVKAHGYPL 157 (378)
T ss_pred CEEEEEecCCCHHHHHHHcCCC--------chHHHHHHHHHHHHHCCCce
Confidence 4577888888888888775321 12344555566666667654
No 318
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=26.04 E-value=94 Score=23.16 Aligned_cols=46 Identities=11% Similarity=0.157 Sum_probs=26.5
Q ss_pred HHHHHHHHcCcEEecCCccccccccccC--CCEEEEcCCCCCH-HHHHHHHhcCCcEE
Q 016960 69 TVNKRLEEMAVQNIPVEEGKKQFDVVNK--GDVVVLPAFGAAV-EEMVTLNNKNVQIV 123 (380)
Q Consensus 69 ~Vv~~L~~~Gv~~v~~~~~~~~~~el~~--g~~VIIrAHGv~~-~~~~~l~~~g~~vi 123 (380)
.+.+.|.+.|+.+..- --.+. ...+.++. -.+ ...+.|+++|++|.
T Consensus 17 ~v~~~l~~~~inI~~i-------~~~~~~~~~~~rl~~--~~~~~~~~~L~~~G~~v~ 65 (66)
T cd04908 17 AVTEILSEAGINIRAL-------SIADTSEFGILRLIV--SDPDKAKEALKEAGFAVK 65 (66)
T ss_pred HHHHHHHHCCCCEEEE-------EEEecCCCCEEEEEE--CCHHHHHHHHHHCCCEEE
Confidence 4667778888876531 10111 12344444 445 77888888887763
No 319
>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=26.03 E-value=2.4e+02 Score=30.46 Aligned_cols=44 Identities=7% Similarity=0.001 Sum_probs=29.9
Q ss_pred HHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEecCC
Q 016960 109 VEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYS 154 (380)
Q Consensus 109 ~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~ 154 (380)
......+++.|+.+.....|.- | ...++++.++|+.++.+||.-
T Consensus 433 ~~a~~ia~~lgi~~~~~~~p~~-K-~~~v~~l~~~~~~v~~VGDg~ 476 (562)
T TIGR01511 433 KTAKAVAKELGINVRAEVLPDD-K-AALIKELQEKGRVVAMVGDGI 476 (562)
T ss_pred HHHHHHHHHcCCcEEccCChHH-H-HHHHHHHHHcCCEEEEEeCCC
Confidence 3455566667777665555542 2 346677778899999999864
No 320
>cd02430 PTH2 Peptidyl-tRNA hydrolase, type 2 (PTH2). Peptidyl-tRNA hydrolase (PTH) activity releases tRNA from the premature translation termination product peptidyl-tRNA, therefore allowing the tRNA and peptide to be reused in protein synthesis. PTH2 is present in archaea and eukaryotes.
Probab=26.02 E-value=1.4e+02 Score=25.87 Aligned_cols=62 Identities=19% Similarity=0.358 Sum_probs=42.3
Q ss_pred CEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCC--ccCCCCcchhhhccchhhhhcccCCCCCCEEEEEeCCCCCHHH
Q 016960 283 DLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEK--RIGPGNKIAYKLMHGELVEKENWLPKGQITIGITSGASTPDKA 360 (380)
Q Consensus 283 D~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~--dL~~~~~~~~~~~~~~~~~~~~wl~~~~~~VGITAGASTP~~l 360 (380)
-.-+|+...+..-=..|.+.+++.|.+++.|.++. |+++ .....+|| .=.|+..
T Consensus 49 ~~KiVl~~~~~~el~~l~~~a~~~~l~~~~v~DAG~Tev~~---------------------gt~T~lai---gP~~~~~ 104 (115)
T cd02430 49 QKKIVLKVNSEEELLELKKKAKSLGLPTSLIQDAGRTQIAP---------------------GTITVLGI---GPAPEEL 104 (115)
T ss_pred CcEEEEecCCHHHHHHHHHHHHHcCCCeEEEEeCCCcccCC---------------------CCceEEEe---CCCCHHH
Confidence 34566676666556677778888899999999887 5554 12334444 3568888
Q ss_pred HHHHHHHH
Q 016960 361 VEDVLKKV 368 (380)
Q Consensus 361 I~eV~~~l 368 (380)
|+.+...|
T Consensus 105 i~~itg~L 112 (115)
T cd02430 105 IDKVTGHL 112 (115)
T ss_pred HHHhhCCC
Confidence 88887655
No 321
>PRK06464 phosphoenolpyruvate synthase; Validated
Probab=25.98 E-value=1.1e+02 Score=34.81 Aligned_cols=48 Identities=19% Similarity=0.221 Sum_probs=42.9
Q ss_pred CcccHHHHHHHHHHHHhhCCCCceEEecccccC-HHHHHHHHHcCcEEec
Q 016960 35 FCWGVERAVQIAYEARKQFPEEKIWITNEIIHN-PTVNKRLEEMAVQNIP 83 (380)
Q Consensus 35 FC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN-~~Vv~~L~~~Gv~~v~ 83 (380)
+-..|.+||+.+.++.++. ++++-+.|++..+ |.....|..+|+.++.
T Consensus 723 ~hPav~~ai~~vi~aa~~~-g~~vgicge~a~~~p~~~~~l~~~G~~~ls 771 (795)
T PRK06464 723 RNPAVKKLISMAIKAAKKA-GKYVGICGQAPSDHPDFAEWLVEEGIDSIS 771 (795)
T ss_pred CCHHHHHHHHHHHHHHHHc-CCEEEEcCCCCCCcHHHHHHHHHCCCCEEE
Confidence 5579999999998888765 5799999999998 9999999999999886
No 322
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=25.90 E-value=2.8e+02 Score=22.46 Aligned_cols=72 Identities=17% Similarity=0.207 Sum_probs=44.4
Q ss_pred HHHHHHHHHcCcEEecC--Ccccc--c--cc-cccCCCEEEEc----CCCCCHHHHHHHHhcCCcEEeccCchhHHHHHH
Q 016960 68 PTVNKRLEEMAVQNIPV--EEGKK--Q--FD-VVNKGDVVVLP----AFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTS 136 (380)
Q Consensus 68 ~~Vv~~L~~~Gv~~v~~--~~~~~--~--~~-el~~g~~VIIr----AHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~ 136 (380)
++..+.+++.|..++-- .++.. . ++ .+..-|.||+. +|+....+.+.+++.|+.++=+-..=+..+.+.
T Consensus 13 ~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~~~~~~~~~l~~~ 92 (97)
T PF10087_consen 13 RRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIYSRSRGVSSLERA 92 (97)
T ss_pred HHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcCCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEEEECCCCHHHHHHH
Confidence 34556667778776654 11111 1 11 33345666654 799999999999999999986665555555554
Q ss_pred HHH
Q 016960 137 VEK 139 (380)
Q Consensus 137 v~~ 139 (380)
..+
T Consensus 93 l~~ 95 (97)
T PF10087_consen 93 LER 95 (97)
T ss_pred HHh
Confidence 443
No 323
>COG2454 Uncharacterized conserved protein [Function unknown]
Probab=25.82 E-value=3.3e+02 Score=26.29 Aligned_cols=66 Identities=12% Similarity=0.312 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHhhCC-CCceEEecccc-cCHHHH----HHHHHcCcE----EecCCc-cccccccccCCCEEEEcC
Q 016960 39 VERAVQIAYEARKQFP-EEKIWITNEII-HNPTVN----KRLEEMAVQ----NIPVEE-GKKQFDVVNKGDVVVLPA 104 (380)
Q Consensus 39 V~RAI~~a~~~~~~~~-~~~Iy~lG~LI-HN~~Vv----~~L~~~Gv~----~v~~~~-~~~~~~el~~g~~VIIrA 104 (380)
+.+|+++..+.+++.. +.-+|.++..+ |.-.+- +.|++.||. .+...+ ++..++-+-++|.+||..
T Consensus 112 t~~Al~lil~~lk~~~~k~vi~L~d~~vs~SGel~~~i~~~mK~~~I~g~~~lvk~~D~eLk~~e~VaTsD~~IIds 188 (211)
T COG2454 112 TDKALDLLLEFLKDVEPKSVIFLFDAPVSKSGELAGRIEEKMKSLGIPGEASLVKNADFELKELEVVATSDSGIIDS 188 (211)
T ss_pred HHHHHHHHHHHHHHcCCceEEEEeCCCCCccHHHHHHHHHHHHhcCCCceeEeccCcCHHHHhcCceeecCeeeeee
Confidence 5789999988888743 44699999999 555443 445556766 555433 122333334455555554
No 324
>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=25.73 E-value=95 Score=30.94 Aligned_cols=54 Identities=9% Similarity=0.094 Sum_probs=37.1
Q ss_pred ccccccccc----HHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeE
Q 016960 256 HFISFNTIC----DATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSY 311 (380)
Q Consensus 256 ~~~~~nTIC----~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~ 311 (380)
++.+.||-| ....-=+.+...+.+ -.+..|||...|+-+.....+|...+.|-+
T Consensus 44 ~~~~~D~~~~~~~~~~~a~~~a~~~~~~--~~v~aiiGp~~S~~~~av~~~~~~~~ip~I 101 (396)
T cd06373 44 TLVFEDSECKCGCSESEAPLVAVDLYFQ--HKPDAFLGPGCEYAAAPVARFAAHWNVPVL 101 (396)
T ss_pred EEEEecCccccccchhhhHHHHHHHHhc--cCCeEEECCCccchhHHHHHHHhcCCCceE
Confidence 455778877 333222334443432 357778999999999999999998887754
No 325
>TIGR02260 benz_CoA_red_B benzoyl-CoA reductase, bcr type, subunit B. This model describes B, or beta, subunit of the bcr type of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA.
Probab=25.73 E-value=2.1e+02 Score=29.92 Aligned_cols=133 Identities=9% Similarity=-0.021 Sum_probs=72.1
Q ss_pred HHHHHHHcCCcceecceEEEEeCCCC----CcccHHHHHHHHHHHHhh-------C------------CCCceEEecccc
Q 016960 9 IIKKLKENGFEYTWGNVKVKLAESYG----FCWGVERAVQIAYEARKQ-------F------------PEEKIWITNEII 65 (380)
Q Consensus 9 ~~~~~~~~~~~~~~g~mkI~lA~~~G----FC~GV~RAI~~a~~~~~~-------~------------~~~~Iy~lG~LI 65 (380)
+.+..+..+.|+..- ..+....+ |++|.+++++..++++++ . ...+|++.|--+
T Consensus 201 ~~~l~~~~P~Pis~~---~~~~~~~~~~~~~~~g~~~~~~~~~~L~~el~~r~~~g~~~~~~~~~~~~e~~Ril~~G~P~ 277 (413)
T TIGR02260 201 VLESAKHKPSPIDAY---FGGIYYIGPIFGAFRGTADAIEYYGFLRAEIEQRIAEGKGPITPDGDMGEEKYRLVVEGPPN 277 (413)
T ss_pred HHHHcCCCCCCCchh---HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHcCCCCCCCcccCCCcceEEEEECCCc
Confidence 344444455655521 10233345 489999999987665521 0 123688888666
Q ss_pred cC--HHHHHHHHHcCcEEecCCccccccccccCCCE-EEEcCCCCCHHHHHHHHhcCCcEEeccCc--hhHHHHHHHHHH
Q 016960 66 HN--PTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDV-VVLPAFGAAVEEMVTLNNKNVQIVDTTCP--WVSKVWTSVEKH 140 (380)
Q Consensus 66 HN--~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~-VIIrAHGv~~~~~~~l~~~g~~viDaTCP--~V~kv~~~v~~~ 140 (380)
-+ +.+.+-+++.|..+|-+. +... .|.+ .-.+. - +.+-++.|.++-+.+.+..+. ....+.+.|+++
T Consensus 278 ~~~~~~~~k~~ee~Ga~VV~~~-----~~~~-~g~~~~~~~~-d-~~dpl~aLA~~yl~~~~~~~~~~R~~~l~~l~ke~ 349 (413)
T TIGR02260 278 WTNFREFWKLFYDEGAVVVASS-----YTKV-GGLYDQGFRH-D-PDDPLESLADYCLGCYTNNNLPMRVDLLEKYINEY 349 (413)
T ss_pred chhHHHHHHHHHHCCCEEEEEe-----cccc-cccccccccC-C-CCCHHHHHHHHHhhCcCCcCHHHHHHHHHHHHHHh
Confidence 55 556678899999999641 1100 1110 00111 1 234567677765543322211 356677778888
Q ss_pred hhCCCeEEEEecCC
Q 016960 141 KKGDYTSIIHGKYS 154 (380)
Q Consensus 141 ~~~Gy~iIIiG~~~ 154 (380)
.-+| ||.+..+.
T Consensus 350 ~aDG--VI~~~~~~ 361 (413)
T TIGR02260 350 EADG--LLINSIKS 361 (413)
T ss_pred CCCE--EEEeccCC
Confidence 7776 56665443
No 326
>PF00455 DeoRC: DeoR C terminal sensor domain; InterPro: IPR014036 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after Escherichia coli deoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerization domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].
Probab=25.41 E-value=79 Score=28.33 Aligned_cols=64 Identities=16% Similarity=0.241 Sum_probs=48.6
Q ss_pred ccCCCEEEEcCCCCCHHHHHHHHhc-CCcEEeccCchhHHHHHHHHHHhhC-CCeEEEEecCCCceeeeeccc
Q 016960 94 VNKGDVVVLPAFGAAVEEMVTLNNK-NVQIVDTTCPWVSKVWTSVEKHKKG-DYTSIIHGKYSHEETVATASF 164 (380)
Q Consensus 94 l~~g~~VIIrAHGv~~~~~~~l~~~-g~~viDaTCP~V~kv~~~v~~~~~~-Gy~iIIiG~~~HpEv~gi~g~ 164 (380)
+++|++|.+-+-=....+.+.|..+ ++.|| +.--..+..+.+. +..+++.|=.-+|+..++.|.
T Consensus 17 I~~~~~Ifld~GtT~~~la~~L~~~~~ltVv-------Tnsl~ia~~l~~~~~~~vi~~GG~~~~~~~~~~G~ 82 (161)
T PF00455_consen 17 IEDGDTIFLDSGTTTLELAKYLPDKKNLTVV-------TNSLPIANELSENPNIEVILLGGEVNPKSLSFVGP 82 (161)
T ss_pred CCCCCEEEEECchHHHHHHHHhhcCCceEEE-------ECCHHHHHHHHhcCceEEEEeCCEEEcCCCcEECc
Confidence 3578988888888888888999888 77777 4444555666654 899999997777777777663
No 327
>PRK06559 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=25.38 E-value=5.7e+02 Score=25.73 Aligned_cols=100 Identities=7% Similarity=0.029 Sum_probs=68.1
Q ss_pred ceEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccc------cCC
Q 016960 24 NVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVV------NKG 97 (380)
Q Consensus 24 ~mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el------~~g 97 (380)
.|-.+-..|.-||.|+..||+.+.+... + .++|-+=- .|........+.|+.+|.=++- +.+++ -.+
T Consensus 168 D~iLIkdNHi~~~g~i~~av~~~r~~~~-~-~~kIeVEv---~tleea~~a~~agaDiImLDnm--spe~l~~av~~~~~ 240 (290)
T PRK06559 168 DAIMLKDNHIAAVGSVQKAIAQARAYAP-F-VKMVEVEV---ESLAAAEEAAAAGADIIMLDNM--SLEQIEQAITLIAG 240 (290)
T ss_pred ceEEEcHHHHHhhccHHHHHHHHHHhCC-C-CCeEEEEC---CCHHHHHHHHHcCCCEEEECCC--CHHHHHHHHHHhcC
Confidence 3667778898899899999999877653 1 24566654 4666666666778877752110 11111 124
Q ss_pred CEEEEcCCCCCHHHHHHHHhcCCcEEeccCchh
Q 016960 98 DVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWV 130 (380)
Q Consensus 98 ~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V 130 (380)
..++--|=|++++-.....+-|+.+|.+.+|+-
T Consensus 241 ~~~leaSGGI~~~ni~~yA~tGVD~Is~galth 273 (290)
T PRK06559 241 RSRIECSGNIDMTTISRFRGLAIDYVSSGSLTH 273 (290)
T ss_pred ceEEEEECCCCHHHHHHHHhcCCCEEEeCcccc
Confidence 556677779999998888888999998888764
No 328
>COG0205 PfkA 6-phosphofructokinase [Carbohydrate transport and metabolism]
Probab=25.33 E-value=77 Score=32.61 Aligned_cols=49 Identities=31% Similarity=0.424 Sum_probs=32.4
Q ss_pred HhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCC
Q 016960 269 ERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGP 321 (380)
Q Consensus 269 ~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~ 321 (380)
.|..++..|.+...|.++||||-.|.=+.++ +++..+.+.+.| +.=||.
T Consensus 82 ~~~~~~~~l~~~gId~LvvIGGDgS~~gA~~--Lae~~~i~vVGv--PkTIDN 130 (347)
T COG0205 82 GRKVAAENLKKLGIDALVVIGGDGSYTGAAL--LAEEGGIPVVGV--PKTIDN 130 (347)
T ss_pred HHHHHHHHHHHcCCCEEEEECCCChHHHHHH--HHHhcCCcEEec--CCCccC
Confidence 4557777787678999999999998755543 454444555544 334443
No 329
>cd08193 HVD 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. 5-hydroxyvalerate dehydrogenase (HVD) is an iron-containing (type III) NAD-dependent alcohol dehydrogenase. It plays a role in the cyclopentanol metabolism biochemical pathway. It catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. This cyclopentanol (cpn) degradation pathway is present in some bacteria which can use cyclopentanol as sole carbon source. In Comamonas sp. strain NCIMB 9872, this enzyme is encoded by the CpnD gene.
Probab=25.25 E-value=3.4e+02 Score=27.49 Aligned_cols=77 Identities=17% Similarity=0.215 Sum_probs=45.0
Q ss_pred ceeEEEEcCCCChH-HHHHHHHHHHHHHhhhccccccccccccccc-ccHHHHHhHH-HHHHhhhhcCCEEEEEccCCCc
Q 016960 218 VKVGIANQTTMLKG-ETEEIGKLVEKTMMRKFGVENVNEHFISFNT-ICDATQERQD-AMYKMVEEKVDLILVVGGWNSS 294 (380)
Q Consensus 218 ~kv~vvsQTT~~~~-~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nT-IC~AT~~RQ~-a~~eLa~~~vD~miVVGG~nSS 294 (380)
+++.+|...++... .++.+.+.|++. + .++.+|+. --+.|.+-=+ +++.+.+.++|++|=|||=..-
T Consensus 27 ~~~livt~~~~~~~~~~~~v~~~L~~~-----~-----~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGs~i 96 (376)
T cd08193 27 KRVLVVTDPGILKAGLIDPLLASLEAA-----G-----IEVTVFDDVEADPPEAVVEAAVEAARAAGADGVIGFGGGSSM 96 (376)
T ss_pred CeEEEEcCcchhhCccHHHHHHHHHHc-----C-----CeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCchHH
Confidence 58888887665333 467776666541 1 12333332 1223333222 2222323579999999999999
Q ss_pred hhHHHHHHHH
Q 016960 295 NTSHLQEIAE 304 (380)
Q Consensus 295 NT~kL~eia~ 304 (380)
.+-|.+-+.-
T Consensus 97 D~aK~ia~~~ 106 (376)
T cd08193 97 DVAKLVAVLA 106 (376)
T ss_pred HHHHHHHHHH
Confidence 9999876653
No 330
>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=25.07 E-value=1.3e+02 Score=24.86 Aligned_cols=39 Identities=15% Similarity=0.227 Sum_probs=31.6
Q ss_pred hcCCEEEEEcc-CCCchhHHHHHHHHHhCCCeEeeCCCCc
Q 016960 280 EKVDLILVVGG-WNSSNTSHLQEIAEDRGIPSYWIDSEKR 318 (380)
Q Consensus 280 ~~vD~miVVGG-~nSSNT~kL~eia~~~~~~t~~Ie~~~d 318 (380)
.+-|++|++.- -+|.++..+++.|++.|.+++.|-+..+
T Consensus 46 ~~~d~vi~iS~sG~t~~~~~~~~~a~~~g~~vi~iT~~~~ 85 (128)
T cd05014 46 TPGDVVIAISNSGETDELLNLLPHLKRRGAPIIAITGNPN 85 (128)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCC
Confidence 46799999975 4677788999999999999998887654
No 331
>TIGR01279 DPOR_bchN light-independent protochlorophyllide reductase, N subunit. This enzyme describes the N subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme involved in bacteriochlorophyll biosynthesis. This subunit shows homology to the nitrogenase molybdenum-iron protein NifN.
Probab=25.02 E-value=7.7e+02 Score=25.39 Aligned_cols=103 Identities=14% Similarity=0.217 Sum_probs=55.9
Q ss_pred ceEEEEeCCCCCcccHHHHHHHHHHHH----h-hCC--CCceEEecccccCHH----HHHHHHHcCcEEecCCccccccc
Q 016960 24 NVKVKLAESYGFCWGVERAVQIAYEAR----K-QFP--EEKIWITNEIIHNPT----VNKRLEEMAVQNIPVEEGKKQFD 92 (380)
Q Consensus 24 ~mkI~lA~~~GFC~GV~RAI~~a~~~~----~-~~~--~~~Iy~lG~LIHN~~----Vv~~L~~~Gv~~v~~~~~~~~~~ 92 (380)
+..|+.+..-||..+...+.+.+.+++ . ..+ ++.+-.+|+ +|+. +..-|++.|+.++.-.+.. .++
T Consensus 115 ~~pVi~v~tpgf~g~~~~G~~~~~~alv~~~~~~~~~~~~~vniiG~--~~~~d~~elk~lL~~~Gi~v~~~lpd~-~~~ 191 (407)
T TIGR01279 115 GVPVLFAPASGLDYTFTQGEDTVLAALVPFCPEAPASEQRALVLVGS--VNDIVADQLRLELKQLGIPVVGFLPAS-HFT 191 (407)
T ss_pred CCCEEEeeCCCccccHHHHHHHHHHHHHHhhccccCCCCCcEEEEec--cChhhHHHHHHHHHHcCCeEEEEeCCC-Ccc
Confidence 356888888899754444444443322 2 111 246888997 5663 3445688899886211111 233
Q ss_pred ccc--CCCEEEEcCCCCCHHHHHHHHh-cCCcEEeccCch
Q 016960 93 VVN--KGDVVVLPAFGAAVEEMVTLNN-KNVQIVDTTCPW 129 (380)
Q Consensus 93 el~--~g~~VIIrAHGv~~~~~~~l~~-~g~~viDaTCP~ 129 (380)
+++ .+.+.++.-+......-+.|++ .|+..+...-|+
T Consensus 192 e~~~~~~~~~~~~~~~~~~~~A~~Le~~~GiP~~~~~~Pi 231 (407)
T TIGR01279 192 ELPVIGPGTVVAPLQPYLSDTATTLRRERGAKVLSAPFPF 231 (407)
T ss_pred hhhhcCCCeEEEEechHHHHHHHHHHHHhCCccccCCCCc
Confidence 443 2333333322222245666765 688887776665
No 332
>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=25.00 E-value=5.1e+02 Score=23.34 Aligned_cols=42 Identities=12% Similarity=0.214 Sum_probs=26.9
Q ss_pred HHHHHh-hhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCC
Q 016960 272 DAMYKM-VEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 272 ~a~~eL-a~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
+.+.++ .++++|.+|+.+.. .|+..+ +.+++.+.|...+.+.
T Consensus 49 ~~~~~~~~~~~vdgiii~~~~--~~~~~~-~~~~~~~ipvV~~~~~ 91 (268)
T cd06271 49 EVYRRLVESGLVDGVIISRTR--PDDPRV-ALLLERGFPFVTHGRT 91 (268)
T ss_pred HHHHHHHHcCCCCEEEEecCC--CCChHH-HHHHhcCCCEEEECCc
Confidence 445554 33479999998763 233344 4455778899888654
No 333
>TIGR01752 flav_long flavodoxin, long chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the long chain type, typical for nitrogen fixation but associated with pyruvate formate-lyase activation and cobalamin-dependent methionine synthase activity in E. coli.
Probab=24.88 E-value=2.7e+02 Score=24.77 Aligned_cols=21 Identities=19% Similarity=0.324 Sum_probs=15.4
Q ss_pred EEEEEccCCCchhHHHHHHHHH
Q 016960 284 LILVVGGWNSSNTSHLQEIAED 305 (380)
Q Consensus 284 ~miVVGG~nSSNT~kL~eia~~ 305 (380)
+.|+-|+ .+-||+++++...+
T Consensus 2 i~IiY~S-~tGnTe~vA~~Ia~ 22 (167)
T TIGR01752 2 IGIFYGT-DTGNTEGIAEKIQK 22 (167)
T ss_pred EEEEEEC-CCChHHHHHHHHHH
Confidence 3556666 99999999986544
No 334
>COG4770 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]
Probab=24.85 E-value=98 Score=34.13 Aligned_cols=149 Identities=17% Similarity=0.205 Sum_probs=103.2
Q ss_pred cchhHHHHHHHcCC-------cceecceEEEEeCCCCCcccH----------HHHHHHHHHHHhh--CCCCceEEecccc
Q 016960 5 YTSDIIKKLKENGF-------EYTWGNVKVKLAESYGFCWGV----------ERAVQIAYEARKQ--FPEEKIWITNEII 65 (380)
Q Consensus 5 ~~~~~~~~~~~~~~-------~~~~g~mkI~lA~~~GFC~GV----------~RAI~~a~~~~~~--~~~~~Iy~lG~LI 65 (380)
--|++|...|..|. +.+...|-|..|.- -|+-|= .+-|+.|.+.=.+ +|+ ||=|-
T Consensus 13 IAcRVIRtar~lGi~tVAVYSdaDa~A~hV~~ADE-Av~iGpapaaeSYL~~dkIi~Aa~~tGA~AIHPG-----YGFLS 86 (645)
T COG4770 13 IACRVIRTARDLGIRTVAVYSDADADALHVRMADE-AVHIGPAPAAESYLDIDKIIDAARRTGAQAIHPG-----YGFLS 86 (645)
T ss_pred hhHHHHHHHHHcCCceEEEEecCCCCchhhhhcch-hhhcCCCchhhhhccHHHHHHHHHHhCcccccCC-----ccccc
Confidence 35788999998883 33334555655533 234442 2223333221111 222 67888
Q ss_pred cCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCC
Q 016960 66 HNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDY 145 (380)
Q Consensus 66 HN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy 145 (380)
-|+...+.+++.|+.||-. +.+. |||-|--..-+..+.+.|+.+|=.+=--+...-..++...+=||
T Consensus 87 ENa~FA~a~~~aGlvfIGP----------~~~a---I~aMGdK~~AK~l~~~AgVp~VPG~~g~~qd~~~~~~~A~eiGy 153 (645)
T COG4770 87 ENADFAQAVEDAGLVFIGP----------SAGA---IRAMGDKIAAKKLAAEAGVPTVPGYHGPIQDAAELVAIAEEIGY 153 (645)
T ss_pred cCHHHHHHHHHCCcEEECC----------CHHH---HHHhccHHHHHHHHHHcCCCccCCCCCcccCHHHHHHHHHhcCC
Confidence 8999999999999999963 2344 88999888889999999999998888888888888888888899
Q ss_pred eEEEEecCCCceeeeecccCCc-EEEEcChhhHHHhh
Q 016960 146 TSIIHGKYSHEETVATASFAGK-YIIVKNMKEAEYVC 181 (380)
Q Consensus 146 ~iIIiG~~~HpEv~gi~g~~~~-~~vv~~~~e~~~~~ 181 (380)
.|+| ++-.|=.++ +-++.+++|+....
T Consensus 154 PVlI---------KAsaGGGGKGMRvv~~~~e~~e~l 181 (645)
T COG4770 154 PVLI---------KASAGGGGKGMRVVETPEEFAEAL 181 (645)
T ss_pred cEEE---------EeccCCCCCceEeecCHHHHHHHH
Confidence 9987 444443443 56889988876543
No 335
>TIGR00283 arch_pth2 peptidyl-tRNA hydrolase. This model describes an archaeal/eukaryotic form of peptidyl-tRNA hydrolase. Most bacterial forms are described by TIGR00447.
Probab=24.83 E-value=1.5e+02 Score=25.69 Aligned_cols=61 Identities=16% Similarity=0.225 Sum_probs=40.7
Q ss_pred EEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhcccCCCC-CCEEEEEeCCCCCHHHHHHH
Q 016960 286 LVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENWLPKG-QITIGITSGASTPDKAVEDV 364 (380)
Q Consensus 286 iVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~wl~~~-~~~VGITAGASTP~~lI~eV 364 (380)
||+...+..--..|.+.|++.|.+++.|.++.--.- +.| ...+|| .-.|..+|+++
T Consensus 52 Vvlk~~~~~el~~l~~~a~~~~l~~~~v~DAG~Tei--------------------~pgs~Tvlai---gP~~~~~id~i 108 (115)
T TIGR00283 52 VVLKVNSLEELLEIYHKAESLGLVTGLIRDAGHTQI--------------------PPGTITAVGI---GPDEDEKIDKI 108 (115)
T ss_pred EEEEeCCHHHHHHHHHHHHHcCCCEEEEEcCCccee--------------------CCCCcEEEEE---CCCCHHHHHHH
Confidence 555555555556777777888999999988864321 123 344555 47889999998
Q ss_pred HHHHH
Q 016960 365 LKKVF 369 (380)
Q Consensus 365 ~~~l~ 369 (380)
...|+
T Consensus 109 tg~Lk 113 (115)
T TIGR00283 109 TGDLK 113 (115)
T ss_pred hCCCc
Confidence 76653
No 336
>TIGR02144 LysX_arch Lysine biosynthesis enzyme LysX. The family of proteins found in this equivalog include the characterized LysX from Thermus thermophilus which is part of a well-organized lysine biosynthesis gene cluster. LysX is believed to carry out an ATP-dependent acylation of the amino group of alpha-aminoadipate in the prokaryotic version of the fungal AAA lysine biosynthesis pathway. No species having a sequence in this equivalog contains the elements of the more common diaminopimelate lysine biosythesis pathway, and none has been shown to be a lysine auxotroph. These sequences have mainly recieved the name of the related enzyme, "ribosomal protein S6 modification protein RimK". RimK has been characterized in E. coli, and acts by ATP-dependent condensation of S6 with glutamate residues.
Probab=24.79 E-value=2e+02 Score=27.19 Aligned_cols=59 Identities=15% Similarity=0.196 Sum_probs=36.8
Q ss_pred cCHHHHHHHHHcCcEEec--CCccccccc----cccCCCEEEEc--CCCCCHHHHHHHHhcCCcEEe
Q 016960 66 HNPTVNKRLEEMAVQNIP--VEEGKKQFD----VVNKGDVVVLP--AFGAAVEEMVTLNNKNVQIVD 124 (380)
Q Consensus 66 HN~~Vv~~L~~~Gv~~v~--~~~~~~~~~----el~~g~~VIIr--AHGv~~~~~~~l~~~g~~viD 124 (380)
+.+.+.+.|+++|+.+.- ..+..-.++ ++.+-|.|++| .|+........++..|+.++.
T Consensus 11 ~~~~l~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~r~~~~~~~~~~~~~le~~g~~~~n 77 (280)
T TIGR02144 11 DEKMLIEELEKLGLPYRKIYVPALPLPFGERPKELEDVDVAIIRCVSQSRALYSARLLEALGVPVIN 77 (280)
T ss_pred HHHHHHHHHHHcCCceEEEEhhheEEEcCCCccccCCCCEEEEcCcchhhHHHHHHHHHHCCCcEEC
Confidence 467888999999988652 000000111 22234778888 666555566677888999885
No 337
>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=24.74 E-value=1.2e+02 Score=28.81 Aligned_cols=50 Identities=16% Similarity=0.200 Sum_probs=35.8
Q ss_pred cHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCC
Q 016960 264 CDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 264 C~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
|.+..-. .++.+|. . -.+..|||+..|+.+..+..++++.+.|-+.....
T Consensus 46 ~~~~~a~-~~a~~li-~-~~V~aiiG~~~S~~~~av~~i~~~~~ip~is~~~~ 95 (324)
T cd06368 46 NDSFELT-NKACDLL-S-QGVAAIFGPSSSSSANTVQSICDALEIPHITTSWS 95 (324)
T ss_pred CChHHHH-HHHHHHH-h-cCcEEEECCCCHHHHHHHHHHHhccCCCcEEecCC
Confidence 5554433 4445565 3 36778899999999999999999998887654433
No 338
>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=24.63 E-value=5.6e+02 Score=24.15 Aligned_cols=48 Identities=25% Similarity=0.291 Sum_probs=30.5
Q ss_pred HHhH-HHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCC
Q 016960 268 QERQ-DAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 268 ~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
..+| +.+..|..+.+|.+|+++- .+.=....++-+++.+.|...+++.
T Consensus 42 ~~~q~~~i~~l~~~~vdgiIi~~~-~~~~~~~~l~~~~~~giPvV~~~~~ 90 (302)
T TIGR02637 42 AEGQIEVVNSLIAQKVDAIAISAN-DPDALVPALKKAMKRGIKVVTWDSG 90 (302)
T ss_pred HHHHHHHHHHHHHcCCCEEEEeCC-ChHHHHHHHHHHHHCCCEEEEeCCC
Confidence 4555 3455554468999999863 2222234455677788999888864
No 339
>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=24.50 E-value=5.2e+02 Score=23.30 Aligned_cols=94 Identities=15% Similarity=0.093 Sum_probs=48.3
Q ss_pred HHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCccCCCCcchhh-hccchhhhhcccC-CCCCCEEE
Q 016960 272 DAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKRIGPGNKIAYK-LMHGELVEKENWL-PKGQITIG 349 (380)
Q Consensus 272 ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~~~~~~-~~~~~~~~~~~wl-~~~~~~VG 349 (380)
+.+..|.+..+|.+|+.+... |... ++.+++.+.|.+.+++..+-....-+... ...+.. -.++| ..|.++|+
T Consensus 46 ~~~~~l~~~~~dgiii~~~~~--~~~~-l~~~~~~~ipvV~~~~~~~~~~~~~v~~d~~~~g~~--~~~~l~~~g~~~i~ 120 (267)
T cd06283 46 EYLESLLAYQVDGLIVNPTGN--NKEL-YQRLAKNGKPVVLVDRKIPELGVDTVTLDNYEAAKE--AVDHLIEKGYERIL 120 (267)
T ss_pred HHHHHHHHcCcCEEEEeCCCC--ChHH-HHHHhcCCCCEEEEcCCCCCCCCCEEEeccHHHHHH--HHHHHHHcCCCcEE
Confidence 344555556899999987643 3333 45566788999999874221110001100 011111 11233 13678999
Q ss_pred EEeCCCCC----HHHHHHHHHHHHh
Q 016960 350 ITSGASTP----DKAVEDVLKKVFE 370 (380)
Q Consensus 350 ITAGASTP----~~lI~eV~~~l~~ 370 (380)
+-.|.+.. ..-.....+++++
T Consensus 121 ~l~~~~~~~~~~~~r~~g~~~~~~~ 145 (267)
T cd06283 121 FVTEPLDEISPRMERYEGFKEALAE 145 (267)
T ss_pred EEecCccccccHHHHHHHHHHHHHH
Confidence 88775542 2334444555543
No 340
>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=24.47 E-value=5e+02 Score=23.92 Aligned_cols=45 Identities=16% Similarity=0.053 Sum_probs=30.0
Q ss_pred HhHHHHHH-hhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCC
Q 016960 269 ERQDAMYK-MVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 269 ~RQ~a~~e-La~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
..++.+.+ |.+.++|.+||.+... |. ..++.+++.+.|.+.+.+.
T Consensus 42 ~~~~~~~~~l~~~~vdgvi~~~~~~--~~-~~~~~l~~~~iPvv~~~~~ 87 (269)
T cd06297 42 RLKRYLESTTLAYLTDGLLLASYDL--TE-RLAERRLPTERPVVLVDAE 87 (269)
T ss_pred HHHHHHHHHHHhcCCCEEEEecCcc--Ch-HHHHHHhhcCCCEEEEccC
Confidence 33455543 5446899999997543 33 4455566788999999874
No 341
>TIGR01290 nifB nitrogenase cofactor biosynthesis protein NifB. This model describes NifB, a protein required for the biosynthesis of the iron-molybdenum (or iron-vanadium) cofactor used by the nitrogen-fixing enzyme nitrogenase. Archaeal homologs lack the most C-terminal region and score between the trusted and noise cutoffs of this model.
Probab=24.31 E-value=3.9e+02 Score=28.16 Aligned_cols=107 Identities=12% Similarity=0.112 Sum_probs=63.4
Q ss_pred HHHHHHHHHHHhhCCC-CceEEe--cccccCH----HHHHHHHHc--CcEEecCCccc---cccccccC-C-CEEEEcCC
Q 016960 40 ERAVQIAYEARKQFPE-EKIWIT--NEIIHNP----TVNKRLEEM--AVQNIPVEEGK---KQFDVVNK-G-DVVVLPAF 105 (380)
Q Consensus 40 ~RAI~~a~~~~~~~~~-~~Iy~l--G~LIHN~----~Vv~~L~~~--Gv~~v~~~~~~---~~~~el~~-g-~~VIIrAH 105 (380)
+.+++.+.+.....++ ..|..- ||=-.|+ ..+..++++ |+.+--+.+|. +.++++.+ | |.|.|+-+
T Consensus 63 ee~~~~i~~v~~~~~~~~~V~iaG~GEPLl~~e~~~~~l~~~~~~~~~i~i~lsTNG~~l~e~i~~L~~~gvd~V~islk 142 (442)
T TIGR01290 63 EQALRKARQVAAEIPQLSVVGIAGPGDPLANIGKTFQTLELVARQLPDVKLCLSTNGLMLPEHVDRLVDLGVGHVTITIN 142 (442)
T ss_pred HHHHHHHHHHHHhcCCCCEEEEecCCCcccCccccHHHHHHHHHhcCCCeEEEECCCCCCHHHHHHHHHCCCCeEEEecc
Confidence 4677777766654321 223434 4544453 345555665 77754444553 22334422 2 67999999
Q ss_pred CCCHHHHHHH------HhcCCcEEeccCchhHHHHHHHHHHhhCCCe
Q 016960 106 GAAVEEMVTL------NNKNVQIVDTTCPWVSKVWTSVEKHKKGDYT 146 (380)
Q Consensus 106 Gv~~~~~~~l------~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~ 146 (380)
+++|+.++.+ +.+.+.-.++.-.+..++.+-++.+.+.|..
T Consensus 143 a~d~e~~~~Iy~~v~~~g~~~tG~~~~~il~e~~l~~l~~l~~~G~~ 189 (442)
T TIGR01290 143 AIDPAVGEKIYPWVWYEGERYTGREAADLLIERQLEGLEKLTERGIL 189 (442)
T ss_pred CCCHHHHhhcchhhccccccccCcchHHHHHHHHHHHHHHHHhCCCe
Confidence 9999999876 2223344555545566777777888777755
No 342
>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=24.28 E-value=82 Score=32.10 Aligned_cols=30 Identities=20% Similarity=0.152 Sum_probs=26.3
Q ss_pred CCEEEEEccCCCchhHHHHHHHHHhCCCeE
Q 016960 282 VDLILVVGGWNSSNTSHLQEIAEDRGIPSY 311 (380)
Q Consensus 282 vD~miVVGG~nSSNT~kL~eia~~~~~~t~ 311 (380)
-.++.|||+..|+-|..+..+|...+.|-+
T Consensus 102 ~~v~aviG~~~S~~~~av~~~~~~~~ip~I 131 (452)
T cd06362 102 KPVAGVIGASYSSVSIQVANLLRLFKIPQI 131 (452)
T ss_pred CCeEEEECCCCCchHHHHHHHhccccCccc
Confidence 468899999999999999999998887754
No 343
>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....
Probab=24.24 E-value=67 Score=25.80 Aligned_cols=44 Identities=18% Similarity=0.483 Sum_probs=34.3
Q ss_pred hhhhcCCEEEEEccCCCchhHH-HHHHHHHhCCCeEeeCCCCccC
Q 016960 277 MVEEKVDLILVVGGWNSSNTSH-LQEIAEDRGIPSYWIDSEKRIG 320 (380)
Q Consensus 277 La~~~vD~miVVGG~nSSNT~k-L~eia~~~~~~t~~Ie~~~dL~ 320 (380)
|-.+++-++|+-.+-+...-.+ |-.+|++.+.|.+++.|..+|-
T Consensus 27 l~~~~~~lvilA~d~~~~~~~~~l~~~c~~~~Ip~~~~~s~~eLG 71 (95)
T PF01248_consen 27 LKKGKAKLVILAEDCSPDSIKKHLPALCEEKNIPYVFVPSKEELG 71 (95)
T ss_dssp HHTTCESEEEEETTSSSGHHHHHHHHHHHHTTEEEEEESHHHHHH
T ss_pred HHcCCCcEEEEcCCCChhhhcccchhheeccceeEEEECCHHHHH
Confidence 3335677777777777666667 7889999999999999888875
No 344
>cd02191 FtsZ FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at the site of bacterial cell division, which is required for constriction of cell membrane and cell envelope to yield two daughter cells.
Probab=24.22 E-value=1.8e+02 Score=28.95 Aligned_cols=44 Identities=18% Similarity=0.310 Sum_probs=35.7
Q ss_pred HHHHHHhhhhcCCEEEEE----ccCCCchhHHHHHHHHHhCCCeEeeCC
Q 016960 271 QDAMYKMVEEKVDLILVV----GGWNSSNTSHLQEIAEDRGIPSYWIDS 315 (380)
Q Consensus 271 Q~a~~eLa~~~vD~miVV----GG~nSSNT~kL~eia~~~~~~t~~Ie~ 315 (380)
++.++++. ..+|.++|+ ||..|.=+..|++++++.+..+|-|=+
T Consensus 75 ~~~I~~~l-e~~D~v~i~aglGGGTGSG~ap~ia~~~ke~~~~~~~vvt 122 (303)
T cd02191 75 QEAIDNIP-VHVDMVFITAGLGGGTGTGGAPVVAEHLKRIGTLTVAVVT 122 (303)
T ss_pred HHHHHHHH-cCCCEEEEEeccCCccchhHHHHHHHHHHHhCCCEEEEEe
Confidence 34567777 579999888 678899999999999999888877654
No 345
>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=24.21 E-value=5.5e+02 Score=23.40 Aligned_cols=85 Identities=20% Similarity=0.253 Sum_probs=45.7
Q ss_pred eEEEEcCC--CChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHHHH-hhhhcCCEEEEEccCCCchh
Q 016960 220 VGIANQTT--MLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAMYK-MVEEKVDLILVVGGWNSSNT 296 (380)
Q Consensus 220 v~vvsQTT--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~~e-La~~~vD~miVVGG~nSSNT 296 (380)
|+++--++ ++-.-|..+.+.+++.+.+. + -++....+=... +.|..+.+ |....+|.+|+.+...+
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~-g-----~~~~~~~~~~~~--~~~~~~~~~l~~~~vdgiii~~~~~~--- 70 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKY-G-----YNLILKFVSDED--EEEFELPSFLEDGKVDGIILLGGIST--- 70 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHc-C-----CEEEEEeCCCCh--HHHHHHHHHHHHCCCCEEEEeCCCCh---
Confidence 45444332 45556777777776643332 2 122222222232 34444433 43468999999874322
Q ss_pred HHHHHHHHHhCCCeEeeCCC
Q 016960 297 SHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 297 ~kL~eia~~~~~~t~~Ie~~ 316 (380)
. .++...+.+.|..+++..
T Consensus 71 ~-~~~~l~~~~ipvV~~~~~ 89 (268)
T cd06277 71 E-YIKEIKELGIPFVLVDHY 89 (268)
T ss_pred H-HHHHHhhcCCCEEEEccC
Confidence 2 244555778899888764
No 346
>PRK11657 dsbG disulfide isomerase/thiol-disulfide oxidase; Provisional
Probab=24.21 E-value=77 Score=30.64 Aligned_cols=29 Identities=14% Similarity=0.393 Sum_probs=24.0
Q ss_pred EEeccCchhHHHHHHHHHHhhCC-CeEEEE
Q 016960 122 IVDTTCPWVSKVWTSVEKHKKGD-YTSIIH 150 (380)
Q Consensus 122 viDaTCP~V~kv~~~v~~~~~~G-y~iIIi 150 (380)
..|-+|||=+|.|..++.+.+.| .++.++
T Consensus 124 FtDp~CpyC~kl~~~l~~~~~~g~V~v~~i 153 (251)
T PRK11657 124 FADPNCPYCKQFWQQARPWVDSGKVQLRHI 153 (251)
T ss_pred EECCCChhHHHHHHHHHHHhhcCceEEEEE
Confidence 38999999999999999988877 555444
No 347
>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=24.06 E-value=1.2e+02 Score=24.90 Aligned_cols=54 Identities=20% Similarity=0.354 Sum_probs=35.9
Q ss_pred ccHHHHH-hHHHHHHhhhhcCCEEEEEc-cCCCchhHHHHHHHHHhCCCeEeeCCCCc
Q 016960 263 ICDATQE-RQDAMYKMVEEKVDLILVVG-GWNSSNTSHLQEIAEDRGIPSYWIDSEKR 318 (380)
Q Consensus 263 IC~AT~~-RQ~a~~eLa~~~vD~miVVG-G~nSSNT~kL~eia~~~~~~t~~Ie~~~d 318 (380)
....+.+ +...+..+ .+-|++|++. +.++..+..+++.+++.|.++..|-+..+
T Consensus 36 ~~~~~~~~~~~~~~~~--~~~d~vi~is~sg~~~~~~~~~~~ak~~g~~vi~iT~~~~ 91 (131)
T PF01380_consen 36 ISYEAGEFFHGPLENL--DPDDLVIIISYSGETRELIELLRFAKERGAPVILITSNSE 91 (131)
T ss_dssp EEEEHHHHHTTGGGGC--STTEEEEEEESSSTTHHHHHHHHHHHHTTSEEEEEESSTT
T ss_pred eccchHHHhhhhcccc--cccceeEeeeccccchhhhhhhHHHHhcCCeEEEEeCCCC
Confidence 4444444 44435444 4689999998 46667777777888888877877776554
No 348
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=24.06 E-value=5.4e+02 Score=24.52 Aligned_cols=39 Identities=15% Similarity=0.029 Sum_probs=31.7
Q ss_pred hcCCEEEEEcc-CCCchhHHHHHHHHHhCCCeEeeCCCCc
Q 016960 280 EKVDLILVVGG-WNSSNTSHLQEIAEDRGIPSYWIDSEKR 318 (380)
Q Consensus 280 ~~vD~miVVGG-~nSSNT~kL~eia~~~~~~t~~Ie~~~d 318 (380)
++-|++|++.- ..+.++..+++.|++.|.++..|.+..+
T Consensus 174 ~~~Dv~I~iS~sg~~~~~~~~~~~ak~~ga~iI~IT~~~~ 213 (278)
T PRK11557 174 SPDDLLLAISYSGERRELNLAADEALRVGAKVLAITGFTP 213 (278)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHcCCCEEEEcCCCC
Confidence 47999999865 3456677999999999999999988753
No 349
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=23.96 E-value=4.6e+02 Score=24.90 Aligned_cols=25 Identities=20% Similarity=0.438 Sum_probs=21.7
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHHhh
Q 016960 347 TIGITSGASTPDKAVEDVLKKVFEI 371 (380)
Q Consensus 347 ~VGITAGASTP~~lI~eV~~~l~~~ 371 (380)
..|+.+-++||+.++.++.+.|.+.
T Consensus 257 ~~~~~~~~~~p~~~v~~l~~a~~e~ 281 (320)
T TIGR02122 257 PAALVTSSDVPEDLVYQITKAIFEN 281 (320)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHHhC
Confidence 4588899999999999999998764
No 350
>cd08175 G1PDH Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner. Glycerol-1-phosphate dehydrogenase (G1PDH) plays a role in the synthesis of phosphoglycerolipids in Gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires a Ni++ ion. In Bacillus subtilis, it has been described as AraM gene in L-arabinose (ara) operon. AraM protein forms homodimer. This family is bacteria specific.
Probab=23.91 E-value=2.7e+02 Score=27.88 Aligned_cols=34 Identities=24% Similarity=0.387 Sum_probs=28.5
Q ss_pred cCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCC
Q 016960 281 KVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 281 ~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~ 316 (380)
++|++|-|||=.+-.+-|.+-.. .+.|-+.|-|-
T Consensus 80 ~~d~IIaIGGGs~~D~aK~vA~~--~~~p~i~IPTT 113 (348)
T cd08175 80 DTDLIIAVGSGTINDITKYVSYK--TGIPYISVPTA 113 (348)
T ss_pred cCCEEEEECCcHHHHHHHHHHHh--cCCCEEEecCc
Confidence 79999999999999999987643 56788888765
No 351
>COG0104 PurA Adenylosuccinate synthase [Nucleotide transport and metabolism]
Probab=23.60 E-value=1.2e+02 Score=32.24 Aligned_cols=49 Identities=12% Similarity=0.183 Sum_probs=42.8
Q ss_pred cCCCCCHHHHHHHHhcCCcEEeccC---------------------------------------------chhHHHHHHH
Q 016960 103 PAFGAAVEEMVTLNNKNVQIVDTTC---------------------------------------------PWVSKVWTSV 137 (380)
Q Consensus 103 rAHGv~~~~~~~l~~~g~~viDaTC---------------------------------------------P~V~kv~~~v 137 (380)
..-|+.|.-.++..++|+.+.|--= |+|.-+....
T Consensus 130 TgrGIGPaY~DKv~R~giRv~DL~d~~~l~~kle~~~~~~n~~l~~~y~~~~~~~~~~~~~~~~~~~~l~~~v~D~~~~l 209 (430)
T COG0104 130 TGRGIGPAYEDKVARRGIRVGDLLDPETLREKLERLLEYKNFQLVKYYGAEAVDFEDILDEYYEYAERLKPYVTDVSVLL 209 (430)
T ss_pred CCCccChhhhhhHhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHhcCcccccHHHHHHHHHHHHHhhcchhhhhHHHH
Confidence 4458999999999999999977654 9999999999
Q ss_pred HHHhhCCCeEEEEe
Q 016960 138 EKHKKGDYTSIIHG 151 (380)
Q Consensus 138 ~~~~~~Gy~iIIiG 151 (380)
.++.++|.+|++=|
T Consensus 210 ~~a~~~g~~VLfEG 223 (430)
T COG0104 210 NDALDAGKRVLFEG 223 (430)
T ss_pred HHHHHcCCeEEEEc
Confidence 99999999999877
No 352
>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=23.52 E-value=1.5e+02 Score=22.53 Aligned_cols=35 Identities=26% Similarity=0.302 Sum_probs=26.2
Q ss_pred hcCCEEEEEcc-CCCchhHHHHHHHHHhCCCeEeeC
Q 016960 280 EKVDLILVVGG-WNSSNTSHLQEIAEDRGIPSYWID 314 (380)
Q Consensus 280 ~~vD~miVVGG-~nSSNT~kL~eia~~~~~~t~~Ie 314 (380)
.+-|+++++.- .+|..+..+++.+++.|.+++-|-
T Consensus 46 ~~~d~~i~iS~sg~t~~~~~~~~~a~~~g~~ii~it 81 (87)
T cd04795 46 RKGDVVIALSYSGRTEELLAALEIAKELGIPVIAIT 81 (87)
T ss_pred CCCCEEEEEECCCCCHHHHHHHHHHHHcCCeEEEEe
Confidence 47899988864 457778889999988876665543
No 353
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=23.44 E-value=2e+02 Score=27.63 Aligned_cols=52 Identities=10% Similarity=0.051 Sum_probs=39.0
Q ss_pred EcCCCCCHHHH-HHHHhcCCcEEe--ccCchhHHHHHHHHHHhhCCCeEEEEecC
Q 016960 102 LPAFGAAVEEM-VTLNNKNVQIVD--TTCPWVSKVWTSVEKHKKGDYTSIIHGKY 153 (380)
Q Consensus 102 IrAHGv~~~~~-~~l~~~g~~viD--aTCP~V~kv~~~v~~~~~~Gy~iIIiG~~ 153 (380)
...|+++.+.. .+++..|+.++- ..|+.-..+.+..+-+.+-|...++.|+-
T Consensus 40 ~~~H~~~~~~~~~qA~algipl~~~~~~~~~e~~~e~l~~~l~~~gv~~vv~GdI 94 (223)
T TIGR00290 40 YMFHGVNAHLTDLQAESIGIPLIKLYTEGTEEDEVEELKGILHTLDVEAVVFGAI 94 (223)
T ss_pred ccccccCHHHHHHHHHHcCCCeEEeecCCCccHHHHHHHHHHHHcCCCEEEECCc
Confidence 47799999966 577779999765 67776666666666666668888998865
No 354
>PF08485 Polysacc_syn_2C: Polysaccharide biosynthesis protein C-terminal; InterPro: IPR013692 This domain is found to the C terminus of the IPR003869 from INTERPRO domain in bacterial polysaccharide biosynthesis enzymes including the capsule protein CapD [] and several putative epimerases/dehydratases. ; GO: 0003978 UDP-glucose 4-epimerase activity, 0009103 lipopolysaccharide biosynthetic process
Probab=23.22 E-value=26 Score=26.16 Aligned_cols=12 Identities=50% Similarity=0.659 Sum_probs=10.0
Q ss_pred EccCCCchhHHH
Q 016960 288 VGGWNSSNTSHL 299 (380)
Q Consensus 288 VGG~nSSNT~kL 299 (380)
+-.+||.||.+|
T Consensus 21 ~~dYnShNT~rL 32 (48)
T PF08485_consen 21 VEDYNSHNTERL 32 (48)
T ss_pred ccccCCCCcccc
Confidence 457999999987
No 355
>PF05706 CDKN3: Cyclin-dependent kinase inhibitor 3 (CDKN3); InterPro: IPR022778 This entry represents a domain found in cyclin-dependent kinase inhibitor 3 or kinase associated phosphatase proteins from several mammalian species. The cyclin-dependent kinase (Cdk)-associated protein phosphatase (KAP) is a human dual specificity protein phosphatase that dephosphorylates Cdk2 on threonine 160 in a cyclin-dependent manner [], []. This domain is also found in MAP kinase phosphatase and esterases. This entry contains both eukaryotic and bacterial proteins.; GO: 0004721 phosphoprotein phosphatase activity, 0004725 protein tyrosine phosphatase activity; PDB: 1FQ1_A 1FPZ_F.
Probab=23.12 E-value=82 Score=29.29 Aligned_cols=43 Identities=14% Similarity=0.309 Sum_probs=24.8
Q ss_pred HHHHHHHhcCCc-----EEeccCchhHHHHHHHHHHh---hCCCeEEEEec
Q 016960 110 EEMVTLNNKNVQ-----IVDTTCPWVSKVWTSVEKHK---KGDYTSIIHGK 152 (380)
Q Consensus 110 ~~~~~l~~~g~~-----viDaTCP~V~kv~~~v~~~~---~~Gy~iIIiG~ 152 (380)
+..+.++++|+. |.|-..|-....|+...++. ++|.+|+|+..
T Consensus 91 ~L~~~~~~~Gi~~~h~PI~D~~aPd~~~~~~i~~eL~~~L~~g~~V~vHC~ 141 (168)
T PF05706_consen 91 DLGEAAQARGIAWHHLPIPDGSAPDFAAAWQILEELAARLENGRKVLVHCR 141 (168)
T ss_dssp THHHHHHHTT-EEEE----TTS---HHHHHHHHHHHHHHHHTT--EEEE-S
T ss_pred cHHHHHHHcCCEEEecCccCCCCCCHHHHHHHHHHHHHHHHcCCEEEEECC
Confidence 566777777766 47889998777777665554 48999999973
No 356
>PRK06830 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional
Probab=23.03 E-value=1.2e+02 Score=32.13 Aligned_cols=45 Identities=18% Similarity=0.371 Sum_probs=34.6
Q ss_pred HhHHHHHHhhhhcCCEEEEEccCCCchhH-HHHHHHHHhCC--CeEee
Q 016960 269 ERQDAMYKMVEEKVDLILVVGGWNSSNTS-HLQEIAEDRGI--PSYWI 313 (380)
Q Consensus 269 ~RQ~a~~eLa~~~vD~miVVGG~nSSNT~-kL~eia~~~~~--~t~~I 313 (380)
.+++.+..|....+|.+++|||-.|-.+- +|.+-+++.|. +...|
T Consensus 160 ~~~~iv~~L~~~~I~~L~vIGGdgT~~gA~~l~ee~~~~g~~I~VIGI 207 (443)
T PRK06830 160 DPEEIVDTLERMNINILFVIGGDGTLRGASAIAEEIERRGLKISVIGI 207 (443)
T ss_pred hHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHHhCCCceEEEe
Confidence 56777777766789999999999998766 78888877773 44444
No 357
>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=23.01 E-value=3.8e+02 Score=23.13 Aligned_cols=19 Identities=16% Similarity=0.004 Sum_probs=11.3
Q ss_pred HHHHHhhC-CCeEEEEecCC
Q 016960 136 SVEKHKKG-DYTSIIHGKYS 154 (380)
Q Consensus 136 ~v~~~~~~-Gy~iIIiG~~~ 154 (380)
..+++.++ ...++.+||..
T Consensus 153 ~~~~~~~~~~~~~i~iGD~~ 172 (188)
T TIGR01489 153 VIHKLSEPKYQHIIYIGDGV 172 (188)
T ss_pred HHHHHHhhcCceEEEECCCc
Confidence 44444444 67788888653
No 358
>PRK03562 glutathione-regulated potassium-efflux system protein KefC; Provisional
Probab=22.97 E-value=1.2e+02 Score=33.14 Aligned_cols=67 Identities=15% Similarity=0.083 Sum_probs=46.5
Q ss_pred CCEEEEcCCCCCHHHHHHHHhcCCcE--EeccCchhHHHHHHHHHHhhCCCeEEEEecCCCceeeeecccCC-cEEEE
Q 016960 97 GDVVVLPAFGAAVEEMVTLNNKNVQI--VDTTCPWVSKVWTSVEKHKKGDYTSIIHGKYSHEETVATASFAG-KYIIV 171 (380)
Q Consensus 97 g~~VIIrAHGv~~~~~~~l~~~g~~v--iDaTCP~V~kv~~~v~~~~~~Gy~iIIiG~~~HpEv~gi~g~~~-~~~vv 171 (380)
+.++|+-.--+...+-+.|+++|.++ ||.. .++++++.+.||+ +++||..+|++---.|... +.+|+
T Consensus 401 ~~vII~G~Gr~G~~va~~L~~~g~~vvvID~d-------~~~v~~~~~~g~~-v~~GDat~~~~L~~agi~~A~~vvv 470 (621)
T PRK03562 401 PRVIIAGFGRFGQIVGRLLLSSGVKMTVLDHD-------PDHIETLRKFGMK-VFYGDATRMDLLESAGAAKAEVLIN 470 (621)
T ss_pred CcEEEEecChHHHHHHHHHHhCCCCEEEEECC-------HHHHHHHHhcCCe-EEEEeCCCHHHHHhcCCCcCCEEEE
Confidence 45566666667777889999988655 6654 4456666678986 5999999999875555432 44444
No 359
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=22.93 E-value=1e+02 Score=27.84 Aligned_cols=73 Identities=21% Similarity=0.196 Sum_probs=42.5
Q ss_pred EEEEcc----CCCchhHHHHHHHHHhCCCeEeeCCC-CccCCCCcchhhhccchhhhhcccCC-CCCCEEEEEeCCC-CC
Q 016960 285 ILVVGG----WNSSNTSHLQEIAEDRGIPSYWIDSE-KRIGPGNKIAYKLMHGELVEKENWLP-KGQITIGITSGAS-TP 357 (380)
Q Consensus 285 miVVGG----~nSSNT~kL~eia~~~~~~t~~Ie~~-~dL~~~~~~~~~~~~~~~~~~~~wl~-~~~~~VGITAGAS-TP 357 (380)
+|++|+ ...+|+.-|....++.|.......-+ +|.+. |+ ..-.+|+. .++..|=+|.|+| +|
T Consensus 9 vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~Dd~~~---i~--------~~l~~~~~~~~~DlVIttGGtg~g~ 77 (163)
T TIGR02667 9 ILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVKDDIYQ---IR--------AQVSAWIADPDVQVILITGGTGFTG 77 (163)
T ss_pred EEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcCCCHHH---HH--------HHHHHHHhcCCCCEEEECCCcCCCC
Confidence 445665 56778999999999988654333222 22221 11 00114531 3577777777766 46
Q ss_pred HHHHHHHHHHH
Q 016960 358 DKAVEDVLKKV 368 (380)
Q Consensus 358 ~~lI~eV~~~l 368 (380)
...+.+++..+
T Consensus 78 ~D~t~eal~~l 88 (163)
T TIGR02667 78 RDVTPEALEPL 88 (163)
T ss_pred CCCcHHHHHHH
Confidence 67777777766
No 360
>PF06722 DUF1205: Protein of unknown function (DUF1205); InterPro: IPR010610 This entry represents a conserved region of unknown function within bacterial glycosyl transferases. Many proteins containing this domain are members of the glycosyl transferase family 28 IPR004276 from INTERPRO.; PDB: 3OTH_A 3OTG_A 3OTI_A 3D0R_A 3D0Q_B 2P6P_A 3UYK_A 3UYL_B 3TSA_B 2YJN_A.
Probab=22.92 E-value=47 Score=27.79 Aligned_cols=34 Identities=21% Similarity=0.427 Sum_probs=26.6
Q ss_pred ccCCC--CCCEEEEEeCCCCCH-------HHHHHHHHHHHhhh
Q 016960 339 NWLPK--GQITIGITSGASTPD-------KAVEDVLKKVFEIK 372 (380)
Q Consensus 339 ~wl~~--~~~~VGITAGASTP~-------~lI~eV~~~l~~~~ 372 (380)
.|+.. +-.+|.||.|.|++. ..+.+++..+.++.
T Consensus 32 ~Wl~~~~~RpRVcvT~G~~~~~~~g~~~~~~l~~ll~ala~ld 74 (97)
T PF06722_consen 32 DWLLEPPGRPRVCVTLGTSVRMFFGPGGVPLLRRLLEALAGLD 74 (97)
T ss_dssp GGGSSSTSSEEEEEEETHHHCHHHSCHHHCHHHHHHHHHHTSS
T ss_pred cccccCCCCCEEEEEcCCCccccccccchHHHHHHHHHHhhCC
Confidence 68843 356999999999997 37888888888763
No 361
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=22.86 E-value=1.8e+02 Score=28.11 Aligned_cols=55 Identities=16% Similarity=0.132 Sum_probs=39.7
Q ss_pred ccHHHHHhHHHHHHhhhhcCCEEEEEcc-CCCchhHHHHHHHHHhCCCeEeeCCCCc
Q 016960 263 ICDATQERQDAMYKMVEEKVDLILVVGG-WNSSNTSHLQEIAEDRGIPSYWIDSEKR 318 (380)
Q Consensus 263 IC~AT~~RQ~a~~eLa~~~vD~miVVGG-~nSSNT~kL~eia~~~~~~t~~Ie~~~d 318 (380)
.|.....-+.....+. ++-|++|++.- .++.++..+++.|++.|.+++.|-+-.+
T Consensus 170 ~~~~d~~~~~~~~~~~-~~~Dl~I~iS~sG~t~~~~~~~~~ak~~g~~ii~IT~~~~ 225 (292)
T PRK11337 170 QAYDDAHIMLMSAALL-QEGDVVLVVSHSGRTSDVIEAVELAKKNGAKIICITNSYH 225 (292)
T ss_pred EEcCCHHHHHHHHhcC-CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCC
Confidence 3443333343334455 57899888875 4567899999999999999999988754
No 362
>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=22.77 E-value=2.3e+02 Score=26.35 Aligned_cols=51 Identities=10% Similarity=0.106 Sum_probs=38.6
Q ss_pred CCCCCHHH-HHHHHhcCCcE--EeccCc---hhHHHHHHHHHHhhCCCeEEEEecCC
Q 016960 104 AFGAAVEE-MVTLNNKNVQI--VDTTCP---WVSKVWTSVEKHKKGDYTSIIHGKYS 154 (380)
Q Consensus 104 AHGv~~~~-~~~l~~~g~~v--iDaTCP---~V~kv~~~v~~~~~~Gy~iIIiG~~~ 154 (380)
.|+++.+. ...++..|+.+ +|..|. +++.+.+..+++.++|+..|+.|+-.
T Consensus 42 ~h~~~~e~~~~~A~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~g~~~vv~G~i~ 98 (194)
T cd01994 42 YHTVNHELLELQAEAMGIPLIRIEISGEEEDEVEDLKELLRKLKEEGVDAVVFGAIL 98 (194)
T ss_pred ccccCHHHHHHHHHHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHcCCCEEEECccc
Confidence 58777764 45667788765 666664 77888888888888899999999643
No 363
>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=22.72 E-value=3.8e+02 Score=26.64 Aligned_cols=88 Identities=15% Similarity=0.194 Sum_probs=50.9
Q ss_pred ceeEEEEcCCCChH-HHHHHHHHHHHHHhhhccccccccccccccccc-HHHHHhHH-HHHHhhhhcCCEEEEEccCCCc
Q 016960 218 VKVGIANQTTMLKG-ETEEIGKLVEKTMMRKFGVENVNEHFISFNTIC-DATQERQD-AMYKMVEEKVDLILVVGGWNSS 294 (380)
Q Consensus 218 ~kv~vvsQTT~~~~-~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC-~AT~~RQ~-a~~eLa~~~vD~miVVGG~nSS 294 (380)
+++.+|........ .++.+.+.|++. .++.+|+.++ +.|.+-=+ ++..+.+..+|++|-|||-..-
T Consensus 23 ~~~lvv~~~~~~~~g~~~~v~~~l~~~-----------~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs~~ 91 (332)
T cd08180 23 KRVLIVTDPFMVKSGMLDKVTDHLDSS-----------IEVEIFSDVVPDPPIEVVAKGIKKFLDFKPDIVIALGGGSAI 91 (332)
T ss_pred CeEEEEeCchhhhCccHHHHHHHHHhc-----------CcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEECCchHH
Confidence 47777775544332 556666666431 1244566665 33333222 2222323469999999999999
Q ss_pred hhHHHHHHHHH-----hCCCeEeeCCC
Q 016960 295 NTSHLQEIAED-----RGIPSYWIDSE 316 (380)
Q Consensus 295 NT~kL~eia~~-----~~~~t~~Ie~~ 316 (380)
.+-|.+.+... .+.|-+.|-|-
T Consensus 92 D~aKa~a~~~~~~~~~~~~p~i~VPTt 118 (332)
T cd08180 92 DAAKAIIYFAKKLGKKKKPLFIAIPTT 118 (332)
T ss_pred HHHHHHHHHHhCCCCCCCCCEEEeCCC
Confidence 99987655322 23566777654
No 364
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=22.69 E-value=5.4e+02 Score=27.60 Aligned_cols=113 Identities=15% Similarity=0.168 Sum_probs=69.9
Q ss_pred ceEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCH-HHHHHHHHcCcEEecCCcccc--ccccccCCCEE
Q 016960 24 NVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNP-TVNKRLEEMAVQNIPVEEGKK--QFDVVNKGDVV 100 (380)
Q Consensus 24 ~mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~-~Vv~~L~~~Gv~~v~~~~~~~--~~~el~~g~~V 100 (380)
+-+++.|+. -+-|-+++.+...+..++.|.---.++--. .+++.|+++|+.+++++=+.- +++.- +.+.+
T Consensus 78 Gg~vy~A~~------aedA~~ii~~iv~~k~~k~vVKsKSmvseEIgln~~Le~~G~ev~ETDLGE~IlQl~~~-~PsHI 150 (459)
T COG1139 78 GGHVYFAKD------AEDAREIIGEIVGEKNGKKVVKSKSMVSEEIGLNHYLEEKGIEVWETDLGELILQLAGE-PPSHI 150 (459)
T ss_pred CCEEEEeCC------HHHHHHHHHHHHhhccCcEEEEecchhHHHhhhHHHHHHcCCeEEEccHHHHHHHhcCC-CCcce
Confidence 457888977 589999999988754455554444443322 356789999999998632110 12222 23578
Q ss_pred EEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCC
Q 016960 101 VLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDY 145 (380)
Q Consensus 101 IIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy 145 (380)
|.+|=.-+++...++-+..+....- +-...+-..|+++-.+-|
T Consensus 151 V~PAlH~~reqIa~if~ekl~~~~~--~~~eel~~~aR~~lR~kf 193 (459)
T COG1139 151 VAPALHKNREQIAEIFKEKLGYEGE--DTPEELTAAAREFLREKF 193 (459)
T ss_pred eccccccCHHHHHHHHHHhcCCCCC--CCHHHHHHHHHHHHHHHH
Confidence 8999888887666655444443222 555666666666655443
No 365
>TIGR01418 PEP_synth phosphoenolpyruvate synthase. Also called pyruvate,water dikinase and PEP synthase. The member from Methanococcus jannaschii contains a large intein. This enzyme generates phosphoenolpyruvate (PEP) from pyruvate, hydrolyzing ATP to AMP and releasing inorganic phosphate in the process. The enzyme shows extensive homology to other enzymes that use PEP as substrate or product. This enzyme may provide PEP for gluconeogenesis, for PTS-type carbohydrate transport systems, or for other processes.
Probab=22.60 E-value=1.5e+02 Score=33.69 Aligned_cols=49 Identities=24% Similarity=0.234 Sum_probs=43.2
Q ss_pred CCcccHHHHHHHHHHHHhhCCCCceEEeccccc-CHHHHHHHHHcCcEEec
Q 016960 34 GFCWGVERAVQIAYEARKQFPEEKIWITNEIIH-NPTVNKRLEEMAVQNIP 83 (380)
Q Consensus 34 GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIH-N~~Vv~~L~~~Gv~~v~ 83 (380)
.+-..|.+||+.+.++.++. ++++-+.|++-. +|.....|-.+|+.++.
T Consensus 715 ~~hPaV~~~i~~vi~~a~~~-g~~vgicge~~~~~p~~~~~l~~~G~~~ls 764 (782)
T TIGR01418 715 ERNPAVLRLIEMAIKAAKEH-GKKVGICGQAPSDYPEVVEFLVEEGIDSIS 764 (782)
T ss_pred CCCHHHHHHHHHHHHHHHhc-CCeEEEeCCCCCCCHHHHHHHHHcCCCEEE
Confidence 35678999999998888765 579999999998 89999999999999886
No 366
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=22.54 E-value=88 Score=25.48 Aligned_cols=25 Identities=8% Similarity=0.146 Sum_probs=21.4
Q ss_pred HHHHHHHHHHhhCCCeEEEEecCCC
Q 016960 131 SKVWTSVEKHKKGDYTSIIHGKYSH 155 (380)
Q Consensus 131 ~kv~~~v~~~~~~Gy~iIIiG~~~H 155 (380)
+.||+.++++.+.||+|-.+.++++
T Consensus 34 taVwK~Iq~Lr~~G~~I~s~~~kGY 58 (79)
T COG1654 34 TAVWKHIQQLREEGVDIESVRGKGY 58 (79)
T ss_pred HHHHHHHHHHHHhCCceEecCCCce
Confidence 6799999999999999988876543
No 367
>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=22.52 E-value=2.3e+02 Score=24.97 Aligned_cols=67 Identities=9% Similarity=0.065 Sum_probs=42.4
Q ss_pred HHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHHHHHHhcCC-c--EEecc--CchhHHHHHHHHHHhh
Q 016960 68 PTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTLNNKNV-Q--IVDTT--CPWVSKVWTSVEKHKK 142 (380)
Q Consensus 68 ~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l~~~g~-~--viDaT--CP~V~kv~~~v~~~~~ 142 (380)
+.+++.|+++|+.+.- + +||. .......+++.|+ . |.--. =|.=+-..+.++++..
T Consensus 133 ~~~l~~L~~~Gi~~~i----------~-TGD~--------~~~a~~~~~~lgi~~~~v~a~~~~kP~~k~~~~~i~~l~~ 193 (215)
T PF00702_consen 133 KEALQELKEAGIKVAI----------L-TGDN--------ESTASAIAKQLGIFDSIVFARVIGKPEPKIFLRIIKELQV 193 (215)
T ss_dssp HHHHHHHHHTTEEEEE----------E-ESSE--------HHHHHHHHHHTTSCSEEEEESHETTTHHHHHHHHHHHHTC
T ss_pred hhhhhhhhccCcceee----------e-eccc--------cccccccccccccccccccccccccccchhHHHHHHHHhc
Confidence 6788888889986542 1 2331 2345556666777 3 33222 2655556777888875
Q ss_pred CCCeEEEEecC
Q 016960 143 GDYTSIIHGKY 153 (380)
Q Consensus 143 ~Gy~iIIiG~~ 153 (380)
++..++.+||.
T Consensus 194 ~~~~v~~vGDg 204 (215)
T PF00702_consen 194 KPGEVAMVGDG 204 (215)
T ss_dssp TGGGEEEEESS
T ss_pred CCCEEEEEccC
Confidence 77799999974
No 368
>PF01513 NAD_kinase: ATP-NAD kinase; InterPro: IPR002504 Members of this family are ATP-NAD kinases 2.7.1.23 from EC. The enzymes catalyse the phosphorylation of NAD to NADP utilizing ATP and other nucleoside triphosphates as well as inorganic polyphosphate as a source of phosphorus.; GO: 0003951 NAD+ kinase activity, 0008152 metabolic process; PDB: 1U0T_B 1U0R_D 1Y3H_A 1Y3I_A 3AFO_B 1YT5_B 2AN1_A 2I2A_A 3V8P_A 2I1W_A ....
Probab=22.42 E-value=87 Score=30.60 Aligned_cols=24 Identities=21% Similarity=0.267 Sum_probs=15.8
Q ss_pred eeEEEEcCC--CChHHHHHHHHHHHH
Q 016960 219 KVGIANQTT--MLKGETEEIGKLVEK 242 (380)
Q Consensus 219 kv~vvsQTT--~~~~~~~~i~~~l~~ 242 (380)
||+++.... -..+.++++.++|++
T Consensus 1 kVgii~np~~~~~~~~~~~~~~~L~~ 26 (285)
T PF01513_consen 1 KVGIIANPNKPEAIELANELARWLLE 26 (285)
T ss_dssp -EEEEESSCGHCCCHHHHHHHHHHHH
T ss_pred CEEEEEcCCCHHHHHHHHHHHHHHHh
Confidence 467777766 345667777777766
No 369
>TIGR00854 pts-sorbose PTS system, mannose/fructose/sorbose family, IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families.It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIB components of this family of PTS transporters.
Probab=22.40 E-value=5.2e+02 Score=23.21 Aligned_cols=73 Identities=12% Similarity=0.241 Sum_probs=50.2
Q ss_pred cccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHHHHHH
Q 016960 36 CWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEEMVTL 115 (380)
Q Consensus 36 C~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~~~~l 115 (380)
.+.|+.|++...+.. +.+.+++++ +=||.-..+|-+.|+. +...+-. .+. -.+|...+.++=-++++..+.+
T Consensus 58 i~sve~a~~~l~~~~--~~~~~v~vl---~k~~~da~~l~~~g~~-i~~iniG-~~~-~~~g~~~v~~~v~l~~~e~~~l 129 (151)
T TIGR00854 58 FVSLEKTINVIHKPA--YHDQTIFLL---FRNPQDVLTLVEGGVP-IKTVNVG-GMH-FSNGKKQITKKVSVDDQDITAF 129 (151)
T ss_pred EEEHHHHHHHHhCcC--CCCceEEEE---ECCHHHHHHHHHcCCC-CCEEEEC-Ccc-cCCCCEEEecceeeCHHHHHHH
Confidence 467888888776533 234578886 7899999999999997 4332100 111 1247778888888999877766
Q ss_pred H
Q 016960 116 N 116 (380)
Q Consensus 116 ~ 116 (380)
+
T Consensus 130 ~ 130 (151)
T TIGR00854 130 R 130 (151)
T ss_pred H
Confidence 4
No 370
>PRK11177 phosphoenolpyruvate-protein phosphotransferase; Provisional
Probab=22.24 E-value=1.6e+02 Score=32.31 Aligned_cols=95 Identities=12% Similarity=0.077 Sum_probs=63.3
Q ss_pred CCCCcccHHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEEEcCCCCCHHH
Q 016960 32 SYGFCWGVERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAVEE 111 (380)
Q Consensus 32 ~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~~~ 111 (380)
...+...|.|+|+.+.++.++. ++++.+.|++--+|..+--|-.+|+.-++-. ...++. -.-+||.+ +...
T Consensus 474 ~~~~hPav~~~i~~v~~~a~~~-g~~v~vCGe~A~dp~~~~lLlglGi~~lSm~-----p~~i~~-vk~~i~~~--~~~~ 544 (575)
T PRK11177 474 YNPMSPSVLNLIKQVIDASHAE-GKWTGMCGELAGDERATLLLLGMGLDEFSMS-----AISIPR-IKKIIRNT--NFED 544 (575)
T ss_pred CCCCCHHHHHHHHHHHHHHHhc-CCeEEEeCCCCCCHHHHHHHHHCCCCeEEEC-----HHHHHH-HHHHHHhC--CHHH
Confidence 4557889999999999988765 5899999999999999999999999888631 111211 11244543 3333
Q ss_pred HHHHHhcCCcEEeccCchhHHHHHHHHHH
Q 016960 112 MVTLNNKNVQIVDTTCPWVSKVWTSVEKH 140 (380)
Q Consensus 112 ~~~l~~~g~~viDaTCP~V~kv~~~v~~~ 140 (380)
.+.+.++ +. .|+-...|+..++++
T Consensus 545 ~~~~a~~---~l--~~~~~~~v~~~~~~~ 568 (575)
T PRK11177 545 AKALAEQ---AL--AQPTADELMTLVNKF 568 (575)
T ss_pred HHHHHHH---HH--cCCCHHHHHHHHHHH
Confidence 3333332 22 455566666666654
No 371
>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=22.17 E-value=1.7e+02 Score=24.57 Aligned_cols=39 Identities=10% Similarity=0.244 Sum_probs=32.0
Q ss_pred hcCCEEEEEcc-CCCchhHHHHHHHHHhCCCeEeeCCCCc
Q 016960 280 EKVDLILVVGG-WNSSNTSHLQEIAEDRGIPSYWIDSEKR 318 (380)
Q Consensus 280 ~~vD~miVVGG-~nSSNT~kL~eia~~~~~~t~~Ie~~~d 318 (380)
++-|++|+|-- -+|.++...++.|++.|.+++-|-+-.+
T Consensus 46 ~~~dl~I~iS~SG~t~~~~~~~~~a~~~g~~vi~iT~~~~ 85 (120)
T cd05710 46 TEKSVVILASHSGNTKETVAAAKFAKEKGATVIGLTDDED 85 (120)
T ss_pred CCCcEEEEEeCCCCChHHHHHHHHHHHcCCeEEEEECCCC
Confidence 46799988875 4778889999999999999988877654
No 372
>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.
Probab=22.15 E-value=2.2e+02 Score=30.18 Aligned_cols=55 Identities=20% Similarity=0.211 Sum_probs=38.1
Q ss_pred CCCEEEEcC-CC---------CCHHHHHHHHhcCCcE-EeccCchhHHHHHHHHHHhhCCCe-EEEEecC
Q 016960 96 KGDVVVLPA-FG---------AAVEEMVTLNNKNVQI-VDTTCPWVSKVWTSVEKHKKGDYT-SIIHGKY 153 (380)
Q Consensus 96 ~g~~VIIrA-HG---------v~~~~~~~l~~~g~~v-iDaTCP~V~kv~~~v~~~~~~Gy~-iIIiG~~ 153 (380)
+-+++||+- ++ ...++.+.|++.|+.+ +|..- .++-++.++..+.|+. +|++|.+
T Consensus 282 P~qV~Iipi~~~~~~~~~~~~~A~~l~~~Lr~~girv~lD~r~---~s~gkk~k~Ae~~GvP~~IiIG~~ 348 (472)
T TIGR00408 282 PIQVVIIPIIFKKKENEKVMEAAREVRSRLKKAGFRVHIDDRD---NRPGRKFYQWEIKGIPLRIEVGPN 348 (472)
T ss_pred cceEEEEEccCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCC---CCHHHHHHHHHHCCCCEEEEECcc
Confidence 345778874 22 2345778898999888 77653 3777777788888987 5667755
No 373
>PRK03202 6-phosphofructokinase; Provisional
Probab=22.12 E-value=1.2e+02 Score=30.65 Aligned_cols=43 Identities=28% Similarity=0.431 Sum_probs=32.6
Q ss_pred HHHhHHHHHHhhhhcCCEEEEEccCCCchhH-HHHHHHHHhCCCeEee
Q 016960 267 TQERQDAMYKMVEEKVDLILVVGGWNSSNTS-HLQEIAEDRGIPSYWI 313 (380)
Q Consensus 267 T~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~-kL~eia~~~~~~t~~I 313 (380)
...++.+++.|.+...|.+|+|||-.|-.+- +|.| .+.+.+.|
T Consensus 79 ~~~~~~~~~~l~~~~Id~Li~IGGd~s~~~a~~L~e----~~i~vigi 122 (320)
T PRK03202 79 EEGRAKAIENLKKLGIDALVVIGGDGSYMGAKRLTE----HGIPVIGL 122 (320)
T ss_pred HHHHHHHHHHHHHcCCCEEEEeCChHHHHHHHHHHh----cCCcEEEe
Confidence 4678888888876789999999999987665 5553 46666665
No 374
>TIGR03006 pepcterm_polyde polysaccharide deactylase family protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide deacetylases (pfam01522). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene. The highest scoring homologs below the trusted cutoff for this model are found in several species of Methanosarcina, an archaeal genus.
Probab=22.11 E-value=5.7e+02 Score=25.02 Aligned_cols=95 Identities=11% Similarity=0.082 Sum_probs=56.3
Q ss_pred CcccHHHHHHHHHHHHhhCC-CCceEEecccc-cCHHHHHHHHHcCcEEecCCcccc-------------------cccc
Q 016960 35 FCWGVERAVQIAYEARKQFP-EEKIWITNEII-HNPTVNKRLEEMAVQNIPVEEGKK-------------------QFDV 93 (380)
Q Consensus 35 FC~GV~RAI~~a~~~~~~~~-~~~Iy~lG~LI-HN~~Vv~~L~~~Gv~~v~~~~~~~-------------------~~~e 93 (380)
+-.+|+.-+..+.+++++++ +.-.|++|.++ ++|.+++++.+.|-.+-...-... -+.+
T Consensus 22 ~~~rv~~nt~riL~lL~~~gikATFFv~g~~~e~~p~lir~i~~~GhEIgsHg~sH~~l~~ls~ee~~~eI~~s~~~Le~ 101 (265)
T TIGR03006 22 LPCRVERNTDRILDLLDRHGVKATFFTLGWVAERYPELVRRIVAAGHELASHGYGHERVTTQTPEAFRADIRRSKALLED 101 (265)
T ss_pred ccchHHHhHHHHHHHHHHcCCcEEEEEeccchhhCHHHHHHHHHcCCEeeeccccCcCchhCCHHHHHHHHHHHHHHHHH
Confidence 33455555555666666543 23689999988 789999999999987654311100 1122
Q ss_pred ccCCCEEEEcCCCC--C---HHHHHHHHhcCCcEEeccCch
Q 016960 94 VNKGDVVVLPAFGA--A---VEEMVTLNNKNVQIVDTTCPW 129 (380)
Q Consensus 94 l~~g~~VIIrAHGv--~---~~~~~~l~~~g~~viDaTCP~ 129 (380)
+......-+|+-+- + +...+.|++.|+...=..||.
T Consensus 102 itG~~~~gfRaP~~s~~~~t~~a~~iL~e~Gy~YdsS~~p~ 142 (265)
T TIGR03006 102 LSGQPVRGYRAPSFSIGKKNLWALDVLAEAGYRYSSSIYPV 142 (265)
T ss_pred HhCCCceEEECCCCCCCCCcHHHHHHHHHCCCEEEEeeccC
Confidence 21122346777653 2 334677777777765444554
No 375
>cd03108 AdSS Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the r-phosphate group of GTP is transferred to the 6-oxygen atom of IMP. An aspartate then displaces this 6-phosphate group to form the product adenylosuccinate. Because of its critical role in purine biosynthesis, AdSS is a target of antibiotics, herbicides and antitumor drugs.
Probab=21.88 E-value=1.3e+02 Score=31.24 Aligned_cols=41 Identities=7% Similarity=0.075 Sum_probs=32.2
Q ss_pred CCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhCCCeEEEEe
Q 016960 105 FGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKGDYTSIIHG 151 (380)
Q Consensus 105 HGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~Gy~iIIiG 151 (380)
-|+.|...+++.++|+.+-|. -+.....+..++|.+|++=|
T Consensus 129 rGIGpay~dk~~R~gir~~Dl------d~~~~l~~a~~~gk~vLfEG 169 (363)
T cd03108 129 RGIGPAYEDKAARRGIRVGDL------DTSYLINEAIQAGKKVLFEG 169 (363)
T ss_pred CcchHHHHHhhhccCCeEEeC------cHHHHHHHHHHcCCcEEEEc
Confidence 378899999999999999987 33355556667888888866
No 376
>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=21.86 E-value=4.5e+02 Score=24.06 Aligned_cols=88 Identities=18% Similarity=0.201 Sum_probs=46.2
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccc-cccccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVE-NVNEHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~-~~~~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++.- ++-.-|..+++-+.+.+.+. +-. ...-.+.+.|+--..+.. +..+..|....+|.+|+++. +++..
T Consensus 2 igv~~~--~~~~~~~~~~~gi~~~~~~~-g~~~g~~v~l~~~~~~~~~~~~-~~~~~~l~~~~vd~iI~~~~---~~~~~ 74 (281)
T cd06325 2 VGILQL--VEHPALDAARKGFKDGLKEA-GYKEGKNVKIDYQNAQGDQSNL-PTIARKFVADKPDLIVAIAT---PAAQA 74 (281)
T ss_pred eEEecC--CCCcchHHHHHHHHHHHHHh-CccCCceEEEEEecCCCCHHHH-HHHHHHHHhcCCCEEEEcCc---HHHHH
Confidence 555552 55556777777776654433 100 000123344443333333 34455565568999999863 23333
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
+. ....+.|..++...
T Consensus 75 ~~--~~~~~iPvV~~~~~ 90 (281)
T cd06325 75 AA--NATKDIPIVFTAVT 90 (281)
T ss_pred HH--HcCCCCCEEEEecC
Confidence 32 44567788888643
No 377
>PF00365 PFK: Phosphofructokinase; InterPro: IPR000023 The enzyme-catalysed transfer of a phosphoryl group from ATP is an important reaction in a wide variety of biological processes []. One enzyme that utilises this reaction is phosphofructokinase (PFK), which catalyses the phosphorylation of fructose-6-phosphate to fructose-1,6- bisphosphate, a key regulatory step in the glycolytic pathway [, ]. PFK exists as a homotetramer in bacteria and mammals (where each monomer possesses 2 similar domains), and as an octomer in yeast (where there are 4 alpha- (PFK1) and 4 beta-chains (PFK2), the latter, like the mammalian monomers, possessing 2 similar domains []). PFK is ~300 amino acids in length, and structural studies of the bacterial enzyme have shown it comprises two similar (alpha/beta) lobes: one involved in ATP binding and the other housing both the substrate-binding site and the allosteric site (a regulatory binding site distinct from the active site, but that affects enzyme activity). The identical tetramer subunits adopt 2 different conformations: in a 'closed' state, the bound magnesium ion bridges the phosphoryl groups of the enzyme products (ADP and fructose-1,6- bisphosphate); and in an 'open' state, the magnesium ion binds only the ADP [], as the 2 products are now further apart. These conformations are thought to be successive stages of a reaction pathway that requires subunit closure to bring the 2 molecules sufficiently close to react []. Deficiency in PFK leads to glycogenosis type VII (Tauri's disease), an autosomal recessive disorder characterised by severe nausea, vomiting, muscle cramps and myoglobinuria in response to bursts of intense or vigorous exercise []. Sufferers are usually able to lead a reasonably ordinary life by learning to adjust activity levels [].; GO: 0003872 6-phosphofructokinase activity, 0006096 glycolysis, 0005945 6-phosphofructokinase complex; PDB: 3O8O_E 3OPY_H 1PFK_A 2PFK_D 1MTO_F 3U39_C 6PFK_A 4PFK_A 3PFK_A 3HNO_B ....
Probab=21.81 E-value=61 Score=32.06 Aligned_cols=43 Identities=28% Similarity=0.427 Sum_probs=29.9
Q ss_pred HhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEee
Q 016960 269 ERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWI 313 (380)
Q Consensus 269 ~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~I 313 (380)
.|++.++.|....+|.+++|||-.|-.+-++. +++.+.+.+.|
T Consensus 80 ~~~~~~~~l~~~~Id~Li~IGG~gs~~~a~~L--~~~~~i~vigi 122 (282)
T PF00365_consen 80 GRKKIVENLKKLGIDALIVIGGDGSMKGAHKL--SEEFGIPVIGI 122 (282)
T ss_dssp HHHHHHHHHHHTTESEEEEEESHHHHHHHHHH--HHHHHSEEEEE
T ss_pred hhhhHHHHHHHhCCCEEEEecCCCHHHHHHHH--HhcCceEEEEE
Confidence 45566666765689999999999998776543 33444566555
No 378
>cd03466 Nitrogenase_NifN_2 Nitrogenase_nifN_2: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The nifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this nifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco). This group also contains the Clostidium fused NifN-NifB protein.
Probab=21.80 E-value=9.1e+02 Score=25.04 Aligned_cols=119 Identities=17% Similarity=0.178 Sum_probs=62.4
Q ss_pred cceEEEEeCCCCCcc----cHHHHHHHHHHHHhh--CCCCceEEeccccc---CHHHHHHHHHcCcEEecCCcccccccc
Q 016960 23 GNVKVKLAESYGFCW----GVERAVQIAYEARKQ--FPEEKIWITNEIIH---NPTVNKRLEEMAVQNIPVEEGKKQFDV 93 (380)
Q Consensus 23 g~mkI~lA~~~GFC~----GV~RAI~~a~~~~~~--~~~~~Iy~lG~LIH---N~~Vv~~L~~~Gv~~v~~~~~~~~~~e 93 (380)
....|+-....||.. |..+|++...+.+.. .+...|=++|.... .....+-|++.|+.++--.+--+.++-
T Consensus 117 ~~~~vi~v~t~gF~g~~~~G~~~a~~al~~~~~~~~~~~~~VNlig~~~~~~D~~ei~~lL~~~Gl~~~~~~d~s~~~~~ 196 (429)
T cd03466 117 SEPKIIPASTPGYGGTHVEGYDTAVRSIVKNIAVDPDKIEKINVIAGMMSPADIREIKEILREFGIEYILLPDTSETLDG 196 (429)
T ss_pred CCCcEEEEECCCCcccHHHHHHHHHHHHHHHhccCCCCCCcEEEECCCCChhHHHHHHHHHHHcCCCeEEecCccccccC
Confidence 346788888999984 444444433332221 11235888875432 245556678899998631100000110
Q ss_pred ccCCCEEEEcCCCCCHHHHHHHHhcCCcEEeccCchhHHHHHHHHHHhhC
Q 016960 94 VNKGDVVVLPAFGAAVEEMVTLNNKNVQIVDTTCPWVSKVWTSVEKHKKG 143 (380)
Q Consensus 94 l~~g~~VIIrAHGv~~~~~~~l~~~g~~viDaTCP~V~kv~~~v~~~~~~ 143 (380)
--.++.--+.+-|.+-+..+.+-+..+.|+ .||+...-...++.+.++
T Consensus 197 ~~~~~~~~~~~~g~~~~~i~~~~~A~lniv--~~~~~~~g~~~A~~L~e~ 244 (429)
T cd03466 197 PFWGEYHRLPSGGTPISEIKGMGGAKATIE--LGMFVDHGLSAGSYLEEE 244 (429)
T ss_pred CCCCCcceeCCCCCCHHHHHhhccCcEEEE--EccCccchHHHHHHHHHH
Confidence 001122334456777777777776666665 466544445555555443
No 379
>COG3980 spsG Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=21.66 E-value=3.4e+02 Score=27.71 Aligned_cols=99 Identities=16% Similarity=0.201 Sum_probs=59.2
Q ss_pred eEEEEeCCCCCccc---HHHHHHHHHHHHhhCCCCceEEecccccCHHHHHHHHHcCcEEe--cCCccccccccccCCCE
Q 016960 25 VKVKLAESYGFCWG---VERAVQIAYEARKQFPEEKIWITNEIIHNPTVNKRLEEMAVQNI--PVEEGKKQFDVVNKGDV 99 (380)
Q Consensus 25 mkI~lA~~~GFC~G---V~RAI~~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~Gv~~v--~~~~~~~~~~el~~g~~ 99 (380)
|+|.+-.-.|.-.| |.|-..+|.+..+. +-.-+|.-++.+-+ ++-. ...|..+. ...+ .+-+. +.|.
T Consensus 1 M~V~i~~Dgg~~iGmGHV~R~l~LA~~l~k~-~~~~~fl~k~~~e~--~~~~-~~~~f~~~~~~~~n---~ik~~-k~d~ 72 (318)
T COG3980 1 MKVLIRCDGGLEIGMGHVMRTLTLARELEKR-GFACLFLTKQDIEA--IIHK-VYEGFKVLEGRGNN---LIKEE-KFDL 72 (318)
T ss_pred CcEEEEecCCcccCcchhhhHHHHHHHHHhc-CceEEEecccchhh--hhhh-hhhhccceeeeccc---ccccc-cCCE
Confidence 55555444454444 89999999877664 22356666655433 1111 11222222 2111 12233 4789
Q ss_pred EEEcCCCCCHHHHHHHH-hcCC--cEEeccCchhH
Q 016960 100 VVLPAFGAAVEEMVTLN-NKNV--QIVDTTCPWVS 131 (380)
Q Consensus 100 VIIrAHGv~~~~~~~l~-~~g~--~viDaTCP~V~ 131 (380)
|||-+-|++.+..+.++ +.|. .++|.-|+.--
T Consensus 73 lI~Dsygl~~dd~k~ik~e~~~k~l~fDd~~~~~~ 107 (318)
T COG3980 73 LIFDSYGLNADDFKLIKEEAGSKILIFDDENAKSF 107 (318)
T ss_pred EEEeccCCCHHHHHHHHHHhCCcEEEecCCCccch
Confidence 99999999999999998 5554 45899998543
No 380
>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=21.52 E-value=6e+02 Score=22.87 Aligned_cols=84 Identities=15% Similarity=0.039 Sum_probs=44.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhHHHH-HHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQDAM-YKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ~a~-~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++.++ ++-..|..+.+.+++...+. + -.+.+.++- + ....|.++ ..+.+.++|.+|+.++... ++
T Consensus 2 i~~v~~~-~~~~~~~~~~~~i~~~~~~~-g-----~~~~~~~~~-~-~~~~~~~~~~~~~~~~vdgiii~~~~~~-~~-- 69 (267)
T cd06284 2 ILVLVPD-IANPFFSEILKGIEDEAREA-G-----YGVLLGDTR-S-DPEREQEYLDLLRRKQADGIILLDGSLP-PT-- 69 (267)
T ss_pred EEEEECC-CCCccHHHHHHHHHHHHHHc-C-----CeEEEecCC-C-ChHHHHHHHHHHHHcCCCEEEEecCCCC-HH--
Confidence 4555554 45566777777776643332 1 223333321 1 23345443 3444467999999775422 22
Q ss_pred HHHHHHHhCCCeEeeCCC
Q 016960 299 LQEIAEDRGIPSYWIDSE 316 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~ 316 (380)
+.+.. ..+.|...+.+.
T Consensus 70 ~~~~~-~~~ipvv~~~~~ 86 (267)
T cd06284 70 ALTAL-AKLPPIVQACEY 86 (267)
T ss_pred HHHHH-hcCCCEEEEecc
Confidence 33333 458898888653
No 381
>PRK01438 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=21.42 E-value=3.1e+02 Score=28.44 Aligned_cols=87 Identities=11% Similarity=0.122 Sum_probs=47.6
Q ss_pred ceEEEEeCCCCCcccHHHHHHHHHHHHhhCCCCceEEec--ccccCHHHHHHHHHcCcEEecCCccccccccccCCCEEE
Q 016960 24 NVKVKLAESYGFCWGVERAVQIAYEARKQFPEEKIWITN--EIIHNPTVNKRLEEMAVQNIPVEEGKKQFDVVNKGDVVV 101 (380)
Q Consensus 24 ~mkI~lA~~~GFC~GV~RAI~~a~~~~~~~~~~~Iy~lG--~LIHN~~Vv~~L~~~Gv~~v~~~~~~~~~~el~~g~~VI 101 (380)
+.+|.+.. .|+ -| ++.|+.+.+. +..|.+.. +--.-+...+.|+++||.+..... .....+-| +|
T Consensus 16 ~~~v~viG-~G~-~G----~~~A~~L~~~--G~~V~~~d~~~~~~~~~~~~~l~~~gv~~~~~~~----~~~~~~~D-~V 82 (480)
T PRK01438 16 GLRVVVAG-LGV-SG----FAAADALLEL--GARVTVVDDGDDERHRALAAILEALGATVRLGPG----PTLPEDTD-LV 82 (480)
T ss_pred CCEEEEEC-CCH-HH----HHHHHHHHHC--CCEEEEEeCCchhhhHHHHHHHHHcCCEEEECCC----ccccCCCC-EE
Confidence 45666553 233 33 3445444443 33455542 111122456779999999875421 11111234 66
Q ss_pred EcCCCCCHH--HHHHHHhcCCcEE
Q 016960 102 LPAFGAAVE--EMVTLNNKNVQIV 123 (380)
Q Consensus 102 IrAHGv~~~--~~~~l~~~g~~vi 123 (380)
|-+-|++|. .+..++++|+.|+
T Consensus 83 v~s~Gi~~~~~~~~~a~~~gi~v~ 106 (480)
T PRK01438 83 VTSPGWRPDAPLLAAAADAGIPVW 106 (480)
T ss_pred EECCCcCCCCHHHHHHHHCCCeec
Confidence 678899876 4456788888885
No 382
>cd02513 CMP-NeuAc_Synthase CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety. CMP-N-acetylneuraminic acid synthetase (CMP-NeuAc synthetase) or acylneuraminate cytidylyltransferase catalyzes the transfer the CMP moiety of CTP to the anomeric hydroxyl group of NeuAc in the presence of Mg++. It is the second to last step in the sialylation of the oligosaccharide component of glycoconjugates by providing the activated sugar-nucleotide cytidine 5'-monophosphate N-acetylneuraminic acid (CMP-Neu5Ac), the substrate for sialyltransferases. Eukaryotic CMP-NeuAc synthetases are predominantly located in the nucleus. The activated CMP-Neu5Ac diffuses from the nucleus into the cytoplasm.
Probab=21.37 E-value=5.3e+02 Score=23.11 Aligned_cols=38 Identities=18% Similarity=0.137 Sum_probs=26.7
Q ss_pred CCcEEeccCchhH--HHHHHHHHHhhCCCeEEEEecCCCc
Q 016960 119 NVQIVDTTCPWVS--KVWTSVEKHKKGDYTSIIHGKYSHE 156 (380)
Q Consensus 119 g~~viDaTCP~V~--kv~~~v~~~~~~Gy~iIIiG~~~Hp 156 (380)
.+-++++++||+. -+.+.+..+.+.++..++--.+.++
T Consensus 100 ~vlv~~~D~P~i~~~~i~~~i~~~~~~~~~~~~~~~~~~~ 139 (223)
T cd02513 100 IVVLLQPTSPLRSAEDIDEAIELLLSEGADSVFSVTEFHR 139 (223)
T ss_pred EEEEeCCCCCcCCHHHHHHHHHHHHhCCCCEEEEEEecCc
Confidence 5678999999996 5666777776667766665544443
No 383
>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=21.11 E-value=6.3e+02 Score=22.97 Aligned_cols=85 Identities=21% Similarity=0.202 Sum_probs=44.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhhhcccccccccccccccccHHHHHhH-HHHHHhhhhcCCEEEEEccCCCchhHH
Q 016960 220 VGIANQTTMLKGETEEIGKLVEKTMMRKFGVENVNEHFISFNTICDATQERQ-DAMYKMVEEKVDLILVVGGWNSSNTSH 298 (380)
Q Consensus 220 v~vvsQTT~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nTIC~AT~~RQ-~a~~eLa~~~vD~miVVGG~nSSNT~k 298 (380)
|+++... ++-.-|..+.+.+.+...+. + -.+.++++ ....+.| +.+..|.+.++|.+|+.+-..+..
T Consensus 2 Ig~i~p~-~~~~~~~~~~~~i~~~~~~~-g-----~~~~~~~~--~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~--- 69 (263)
T cd06280 2 VGLIVAD-IRNPFFTAVSRAVEDAAYRA-G-----LRVILCNT--DEDPEKEAMYLELMEEERVTGVIFAPTRATLR--- 69 (263)
T ss_pred EEEEecc-cccccHHHHHHHHHHHHHHC-C-----CEEEEEeC--CCCHHHHHHHHHHHHhCCCCEEEEeCCCCCch---
Confidence 4455432 34456666776665532222 2 12322211 1122334 344556556799999987543332
Q ss_pred HHHHHHHhCCCeEeeCCCC
Q 016960 299 LQEIAEDRGIPSYWIDSEK 317 (380)
Q Consensus 299 L~eia~~~~~~t~~Ie~~~ 317 (380)
+.+. ...+.|..++++..
T Consensus 70 ~~~~-~~~~iPvV~~~~~~ 87 (263)
T cd06280 70 RLAE-LRLSFPVVLIDRAG 87 (263)
T ss_pred HHHH-HhcCCCEEEECCCC
Confidence 2333 35678999998754
No 384
>cd01408 SIRT1 SIRT1: Eukaryotic group (class1) which includes human sirtuins SIRT1-3 and yeast Hst1-4; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The nuclear SIRT1 has been shown to target the p53 tumor suppressor protein for deacetylation to suppress DNA damage, and the cytoplasmic SIRT2 homolog has been shown to target alpha-tubulin for deacetylation for the maintenance of cell integrity.
Probab=20.95 E-value=2.1e+02 Score=27.38 Aligned_cols=56 Identities=18% Similarity=0.213 Sum_probs=34.4
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCch-hHHHHHHHHHhCCCeEeeC
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSN-TSHLQEIAEDRGIPSYWID 314 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSN-T~kL~eia~~~~~~t~~Ie 314 (380)
+++..|+.-=+. ...+++.+.+ .++|++||||-.-.-. ...|.+.++ .+.+.+.|.
T Consensus 152 P~Vv~FGE~lp~--~~~~~~~~~~-~~aDlllvvGTSl~V~pa~~l~~~~~-~~~~~v~iN 208 (235)
T cd01408 152 PDIVFFGESLPS--RFFSHMEEDK-EEADLLIVIGTSLKVAPFASLPSRVP-SEVPRVLIN 208 (235)
T ss_pred CcEEECCCCCCH--HHHHHHHHHH-hcCCEEEEECCCCeeccHHHHHHHHh-CCCcEEEEe
Confidence 456666653222 2334455566 5899999999864333 345777776 567777665
No 385
>cd08177 MAR Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes. Maleylacetate reductases (MAR) play an important role in the degradation of aromatic compounds in aerobic microbes. In fungi and yeasts, the enzymes are involved in the catabolism of compounds such as phenol, tyrosine, benzoate, 4-hydroxybenzoate and resorcinol. In bacteria, the enzymes contribute to the degradation of resorcinol, 2,4-dihydroxybenzoate ([beta]-resorcylate) and 2,6-dihydroxybenzoate ([gamma]-resorcylate) via hydroxyquinol and maleylacetate. Maleylacetate reductases catalyze NADH- or NADPH-dependent reduction, at the carbon-carbon double bond, of maleylacetate or 2-chloromaleylacetate to 3-oxoadipate. In the case of 2-chloromaleylacetate, Maleylacetate reductases initially catalyses the NAD(P)H-dependent dechlorination to maleylacetate, which is then reduced to 3-oxoadipate. This enzyme is a homodimer. It is inhibited by thiol-blocking reagents such as p-
Probab=20.82 E-value=2.4e+02 Score=28.20 Aligned_cols=36 Identities=19% Similarity=0.308 Sum_probs=28.3
Q ss_pred hcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCC
Q 016960 280 EKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEK 317 (380)
Q Consensus 280 ~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~ 317 (380)
..+|++|-|||-..-.+-|.+-.. .+.|-..|-|-.
T Consensus 76 ~~~d~IIaiGGGs~iD~aK~ia~~--~~~p~i~IPTta 111 (337)
T cd08177 76 AGADGIVAIGGGSTIDLAKAIALR--TGLPIIAIPTTL 111 (337)
T ss_pred cCCCEEEEeCCcHHHHHHHHHHHH--hcCCEEEEcCCc
Confidence 579999999999999999877653 366777777653
No 386
>PTZ00287 6-phosphofructokinase; Provisional
Probab=20.80 E-value=1.5e+02 Score=36.07 Aligned_cols=52 Identities=23% Similarity=0.300 Sum_probs=35.8
Q ss_pred HHhHHHHHHhhhhcCCEEEEEccCCCc-hhHHHHHHHHHhCCCeEeeCCCCcc
Q 016960 268 QERQDAMYKMVEEKVDLILVVGGWNSS-NTSHLQEIAEDRGIPSYWIDSEKRI 319 (380)
Q Consensus 268 ~~RQ~a~~eLa~~~vD~miVVGG~nSS-NT~kL~eia~~~~~~t~~Ie~~~dL 319 (380)
.+++.++..|.+-..|.+|||||-.|- +..+|.+-+++.|.+.-.|-=+.=|
T Consensus 258 e~~~ki~e~lkkl~Id~LViIGGddS~~~A~~Lae~~~~~gi~i~VIGIPKTI 310 (1419)
T PTZ00287 258 DDLIAIENIVAKLKLNGLVIIGGDGSNSNAALISEYFAERQIPISIIGIPKTI 310 (1419)
T ss_pred HHHHHHHHHHHHcCCCEEEEECChhHHHHHHHHHHHHHhcCCCeeEEEEeeee
Confidence 345555555555579999999999987 5558888888888775334433333
No 387
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=20.79 E-value=1.2e+02 Score=26.08 Aligned_cols=23 Identities=26% Similarity=0.476 Sum_probs=18.2
Q ss_pred EEEEEccC-CCchhHHHHHHHHHh
Q 016960 284 LILVVGGW-NSSNTSHLQEIAEDR 306 (380)
Q Consensus 284 ~miVVGG~-nSSNT~kL~eia~~~ 306 (380)
++++.|+. ..|||.+|++.+.+.
T Consensus 3 ilii~gS~r~~~~t~~l~~~~~~~ 26 (152)
T PF03358_consen 3 ILIINGSPRKNSNTRKLAEAVAEQ 26 (152)
T ss_dssp EEEEESSSSTTSHHHHHHHHHHHH
T ss_pred EEEEECcCCCCCHHHHHHHHHHHH
Confidence 57788886 689999998877663
No 388
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=20.77 E-value=94 Score=30.06 Aligned_cols=46 Identities=22% Similarity=0.368 Sum_probs=28.5
Q ss_pred HHHHhHHHHHHhhhhcCCEEEEEccC-CCchhHHHHHHHHHhCCCeEe
Q 016960 266 ATQERQDAMYKMVEEKVDLILVVGGW-NSSNTSHLQEIAEDRGIPSYW 312 (380)
Q Consensus 266 AT~~RQ~a~~eLa~~~vD~miVVGG~-nSSNT~kL~eia~~~~~~t~~ 312 (380)
.+.+=+.++..|. +.+|++++..+. -.+|...+...+.+.+.|.|-
T Consensus 170 ~~~~~~~~~~~l~-~~~da~~~~~~~~~~~~~~~i~~~~~~~~iPv~~ 216 (294)
T PF04392_consen 170 SSEDLEQALEALA-EKVDALYLLPDNLVDSNFEAILQLANEAKIPVFG 216 (294)
T ss_dssp SGGGHHHHHHHHC-TT-SEEEE-S-HHHHHTHHHHHHHCCCTT--EEE
T ss_pred cHhHHHHHHHHhh-ccCCEEEEECCcchHhHHHHHHHHHHhcCCCEEE
Confidence 3455567888887 689999887652 234455677888778788874
No 389
>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=20.43 E-value=3e+02 Score=28.50 Aligned_cols=78 Identities=15% Similarity=0.221 Sum_probs=47.2
Q ss_pred ceeEEEEcCCCChH-HHHHHHHHHHHHHhhhccccccccccccccc-ccHHHHHhHH-HHHHhhhhcCCEEEEEccCCCc
Q 016960 218 VKVGIANQTTMLKG-ETEEIGKLVEKTMMRKFGVENVNEHFISFNT-ICDATQERQD-AMYKMVEEKVDLILVVGGWNSS 294 (380)
Q Consensus 218 ~kv~vvsQTT~~~~-~~~~i~~~l~~~~~~~~~~~~~~~~~~~~nT-IC~AT~~RQ~-a~~eLa~~~vD~miVVGG~nSS 294 (380)
+++.+|...++... .++.+.+.|++. + -++.+|+. -.+.|.+-=. +++.+....+|++|-|||=..-
T Consensus 24 ~~vlivt~~~~~~~g~~~~v~~~L~~~-----g-----i~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGSvi 93 (414)
T cd08190 24 RRVCLVTDPNLAQLPPVKVVLDSLEAA-----G-----INFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAVGGGSVI 93 (414)
T ss_pred CeEEEEECcchhhcchHHHHHHHHHHc-----C-----CcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHH
Confidence 57888887765543 467777777541 1 12334432 2233333223 3333323579999999999999
Q ss_pred hhHHHHHHHHH
Q 016960 295 NTSHLQEIAED 305 (380)
Q Consensus 295 NT~kL~eia~~ 305 (380)
.+-|..-+...
T Consensus 94 D~AKaia~~~~ 104 (414)
T cd08190 94 DTAKAANLYAS 104 (414)
T ss_pred HHHHHHHHHHh
Confidence 99888776543
No 390
>TIGR01508 rib_reduct_arch 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine 1'-reductase, archaeal. in riboflavin biosynthesis is reduced first, and then deaminated, in both Archaea and Fungi, opposite the order in Bacteria. The subsequent deaminase is not presently known and is not closely homologous to the deaminase domain (3.5.4.26) fused to the reductase domain (1.1.1.193) similar to this protein but found in most bacteria.
Probab=20.40 E-value=2.8e+02 Score=25.84 Aligned_cols=107 Identities=11% Similarity=0.148 Sum_probs=60.6
Q ss_pred HHHHHHHHHHHhhCCCCceEEec--c-cccCHHHHHHHHH---cCcEEecCCccccccc-cc-c-CCCEEEEcCCCCCHH
Q 016960 40 ERAVQIAYEARKQFPEEKIWITN--E-IIHNPTVNKRLEE---MAVQNIPVEEGKKQFD-VV-N-KGDVVVLPAFGAAVE 110 (380)
Q Consensus 40 ~RAI~~a~~~~~~~~~~~Iy~lG--~-LIHN~~Vv~~L~~---~Gv~~v~~~~~~~~~~-el-~-~g~~VIIrAHGv~~~ 110 (380)
..+-..+.+.+.+.. ..+.| - +.+||...-++.+ .-+.+|-+..+.-+.+ .+ . +..++|+..-..+++
T Consensus 27 ~~~r~~~h~lRa~~D---aIlvG~~Tv~~D~P~L~~r~~~~~~~P~rvVld~~~~~~~~~~~~~~~~~~~v~t~~~~~~~ 103 (210)
T TIGR01508 27 EEDLIRVHEIRAEVD---AIMVGIGTVLADDPRLTVKKIKSDRNPVRVVVDSKLRVPLNARILNKDAKTIIATSEDEPEE 103 (210)
T ss_pred HHHHHHHHHHHHHCC---EEEECcCeEEecCCcccccCcccCCCCEEEEECCCCCCCCcchhhcCCCCEEEEEcCCCCHH
Confidence 566677777766532 22222 2 4578877666542 2354444322211100 11 0 235677877777788
Q ss_pred HHHHHHhcCCcEEeccCchh-HHHHHHHHHHhhCCCeEEEE-e
Q 016960 111 EMVTLNNKNVQIVDTTCPWV-SKVWTSVEKHKKGDYTSIIH-G 151 (380)
Q Consensus 111 ~~~~l~~~g~~viDaTCP~V-~kv~~~v~~~~~~Gy~iIIi-G 151 (380)
..+.+++.|+.++. |+-- -.+....+++.++|+.-|++ |
T Consensus 104 ~~~~l~~~gv~vi~--~~~~~~dl~~~l~~L~~~g~~~vlveG 144 (210)
T TIGR01508 104 KVEELEDKGVEVVK--FGEGRVDLKKLLDILYDKGVRRLMVEG 144 (210)
T ss_pred HHHHHHHCCCEEEE--eCCCCcCHHHHHHHHHHCCCCEEEEee
Confidence 77888999999874 3311 13556677777788866666 5
No 391
>PRK09417 mogA molybdenum cofactor biosynthesis protein MogA; Provisional
Probab=20.39 E-value=1.2e+02 Score=28.46 Aligned_cols=78 Identities=13% Similarity=0.117 Sum_probs=45.1
Q ss_pred EEEEEccCC------CchhHHHHHHHHHhCCCeEeeCCCCccCCCC--cchhhhccchhhhhcccCC-CCCCEEEEEeCC
Q 016960 284 LILVVGGWN------SSNTSHLQEIAEDRGIPSYWIDSEKRIGPGN--KIAYKLMHGELVEKENWLP-KGQITIGITSGA 354 (380)
Q Consensus 284 ~miVVGG~n------SSNT~kL~eia~~~~~~t~~Ie~~~dL~~~~--~~~~~~~~~~~~~~~~wl~-~~~~~VGITAGA 354 (380)
.+|+||..- -+|..-|.+..++.|...+.+.. .+-+++ .|. ..-..|+. .++..|=+|.|+
T Consensus 7 aIItvSd~~~~G~i~D~ng~~L~~~L~~~G~~g~~v~~--~iVpDd~~~I~--------~aL~~a~~~~~~DlIITTGGt 76 (193)
T PRK09417 7 GLVSISDRASSGVYEDKGIPALEEWLASALTSPFEIET--RLIPDEQDLIE--------QTLIELVDEMGCDLVLTTGGT 76 (193)
T ss_pred EEEEEcCcCCCCceeechHHHHHHHHHHcCCCCceEEE--EECCCCHHHHH--------HHHHHHhhcCCCCEEEECCCC
Confidence 356677732 25888999999888643332211 122211 011 11126763 257878777777
Q ss_pred C-CCHHHHHHHHHHHHhh
Q 016960 355 S-TPDKAVEDVLKKVFEI 371 (380)
Q Consensus 355 S-TP~~lI~eV~~~l~~~ 371 (380)
| +|..++-+++..+-+-
T Consensus 77 g~g~rDvTpeAv~~l~~k 94 (193)
T PRK09417 77 GPARRDVTPEATLAVADK 94 (193)
T ss_pred CCCCCCcHHHHHHHHhCC
Confidence 6 5778888888777643
No 392
>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=20.27 E-value=4e+02 Score=21.62 Aligned_cols=82 Identities=18% Similarity=0.146 Sum_probs=0.0
Q ss_pred HHHHHHhhhhcCCEEEEEccCCCchhHH-HHHHHHHhCCCeEeeCCCCccCCCCcchhhhccchhhhhccc--CCCCCCE
Q 016960 271 QDAMYKMVEEKVDLILVVGGWNSSNTSH-LQEIAEDRGIPSYWIDSEKRIGPGNKIAYKLMHGELVEKENW--LPKGQIT 347 (380)
Q Consensus 271 Q~a~~eLa~~~vD~miVVGG~nSSNT~k-L~eia~~~~~~t~~Ie~~~dL~~~~~~~~~~~~~~~~~~~~w--l~~~~~~ 347 (380)
++.++.|+ +.+-++++|--+|.+.-+ +....+..|.+++.+.+.++... .| ...+...
T Consensus 4 ~~~~~~i~--~~~~i~i~g~g~s~~~a~~~~~~l~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~~~~ 64 (139)
T cd05013 4 EKAVDLLA--KARRIYIFGVGSSGLVAEYLAYKLLRLGKPVVLLSDPHLQLM-----------------SAANLTPGDVV 64 (139)
T ss_pred HHHHHHHH--hCCEEEEEEcCchHHHHHHHHHHHHHcCCceEEecCHHHHHH-----------------HHHcCCCCCEE
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhhhhhhh
Q 016960 348 IGITSGASTPDKAVEDVLKKVFEIKREEA 376 (380)
Q Consensus 348 VGITAGASTP~~lI~eV~~~l~~~~~~~~ 376 (380)
|.|+-..+| .++++.++..+.-++
T Consensus 65 i~iS~~g~~-----~~~~~~~~~a~~~g~ 88 (139)
T cd05013 65 IAISFSGET-----KETVEAAEIAKERGA 88 (139)
T ss_pred EEEeCCCCC-----HHHHHHHHHHHHcCC
No 393
>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=20.24 E-value=1.1e+02 Score=30.16 Aligned_cols=46 Identities=13% Similarity=0.297 Sum_probs=31.9
Q ss_pred cHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEe
Q 016960 264 CDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYW 312 (380)
Q Consensus 264 C~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~ 312 (380)
|+..+ =..++-+|.+ + .++.|||...|+.+.-+..+|...+.|-.-
T Consensus 46 ~d~~~-~~~~~c~ll~-~-~V~aiiGp~~s~~~~~~~~~~~~~~iP~i~ 91 (382)
T cd06380 46 SDSFA-LTNAICSQLS-R-GVFAIFGSYDKSSVNTLTSYSDALHVPFIT 91 (382)
T ss_pred cchHH-HHHHHHHHHh-c-CcEEEEecCcHHHHHHHHHHHhcCCCCeEe
Confidence 44443 3344455552 3 688889999998888999999888877543
No 394
>PRK02006 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=20.15 E-value=3.5e+02 Score=28.35 Aligned_cols=72 Identities=10% Similarity=0.115 Sum_probs=38.3
Q ss_pred HHHHHHhhCCCCceEEecccccCHHHHHHHHHc--CcEEecCCccccccccccCCCEEEEcCCCCCH------HHHHHHH
Q 016960 45 IAYEARKQFPEEKIWITNEIIHNPTVNKRLEEM--AVQNIPVEEGKKQFDVVNKGDVVVLPAFGAAV------EEMVTLN 116 (380)
Q Consensus 45 ~a~~~~~~~~~~~Iy~lG~LIHN~~Vv~~L~~~--Gv~~v~~~~~~~~~~el~~g~~VIIrAHGv~~------~~~~~l~ 116 (380)
+|.-+.+. +-.|+.. +.-.++...+.|++. |+.+..... ..+.+.+-|.||++ =|+++ ..+..++
T Consensus 22 ~a~~L~~~--G~~v~~~-D~~~~~~~~~~L~~~~~~~~~~~g~~---~~~~~~~~d~vv~s-p~I~~~~~~~~~~~~~a~ 94 (498)
T PRK02006 22 MARWCARH--GARLRVA-DTREAPPNLAALRAELPDAEFVGGPF---DPALLDGVDLVALS-PGLSPLEAALAPLVAAAR 94 (498)
T ss_pred HHHHHHHC--CCEEEEE-cCCCCchhHHHHHhhcCCcEEEeCCC---chhHhcCCCEEEEC-CCCCCcccccCHHHHHHH
Confidence 44444443 2345443 322344345668887 556543210 11223334555555 55887 6777888
Q ss_pred hcCCcEE
Q 016960 117 NKNVQIV 123 (380)
Q Consensus 117 ~~g~~vi 123 (380)
++|+.|+
T Consensus 95 ~~~i~v~ 101 (498)
T PRK02006 95 ERGIPVW 101 (498)
T ss_pred HCCCcEE
Confidence 8888887
No 395
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=20.13 E-value=1e+02 Score=30.83 Aligned_cols=116 Identities=12% Similarity=0.115 Sum_probs=70.9
Q ss_pred ccccccccccHHHHHhHHHHHHhhhhcCCEEEEEccCCCchhHHHHHHHHHhCCCeEeeCCCCc-cCCC--Ccchhhh--
Q 016960 255 EHFISFNTICDATQERQDAMYKMVEEKVDLILVVGGWNSSNTSHLQEIAEDRGIPSYWIDSEKR-IGPG--NKIAYKL-- 329 (380)
Q Consensus 255 ~~~~~~nTIC~AT~~RQ~a~~eLa~~~vD~miVVGG~nSSNT~kL~eia~~~~~~t~~Ie~~~d-L~~~--~~~~~~~-- 329 (380)
-++.+.|+-|....--+.+-+ |. .+-.+-.|||...|+.+....+++++.+.+-+--.+-.. +... +...|+.
T Consensus 52 velv~~D~~~dp~~a~~~A~~-li-~~~~V~~vvG~~~S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~~~ 129 (366)
T COG0683 52 VELVVEDDASDPATAAAVARK-LI-TQDGVDAVVGPTTSGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRTGP 129 (366)
T ss_pred EEEEEecCCCChHHHHHHHHH-HH-hhcCceEEEEeccCcccccchhhHhhcCceEEeecCCCCcccccccccceEEecC
Confidence 356688999998877666655 66 356688899999999999999999998877655543222 3321 1101221
Q ss_pred -ccchhhhhcccCCC--CC-CEEEEEeCCCCCHHHHHHHHHHHHhhh
Q 016960 330 -MHGELVEKENWLPK--GQ-ITIGITSGASTPDKAVEDVLKKVFEIK 372 (380)
Q Consensus 330 -~~~~~~~~~~wl~~--~~-~~VGITAGASTP~~lI~eV~~~l~~~~ 372 (380)
-..+..-..+|+.+ +. +.+-|....+=+..+.+.+.+.+.+..
T Consensus 130 ~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg~~~~~~~~~~l~~~G 176 (366)
T COG0683 130 TDNQQAAAAADYLVKKGGKKRVAIIGDDYAYGEGLADAFKAALKALG 176 (366)
T ss_pred ChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcchhHHHHHHHHHHhCC
Confidence 11122222333321 23 344555666667777777777777543
No 396
>PF15088 NADH_dh_m_C1: NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial
Probab=20.02 E-value=56 Score=24.34 Aligned_cols=17 Identities=41% Similarity=0.634 Sum_probs=15.1
Q ss_pred ccCCCCCCEEEEEeCCCCCHHH
Q 016960 339 NWLPKGQITIGITSGASTPDKA 360 (380)
Q Consensus 339 ~wl~~~~~~VGITAGASTP~~l 360 (380)
+|+ +||+|-|+|.--|.
T Consensus 13 nWl-----kVGLtlGts~flW~ 29 (49)
T PF15088_consen 13 NWL-----KVGLTLGTSVFLWI 29 (49)
T ss_pred Chh-----heeeecchHHHHHH
Confidence 888 89999999988774
Done!