Query 029842
Match_columns 187
No_of_seqs 193 out of 1115
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 04:31:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029842.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029842hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2107 Uncharacterized conser 100.0 2.3E-60 5E-65 378.1 11.9 177 2-178 1-178 (179)
2 PF03079 ARD: ARD/ARD' family; 100.0 4.1E-45 8.9E-50 292.3 11.5 155 4-158 1-157 (157)
3 COG1791 Uncharacterized conser 100.0 9.6E-43 2.1E-47 278.9 15.5 167 2-177 1-179 (181)
4 PF07883 Cupin_2: Cupin domain 99.2 5.9E-11 1.3E-15 80.8 7.1 61 85-150 10-71 (71)
5 COG1917 Uncharacterized conser 99.1 1.7E-10 3.7E-15 88.5 8.0 65 83-152 53-118 (131)
6 COG0662 {ManC} Mannose-6-phosp 99.1 7E-10 1.5E-14 85.4 8.2 62 87-153 50-112 (127)
7 PRK04190 glucose-6-phosphate i 99.0 3.8E-09 8.3E-14 87.2 11.0 87 63-153 68-157 (191)
8 PF02311 AraC_binding: AraC-li 99.0 1.8E-09 3.9E-14 80.0 7.8 61 84-149 14-74 (136)
9 smart00835 Cupin_1 Cupin. This 98.9 1.7E-08 3.6E-13 79.0 10.4 70 84-153 41-112 (146)
10 TIGR03214 ura-cupin putative a 98.9 1.1E-08 2.3E-13 88.0 8.9 56 88-148 195-250 (260)
11 PF00190 Cupin_1: Cupin; Inte 98.8 2.9E-08 6.2E-13 77.5 9.6 71 84-154 45-123 (144)
12 TIGR03404 bicupin_oxalic bicup 98.8 2.6E-08 5.7E-13 89.5 10.4 70 84-153 256-326 (367)
13 PRK13290 ectC L-ectoine syntha 98.8 2.4E-08 5.2E-13 77.3 8.4 61 85-152 47-109 (125)
14 PRK09943 DNA-binding transcrip 98.8 3.8E-08 8.3E-13 79.8 8.4 62 86-152 121-182 (185)
15 COG2140 Thermophilic glucose-6 98.7 1.4E-07 3E-12 78.8 9.5 72 84-155 91-165 (209)
16 PF06560 GPI: Glucose-6-phosph 98.6 3E-07 6.5E-12 75.5 9.5 93 56-154 44-148 (182)
17 TIGR03404 bicupin_oxalic bicup 98.6 3E-07 6.5E-12 82.8 10.1 67 85-152 79-145 (367)
18 TIGR03037 anthran_nbaC 3-hydro 98.6 1.9E-07 4E-12 75.2 7.9 62 84-146 39-100 (159)
19 COG3837 Uncharacterized conser 98.6 2.4E-07 5.1E-12 74.2 8.1 82 65-160 44-128 (161)
20 PRK13500 transcriptional activ 98.6 1.2E-07 2.5E-12 82.7 6.8 57 85-146 60-116 (312)
21 PRK13501 transcriptional activ 98.6 1E-07 2.2E-12 81.6 6.4 51 86-141 31-81 (290)
22 PRK13264 3-hydroxyanthranilate 98.5 2.6E-07 5.7E-12 75.4 7.5 58 84-142 45-102 (177)
23 PRK11171 hypothetical protein; 98.5 3.9E-07 8.4E-12 78.5 8.6 56 89-149 201-256 (266)
24 PRK10296 DNA-binding transcrip 98.5 3.4E-07 7.3E-12 77.7 7.8 51 84-139 34-84 (278)
25 PRK10371 DNA-binding transcrip 98.5 2.1E-07 4.5E-12 81.0 6.6 56 86-146 39-94 (302)
26 PRK13503 transcriptional activ 98.5 2.2E-07 4.7E-12 78.4 5.0 53 84-141 26-78 (278)
27 PRK13502 transcriptional activ 98.5 4.2E-07 9.1E-12 77.2 6.8 52 86-142 31-82 (282)
28 PRK15457 ethanolamine utilizat 98.4 7.7E-07 1.7E-11 75.4 7.4 51 89-144 171-221 (233)
29 TIGR02297 HpaA 4-hydroxyphenyl 98.4 6.6E-07 1.4E-11 75.9 6.9 60 85-149 35-95 (287)
30 COG4297 Uncharacterized protei 98.4 2.2E-06 4.8E-11 67.6 9.2 117 50-184 34-152 (163)
31 TIGR01479 GMP_PMI mannose-1-ph 98.4 1.1E-06 2.4E-11 81.2 8.8 64 85-153 388-452 (468)
32 PRK15460 cpsB mannose-1-phosph 98.3 2.9E-06 6.3E-11 78.8 9.4 62 86-152 398-460 (478)
33 PLN00212 glutelin; Provisional 98.2 5.6E-06 1.2E-10 77.2 8.9 70 83-152 90-184 (493)
34 PRK11171 hypothetical protein; 98.2 7.1E-06 1.5E-10 70.7 8.6 53 92-149 82-134 (266)
35 COG4101 Predicted mannose-6-ph 98.2 1.1E-05 2.5E-10 62.2 8.6 78 64-153 47-125 (142)
36 TIGR03214 ura-cupin putative a 98.2 1.2E-05 2.5E-10 69.2 9.4 63 88-155 74-140 (260)
37 PF01050 MannoseP_isomer: Mann 98.1 1.5E-05 3.2E-10 63.7 8.8 78 59-152 60-138 (151)
38 PF02041 Auxin_BP: Auxin bindi 98.1 1.8E-05 4E-10 63.2 9.1 79 84-162 55-138 (167)
39 PLN00212 glutelin; Provisional 97.8 0.00019 4.2E-09 67.0 10.6 71 83-154 358-430 (493)
40 TIGR02272 gentisate_1_2 gentis 97.8 6.2E-05 1.3E-09 67.2 6.9 58 84-146 92-150 (335)
41 TIGR02451 anti_sig_ChrR anti-s 97.7 5.8E-05 1.3E-09 63.3 5.8 72 63-153 127-198 (215)
42 COG3435 Gentisate 1,2-dioxygen 97.7 7E-05 1.5E-09 65.9 5.9 58 83-144 102-159 (351)
43 PF12973 Cupin_7: ChrR Cupin-l 97.6 0.00023 4.9E-09 51.4 6.6 59 64-141 25-83 (91)
44 PF05899 Cupin_3: Protein of u 97.6 0.00017 3.7E-09 50.6 5.6 44 92-139 24-67 (74)
45 PF06249 EutQ: Ethanolamine ut 97.5 0.0003 6.6E-09 56.3 6.2 44 92-140 94-137 (152)
46 PRK10572 DNA-binding transcrip 97.4 0.00037 8E-09 59.4 6.8 50 87-141 43-92 (290)
47 TIGR02272 gentisate_1_2 gentis 97.4 0.00053 1.1E-08 61.3 7.1 86 50-140 215-312 (335)
48 PF12852 Cupin_6: Cupin 97.3 0.00052 1.1E-08 55.2 5.8 43 94-141 36-80 (186)
49 COG4766 EutQ Ethanolamine util 97.2 0.00098 2.1E-08 53.5 6.5 52 84-141 110-161 (176)
50 PF05523 FdtA: WxcM-like, C-te 97.2 0.0021 4.5E-08 49.9 8.3 65 86-153 46-112 (131)
51 PF06052 3-HAO: 3-hydroxyanthr 97.0 0.0037 8E-08 49.9 7.8 57 84-141 44-100 (151)
52 COG3450 Predicted enzyme of th 96.8 0.0026 5.6E-08 48.8 5.2 47 88-138 57-104 (116)
53 PF04209 HgmA: homogentisate 1 96.6 0.0054 1.2E-07 56.4 6.8 57 90-151 143-199 (424)
54 PF11699 CENP-C_C: Mif2/CENP-C 96.4 0.019 4.1E-07 41.7 7.1 69 62-144 11-79 (85)
55 PRK09685 DNA-binding transcrip 96.4 0.011 2.4E-07 50.5 6.8 51 93-148 71-121 (302)
56 COG3257 GlxB Uncharacterized p 96.3 0.008 1.7E-07 51.1 5.1 54 90-148 200-253 (264)
57 TIGR01015 hmgA homogentisate 1 96.2 0.02 4.3E-07 52.7 7.6 57 90-151 145-201 (429)
58 PF06339 Ectoine_synth: Ectoin 96.1 0.051 1.1E-06 42.3 8.4 60 89-153 51-110 (126)
59 PF14525 AraC_binding_2: AraC- 96.0 0.03 6.5E-07 43.0 7.0 53 92-149 54-106 (172)
60 PRK05341 homogentisate 1,2-dio 96.0 0.028 6.1E-07 51.9 7.6 57 90-151 151-208 (438)
61 PF02373 JmjC: JmjC domain, hy 95.9 0.019 4.1E-07 41.9 5.2 31 112-142 77-107 (114)
62 PLN02658 homogentisate 1,2-dio 95.7 0.046 1E-06 50.5 7.7 56 90-150 144-200 (435)
63 COG3435 Gentisate 1,2-dioxygen 95.6 0.029 6.4E-07 49.7 5.9 63 86-155 274-336 (351)
64 COG3257 GlxB Uncharacterized p 95.5 0.047 1E-06 46.5 6.7 50 93-147 83-134 (264)
65 PF02678 Pirin: Pirin; InterP 94.9 0.13 2.8E-06 38.8 6.9 63 84-150 40-106 (107)
66 PF13621 Cupin_8: Cupin-like d 94.4 0.13 2.8E-06 42.1 6.4 68 85-152 143-247 (251)
67 KOG2757 Mannose-6-phosphate is 94.3 0.11 2.3E-06 47.2 5.9 56 92-153 352-408 (411)
68 PF00908 dTDP_sugar_isom: dTDP 94.0 0.42 9.2E-06 39.0 8.5 59 84-142 54-124 (176)
69 TIGR01221 rmlC dTDP-4-dehydror 93.2 0.76 1.6E-05 37.5 8.6 60 83-142 54-124 (176)
70 COG3508 HmgA Homogentisate 1,2 92.4 0.65 1.4E-05 42.2 7.8 46 92-142 145-190 (427)
71 PF07385 DUF1498: Protein of u 92.4 0.3 6.6E-06 41.5 5.4 26 117-142 155-180 (225)
72 COG1898 RfbC dTDP-4-dehydrorha 92.1 1 2.2E-05 36.8 8.0 61 83-143 55-125 (173)
73 PF08007 Cupin_4: Cupin superf 92.0 0.94 2E-05 39.9 8.4 56 85-140 127-200 (319)
74 PF14499 DUF4437: Domain of un 91.9 0.18 3.8E-06 43.6 3.5 52 86-141 49-100 (251)
75 PRK12335 tellurite resistance 90.6 1.5 3.3E-05 37.6 8.2 75 80-154 18-96 (287)
76 KOG3995 3-hydroxyanthranilate 90.4 0.43 9.3E-06 40.6 4.3 68 85-153 45-124 (279)
77 COG1482 ManA Phosphomannose is 90.1 0.77 1.7E-05 40.9 5.9 45 91-140 258-302 (312)
78 TIGR00218 manA mannose-6-phosp 89.8 0.91 2E-05 39.6 6.1 41 91-136 251-291 (302)
79 PF04962 KduI: KduI/IolB famil 89.7 0.67 1.5E-05 40.1 5.1 55 86-141 166-234 (261)
80 COG3822 ABC-type sugar transpo 89.7 0.53 1.1E-05 39.4 4.2 26 117-142 154-179 (225)
81 PRK15131 mannose-6-phosphate i 89.4 1 2.2E-05 41.1 6.3 42 92-138 338-379 (389)
82 PF13759 2OG-FeII_Oxy_5: Putat 88.5 1.3 2.8E-05 32.2 5.3 27 114-140 64-90 (101)
83 COG1741 Pirin-related protein 87.6 2.2 4.7E-05 37.4 6.9 68 83-154 54-126 (276)
84 COG1482 ManA Phosphomannose is 86.6 0.54 1.2E-05 41.9 2.6 23 117-139 159-181 (312)
85 TIGR00218 manA mannose-6-phosp 85.8 0.41 8.8E-06 41.8 1.4 20 117-136 152-171 (302)
86 PF09313 DUF1971: Domain of un 85.2 4.4 9.5E-05 29.1 6.3 58 84-141 14-75 (82)
87 PF06865 DUF1255: Protein of u 83.5 6.2 0.00013 29.3 6.6 46 93-141 41-86 (94)
88 PF06719 AraC_N: AraC-type tra 83.5 7.9 0.00017 30.4 7.8 56 92-152 22-80 (155)
89 PRK15131 mannose-6-phosphate i 82.5 1.5 3.3E-05 40.0 3.7 24 117-140 238-261 (389)
90 PRK10579 hypothetical protein; 82.2 8.9 0.00019 28.4 7.0 46 93-141 41-86 (94)
91 PHA02890 hypothetical protein; 73.9 19 0.00042 31.4 7.7 58 95-154 94-151 (278)
92 PLN02288 mannose-6-phosphate i 73.4 5.6 0.00012 36.5 4.6 40 91-133 352-391 (394)
93 PF06172 Cupin_5: Cupin superf 70.0 46 0.001 26.0 8.5 63 83-145 51-120 (139)
94 PHA02984 hypothetical protein; 69.9 35 0.00075 30.0 8.4 60 94-154 94-154 (286)
95 PF05962 HutD: HutD; InterPro 69.2 7 0.00015 31.9 3.9 50 92-148 134-183 (184)
96 PRK10202 ebgC cryptic beta-D-g 68.8 30 0.00065 27.2 7.3 61 89-151 60-139 (149)
97 PRK15186 AraC family transcrip 68.8 16 0.00035 31.9 6.3 43 95-141 40-82 (291)
98 COG2850 Uncharacterized conser 68.2 3.7 8E-05 37.5 2.2 84 50-140 100-203 (383)
99 PRK11753 DNA-binding transcrip 68.0 36 0.00078 26.9 7.8 36 93-128 38-74 (211)
100 PF14499 DUF4437: Domain of un 67.9 3.6 7.7E-05 35.6 2.0 61 86-149 184-244 (251)
101 PRK09391 fixK transcriptional 66.6 38 0.00083 27.8 7.9 57 93-149 56-113 (230)
102 PF00027 cNMP_binding: Cyclic 65.2 25 0.00055 23.3 5.5 38 93-130 17-55 (91)
103 cd00038 CAP_ED effector domain 64.2 24 0.00052 23.9 5.4 37 93-129 35-72 (115)
104 PLN02288 mannose-6-phosphate i 64.1 5.8 0.00013 36.4 2.7 25 117-141 252-276 (394)
105 PRK00924 5-keto-4-deoxyuronate 63.3 21 0.00046 31.3 5.9 56 86-141 191-250 (276)
106 PRK13918 CRP/FNR family transc 63.0 35 0.00076 26.9 6.8 36 94-129 27-63 (202)
107 cd06919 Asp_decarbox Aspartate 63.0 4.3 9.3E-05 31.0 1.3 30 97-130 56-88 (111)
108 PF05721 PhyH: Phytanoyl-CoA d 62.9 7.7 0.00017 30.0 2.9 28 113-140 177-204 (211)
109 KOG3706 Uncharacterized conser 60.8 3.4 7.4E-05 39.1 0.6 39 112-150 377-415 (629)
110 PF05726 Pirin_C: Pirin C-term 60.7 24 0.00051 25.8 5.0 48 93-148 20-67 (104)
111 PRK05573 rplU 50S ribosomal pr 60.5 28 0.00061 25.9 5.4 50 104-162 3-52 (103)
112 PF11142 DUF2917: Protein of u 59.4 28 0.0006 23.6 4.8 40 96-138 19-58 (63)
113 TIGR00223 panD L-aspartate-alp 58.5 5.5 0.00012 31.0 1.3 31 97-131 57-90 (126)
114 PRK05449 aspartate alpha-decar 57.9 5.8 0.00013 30.9 1.3 30 97-130 57-89 (126)
115 smart00100 cNMP Cyclic nucleot 54.6 41 0.00089 22.8 5.2 38 93-130 35-73 (120)
116 PRK09392 ftrB transcriptional 51.1 43 0.00094 27.2 5.6 57 93-149 48-107 (236)
117 PRK00924 5-keto-4-deoxyuronate 49.7 77 0.0017 27.9 7.1 39 92-135 72-111 (276)
118 TIGR02466 conserved hypothetic 49.4 55 0.0012 27.2 6.0 58 82-139 105-185 (201)
119 PF00829 Ribosomal_L21p: Ribos 47.6 13 0.00029 27.3 1.8 48 104-162 3-52 (96)
120 COG3123 Uncharacterized protei 45.5 73 0.0016 23.4 5.3 43 93-138 41-83 (94)
121 KOG1417 Homogentisate 1,2-diox 45.3 69 0.0015 28.9 6.1 35 117-151 174-208 (446)
122 COG3806 ChrR Transcriptional a 44.6 33 0.00071 29.0 3.8 57 84-149 139-195 (216)
123 PHA00672 hypothetical protein 44.6 79 0.0017 25.0 5.7 57 84-146 58-114 (152)
124 PRK10402 DNA-binding transcrip 41.9 1.1E+02 0.0024 24.8 6.7 37 93-129 49-86 (226)
125 PF13640 2OG-FeII_Oxy_3: 2OG-F 41.5 42 0.00091 23.5 3.6 20 120-139 66-86 (100)
126 PRK05467 Fe(II)-dependent oxyg 41.0 67 0.0015 27.2 5.3 32 116-147 141-173 (226)
127 PF13464 DUF4115: Domain of un 40.5 1.2E+02 0.0025 20.7 7.2 44 99-142 4-48 (77)
128 PF04962 KduI: KduI/IolB famil 40.3 87 0.0019 27.0 6.0 47 90-141 44-99 (261)
129 PRK11161 fumarate/nitrate redu 39.6 1.4E+02 0.0031 24.0 7.0 36 93-128 55-91 (235)
130 COG0664 Crp cAMP-binding prote 39.5 60 0.0013 25.0 4.5 56 94-149 42-101 (214)
131 TIGR00061 L21 ribosomal protei 39.3 90 0.002 23.2 5.2 50 104-162 2-51 (101)
132 PF05995 CDO_I: Cysteine dioxy 38.6 2E+02 0.0044 22.9 9.1 71 83-153 85-165 (175)
133 COG0853 PanD Aspartate 1-decar 38.0 13 0.00027 29.0 0.4 26 101-130 63-88 (126)
134 PTZ00273 oxidase reductase; Pr 37.6 58 0.0013 28.5 4.6 65 88-153 197-276 (320)
135 PF01238 PMI_typeI: Phosphoman 37.5 16 0.00036 32.9 1.1 24 117-140 251-274 (373)
136 PF02261 Asp_decarbox: Asparta 37.3 7.9 0.00017 29.8 -0.8 30 97-130 57-89 (116)
137 PLN02868 acyl-CoA thioesterase 36.9 79 0.0017 28.6 5.4 37 93-129 49-85 (413)
138 cd00248 Mth938-like Mth938-lik 36.2 33 0.00072 25.5 2.4 27 102-136 6-32 (109)
139 PF00054 Laminin_G_1: Laminin 36.1 1.7E+02 0.0036 21.8 6.4 58 87-149 14-71 (131)
140 TIGR03697 NtcA_cyano global ni 35.3 97 0.0021 24.0 5.2 35 93-127 11-46 (193)
141 COG2731 EbgC Beta-galactosidas 34.6 2.2E+02 0.0048 22.8 7.1 47 93-139 69-135 (154)
142 TIGR00568 alkb DNA alkylation 33.9 67 0.0015 25.9 4.0 41 96-136 124-166 (169)
143 PF05118 Asp_Arg_Hydrox: Aspar 33.8 97 0.0021 24.5 4.9 52 85-141 92-149 (163)
144 PF01987 AIM24: Mitochondrial 33.5 55 0.0012 26.6 3.6 41 96-137 132-172 (215)
145 PF04074 DUF386: Domain of unk 33.3 80 0.0017 24.6 4.3 53 86-138 61-135 (153)
146 TIGR02408 ectoine_ThpD ectoine 33.3 45 0.00097 28.6 3.1 23 116-138 211-233 (277)
147 PF12851 Tet_JBP: Oxygenase do 31.0 95 0.0021 24.9 4.5 38 103-140 113-153 (171)
148 TIGR01762 chlorin-enz chlorina 30.2 1E+02 0.0022 26.7 4.9 41 114-154 207-251 (288)
149 PLN02156 gibberellin 2-beta-di 30.2 1.8E+02 0.004 25.8 6.6 66 87-152 198-278 (335)
150 PF07653 SH3_2: Variant SH3 do 29.8 65 0.0014 20.4 2.8 34 117-158 15-48 (55)
151 PF02080 TrkA_C: TrkA-C domain 29.8 50 0.0011 21.6 2.3 30 93-128 27-56 (71)
152 KOG4680 Uncharacterized conser 29.1 80 0.0017 25.2 3.6 33 117-149 96-140 (153)
153 COG3128 PiuC Uncharacterized i 28.2 1.5E+02 0.0033 25.0 5.2 34 116-149 144-177 (229)
154 cd05560 Xcc1710_like Xcc1710_l 27.8 61 0.0013 24.1 2.7 26 102-135 6-32 (109)
155 PF01067 Calpain_III: Calpain 27.2 55 0.0012 24.6 2.4 33 117-154 111-143 (147)
156 cd03028 GRX_PICOT_like Glutare 26.2 1.8E+02 0.004 20.2 4.8 52 29-82 30-81 (90)
157 PRK15372 pathogenicity island 25.7 2.7E+02 0.0058 24.5 6.4 73 96-178 57-133 (292)
158 TIGR03027 pepcterm_export puta 25.6 45 0.00098 26.3 1.7 16 117-132 149-164 (165)
159 COG0361 InfA Translation initi 25.3 1.4E+02 0.0029 21.2 3.9 14 117-130 44-57 (75)
160 KOG3416 Predicted nucleic acid 25.2 1.1E+02 0.0023 24.1 3.6 56 92-158 34-93 (134)
161 PRK15401 alpha-ketoglutarate-d 24.6 1.9E+02 0.0042 24.3 5.4 43 96-138 145-189 (213)
162 CHL00075 rpl21 ribosomal prote 23.6 92 0.002 23.5 2.9 40 104-151 5-44 (108)
163 PF04622 ERG2_Sigma1R: ERG2 an 23.4 3.4E+02 0.0073 23.0 6.6 61 91-159 117-177 (216)
164 PLN02403 aminocyclopropanecarb 23.2 2.6E+02 0.0056 24.5 6.1 65 88-153 172-253 (303)
165 TIGR00365 monothiol glutaredox 23.1 2.2E+02 0.0047 20.4 4.8 52 29-82 34-85 (97)
166 cd05126 Mth938 Mth938 domain. 22.6 77 0.0017 24.0 2.4 26 102-135 6-31 (117)
167 COG3145 AlkB Alkylated DNA rep 22.4 1.3E+02 0.0028 25.1 3.8 42 96-137 135-178 (194)
168 cd05793 S1_IF1A S1_IF1A: Trans 21.6 1.6E+02 0.0036 20.6 3.8 13 117-129 36-48 (77)
169 COG3097 Uncharacterized protei 21.3 1.8E+02 0.0039 21.8 3.9 45 99-154 16-60 (106)
170 PLN02485 oxidoreductase 21.2 2.2E+02 0.0048 24.9 5.4 67 86-153 205-288 (329)
171 TIGR00022 uncharacterized prot 21.2 1.1E+02 0.0023 23.6 3.0 49 89-137 64-134 (142)
172 PF13532 2OG-FeII_Oxy_2: 2OG-F 21.1 2.6E+02 0.0056 21.8 5.3 49 85-133 109-165 (194)
173 PF03171 2OG-FeII_Oxy: 2OG-Fe( 20.9 2.4E+02 0.0052 19.4 4.6 48 102-150 36-96 (98)
174 TIGR03805 beta_helix_1 paralle 20.9 55 0.0012 28.8 1.5 16 119-134 7-22 (314)
175 PF00915 Calici_coat: Calicivi 20.8 1.1E+02 0.0023 27.2 3.2 39 67-107 85-123 (293)
176 COG3323 Uncharacterized protei 20.6 1.2E+02 0.0027 23.0 3.1 41 70-110 12-52 (109)
177 CHL00010 infA translation init 20.6 1.1E+02 0.0025 21.3 2.8 12 118-129 45-56 (78)
178 smart00652 eIF1a eukaryotic tr 20.2 1.7E+02 0.0038 20.7 3.7 13 117-129 41-53 (83)
179 KOG0498 K+-channel ERG and rel 20.2 1.5E+02 0.0033 29.6 4.4 36 92-127 459-494 (727)
No 1
>KOG2107 consensus Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=100.00 E-value=2.3e-60 Score=378.14 Aligned_cols=177 Identities=65% Similarity=1.235 Sum_probs=173.0
Q ss_pred ceEEEEecC-CCCCCCCCCcCCCCCcCCHHHHhhcCeEEEEcCCCCCCChHHHHHHHHHcCCCeeeeeeeCcccccCHHH
Q 029842 2 VLEAWFMDE-SSQDQRLPHHLNPKQFVSLDQLAELGVLYWRLNPKNYENDEELQKIREARGYSYMDLLDLCPEKVTNYEE 80 (187)
Q Consensus 2 ~~~aw~~d~-~~~d~~~~~~~~~~~~~~~~~L~~~GV~~w~~~~~~~~~~~~l~~l~~~~Gy~~~dvv~v~~~~~p~~~~ 80 (187)
||||||||+ +|+|+|+|||.+|++.||+++|+++||+||++++++++.+.+|++|++++||+.+|+++++++++|||+.
T Consensus 1 m~qaw~mdd~~~~D~RlPhh~~p~~~vs~d~L~~lGVly~kld~D~~e~~~~L~~lr~e~~~~~~d~~~~~~e~~~nfde 80 (179)
T KOG2107|consen 1 MMQAWYMDDSPCEDQRLPHHKDPKKEVSLDELARLGVLYWKLDADNYELDEELDRLREERGYSYMDICTVCPETLPNFDE 80 (179)
T ss_pred CeeEEEcCCCCcccccCCCCCCCcccCCHHHHHhhCcEEEEecCchHHHHHHHHHHHHHcCCceeeEEEEchhhcccHHH
Confidence 899999999 5699999999999999999999999999999999988889999999999999999999999999999999
Q ss_pred HhcCcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCCceEEeC
Q 029842 81 KLKNFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEPVWTAYN 160 (187)
Q Consensus 81 ~~~~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~gw~~~~ 160 (187)
+++.|+++|.|.++|||||++|+|+|++++.+|.||++.|++||+|+||||++|+|+++++++++|+|||.++|.|+|+|
T Consensus 81 Kvk~FfEEhlh~deeiR~il~GtgYfDVrd~dd~WIRi~vekGDlivlPaGiyHRFTtt~~n~vkamRlF~~~p~wta~n 160 (179)
T KOG2107|consen 81 KVKSFFEEHLHEDEEIRYILEGTGYFDVRDKDDQWIRIFVEKGDLIVLPAGIYHRFTTTPSNYVKAMRLFVGEPKWTAYN 160 (179)
T ss_pred HHHHHHHHhcCchhheEEEeecceEEeeccCCCCEEEEEEecCCEEEecCcceeeeecCchHHHHHHHHhcCCcccccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcHHHHHHHHhhcC
Q 029842 161 RPQEDHPARKEYIKGLTG 178 (187)
Q Consensus 161 r~~d~~~~r~~y~~~~~~ 178 (187)
||+|..++|+.||..+..
T Consensus 161 R~~d~l~~r~~yl~~i~~ 178 (179)
T KOG2107|consen 161 RPHDELPARKQYLNFISQ 178 (179)
T ss_pred CccccchhHHHHHhhccc
Confidence 999999999999998853
No 2
>PF03079 ARD: ARD/ARD' family; InterPro: IPR004313 The two acireductone dioxygenase enzymes (ARD and ARD', previously known as E-2 and E-2') from Klebsiella pneumoniae share the same amino acid sequence Q9ZFE7 from SWISSPROT, but bind different metal ions: ARD binds Ni2+, ARD' binds Fe2+ []. ARD and ARD' can be experimentally interconverted by removal of the bound metal ion and reconstitution with the appropriate metal ion. The two enzymes share the same substrate, 1,2-dihydroxy-3-keto-5-(methylthio)pentene, but yield different products. ARD' yields the alpha-keto precursor of methionine (and formate), thus forming part of the ubiquitous methionine salvage pathway that converts 5'-methylthioadenosine (MTA) to methionine. This pathway is responsible for the tight control of the concentration of MTA, which is a powerful inhibitor of polyamine biosynthesis and transmethylation reactions []. ARD yields methylthiopropanoate, carbon monoxide and formate, and thus prevents the conversion of MTA to methionine. The role of the ARD catalysed reaction is unclear: methylthiopropanoate is cytotoxic, and carbon monoxide can activate guanylyl cyclase, leading to increased intracellular cGMP levels [, ]. This family also contains other proteins, whose functions are not well characterised.; GO: 0010309 acireductone dioxygenase [iron(II)-requiring] activity, 0055114 oxidation-reduction process; PDB: 1VR3_A 1ZRR_A 2HJI_A.
Probab=100.00 E-value=4.1e-45 Score=292.33 Aligned_cols=155 Identities=57% Similarity=0.984 Sum_probs=133.3
Q ss_pred EEEEecCCC-CCCCCCCcCCCCCcCCHHHHhhcCeEEEEcCCCCCCChHHHHHHHHHcCCCeeee-eeeCcccccCHHHH
Q 029842 4 EAWFMDESS-QDQRLPHHLNPKQFVSLDQLAELGVLYWRLNPKNYENDEELQKIREARGYSYMDL-LDLCPEKVTNYEEK 81 (187)
Q Consensus 4 ~aw~~d~~~-~d~~~~~~~~~~~~~~~~~L~~~GV~~w~~~~~~~~~~~~l~~l~~~~Gy~~~dv-v~v~~~~~p~~~~~ 81 (187)
||||||+.. +|+++||+++|++++|..+|+++||++|+++++..+....++.+.+.++|...++ +.+.+...|+|+++
T Consensus 1 ~~~~~d~~~~~d~~~~~~~~p~~~~s~~~l~~~~v~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~dv~~~~~~~p~~~~~ 80 (157)
T PF03079_consen 1 RAWYYDEEDPGDQRLPHHSDPDKIVSLLQLAGLGVLYWKLDADDPEDAEELQIIRAYRNYIDRDIDVVSLHPDHPNYEAK 80 (157)
T ss_dssp EEEEB-S--S-STCCEEE-SCHHCHHHHHCCCTCEEEEE-SCGGTTS-HHHHHHHHCHCHHCCCCEEEESTTTSTCHHHH
T ss_pred CEEEECCCCcccCCCcccCCcccccCHHHhhCceEEEeecCCCccCCccHHHHHHHHcCCceEEEEEEecCCCCcchhHH
Confidence 799999965 7999999999999999999999999999999887777788999999999988876 54444456999999
Q ss_pred hcCcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCCceEE
Q 029842 82 LKNFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEPVWTA 158 (187)
Q Consensus 82 ~~~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~gw~~ 158 (187)
+.+|+.+|+|+++|+|||++|+|+|++++.++.|+++.|++||+|+||+|++|||+++++++|+|||||++++||+|
T Consensus 81 ~~~f~~EH~H~deEvR~i~~G~g~Fdvr~~~~~wiri~~e~GDli~vP~g~~HrF~~~~~~~i~aiRlF~~~~gWva 157 (157)
T PF03079_consen 81 LKKFFEEHTHEDEEVRYIVDGSGYFDVRDGDDVWIRILCEKGDLIVVPAGTYHRFTLGESPYIKAIRLFKDEPGWVA 157 (157)
T ss_dssp HHHHCS-EEESS-EEEEEEECEEEEEEE-TTCEEEEEEEETTCEEEE-TT--EEEEESTTSSEEEEEEESSCGGEES
T ss_pred hhhhheeEecChheEEEEeCcEEEEEEEcCCCEEEEEEEcCCCEEecCCCCceeEEcCCCCcEEEEEeecCCCCccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999996
No 3
>COG1791 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=100.00 E-value=9.6e-43 Score=278.86 Aligned_cols=167 Identities=29% Similarity=0.531 Sum_probs=148.2
Q ss_pred ceEEEEecCCCCCCCCCCcCCCCCcCCHHHHhhcCeEE--EEcCCCCC----------CChHHHHHHHHHcCCCeeeeee
Q 029842 2 VLEAWFMDESSQDQRLPHHLNPKQFVSLDQLAELGVLY--WRLNPKNY----------ENDEELQKIREARGYSYMDLLD 69 (187)
Q Consensus 2 ~~~aw~~d~~~~d~~~~~~~~~~~~~~~~~L~~~GV~~--w~~~~~~~----------~~~~~l~~l~~~~Gy~~~dvv~ 69 (187)
|+++..+|+. .--.+++++ +.+|+++||.+ |.+..... ..+.++++|++++||+++|+|+
T Consensus 1 Ms~l~I~d~~------~~~~~~dei--a~~l~~i~v~~e~we~~~~~~~~~~~~~i~~a~~~eid~l~~e~Gyk~~Dvvs 72 (181)
T COG1791 1 MSRLRIHDET------KIITNQDEI--APELSKIEVSFERWEATALIKHGAEKEHIIDAYETEIDRLIRERGYKNRDVVS 72 (181)
T ss_pred CceEEEecCc------ccccCHhHh--hhhcccceeEhhhhhhccccccCcchhhhHhhHHHHHHHHHHhhCCceeeEEE
Confidence 7888888776 112245666 68999999998 66433211 1268899999999999999999
Q ss_pred eCcccccCHHHHhcCcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEE
Q 029842 70 LCPEKVTNYEEKLKNFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 70 v~~~~~p~~~~~~~~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~ 149 (187)
|+|.+ |++++++++|+++|+|.++|+||||+|.|+|.+++.+|+|+++.|++||||+||+|++|||++++++.|+|||+
T Consensus 73 v~~~~-pk~del~akF~~EH~H~d~EvRy~vaG~GiF~v~~~d~~~~~i~c~~gDLI~vP~gi~HwFtlt~~~~f~AvRl 151 (181)
T COG1791 73 VSPSN-PKLDELRAKFLQEHLHTDDEVRYFVAGEGIFDVHSPDGKVYQIRCEKGDLISVPPGIYHWFTLTESPNFKAVRL 151 (181)
T ss_pred eCCCC-ccHHHHHHHHHHHhccCCceEEEEEecceEEEEECCCCcEEEEEEccCCEEecCCCceEEEEccCCCcEEEEEE
Confidence 99986 99999999999999999999999999999999999888999999999999999999999999999999999999
Q ss_pred EcCCCceEEeCCCCCCcHHHHHHHHhhc
Q 029842 150 FVGEPVWTAYNRPQEDHPARKEYIKGLT 177 (187)
Q Consensus 150 f~~~~gw~~~~r~~d~~~~r~~y~~~~~ 177 (187)
|+.++||||++|..|..++|+.|+..+.
T Consensus 152 F~~~~gWVa~ytg~di~~~~~~y~~~i~ 179 (181)
T COG1791 152 FTEPEGWVAIYTGDDIADRFPKYIEEIN 179 (181)
T ss_pred eeCCCCceeeecCchhHHHHHHHHHHhh
Confidence 9999999999998888999999999875
No 4
>PF07883 Cupin_2: Cupin domain; InterPro: IPR013096 This family represents the conserved barrel domain of the cupin superfamily [] (cupa is the Latin term for a small barrel). ; PDB: 2OPK_C 3BU7_B 2PHD_D 3NVC_A 3NKT_A 3NJZ_A 3NW4_A 3NST_A 3NL1_A 2H0V_A ....
Probab=99.20 E-value=5.9e-11 Score=80.76 Aligned_cols=61 Identities=30% Similarity=0.530 Sum_probs=56.2
Q ss_pred cccccccCcc-eEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEE
Q 029842 85 FYTEHIHADE-EIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLF 150 (187)
Q Consensus 85 ~~~eH~H~~~-Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f 150 (187)
....|.|+.. |++||++|++.+.++++ ++.+++||.+.+|+|+.|++.+.++.+++.+.+|
T Consensus 10 ~~~~h~H~~~~e~~~vl~G~~~~~~~~~-----~~~l~~Gd~~~i~~~~~H~~~n~~~~~~~~l~V~ 71 (71)
T PF07883_consen 10 SIPPHRHPGEDEFFYVLSGEGTLTVDGE-----RVELKPGDAIYIPPGVPHQVRNPGDEPARFLVVY 71 (71)
T ss_dssp EEEEEEESSEEEEEEEEESEEEEEETTE-----EEEEETTEEEEEETTSEEEEEEESSSEEEEEEEE
T ss_pred CCCCEECCCCCEEEEEEECCEEEEEccE-----EeEccCCEEEEECCCCeEEEEECCCCCEEEEEEC
Confidence 4679999876 99999999999999988 9999999999999999999999888888888776
No 5
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=99.14 E-value=1.7e-10 Score=88.46 Aligned_cols=65 Identities=29% Similarity=0.484 Sum_probs=57.3
Q ss_pred cCcccccccC-cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcC
Q 029842 83 KNFYTEHIHA-DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVG 152 (187)
Q Consensus 83 ~~~~~eH~H~-~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~ 152 (187)
+....+|+|+ .++..|||+|+++|.++++ ...+++||+|+||+|+.|++.+.++.....|.++..
T Consensus 53 G~~~~~H~hp~~~~~~~Vl~G~~~~~~~g~-----~~~l~~Gd~i~ip~g~~H~~~a~~~~~~~~l~v~~~ 118 (131)
T COG1917 53 GAVIPWHTHPLGEQTIYVLEGEGTVQLEGE-----KKELKAGDVIIIPPGVVHGLKAVEDEPMVLLLVFPL 118 (131)
T ss_pred CcccccccCCCcceEEEEEecEEEEEecCC-----ceEecCCCEEEECCCCeeeeccCCCCceeEEEEeee
Confidence 4668999998 8899999999999999988 899999999999999999999988766566666655
No 6
>COG0662 {ManC} Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=99.06 E-value=7e-10 Score=85.41 Aligned_cols=62 Identities=31% Similarity=0.444 Sum_probs=55.0
Q ss_pred cccccC-cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCC
Q 029842 87 TEHIHA-DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGE 153 (187)
Q Consensus 87 ~eH~H~-~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~ 153 (187)
..|.|. .+|++||++|+|.+.++++ .+.|++||.++||+|+.|++.+....+++++-+...+
T Consensus 50 ~~~~H~~~dE~~~Vl~G~g~v~~~~~-----~~~v~~gd~~~iP~g~~H~~~N~G~~~L~liei~~p~ 112 (127)
T COG0662 50 SLHHHHHRDEHWYVLEGTGKVTIGGE-----EVEVKAGDSVYIPAGTPHRVRNTGKIPLVLIEVQSPP 112 (127)
T ss_pred CcccccCcceEEEEEeeEEEEEECCE-----EEEecCCCEEEECCCCcEEEEcCCCcceEEEEEecCC
Confidence 455554 6999999999999999998 9999999999999999999999988888888876553
No 7
>PRK04190 glucose-6-phosphate isomerase; Provisional
Probab=99.01 E-value=3.8e-09 Score=87.23 Aligned_cols=87 Identities=22% Similarity=0.292 Sum_probs=68.9
Q ss_pred CeeeeeeeCcccccCHHHHhcCcccccccC---cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeC
Q 029842 63 SYMDLLDLCPEKVTNYEEKLKNFYTEHIHA---DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLD 139 (187)
Q Consensus 63 ~~~dvv~v~~~~~p~~~~~~~~~~~eH~H~---~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~ 139 (187)
-..++.++.|..++.-- .....|.|. ..|++||++|+|.+.+.+.++....+.++|||+++||+|..|++.+.
T Consensus 68 L~~g~t~l~PG~~g~e~----~mt~gH~H~~~~~~EiyyvlsG~g~~~l~~~~G~~~~~~v~pGd~v~IPpg~~H~~iN~ 143 (191)
T PRK04190 68 LNFGTTRLYPGKVGDEY----FMTKGHFHAKADRAEIYYGLKGKGLMLLQDPEGEARWIEMEPGTVVYVPPYWAHRSVNT 143 (191)
T ss_pred eEEEEEEECCCcEeccc----ccCCCeEcCCCCCCEEEEEEeCEEEEEEecCCCcEEEEEECCCCEEEECCCCcEEeEEC
Confidence 46788888887543100 112347773 57999999999999999777777789999999999999999999998
Q ss_pred CCCcEEEEEEEcCC
Q 029842 140 TSNYVKLMRLFVGE 153 (187)
Q Consensus 140 ~~~~~~~ir~f~~~ 153 (187)
++.+++++-++...
T Consensus 144 G~epl~fl~v~p~~ 157 (191)
T PRK04190 144 GDEPLVFLACYPAD 157 (191)
T ss_pred CCCCEEEEEEEcCC
Confidence 88899888877654
No 8
>PF02311 AraC_binding: AraC-like ligand binding domain; InterPro: IPR003313 This entry defines the arabinose-binding and dimerisation domain of the bacterial gene regulatory protein AraC. The crystal structure of the arabinose-binding and dimerization domain of the Escherichia coli gene regulatory protein AraC was determined in the presence and absence of L-arabinose. The arabinose-bound molecule shows that the protein adopts an unusual fold, binding sugar within a beta barrel and completely burying the arabinose with the amino-terminal arm of the protein. Dimer contacts in the presence of arabinose are mediated by an antiparallel coiled-coil. In the uncomplexed protein, the amino-terminal arm is disordered, uncovering the sugar-binding pocket and allowing it to serve as an oligomerization interface [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1XJA_B 2ARA_A 2AAC_B 2ARC_A.
Probab=98.99 E-value=1.8e-09 Score=79.98 Aligned_cols=61 Identities=26% Similarity=0.431 Sum_probs=46.3
Q ss_pred CcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEE
Q 029842 84 NFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 84 ~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~ 149 (187)
..+..|.|+..|+.||++|+|.+.++++ .+.++|||+++||||..|.+...++.++...-+
T Consensus 14 ~~~~~h~h~~~~i~~v~~G~~~~~~~~~-----~~~l~~g~~~li~p~~~H~~~~~~~~~~~~~~i 74 (136)
T PF02311_consen 14 FEFPPHWHDFYEIIYVLSGEGTLHIDGQ-----EYPLKPGDLFLIPPGQPHSYYPDSNEPWEYYWI 74 (136)
T ss_dssp -SEEEETT-SEEEEEEEEE-EEEEETTE-----EEEE-TT-EEEE-TTS-EEEEE-TTSEEEEEEE
T ss_pred CccCCEECCCEEEEEEeCCEEEEEECCE-----EEEEECCEEEEecCCccEEEecCCCCCEEEEEE
Confidence 3457899999999999999999999999 999999999999999999999988655544433
No 9
>smart00835 Cupin_1 Cupin. This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant.
Probab=98.90 E-value=1.7e-08 Score=78.99 Aligned_cols=70 Identities=20% Similarity=0.387 Sum_probs=59.3
Q ss_pred CcccccccC-cceEEEEeeceEEEEEecCC-CcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCC
Q 029842 84 NFYTEHIHA-DEEIRYCLEGSGYFDVRDES-DQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGE 153 (187)
Q Consensus 84 ~~~~eH~H~-~~Ei~yileG~g~f~i~~~~-d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~ 153 (187)
.....|+|. .+|++||++|++.+.+.+.+ ++...+.+++||++.||+|+.|++.+.++.++.++-|....
T Consensus 41 ~~~~~h~H~~~~e~~~Vl~G~~~~~~~~~~~~~~~~~~l~~GD~~~ip~g~~H~~~n~~~~~~~~l~~~~~~ 112 (146)
T smart00835 41 GMLPPHYHPRATELLYVVRGEGRVGVVDPNGNKVYDARLREGDVFVVPQGHPHFQVNSGDENLEFVAFNTND 112 (146)
T ss_pred cCcCCeeCCCCCEEEEEEeCeEEEEEEeCCCCeEEEEEecCCCEEEECCCCEEEEEcCCCCCEEEEEEecCC
Confidence 346799996 78999999999999998753 56788999999999999999999998877888888554443
No 10
>TIGR03214 ura-cupin putative allantoin catabolism protein. This model represents a protein containing a tandem arrangement of cupin domains (N-terminal part of pfam07883 and C-terminal more distantly related to pfam00190). This protein is found in the vicinity of genes involved in the catabolism of allantoin, a breakdown product of urate and sometimes of urate iteslf. The distribution of pathway components in the genomes in which this family is observed suggests that the function is linked to the allantoate catabolism to glyoxylate pathway (GenProp0686) since it is sometimes found in genomes lacking any elements of the xanthine-to-allantoin pathways (e.g. in Enterococcus faecalis).
Probab=98.86 E-value=1.1e-08 Score=87.98 Aligned_cols=56 Identities=21% Similarity=0.269 Sum_probs=51.6
Q ss_pred ccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEE
Q 029842 88 EHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMR 148 (187)
Q Consensus 88 eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir 148 (187)
.|+|..+|.+|||+|+|.|.++++ .+.|++||+|.||||.+|++.+..+.+++.|-
T Consensus 195 ~~~H~~eh~~yiL~G~G~~~~~g~-----~~~V~~GD~i~i~~~~~h~~~~~G~~~~~~l~ 250 (260)
T TIGR03214 195 IETHVMEHGLYVLEGKGVYNLDNN-----WVPVEAGDYIWMGAYCPQACYAGGRGEFRYLL 250 (260)
T ss_pred cccccceeEEEEEeceEEEEECCE-----EEEecCCCEEEECCCCCEEEEecCCCcEEEEE
Confidence 577889999999999999999988 99999999999999999999998888887764
No 11
>PF00190 Cupin_1: Cupin; InterPro: IPR006045 This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant. ; GO: 0045735 nutrient reservoir activity; PDB: 2E9Q_A 2EVX_A 1OD5_A 1UCX_A 1UD1_C 1FXZ_C 3KGL_C 3KSC_D 1UIJ_F 1IPK_B ....
Probab=98.83 E-value=2.9e-08 Score=77.48 Aligned_cols=71 Identities=30% Similarity=0.436 Sum_probs=54.6
Q ss_pred CcccccccCcceEEEEeeceEEEEEecCCC-----cEEEEE--EeCCCEEEeCCCCeeeeeeCC-CCcEEEEEEEcCCC
Q 029842 84 NFYTEHIHADEEIRYCLEGSGYFDVRDESD-----QWIRIW--IKAGDLIVLPAGIYHRFTLDT-SNYVKLMRLFVGEP 154 (187)
Q Consensus 84 ~~~~eH~H~~~Ei~yileG~g~f~i~~~~d-----~~~~~~--v~~GDlIiIP~g~~H~f~~~~-~~~~~~ir~f~~~~ 154 (187)
.....|+|...|+.||++|+|.+.+-+.++ +..... +++||+++||+|..||..+++ ++.+..+-|+...+
T Consensus 45 ~~~~Ph~h~a~~i~~V~~G~~~~~~v~~~~~~~~~~~~~~~v~l~~Gdv~~vP~G~~h~~~n~~~~~~~~~~~f~~~~~ 123 (144)
T PF00190_consen 45 GLRAPHYHNADEIVYVIEGRGRVGVVGPGGPQEEFRDFSQKVRLKAGDVFVVPAGHPHWIINDGDDEALVLIIFDTNNP 123 (144)
T ss_dssp EEEEEEEESSEEEEEEEESEEEEEEEETTCSSSEEEEEEEEEEEETTEEEEE-TT-EEEEEECSSSSEEEEEEEEESST
T ss_pred CccceeEeeeeEEeeeeccceEEEEEecCCccccceeeeceeeeecccceeeccceeEEEEcCCCCCCEEEEEEECCCC
Confidence 457899999999999999999998887654 355555 999999999999999999987 44555555555544
No 12
>TIGR03404 bicupin_oxalic bicupin, oxalate decarboxylase family. Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.
Probab=98.82 E-value=2.6e-08 Score=89.53 Aligned_cols=70 Identities=17% Similarity=0.267 Sum_probs=62.2
Q ss_pred CcccccccC-cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCC
Q 029842 84 NFYTEHIHA-DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGE 153 (187)
Q Consensus 84 ~~~~eH~H~-~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~ 153 (187)
.....|+|. .+|++||++|++.+.+.+.++.-....+++||+++||+|..|++.+.++..+.++-+|...
T Consensus 256 ~~~~~H~H~~~~E~~yvl~G~~~~~v~d~~g~~~~~~l~~GD~~~iP~g~~H~i~N~G~e~l~fL~if~s~ 326 (367)
T TIGR03404 256 AMRELHWHPNADEWQYFIQGQARMTVFAAGGNARTFDYQAGDVGYVPRNMGHYVENTGDETLVFLEVFKAD 326 (367)
T ss_pred CccCCeeCcCCCeEEEEEEEEEEEEEEecCCcEEEEEECCCCEEEECCCCeEEEEECCCCCEEEEEEECCC
Confidence 457899998 7899999999999999765555557899999999999999999999888899999999884
No 13
>PRK13290 ectC L-ectoine synthase; Reviewed
Probab=98.81 E-value=2.4e-08 Score=77.26 Aligned_cols=61 Identities=23% Similarity=0.315 Sum_probs=53.0
Q ss_pred cccccccCcceEEEEeeceEEEE-Ee-cCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcC
Q 029842 85 FYTEHIHADEEIRYCLEGSGYFD-VR-DESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVG 152 (187)
Q Consensus 85 ~~~eH~H~~~Ei~yileG~g~f~-i~-~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~ 152 (187)
....|+|...|+.|||+|++.+. +. ++ .+.+++||.+.+|+|.+|++.+. ..+.+|-+++.
T Consensus 47 ~~~~h~h~~~E~~yVL~G~~~~~~i~~g~-----~~~L~aGD~i~~~~~~~H~~~N~--e~~~~l~v~tP 109 (125)
T PRK13290 47 ETHLHYKNHLEAVYCIEGEGEVEDLATGE-----VHPIRPGTMYALDKHDRHYLRAG--EDMRLVCVFNP 109 (125)
T ss_pred cccceeCCCEEEEEEEeCEEEEEEcCCCE-----EEEeCCCeEEEECCCCcEEEEcC--CCEEEEEEECC
Confidence 34668887679999999999999 74 78 89999999999999999999997 57788887774
No 14
>PRK09943 DNA-binding transcriptional repressor PuuR; Provisional
Probab=98.76 E-value=3.8e-08 Score=79.80 Aligned_cols=62 Identities=21% Similarity=0.309 Sum_probs=55.8
Q ss_pred ccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcC
Q 029842 86 YTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVG 152 (187)
Q Consensus 86 ~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~ 152 (187)
...|.|..+|+.||++|+..+.++++ .+.+++||.+.+|++++|.+.+.++..++++-++..
T Consensus 121 ~~~~~h~~~E~~~Vl~G~~~~~~~~~-----~~~l~~Gd~~~~~~~~~H~~~n~~~~~~~~l~~~~p 182 (185)
T PRK09943 121 GERIKHQGEEIGTVLEGEIVLTINGQ-----DYHLVAGQSYAINTGIPHSFSNTSAGICRIISAHTP 182 (185)
T ss_pred ccccccCCcEEEEEEEeEEEEEECCE-----EEEecCCCEEEEcCCCCeeeeCCCCCCeEEEEEeCC
Confidence 34677889999999999999999988 999999999999999999999988888888887654
No 15
>COG2140 Thermophilic glucose-6-phosphate isomerase and related metalloenzymes [Carbohydrate transport and metabolism / General function prediction only]
Probab=98.68 E-value=1.4e-07 Score=78.78 Aligned_cols=72 Identities=24% Similarity=0.371 Sum_probs=64.3
Q ss_pred CcccccccC-cc--eEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCCc
Q 029842 84 NFYTEHIHA-DE--EIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEPV 155 (187)
Q Consensus 84 ~~~~eH~H~-~~--Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~g 155 (187)
.-...|+|+ .+ |++|+++|+|.+.+...+++.+.+.+++||.|.||+|--|+..++++.++.++-+|.+..+
T Consensus 91 ~~~~~H~Hp~ade~E~y~vi~G~g~m~v~~~~G~~~v~~~~~Gd~iyVPp~~gH~t~N~Gd~pLvf~~v~~~~~~ 165 (209)
T COG2140 91 AMRELHYHPNADEPEIYYVLKGEGRMLVQKPEGEARVIAVRAGDVIYVPPGYGHYTINTGDEPLVFLNVYPADAG 165 (209)
T ss_pred cccccccCCCCCcccEEEEEeccEEEEEEcCCCcEEEEEecCCcEEEeCCCcceEeecCCCCCEEEEEEEeCCCC
Confidence 335569996 44 5999999999999999889999999999999999999999999999999999999988754
No 16
>PF06560 GPI: Glucose-6-phosphate isomerase (GPI); InterPro: IPR010551 This entry consists of several bacterial and archaeal glucose-6-phosphate isomerase (GPI) proteins (5.3.1.9 from EC), which are involved in glycolysis and in gluconeogenesis and catalyse the conversion of D-glucose 6-phosphate to D-fructose 6-phosphate. The deduced amino acid sequence of the first archaeal PGI isolated from Pyrococcus furiosus revealed that it is not related to its eukaryotic and many of its bacterial counterparts. In contrast, this archaeal PGI shares similarity with the cupin superfamily that consists of a variety of proteins that are generally involved in sugar metabolism in both prokaryotes and eukaryotes [].; GO: 0004347 glucose-6-phosphate isomerase activity, 0006094 gluconeogenesis, 0006096 glycolysis, 0005737 cytoplasm; PDB: 1J3Q_B 1J3R_B 1J3P_A 2GC0_A 1X8E_A 1X82_A 1QY4_B 2GC2_B 1QXJ_A 1QXR_B ....
Probab=98.61 E-value=3e-07 Score=75.51 Aligned_cols=93 Identities=22% Similarity=0.291 Sum_probs=58.9
Q ss_pred HHHHcCCCeeeeeeeCcccccC-HHHHhcCcccccccC-------cceEEEEeeceEEEEEecCCC----cEEEEEEeCC
Q 029842 56 IREARGYSYMDLLDLCPEKVTN-YEEKLKNFYTEHIHA-------DEEIRYCLEGSGYFDVRDESD----QWIRIWIKAG 123 (187)
Q Consensus 56 l~~~~Gy~~~dvv~v~~~~~p~-~~~~~~~~~~eH~H~-------~~Ei~yileG~g~f~i~~~~d----~~~~~~v~~G 123 (187)
+.++++. ..++..+.|..++. |-.. .-|.|. ..|++++++|+|.|.+.+.++ +++.+.+++|
T Consensus 44 ~~~~~~L-~ygiTvi~Pg~vG~E~~~T-----~GH~H~~~~~~~~~pEvY~vl~G~g~~lLq~~~~~~~~~~~~v~~~~G 117 (182)
T PF06560_consen 44 WLQKRNL-RYGITVIPPGKVGGEYFMT-----KGHYHPISPCGLSYPEVYEVLSGEGLILLQKEEGDDVGDVIAVEAKPG 117 (182)
T ss_dssp ------E-EEEEEEE---EETTEE-B--------BB-SS----TT--EEEEEEESSEEEEEE-TTS-----EEEEEE-TT
T ss_pred cceeeeE-EeeeEEEcCcccCCccccC-----CCccCCccccCCCCCcEEEEEeCEEEEEEEecCCCcceeEEEEEeCCC
Confidence 3345554 56899999988765 2222 235554 589999999999999998877 7899999999
Q ss_pred CEEEeCCCCeeeeeeCCCCcEEEEEEEcCCC
Q 029842 124 DLIVLPAGIYHRFTLDTSNYVKLMRLFVGEP 154 (187)
Q Consensus 124 DlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~ 154 (187)
|+++||||..|+.-+.++.++++.-++...-
T Consensus 118 ~~v~IPp~yaH~tIN~g~~~L~~~~~~~~~~ 148 (182)
T PF06560_consen 118 DVVYIPPGYAHRTINTGDEPLVFAAWVPRDA 148 (182)
T ss_dssp EEEEE-TT-EEEEEE-SSS-EEEEEEEETT-
T ss_pred CEEEECCCceEEEEECCCCcEEEEEEEecCC
Confidence 9999999999999988888998887766543
No 17
>TIGR03404 bicupin_oxalic bicupin, oxalate decarboxylase family. Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.
Probab=98.60 E-value=3e-07 Score=82.75 Aligned_cols=67 Identities=27% Similarity=0.290 Sum_probs=57.0
Q ss_pred cccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcC
Q 029842 85 FYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVG 152 (187)
Q Consensus 85 ~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~ 152 (187)
....|+|...|+.||++|++.+.+.+.+++.+...+++||++++|+|..|.+.+..+ ...++-+|..
T Consensus 79 ~~~~HwH~~~E~~yVl~G~~~v~~~d~~g~~~~~~L~~GD~~~fP~g~~H~~~n~~~-~~~~l~vf~~ 145 (367)
T TIGR03404 79 IRELHWHKEAEWAYVLYGSCRITAVDENGRNYIDDVGAGDLWYFPPGIPHSLQGLDE-GCEFLLVFDD 145 (367)
T ss_pred CCCcccCCCceEEEEEeeEEEEEEEcCCCcEEEeEECCCCEEEECCCCeEEEEECCC-CeEEEEEeCC
Confidence 357999998999999999999999877777777789999999999999999998743 4566666655
No 18
>TIGR03037 anthran_nbaC 3-hydroxyanthranilate 3,4-dioxygenase. Members of this protein family, from both bacteria and eukaryotes, are the enzyme 3-hydroxyanthranilate 3,4-dioxygenase. This enzyme acts on the tryptophan metabolite 3-hydroxyanthranilate and produces 2-amino-3-carboxymuconate semialdehyde, which can rearrange spontaneously to quinolinic acid and feed into nicotinamide biosynthesis, or undergo further enzymatic degradation.
Probab=98.60 E-value=1.9e-07 Score=75.19 Aligned_cols=62 Identities=24% Similarity=0.315 Sum_probs=50.6
Q ss_pred CcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEE
Q 029842 84 NFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKL 146 (187)
Q Consensus 84 ~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ 146 (187)
.....|.|+.+|++|+++|+..+.+.+. ++.-.+.+++||+++||+|++|+....++..+..
T Consensus 39 ~R~d~H~~~tdE~FyqleG~~~l~v~d~-g~~~~v~L~eGd~flvP~gvpHsP~r~~~t~~Lv 100 (159)
T TIGR03037 39 ARTDFHDDPGEEFFYQLKGEMYLKVTEE-GKREDVPIREGDIFLLPPHVPHSPQRPAGSIGLV 100 (159)
T ss_pred CCcccccCCCceEEEEEcceEEEEEEcC-CcEEEEEECCCCEEEeCCCCCcccccCCCcEEEE
Confidence 3456899999999999999999998854 3444799999999999999999998766544433
No 19
>COG3837 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=98.59 E-value=2.4e-07 Score=74.20 Aligned_cols=82 Identities=22% Similarity=0.299 Sum_probs=68.1
Q ss_pred eeeeeeCcccccCHHHHhcCcccccccC-cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCC--CeeeeeeCCC
Q 029842 65 MDLLDLCPEKVTNYEEKLKNFYTEHIHA-DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAG--IYHRFTLDTS 141 (187)
Q Consensus 65 ~dvv~v~~~~~p~~~~~~~~~~~eH~H~-~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g--~~H~f~~~~~ 141 (187)
..+..|.|.. .-...|+|+ +||++|||+|++.+.+++. ++.|+|||.+-.|+| +.|.|.+.+.
T Consensus 44 vn~~~v~PG~---------~Ss~~H~Hs~edEfv~ILeGE~~l~~d~~-----e~~lrpGD~~gFpAG~~~aHhliN~s~ 109 (161)
T COG3837 44 VNLEIVEPGG---------ESSLRHWHSAEDEFVYILEGEGTLREDGG-----ETRLRPGDSAGFPAGVGNAHHLINRSD 109 (161)
T ss_pred cceEEeCCCC---------ccccccccccCceEEEEEcCceEEEECCe-----eEEecCCceeeccCCCcceeEEeecCC
Confidence 3455666653 224689997 8999999999999999998 999999999999999 9999999999
Q ss_pred CcEEEEEEEcCCCceEEeC
Q 029842 142 NYVKLMRLFVGEPVWTAYN 160 (187)
Q Consensus 142 ~~~~~ir~f~~~~gw~~~~ 160 (187)
...+.+.+-+.++-=+..+
T Consensus 110 ~~~~yL~vG~r~~~d~i~Y 128 (161)
T COG3837 110 VILRYLEVGTREPDDIITY 128 (161)
T ss_pred ceEEEEEeccccccceeec
Confidence 8999998888777544443
No 20
>PRK13500 transcriptional activator RhaR; Provisional
Probab=98.58 E-value=1.2e-07 Score=82.67 Aligned_cols=57 Identities=23% Similarity=0.307 Sum_probs=50.7
Q ss_pred cccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEE
Q 029842 85 FYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKL 146 (187)
Q Consensus 85 ~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ 146 (187)
.+.+|+|+..|+.||++|+|.+.+++. .+.+++||+++||+|..|.+...++.....
T Consensus 60 ~~~~H~H~~~el~~v~~G~g~~~v~~~-----~~~l~~Gdl~~I~~~~~H~~~~~~~~~~~~ 116 (312)
T PRK13500 60 VFAEHTHDFCELVIVWRGNGLHVLNDR-----PYRITRGDLFYIHADDKHSYASVNDLVLQN 116 (312)
T ss_pred CCCccccceEEEEEEEcCeEEEEECCE-----EEeecCCeEEEECCCCeecccccCCceEEE
Confidence 467999999999999999999999999 999999999999999999998766544433
No 21
>PRK13501 transcriptional activator RhaR; Provisional
Probab=98.58 E-value=1e-07 Score=81.56 Aligned_cols=51 Identities=25% Similarity=0.362 Sum_probs=47.5
Q ss_pred ccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 86 YTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 86 ~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
...|+|+..|+.||++|+|.+.|++. .+.+++||+++||+|..|.+...++
T Consensus 31 ~~~H~H~~~ei~~i~~G~~~~~i~~~-----~~~l~~g~~~~I~p~~~H~~~~~~~ 81 (290)
T PRK13501 31 FVEHTHQFCEIVIVWRGNGLHVLNDH-----PYRITCGDVFYIQAADHHSYESVHD 81 (290)
T ss_pred CccccccceeEEEEecCceEEEECCe-----eeeecCCeEEEEcCCCcccccccCC
Confidence 56899999999999999999999999 9999999999999999999886544
No 22
>PRK13264 3-hydroxyanthranilate 3,4-dioxygenase; Provisional
Probab=98.54 E-value=2.6e-07 Score=75.44 Aligned_cols=58 Identities=24% Similarity=0.396 Sum_probs=48.5
Q ss_pred CcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCC
Q 029842 84 NFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSN 142 (187)
Q Consensus 84 ~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~ 142 (187)
.....|.|+.+|++|+++|+....+.+ +++.-.+.+++||+++||+|++|+....++.
T Consensus 45 ~r~d~H~~~tdE~FyqleG~~~l~v~d-~g~~~~v~L~eGd~fllP~gvpHsP~r~~~t 102 (177)
T PRK13264 45 ARTDFHYDPGEEFFYQLEGDMYLKVQE-DGKRRDVPIREGEMFLLPPHVPHSPQREAGS 102 (177)
T ss_pred cccccccCCCceEEEEECCeEEEEEEc-CCceeeEEECCCCEEEeCCCCCcCCccCCCe
Confidence 346789999999999999999999975 2333379999999999999999999775443
No 23
>PRK11171 hypothetical protein; Provisional
Probab=98.53 E-value=3.9e-07 Score=78.49 Aligned_cols=56 Identities=21% Similarity=0.306 Sum_probs=50.1
Q ss_pred cccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEE
Q 029842 89 HIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 89 H~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~ 149 (187)
|.|..+|.+||++|++.+.++++ ++.|++||.|.+|++.+|+|.+..+.+++.+.+
T Consensus 201 ~~~~~ee~i~Vl~G~~~~~~~~~-----~~~l~~GD~i~~~~~~~h~~~N~g~~~~~yl~~ 256 (266)
T PRK11171 201 ETHVMEHGLYVLEGKGVYRLNND-----WVEVEAGDFIWMRAYCPQACYAGGPGPFRYLLY 256 (266)
T ss_pred cCCCceEEEEEEeCEEEEEECCE-----EEEeCCCCEEEECCCCCEEEECCCCCcEEEEEE
Confidence 56889999999999999999998 999999999999999999999887777666543
No 24
>PRK10296 DNA-binding transcriptional regulator ChbR; Provisional
Probab=98.52 E-value=3.4e-07 Score=77.73 Aligned_cols=51 Identities=24% Similarity=0.438 Sum_probs=46.4
Q ss_pred CcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeC
Q 029842 84 NFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLD 139 (187)
Q Consensus 84 ~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~ 139 (187)
.....|+|+..|+.||++|++.+.+++. .+.+.+||+++||||..|.+...
T Consensus 34 ~~~~~H~H~~~ei~~v~~G~~~~~i~~~-----~~~l~~g~l~~i~p~~~H~~~~~ 84 (278)
T PRK10296 34 SVSGLHQHDYYEFTLVLTGRYYQEINGK-----RVLLERGDFVFIPLGSHHQSFYE 84 (278)
T ss_pred cCCCCcccccEEEEEEEeceEEEEECCE-----EEEECCCcEEEeCCCCccceeee
Confidence 3457999999999999999999999998 99999999999999999977543
No 25
>PRK10371 DNA-binding transcriptional regulator MelR; Provisional
Probab=98.51 E-value=2.1e-07 Score=80.97 Aligned_cols=56 Identities=20% Similarity=0.243 Sum_probs=49.4
Q ss_pred ccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEE
Q 029842 86 YTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKL 146 (187)
Q Consensus 86 ~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ 146 (187)
...|+|++.|+.|+++|++.|.++++ .+.+.+||+++||+|++|.+...++....+
T Consensus 39 ~~~HwH~e~Ei~yv~~G~~~~~i~g~-----~~~l~~Gd~ili~s~~~H~~~~~~~~~~~~ 94 (302)
T PRK10371 39 PTSHWHGQVEVNVPFDGDVEYLINNE-----KVQINQGHITLFWACTPHQLTDPGNCRSMA 94 (302)
T ss_pred CCCCccccEEEEEecCCcEEEEECCE-----EEEEcCCcEEEEecCCcccccccCCCceEE
Confidence 57899999999999999999999999 999999999999999999987655444333
No 26
>PRK13503 transcriptional activator RhaS; Provisional
Probab=98.45 E-value=2.2e-07 Score=78.40 Aligned_cols=53 Identities=17% Similarity=0.218 Sum_probs=48.3
Q ss_pred CcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 84 NFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 84 ~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
.....|+|+..|+.||++|+|.+.+++. .+.+++||+++||+|+.|.+...++
T Consensus 26 ~~~~~H~H~~~ei~~v~~G~~~~~i~~~-----~~~l~~g~~~~i~~~~~h~~~~~~~ 78 (278)
T PRK13503 26 AAFPEHHHDFHEIVIVEHGTGIHVFNGQ-----PYTLSGGTVCFVRDHDRHLYEHTDN 78 (278)
T ss_pred ccccccccCceeEEEEecCceeeEecCC-----cccccCCcEEEECCCccchhhhccC
Confidence 3467899999999999999999999999 8999999999999999999876654
No 27
>PRK13502 transcriptional activator RhaR; Provisional
Probab=98.45 E-value=4.2e-07 Score=77.17 Aligned_cols=52 Identities=25% Similarity=0.340 Sum_probs=47.8
Q ss_pred ccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCC
Q 029842 86 YTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSN 142 (187)
Q Consensus 86 ~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~ 142 (187)
...|+|+..|+.|+++|+|.+.+++. .+.+++||+++||+|..|.+...++.
T Consensus 31 ~~~H~h~~~~l~~v~~G~~~~~i~~~-----~~~l~~g~l~li~~~~~H~~~~~~~~ 82 (282)
T PRK13502 31 FAEHTHEFCELVMVWRGNGLHVLNER-----PYRITRGDLFYIRAEDKHSYTSVNDL 82 (282)
T ss_pred CCccccceEEEEEEecCcEEEEECCE-----EEeecCCcEEEECCCCcccccccCCc
Confidence 57899999999999999999999998 99999999999999999999865543
No 28
>PRK15457 ethanolamine utilization protein EutQ; Provisional
Probab=98.42 E-value=7.7e-07 Score=75.42 Aligned_cols=51 Identities=27% Similarity=0.321 Sum_probs=42.8
Q ss_pred cccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcE
Q 029842 89 HIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYV 144 (187)
Q Consensus 89 H~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~ 144 (187)
.+++++|+.||++|+..|.++++ .+.+++||+++||+|..|.|......++
T Consensus 171 wtl~~dEi~YVLEGe~~l~IdG~-----t~~l~pGDvlfIPkGs~~hf~tp~~aRf 221 (233)
T PRK15457 171 WTLNYDEIDMVLEGELHVRHEGE-----TMIAKAGDVMFIPKGSSIEFGTPSSVRF 221 (233)
T ss_pred eeccceEEEEEEEeEEEEEECCE-----EEEeCCCcEEEECCCCeEEecCCCCeeE
Confidence 44579999999999999999998 9999999999999999976644333333
No 29
>TIGR02297 HpaA 4-hydroxyphenylacetate catabolism regulatory protein HpaA. This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.
Probab=98.41 E-value=6.6e-07 Score=75.94 Aligned_cols=60 Identities=18% Similarity=0.232 Sum_probs=52.1
Q ss_pred cccccccC-cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEE
Q 029842 85 FYTEHIHA-DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 85 ~~~eH~H~-~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~ 149 (187)
....|+|+ +.|+.|+++|++.+.+++. .+.+++||+++||+|+.|.+...++....++.+
T Consensus 35 ~~~~H~H~~~~~l~~~~~G~~~~~~~~~-----~~~l~~g~~~ii~~~~~H~~~~~~~~~~~~i~i 95 (287)
T TIGR02297 35 NMPVHFHDRYYQLHYLTEGSIALQLDEH-----EYSEYAPCFFLTPPSVPHGFVTDLDADGHVLTV 95 (287)
T ss_pred CCCCcccccceeEEEEeeCceEEEECCE-----EEEecCCeEEEeCCCCccccccCCCcceEEEEe
Confidence 35789998 7999999999999999988 899999999999999999998766555555553
No 30
>COG4297 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]
Probab=98.41 E-value=2.2e-06 Score=67.58 Aligned_cols=117 Identities=17% Similarity=0.231 Sum_probs=87.6
Q ss_pred hHHHHHHHHHcCCCeeeeeeeCcccccCHHHHhcCcccccccC-cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEe
Q 029842 50 DEELQKIREARGYSYMDLLDLCPEKVTNYEEKLKNFYTEHIHA-DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVL 128 (187)
Q Consensus 50 ~~~l~~l~~~~Gy~~~dvv~v~~~~~p~~~~~~~~~~~eH~H~-~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiI 128 (187)
...++++.+.+|+.+. ++. +-|--.|.|+ ..|+.-+++|++...|++.++. .+.+..||.|+|
T Consensus 34 a~~~e~~~~~~gW~gs----W~g----------~Vf~yHHYHs~aHEVl~vlrgqA~l~iGG~~G~--el~v~~GDvlli 97 (163)
T COG4297 34 AAQVEDHFKANGWFGS----WRG----------GVFNYHHYHSGAHEVLGVLRGQAGLQIGGADGQ--ELEVGEGDVLLI 97 (163)
T ss_pred HHHHHHHHhhcCCccc----ccc----------cccccccccCCcceEEEEecceeEEEecCCCCc--eeeecCCCEEEE
Confidence 4568889999998742 221 1344568887 6899999999999999987766 788999999999
Q ss_pred CCCCeeeeeeCCCCcEEEEEEEcCCCceEEeCCCC-CCcHHHHHHHHhhcCCCCCCc
Q 029842 129 PAGIYHRFTLDTSNYVKLMRLFVGEPVWTAYNRPQ-EDHPARKEYIKGLTGQAGVPV 184 (187)
Q Consensus 129 P~g~~H~f~~~~~~~~~~ir~f~~~~gw~~~~r~~-d~~~~r~~y~~~~~~~~~~~~ 184 (187)
|+|+-|+-- .++..|..+--|.....|.- .+++ -+.+.-.+.++++-+...=||
T Consensus 98 PAGvGH~rl-~sS~DF~VvGaYp~G~q~di-qtg~~t~~aear~~I~~vplp~~dPi 152 (163)
T COG4297 98 PAGVGHCRL-HSSADFQVVGAYPPGQQADI-QTGAPTDLAEARARIKSVPLPVQDPI 152 (163)
T ss_pred ecCcccccc-cCCCCeEEEcccCCcccccc-cCCCCccHHHHHHHHHcCCCcccCCc
Confidence 999999754 33457999988888777764 5554 234556677888876665554
No 31
>TIGR01479 GMP_PMI mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase. This enzyme is known to be bifunctional, as both mannose-6-phosphate isomerase (EC 5.3.1.8) (PMI) and mannose-1-phosphate guanylyltransferase (EC 2.7.7.22) in Pseudomonas aeruginosa, Xanthomonas campestris, and Gluconacetobacter xylinus. The literature on the enzyme from E. coli attributes mannose-6-phosphate isomerase activity to an adjacent gene, but the present sequence has not been shown to lack the activity. The PMI domain is C-terminal.
Probab=98.41 E-value=1.1e-06 Score=81.15 Aligned_cols=64 Identities=17% Similarity=0.322 Sum_probs=55.6
Q ss_pred cccccccC-cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCC
Q 029842 85 FYTEHIHA-DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGE 153 (187)
Q Consensus 85 ~~~eH~H~-~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~ 153 (187)
....|.|. ..|.+||++|++.+.++++ .+.+++||.+.||+|++|++.+.++.++++|-+++++
T Consensus 388 ~~~~h~H~~~~E~~~Vl~G~~~v~~dg~-----~~~l~~GDsi~ip~~~~H~~~N~g~~~~~~i~v~~~~ 452 (468)
T TIGR01479 388 KLSLQMHHHRAEHWIVVSGTARVTIGDE-----TLLLTENESTYIPLGVIHRLENPGKIPLELIEVQSGS 452 (468)
T ss_pred ccCccccCCCceEEEEEeeEEEEEECCE-----EEEecCCCEEEECCCCcEEEEcCCCCCEEEEEEEcCC
Confidence 34556664 5688899999999999998 9999999999999999999999888899998887643
No 32
>PRK15460 cpsB mannose-1-phosphate guanyltransferase; Provisional
Probab=98.32 E-value=2.9e-06 Score=78.85 Aligned_cols=62 Identities=15% Similarity=0.232 Sum_probs=53.8
Q ss_pred cccccc-CcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcC
Q 029842 86 YTEHIH-ADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVG 152 (187)
Q Consensus 86 ~~eH~H-~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~ 152 (187)
...|.| ..+|+.||++|++.+.++++ .+.+.+||.+.||+|++|++.+..+.++..|-+.++
T Consensus 398 ~~~~~H~~~~E~~~VlsG~~~v~idg~-----~~~L~~GDSi~ip~g~~H~~~N~g~~~l~iI~V~~g 460 (478)
T PRK15460 398 LSVQMHHHRAEHWVVVAGTAKVTIDGD-----IKLLGENESIYIPLGATHCLENPGKIPLDLIEVRSG 460 (478)
T ss_pred CCcCCCCCCceEEEEEeeEEEEEECCE-----EEEecCCCEEEECCCCcEEEEcCCCCCEEEEEEEcC
Confidence 344555 34699999999999999999 999999999999999999999988888888877654
No 33
>PLN00212 glutelin; Provisional
Probab=98.22 E-value=5.6e-06 Score=77.16 Aligned_cols=70 Identities=19% Similarity=0.303 Sum_probs=56.7
Q ss_pred cCcccccccCcceEEEEeeceEEEEEecCC-------------------------CcEEEEEEeCCCEEEeCCCCeeeee
Q 029842 83 KNFYTEHIHADEEIRYCLEGSGYFDVRDES-------------------------DQWIRIWIKAGDLIVLPAGIYHRFT 137 (187)
Q Consensus 83 ~~~~~eH~H~~~Ei~yileG~g~f~i~~~~-------------------------d~~~~~~v~~GDlIiIP~g~~H~f~ 137 (187)
..++..|.|+..++.||+.|+|.+.+-..+ ...-...+++||+|.||+|+.||..
T Consensus 90 ~gL~lP~y~na~~liyV~qG~G~~G~v~pGcpeT~~~~~~~~~~~~~~~~~~~~d~hqkv~~lr~GDViaiPaG~~hw~y 169 (493)
T PLN00212 90 QGLLLPRYSNTPGLVYIIQGRGSMGLTFPGCPATYQQQFQQFLTEGQSQSQKFRDEHQKIHQFRQGDVVALPAGVAHWFY 169 (493)
T ss_pred CcccCccccCCCeEEEEEeCeEEEEEEeCCCcchhhhhcccccccccccccccccccccceEeccCCEEEECCCCeEEEE
Confidence 357889999999999999999999986310 0011258999999999999999999
Q ss_pred eCCCCcEEEEEEEcC
Q 029842 138 LDTSNYVKLMRLFVG 152 (187)
Q Consensus 138 ~~~~~~~~~ir~f~~ 152 (187)
++++.++.+|.++.-
T Consensus 170 N~Gd~~~v~v~~~d~ 184 (493)
T PLN00212 170 NDGDAPVVALYVYDI 184 (493)
T ss_pred eCCCCcEEEEEEEec
Confidence 999988888877654
No 34
>PRK11171 hypothetical protein; Provisional
Probab=98.20 E-value=7.1e-06 Score=70.68 Aligned_cols=53 Identities=13% Similarity=0.221 Sum_probs=46.7
Q ss_pred CcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEE
Q 029842 92 ADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 92 ~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~ 149 (187)
..+|+.||++|++.+.++++ .+.+++||.+.+|+++.|.|.+..+....++-+
T Consensus 82 ~~eE~~~VlsG~l~v~~~g~-----~~~L~~GDsi~~p~~~~H~~~N~g~~~a~~l~v 134 (266)
T PRK11171 82 GAETFLFVVEGEITLTLEGK-----THALSEGGYAYLPPGSDWTLRNAGAEDARFHWI 134 (266)
T ss_pred CceEEEEEEeCEEEEEECCE-----EEEECCCCEEEECCCCCEEEEECCCCCEEEEEE
Confidence 46899999999999999988 999999999999999999999866666665544
No 35
>COG4101 Predicted mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=98.19 E-value=1.1e-05 Score=62.23 Aligned_cols=78 Identities=18% Similarity=0.208 Sum_probs=61.1
Q ss_pred eeeeeeeCcccccCHHHHhcCcccccccC-cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCC
Q 029842 64 YMDLLDLCPEKVTNYEEKLKNFYTEHIHA-DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSN 142 (187)
Q Consensus 64 ~~dvv~v~~~~~p~~~~~~~~~~~eH~H~-~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~ 142 (187)
.+-+|++.|+. -...|.|. .+-.+|+|+|+.....++. -.....+.+||++.||||++|.-.+.++.
T Consensus 47 ~~~~vTi~pgA----------kakaH~H~~hEtaIYvlsG~ah~w~G~r--LE~ha~~~pGDf~YiPpgVPHqp~N~S~e 114 (142)
T COG4101 47 CMHLVTIPPGA----------KAKAHLHEEHETAIYVLSGEAHTWYGNR--LEEHAEVGPGDFFYIPPGVPHQPANLSTE 114 (142)
T ss_pred eEEEEeeCCCc----------cccccccccccEEEEEEeceeeeeeccc--eeeeEEecCCCeEEcCCCCCCcccccCCC
Confidence 57788888753 24579996 5778999999999988754 23378899999999999999998877777
Q ss_pred cEEEEEEEcCC
Q 029842 143 YVKLMRLFVGE 153 (187)
Q Consensus 143 ~~~~ir~f~~~ 153 (187)
+..|+-.=++.
T Consensus 115 p~s~vIaRsDp 125 (142)
T COG4101 115 PLSAVIARSDP 125 (142)
T ss_pred CeEEEEEccCC
Confidence 77777655543
No 36
>TIGR03214 ura-cupin putative allantoin catabolism protein. This model represents a protein containing a tandem arrangement of cupin domains (N-terminal part of pfam07883 and C-terminal more distantly related to pfam00190). This protein is found in the vicinity of genes involved in the catabolism of allantoin, a breakdown product of urate and sometimes of urate iteslf. The distribution of pathway components in the genomes in which this family is observed suggests that the function is linked to the allantoate catabolism to glyoxylate pathway (GenProp0686) since it is sometimes found in genomes lacking any elements of the xanthine-to-allantoin pathways (e.g. in Enterococcus faecalis).
Probab=98.17 E-value=1.2e-05 Score=69.18 Aligned_cols=63 Identities=11% Similarity=0.156 Sum_probs=51.7
Q ss_pred ccccCc-ceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEE---EEEcCCCc
Q 029842 88 EHIHAD-EEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLM---RLFVGEPV 155 (187)
Q Consensus 88 eH~H~~-~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~i---r~f~~~~g 155 (187)
.+.|.. +|+.||++|+..+.++++ .+.+++||.+.+|+|..|+|.+.++...+++ +-|...+|
T Consensus 74 ~~~~~g~ee~iyVl~G~l~v~~~g~-----~~~L~~Gd~~y~pa~~~H~~~N~~~~~a~~l~v~k~y~~~~g 140 (260)
T TIGR03214 74 GFGGEGIETFLFVISGEVNVTAEGE-----THELREGGYAYLPPGSKWTLANAQAEDARFFLYKKRYQPVEG 140 (260)
T ss_pred CCCCCceEEEEEEEeCEEEEEECCE-----EEEECCCCEEEECCCCCEEEEECCCCCEEEEEEEeeeEEcCC
Confidence 455665 899999999999999988 8999999999999999999998776665554 33555555
No 37
>PF01050 MannoseP_isomer: Mannose-6-phosphate isomerase; InterPro: IPR001538 Mannose-6-phosphate isomerase or phosphomannose isomerase (5.3.1.8 from EC) (PMI) is the enzyme that catalyses the interconversion of mannose-6-phosphate and fructose-6-phosphate. In eukaryotes PMI is involved in the synthesis of GDP-mannose, a constituent of N- and O-linked glycans and GPI anchors and in prokaryotes it participates in a variety of pathways, including capsular polysaccharide biosynthesis and D-mannose metabolism. PMI's belong to the cupin superfamily whose functions range from isomerase and epimerase activities involved in the modification of cell wall carbohydrates in bacteria and plants, to non-enzymatic storage proteins in plant seeds, and transcription factors linked to congenital baldness in mammals []. Three classes of PMI have been defined []. The type II phosphomannose isomerases are bifunctional enzymes 5.3.1.8 from EC. This entry covers the isomerase region of the protein []. The guanosine diphospho-D-mannose pyrophosphorylase region is described in another InterPro entry (see IPR005836 from INTERPRO).; GO: 0016779 nucleotidyltransferase activity, 0005976 polysaccharide metabolic process
Probab=98.15 E-value=1.5e-05 Score=63.67 Aligned_cols=78 Identities=21% Similarity=0.374 Sum_probs=63.7
Q ss_pred HcCCCeeeeeeeCcccccCHHHHhcCcccccccC-cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeee
Q 029842 59 ARGYSYMDLLDLCPEKVTNYEEKLKNFYTEHIHA-DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFT 137 (187)
Q Consensus 59 ~~Gy~~~dvv~v~~~~~p~~~~~~~~~~~eH~H~-~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~ 137 (187)
..+|.. ..++|.|+ +.+..|.|. -.|.++|++|+|.+.+++. ...+.+||.+.||+|..|+..
T Consensus 60 ~~~~~v-kri~V~pG----------~~lSlq~H~~R~E~W~Vv~G~a~v~~~~~-----~~~~~~g~sv~Ip~g~~H~i~ 123 (151)
T PF01050_consen 60 GEGYKV-KRITVNPG----------KRLSLQYHHHRSEHWTVVSGTAEVTLDDE-----EFTLKEGDSVYIPRGAKHRIE 123 (151)
T ss_pred cCCEEE-EEEEEcCC----------CccceeeecccccEEEEEeCeEEEEECCE-----EEEEcCCCEEEECCCCEEEEE
Confidence 345543 45666654 457788886 6899999999999999988 999999999999999999999
Q ss_pred eCCCCcEEEEEEEcC
Q 029842 138 LDTSNYVKLMRLFVG 152 (187)
Q Consensus 138 ~~~~~~~~~ir~f~~ 152 (187)
+.++.++..|-+-.+
T Consensus 124 n~g~~~L~~IEVq~G 138 (151)
T PF01050_consen 124 NPGKTPLEIIEVQTG 138 (151)
T ss_pred CCCCcCcEEEEEecC
Confidence 987778888877554
No 38
>PF02041 Auxin_BP: Auxin binding protein; InterPro: IPR000526 Auxin binding protein is located in the lumen of the endoplasmic reticulum (ER). The primary structure contains an N-terminal hydrophobic leader sequence of 30-40 amino acids, which could represent a signal for translocation of the protein to the ER [, ]. The mature protein comprises around 165 residues, and contains a number of potential N-glycosylation sites. In vitro transport studies have demonstrated co-translational glycosylation []. Retention within the lumen of the ER correlates with an additional signal located at the C terminus, represented by the sequence Lys-Asp-Glu-Leu, known to be responsible for preventing secretion of proteins from the lumen of the ER in eukaryotic cells [, ].; GO: 0004872 receptor activity, 0005788 endoplasmic reticulum lumen; PDB: 1LR5_D 1LRH_D.
Probab=98.14 E-value=1.8e-05 Score=63.16 Aligned_cols=79 Identities=16% Similarity=0.138 Sum_probs=51.3
Q ss_pred CcccccccCcceEEEEeeceEEEEEecC----CCcEEEEEEeCCCEEEeCCCCeeeeeeCC-CCcEEEEEEEcCCCceEE
Q 029842 84 NFYTEHIHADEEIRYCLEGSGYFDVRDE----SDQWIRIWIKAGDLIVLPAGIYHRFTLDT-SNYVKLMRLFVGEPVWTA 158 (187)
Q Consensus 84 ~~~~eH~H~~~Ei~yileG~g~f~i~~~----~d~~~~~~v~~GDlIiIP~g~~H~f~~~~-~~~~~~ir~f~~~~gw~~ 158 (187)
.-..-|.|+.+||++||+|+|+..+... +++--++.+.+|+.+.||+|-.|..-+++ ...+.++.+.+++|.=+=
T Consensus 55 ~~TPiHRHsCEEVFvVLkG~GTl~l~~~~~~~pG~pqef~~~pnSTf~IPvn~~HQv~NT~e~eDlqvlViiSrpPvkvf 134 (167)
T PF02041_consen 55 SATPIHRHSCEEVFVVLKGSGTLYLASSHEKYPGKPQEFPIFPNSTFHIPVNDAHQVWNTNEHEDLQVLVIISRPPVKVF 134 (167)
T ss_dssp -B--EEEESS-EEEEEEE--EEEEE--SSSSS--S-EEEEE-TTEEEEE-TT--EEEE---SSS-EEEEEEEESSS--EE
T ss_pred CCCCCccccccEEEEEEecceEEEEecccccCCCCceEEEecCCCeEEeCCCCcceeecCCCCcceEEEEEecCCCeEEE
Confidence 3467899999999999999999999865 36667899999999999999999977655 689999999999986665
Q ss_pred eCCC
Q 029842 159 YNRP 162 (187)
Q Consensus 159 ~~r~ 162 (187)
++..
T Consensus 135 ~y~d 138 (167)
T PF02041_consen 135 IYDD 138 (167)
T ss_dssp EESS
T ss_pred Eecc
Confidence 5553
No 39
>PLN00212 glutelin; Provisional
Probab=97.79 E-value=0.00019 Score=67.05 Aligned_cols=71 Identities=8% Similarity=0.183 Sum_probs=61.6
Q ss_pred cCcccccccC-cceEEEEeeceEEEEEecCC-CcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCC
Q 029842 83 KNFYTEHIHA-DEEIRYCLEGSGYFDVRDES-DQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEP 154 (187)
Q Consensus 83 ~~~~~eH~H~-~~Ei~yileG~g~f~i~~~~-d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~ 154 (187)
+..+..|+|. ..||.||++|+|.+.+-+.+ ..++.-.|++||+++||.|-.|.-.++.+. |..+-|.+...
T Consensus 358 gam~~PHwn~nA~eI~yV~rG~g~vqvV~~~g~~vf~~~L~~GdvfVVPqg~~v~~~A~~eg-fe~v~F~tna~ 430 (493)
T PLN00212 358 NALLSPFWNVNAHSVVYITQGRARVQVVSNNGKTVFNGVLRPGQLLIIPQHYAVLKKAEREG-CQYIAFKTNAN 430 (493)
T ss_pred CcccCCeecCCCCEEEEEeecceEEEEEcCCCCEEEEEEEcCCCEEEECCCCeEEEeecCCc-eEEEEeecCCC
Confidence 3558999997 79999999999999998765 579999999999999999999998888654 88888887764
No 40
>TIGR02272 gentisate_1_2 gentisate 1,2-dioxygenase. This family consists of gentisate 1,2-dioxygenases. This ring-opening enzyme acts in salicylate degradation that goes via gentisate rather than via catechol. It converts gentisate to maleylpyruvate. Some putative gentisate 1,2-dioxygenases are excluded by a relatively high trusted cutoff score because they are too closely related to known examples of 1-hydroxy-2-naphthoate dioxygenase. Therefore some homologs may be bona fide gentisate 1,2-dioxygenases even if they score below the given cutoffs.
Probab=97.78 E-value=6.2e-05 Score=67.21 Aligned_cols=58 Identities=26% Similarity=0.461 Sum_probs=49.8
Q ss_pred CcccccccCcceEEEEeeceEEE-EEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEE
Q 029842 84 NFYTEHIHADEEIRYCLEGSGYF-DVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKL 146 (187)
Q Consensus 84 ~~~~eH~H~~~Ei~yileG~g~f-~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ 146 (187)
.....|.|+..-++||++|+|.| .|+++ ++.+++||++++|++..|...++++.++.-
T Consensus 92 e~~~~HRht~sAl~~vveG~G~~t~V~g~-----~~~~~~gD~~~tP~w~wH~H~n~~d~~~~w 150 (335)
T TIGR02272 92 EVAPSHRHTQSALRFIVEGKGAFTAVDGE-----RTTMHPGDFIITPSWTWHDHGNPGDEPMIW 150 (335)
T ss_pred CCCCccccccceEEEEEEcCceEEEECCE-----EEeeeCCCEEEeCCCeeEecccCCCCcEEE
Confidence 44678999999999999999964 56777 999999999999999999998877666444
No 41
>TIGR02451 anti_sig_ChrR anti-sigma factor, putative, ChrR family. The member of this family from Rhodobacter sphaeroides has been shown both to form a complex with sigma(E) and to negatively regulate tetrapyrrole biosynthesis. This protein likely contains (at least) two distinct functional domains; several smaller homologs (excluded by the model) show homology only to the C-terminal, including a motif PxHxHxGxE.
Probab=97.75 E-value=5.8e-05 Score=63.26 Aligned_cols=72 Identities=18% Similarity=0.205 Sum_probs=57.3
Q ss_pred CeeeeeeeCcccccCHHHHhcCcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCC
Q 029842 63 SYMDLLDLCPEKVTNYEEKLKNFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSN 142 (187)
Q Consensus 63 ~~~dvv~v~~~~~p~~~~~~~~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~ 142 (187)
....++.+.|+ .-+..|+|...|+.+||+|+ |. +. .-...+||+|.+|+|..|.+.+.++.
T Consensus 127 ~~v~Ll~i~pG----------~~~p~H~H~G~E~tlVLeG~--f~--de-----~g~y~~Gd~i~~p~~~~H~p~a~~~~ 187 (215)
T TIGR02451 127 ARVRLLYIEAG----------QSIPQHTHKGFELTLVLHGA--FS--DE-----TGVYGVGDFEEADGSVQHQPRTVSGG 187 (215)
T ss_pred cEEEEEEECCC----------CccCCCcCCCcEEEEEEEEE--EE--cC-----CCccCCCeEEECCCCCCcCcccCCCC
Confidence 35566777764 45889999999999999999 33 44 34578999999999999999999887
Q ss_pred cEEEEEEEcCC
Q 029842 143 YVKLMRLFVGE 153 (187)
Q Consensus 143 ~~~~ir~f~~~ 153 (187)
.+.|+-+...+
T Consensus 188 ~Cicl~v~dap 198 (215)
T TIGR02451 188 DCLCLAVLDAP 198 (215)
T ss_pred CeEEEEEecCC
Confidence 78888776554
No 42
>COG3435 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=97.71 E-value=7e-05 Score=65.90 Aligned_cols=58 Identities=28% Similarity=0.478 Sum_probs=48.7
Q ss_pred cCcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcE
Q 029842 83 KNFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYV 144 (187)
Q Consensus 83 ~~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~ 144 (187)
+.....|.|+..-+|||++|.|.|.+-+.+ +..+++||+|+.|+++.|-.......++
T Consensus 102 GEvApsHrHsqsAlRFvveG~Ga~T~VdGe----r~~M~~GDfilTP~w~wHdHgn~g~eP~ 159 (351)
T COG3435 102 GEVAPSHRHNQSALRFVVEGKGAYTVVDGE----RTPMEAGDFILTPAWTWHDHGNEGTEPC 159 (351)
T ss_pred cccCCcccccccceEEEEeccceeEeecCc----eeeccCCCEEEccCceeccCCCCCCCce
Confidence 455789999999999999999977765433 9999999999999999998877655554
No 43
>PF12973 Cupin_7: ChrR Cupin-like domain; PDB: 3O14_B 2Z2S_F 2Q1Z_B 3EBR_A.
Probab=97.62 E-value=0.00023 Score=51.44 Aligned_cols=59 Identities=32% Similarity=0.325 Sum_probs=43.0
Q ss_pred eeeeeeeCcccccCHHHHhcCcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 64 YMDLLDLCPEKVTNYEEKLKNFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 64 ~~dvv~v~~~~~p~~~~~~~~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
..-++.+.|. ..+..|.|+..|-.|||+|+... ++. ...+||++..|+|+.|.+.+.++
T Consensus 25 ~~~L~r~~pG----------~~~p~H~H~g~ee~~VLeG~~~d--~~~-------~~~~G~~~~~p~g~~h~~~s~~g 83 (91)
T PF12973_consen 25 RVSLLRLEPG----------ASLPRHRHPGGEEILVLEGELSD--GDG-------RYGAGDWLRLPPGSSHTPRSDEG 83 (91)
T ss_dssp EEEEEEE-TT----------EEEEEEEESS-EEEEEEECEEEE--TTC-------EEETTEEEEE-TTEEEEEEESSC
T ss_pred EEEEEEECCC----------CCcCccCCCCcEEEEEEEEEEEE--CCc-------cCCCCeEEEeCCCCccccCcCCC
Confidence 4456666664 45789999998889999998763 222 34899999999999999997543
No 44
>PF05899 Cupin_3: Protein of unknown function (DUF861); InterPro: IPR008579 The function of the proteins in this entry are unknown. They contain the conserved barrel domain of the 'cupin' superfamily and members are specific to plants and bacteria.; PDB: 1RC6_A 3MYX_A 1O5U_A 2K9Z_A 1LKN_A 3ES4_A 1SFN_B 3BCW_A.
Probab=97.60 E-value=0.00017 Score=50.61 Aligned_cols=44 Identities=30% Similarity=0.466 Sum_probs=35.1
Q ss_pred CcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeC
Q 029842 92 ADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLD 139 (187)
Q Consensus 92 ~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~ 139 (187)
..+|+.|||+|++.+...+.. ++.++|||++++|+|..-.....
T Consensus 24 ~~~E~~~vleG~v~it~~~G~----~~~~~aGD~~~~p~G~~~~w~v~ 67 (74)
T PF05899_consen 24 PEDEFFYVLEGEVTITDEDGE----TVTFKAGDAFFLPKGWTGTWEVR 67 (74)
T ss_dssp SSEEEEEEEEEEEEEEETTTE----EEEEETTEEEEE-TTEEEEEEEE
T ss_pred CCCEEEEEEEeEEEEEECCCC----EEEEcCCcEEEECCCCEEEEEEC
Confidence 349999999999999984322 89999999999999987665543
No 45
>PF06249 EutQ: Ethanolamine utilisation protein EutQ; InterPro: IPR010424 The eut operon of Salmonella typhimurium encodes proteins involved in the cobalamin-dependent degradation of ethanolamine. The role of EutQ in this process is unclear [].; PDB: 2PYT_B 3LWC_A.
Probab=97.48 E-value=0.0003 Score=56.33 Aligned_cols=44 Identities=30% Similarity=0.528 Sum_probs=37.1
Q ss_pred CcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCC
Q 029842 92 ADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDT 140 (187)
Q Consensus 92 ~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~ 140 (187)
+.+|+.||++|+....++|+ .+..++||+|.||+|..=.|...+
T Consensus 94 ~YDEi~~VlEG~L~i~~~G~-----~~~A~~GDvi~iPkGs~I~fst~~ 137 (152)
T PF06249_consen 94 TYDEIKYVLEGTLEISIDGQ-----TVTAKPGDVIFIPKGSTITFSTPD 137 (152)
T ss_dssp SSEEEEEEEEEEEEEEETTE-----EEEEETT-EEEE-TT-EEEEEEEE
T ss_pred ecceEEEEEEeEEEEEECCE-----EEEEcCCcEEEECCCCEEEEecCC
Confidence 57999999999999998888 999999999999999998887654
No 46
>PRK10572 DNA-binding transcriptional regulator AraC; Provisional
Probab=97.45 E-value=0.00037 Score=59.45 Aligned_cols=50 Identities=16% Similarity=0.268 Sum_probs=43.7
Q ss_pred cccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 87 TEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 87 ~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
..+.....++.|+++|+|.+.+++. .+.+++||++++|||+.|.+...++
T Consensus 43 r~~~~~~~~i~~~~~G~~~~~~~~~-----~~~~~~g~~i~i~p~~~h~~~~~~~ 92 (290)
T PRK10572 43 RPLGMKGYILNLTIRGQGVIFNGGR-----AFVCRPGDLLLFPPGEIHHYGRHPD 92 (290)
T ss_pred cCCCccceEEEEEEeccEEEecCCe-----eEecCCCCEEEECCCCceeeccCCC
Confidence 4555667899999999999999988 9999999999999999999876543
No 47
>TIGR02272 gentisate_1_2 gentisate 1,2-dioxygenase. This family consists of gentisate 1,2-dioxygenases. This ring-opening enzyme acts in salicylate degradation that goes via gentisate rather than via catechol. It converts gentisate to maleylpyruvate. Some putative gentisate 1,2-dioxygenases are excluded by a relatively high trusted cutoff score because they are too closely related to known examples of 1-hydroxy-2-naphthoate dioxygenase. Therefore some homologs may be bona fide gentisate 1,2-dioxygenases even if they score below the given cutoffs.
Probab=97.38 E-value=0.00053 Score=61.29 Aligned_cols=86 Identities=17% Similarity=0.197 Sum_probs=61.7
Q ss_pred hHHHHHHHH---HcCCCeeeeeeeCcccc-------cCHHHHh--cCcccccccCcceEEEEeeceEEEEEecCCCcEEE
Q 029842 50 DEELQKIRE---ARGYSYMDLLDLCPEKV-------TNYEEKL--KNFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIR 117 (187)
Q Consensus 50 ~~~l~~l~~---~~Gy~~~dvv~v~~~~~-------p~~~~~~--~~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~ 117 (187)
.+.|+++.+ ..+|.+.-+--++|.+- +.+-.++ +.-...|.|+...|++|++|+|+-.|+++ +
T Consensus 215 ~~aL~~~~~~~~~~~~~g~~l~y~NP~TG~~~~pti~~~~q~L~~G~~t~~~r~T~s~Vf~VieG~G~s~ig~~-----~ 289 (335)
T TIGR02272 215 REALDDLTRTGEWDPWHGLKLRYVNPATGGYPMPTIGAFIQLLPKGFRTATYRSTDATVFCVVEGRGQVRIGDA-----V 289 (335)
T ss_pred HHHHHHHHhccCCCCCceEEEEEeCCCCCCCcchhHHHHHhccCCCCCCCCccccccEEEEEEeCeEEEEECCE-----E
Confidence 455666543 24555554445555431 2222222 23466788999999999999999999988 9
Q ss_pred EEEeCCCEEEeCCCCeeeeeeCC
Q 029842 118 IWIKAGDLIVLPAGIYHRFTLDT 140 (187)
Q Consensus 118 ~~v~~GDlIiIP~g~~H~f~~~~ 140 (187)
+..++||+++||+...|.+.+++
T Consensus 290 ~~W~~gD~f~vPsW~~~~h~a~~ 312 (335)
T TIGR02272 290 FRFSPKDVFVVPSWHPVRFEASD 312 (335)
T ss_pred EEecCCCEEEECCCCcEecccCC
Confidence 99999999999999888887764
No 48
>PF12852 Cupin_6: Cupin
Probab=97.31 E-value=0.00052 Score=55.21 Aligned_cols=43 Identities=33% Similarity=0.592 Sum_probs=37.5
Q ss_pred ceEEEEeeceEEEEEec--CCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 94 EEIRYCLEGSGYFDVRD--ESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 94 ~Ei~yileG~g~f~i~~--~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
--+.+|++|++++.+.+ . .+.+++||++++|.|..|++..+++
T Consensus 36 ~~fh~V~~G~~~l~~~~~~~-----~~~L~~GDivllp~g~~H~l~~~~~ 80 (186)
T PF12852_consen 36 ASFHVVLRGSCWLRVPGGGE-----PIRLEAGDIVLLPRGTAHVLSSDPD 80 (186)
T ss_pred eEEEEEECCeEEEEEcCCCC-----eEEecCCCEEEEcCCCCeEeCCCCC
Confidence 45788999999999986 4 8999999999999999999965544
No 49
>COG4766 EutQ Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=97.25 E-value=0.00098 Score=53.54 Aligned_cols=52 Identities=25% Similarity=0.374 Sum_probs=44.8
Q ss_pred CcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 84 NFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 84 ~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
.++++ +-..||+-|||+|+....+.|. .+..+|||+|+||.|-.=-|+....
T Consensus 110 ~tf~w-tl~yDe~d~VlEGrL~V~~~g~-----tv~a~aGDvifiPKgssIefst~ge 161 (176)
T COG4766 110 TTFPW-TLNYDEIDYVLEGRLHVRIDGR-----TVIAGAGDVIFIPKGSSIEFSTTGE 161 (176)
T ss_pred ccCcc-eecccceeEEEeeeEEEEEcCC-----eEecCCCcEEEecCCCeEEEeccce
Confidence 44433 4468999999999999999999 9999999999999999988887765
No 50
>PF05523 FdtA: WxcM-like, C-terminal ; InterPro: IPR008894 This entry includes FdtA (Q6T1W8 from SWISSPROT) from Aneurinibacillus thermoaerophilus, which has been characterised as a dTDP-6-deoxy-3,4-keto-hexulose isomerase []. It also includes WxcM (Q93S92 from SWISSPROT) from Xanthomonas campestris pv campestris) []. ; PDB: 2PAK_A 2PAE_A 2PA7_B 2PAM_A.
Probab=97.24 E-value=0.0021 Score=49.92 Aligned_cols=65 Identities=15% Similarity=0.245 Sum_probs=39.6
Q ss_pred ccccccC-cceEEEEeeceEEEEEecCCCcEEEEEEeCCC-EEEeCCCCeeeeeeCCCCcEEEEEEEcCC
Q 029842 86 YTEHIHA-DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGD-LIVLPAGIYHRFTLDTSNYVKLMRLFVGE 153 (187)
Q Consensus 86 ~~eH~H~-~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GD-lIiIP~g~~H~f~~~~~~~~~~ir~f~~~ 153 (187)
-..|.|. ..|.++|++|+..+.+.+.... -.+.+...+ .|.||||+.|.+..-+.+ .++-.+++.
T Consensus 46 RG~H~Hk~~~~~~~~l~Gs~~v~~~d~~~~-~~~~L~~~~~~L~Ippg~w~~~~~~s~~--svlLv~as~ 112 (131)
T PF05523_consen 46 RGWHAHKKTTQWFIVLSGSFKVVLDDGREE-EEFILDEPNKGLYIPPGVWHGIKNFSED--SVLLVLASE 112 (131)
T ss_dssp EEEEEESS--EEEEEEES-EEEEEE-SS-E-EEEEE--TTEEEEE-TT-EEEEE---TT---EEEEEESS
T ss_pred ccccccccccEEEEEEeCEEEEEEecCCCc-EEEEECCCCeEEEECCchhhHhhccCCC--cEEEEEcCC
Confidence 5789995 7999999999999999865433 456666554 899999999999876655 233335553
No 51
>PF06052 3-HAO: 3-hydroxyanthranilic acid dioxygenase; InterPro: IPR010329 Members of this protein family, from both bacteria and eukaryotes, are the enzyme 3-hydroxyanthranilate 3,4-dioxygenase (1.13.11.6 from EC). It is part of the kynurenine pathway for the degradation of tryptophan and the biosynthesis of nicotinic acid [].The prokaryotic homologue is involved in the 2-nitrobenzoate degradation pathway []. The enzyme acts on the tryptophan metabolite 3-hydroxyanthranilate and produces 2-amino-3-carboxymuconate semialdehyde, which can rearrange spontaneously to quinolinic acid and feed into nicotinamide biosynthesis, or undergo further enzymatic degradation.; GO: 0000334 3-hydroxyanthranilate 3,4-dioxygenase activity, 0005506 iron ion binding, 0008152 metabolic process, 0055114 oxidation-reduction process; PDB: 1ZVF_A 1YFX_A 1YFW_A 1YFY_A 1YFU_A 2QNK_A 3FE5_A.
Probab=97.02 E-value=0.0037 Score=49.95 Aligned_cols=57 Identities=26% Similarity=0.398 Sum_probs=40.9
Q ss_pred CcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 84 NFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 84 ~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
.....|.-+.+|.+|-++|.....+-+ +++.-.+.++.||+.++|++++|+-.-.++
T Consensus 44 ~R~DyHine~eE~FyQ~kG~m~Lkv~e-~g~~kdi~I~EGe~fLLP~~vpHsP~R~~~ 100 (151)
T PF06052_consen 44 QRTDYHINETEEFFYQLKGDMCLKVVE-DGKFKDIPIREGEMFLLPANVPHSPQRPAD 100 (151)
T ss_dssp --SSEEE-SS-EEEEEEES-EEEEEEE-TTEEEEEEE-TTEEEEE-TT--EEEEE-TT
T ss_pred CCCccccCCcceEEEEEeCcEEEEEEe-CCceEEEEeCCCcEEecCCCCCCCCcCCCC
Confidence 345789999999999999999999986 466669999999999999999998775543
No 52
>COG3450 Predicted enzyme of the cupin superfamily [General function prediction only]
Probab=96.82 E-value=0.0026 Score=48.83 Aligned_cols=47 Identities=23% Similarity=0.357 Sum_probs=38.4
Q ss_pred cccc-CcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeee
Q 029842 88 EHIH-ADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTL 138 (187)
Q Consensus 88 eH~H-~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~ 138 (187)
.+.+ +.+|.-+||+|.+.+.-++.+ .+.++|||++++|+|..=.-..
T Consensus 57 ~r~~y~~~E~chil~G~v~~T~d~Ge----~v~~~aGD~~~~~~G~~g~W~V 104 (116)
T COG3450 57 FRVTYDEDEFCHILEGRVEVTPDGGE----PVEVRAGDSFVFPAGFKGTWEV 104 (116)
T ss_pred ceEEcccceEEEEEeeEEEEECCCCe----EEEEcCCCEEEECCCCeEEEEE
Confidence 4555 468999999999999987643 8999999999999997654443
No 53
>PF04209 HgmA: homogentisate 1,2-dioxygenase; InterPro: IPR005708 Alkaptonuria (AKU), a rare hereditary disorder, was the first disease to be interpreted as an inborn error of metabolism. The deficiency causes homogentisic aciduria, ochronosis, and arthritis. AKU patients are deficient for homogentisate 1,2 dioxygenase (1.13.11.5 from EC), the enzyme that mediates the conversion of homogentisate to maleylacetoacetate; a step in the catabolism of both tyrosine and phenylalanine. Homogentisate + O(2) = 4-maleylacetoacetate. ; GO: 0004411 homogentisate 1,2-dioxygenase activity, 0006559 L-phenylalanine catabolic process, 0006570 tyrosine metabolic process, 0055114 oxidation-reduction process; PDB: 1EY2_A 1EYB_A.
Probab=96.63 E-value=0.0054 Score=56.45 Aligned_cols=57 Identities=21% Similarity=0.315 Sum_probs=42.1
Q ss_pred ccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEc
Q 029842 90 IHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFV 151 (187)
Q Consensus 90 ~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~ 151 (187)
-.+.||++|+-+|++.+.-.=. .+.+++||+++||.||.++....+..+..++-.|.
T Consensus 143 NaDGD~Li~~q~G~l~l~Te~G-----~L~v~pGd~~VIPRG~~~rv~l~~p~rgyi~E~~~ 199 (424)
T PF04209_consen 143 NADGDELIFPQQGSLRLETEFG-----RLDVRPGDYVVIPRGTRFRVELPGPARGYIIENFG 199 (424)
T ss_dssp ESSEEEEEEEEES-EEEEETTE-----EEEE-TTEEEEE-TT--EEEE-SSSEEEEEEEEES
T ss_pred cCCCCEEEEEEECCEEEEecCe-----eEEEcCCeEEEECCeeEEEEEeCCCceEEEEEcCC
Confidence 4578999999999999988755 89999999999999999999988655566665554
No 54
>PF11699 CENP-C_C: Mif2/CENP-C like; PDB: 2VPV_B.
Probab=96.39 E-value=0.019 Score=41.68 Aligned_cols=69 Identities=13% Similarity=0.218 Sum_probs=49.1
Q ss_pred CCeeeeeeeCcccccCHHHHhcCcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 62 YSYMDLLDLCPEKVTNYEEKLKNFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 62 y~~~dvv~v~~~~~p~~~~~~~~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
+-..-.+.|+|.. .--..++.+..-++||++|.....+++. ...+.+|+...||+|-...+.+..+
T Consensus 11 ~fa~G~l~Lpp~~---------~K~~k~s~~~~~vF~V~~G~v~Vti~~~-----~f~v~~G~~F~VP~gN~Y~i~N~~~ 76 (85)
T PF11699_consen 11 FFASGMLELPPGG---------EKPPKNSRDNTMVFYVIKGKVEVTIHET-----SFVVTKGGSFQVPRGNYYSIKNIGN 76 (85)
T ss_dssp S-EEEEEEE-TCC---------CEEEEE--SEEEEEEEEESEEEEEETTE-----EEEEETT-EEEE-TT-EEEEEE-SS
T ss_pred CceeEEEEeCCCC---------ccCCcccCCcEEEEEEEeCEEEEEEcCc-----EEEEeCCCEEEECCCCEEEEEECCC
Confidence 5566677777753 1134566778899999999999999988 9999999999999999999998765
Q ss_pred CcE
Q 029842 142 NYV 144 (187)
Q Consensus 142 ~~~ 144 (187)
...
T Consensus 77 ~~a 79 (85)
T PF11699_consen 77 EEA 79 (85)
T ss_dssp S-E
T ss_pred CcE
Confidence 543
No 55
>PRK09685 DNA-binding transcriptional activator FeaR; Provisional
Probab=96.37 E-value=0.011 Score=50.48 Aligned_cols=51 Identities=14% Similarity=0.117 Sum_probs=41.7
Q ss_pred cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEE
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMR 148 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir 148 (187)
..-+.++++|++.+.+++. .+.+.+||++++|++.+|.+.........++.
T Consensus 71 ~~~l~~~~~G~~~~~~~g~-----~~~l~~G~~~l~~~~~p~~~~~~~~~~~~~l~ 121 (302)
T PRK09685 71 HFFTVFQLSGHAIIEQDDR-----QVQLAAGDITLIDASRPCSIYPQGLSEQISLL 121 (302)
T ss_pred cEEEEEEecceEEEEECCe-----EEEEcCCCEEEEECCCCcEeecCCCceeEEEE
Confidence 4567788999999999988 89999999999999999998765544433343
No 56
>COG3257 GlxB Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]
Probab=96.25 E-value=0.008 Score=51.07 Aligned_cols=54 Identities=22% Similarity=0.284 Sum_probs=46.0
Q ss_pred ccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEE
Q 029842 90 IHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMR 148 (187)
Q Consensus 90 ~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir 148 (187)
+|-.+-=.|||+|+|.|.++.. .+.|++||+|.+-|-.+.+..++..+.|+.|-
T Consensus 200 tHvmEHGlyvLeGk~vYrLn~d-----wv~V~aGD~mwm~A~cpQacyagG~g~frYLl 253 (264)
T COG3257 200 THVMEHGLYVLEGKGVYRLNNN-----WVPVEAGDYIWMGAYCPQACYAGGRGAFRYLL 253 (264)
T ss_pred hhhhhcceEEEecceEEeecCc-----eEEeecccEEEeeccChhhhccCCCCceEEEE
Confidence 4555566999999999999966 89999999999999999999988777777653
No 57
>TIGR01015 hmgA homogentisate 1,2-dioxygenase. Missing in human disease alkaptonuria.
Probab=96.17 E-value=0.02 Score=52.73 Aligned_cols=57 Identities=12% Similarity=0.187 Sum_probs=48.0
Q ss_pred ccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEc
Q 029842 90 IHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFV 151 (187)
Q Consensus 90 ~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~ 151 (187)
-.+.|+++++-+|++.+.-.=. .+.+++||+++||.|+.++....+..+..++-.|.
T Consensus 145 NaDGD~Livpq~G~l~i~TEfG-----~L~v~pgei~VIPRG~~frv~l~gp~rgyi~E~~g 201 (429)
T TIGR01015 145 NADGDFLIVPQQGALLITTEFG-----RLLVEPNEICVIPRGVRFRVTVLEPARGYICEVYG 201 (429)
T ss_pred ccCCCEEEEEEeCcEEEEEecc-----ceEecCCCEEEecCccEEEEeeCCCceEEEEeccC
Confidence 3578999999999999998755 89999999999999999999986555566665555
No 58
>PF06339 Ectoine_synth: Ectoine synthase; InterPro: IPR010462 This family consists of several bacterial ectoine synthase proteins. The ectABC genes encode the diaminobutyric acid acetyltransferase (EctA), the diaminobutyric acid aminotransferase (EctB), and the ectoine synthase (EctC). Together these proteins constitute the ectoine biosynthetic pathway [].; GO: 0016836 hydro-lyase activity, 0006596 polyamine biosynthetic process
Probab=96.10 E-value=0.051 Score=42.29 Aligned_cols=60 Identities=27% Similarity=0.370 Sum_probs=50.2
Q ss_pred cccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCC
Q 029842 89 HIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGE 153 (187)
Q Consensus 89 H~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~ 153 (187)
|.-..-|..||++|+|....-+ +++ .+.++||.+-.+...-.|..++.+ .+.++.+|.++
T Consensus 51 ~YknHlEAvyci~G~Gev~~~~-~G~--~~~i~pGt~YaLd~hD~H~lra~~--dm~~vCVFnPp 110 (126)
T PF06339_consen 51 HYKNHLEAVYCIEGEGEVEDLD-TGE--VHPIKPGTMYALDKHDRHYLRAKT--DMRLVCVFNPP 110 (126)
T ss_pred EecCceEEEEEEeceEEEEEcc-CCc--EEEcCCCeEEecCCCccEEEEecC--CEEEEEEcCCC
Confidence 3335789999999999998752 223 788999999999999999999988 68889899876
No 59
>PF14525 AraC_binding_2: AraC-binding-like domain
Probab=96.02 E-value=0.03 Score=43.03 Aligned_cols=53 Identities=17% Similarity=0.251 Sum_probs=46.9
Q ss_pred CcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEE
Q 029842 92 ADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 92 ~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~ 149 (187)
+..-+.+.++|++.+..++. .+.+.|||+++++++.++.+...++.....+++
T Consensus 54 ~~~~l~~~~~G~~~~~~~g~-----~~~~~pg~~~l~d~~~~~~~~~~~~~~~~~l~i 106 (172)
T PF14525_consen 54 DHYLLVLPLSGSARIEQGGR-----EVELAPGDVVLLDPGQPYRLEFSAGCRQLSLRI 106 (172)
T ss_pred CEEEEEEEccCCEEEEECCE-----EEEEcCCeEEEEcCCCCEEEEECCCccEEEEEE
Confidence 45678888999999999988 999999999999999999999888777777766
No 60
>PRK05341 homogentisate 1,2-dioxygenase; Provisional
Probab=95.98 E-value=0.028 Score=51.92 Aligned_cols=57 Identities=14% Similarity=0.142 Sum_probs=46.5
Q ss_pred ccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCC-CCcEEEEEEEc
Q 029842 90 IHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDT-SNYVKLMRLFV 151 (187)
Q Consensus 90 ~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~-~~~~~~ir~f~ 151 (187)
-.+.|+++++-+|++.+.-.=. .+.+++||+++||.|+.++....+ ..+..++-.|.
T Consensus 151 NaDGD~Livpq~G~l~i~TEfG-----~L~v~pgei~VIPRG~~frv~l~~gp~rgyi~E~~g 208 (438)
T PRK05341 151 NADGELLIVPQQGRLRLATELG-----VLDVEPGEIAVIPRGVKFRVELPDGPARGYVCENYG 208 (438)
T ss_pred cCCCCEEEEEEeCCEEEEEecc-----ceEecCCCEEEEcCccEEEEecCCCCeeEEEEEecC
Confidence 3578999999999999998855 899999999999999999999743 44555555554
No 61
>PF02373 JmjC: JmjC domain, hydroxylase; InterPro: IPR013129 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with jmjN (see IPR003349 from INTERPRO) and belongs to the Cupin superfamily [].; PDB: 2YU2_A 2YU1_A 3AVR_A 3AVS_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=95.89 E-value=0.019 Score=41.90 Aligned_cols=31 Identities=26% Similarity=0.412 Sum_probs=21.2
Q ss_pred CCcEEEEEEeCCCEEEeCCCCeeeeeeCCCC
Q 029842 112 SDQWIRIWIKAGDLIVLPAGIYHRFTLDTSN 142 (187)
Q Consensus 112 ~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~ 142 (187)
+-..+++..++||+|+||||.+|+..+.+.+
T Consensus 77 gi~~~~~~Q~~Ge~V~i~pg~~H~v~n~g~~ 107 (114)
T PF02373_consen 77 GIPVYRFVQKPGEFVFIPPGAYHQVFNLGDN 107 (114)
T ss_dssp TS--EEEEEETT-EEEE-TT-EEEEEESSSE
T ss_pred CcccccceECCCCEEEECCCceEEEEeCCce
Confidence 3356689999999999999999998776543
No 62
>PLN02658 homogentisate 1,2-dioxygenase
Probab=95.65 E-value=0.046 Score=50.46 Aligned_cols=56 Identities=14% Similarity=0.304 Sum_probs=46.5
Q ss_pred ccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeee-CCCCcEEEEEEE
Q 029842 90 IHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTL-DTSNYVKLMRLF 150 (187)
Q Consensus 90 ~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~-~~~~~~~~ir~f 150 (187)
-.+.|+++++-+|++.+.-.=. .+.+++||+++||.|+.++... ++..+..++-.|
T Consensus 144 NaDGD~Livpq~G~l~i~TEfG-----~L~v~pgei~VIPRG~~frv~l~~gp~rgyv~E~~ 200 (435)
T PLN02658 144 NADGDFLIVPQQGRLWIKTELG-----KLQVSPGEIVVIPRGFRFAVDLPDGPSRGYVLEIF 200 (435)
T ss_pred cCCCCEEEEEEeCCEEEEEecc-----ceEecCCCEEEecCccEEEEecCCCCeeEEEEeec
Confidence 3578999999999999998755 8999999999999999999997 434455556555
No 63
>COG3435 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=95.58 E-value=0.029 Score=49.70 Aligned_cols=63 Identities=32% Similarity=0.491 Sum_probs=51.7
Q ss_pred ccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCCc
Q 029842 86 YTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEPV 155 (187)
Q Consensus 86 ~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~g 155 (187)
...|.|.+.-|+-|++|+|+-.|+++ ++.-++||+++||.--.|.+.++++. .++=-|++.|.
T Consensus 274 ~~~~r~t~s~iy~V~eGsg~~~Ig~~-----rf~~~~~D~fvVPsW~~~~~~~gs~d--a~LFsfsD~PV 336 (351)
T COG3435 274 GKAHRHTDSTIYHVVEGSGYTIIGGE-----RFDWSAGDIFVVPSWAWHEHVNGSED--AVLFSFSDRPV 336 (351)
T ss_pred CCceeccCCEEEEEEecceeEEECCE-----EeeccCCCEEEccCcceeecccCCcc--eEEEecCCcHH
Confidence 56788899999999999999999999 99999999999999999999987543 22222555553
No 64
>COG3257 GlxB Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]
Probab=95.52 E-value=0.047 Score=46.45 Aligned_cols=50 Identities=12% Similarity=0.192 Sum_probs=42.4
Q ss_pred cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCC--CCcEEEE
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDT--SNYVKLM 147 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~--~~~~~~i 147 (187)
.+-+.||++|+....+.++ +..+++|++..+|||..|.+++.. +.+|.-+
T Consensus 83 ae~~lfVv~Ge~tv~~~G~-----th~l~eggyaylPpgs~~~~~N~~~~~~rfhw~ 134 (264)
T COG3257 83 AETFLFVVSGEITVKAEGK-----THALREGGYAYLPPGSGWTLRNAQKEDSRFHWI 134 (264)
T ss_pred ceEEEEEEeeeEEEEEcCe-----EEEeccCCeEEeCCCCcceEeeccCCceEEEEE
Confidence 3567999999999999999 999999999999999999999644 4444444
No 65
>PF02678 Pirin: Pirin; InterPro: IPR003829 This entry represents N-terminal domain of Pirin proteins from both eukaryotes and prokaryotes. The function of Pirin is unknown but the gene coding for this protein is known to be expressed in all tissues in the human body although it is expressed most strongly in the liver and heart. Pirin is known to be a nuclear protein, exclusively localised within the nucleoplasma and predominantly concentrated within dot-like subnuclear structures []. Pirin is composed of two structurally similar domains arranged face to face. The N-terminal domain additionally features four beta-strands, and the C-terminal domain also includes four additional -strands and a short alpha-helix. Although the two domains are similar, the C-terminal domain of Pirin differs from the N-terminal domain as it does not contain a metal binding site and its sequence does not contain the conserved metal-coordinating residues []. Pirin is confirmed to be a member of the cupin superfamily on the basis of primary sequence and structural similarity. The presence of a metal binding site in the N-terminal beta-barrel of Pirin, may be significant in its role in regulating NFI DNA replication and NF-kappaB transcription factor activity []. Pirin structure has been found to closely resemble members of the cupin superfamily. Pirin contains the two characteristic sequences of the cupin superfamily, namely PG-(X)5-HXH-(X)4-E-(X)6-G and G-(X)5-PXG-(X)2-H-(X)3-N separated by a variable stretch of 15-50 amino acids. These motifs are best conserved in the N-terminal where the conserved histidine and glutamic acid residues correspond to the metal-coordinating residues. The C-terminal domain motifs lack the metal binding residues normally associated with the cupin fold []. Pirin was identified to be a metal-binding protein [], and was found that the metal-binding residues of Pirins are highly conserved across mammals, plants, fungi, and prokaryotic organisms. Pirin acts as a cofactor for the transcription factor NFI, the regulatory mechanism of which is generally believed to require the assistance of a metal ion []. Structural data supports the hypothesis that the bound iron of Pirin may participate in this transcriptional regulation by enhancing and stabilising the formation of the p50,Bcl3,DNA complex []. Metals have been implicated directly or indirectly in the NF-kappaB family of transcription factors that control expression of a number of early response genes associated with inflammatory responses, cell growth, cell cycle progression, and neoplastic transformation []. However, most metal-dependent transcription factors are DNA-binding proteins that bind to specific sequences when the metal binds to the protein. Pirin, on the other hand, appears to function differently and bind to the transcription factor DNA complex [].; PDB: 2VEC_A 1J1L_A 3ACL_A 2P17_A 1TQ5_A.
Probab=94.93 E-value=0.13 Score=38.78 Aligned_cols=63 Identities=25% Similarity=0.290 Sum_probs=46.4
Q ss_pred CcccccccC-cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCC--CCeeeeeeCCC-CcEEEEEEE
Q 029842 84 NFYTEHIHA-DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPA--GIYHRFTLDTS-NYVKLMRLF 150 (187)
Q Consensus 84 ~~~~eH~H~-~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~--g~~H~f~~~~~-~~~~~ir~f 150 (187)
.-+..|-|. .+-|-|+++|+....-. .++ ...+++||+-.+-| |+.|.-.+.+. .++..++++
T Consensus 40 ~gf~~HPH~g~eivTyv~~G~~~H~Ds-~G~---~~~l~~G~vq~m~AG~Gi~H~E~~~~~~~~~~~lQlW 106 (107)
T PF02678_consen 40 AGFPMHPHRGFEIVTYVLEGELRHRDS-LGN---RGVLRAGDVQWMTAGSGIVHSERNASDGGPLHGLQLW 106 (107)
T ss_dssp TEEEEEEECSEEEEEEEEESEEEEEET-TSE---EEEEETTEEEEEE-TTTEEEEEEE-TSSS-EEEEEEE
T ss_pred CCCCCcCCCCceEEEEEecCEEEEECC-CCC---eeEeCCCeEEEEeCCCCceEEEecCCCCCeEEEEEEc
Confidence 346899997 67889999998877633 211 57899999988777 58998877665 788888876
No 66
>PF13621 Cupin_8: Cupin-like domain; PDB: 3AL6_C 3AL5_C 2XUM_A 2Y0I_A 1MZE_A 3KCY_A 1MZF_A 1YCI_A 2ILM_A 1H2L_A ....
Probab=94.41 E-value=0.13 Score=42.09 Aligned_cols=68 Identities=13% Similarity=0.250 Sum_probs=42.5
Q ss_pred cccccccCcceEEEEeeceEEEEEecC---------C--------------------------CcEEEEEEeCCCEEEeC
Q 029842 85 FYTEHIHADEEIRYCLEGSGYFDVRDE---------S--------------------------DQWIRIWIKAGDLIVLP 129 (187)
Q Consensus 85 ~~~eH~H~~~Ei~yileG~g~f~i~~~---------~--------------------------d~~~~~~v~~GDlIiIP 129 (187)
....|....+=+..++.|+=.|.+-.. . -..+.+.++|||+|.||
T Consensus 143 ~t~lH~D~~~n~~~~i~G~K~~~L~pP~~~~~l~~~~~~~~~~~~~~~d~~~~d~~~~p~~~~~~~~~~~l~pGD~LfiP 222 (251)
T PF13621_consen 143 FTPLHYDPSHNLLAQIRGRKRWILFPPDDSPNLYPRPDSHGGTVFSWVDPDNPDLERFPKFRKAPPYEVVLEPGDVLFIP 222 (251)
T ss_dssp EEEEEE-SSEEEEEEEESEEEEEEE-GGGGGGCTBETTTST-TCBBSS-TTS--TTT-CGGGG--EEEEEEETT-EEEE-
T ss_pred eeeeeECchhhhhhccCCCEEEEEECCccccccccceecccccceeeeeccChhhhhhhhhccCceeEEEECCCeEEEEC
Confidence 345555556667777788777666221 0 14689999999999999
Q ss_pred CCCeeeeeeC-CCC-cEEEEEEEcC
Q 029842 130 AGIYHRFTLD-TSN-YVKLMRLFVG 152 (187)
Q Consensus 130 ~g~~H~f~~~-~~~-~~~~ir~f~~ 152 (187)
+|-.|...+. +++ .+.+=..|..
T Consensus 223 ~gWwH~V~~~~~~~~sisvn~w~~~ 247 (251)
T PF13621_consen 223 PGWWHQVENLSDDDLSISVNYWFRT 247 (251)
T ss_dssp TT-EEEEEESTTSSCEEEEEEEEES
T ss_pred CCCeEEEEEcCCCCeEEEEEEEecc
Confidence 9999999988 333 4544444544
No 67
>KOG2757 consensus Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=94.26 E-value=0.11 Score=47.24 Aligned_cols=56 Identities=23% Similarity=0.396 Sum_probs=47.2
Q ss_pred CcceEEEEeeceEEEEEe-cCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCC
Q 029842 92 ADEEIRYCLEGSGYFDVR-DESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGE 153 (187)
Q Consensus 92 ~~~Ei~yileG~g~f~i~-~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~ 153 (187)
+.--|+.+++|+|+.... +. .+.++.||+++|||+..=.+...++. ++.-|-|+..
T Consensus 352 ~~~SIllv~~G~g~l~~~t~~-----~~~v~rG~V~fI~a~~~i~~~~~sd~-~~~yrAf~~~ 408 (411)
T KOG2757|consen 352 DGPSILLVLKGSGILKTDTDS-----KILVNRGDVLFIPANHPIHLSSSSDP-FLGYRAFSNS 408 (411)
T ss_pred CCceEEEEEecceEEecCCCC-----ceeeccCcEEEEcCCCCceeeccCcc-eeeeeccccc
Confidence 456789999999999998 56 89999999999999998888877764 7777877654
No 68
>PF00908 dTDP_sugar_isom: dTDP-4-dehydrorhamnose 3,5-epimerase; InterPro: IPR000888 Deoxythymidine diphosphate (dTDP)-4-keto-6-deoxy-d-hexulose 3, 5-epimerase (RmlC, 5.1.3.13 from EC) is involved in the biosynthesis of dTDP-l-rhamnose, which is an essential component of the bacterial cell wall, converting dTDP-4-keto-6-deoxy-D-glucose to dTDP-4-keto-L-rhamnose. The crystal structure of RmlC from Methanobacterium thermoautotrophicum was determined in the presence and absence of a substrate analogue. RmlC is a homodimer comprising a central jelly roll motif, which extends in two directions into longer beta-sheets. Binding of dTDP is stabilised by ionic interactions to the phosphate group and by a combination of ionic and hydrophobic interactions with the base. The active site, which is located in the centre of the jelly roll, is formed by residues that are conserved in all known RmlC sequence homologues. The active site is lined with a number of charged residues and a number of residues with hydrogen-bonding potentials, which together comprise a potential network for substrate binding and catalysis. The active site is also lined with aromatic residues which provide favorable environments for the base moiety of dTDP and potentially for the sugar moiety of the substrate [].; GO: 0008830 dTDP-4-dehydrorhamnose 3,5-epimerase activity, 0009103 lipopolysaccharide biosynthetic process; PDB: 1EPZ_A 1EP0_A 1NXM_A 1NZC_D 2IXL_C 1NYW_B 2IXC_D 1PM7_B 1UPI_A 3RYK_B ....
Probab=94.02 E-value=0.42 Score=38.97 Aligned_cols=59 Identities=19% Similarity=0.406 Sum_probs=44.1
Q ss_pred CcccccccC----cceEEEEeeceEEEEEec--C----CCcEEEEEEeCCC--EEEeCCCCeeeeeeCCCC
Q 029842 84 NFYTEHIHA----DEEIRYCLEGSGYFDVRD--E----SDQWIRIWIKAGD--LIVLPAGIYHRFTLDTSN 142 (187)
Q Consensus 84 ~~~~eH~H~----~~Ei~yileG~g~f~i~~--~----~d~~~~~~v~~GD--lIiIP~g~~H~f~~~~~~ 142 (187)
.....|.|. ...+..|+.|+..-.+-| + =++|..+.+.+++ .|.||+|..|.|.+-++.
T Consensus 54 vlRGlH~q~~~~~q~Klv~~~~G~i~dV~vDlR~~SpTfg~~~~~~Ls~~n~~~l~IP~G~aHGf~~l~d~ 124 (176)
T PF00908_consen 54 VLRGLHYQSPPYAQAKLVRCLRGEIFDVAVDLRKGSPTFGKWVSVELSAENPRQLYIPPGVAHGFQTLEDD 124 (176)
T ss_dssp BEEEEEEESTTT-EEEEEEEEESEEEEEEEE-BTTSTTTT-EEEEEEETTT--EEEE-TTEEEEEEESSSE
T ss_pred EEEEEEEecCCCCCCcEEEEecCeEEEEEEECCCCCCCCCEEEEEEeCccccCEEEeCCcceeeEEeccCc
Confidence 344556654 468999999998766554 2 2689999999887 699999999999987654
No 69
>TIGR01221 rmlC dTDP-4-dehydrorhamnose 3,5-epimerase. This enzyme participates in the biosynthesis of dTDP-L-rhamnose, often as a precursor to LPS O-antigen
Probab=93.17 E-value=0.76 Score=37.55 Aligned_cols=60 Identities=17% Similarity=0.303 Sum_probs=47.0
Q ss_pred cCccccccc---CcceEEEEeeceEEEEEecC------CCcEEEEEEeC--CCEEEeCCCCeeeeeeCCCC
Q 029842 83 KNFYTEHIH---ADEEIRYCLEGSGYFDVRDE------SDQWIRIWIKA--GDLIVLPAGIYHRFTLDTSN 142 (187)
Q Consensus 83 ~~~~~eH~H---~~~Ei~yileG~g~f~i~~~------~d~~~~~~v~~--GDlIiIP~g~~H~f~~~~~~ 142 (187)
+.....|.| ....+..|+.|+..-.+-|. =++|..+.+.+ +-.|.||+|..|.|.+-++.
T Consensus 54 gvlRGlH~q~~~~q~Klv~c~~G~i~dV~VDlR~~SpTfG~~~~~~L~~~~~~~l~IP~G~aHGF~~L~d~ 124 (176)
T TIGR01221 54 GVLRGLHYQRPHPQGKLVRVLRGEVFDVAVDLRRNSPTFGKWVGVLLSAENKRQLWIPEGFAHGFVVLSDE 124 (176)
T ss_pred CEEEEEEECCCCCCceEEEEccCCEEEEEEECCCCcCCCCeEEEEEECCCCCCEEEeCCcceeEEEEcCCC
Confidence 445566765 47999999999988666552 15799999988 55999999999999986544
No 70
>COG3508 HmgA Homogentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=92.40 E-value=0.65 Score=42.20 Aligned_cols=46 Identities=17% Similarity=0.260 Sum_probs=40.8
Q ss_pred CcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCC
Q 029842 92 ADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSN 142 (187)
Q Consensus 92 ~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~ 142 (187)
+.+|++++-.|+..|...=. .+.|++||+.+||-|+.-+...-++.
T Consensus 145 Dge~Livpq~G~l~l~te~G-----~l~v~pgeiavIPRG~~frve~~~~~ 190 (427)
T COG3508 145 DGELLIVPQQGELRLKTELG-----VLEVEPGEIAVIPRGTTFRVELKDGE 190 (427)
T ss_pred CCCEEEEeecceEEEEEeec-----eEEecCCcEEEeeCCceEEEEecCCc
Confidence 57999999999999988755 89999999999999999999875544
No 71
>PF07385 DUF1498: Protein of unknown function (DUF1498); InterPro: IPR010864 This family consists of several hypothetical bacterial proteins of around 225 residues in length. The function of this family is unknown.; PDB: 3MPB_B 3KMH_A.
Probab=92.35 E-value=0.3 Score=41.45 Aligned_cols=26 Identities=35% Similarity=0.716 Sum_probs=19.3
Q ss_pred EEEEeCCCEEEeCCCCeeeeeeCCCC
Q 029842 117 RIWIKAGDLIVLPAGIYHRFTLDTSN 142 (187)
Q Consensus 117 ~~~v~~GDlIiIP~g~~H~f~~~~~~ 142 (187)
.+.++||+-|.|+||++|+|...++.
T Consensus 155 ~l~L~PGESiTL~Pg~yH~Fw~e~g~ 180 (225)
T PF07385_consen 155 QLRLNPGESITLPPGIYHWFWGEGGD 180 (225)
T ss_dssp EEEE-TT-EEEE-TTEEEEEEE-TTS
T ss_pred eEEeCCCCeEeeCCCCeeeEEecCCC
Confidence 57889999999999999999987655
No 72
>COG1898 RfbC dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]
Probab=92.10 E-value=1 Score=36.84 Aligned_cols=61 Identities=16% Similarity=0.315 Sum_probs=48.3
Q ss_pred cCcccccccC--cceEEEEeeceEEEEEecC-CC-----cEEEEEEeCC--CEEEeCCCCeeeeeeCCCCc
Q 029842 83 KNFYTEHIHA--DEEIRYCLEGSGYFDVRDE-SD-----QWIRIWIKAG--DLIVLPAGIYHRFTLDTSNY 143 (187)
Q Consensus 83 ~~~~~eH~H~--~~Ei~yileG~g~f~i~~~-~d-----~~~~~~v~~G--DlIiIP~g~~H~f~~~~~~~ 143 (187)
+..-..|.|. ..++..|+.|+..-.+-|- .| +|..+.+.+- -.|.||+|..|.|.+.++..
T Consensus 55 GvlRGlHyq~~~q~klv~~v~G~v~dv~vDlR~~SpTyg~~~~~~ls~~N~~~l~IP~G~AHGf~~L~d~~ 125 (173)
T COG1898 55 GVLRGLHYQHKPQGKLVRVVSGKVFDVAVDLRKDSPTYGKWVGVVLSAENKRQLYIPPGFAHGFQVLSDDA 125 (173)
T ss_pred CeeEEEEcccCCCCeEEEEecCeEEEEEEEccCCCCCcceEEEEEecCCCceEEEeCCcccceeEEccCce
Confidence 3456778885 3899999999998776653 33 4999999877 78999999999999877655
No 73
>PF08007 Cupin_4: Cupin superfamily protein; InterPro: IPR022777 This signature represents primarily the cupin fold found in JmjC transcription factors. The fold is also found in lysine-specific demethylase NO66.; PDB: 2XDV_A 1VRB_B 4DIQ_B.
Probab=92.01 E-value=0.94 Score=39.89 Aligned_cols=56 Identities=18% Similarity=0.335 Sum_probs=39.6
Q ss_pred cccccccCcceEEEEeeceEEEEEecCC------------------CcEEEEEEeCCCEEEeCCCCeeeeeeCC
Q 029842 85 FYTEHIHADEEIRYCLEGSGYFDVRDES------------------DQWIRIWIKAGDLIVLPAGIYHRFTLDT 140 (187)
Q Consensus 85 ~~~eH~H~~~Ei~yileG~g~f~i~~~~------------------d~~~~~~v~~GDlIiIP~g~~H~f~~~~ 140 (187)
-+..|+=+.+-+..=++|+=...|.... .....+.++|||+|.||+|..|...+.+
T Consensus 127 g~~~H~D~~dvfvlQ~~G~K~W~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~pGD~LYlPrG~~H~~~~~~ 200 (319)
T PF08007_consen 127 GFGPHYDDHDVFVLQLEGRKRWRLYPPPDEPAPLYSDQPFKQLEEFEPVEEVVLEPGDVLYLPRGWWHQAVTTD 200 (319)
T ss_dssp ESECEE-SSEEEEEEEES-EEEEEE-SCCCTTTSSCE--TTTCG--STSEEEEE-TT-EEEE-TT-EEEEEESS
T ss_pred CccCEECCcccEEEECCceeEEEECCCCcccccccCCCCccccccCceeEEEEECCCCEEEECCCccCCCCCCC
Confidence 3667777777778889999999998610 2366899999999999999999999887
No 74
>PF14499 DUF4437: Domain of unknown function (DUF4437); PDB: 2QDR_A.
Probab=91.85 E-value=0.18 Score=43.58 Aligned_cols=52 Identities=23% Similarity=0.304 Sum_probs=31.8
Q ss_pred ccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 86 YTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 86 ~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
...|+|+.++-.||++|..... +. +=-...+.+|.+...|+|..|...+.+.
T Consensus 49 ~pph~H~~~~~~~Vi~G~~~~~--~~--~a~~~~l~~Gsy~~~PaG~~h~~~~~~~ 100 (251)
T PF14499_consen 49 SPPHIHNADYRGTVISGELHNG--DP--KAAAMWLPAGSYWFQPAGEPHITAAEGE 100 (251)
T ss_dssp E--BEESS-EEEEEEESEEEET--TE--E-----E-TTEEEEE-TT-EEEETTS-E
T ss_pred CCCcceeeeEEEEEEEeEEEcC--CC--cccceecCCCceEeccCCCceeeeccCc
Confidence 4799999999999999975543 22 1113568999999999998887766554
No 75
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=90.65 E-value=1.5 Score=37.65 Aligned_cols=75 Identities=12% Similarity=0.092 Sum_probs=53.8
Q ss_pred HHhcCcccccccC--cceEEEEeeceEEEEEecCCCcEE-EEEEeC-CCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCC
Q 029842 80 EKLKNFYTEHIHA--DEEIRYCLEGSGYFDVRDESDQWI-RIWIKA-GDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEP 154 (187)
Q Consensus 80 ~~~~~~~~eH~H~--~~Ei~yileG~g~f~i~~~~d~~~-~~~v~~-GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~ 154 (187)
...+.+...|.|. ..|.+-|++|+..|.+-+.++... +..+.+ ++.-+|||+..|+....+++--.-+.||....
T Consensus 18 ~~p~~~~~~H~t~~g~~~~~~vl~G~l~~~~~de~g~~~~~~~l~~~~~~~~i~p~~wh~v~~~s~d~~~~l~fy~~~~ 96 (287)
T PRK12335 18 TLPEMFQEKHNTKEGTWAKLTVLKGELKFYELTEDGEELSEHIFDAENQPPFIEPQAWHRIEAASDDLECQLSFYCKPE 96 (287)
T ss_pred hchHHHHhccCCCCCcceEEEEEeeeEEEEEECCCCCeeeEEEEecCCCCceeCCcceEEEEEcCCCcEEEEEEEEcch
Confidence 3446788999994 689999999999998876655422 334444 45557999999999987655555566665543
No 76
>KOG3995 consensus 3-hydroxyanthranilate oxygenase HAAO [Amino acid transport and metabolism]
Probab=90.40 E-value=0.43 Score=40.58 Aligned_cols=68 Identities=26% Similarity=0.462 Sum_probs=53.0
Q ss_pred cccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeee---eeeC---------CCCcEEEEEEEcC
Q 029842 85 FYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHR---FTLD---------TSNYVKLMRLFVG 152 (187)
Q Consensus 85 ~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~---f~~~---------~~~~~~~ir~f~~ 152 (187)
.-..|..+.+|++|-+.|.....+-++ ++.-.+.++.||...+|++++|. |..+ .+..+-+||++.+
T Consensus 45 RkdyHieegeE~FyQ~KGdMvLKVie~-g~~rDivI~qGe~flLParVpHSPqRFantvGlVVEr~R~~tE~D~iR~yvg 123 (279)
T KOG3995|consen 45 RKDYHIEEGEEVFYQLKGDMVLKVLEQ-GKHRDVVIRQGEIFLLPARVPHSPQRFANTVGLVVERRRLETELDGLRYYVG 123 (279)
T ss_pred ccccccCCcchhheeecCceEEeeecc-CcceeeEEecCcEEEeccCCCCChhhhccceeEEEEeccCCCccceEEEEec
Confidence 346788899999999999999999855 44448999999999999999995 3321 2344677787765
Q ss_pred C
Q 029842 153 E 153 (187)
Q Consensus 153 ~ 153 (187)
.
T Consensus 124 ~ 124 (279)
T KOG3995|consen 124 D 124 (279)
T ss_pred c
Confidence 4
No 77
>COG1482 ManA Phosphomannose isomerase [Carbohydrate transport and metabolism]
Probab=90.07 E-value=0.77 Score=40.89 Aligned_cols=45 Identities=20% Similarity=0.183 Sum_probs=38.1
Q ss_pred cCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCC
Q 029842 91 HADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDT 140 (187)
Q Consensus 91 H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~ 140 (187)
+....|.+|++|++....+++ .+.+++|+-++||+...=+.-.+.
T Consensus 258 ~~~~~il~v~eG~~~l~~~~~-----~~~l~~G~s~~ipa~~~~~~i~g~ 302 (312)
T COG1482 258 QESFSILLVLEGEGTLIGGGQ-----TLKLKKGESFFIPANDGPYTIEGE 302 (312)
T ss_pred CCCcEEEEEEcCeEEEecCCE-----EEEEcCCcEEEEEcCCCcEEEEec
Confidence 447899999999999999988 999999999999999665544443
No 78
>TIGR00218 manA mannose-6-phosphate isomerase, class I. The names phosphomannose isomerase and mannose-6-phosphate isomerase are synonomous. This family contains two rather deeply branched groups. One group contains an experimentally determined phosphomannose isomerase of Streptococcus mutans as well as three uncharacterized paralogous proteins of Bacillus subtilis, all at more than 50 % identity to each other, plus a more distant homolog from Archaeoglobus fulgidus. The other group contains members from E. coli, budding yeast, Borrelia burgdorferi, etc.
Probab=89.81 E-value=0.91 Score=39.65 Aligned_cols=41 Identities=24% Similarity=0.293 Sum_probs=34.0
Q ss_pred cCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeee
Q 029842 91 HADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRF 136 (187)
Q Consensus 91 H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f 136 (187)
+....+..|++|++....++. .+.+++|+.++||++.....
T Consensus 251 ~~~~~il~v~~G~~~i~~~~~-----~~~l~~G~~~~ipa~~~~~~ 291 (302)
T TIGR00218 251 QQSALILSVLEGSGRIKSGGK-----TLPLKKGESFFIPAHLGPFT 291 (302)
T ss_pred CCCcEEEEEEcceEEEEECCE-----EEEEecccEEEEccCCccEE
Confidence 346789999999999877655 78999999999999985543
No 79
>PF04962 KduI: KduI/IolB family; InterPro: IPR021120 The KduI/IolB family of enzymes includes 5-keto 4-deoxyuronate isomerase (KduI) and 5-deoxy-glucuronate isomerase (IolB). KduI is involved in pectin degradation by free-living soil bacteria that use pectin as a carbon source, breaking it down to 2-keto-3-deoxygluconate, which can ultimately be converted to pyruvate. KduI catalyses the fourth step in pectin degradation, namely the interconversion of 5-keto-4-deoxyuronate and 2,5-diketo-3-dexoygluconate []. KduI has a TIM-barrel fold []. IolB is one of several bacterial proteins encoded by the inositol operon (iolABCDEFGHIJ) in Bacillus subtilis that are involved in myo-inositol catabolism. The enzyme is responsible for isomerization of 5-deoxy-D-glucuronic acid by IolB to produce 2-deoxy-5-keto-D-gluconic acid []. IolBs possess a cupin-like structure.; GO: 0016861 intramolecular oxidoreductase activity, interconverting aldoses and ketoses, 0008152 metabolic process; PDB: 1YWK_B 2QJV_B 1X8M_A 1XRU_A.
Probab=89.70 E-value=0.67 Score=40.09 Aligned_cols=55 Identities=29% Similarity=0.536 Sum_probs=32.7
Q ss_pred ccccccCc---------ceEEEEe-e---ceEEEEEecC-CCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 86 YTEHIHAD---------EEIRYCL-E---GSGYFDVRDE-SDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 86 ~~eH~H~~---------~Ei~yil-e---G~g~f~i~~~-~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
++.|+|+. +|++|+. . |-|.-.+-.. ...=-.+.|+-||.++||.| +|-.-+.+.
T Consensus 166 yPPH~Hd~~~~~~e~~leEiYyf~~~p~~Gfg~q~~y~~~~~~d~~~~V~~~d~V~iP~g-yHp~~aapG 234 (261)
T PF04962_consen 166 YPPHKHDRRMEPDETELEEIYYFRFNPPQGFGFQRVYTDDPQLDEHYVVRNGDAVLIPSG-YHPVVAAPG 234 (261)
T ss_dssp -SEEE-CCEEEESEECTEEEEEEESSTTS-EEEEEEE-TTSSSEEEEEEETTEEEEESTT-B-SEEEEEE
T ss_pred cCCccCCCcCCCccccceeEEEEEccCcccEEEEEEECCCCCCcEEEEEECCCEEEeCCC-CCCcCcCCC
Confidence 78999998 8999883 2 4444222211 11122678999999999999 665444443
No 80
>COG3822 ABC-type sugar transport system, auxiliary component [General function prediction only]
Probab=89.67 E-value=0.53 Score=39.38 Aligned_cols=26 Identities=31% Similarity=0.716 Sum_probs=23.7
Q ss_pred EEEEeCCCEEEeCCCCeeeeeeCCCC
Q 029842 117 RIWIKAGDLIVLPAGIYHRFTLDTSN 142 (187)
Q Consensus 117 ~~~v~~GDlIiIP~g~~H~f~~~~~~ 142 (187)
.+.++||.-|.+|||++|+|-+....
T Consensus 154 ~lkL~PGesitL~Pg~~HsFwae~g~ 179 (225)
T COG3822 154 QLKLSPGESITLPPGLYHSFWAEEGG 179 (225)
T ss_pred eEEECCCCcEecCCCceeeeeecCCc
Confidence 68899999999999999999988764
No 81
>PRK15131 mannose-6-phosphate isomerase; Provisional
Probab=89.37 E-value=1 Score=41.10 Aligned_cols=42 Identities=17% Similarity=0.290 Sum_probs=34.4
Q ss_pred CcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeee
Q 029842 92 ADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTL 138 (187)
Q Consensus 92 ~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~ 138 (187)
....|..|++|++....++. .+.+++|+.++||++.....-.
T Consensus 338 ~~~~Illv~~G~~~i~~~~~-----~~~l~~G~~~fipa~~~~~~~~ 379 (389)
T PRK15131 338 QSAAILFCVEGEAVLWKGEQ-----QLTLKPGESAFIAANESPVTVS 379 (389)
T ss_pred CCcEEEEEEcceEEEEeCCe-----EEEECCCCEEEEeCCCccEEEe
Confidence 35689999999999877655 7889999999999987665433
No 82
>PF13759 2OG-FeII_Oxy_5: Putative 2OG-Fe(II) oxygenase; PDB: 3BVC_B 2RG4_A.
Probab=88.49 E-value=1.3 Score=32.15 Aligned_cols=27 Identities=19% Similarity=0.465 Sum_probs=18.7
Q ss_pred cEEEEEEeCCCEEEeCCCCeeeeeeCC
Q 029842 114 QWIRIWIKAGDLIVLPAGIYHRFTLDT 140 (187)
Q Consensus 114 ~~~~~~v~~GDlIiIP~g~~H~f~~~~ 140 (187)
.++.+..++||||+.|+-+.|......
T Consensus 64 ~~~~~~p~~G~lvlFPs~l~H~v~p~~ 90 (101)
T PF13759_consen 64 PYYIVEPEEGDLVLFPSWLWHGVPPNN 90 (101)
T ss_dssp SEEEE---TTEEEEEETTSEEEE----
T ss_pred ceEEeCCCCCEEEEeCCCCEEeccCcC
Confidence 478899999999999999999987543
No 83
>COG1741 Pirin-related protein [General function prediction only]
Probab=87.63 E-value=2.2 Score=37.36 Aligned_cols=68 Identities=25% Similarity=0.292 Sum_probs=54.0
Q ss_pred cCcccccccC-cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCC--CCeeeeeeC--CCCcEEEEEEEcCCC
Q 029842 83 KNFYTEHIHA-DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPA--GIYHRFTLD--TSNYVKLMRLFVGEP 154 (187)
Q Consensus 83 ~~~~~eH~H~-~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~--g~~H~f~~~--~~~~~~~ir~f~~~~ 154 (187)
+..+..|-|. .+-|-|+++|+....-...+ .-.+.|||+-..-| |+.|.-.+. .+.++..++++...|
T Consensus 54 G~~f~pHPHrg~etvTyvl~G~i~HrDS~Gn----~~~i~pGdvqwMTAG~GI~HSE~~~~~~~~~l~~~QlWv~lP 126 (276)
T COG1741 54 GRGFPPHPHRGLETVTYVLDGEIEHRDSLGN----KGVIRPGDVQWMTAGSGIVHSEMNPPSTGKPLHGLQLWVNLP 126 (276)
T ss_pred CCcCCCCCCCCcEEEEEEEccEEEEeecCCc----eeeecccceeEEcCCCceeecccCCccCCCccceeeeecCCc
Confidence 3468999997 67788999999888765433 67888999988888 589987653 566899999988775
No 84
>COG1482 ManA Phosphomannose isomerase [Carbohydrate transport and metabolism]
Probab=86.61 E-value=0.54 Score=41.86 Aligned_cols=23 Identities=35% Similarity=0.637 Sum_probs=21.2
Q ss_pred EEEEeCCCEEEeCCCCeeeeeeC
Q 029842 117 RIWIKAGDLIVLPAGIYHRFTLD 139 (187)
Q Consensus 117 ~~~v~~GDlIiIP~g~~H~f~~~ 139 (187)
++.++|||++.||+|++|.+..+
T Consensus 159 ~v~lkpGe~~fl~Agt~HA~~~G 181 (312)
T COG1482 159 RVKLKPGEAFFLPAGTPHAYLKG 181 (312)
T ss_pred EEecCCCCEEEecCCCceeeccc
Confidence 79999999999999999998655
No 85
>TIGR00218 manA mannose-6-phosphate isomerase, class I. The names phosphomannose isomerase and mannose-6-phosphate isomerase are synonomous. This family contains two rather deeply branched groups. One group contains an experimentally determined phosphomannose isomerase of Streptococcus mutans as well as three uncharacterized paralogous proteins of Bacillus subtilis, all at more than 50 % identity to each other, plus a more distant homolog from Archaeoglobus fulgidus. The other group contains members from E. coli, budding yeast, Borrelia burgdorferi, etc.
Probab=85.79 E-value=0.41 Score=41.85 Aligned_cols=20 Identities=40% Similarity=0.810 Sum_probs=18.8
Q ss_pred EEEEeCCCEEEeCCCCeeee
Q 029842 117 RIWIKAGDLIVLPAGIYHRF 136 (187)
Q Consensus 117 ~~~v~~GDlIiIP~g~~H~f 136 (187)
.+.+++||.|.||+|+.|..
T Consensus 152 ~v~v~~Gd~i~ipaGt~HA~ 171 (302)
T TIGR00218 152 RIKLKPGDFFYVPSGTPHAY 171 (302)
T ss_pred ccccCCCCEEEeCCCCcccc
Confidence 68999999999999999984
No 86
>PF09313 DUF1971: Domain of unknown function (DUF1971); InterPro: IPR015392 This uncharacterised domain is predominantly found in bacterial Tellurite resistance proteins. ; PDB: 3BB6_C 3M70_A 3DL3_I.
Probab=85.15 E-value=4.4 Score=29.12 Aligned_cols=58 Identities=22% Similarity=0.188 Sum_probs=41.8
Q ss_pred CcccccccC--cceEEEEeeceEEEEEecCCCc--EEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 84 NFYTEHIHA--DEEIRYCLEGSGYFDVRDESDQ--WIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 84 ~~~~eH~H~--~~Ei~yileG~g~f~i~~~~d~--~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
.+...|.=. ....+-|++|+..|..-+.++. --.+.+.+|+.-+|+|...|+...-++
T Consensus 14 ~l~~~H~TK~GtWg~l~Vl~G~L~f~~~~~~~~~~~~~~~~~~~~~~~i~Pq~wH~V~p~s~ 75 (82)
T PF09313_consen 14 ALLERHNTKAGTWGKLRVLEGELKFYGLDEEGEEPEEEVFIPAGQPPVIEPQQWHRVEPLSD 75 (82)
T ss_dssp GGGSSBCCSTTEEEEEEEEESEEEEEEESSTT-SESEEEEEETTEEEEE-TT-EEEEEESST
T ss_pred HHHhhcCCCCCeEEEEEEEeeEEEEEEECCCCCceeEEEEeCCCCCceeCCCceEEEEECCC
Confidence 455555443 4678889999999999866432 336788999999999999999986543
No 87
>PF06865 DUF1255: Protein of unknown function (DUF1255); InterPro: IPR009664 This family consists of several conserved hypothetical bacterial proteins of around 95 residues in length. The function of this family is unknown; PDB: 2OYZ_A 3HQX_A.
Probab=83.53 E-value=6.2 Score=29.25 Aligned_cols=46 Identities=17% Similarity=0.240 Sum_probs=34.0
Q ss_pred cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
..|+.=|++|++...+.+.+ .| ....+|+-..||+|..-.......
T Consensus 41 ~~E~M~vvsG~l~V~lpg~~-ew--~~~~aGesF~VpanssF~v~v~~~ 86 (94)
T PF06865_consen 41 APERMEVVSGELEVKLPGED-EW--QTYSAGESFEVPANSSFDVKVKEP 86 (94)
T ss_dssp S-EEEEEEESEEEEEETT-S-S---EEEETT-EEEE-TTEEEEEEESS-
T ss_pred CCEEEEEEEeEEEEEcCCCc-cc--EEeCCCCeEEECCCCeEEEEECcc
Confidence 67999999999999999753 44 567799999999999887776654
No 88
>PF06719 AraC_N: AraC-type transcriptional regulator N-terminus; InterPro: IPR009594 This entry represents the N terminus of bacterial ARAC-type transcriptional regulators. In Escherichia coli these regulate the L-arabinose operon through sensing the presence of arabinose, and when the sugar is present, transmitting this information from the arabinose-binding domains to the protein s DNA-binding domains []. This family might represent the N-terminal arm of the protein, which binds to the C-terminal DNA binding domains to hold them in a state where the protein prefers to loop and remain non-activating []. This domain is associated with the IPR000005 from INTERPRO domain.
Probab=83.47 E-value=7.9 Score=30.37 Aligned_cols=56 Identities=16% Similarity=0.136 Sum_probs=47.4
Q ss_pred CcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeee---eeCCCCcEEEEEEEcC
Q 029842 92 ADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRF---TLDTSNYVKLMRLFVG 152 (187)
Q Consensus 92 ~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f---~~~~~~~~~~ir~f~~ 152 (187)
..-=+.+|+.|+=...++++ .+...+|++++.+.+++=.. .++++.++.++++.-+
T Consensus 22 y~p~i~~vlQG~K~~~~g~~-----~~~Y~~g~~lv~~~~lPv~~~v~~AS~~~P~l~l~l~ld 80 (155)
T PF06719_consen 22 YEPSICIVLQGSKRVHLGDQ-----VFEYDAGQYLVSSVDLPVESEVVEASPEEPYLALSLELD 80 (155)
T ss_pred cCCeEEEEEeeeEEEEECCc-----eEEecCCcEEEecCCCcEEEEEeeccCCCCEEEEEEEcC
Confidence 35567899999999999988 89999999999999977654 5678899999988554
No 89
>PRK15131 mannose-6-phosphate isomerase; Provisional
Probab=82.53 E-value=1.5 Score=40.02 Aligned_cols=24 Identities=17% Similarity=0.252 Sum_probs=21.7
Q ss_pred EEEEeCCCEEEeCCCCeeeeeeCC
Q 029842 117 RIWIKAGDLIVLPAGIYHRFTLDT 140 (187)
Q Consensus 117 ~~~v~~GDlIiIP~g~~H~f~~~~ 140 (187)
.+.++|||.|.||+|+.|.+-.+.
T Consensus 238 ~v~l~pGeaifipAg~~HAyl~G~ 261 (389)
T PRK15131 238 VVKLNPGEAMFLFAETPHAYLQGV 261 (389)
T ss_pred EEEeCCCCEEEeCCCCCeEEcCCe
Confidence 699999999999999999987654
No 90
>PRK10579 hypothetical protein; Provisional
Probab=82.19 E-value=8.9 Score=28.44 Aligned_cols=46 Identities=11% Similarity=0.139 Sum_probs=37.9
Q ss_pred cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
..|+.=|++|++...+.+.+ . +....+|+-..||+|..-.......
T Consensus 41 ~~E~MeivsG~l~V~Lpg~~-e--w~~~~aG~sF~VpanssF~l~v~~~ 86 (94)
T PRK10579 41 EPEEMTVISGALNVLLPGAT-D--WQVYEAGEVFNVPGHSEFHLQVAEP 86 (94)
T ss_pred CcEEEEEEeeEEEEECCCCc-c--cEEeCCCCEEEECCCCeEEEEECcc
Confidence 57999999999999998753 3 4677899999999999877776554
No 91
>PHA02890 hypothetical protein; Provisional
Probab=73.94 E-value=19 Score=31.39 Aligned_cols=58 Identities=19% Similarity=0.223 Sum_probs=45.4
Q ss_pred eEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCC
Q 029842 95 EIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEP 154 (187)
Q Consensus 95 Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~ 154 (187)
-...||+|++...+. .+|+-+...+.+||-+++--++.|.... .+-....+++=.+.|
T Consensus 94 ~FVlCL~Gs~~In~~-~~d~~iS~~I~kGeaF~mdv~t~H~i~T-Knl~L~Viky~vd~p 151 (278)
T PHA02890 94 FFVACIEGSCKINVN-IGDREISDHIHENQGFIMDVGLDHAIDS-DNVGLFITKFEVDAH 151 (278)
T ss_pred EEEEEeCCeEEEEEe-cCCceeeeeeecCceEEEEccceEEEEc-cceeEEEEEEEecce
Confidence 345678999999988 5688999999999999999999999887 555555555544433
No 92
>PLN02288 mannose-6-phosphate isomerase
Probab=73.36 E-value=5.6 Score=36.51 Aligned_cols=40 Identities=23% Similarity=0.357 Sum_probs=30.8
Q ss_pred cCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCe
Q 029842 91 HADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIY 133 (187)
Q Consensus 91 H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~ 133 (187)
.+...|..|++|++.....+. . ..+.+++|+.++||++..
T Consensus 352 ~~gp~Illv~~G~~~i~~~~~--~-~~~~l~~G~~~fv~a~~~ 391 (394)
T PLN02288 352 VPGPSVFLVIEGEGVLSTGSS--E-DGTAAKRGDVFFVPAGTE 391 (394)
T ss_pred CCCCEEEEEEcCEEEEecCCc--c-ceEEEeceeEEEEeCCCc
Confidence 456789999999999866543 1 136799999999999753
No 93
>PF06172 Cupin_5: Cupin superfamily (DUF985); InterPro: IPR009327 This is a family of uncharacterised proteins found in bacteria and eukaryotes.; PDB: 1ZNP_G 1XE8_B 1XE7_A 3M3I_F 3LOI_A 3LZZ_B 1YUD_D.
Probab=69.95 E-value=46 Score=26.04 Aligned_cols=63 Identities=19% Similarity=0.293 Sum_probs=42.9
Q ss_pred cCcccccccCcceEEEEeec-eEEEEEecCCCcEEEEEEeC----CC--EEEeCCCCeeeeeeCCCCcEE
Q 029842 83 KNFYTEHIHADEEIRYCLEG-SGYFDVRDESDQWIRIWIKA----GD--LIVLPAGIYHRFTLDTSNYVK 145 (187)
Q Consensus 83 ~~~~~eH~H~~~Ei~yileG-~g~f~i~~~~d~~~~~~v~~----GD--lIiIP~g~~H~f~~~~~~~~~ 145 (187)
+.+...|.=..+|+.+...| ...+.+-+.++.+.++.+.+ |. .++||+|+.......+...+.
T Consensus 51 ~~~S~~Hrv~sdEiw~~~~G~pl~l~~i~~dg~~~~~~LG~d~~~g~~~q~vVp~G~W~aa~l~~~~~y~ 120 (139)
T PF06172_consen 51 GEFSAWHRVDSDEIWHFHAGDPLELHLIDPDGSYETVVLGPDLAAGERPQVVVPAGTWQAAELEPEGDYS 120 (139)
T ss_dssp TBEEEEEEESSEEEEEEEEES-EEEEEECTTSTEEEEEESSTTCTTEBSEEEE-TTSEEEEEECESSSEE
T ss_pred CCCCccEEcCCCEEEEEEcCCCEEEEEEcCCCCeEEEEECCCCCCCceEEEEECCCEEEEccccCCCCEE
Confidence 34555666678999999999 55566665677887777754 43 489999998888654444443
No 94
>PHA02984 hypothetical protein; Provisional
Probab=69.88 E-value=35 Score=30.04 Aligned_cols=60 Identities=17% Similarity=0.128 Sum_probs=46.0
Q ss_pred ceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeC-CCCcEEEEEEEcCCC
Q 029842 94 EEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLD-TSNYVKLMRLFVGEP 154 (187)
Q Consensus 94 ~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~-~~~~~~~ir~f~~~~ 154 (187)
.-+..||.|++...+. .+|+.+...+.+||-+++--++.|..+.. .+-.+..+++=.+.|
T Consensus 94 y~FvlCl~G~~~I~~~-~~~~~is~~I~kGeaf~md~~t~h~i~T~~knl~L~Vi~y~v~~p 154 (286)
T PHA02984 94 YMFVLCLNGKTSIECF-NKGSKITNTIKKGEAFTLNLKTKYVTTTKDKNLHLAVITYTSNCP 154 (286)
T ss_pred EEEEEEcCCeEEEEEe-cCCceeeeEEecCceEEEEccceEEEEeCCCceEEEEEEEEecce
Confidence 3455688999999988 46788999999999999999999998765 445555555444444
No 95
>PF05962 HutD: HutD; InterPro: IPR010282 This entry contains proteins of unknown function, which include HutD from Pseudomonas fluorescens and Ves from Escherichia coli K12. HutD from P. fluorescens is a component of the histidine uptake and utilisation operon. HutD is operonic with the well characterised repressor protein HutC. Genetic analysis using transcriptional fusions (lacZ) and deletion mutants shows that hutD is necessary to maintain fitness in environments replete with histidine. HutD probably sets an upper bound on the level of hut operon transcription []. The mechanistic basis is unknown, but in silico molecular docking studies based on the crystal structure of HutD from Pseudomonas aeruginosa show that urocanate (the first breakdown product of histidine) docks with the active site of HutD.; PDB: 3ESG_A 1YLL_D.
Probab=69.20 E-value=7 Score=31.90 Aligned_cols=50 Identities=22% Similarity=0.305 Sum_probs=32.1
Q ss_pred CcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEE
Q 029842 92 ADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMR 148 (187)
Q Consensus 92 ~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir 148 (187)
...-+.|+++|+......++ .+.+.+||.+++-. .+......+..+..++
T Consensus 134 ~~~~l~~~~~G~~~i~~~~~-----~~~L~~~d~l~~~~--~~~~~l~~~g~ll~v~ 183 (184)
T PF05962_consen 134 ASTVLVYVLEGAWSITEGGN-----CISLSAGDLLLIDD--EEDLPLTGDGQLLWVS 183 (184)
T ss_dssp -SEEEEEESSS-EEECCCEE-----EEEE-TT-EEEEES--EECEEEEEECCEEEEE
T ss_pred CCEEEEEEeeCcEEEecCCC-----ceEcCCCCEEEEeC--CCceEecCCeeEEEEe
Confidence 35567899999766655555 89999999998877 4444555555555554
No 96
>PRK10202 ebgC cryptic beta-D-galactosidase subunit beta; Reviewed
Probab=68.79 E-value=30 Score=27.24 Aligned_cols=61 Identities=23% Similarity=0.254 Sum_probs=41.1
Q ss_pred cccC-cceEEEEeeceEEEEEecC------------CC------cEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEE
Q 029842 89 HIHA-DEEIRYCLEGSGYFDVRDE------------SD------QWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 89 H~H~-~~Ei~yileG~g~f~i~~~------------~d------~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~ 149 (187)
-.|. +-.|-|+|+|+-.+.+... .| ..-.+.+.+|+++++.|+-.|+.. +...++-+.+
T Consensus 60 E~Hr~YiDIq~~l~G~E~i~~~~~~~~~~~~~y~~e~D~~f~~~~~~~v~l~~G~F~iffP~daH~P~--~~~~ikK~Vv 137 (149)
T PRK10202 60 TGHRRYFEVHYYLQGQQKIEYAPKETLQVVEYYRDETDREYLKGCGETVEVHEGQIVICDIHEAYRFI--CNNAVKKVVL 137 (149)
T ss_pred cccccEEEEEEEEeCeEEEEEEEcccCccccccCcccCeeeccCCCcEEEeCCCeEEEECCcccccCC--CCCcEEEEEE
Confidence 4553 6778888888877766432 11 112688999999999999999987 3344555444
Q ss_pred Ec
Q 029842 150 FV 151 (187)
Q Consensus 150 f~ 151 (187)
-.
T Consensus 138 KV 139 (149)
T PRK10202 138 KV 139 (149)
T ss_pred EE
Confidence 33
No 97
>PRK15186 AraC family transcriptional regulator; Provisional
Probab=68.77 E-value=16 Score=31.88 Aligned_cols=43 Identities=14% Similarity=0.045 Sum_probs=35.1
Q ss_pred eEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 95 EIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 95 Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
-++++.+|.....-.+.+ .+.|.+|.+|++|.+..|.+.+.+.
T Consensus 40 ~li~v~~G~~~i~~~~g~----~l~i~~p~~~~~p~~~~~~~~~~~~ 82 (291)
T PRK15186 40 VLIKLTTGKISITTSSGE----YITASGPMLIFLAKDQTIHITMEET 82 (291)
T ss_pred EEEEeccceEEEEeCCCc----eEEeCCCeEEEEeCCcEEEEEeccc
Confidence 568888888887764431 5899999999999999999987653
No 98
>COG2850 Uncharacterized conserved protein [Function unknown]
Probab=68.18 E-value=3.7 Score=37.48 Aligned_cols=84 Identities=14% Similarity=0.154 Sum_probs=52.1
Q ss_pred hHHHHHHHHHcCCC---eeeeeeeCcccccCHHHHhcCcccccccCcceEEEEeeceEEEEEecCC--------------
Q 029842 50 DEELQKIREARGYS---YMDLLDLCPEKVTNYEEKLKNFYTEHIHADEEIRYCLEGSGYFDVRDES-------------- 112 (187)
Q Consensus 50 ~~~l~~l~~~~Gy~---~~dvv~v~~~~~p~~~~~~~~~~~eH~H~~~Ei~yileG~g~f~i~~~~-------------- 112 (187)
.+.+.+|++.-+|- ..|-+.||-.. -+.-+..|.=.++-..+=..|.-...|....
T Consensus 100 ~p~v~~l~~~FrflP~wr~ddiMIS~a~-------~GGgvg~H~D~YDVfliQg~G~RRW~v~~~~~~~~~~~~~d~~~~ 172 (383)
T COG2850 100 HPEVAALMEPFRFLPDWRIDDIMISFAA-------PGGGVGPHFDQYDVFLIQGQGRRRWRVGKKCNMSTLCPHPDLLIL 172 (383)
T ss_pred CHHHHHHHHHhccCccccccceEEEEec-------CCCccCccccchheeEEeecccceeecCCcccccCcCCCcchhhc
Confidence 46677777766643 12333334211 1334667777777666666666667665331
Q ss_pred ---CcEEEEEEeCCCEEEeCCCCeeeeeeCC
Q 029842 113 ---DQWIRIWIKAGDLIVLPAGIYHRFTLDT 140 (187)
Q Consensus 113 ---d~~~~~~v~~GDlIiIP~g~~H~f~~~~ 140 (187)
.-.+...++|||++.||||.+|.-.+..
T Consensus 173 ~~f~~~~d~vlepGDiLYiPp~~~H~gvae~ 203 (383)
T COG2850 173 APFEPDIDEVLEPGDILYIPPGFPHYGVAED 203 (383)
T ss_pred CCCCchhhhhcCCCceeecCCCCCcCCcccc
Confidence 1123467899999999999999877663
No 99
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=68.03 E-value=36 Score=26.94 Aligned_cols=36 Identities=28% Similarity=0.437 Sum_probs=27.8
Q ss_pred cceEEEEeeceEEEEEecCCC-cEEEEEEeCCCEEEe
Q 029842 93 DEEIRYCLEGSGYFDVRDESD-QWIRIWIKAGDLIVL 128 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d-~~~~~~v~~GDlIiI 128 (187)
...+++|++|.......+.++ +.....+.+||++-.
T Consensus 38 ~~~~y~V~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~ 74 (211)
T PRK11753 38 AETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGE 74 (211)
T ss_pred CCeEEEEEeCEEEEEEECCCCCEEEEEEcCCCCEEee
Confidence 567999999999888765554 466667899999743
No 100
>PF14499 DUF4437: Domain of unknown function (DUF4437); PDB: 2QDR_A.
Probab=67.85 E-value=3.6 Score=35.60 Aligned_cols=61 Identities=20% Similarity=0.202 Sum_probs=34.5
Q ss_pred ccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEE
Q 029842 86 YTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 86 ~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~ 149 (187)
..-|+|+..|=.||++|+..+...+..+ .-.+.+|-++..|+++.|....+++..+-.||.
T Consensus 184 g~i~~h~~~eraVvI~G~~~~~~~~~~~---~~~L~~GSYf~s~~~~~H~~~~~e~~~vlyIRt 244 (251)
T PF14499_consen 184 GRIHTHASNERAVVISGELDYQSYGASN---FGTLDPGSYFGSPGHITHGIFITEDECVLYIRT 244 (251)
T ss_dssp -SEEE--S-EEEEEEEEEEEETTEEEET---TEEEEE-TT-EE--E------EESS-EEEEEEE
T ss_pred CceeccCCceEEEEEEeEEEEeecccCC---CccccCCcccccCCcccccccccCCCEEEEEEE
Confidence 4679999999999999999995532111 578899999999999999986666666666664
No 101
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=66.62 E-value=38 Score=27.79 Aligned_cols=57 Identities=18% Similarity=0.131 Sum_probs=38.8
Q ss_pred cceEEEEeeceEEEEEecCCCc-EEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEE
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQ-WIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~-~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~ 149 (187)
..-++++++|......-+.+|+ .+...+.+||++-...+..+.+++..-....++.+
T Consensus 56 ~~~ly~I~~G~vkl~~~~~~G~e~i~~~~~~Gd~fG~~~~~~~~~~~~A~~ds~v~~i 113 (230)
T PRK09391 56 ADYVYQVESGAVRTYRLLSDGRRQIGAFHLPGDVFGLESGSTHRFTAEAIVDTTVRLI 113 (230)
T ss_pred CCeEEEEEeCEEEEEEECCCCcEEEEEEecCCceecccCCCcCCeEEEEcCceEEEEE
Confidence 4678999999998887655554 45556689999877776666565544444444443
No 102
>PF00027 cNMP_binding: Cyclic nucleotide-binding domain; InterPro: IPR000595 Proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues [, , ]. The best studied of these proteins is the prokaryotic catabolite gene activator (also known as the cAMP receptor protein) (gene crp) where such a domain is known to be composed of three alpha-helices and a distinctive eight-stranded, antiparallel beta-barrel structure. There are six invariant amino acids in this domain, three of which are glycine residues that are thought to be essential for maintenance of the structural integrity of the beta-barrel. cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) contain two tandem copies of the cyclic nucleotide-binding domain. The cAPK's are composed of two different subunits, a catalytic chain and a regulatory chain, which contains both copies of the domain. The cGPK's are single chain enzymes that include the two copies of the domain in their N-terminal section. Vertebrate cyclic nucleotide-gated ion-channels also contain this domain. Two such cations channels have been fully characterised, one is found in rod cells where it plays a role in visual signal transduction.; PDB: 1O7F_A 2BYV_E 3E97_A 3U10_A 2H6B_A 3SHR_A 2OZ6_A 1WGP_A 3LA2_A 3LA3_B ....
Probab=65.21 E-value=25 Score=23.25 Aligned_cols=38 Identities=18% Similarity=0.203 Sum_probs=30.6
Q ss_pred cceEEEEeeceEEEEEecCCCc-EEEEEEeCCCEEEeCC
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQ-WIRIWIKAGDLIVLPA 130 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~-~~~~~v~~GDlIiIP~ 130 (187)
...+++|++|.......+.+++ -+...+.+||++-..+
T Consensus 17 ~~~~~~i~~G~v~~~~~~~~~~~~~~~~~~~g~~~g~~~ 55 (91)
T PF00027_consen 17 CDHIYIILSGEVKVSSINEDGKEQIIFFLGPGDIFGEIE 55 (91)
T ss_dssp ESEEEEEEESEEEEEEETTTSEEEEEEEEETTEEESGHH
T ss_pred CCEEEEEEECceEEEeceecceeeeecceeeecccccee
Confidence 6799999999999999877665 4567888999875544
No 103
>cd00038 CAP_ED effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO sensor. In all cases binding of the effector leads to conformational changes and the ability to activate transcription. Cyclic nucleotide-binding domain similar to CAP are also present in cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) and vertebrate cyclic nucleotide-gated ion-channels. Cyclic nucleotide-monophosphate binding domain; proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues; the best studied is the prokaryotic catabolite gene activator, CAP, where such a domain is known to be composed of three alpha-helices and a distinctive eight-stranded, antiparallel beta-barrel structure; three conserved glycine residues are thought to be essential for maintenance of
Probab=64.18 E-value=24 Score=23.93 Aligned_cols=37 Identities=24% Similarity=0.202 Sum_probs=29.0
Q ss_pred cceEEEEeeceEEEEEecCCC-cEEEEEEeCCCEEEeC
Q 029842 93 DEEIRYCLEGSGYFDVRDESD-QWIRIWIKAGDLIVLP 129 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d-~~~~~~v~~GDlIiIP 129 (187)
.+.++++++|.......+.++ ......+.+|+++-..
T Consensus 35 ~~~~~~i~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~ 72 (115)
T cd00038 35 ADSLYIVLSGSVEVYKLDEDGREQIVGFLGPGDLFGEL 72 (115)
T ss_pred CCeEEEEEeCEEEEEEECCCCcEEEEEecCCccCcChH
Confidence 467999999999998886654 4666778899987554
No 104
>PLN02288 mannose-6-phosphate isomerase
Probab=64.12 E-value=5.8 Score=36.41 Aligned_cols=25 Identities=16% Similarity=0.243 Sum_probs=22.0
Q ss_pred EEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 117 RIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 117 ~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
.+.++||+-|++|||++|.+-.+..
T Consensus 252 ~v~L~PGeaifl~ag~~HAYl~G~~ 276 (394)
T PLN02288 252 YVKLNPGEALYLGANEPHAYLSGEC 276 (394)
T ss_pred eEecCCCCEEEecCCCCceecCCCe
Confidence 7999999999999999999866553
No 105
>PRK00924 5-keto-4-deoxyuronate isomerase; Provisional
Probab=63.33 E-value=21 Score=31.32 Aligned_cols=56 Identities=16% Similarity=0.214 Sum_probs=38.0
Q ss_pred ccccccC-cceEEEEe---eceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 86 YTEHIHA-DEEIRYCL---EGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 86 ~~eH~H~-~~Ei~yil---eG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
++.|+|+ ..|++|-. +++..|.+.++.|+---+.|+-+|.|++|+--.|.-..+++
T Consensus 191 yPPHkHDrr~E~YlYf~l~~~qrV~h~mG~pdETrh~~v~n~~aVisP~wsih~g~gt~~ 250 (276)
T PRK00924 191 MPCHTHDRRMEVYFYFDMPEDARVFHFMGEPQETRHIVVHNEQAVISPSWSIHSGVGTSN 250 (276)
T ss_pred CCCccCCCCcceEEEEEcCCCceEEecCCCccceeeEEEECCCEEECCCcceecCcCccc
Confidence 6899998 55655521 33444444444444334889999999999999998665554
No 106
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=62.99 E-value=35 Score=26.86 Aligned_cols=36 Identities=8% Similarity=0.133 Sum_probs=28.0
Q ss_pred ceEEEEeeceEEEEEecCCCc-EEEEEEeCCCEEEeC
Q 029842 94 EEIRYCLEGSGYFDVRDESDQ-WIRIWIKAGDLIVLP 129 (187)
Q Consensus 94 ~Ei~yileG~g~f~i~~~~d~-~~~~~v~~GDlIiIP 129 (187)
+.+++|++|.......+.+|+ .+...+.+||++=-+
T Consensus 27 ~~~y~I~~G~vr~~~~~~~G~e~~l~~~~~Gd~~G~~ 63 (202)
T PRK13918 27 DMLYRVRSGLVRLHTVDDEGNALTLRYVRPGEYFGEE 63 (202)
T ss_pred CeEEEEEeeEEEEEEECCCCCEEEEEEecCCCeechH
Confidence 579999999999888776665 555556999987544
No 107
>cd06919 Asp_decarbox Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production. Decarboxylation of aspartate is the major route of beta-alanine production in bacteria, and is catalyzed by the enzyme L-aspartate decarboxylase (ADC), EC:4.1.1.11 which requires a pyruvoyl group for its activity. The pyruvoyl cofactor is covalently bound to the enzyme. The protein is synthesized as a proenzyme and cleaved via self-processing at Gly23-Ser24 to yield an alpha chain (C-terminal fragment) and beta chain (N-terminal fragment), and the pyruvoyl group. Beta-alanine is required for the biosynthesis of pantothenate, in which the enzyme plays a critical regulatory role. The active site of the tetrameric enzyme is located at the interface of two subunits, with a Lysine and a Histidine from the beta chain of one subunit forming the active site with residues from the alpha chain of the adjacent subunit. This alignment
Probab=62.96 E-value=4.3 Score=30.98 Aligned_cols=30 Identities=23% Similarity=0.412 Sum_probs=24.0
Q ss_pred EEEeec---eEEEEEecCCCcEEEEEEeCCCEEEeCC
Q 029842 97 RYCLEG---SGYFDVRDESDQWIRIWIKAGDLIVLPA 130 (187)
Q Consensus 97 ~yileG---~g~f~i~~~~d~~~~~~v~~GDlIiIP~ 130 (187)
-|++.| +|...++|.. ...+++||.|+|-+
T Consensus 56 TYvI~g~~gSg~I~lNGAA----Ar~~~~GD~vII~s 88 (111)
T cd06919 56 TYVIPGERGSGVICLNGAA----ARLGQPGDRVIIMA 88 (111)
T ss_pred EEEEEcCCCCCEEEeCCHH----HhcCCCCCEEEEEE
Confidence 466665 5999999965 78899999999854
No 108
>PF05721 PhyH: Phytanoyl-CoA dioxygenase (PhyH); InterPro: IPR008775 This family is made up of several eukaryotic phytanoyl-CoA dioxygenase (PhyH) proteins as well as a number of bacterial deoxygenases. PhyH is a peroxisomal enzyme catalysing the first step of phytanic acid alpha-oxidation. PhyH deficiency causes Refsum's disease (RD) which is an inherited neurological syndrome biochemically characterised by the accumulation of phytanic acid in plasma and tissues [].; PDB: 3GJA_A 3EMR_A 3OBZ_A 2OPW_A 3NNL_B 3NNF_A 3NNM_B 3NNJ_A 2FCV_B 2FCU_A ....
Probab=62.89 E-value=7.7 Score=30.01 Aligned_cols=28 Identities=29% Similarity=0.615 Sum_probs=22.3
Q ss_pred CcEEEEEEeCCCEEEeCCCCeeeeeeCC
Q 029842 113 DQWIRIWIKAGDLIVLPAGIYHRFTLDT 140 (187)
Q Consensus 113 d~~~~~~v~~GDlIiIP~g~~H~f~~~~ 140 (187)
..++.+.+++||+|+.-+.+.|+-....
T Consensus 177 ~~~~~~~~~~Gdvl~~~~~~~H~s~~N~ 204 (211)
T PF05721_consen 177 DEWVPVPMKAGDVLFFHSRLIHGSGPNT 204 (211)
T ss_dssp SGCEEE-BSTTEEEEEETTSEEEEE-B-
T ss_pred CceEEeecCCCeEEEEcCCccccCCCCC
Confidence 4578999999999999999999987643
No 109
>KOG3706 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.79 E-value=3.4 Score=39.13 Aligned_cols=39 Identities=18% Similarity=0.236 Sum_probs=30.6
Q ss_pred CCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEE
Q 029842 112 SDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLF 150 (187)
Q Consensus 112 ~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f 150 (187)
+.-++...++|||+|.+|.|+.|...+.+.-.-..|-+-
T Consensus 377 gePV~e~vle~GDllYfPRG~IHQA~t~~~vHSlHvTlS 415 (629)
T KOG3706|consen 377 GEPVHEFVLEPGDLLYFPRGTIHQADTPALVHSLHVTLS 415 (629)
T ss_pred CCchHHhhcCCCcEEEecCcceeeccccchhceeEEEee
Confidence 445888999999999999999999988775554444443
No 110
>PF05726 Pirin_C: Pirin C-terminal cupin domain; InterPro: IPR008778 This entry represents C-terminal domain of Pirin proteins from both eukaryotes and prokaryotes. The function of Pirin is unknown but the gene coding for this protein is known to be expressed in all tissues in the human body although it is expressed most strongly in the liver and heart. Pirin is known to be a nuclear protein, exclusively localised within the nucleoplasma and predominantly concentrated within dot-like subnuclear structures []. Pirin is composed of two structurally similar domains arranged face to face. The N-terminal domain additionally features four beta-strands, and the C-terminal domain also includes four additional -strands and a short alpha-helix. Although the two domains are similar, the C-terminal domain of Pirin differs from the N-terminal domain as it does not contain a metal binding site and its sequence does not contain the conserved metal-coordinating residues []. Pirin is confirmed to be a member of the cupin superfamily on the basis of primary sequence and structural similarity. The presence of a metal binding site in the N-terminal beta-barrel of Pirin, may be significant in its role in regulating NFI DNA replication and NF-kappaB transcription factor activity []. Pirin structure has been found to closely resemble members of the cupin superfamily. Pirin contains the two characteristic sequences of the cupin superfamily, namely PG-(X)5-HXH-(X)4-E-(X)6-G and G-(X)5-PXG-(X)2-H-(X)3-N separated by a variable stretch of 15-50 amino acids. These motifs are best conserved in the N-terminal where the conserved histidine and glutamic acid residues correspond to the metal-coordinating residues. The C-terminal domain motifs lack the metal binding residues normally associated with the cupin fold []. Pirin was identified to be a metal-binding protein [], and was found that the metal-binding residues of Pirins are highly conserved across mammals, plants, fungi, and prokaryotic organisms. Pirin acts as a cofactor for the transcription factor NFI, the regulatory mechanism of which is generally believed to require the assistance of a metal ion []. Structural data supports the hypothesis that the bound iron of Pirin may participate in this transcriptional regulation by enhancing and stabilising the formation of the p50,Bcl3,DNA complex []. Metals have been implicated directly or indirectly in the NF-kappaB family of transcription factors that control expression of a number of early response genes associated with inflammatory responses, cell growth, cell cycle progression, and neoplastic transformation []. However, most metal-dependent transcription factors are DNA-binding proteins that bind to specific sequences when the metal binds to the protein. Pirin, on the other hand, appears to function differently and bind to the transcription factor DNA complex [].; PDB: 1J1L_A 3ACL_A 2P17_A.
Probab=60.71 E-value=24 Score=25.77 Aligned_cols=48 Identities=29% Similarity=0.367 Sum_probs=33.9
Q ss_pred cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEE
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMR 148 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir 148 (187)
..=..|+++|++ .+++. ...+.+|+++++..|..=.+++.+ ....+|-
T Consensus 20 ~~~~iyv~~G~~--~v~~~-----~~~~~~~~~~~l~~g~~i~~~a~~-~~a~~ll 67 (104)
T PF05726_consen 20 HNAFIYVLEGSV--EVGGE-----EDPLEAGQLVVLEDGDEIELTAGE-EGARFLL 67 (104)
T ss_dssp -EEEEEEEESEE--EETTT-----TEEEETTEEEEE-SECEEEEEESS-SSEEEEE
T ss_pred CEEEEEEEECcE--EECCC-----cceECCCcEEEECCCceEEEEECC-CCcEEEE
Confidence 456799999996 45555 478999999999988777788774 3334443
No 111
>PRK05573 rplU 50S ribosomal protein L21; Validated
Probab=60.47 E-value=28 Score=25.94 Aligned_cols=50 Identities=12% Similarity=0.148 Sum_probs=31.8
Q ss_pred EEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCCceEEeCCC
Q 029842 104 GYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEPVWTAYNRP 162 (187)
Q Consensus 104 g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~gw~~~~r~ 162 (187)
+.+.++|. ++.|++||+|.|+. + . ...++.-.|.-+-++.+ .+++-+.+|
T Consensus 3 AIi~~gGk-----QykV~~Gd~i~v~~-l-~-~~~G~~i~l~~VL~~~~-~~~~~iG~P 52 (103)
T PRK05573 3 AIIKTGGK-----QYKVEEGDVIKVEK-L-D-AEVGDTVEFDEVLLVGG-GEEVKIGAP 52 (103)
T ss_pred EEEEECCE-----EEEEeCCCEEEEcc-c-C-CCCCCEEEEeEEEEEeC-CCCEEECCe
Confidence 45677778 89999999999983 3 1 33344444454555544 555665665
No 112
>PF11142 DUF2917: Protein of unknown function (DUF2917); InterPro: IPR021317 This bacterial family of proteins appears to be restricted to Proteobacteria.
Probab=59.38 E-value=28 Score=23.56 Aligned_cols=40 Identities=20% Similarity=0.314 Sum_probs=32.1
Q ss_pred EEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeee
Q 029842 96 IRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTL 138 (187)
Q Consensus 96 i~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~ 138 (187)
..-|.+|..+.+..+..+ .+.+.+||-+.+++|..=+..+
T Consensus 19 ~l~v~~G~vWlT~~g~~~---D~~L~~G~~l~l~~g~~vvl~a 58 (63)
T PF11142_consen 19 RLRVESGRVWLTREGDPD---DYWLQAGDSLRLRRGGRVVLSA 58 (63)
T ss_pred EEEEccccEEEECCCCCC---CEEECCCCEEEeCCCCEEEEEe
Confidence 377899999999986433 5778899999999998766655
No 113
>TIGR00223 panD L-aspartate-alpha-decarboxylase. Members of this family are aspartate 1-decarboxylase, the enzyme that makes beta-alanine and C02 from aspartate. Beta-alanine is then used to make the vitamin pantothenate, from which coenzyme A is made. Aspartate 1-decarboxylase is synthesized as a proenzyme, then cleaved to an alpha (C-terminal) and beta (N-terminal) subunit with a pyruvoyl group.
Probab=58.55 E-value=5.5 Score=31.05 Aligned_cols=31 Identities=19% Similarity=0.436 Sum_probs=24.4
Q ss_pred EEEeec---eEEEEEecCCCcEEEEEEeCCCEEEeCCC
Q 029842 97 RYCLEG---SGYFDVRDESDQWIRIWIKAGDLIVLPAG 131 (187)
Q Consensus 97 ~yileG---~g~f~i~~~~d~~~~~~v~~GDlIiIP~g 131 (187)
-|++.| +|.+.++|.. ...+++||.|+|=+-
T Consensus 57 TYvI~G~~GSg~I~lNGAA----Arl~~~GD~VII~sy 90 (126)
T TIGR00223 57 TYAIAGKRGSRIICVNGAA----ARCVSVGDIVIIASY 90 (126)
T ss_pred EEEEEcCCCCCEEEeCCHH----HhcCCCCCEEEEEEC
Confidence 466665 5999999975 788999999998653
No 114
>PRK05449 aspartate alpha-decarboxylase; Provisional
Probab=57.93 E-value=5.8 Score=30.93 Aligned_cols=30 Identities=27% Similarity=0.598 Sum_probs=24.0
Q ss_pred EEEeec---eEEEEEecCCCcEEEEEEeCCCEEEeCC
Q 029842 97 RYCLEG---SGYFDVRDESDQWIRIWIKAGDLIVLPA 130 (187)
Q Consensus 97 ~yileG---~g~f~i~~~~d~~~~~~v~~GDlIiIP~ 130 (187)
-|++.| +|.+.++|.. ...+++||.|+|-+
T Consensus 57 TYvI~g~~GSg~I~lNGAA----Ar~~~~GD~vII~a 89 (126)
T PRK05449 57 TYVIAGERGSGVICLNGAA----ARLVQVGDLVIIAA 89 (126)
T ss_pred EEEEEcCCCCCEEEeCCHH----HhcCCCCCEEEEEE
Confidence 466655 5999999965 78899999999865
No 115
>smart00100 cNMP Cyclic nucleotide-monophosphate binding domain. Catabolite gene activator protein (CAP) is a prokaryotic homologue of eukaryotic cNMP-binding domains, present in ion channels, and cNMP-dependent kinases.
Probab=54.62 E-value=41 Score=22.77 Aligned_cols=38 Identities=18% Similarity=0.045 Sum_probs=28.7
Q ss_pred cceEEEEeeceEEEEEecCCC-cEEEEEEeCCCEEEeCC
Q 029842 93 DEEIRYCLEGSGYFDVRDESD-QWIRIWIKAGDLIVLPA 130 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d-~~~~~~v~~GDlIiIP~ 130 (187)
.+.++++++|.......+.++ ..+...+.+||++-...
T Consensus 35 ~~~~y~v~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~~ 73 (120)
T smart00100 35 GDSFYIILSGEVRVYKVLEDGREQILGILGPGDFFGELA 73 (120)
T ss_pred CCcEEEEEeeEEEEEEECCCCceEEEEeecCCceechhh
Confidence 567999999999888765444 46677888999875543
No 116
>PRK09392 ftrB transcriptional activator FtrB; Provisional
Probab=51.13 E-value=43 Score=27.22 Aligned_cols=57 Identities=7% Similarity=0.053 Sum_probs=36.9
Q ss_pred cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeC---CCCeeeeeeCCCCcEEEEEE
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLP---AGIYHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP---~g~~H~f~~~~~~~~~~ir~ 149 (187)
...+++|++|.........+++.....+.+||++-.. .+.++.++...-.+..++++
T Consensus 48 ~~~~~~v~~G~v~~~~~~~~~~~~i~~~~~g~~~g~~~~~~~~~~~~~~~A~~~~~~~~i 107 (236)
T PRK09392 48 ADFLFVVLDGLVELSASSQDRETTLAILRPVSTFILAAVVLDAPYLMSARTLTRSRVLMI 107 (236)
T ss_pred cceEEEEEeCEEEEEEcCCCceEEEEEeCCCchhhhHHHhCCCCCceEEEEcCceEEEEE
Confidence 5689999999998877654555666778899986433 23445444444444555554
No 117
>PRK00924 5-keto-4-deoxyuronate isomerase; Provisional
Probab=49.71 E-value=77 Score=27.86 Aligned_cols=39 Identities=18% Similarity=0.151 Sum_probs=32.4
Q ss_pred Ccce-EEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeee
Q 029842 92 ADEE-IRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHR 135 (187)
Q Consensus 92 ~~~E-i~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~ 135 (187)
...| .+..|.|.|...++++ .+.+.+.|.+.||.|..-.
T Consensus 72 ~rrE~giV~lgG~~~V~vdG~-----~~~l~~~d~LYVp~G~~~v 111 (276)
T PRK00924 72 ERRELGIINIGGAGTVTVDGE-----TYELGHRDALYVGKGAKEV 111 (276)
T ss_pred CCcEEEEEEccceEEEEECCE-----EEecCCCcEEEECCCCcEE
Confidence 3444 5677899999999887 7889999999999997743
No 118
>TIGR02466 conserved hypothetical protein. This family consists of uncharacterized proteins in Caulobacter crescentus CB15, Bdellovibrio bacteriovorus HD100, Synechococcus sp. WH 8102 (2), Silicibacter pomeroyi DSS-3 (2), and Hyphomonas neptunium ATCC 15444. The context of nearby genes differs substantially between members and does point to any specific biological role.
Probab=49.42 E-value=55 Score=27.16 Aligned_cols=58 Identities=14% Similarity=0.286 Sum_probs=38.0
Q ss_pred hcCcccccccCcc---eEEEEe--eceEEEEEecC------------------CCcEEEEEEeCCCEEEeCCCCeeeeee
Q 029842 82 LKNFYTEHIHADE---EIRYCL--EGSGYFDVRDE------------------SDQWIRIWIKAGDLIVLPAGIYHRFTL 138 (187)
Q Consensus 82 ~~~~~~eH~H~~~---Ei~yil--eG~g~f~i~~~------------------~d~~~~~~v~~GDlIiIP~g~~H~f~~ 138 (187)
.+.+...|.|+.- =++|+- +|.|...+.+. ...++.+.-++||+|+.|.-..|....
T Consensus 105 ~Gg~h~~H~Hp~~~lSgvyYl~~p~~~g~~~f~~p~~~~~~~~~~~~~~~~~~~~~~~~v~P~~G~lvlFPS~L~H~v~p 184 (201)
T TIGR02466 105 QGGTHSPHLHPGSVISGTYYVQTPENCGAIKFEDPRLDDMMAAPMRIPNAKRAVQRFVYVPPQEGRVLLFESWLRHEVPP 184 (201)
T ss_pred CCCccCceECCCceEEEEEEEeCCCCCCceeEecCcchhhhccccccCccccccCccEEECCCCCeEEEECCCCceecCC
Confidence 3678899999853 456665 23333333221 112455677999999999999999875
Q ss_pred C
Q 029842 139 D 139 (187)
Q Consensus 139 ~ 139 (187)
.
T Consensus 185 ~ 185 (201)
T TIGR02466 185 N 185 (201)
T ss_pred C
Confidence 3
No 119
>PF00829 Ribosomal_L21p: Ribosomal prokaryotic L21 protein; InterPro: IPR001787 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 [, ]. Ribosomal protein L21 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L21 is known to bind to the 23S rRNA in the presence of L20. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities, groups: Bacterial L21. Marchantia polymorpha chloroplast L21. Cyanelle L21. Plant chloroplast L21 (nuclear-encoded). Bacterial L21 is a protein of about 100 amino-acid residues, the mature form of the spinach chloroplast L21 has 200 residues.; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2XG0_V 2X9S_V 2XG2_V 3UZ1_2 2Y19_V 2WDL_V 3V23_V 2WRO_V 2WRL_V 2Y11_V ....
Probab=47.60 E-value=13 Score=27.30 Aligned_cols=48 Identities=17% Similarity=0.359 Sum_probs=29.5
Q ss_pred EEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEE--EEEEcCCCceEEeCCC
Q 029842 104 GYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKL--MRLFVGEPVWTAYNRP 162 (187)
Q Consensus 104 g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~--ir~f~~~~gw~~~~r~ 162 (187)
+.+.++|. ++.|++||+|.||. + ....+..+.. +-++.+ .+++.+.+|
T Consensus 3 AIi~~ggk-----QykV~~gd~i~v~~-l----~~~~G~~i~l~~VL~~~~-~~~~~iG~P 52 (96)
T PF00829_consen 3 AIIEIGGK-----QYKVEEGDVIDVER-L----DAEVGDKIELDKVLLIGS-EDFTLIGRP 52 (96)
T ss_dssp EEEESSSE-----EEEESSSEEEEEES-T----SSSTTSEEEETTEEEEET-SSSTCSSSS
T ss_pred EEEEECCE-----EEEEeCCCEEEECC-c----CcCCCCEEEEEEEEEEec-CCCeEECCc
Confidence 45667777 89999999999983 2 3333333332 333333 366666666
No 120
>COG3123 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.49 E-value=73 Score=23.38 Aligned_cols=43 Identities=16% Similarity=0.261 Sum_probs=34.1
Q ss_pred cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeee
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTL 138 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~ 138 (187)
..|+.-|+.|.+.+.+.+. +.| ....+|...-||++-.-....
T Consensus 41 ~~E~Mtvv~Gal~v~lpgs-~dW--q~~~~Ge~F~VpgnS~F~lqV 83 (94)
T COG3123 41 APEEMTVVSGALTVLLPGS-DDW--QVYTAGEVFNVPGNSEFDLQV 83 (94)
T ss_pred CceEEEEEeeEEEEEcCCC-ccc--EEecCCceEEcCCCCeEEEEE
Confidence 5688999999999999864 455 456799999999997665544
No 121
>KOG1417 consensus Homogentisate 1,2-dioxygenase [Amino acid transport and metabolism]
Probab=45.28 E-value=69 Score=28.92 Aligned_cols=35 Identities=14% Similarity=0.403 Sum_probs=28.7
Q ss_pred EEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEc
Q 029842 117 RIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFV 151 (187)
Q Consensus 117 ~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~ 151 (187)
++.|.||++.+||.|++-.....+..+-..+.+|.
T Consensus 174 rllV~P~EI~VIpqG~RFsi~v~~~sRGYilEvYg 208 (446)
T KOG1417|consen 174 RLLVTPNEIAVIPQGIRFSIDVPGPSRGYILEVYG 208 (446)
T ss_pred ceeecccceEEeecccEEEEecCCCCcceEEEEec
Confidence 68899999999999999998887766666666654
No 122
>COG3806 ChrR Transcriptional activator [Transcription]
Probab=44.62 E-value=33 Score=28.99 Aligned_cols=57 Identities=21% Similarity=0.273 Sum_probs=41.7
Q ss_pred CcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEE
Q 029842 84 NFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 84 ~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~ 149 (187)
.-+..|+|-..|...+++|. |. ++++ ...+||+..-+.++.|.-...+...+.|+-.
T Consensus 139 ~s~P~HtH~G~E~t~vl~G~--~s--de~G-----~y~vgD~~~~d~~v~H~piv~~~~eClcl~a 195 (216)
T COG3806 139 RSFPDHTHVGIERTAVLEGA--FS--DENG-----EYLVGDFTLADGTVQHSPIVLPPGECLCLAA 195 (216)
T ss_pred cccccccccceEEEEEEeec--cc--cCCC-----ccccCceeecCCccccccccCCCCCceEEEE
Confidence 45789999999999998775 33 3332 4568999999999999976655555555543
No 123
>PHA00672 hypothetical protein
Probab=44.56 E-value=79 Score=24.99 Aligned_cols=57 Identities=12% Similarity=0.137 Sum_probs=46.7
Q ss_pred CcccccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEE
Q 029842 84 NFYTEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKL 146 (187)
Q Consensus 84 ~~~~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ 146 (187)
..+.--+|.++-+ .|++|.....+++. ...+..--.|.-|||..-.+.+-++....+
T Consensus 58 t~LtG~~hkf~~~-ii~sG~itV~tdge-----~~rl~g~~~i~~~aG~KragyAHeDT~wt~ 114 (152)
T PHA00672 58 VALTGALIKVSTV-LIFSGHATVFIGGE-----AVELRGYHVIPASAGRKQAFVAHADTDLTM 114 (152)
T ss_pred eeeeeeeeEeeEE-EEecccEEEEeCCc-----EEEEecceeeecCCCcccceeeeccceEEE
Confidence 3455667777777 89999999999987 888888899999999999999888765444
No 124
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=41.87 E-value=1.1e+02 Score=24.84 Aligned_cols=37 Identities=11% Similarity=-0.028 Sum_probs=28.0
Q ss_pred cceEEEEeeceEEEEEecCCCc-EEEEEEeCCCEEEeC
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQ-WIRIWIKAGDLIVLP 129 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~-~~~~~v~~GDlIiIP 129 (187)
...+++|++|.......+.+|+ .+.-.+.+||++-..
T Consensus 49 ~~~~y~V~~G~v~v~~~~~~G~e~~~~~~~~g~~~G~~ 86 (226)
T PRK10402 49 PSYLFYLTRGRAKLYATLANGKVSLIDFFAAPCFIGEI 86 (226)
T ss_pred CceEEEEEeCEEEEEEECCCCCEeeeeecCCCCeEEee
Confidence 5689999999998887666554 445568899987643
No 125
>PF13640 2OG-FeII_Oxy_3: 2OG-Fe(II) oxygenase superfamily; PDB: 3DKQ_B 3GZE_D 3HQR_A 2Y34_A 2G1M_A 2G19_A 3OUI_A 3OUJ_A 2HBU_A 2Y33_A ....
Probab=41.54 E-value=42 Score=23.50 Aligned_cols=20 Identities=30% Similarity=0.486 Sum_probs=17.7
Q ss_pred EeCCCEEEeCC-CCeeeeeeC
Q 029842 120 IKAGDLIVLPA-GIYHRFTLD 139 (187)
Q Consensus 120 v~~GDlIiIP~-g~~H~f~~~ 139 (187)
-++|++|+.+. +..|..+..
T Consensus 66 p~~g~~v~F~~~~~~H~v~~v 86 (100)
T PF13640_consen 66 PKPGRLVIFPSDNSLHGVTPV 86 (100)
T ss_dssp -BTTEEEEEESCTCEEEEEEE
T ss_pred CCCCEEEEEeCCCCeecCccc
Confidence 89999999999 999999866
No 126
>PRK05467 Fe(II)-dependent oxygenase superfamily protein; Provisional
Probab=41.02 E-value=67 Score=27.23 Aligned_cols=32 Identities=31% Similarity=0.443 Sum_probs=25.2
Q ss_pred EEEEEeCCCEEEeCCCCeeeeee-CCCCcEEEE
Q 029842 116 IRIWIKAGDLIVLPAGIYHRFTL-DTSNYVKLM 147 (187)
Q Consensus 116 ~~~~v~~GDlIiIP~g~~H~f~~-~~~~~~~~i 147 (187)
..+..++||+|+.|....|.... +.+.++.++
T Consensus 141 ~~Vkp~aG~~vlfps~~lH~v~pVt~G~R~~~~ 173 (226)
T PRK05467 141 HRVKLPAGDLVLYPSTSLHRVTPVTRGVRVASF 173 (226)
T ss_pred EEEecCCCeEEEECCCCceeeeeccCccEEEEE
Confidence 47888999999999999999987 454444443
No 127
>PF13464 DUF4115: Domain of unknown function (DUF4115)
Probab=40.48 E-value=1.2e+02 Score=20.71 Aligned_cols=44 Identities=16% Similarity=0.240 Sum_probs=35.1
Q ss_pred EeeceEEEEEecCCC-cEEEEEEeCCCEEEeCCCCeeeeeeCCCC
Q 029842 99 CLEGSGYFDVRDESD-QWIRIWIKAGDLIVLPAGIYHRFTLDTSN 142 (187)
Q Consensus 99 ileG~g~f~i~~~~d-~~~~~~v~~GDlIiIP~g~~H~f~~~~~~ 142 (187)
-..|.+++.|.+.++ ..+.-.+++||-..++.+..=.+..+...
T Consensus 4 ~a~~~sWv~V~d~dG~~~~~~~l~~G~~~~~~~~~~~~i~iGna~ 48 (77)
T PF13464_consen 4 TATGDSWVEVTDADGKVLFSGTLKAGETKTFEGKEPFRIRIGNAG 48 (77)
T ss_pred EEeCCeEEEEEeCCCcEeeeeeeCCCcEEEEeCCCCEEEEEeCCC
Confidence 346999999997766 58888999999999988777777776643
No 128
>PF04962 KduI: KduI/IolB family; InterPro: IPR021120 The KduI/IolB family of enzymes includes 5-keto 4-deoxyuronate isomerase (KduI) and 5-deoxy-glucuronate isomerase (IolB). KduI is involved in pectin degradation by free-living soil bacteria that use pectin as a carbon source, breaking it down to 2-keto-3-deoxygluconate, which can ultimately be converted to pyruvate. KduI catalyses the fourth step in pectin degradation, namely the interconversion of 5-keto-4-deoxyuronate and 2,5-diketo-3-dexoygluconate []. KduI has a TIM-barrel fold []. IolB is one of several bacterial proteins encoded by the inositol operon (iolABCDEFGHIJ) in Bacillus subtilis that are involved in myo-inositol catabolism. The enzyme is responsible for isomerization of 5-deoxy-D-glucuronic acid by IolB to produce 2-deoxy-5-keto-D-gluconic acid []. IolBs possess a cupin-like structure.; GO: 0016861 intramolecular oxidoreductase activity, interconverting aldoses and ketoses, 0008152 metabolic process; PDB: 1YWK_B 2QJV_B 1X8M_A 1XRU_A.
Probab=40.27 E-value=87 Score=27.04 Aligned_cols=47 Identities=19% Similarity=0.123 Sum_probs=33.8
Q ss_pred ccCcceEEEEeeceEEEEEec-CCCcEEEEEEeCC--------CEEEeCCCCeeeeeeCCC
Q 029842 90 IHADEEIRYCLEGSGYFDVRD-ESDQWIRIWIKAG--------DLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 90 ~H~~~Ei~yileG~g~f~i~~-~~d~~~~~~v~~G--------DlIiIP~g~~H~f~~~~~ 141 (187)
+...+-...+|+|++.+.+++ . ...+..- |.+.||.|+.=...+.++
T Consensus 44 ~~~~E~~vv~l~G~~~v~~~g~~-----~~~l~~R~~vF~~~~d~lYvp~g~~~~i~a~~~ 99 (261)
T PF04962_consen 44 LERRELGVVNLGGKATVTVDGEE-----FYELGGRESVFDGPPDALYVPRGTKVVIFASTD 99 (261)
T ss_dssp CCSEEEEEEEESSSEEEEETTEE-----EEEE-TTSSGGGS--EEEEE-TT--EEEEESST
T ss_pred CCCcEEEEEEeCCEEEEEeCCce-----EEEecccccccCCCCcEEEeCCCCeEEEEEcCC
Confidence 445667788899999999986 4 6667666 999999999977777555
No 129
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=39.56 E-value=1.4e+02 Score=24.00 Aligned_cols=36 Identities=19% Similarity=0.065 Sum_probs=26.8
Q ss_pred cceEEEEeeceEEEEEecCCCc-EEEEEEeCCCEEEe
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQ-WIRIWIKAGDLIVL 128 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~-~~~~~v~~GDlIiI 128 (187)
...++++++|.......+.+++ .+...+.+||++-.
T Consensus 55 ~~~ly~v~~G~v~~~~~~~~G~e~i~~~~~~gd~~g~ 91 (235)
T PRK11161 55 LKSLYAIRSGTIKSYTITEQGDEQITGFHLAGDLVGF 91 (235)
T ss_pred cceEEEEeeceEEEEEECCCCCEEEEEeccCCceecc
Confidence 4578999999998887766554 45555689999854
No 130
>COG0664 Crp cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
Probab=39.46 E-value=60 Score=25.01 Aligned_cols=56 Identities=14% Similarity=0.147 Sum_probs=36.7
Q ss_pred ceEEEEeeceEEEEEecCCCcEEEE-EEeCCCEEEeCCCC---eeeeeeCCCCcEEEEEE
Q 029842 94 EEIRYCLEGSGYFDVRDESDQWIRI-WIKAGDLIVLPAGI---YHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 94 ~Ei~yileG~g~f~i~~~~d~~~~~-~v~~GDlIiIP~g~---~H~f~~~~~~~~~~ir~ 149 (187)
+-+++|++|.........+++...+ .+.+||++-..+-. +..+++..-.+..++.+
T Consensus 42 ~~~y~v~~G~v~~~~~~~~G~~~~~~~~~~g~~fg~~~l~~~~~~~~~~~a~~~~~~~~~ 101 (214)
T COG0664 42 DSLYIILSGIVKLYANTEDGREIILGFLGPGDFFGELALLGGDPRSASAVALTDVEVLEI 101 (214)
T ss_pred ceEEEEEEeEEEEEEECCCCcEEEEEEecCCchhhhHHHhcCCCccceEEEcceEEEEEe
Confidence 3489999999999998777664444 58999998777533 33344333333444444
No 131
>TIGR00061 L21 ribosomal protein L21. Eubacterial and chloroplast.
Probab=39.31 E-value=90 Score=23.20 Aligned_cols=50 Identities=4% Similarity=0.046 Sum_probs=28.8
Q ss_pred EEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCCceEEeCCC
Q 029842 104 GYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEPVWTAYNRP 162 (187)
Q Consensus 104 g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~gw~~~~r~ 162 (187)
+.+.++|. ++.+++||+|.|+. +. ...++.-.|.-+-++.+ .+.+-+.+|
T Consensus 2 AIi~~gGk-----QykV~~Gd~i~Ve~-l~--~~~G~~i~l~~VLlv~~-~~~~~iG~P 51 (101)
T TIGR00061 2 AIVEIGGK-----QYKVEEGQTVRIEK-LD--AAPGDTVEFDKVLMVNK-GGDVKIGKP 51 (101)
T ss_pred EEEEECCE-----EEEEeCCCEEEEcc-cC--CCCCCEEEEEEEEEEec-CCCeEECCe
Confidence 45667777 89999999999873 21 12333334444544433 334444444
No 132
>PF05995 CDO_I: Cysteine dioxygenase type I; InterPro: IPR010300 Cysteine dioxygenase type I (1.13.11.20 from EC) converts cysteine to cysteinesulphinic acid and is the rate-limiting step in sulphate production.; GO: 0005506 iron ion binding, 0017172 cysteine dioxygenase activity, 0046439 L-cysteine metabolic process, 0055114 oxidation-reduction process; PDB: 2IC1_A 3EQE_B 3ELN_A 2B5H_A 2GH2_A 2Q4S_A 2ATF_A 2GM6_A 3USS_B.
Probab=38.62 E-value=2e+02 Score=22.94 Aligned_cols=71 Identities=11% Similarity=-0.039 Sum_probs=43.8
Q ss_pred cCcccccccCc-ceEEEEeeceEEEEEecC-CC--cE-----EEEEEeCCCEEEeCCCCeeeeeeC-CCCcEEEEEEEcC
Q 029842 83 KNFYTEHIHAD-EEIRYCLEGSGYFDVRDE-SD--QW-----IRIWIKAGDLIVLPAGIYHRFTLD-TSNYVKLMRLFVG 152 (187)
Q Consensus 83 ~~~~~eH~H~~-~Ei~yileG~g~f~i~~~-~d--~~-----~~~~v~~GDlIiIP~g~~H~f~~~-~~~~~~~ir~f~~ 152 (187)
++...-|=|.. .=+..|++|+..-..-.. ++ .. .......|...+.+++-.|+..+. .+.+...|.+|+.
T Consensus 85 Gq~S~IHDH~~s~g~~~vl~G~l~e~~y~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~iH~v~n~s~~~~avSLHvYsp 164 (175)
T PF05995_consen 85 GQRSPIHDHGGSWGWVKVLSGELEETRYRRPDDGGAPLELVGRERLLPGGVTYIFDPHGIHRVENPSGDEPAVSLHVYSP 164 (175)
T ss_dssp T-B--EEE-TTSEEEEEEEESEEEEEEEEESTSSS-EEEECEEEEEETTTEEEEBTTTBEEEEEES-SSS-EEEEEEEES
T ss_pred CCcCCCCCCCCceEEEEEecceEEEEEeccCCcccCcccccCceEecCCCeEEecCCCCeEEeccCCCCCCEEEEEEcCC
Confidence 35677899974 557889999865443221 11 11 123456777778899999999754 4778888888887
Q ss_pred C
Q 029842 153 E 153 (187)
Q Consensus 153 ~ 153 (187)
+
T Consensus 165 P 165 (175)
T PF05995_consen 165 P 165 (175)
T ss_dssp -
T ss_pred C
Confidence 5
No 133
>COG0853 PanD Aspartate 1-decarboxylase [Coenzyme metabolism]
Probab=38.01 E-value=13 Score=29.00 Aligned_cols=26 Identities=23% Similarity=0.511 Sum_probs=21.5
Q ss_pred eceEEEEEecCCCcEEEEEEeCCCEEEeCC
Q 029842 101 EGSGYFDVRDESDQWIRIWIKAGDLIVLPA 130 (187)
Q Consensus 101 eG~g~f~i~~~~d~~~~~~v~~GDlIiIP~ 130 (187)
.|+|...++|.. ...+++||+|||-+
T Consensus 63 rGSg~I~lNGAA----Arl~~~GD~VII~s 88 (126)
T COG0853 63 RGSGVICLNGAA----ARLVQVGDLVIIMS 88 (126)
T ss_pred CCCcEEEechHH----HhhCCCCCEEEEEE
Confidence 468899999864 67899999999854
No 134
>PTZ00273 oxidase reductase; Provisional
Probab=37.62 E-value=58 Score=28.45 Aligned_cols=65 Identities=20% Similarity=0.241 Sum_probs=44.1
Q ss_pred ccccCcceEEEEe--eceEEEEEecCCCcEEEEEEeCCCEEEeCCC-------------CeeeeeeCCCCcEEEEEEEcC
Q 029842 88 EHIHADEEIRYCL--EGSGYFDVRDESDQWIRIWIKAGDLIVLPAG-------------IYHRFTLDTSNYVKLMRLFVG 152 (187)
Q Consensus 88 eH~H~~~Ei~yil--eG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g-------------~~H~f~~~~~~~~~~ir~f~~ 152 (187)
-..|++.-++-+| ++.+=+.|...+|+|+.+...+|-+| |.-| +.||.......++.+.-|+..
T Consensus 197 ~~~HTD~g~lTlL~qd~~~GLqV~~~~g~Wi~V~p~pg~lv-VNvGD~l~~~TnG~~kSt~HRVv~~~~~R~Si~~F~~p 275 (320)
T PTZ00273 197 CGEHTDYGIITLLYQDSVGGLQVRNLSGEWMDVPPLEGSFV-VNIGDMMEMWSNGRYRSTPHRVVNTGVERYSMPFFCEP 275 (320)
T ss_pred cccccCCCeEEEEecCCCCceEEECCCCCEEeCCCCCCeEE-EEHHHHHHHHHCCeeeCCCccccCCCCCeEEEEEEEcC
Confidence 4568776555544 45555677666789999999888765 4444 889987666566666666655
Q ss_pred C
Q 029842 153 E 153 (187)
Q Consensus 153 ~ 153 (187)
.
T Consensus 276 ~ 276 (320)
T PTZ00273 276 N 276 (320)
T ss_pred C
Confidence 4
No 135
>PF01238 PMI_typeI: Phosphomannose isomerase type I; InterPro: IPR001250 Mannose-6-phosphate isomerase or phosphomannose isomerase (5.3.1.8 from EC) (PMI) is the enzyme that catalyses the interconversion of mannose-6-phosphate and fructose-6-phosphate. In eukaryotes PMI is involved in the synthesis of GDP-mannose, a constituent of N- and O-linked glycans and GPI anchors and in prokaryotes it participates in a variety of pathways, including capsular polysaccharide biosynthesis and D-mannose metabolism. PMI's belong to the cupin superfamily whose functions range from isomerase and epimerase activities involved in the modification of cell wall carbohydrates in bacteria and plants, to non-enzymatic storage proteins in plant seeds, and transcription factors linked to congenital baldness in mammals []. Three classes of PMI have been defined []. Type I includes eukaryotic PMI and the enzyme encoded by the manA gene in enterobacteria. PMI has a bound zinc ion, which is essential for activity. A crystal structure of PMI from Candida albicans shows that the enzyme has three distinct domains []. The active site lies in the central domain, contains a single essential zinc atom, and forms a deep, open cavity of suitable dimensions to contain M6P or F6P The central domain is flanked by a helical domain on one side and a jelly-roll like domain on the other.; GO: 0004476 mannose-6-phosphate isomerase activity, 0008270 zinc ion binding, 0005975 carbohydrate metabolic process; PDB: 1PMI_A 1QWR_B 1ZX5_A 3H1Y_A 2WFP_A 3H1M_A 3H1W_A.
Probab=37.51 E-value=16 Score=32.94 Aligned_cols=24 Identities=29% Similarity=0.498 Sum_probs=19.6
Q ss_pred EEEEeCCCEEEeCCCCeeeeeeCC
Q 029842 117 RIWIKAGDLIVLPAGIYHRFTLDT 140 (187)
Q Consensus 117 ~~~v~~GDlIiIP~g~~H~f~~~~ 140 (187)
.+.++||+-|++|||++|.+-.+.
T Consensus 251 ~v~L~pGeaifl~a~~~HAYl~G~ 274 (373)
T PF01238_consen 251 YVELQPGEAIFLPAGEPHAYLSGD 274 (373)
T ss_dssp EEEE-TT-EEEEHTTHHEEEEEEE
T ss_pred EEEecCCceEEecCCCcccccccc
Confidence 689999999999999999987654
No 136
>PF02261 Asp_decarbox: Aspartate decarboxylase; InterPro: IPR003190 Decarboxylation of aspartate is the major route of alanine production in bacteria, and is catalysed by the enzyme aspartate decarboxylase. The enzyme is translated as an inactive proenzyme of two chains, A and B. This family contains both chains of aspartate decarboxylase.; GO: 0004068 aspartate 1-decarboxylase activity, 0006523 alanine biosynthetic process; PDB: 1PYU_C 1AW8_A 1PYQ_B 3TM7_C 1PT1_A 1PQH_A 1PPY_B 1PT0_B 1PQF_A 1PQE_A ....
Probab=37.34 E-value=7.9 Score=29.76 Aligned_cols=30 Identities=20% Similarity=0.480 Sum_probs=20.1
Q ss_pred EEEeec---eEEEEEecCCCcEEEEEEeCCCEEEeCC
Q 029842 97 RYCLEG---SGYFDVRDESDQWIRIWIKAGDLIVLPA 130 (187)
Q Consensus 97 ~yileG---~g~f~i~~~~d~~~~~~v~~GDlIiIP~ 130 (187)
-|++.| +|...++|.. ...+++||.|+|=+
T Consensus 57 TYvI~g~~GSg~I~lNGaA----Arl~~~GD~vII~s 89 (116)
T PF02261_consen 57 TYVIPGERGSGVICLNGAA----ARLVQVGDRVIIMS 89 (116)
T ss_dssp EEEEEESTTTT-EEEEGGG----GGCS-TT-EEEEEE
T ss_pred EEEEEccCCCcEEEECCHH----HhccCCCCEEEEEE
Confidence 455554 5899999975 67889999998743
No 137
>PLN02868 acyl-CoA thioesterase family protein
Probab=36.87 E-value=79 Score=28.63 Aligned_cols=37 Identities=11% Similarity=0.125 Sum_probs=29.0
Q ss_pred cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeC
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLP 129 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP 129 (187)
.+.+++|++|+......+.+++.+...+++||++-..
T Consensus 49 ~~~lyiI~~G~V~v~~~~~~ge~~l~~l~~Gd~fG~~ 85 (413)
T PLN02868 49 GDGLYFIWKGEAEVSGPAEEESRPEFLLKRYDYFGYG 85 (413)
T ss_pred CceEEEEEeCEEEEEEECCCCcEEEEEeCCCCEeehh
Confidence 4579999999998877666666666778999987643
No 138
>cd00248 Mth938-like Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. 2P1 is a partially characterized nuclear protein which is homologous to E3-3 from rat and known to be alternately spliced. Xcr35 and Rpa2829 are hypothetical proteins of unknown function from the Xanthomonas campestris and Rhodopseudomonas palustris genomes, respectively, for which the crystal structures have been determined.
Probab=36.20 E-value=33 Score=25.48 Aligned_cols=27 Identities=33% Similarity=0.570 Sum_probs=21.6
Q ss_pred ceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeee
Q 029842 102 GSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRF 136 (187)
Q Consensus 102 G~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f 136 (187)
|.|.|.|++. .+ .|++++.|.++..|-
T Consensus 6 ~~g~~~i~g~-----~y---~~~viv~p~~~~~w~ 32 (109)
T cd00248 6 GPGGFRIAGQ-----VY---RGPLLVLPDGVVPWD 32 (109)
T ss_pred cCCEEEECCE-----EE---eeCEEEeCCceeecC
Confidence 6778888866 55 499999999998883
No 139
>PF00054 Laminin_G_1: Laminin G domain; InterPro: IPR012679 Laminins are large heterotrimeric glycoproteins involved in basement membrane function []. The laminin globular (G) domain can be found in one to several copies in various laminin family members, which includes a large number of extracellular proteins. The C terminus of laminin alpha chain contains a tandem repeat of five laminin G domains, which are critical for heparin-binding and cell attachment activity []. Laminin alpha4 is distributed in a variety of tissues including peripheral nerves, dorsal root ganglion, skeletal muscle and capillaries; in the neuromuscular junction, it is required for synaptic specialisation []. The structure of the laminin-G domain has been predicted to resemble that of pentraxin []. Laminin G domains can vary in their function, and a variety of binding functions has been ascribed to different LamG modules. For example, the laminin alpha1 and alpha2 chains each has five C-teminal laminin G domains, where only domains LG4 and LG5 contain binding sites for heparin, sulphatides and the cell surface receptor dystroglycan []. Laminin G-containing proteins appear to have a wide variety of roles in cell adhesion, signalling, migration, assembly and differentiation. This entry represents one subtype of laminin G domains, which is sometimes found in association with thrombospondin-type laminin G domains (IPR012680 from INTERPRO).; PDB: 1OKQ_A 1DYK_A 2C5D_A 1H30_A 1LHW_A 1KDK_A 1LHU_A 1KDM_A 1LHO_A 1D2S_A ....
Probab=36.13 E-value=1.7e+02 Score=21.80 Aligned_cols=58 Identities=10% Similarity=0.032 Sum_probs=42.4
Q ss_pred cccccCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEE
Q 029842 87 TEHIHADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 87 ~eH~H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~ 149 (187)
....+.++-...+.+|...|.++...+ ...+..++. |..|..|...+.-......|++
T Consensus 14 g~~~~~dfial~L~~G~l~~~~~~G~~---~~~~~~~~~--i~dg~wh~v~~~r~~~~~~L~V 71 (131)
T PF00054_consen 14 GSKDGKDFIALELRDGRLEFRYNLGSG---PASLRSPQK--INDGKWHTVSVSRNGRNGSLSV 71 (131)
T ss_dssp ESSTTSSEEEEEEETTEEEEEEESSSE---EEEEEESSE--TTSSSEEEEEEEEETTEEEEEE
T ss_pred CcCCCCCEEEEEEECCEEEEEEeCCCc---cceecCCCc--cCCCcceEEEEEEcCcEEEEEE
Confidence 344555788899999999999985432 666677776 8999999988766555555544
No 140
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=35.33 E-value=97 Score=23.98 Aligned_cols=35 Identities=11% Similarity=0.128 Sum_probs=26.9
Q ss_pred cceEEEEeeceEEEEEecCCCc-EEEEEEeCCCEEE
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQ-WIRIWIKAGDLIV 127 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~-~~~~~v~~GDlIi 127 (187)
.+-+++|++|......-+.+|+ .+-..+.+||++-
T Consensus 11 ~~~~~~i~~G~v~~~~~~~~G~e~~l~~~~~g~~~G 46 (193)
T TIGR03697 11 AEKVYFLRRGAVKLSRVYESGEEITVALLRENSVFG 46 (193)
T ss_pred CCcEEEEEecEEEEEEeCCCCcEeeeEEccCCCEee
Confidence 4568999999999887666554 5466789999874
No 141
>COG2731 EbgC Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]
Probab=34.65 E-value=2.2e+02 Score=22.78 Aligned_cols=47 Identities=15% Similarity=0.157 Sum_probs=32.3
Q ss_pred cceEEEEeeceEEEEEecCCC--------------------cEEEEEEeCCCEEEeCCCCeeeeeeC
Q 029842 93 DEEIRYCLEGSGYFDVRDESD--------------------QWIRIWIKAGDLIVLPAGIYHRFTLD 139 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d--------------------~~~~~~v~~GDlIiIP~g~~H~f~~~ 139 (187)
+-.|-++++|+=...+..... .--.+.+.+|++++.=||-+|+....
T Consensus 69 YiDiqill~G~E~i~~s~~~~~~~~e~y~~e~Di~~~~~~~~e~~v~L~~G~faiFfP~e~H~P~c~ 135 (154)
T COG2731 69 YIDIQILLKGQEGIEYSPKETAQVKEDYDEEKDIIFYKGIEDESTVELNPGMFAIFFPGEPHRPGCN 135 (154)
T ss_pred eEEEEEEEeceeeeEEccCcCCccccccccccCEEeecCCccceEEEeCCCCEEEECCCCccccccc
Confidence 566777788876555432211 12378889999999999999987653
No 142
>TIGR00568 alkb DNA alkylation damage repair protein AlkB. Proteins in this family have an as of yet undetermined function in the repair of alkylation damage to DNA. Alignment and family designation based on phylogenomic analysis of Jonathan A. Eisen (PhD Thesis, Stanford University, 1999).
Probab=33.87 E-value=67 Score=25.89 Aligned_cols=41 Identities=17% Similarity=0.268 Sum_probs=32.1
Q ss_pred EEEEeeceEEEEEecC--CCcEEEEEEeCCCEEEeCCCCeeee
Q 029842 96 IRYCLEGSGYFDVRDE--SDQWIRIWIKAGDLIVLPAGIYHRF 136 (187)
Q Consensus 96 i~yileG~g~f~i~~~--~d~~~~~~v~~GDlIiIP~g~~H~f 136 (187)
+.+=|--++.|.+++. ++....+.+..||+|+.-...+++|
T Consensus 124 ~SvSLG~~r~F~~~~~~~~~~~~~l~L~sGsllvM~G~sR~~~ 166 (169)
T TIGR00568 124 LSVSLGLPAIFLIGGLKRNDPPKRLRLHSGDVVIMGGESRLAF 166 (169)
T ss_pred EEEeCCCCEEEEecCCcCCCceEEEEeCCCCEEEECCchhccc
Confidence 4455667888999865 3457899999999999988877765
No 143
>PF05118 Asp_Arg_Hydrox: Aspartyl/Asparaginyl beta-hydroxylase; InterPro: IPR007803 The alpha-ketoglutarate-dependent dioxygenase aspartyl (asparaginyl) beta-hydroxylase (1.14.11.16 from EC) specifically hydroxylates one aspartic or asparagine residue in certain epidermal growth factor-like domains of a number of proteins. Its action may be due to histidine-675, which, when mutated to an alanine residue, causes the loss of enzymatic activity in the protein []. An invertebrate alpha-ketoglutarate-dependent aspartyl/asparaginyl beta-hydroxylase, which posttranslationally hydroxylates specific aspartyl or asparaginyl residues within epidermal growth factor-like modules [], activity was found to be similar to that of the purified mammalian aspartyl/asparaginyl beta-hydroxylase with respect to cofactor requirements, stereochemistry and substrate sequence specificity []. This enzyme requires Fe2+ as a cofactor. Some vitamin K-dependent coagulation factors, as well as synthetic peptides based on the structure of the first epidermal growth factor domain of human coagulation factor IX or X, can act as acceptors.; GO: 0018193 peptidyl-amino acid modification, 0030176 integral to endoplasmic reticulum membrane; PDB: 3RCQ_A 1E5S_A 1E5R_B.
Probab=33.76 E-value=97 Score=24.47 Aligned_cols=52 Identities=15% Similarity=0.204 Sum_probs=33.8
Q ss_pred cccccccC-cceEEE----Ee-eceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCC
Q 029842 85 FYTEHIHA-DEEIRY----CL-EGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTS 141 (187)
Q Consensus 85 ~~~eH~H~-~~Ei~y----il-eG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~ 141 (187)
....|.-. ..-+|+ ++ .+.+.+.++++ .+..++|..+++-....|...+.++
T Consensus 92 ~I~pH~d~~~~~lR~Hl~L~~p~~~~~~~v~~~-----~~~w~~G~~~~fD~s~~H~~~N~~~ 149 (163)
T PF05118_consen 92 HIKPHRDPTNLRLRLHLPLIVPNPGCYIRVGGE-----TRHWREGECWVFDDSFEHEVWNNGD 149 (163)
T ss_dssp EEEEE-SS-TTEEEEEEEEC--STTEEEEETTE-----EEB--CTEEEEE-TTS-EEEEESSS
T ss_pred EECCeeCCCCcceEEEEEEEcCCCCeEEEECCe-----EEEeccCcEEEEeCCEEEEEEeCCC
Confidence 45566654 223333 33 47789999988 8999999999999999999987554
No 144
>PF01987 AIM24: Mitochondrial biogenesis AIM24; InterPro: IPR002838 The proteins in this family have no known function.; PDB: 1PG6_A 1YOX_D.
Probab=33.50 E-value=55 Score=26.65 Aligned_cols=41 Identities=17% Similarity=0.233 Sum_probs=31.4
Q ss_pred EEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeee
Q 029842 96 IRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFT 137 (187)
Q Consensus 96 i~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~ 137 (187)
+..-++|+|...+.+ .+..+.+.|.+|+-++|.++-.=.|+
T Consensus 132 ~~~~l~G~G~v~l~~-~G~i~~i~L~~ge~~~Vd~~~lVA~~ 172 (215)
T PF01987_consen 132 FMLKLSGRGTVFLSG-YGAIYEIDLAPGEEIIVDPGHLVAWS 172 (215)
T ss_dssp EEEEEESSCEEEEEE-CCSEEEEEEE-EEEEEEEGGGEEEEE
T ss_pred EEEEEEEEEEEEEEe-CCcEEEEEccCCceEEEcCCCEEEEC
Confidence 345588999999996 57889999999999999887444443
No 145
>PF04074 DUF386: Domain of unknown function (DUF386); InterPro: IPR004375 This family consists of conserved hypothetical proteins, about 150 amino acids in length, with no known function. The family is restricted to the bacteria. It includes three members in Escherichia coli (strain K12) and three in Streptococcus pneumoniae.; PDB: 1S4C_B 1JOP_B.
Probab=33.35 E-value=80 Score=24.55 Aligned_cols=53 Identities=26% Similarity=0.224 Sum_probs=32.5
Q ss_pred ccccccC-cceEEEEeeceEEEEEe-cC------------CC--------cEEEEEEeCCCEEEeCCCCeeeeee
Q 029842 86 YTEHIHA-DEEIRYCLEGSGYFDVR-DE------------SD--------QWIRIWIKAGDLIVLPAGIYHRFTL 138 (187)
Q Consensus 86 ~~eH~H~-~~Ei~yileG~g~f~i~-~~------------~d--------~~~~~~v~~GDlIiIP~g~~H~f~~ 138 (187)
...-.|. .--|-|+|+|+=.+.+. .. .| .--.+.+.+|+++++=|+-.|+...
T Consensus 61 ~~~E~HrkyiDiq~~l~G~E~i~~~~~~~~~~~~~~yd~~~D~~f~~~~~~~~~i~l~~g~f~iffP~d~H~p~~ 135 (153)
T PF04074_consen 61 RRFESHRKYIDIQYVLEGEERIGWSADIEDLEVVQPYDEEKDIAFYEDGKNESFITLKPGDFAIFFPEDAHRPGC 135 (153)
T ss_dssp S-EEE-SSEEEEEEEEES-EEEEEE-S---GGGS---BTTTTBEEES--TTEEEEEE-TTEEEEE-TT--EEEEE
T ss_pred cceeeeccEEEEEeeccccEEEEEEcCcccCcccccCCCCCCEEEecCCCCceEEEEcCCEEEEECCCccccccc
Confidence 3455664 67889999999888872 11 11 1226789999999999999999763
No 146
>TIGR02408 ectoine_ThpD ectoine hydroxylase. Both ectoine and hydroxyectoine are compatible solvents that serve as protectants against osmotic and thermal stresses. A number of genomes synthesize ectoine. This enzyme allows conversion of ectoine to hydroxyectoine, which may be more effective for some purposes, and is found in a subset of ectoine-producing organisms.
Probab=33.27 E-value=45 Score=28.57 Aligned_cols=23 Identities=17% Similarity=0.052 Sum_probs=20.4
Q ss_pred EEEEEeCCCEEEeCCCCeeeeee
Q 029842 116 IRIWIKAGDLIVLPAGIYHRFTL 138 (187)
Q Consensus 116 ~~~~v~~GDlIiIP~g~~H~f~~ 138 (187)
+.+.+++||+++.-..+.|+...
T Consensus 211 v~~~~~aGDvl~f~~~~~H~S~~ 233 (277)
T TIGR02408 211 STFTGKAGSAVWFDCNTMHGSGS 233 (277)
T ss_pred eeeccCCceEEEEccccccCCCC
Confidence 45778999999999999999874
No 147
>PF12851 Tet_JBP: Oxygenase domain of the 2OGFeDO superfamily ; InterPro: IPR024779 TETs are 2OG- and Fe(II)-dependent oxygenases that catalyse the conversion of 5 methyl-Cytosine (5-MC) to 5-hydroxymethyl-cytosine (hmC) in cultured cells and in vitro []. Interestingly TET2 is considered as an oncogene, as it is found mutated in some types of cancer []. This entry represents the double-stranded beta helix (DSBH) fold of the 2-oxoglutarate (2OG) - Fe(II) oxygenases. DSBH comprises a part of the catalytic domain in TETS. It is found in many organisms including fruit fly, African malaria mosquito, zebrafish, mouse and human.
Probab=31.04 E-value=95 Score=24.93 Aligned_cols=38 Identities=13% Similarity=0.151 Sum_probs=27.0
Q ss_pred eEEEEEec--CCCcEEEEEEeCCCEEEeCCC-CeeeeeeCC
Q 029842 103 SGYFDVRD--ESDQWIRIWIKAGDLIVLPAG-IYHRFTLDT 140 (187)
Q Consensus 103 ~g~f~i~~--~~d~~~~~~v~~GDlIiIP~g-~~H~f~~~~ 140 (187)
.|.+.+-+ .+-.=+.+.+.+||+++..++ ..|..+...
T Consensus 113 ~g~l~lp~~~~~~~g~~~~~~~GtVl~~~~~~~~Hgvtpv~ 153 (171)
T PF12851_consen 113 GGRLELPGLDPNILGVAFAYQPGTVLIFCAKRELHGVTPVE 153 (171)
T ss_pred CceEeccccccccCCEEEecCCCcEEEEcccceeeecCccc
Confidence 45566543 111335899999999999999 888887655
No 148
>TIGR01762 chlorin-enz chlorinating enzymes. This model represents a a group of highly homologous enzymes related to dioxygenases which chlorinate amino acid methyl groups. BarB1 and BarB2 are proposed to trichlorinate one of the methyl groups of a leucine residue in the biosynthesis of barbamide in the cyanobacterium Lyngbya majuscula. SyrB2 is proposed to chlorinate the methyl group of threonine in the biosynthesis of syringomycin in Pseudomonas syringae. CmaB is proposed to chlorinate the beta-methyl group of alloisoleucine in the process of ring closure in the biosynthesis of coronamic acid, a component of coronatine also in Pseudomonas syringae.
Probab=30.21 E-value=1e+02 Score=26.74 Aligned_cols=41 Identities=15% Similarity=0.106 Sum_probs=29.5
Q ss_pred cEEEEEEeCCCEEEeCCCCeeeeeeCCC--C-c-EEEEEEEcCCC
Q 029842 114 QWIRIWIKAGDLIVLPAGIYHRFTLDTS--N-Y-VKLMRLFVGEP 154 (187)
Q Consensus 114 ~~~~~~v~~GDlIiIP~g~~H~f~~~~~--~-~-~~~ir~f~~~~ 154 (187)
+.+.+.++|||+++.-+.+.|......+ . + ..++|+..+..
T Consensus 207 ~~v~~~lkaGd~~~f~~~t~HgS~~N~S~~~~R~~~~~ry~~~~~ 251 (288)
T TIGR01762 207 SAVPMQMKAGQFIIFWSTLMHASYPNSGESQMRMGFASRYVPSFV 251 (288)
T ss_pred ceeeeeeCCceEEEECCCceecCCCCCCCCceEEEEEEEEcCCCc
Confidence 4678999999999999999999875432 2 2 33456655543
No 149
>PLN02156 gibberellin 2-beta-dioxygenase
Probab=30.16 E-value=1.8e+02 Score=25.81 Aligned_cols=66 Identities=14% Similarity=0.224 Sum_probs=40.9
Q ss_pred cccccCcceEEEEe--eceEEEEEecCCCcEEEEEEeCCCEEEeCCC------------CeeeeeeCC-CCcEEEEEEEc
Q 029842 87 TEHIHADEEIRYCL--EGSGYFDVRDESDQWIRIWIKAGDLIVLPAG------------IYHRFTLDT-SNYVKLMRLFV 151 (187)
Q Consensus 87 ~eH~H~~~Ei~yil--eG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g------------~~H~f~~~~-~~~~~~ir~f~ 151 (187)
.--.|++.-++-+| ++.+=..|...+|+|+.+.-.+|-+|+-=.. +.||..... ..++.+.-|+.
T Consensus 198 g~~~HTD~g~lTlL~Qd~v~GLQV~~~~g~Wi~Vpp~pga~VVNiGD~l~~wTNg~~kSt~HRVv~~~~~~R~SiafF~~ 277 (335)
T PLN02156 198 GFGEHTDPQLISLLRSNDTAGLQICVKDGTWVDVPPDHSSFFVLVGDTLQVMTNGRFKSVKHRVVTNTKRSRISMIYFAG 277 (335)
T ss_pred CCCCccCCCceEEEEeCCCCceEEEeCCCCEEEccCCCCcEEEEhHHHHHHHhCCeeeccceeeecCCCCCEEEEEEeec
Confidence 34568776665544 4555567755678999998888776654322 778887543 34555544444
Q ss_pred C
Q 029842 152 G 152 (187)
Q Consensus 152 ~ 152 (187)
.
T Consensus 278 P 278 (335)
T PLN02156 278 P 278 (335)
T ss_pred C
Confidence 3
No 150
>PF07653 SH3_2: Variant SH3 domain; InterPro: IPR011511 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This entry represents a variant of the SH3 domain.; PDB: 1I1J_B 1K0X_A 1HJD_A 2KEA_A 1KJW_A 1JXM_A 1JXO_B 2EBP_A 2DL3_A 2EYX_A ....
Probab=29.82 E-value=65 Score=20.42 Aligned_cols=34 Identities=21% Similarity=0.258 Sum_probs=17.2
Q ss_pred EEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCCceEE
Q 029842 117 RIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEPVWTA 158 (187)
Q Consensus 117 ~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~gw~~ 158 (187)
.+.+++||+|.|= . ....+....+ +. .+..||+|
T Consensus 15 ~Ls~~~Gd~i~v~-----~-~~~~~~ww~~-~~-~g~~G~~P 48 (55)
T PF07653_consen 15 ELSFKKGDVIEVL-----G-EKDDDGWWLG-EN-NGRRGWFP 48 (55)
T ss_dssp B-EB-TTEEEEEE-----E-EECSTSEEEE-EE-TTEEEEEE
T ss_pred ceEEecCCEEEEE-----E-eecCCCEEEE-EE-CCcEEEEc
Confidence 4788888887664 0 1112222333 22 56678888
No 151
>PF02080 TrkA_C: TrkA-C domain; InterPro: IPR006037 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 C-terminal subdomain of RCK.; GO: 0008324 cation transmembrane transporter activity, 0006813 potassium ion transport; PDB: 2BKP_A 1VCT_A 2BKO_A 2BKN_A 3L4B_C 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A ....
Probab=29.78 E-value=50 Score=21.55 Aligned_cols=30 Identities=23% Similarity=0.384 Sum_probs=18.9
Q ss_pred cceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEe
Q 029842 93 DEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVL 128 (187)
Q Consensus 93 ~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiI 128 (187)
.--+..+..| +.+.+-+. ...+++||.|+|
T Consensus 27 ~~~i~~i~R~-~~~~~p~~-----~~~l~~gD~l~v 56 (71)
T PF02080_consen 27 GVRIVAIKRG-GEIIIPDG-----DTVLQAGDILIV 56 (71)
T ss_dssp TEEEEEEEET-EEEES--T-----T-BE-TTEEEEE
T ss_pred CEEEEEEEEC-CEEECCCC-----CCEECCCCEEEE
Confidence 5567777888 55555544 588899999876
No 152
>KOG4680 consensus Uncharacterized conserved protein, contains ML domain [General function prediction only]
Probab=29.07 E-value=80 Score=25.24 Aligned_cols=33 Identities=18% Similarity=0.270 Sum_probs=24.3
Q ss_pred EEEEeCCCEEE---------eCCCCeeee---eeCCCCcEEEEEE
Q 029842 117 RIWIKAGDLIV---------LPAGIYHRF---TLDTSNYVKLMRL 149 (187)
Q Consensus 117 ~~~v~~GDlIi---------IP~g~~H~f---~~~~~~~~~~ir~ 149 (187)
.-.+++||+++ +|||.+|-- ....+..++||.+
T Consensus 96 sCPVepG~f~~~hsq~LPg~tPPG~Y~lkm~~~d~~~~~LTCisf 140 (153)
T KOG4680|consen 96 SCPVEPGDFLVAHSQVLPGYTPPGSYVLKMTAYDAKGKELTCISF 140 (153)
T ss_pred cCCcCcCceeeeeeEeccCcCCCceEEEEEEeecCCCCEEEEEEE
Confidence 45678898874 799999954 2344577999987
No 153
>COG3128 PiuC Uncharacterized iron-regulated protein [Function unknown]
Probab=28.25 E-value=1.5e+02 Score=25.05 Aligned_cols=34 Identities=26% Similarity=0.270 Sum_probs=25.9
Q ss_pred EEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEE
Q 029842 116 IRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRL 149 (187)
Q Consensus 116 ~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~ 149 (187)
.++.+-+||+|+-|.-..|..+....+.-.++-|
T Consensus 144 h~VklPAGdLVlypStSlH~VtPVTRg~R~asff 177 (229)
T COG3128 144 HRVKLPAGDLVLYPSTSLHEVTPVTRGERFASFF 177 (229)
T ss_pred eEEeccCCCEEEcccccceeccccccCceEEEee
Confidence 3788899999999999999998765444333333
No 154
>cd05560 Xcc1710_like Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. Their three-dimensional structures have been determined, but their functions are unknown.
Probab=27.79 E-value=61 Score=24.11 Aligned_cols=26 Identities=35% Similarity=0.693 Sum_probs=20.9
Q ss_pred ceEEEEEecCCCcEEEEEEeCCCEEEeCCCCee-e
Q 029842 102 GSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYH-R 135 (187)
Q Consensus 102 G~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H-~ 135 (187)
|.|.|.|++. ++ .|++++.|.++.. |
T Consensus 6 ~~g~~~i~g~-----~y---~~sviv~p~~~~~~w 32 (109)
T cd05560 6 GDGYVEINDQ-----RY---EHSLIVTPDELITDW 32 (109)
T ss_pred cCCEEEECCE-----EE---ecCEEEECCceeecc
Confidence 6778888866 55 3999999998877 6
No 155
>PF01067 Calpain_III: Calpain large subunit, domain III; InterPro: IPR022682 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C2 (calpain family, clan CA). A type example is calpain, which is an intracellular protease involved in many important cellular functions that are regulated by calcium []. The protein is a complex of 2 polypeptide chains (light and heavy), with three known forms in mammals [, ]: a highly calcium-sensitive (i.e., micro-molar range) form known as mu-calpain, mu-CANP or calpain I; a form sensitive to calcium in the milli-molar range, known as m-calpain, m-CANP or calpain II; and a third form, known as p94, which is found in skeletal muscle only []. All forms have identical light but different heavy chains. Both mu- and m-calpain are heterodimers containing an identical 28kDa subunit and an 80kDa subunit that shares 55-65% sequence homology between the two proteases [, ]. The crystallographic structure of m-calpain reveals six "domains" in the 80kDa subunit: A 19-amino acid NH2-terminal sequence; Active site domain IIa; Active site domain IIb. Domain 2 shows low levels of sequence similarity to papain; although the catalytic His has not been located by biochemical means, it is likely that calpain and papain are related []. Domain III; An 18-amino acid extended sequence linking domain III to domain IV; Domain IV, which resembles the penta EF-hand family of polypeptides, binds calcium and regulates activity []. />]. Ca2+-binding causes a rearrangement of the protein backbone, the net effect of which is that a Trp side chain, which acts as a wedge between catalytic domains IIa and IIb in the apo state, moves away from the active site cleft allowing for the proper formation of the catalytic triad []. Calpain-like mRNAs have been identified in other organisms including bacteria, but the molecules encoded by these mRNAs have not been isolated, so little is known about their properties. How calpain activity is regulated in these organisms cells is still unclear In metazoans, the activity of calpain is controlled by a single proteinase inhibitor, calpastatin (IPR001259 from INTERPRO). The calpastatin gene can produce eight or more calpastatin polypeptides ranging from 17 to 85 kDa by use of different promoters and alternative splicing events. The physiological significance of these different calpastatins is unclear, although all bind to three different places on the calpain molecule; binding to at least two of the sites is Ca2+ dependent. The calpains ostensibly participate in a variety of cellular processes including remodelling of cytoskeletal/membrane attachments, different signal transduction pathways, and apoptosis. Deregulated calpain activity following loss of Ca2+ homeostasis results in tissue damage in response to events such as myocardial infarcts, stroke, and brain trauma []. This entry represents domain III. It is found in association with PF00648 from PFAM. The function of the domain III and I are currently unknown. Domain II is a cysteine protease and domain IV is a calcium binding domain. Calpains are believed to participate in intracellular signaling pathways mediated by calcium ions. ; PDB: 1QXP_B 2QFE_A 1DF0_A 1U5I_A 3DF0_A 3BOW_A 1KFU_L 1KFX_L.
Probab=27.24 E-value=55 Score=24.56 Aligned_cols=33 Identities=15% Similarity=0.468 Sum_probs=20.1
Q ss_pred EEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCC
Q 029842 117 RIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEP 154 (187)
Q Consensus 117 ~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~ 154 (187)
.+.+.+|++++||. .+..+....| .||+|++.+
T Consensus 111 ~~~L~~G~YvIVPs----T~~~~~~g~F-~L~v~s~~~ 143 (147)
T PF01067_consen 111 EFTLPPGTYVIVPS----TYEPGQEGEF-TLRVFSDSP 143 (147)
T ss_dssp EEEE-SEEEEEEEE----ESSTT--EEE-EEEEEESSS
T ss_pred EEEcCCCCEEEEEe----cCCCCCeeeE-EEEEEECCC
Confidence 56788999999885 2333444444 567787765
No 156
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=26.17 E-value=1.8e+02 Score=20.22 Aligned_cols=52 Identities=19% Similarity=0.207 Sum_probs=36.8
Q ss_pred HHHHhhcCeEEEEcCCCCCCChHHHHHHHHHcCCCeeeeeeeCcccccCHHHHh
Q 029842 29 LDQLAELGVLYWRLNPKNYENDEELQKIREARGYSYMDLLDLCPEKVTNYEEKL 82 (187)
Q Consensus 29 ~~~L~~~GV~~w~~~~~~~~~~~~l~~l~~~~Gy~~~dvv~v~~~~~p~~~~~~ 82 (187)
.+.|.+.||.|..++... +....+.|++..|..+.-+|-+....++.++...
T Consensus 30 k~~L~~~~i~y~~idv~~--~~~~~~~l~~~~g~~tvP~vfi~g~~iGG~~~l~ 81 (90)
T cd03028 30 VQILNQLGVDFGTFDILE--DEEVRQGLKEYSNWPTFPQLYVNGELVGGCDIVK 81 (90)
T ss_pred HHHHHHcCCCeEEEEcCC--CHHHHHHHHHHhCCCCCCEEEECCEEEeCHHHHH
Confidence 468899999998887542 2333456777778877777778777677776654
No 157
>PRK15372 pathogenicity island 2 effector protein SseI; Provisional
Probab=25.73 E-value=2.7e+02 Score=24.49 Aligned_cols=73 Identities=27% Similarity=0.389 Sum_probs=49.4
Q ss_pred EEEEeeceEEEEEecCCC-cEEEEEEe-CCCEEEeCCC--CeeeeeeCCCCcEEEEEEEcCCCceEEeCCCCCCcHHHHH
Q 029842 96 IRYCLEGSGYFDVRDESD-QWIRIWIK-AGDLIVLPAG--IYHRFTLDTSNYVKLMRLFVGEPVWTAYNRPQEDHPARKE 171 (187)
Q Consensus 96 i~yileG~g~f~i~~~~d-~~~~~~v~-~GDlIiIP~g--~~H~f~~~~~~~~~~ir~f~~~~gw~~~~r~~d~~~~r~~ 171 (187)
|....+|.-.|.|.+.++ +.+.+.+. +|..-+.-+| +.|.+++...+.+ +....++|-+.|.-+. +
T Consensus 57 I~~~r~g~n~fcI~den~qEILSvt~dda~~YTV~c~g~~~t~~~~~~~~~~v--------~~~~~~~nlt~di~a~--~ 126 (292)
T PRK15372 57 IHSGLHGENYFCILDEDSQEILSVTLDDVGNYTVNCQGYSETHHLTMATEPGV--------ERTDITYNLTSDIDAA--A 126 (292)
T ss_pred hhcccCCCceEEEEcCCCceeEEEEEcCCCceEEEeCCcceEEEeeccCCCcc--------hhccCccccccCCCHH--H
Confidence 445678888888988876 47788888 6666555554 6677776554332 3445677887766654 4
Q ss_pred HHHhhcC
Q 029842 172 YIKGLTG 178 (187)
Q Consensus 172 y~~~~~~ 178 (187)
||..|+.
T Consensus 127 yl~el~~ 133 (292)
T PRK15372 127 YLEELKQ 133 (292)
T ss_pred HHHHhhc
Confidence 9998873
No 158
>TIGR03027 pepcterm_export putative polysaccharide export protein, PEP-CTERM sytem-associated. This protein family belongs to the larger set of polysaccharide biosynthesis/export proteins described by Pfam model pfam02563. Members of this family are variable in either containing of lacking a 78-residue insert, but appear to fall within a single clade, nevertheless, where the regions in which the gene is found encode components of the PEP-CTERM/EpsH proposed exosortase protein sorting system.
Probab=25.61 E-value=45 Score=26.27 Aligned_cols=16 Identities=25% Similarity=0.696 Sum_probs=14.0
Q ss_pred EEEEeCCCEEEeCCCC
Q 029842 117 RIWIKAGDLIVLPAGI 132 (187)
Q Consensus 117 ~~~v~~GDlIiIP~g~ 132 (187)
.+.+++||.|+||..+
T Consensus 149 n~~L~~gD~I~Vp~~~ 164 (165)
T TIGR03027 149 NVELKPGDVLIIPESW 164 (165)
T ss_pred CceeCCCCEEEEeccc
Confidence 5889999999999864
No 159
>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]
Probab=25.29 E-value=1.4e+02 Score=21.24 Aligned_cols=14 Identities=36% Similarity=0.653 Sum_probs=10.7
Q ss_pred EEEEeCCCEEEeCC
Q 029842 117 RIWIKAGDLIVLPA 130 (187)
Q Consensus 117 ~~~v~~GDlIiIP~ 130 (187)
.+.+.+||.|+|-+
T Consensus 44 ~i~I~~GD~V~Ve~ 57 (75)
T COG0361 44 RIRILPGDVVLVEL 57 (75)
T ss_pred eEEeCCCCEEEEEe
Confidence 67888899887643
No 160
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=25.22 E-value=1.1e+02 Score=24.08 Aligned_cols=56 Identities=32% Similarity=0.426 Sum_probs=34.9
Q ss_pred CcceEEEEee----ceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCCceEE
Q 029842 92 ADEEIRYCLE----GSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEPVWTA 158 (187)
Q Consensus 92 ~~~Ei~yile----G~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~gw~~ 158 (187)
+.+|++-++- |+..+.+=++. --.++|||+|-+-.|..-.|.. +++||.+..||+.
T Consensus 34 dg~~v~~~kVaD~TgsI~isvW~e~----~~~~~PGDIirLt~Gy~Si~qg-------~LtL~~GK~Ge~~ 93 (134)
T KOG3416|consen 34 DGHEVRSCKVADETGSINISVWDEE----GCLIQPGDIIRLTGGYASIFQG-------CLTLYVGKGGEVQ 93 (134)
T ss_pred CCCEEEEEEEecccceEEEEEecCc----CcccCCccEEEecccchhhhcC-------ceEEEecCCceEe
Confidence 4568887764 44455554321 2467899999988886554432 4566666666654
No 161
>PRK15401 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional
Probab=24.61 E-value=1.9e+02 Score=24.28 Aligned_cols=43 Identities=23% Similarity=0.280 Sum_probs=33.1
Q ss_pred EEEEeeceEEEEEecC--CCcEEEEEEeCCCEEEeCCCCeeeeee
Q 029842 96 IRYCLEGSGYFDVRDE--SDQWIRIWIKAGDLIVLPAGIYHRFTL 138 (187)
Q Consensus 96 i~yileG~g~f~i~~~--~d~~~~~~v~~GDlIiIP~g~~H~f~~ 138 (187)
+.+=|-.++.|.+++. .+....+.+..||+|+.-....+++-.
T Consensus 145 ~SvSLG~~~~F~~~~~~~~~~~~~l~L~~Gdllvm~G~sr~~~Hg 189 (213)
T PRK15401 145 VSVSLGLPAVFQFGGLKRSDPLQRILLEHGDVVVWGGPSRLRYHG 189 (213)
T ss_pred EEEeCCCCeEEEecccCCCCceEEEEeCCCCEEEECchHhheecc
Confidence 4455667889999753 456889999999999998877776643
No 162
>CHL00075 rpl21 ribosomal protein L21
Probab=23.62 E-value=92 Score=23.49 Aligned_cols=40 Identities=10% Similarity=0.277 Sum_probs=24.1
Q ss_pred EEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEc
Q 029842 104 GYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFV 151 (187)
Q Consensus 104 g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~ 151 (187)
+.+.++|. ++.+++||+|.|.. +. ...++.-.|.-+-++.
T Consensus 5 AIi~~gGk-----QykV~~Gd~i~vek-l~--~~~G~~i~l~~VL~~~ 44 (108)
T CHL00075 5 AIIEAGGK-----QLWVEPGRFYDINH-FP--LEPGTKILLNRVLLIR 44 (108)
T ss_pred EEEEECCE-----EEEEeCCCEEEEEE-cC--CCCCCEEEEEEEEEEe
Confidence 34667777 89999999998863 11 2233333444454544
No 163
>PF04622 ERG2_Sigma1R: ERG2 and Sigma1 receptor like protein; InterPro: IPR006716 This family consists of the fungal C-8 sterol isomerase and mammalian sigma1 receptor. C-8 sterol isomerase (delta-8--delta-7 sterol isomerase), catalyses a reaction in ergosterol biosynthesis, which results in unsaturation at C-7 in the B ring of sterols []. Sigma 1 receptor is a low molecular mass mammalian protein located in the endoplasmic reticulum [], which interacts with endogenous steroid hormones, such as progesterone and testosterone []. It also binds the sigma ligands, which are a set of chemically unrelated drugs including haloperidol, pentazocine, and ditolylguanidine []. Sigma1 effectors are not well understood, but sigma1 agonists have been observed to affect NMDA receptor function, the alpha-adrenergic system and opioid analgesia.; GO: 0000247 C-8 sterol isomerase activity, 0006696 ergosterol biosynthetic process, 0005783 endoplasmic reticulum
Probab=23.42 E-value=3.4e+02 Score=22.98 Aligned_cols=61 Identities=16% Similarity=0.204 Sum_probs=46.1
Q ss_pred cCcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCCceEEe
Q 029842 91 HADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEPVWTAY 159 (187)
Q Consensus 91 H~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~gw~~~ 159 (187)
|-.+--..||+|+..-...+..+ .....|||....|.|....+...++...... ..||+|-
T Consensus 117 h~ad~y~tIL~G~~~~~~~g~~~---~evy~pGd~~~l~rg~a~~y~m~~~tw~LEY-----~RG~IP~ 177 (216)
T PF04622_consen 117 HWADDYFTILSGEQWAWSPGSLE---PEVYKPGDSHHLPRGEAKQYQMPPGTWALEY-----GRGWIPS 177 (216)
T ss_pred eEeeeEEEEEEEEEEEEcCCCCC---ceEeccCCEEEecCceEEEEEeCCCeEEEEe-----cCCchhh
Confidence 45677889999999887765533 6677899999999999999999876443222 3578774
No 164
>PLN02403 aminocyclopropanecarboxylate oxidase
Probab=23.16 E-value=2.6e+02 Score=24.45 Aligned_cols=65 Identities=15% Similarity=0.252 Sum_probs=41.0
Q ss_pred ccccCcceEEEEe--ec-eEEEEEecCCCcEEEEEEeCCCEEEeCCC-------------CeeeeeeC-CCCcEEEEEEE
Q 029842 88 EHIHADEEIRYCL--EG-SGYFDVRDESDQWIRIWIKAGDLIVLPAG-------------IYHRFTLD-TSNYVKLMRLF 150 (187)
Q Consensus 88 eH~H~~~Ei~yil--eG-~g~f~i~~~~d~~~~~~v~~GDlIiIP~g-------------~~H~f~~~-~~~~~~~ir~f 150 (187)
-..|++.-.+-+| ++ .+=..+. .+++|+.+...+|+-|+|.-| +.||.... ...++.+.-|+
T Consensus 172 ~~~HtD~g~lTlL~q~~~v~GLqV~-~~g~Wi~V~p~p~~~lvVNvGD~L~~~Tng~~~S~~HRVv~~~~~~R~Si~~F~ 250 (303)
T PLN02403 172 LREHTDAGGIILLLQDDQVPGLEFL-KDGKWVPIPPSKNNTIFVNTGDQLEVLSNGRYKSTLHRVMADKNGSRLSIATFY 250 (303)
T ss_pred ccCccCCCeEEEEEecCCCCceEec-cCCeEEECCCCCCCEEEEEehHHHHHHhCCeeecccceeecCCCCCEEEEEEEE
Confidence 4468776655444 22 3345554 568899988888877777765 77998754 34455555555
Q ss_pred cCC
Q 029842 151 VGE 153 (187)
Q Consensus 151 ~~~ 153 (187)
...
T Consensus 251 ~p~ 253 (303)
T PLN02403 251 NPA 253 (303)
T ss_pred cCC
Confidence 544
No 165
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=23.06 E-value=2.2e+02 Score=20.36 Aligned_cols=52 Identities=21% Similarity=0.179 Sum_probs=35.9
Q ss_pred HHHHhhcCeEEEEcCCCCCCChHHHHHHHHHcCCCeeeeeeeCcccccCHHHHh
Q 029842 29 LDQLAELGVLYWRLNPKNYENDEELQKIREARGYSYMDLLDLCPEKVTNYEEKL 82 (187)
Q Consensus 29 ~~~L~~~GV~~w~~~~~~~~~~~~l~~l~~~~Gy~~~dvv~v~~~~~p~~~~~~ 82 (187)
-+.|.+.||.|..++... +....+.|++..|..+.-.|-+..+.++.+++..
T Consensus 34 k~lL~~~~i~~~~~di~~--~~~~~~~l~~~tg~~tvP~vfi~g~~iGG~ddl~ 85 (97)
T TIGR00365 34 VQILKACGVPFAYVNVLE--DPEIRQGIKEYSNWPTIPQLYVKGEFVGGCDIIM 85 (97)
T ss_pred HHHHHHcCCCEEEEECCC--CHHHHHHHHHHhCCCCCCEEEECCEEEeChHHHH
Confidence 477888899998877642 2334456777778777777777777667766654
No 166
>cd05126 Mth938 Mth938 domain. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. The function of the protein has not been determined.
Probab=22.55 E-value=77 Score=24.00 Aligned_cols=26 Identities=31% Similarity=0.399 Sum_probs=20.7
Q ss_pred ceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeee
Q 029842 102 GSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHR 135 (187)
Q Consensus 102 G~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~ 135 (187)
|.|+|.|++. ++. +|+|+.|.|+.-|
T Consensus 6 ~~G~i~i~g~-----~y~---~~viv~p~~~~~w 31 (117)
T cd05126 6 SFGSITVGGE-----TYE---HDIVVYPDGSRAR 31 (117)
T ss_pred cCCEEEECCE-----EEc---CCEEEeCCccccc
Confidence 6788888876 554 9999999988755
No 167
>COG3145 AlkB Alkylated DNA repair protein [DNA replication, recombination, and repair]
Probab=22.38 E-value=1.3e+02 Score=25.06 Aligned_cols=42 Identities=17% Similarity=0.309 Sum_probs=32.4
Q ss_pred EEEEeeceEEEEEecCC--CcEEEEEEeCCCEEEeCCCCeeeee
Q 029842 96 IRYCLEGSGYFDVRDES--DQWIRIWIKAGDLIVLPAGIYHRFT 137 (187)
Q Consensus 96 i~yileG~g~f~i~~~~--d~~~~~~v~~GDlIiIP~g~~H~f~ 137 (187)
+..=+-..+.|.+++.. +.+.++.++.||+++.-....+.|.
T Consensus 135 ~slSLg~~~~F~~~~~~r~~~~~~~~L~~Gdvvvm~G~~r~~~~ 178 (194)
T COG3145 135 ASLSLGAPCIFRLRGRRRRGPGLRLRLEHGDVVVMGGPSRLAWH 178 (194)
T ss_pred EEEecCCCeEEEeccccCCCCceeEEecCCCEEEecCCcccccc
Confidence 33445678899998875 7799999999999998777666554
No 168
>cd05793 S1_IF1A S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A in archaea, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=21.59 E-value=1.6e+02 Score=20.58 Aligned_cols=13 Identities=38% Similarity=1.227 Sum_probs=10.3
Q ss_pred EEEEeCCCEEEeC
Q 029842 117 RIWIKAGDLIVLP 129 (187)
Q Consensus 117 ~~~v~~GDlIiIP 129 (187)
.+.+.+||+++|-
T Consensus 36 ~iwI~~GD~V~Ve 48 (77)
T cd05793 36 RVWINEGDIVLVA 48 (77)
T ss_pred cEEEcCCCEEEEE
Confidence 5788888888874
No 169
>COG3097 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.34 E-value=1.8e+02 Score=21.79 Aligned_cols=45 Identities=22% Similarity=0.419 Sum_probs=34.6
Q ss_pred EeeceEEEEEecCCCcEEEEEEeCCCEEEeCCCCeeeeeeCCCCcEEEEEEEcCCC
Q 029842 99 CLEGSGYFDVRDESDQWIRIWIKAGDLIVLPAGIYHRFTLDTSNYVKLMRLFVGEP 154 (187)
Q Consensus 99 ileG~g~f~i~~~~d~~~~~~v~~GDlIiIP~g~~H~f~~~~~~~~~~ir~f~~~~ 154 (187)
|+.|.-...|+|.. +-..++||++-| ++...+.+|+-|.+-+-+|
T Consensus 16 ilagrKTITIRD~S----EShf~~g~vlrV-------~r~Ed~~~fc~I~vl~vsp 60 (106)
T COG3097 16 ILAGRKTITIRDKS----ESHFKPGDVLRV-------GRFEDDRYFCTIEVLAVSP 60 (106)
T ss_pred HhCCCceEEEeccc----hhcCCCCCEEEE-------EEecCCcEEEEEEEEEecc
Confidence 68999999999876 566778998865 5566677888888766655
No 170
>PLN02485 oxidoreductase
Probab=21.20 E-value=2.2e+02 Score=24.90 Aligned_cols=67 Identities=18% Similarity=0.232 Sum_probs=43.7
Q ss_pred ccccccCcceEEEEe-e--ceEEEEEecCCCcEEEEEEeCCCEEEeCCC-------------CeeeeeeCC-CCcEEEEE
Q 029842 86 YTEHIHADEEIRYCL-E--GSGYFDVRDESDQWIRIWIKAGDLIVLPAG-------------IYHRFTLDT-SNYVKLMR 148 (187)
Q Consensus 86 ~~eH~H~~~Ei~yil-e--G~g~f~i~~~~d~~~~~~v~~GDlIiIP~g-------------~~H~f~~~~-~~~~~~ir 148 (187)
+.--.|++.-++-+| . +.+=+.|...+++|+.+...+|-+| |.-| +.||....+ ..++.+.-
T Consensus 205 ~g~~~HTD~g~lTlL~qd~~~~GLqV~~~~g~Wi~V~p~pg~~v-VNiGD~L~~~TnG~~~St~HRVv~~~~~~R~Si~~ 283 (329)
T PLN02485 205 IGCGAHTDYGLLTLVNQDDDITALQVRNLSGEWIWAIPIPGTFV-CNIGDMLKIWSNGVYQSTLHRVINNSPKYRVCVAF 283 (329)
T ss_pred cccccccCCCeEEEEeccCCCCeeeEEcCCCcEEECCCCCCcEE-EEhHHHHHHHHCCEeeCCCceecCCCCCCeEEEEE
Confidence 344578777666555 2 4455677666789999999988776 4444 679987644 34555555
Q ss_pred EEcCC
Q 029842 149 LFVGE 153 (187)
Q Consensus 149 ~f~~~ 153 (187)
|+...
T Consensus 284 F~~p~ 288 (329)
T PLN02485 284 FYETN 288 (329)
T ss_pred EecCC
Confidence 55543
No 171
>TIGR00022 uncharacterized protein, YhcH/YjgK/YiaL family. This family consists of conserved hypothetical proteins, about 150 amino acids in length. Members with limited information include YhcH, a possible sugar isomerase of sialic acid catabolism, and YjgK.
Probab=21.16 E-value=1.1e+02 Score=23.65 Aligned_cols=49 Identities=22% Similarity=0.299 Sum_probs=28.4
Q ss_pred cccC-cceEEEEeeceEEEEEecC-C--------------------CcEEEEEEeCCCEEEeCCCCeeeee
Q 029842 89 HIHA-DEEIRYCLEGSGYFDVRDE-S--------------------DQWIRIWIKAGDLIVLPAGIYHRFT 137 (187)
Q Consensus 89 H~H~-~~Ei~yileG~g~f~i~~~-~--------------------d~~~~~~v~~GDlIiIP~g~~H~f~ 137 (187)
-.|. .--|-|+|+|+=.+.+... . .....+.+.+|+++++-|+-.|+..
T Consensus 64 E~Hr~YiDIq~~l~G~E~i~~~~~~~~~~~~~~y~~~~D~~f~~~~~~~~~i~l~~G~faiffP~D~H~P~ 134 (142)
T TIGR00022 64 ELHHRYLDIQLLLRGEENIEVGTTPPNLSVYEDYLEEDDIQLCADIDDEQTVILKPGMFAVFYPGEPHKPG 134 (142)
T ss_pred hhhhheEEEEEeecceEEEEEecCccccccccCCCcCCCEEeccCCCCceEEEeCCCcEEEECCCCccccc
Confidence 4453 5677888888887777421 0 0112455566666666666666554
No 172
>PF13532 2OG-FeII_Oxy_2: 2OG-Fe(II) oxygenase superfamily; PDB: 2IUW_A 3BTZ_A 3RZL_A 3RZH_A 3S5A_A 3RZG_A 3RZJ_A 3BUC_A 3H8X_A 3H8R_A ....
Probab=21.14 E-value=2.6e+02 Score=21.85 Aligned_cols=49 Identities=20% Similarity=0.276 Sum_probs=30.4
Q ss_pred cccccccCc----ce--EEEEeeceEEEEEecC--CCcEEEEEEeCCCEEEeCCCCe
Q 029842 85 FYTEHIHAD----EE--IRYCLEGSGYFDVRDE--SDQWIRIWIKAGDLIVLPAGIY 133 (187)
Q Consensus 85 ~~~eH~H~~----~E--i~yileG~g~f~i~~~--~d~~~~~~v~~GDlIiIP~g~~ 133 (187)
....|.=+. .. +.+=|-+++.|.++.. .+..+.+.+..||+++......
T Consensus 109 ~i~~H~D~~~~~~~~~I~slSLG~~~~~~f~~~~~~~~~~~~~L~~gsl~vm~g~~r 165 (194)
T PF13532_consen 109 GIGPHSDDEEYGFGPPIASLSLGSSRVFRFRNKSDDDEPIEVPLPPGSLLVMSGEAR 165 (194)
T ss_dssp -EEEE---TTC-CCSEEEEEEEES-EEEEEEECGGTS-EEEEEE-TTEEEEEETTHH
T ss_pred CcCCCCCcccccCCCcEEEEEEccCceEEEeeccCCCccEEEEcCCCCEEEeChHHh
Confidence 566666432 12 3344557888999875 4679999999999999988743
No 173
>PF03171 2OG-FeII_Oxy: 2OG-Fe(II) oxygenase superfamily Entry for Lysyl hydrolases This Prosite entry is a sub-family of the Pfam entry; InterPro: IPR005123 This domain is found in members of the 2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily [], as well as the C-terminal of prolyl 4-hydroxylase alpha subunit. The holoenzyme has the activity (1.14.11.2 from EC) catalysing the reaction: Procollagen L-proline + 2-oxoglutarate + O2 = procollagen trans-4-hydroxy-L-proline + succinate + CO2. The full enzyme consists of a alpha2 beta2 complex with the alpha subunit contributing most of the parts of the active site []. The family also includes lysyl hydrolases, isopenicillin synthases and AlkB. ; GO: 0016491 oxidoreductase activity, 0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, 0055114 oxidation-reduction process; PDB: 3ON7_D 1BK0_A 1IPS_B 1QIQ_A 1OC1_A 2Y86_A 2Y60_A 1W03_A 2VE1_A 1QJF_A ....
Probab=20.95 E-value=2.4e+02 Score=19.42 Aligned_cols=48 Identities=25% Similarity=0.371 Sum_probs=24.1
Q ss_pred ceEEEEEecCCCcEEEEEEeCCCEEEeCCC------------CeeeeeeCC-CCcEEEEEEE
Q 029842 102 GSGYFDVRDESDQWIRIWIKAGDLIVLPAG------------IYHRFTLDT-SNYVKLMRLF 150 (187)
Q Consensus 102 G~g~f~i~~~~d~~~~~~v~~GDlIiIP~g------------~~H~f~~~~-~~~~~~ir~f 150 (187)
+.+-+.+.. .+.|+.+...++.+++.... ..|+..... ..++.+.-|+
T Consensus 36 ~~~gL~~~~-~~~~~~v~~~~~~~~v~~G~~l~~~t~g~~~~~~HrV~~~~~~~R~s~~~f~ 96 (98)
T PF03171_consen 36 EVGGLQVRD-DGEWVDVPPPPGGFIVNFGDALEILTNGRYPATLHRVVPPTEGERYSLTFFL 96 (98)
T ss_dssp STS-EEEEE-TTEEEE----TTCEEEEEBHHHHHHTTTSS----EEEE--STS-EEEEEEEE
T ss_pred cchheeccc-cccccCccCccceeeeeceeeeecccCCccCCceeeeEcCCCCCEEEEEEEE
Confidence 555555553 34888888888866665555 688888765 5666555554
No 174
>TIGR03805 beta_helix_1 parallel beta-helix repeat-containing protein. Members of this protein family contain a tandem pair of beta-helix repeats (see TIGR03804). Each repeat is expected to consist of three beta strands that form a single turn as they form a right-handed helix of stacked beta-structure. Member proteinsa occur regularly in two-gene pairs along with another uncharacterized protein family; both protein families exhibit either lipoprotein or regular signal peptides, suggesting transit through the plasma membrane, and the two may be fused. The function of the pair is unknown.
Probab=20.88 E-value=55 Score=28.80 Aligned_cols=16 Identities=44% Similarity=0.883 Sum_probs=14.5
Q ss_pred EEeCCCEEEeCCCCee
Q 029842 119 WIKAGDLIVLPAGIYH 134 (187)
Q Consensus 119 ~v~~GDlIiIP~g~~H 134 (187)
..++||.|.||+|+++
T Consensus 7 ~A~~GDtI~l~~G~Y~ 22 (314)
T TIGR03805 7 AAQPGDTIVLPEGVFQ 22 (314)
T ss_pred hCCCCCEEEECCCEEE
Confidence 4579999999999998
No 175
>PF00915 Calici_coat: Calicivirus coat protein; InterPro: IPR004005 Bovine calicivirus is a positive-stranded ssRNA viruses that cause gastroenteritis []. The calicivirus genome contains two open reading frames, ORF1 and ORF2 [, ]. ORF1 encodes a non-structural polypeptide, which has RNA helicase, cysteine protease and RNA polymerase activity. The regions of the poly-protein in which these activities lie are similar to proteins produced by the picornaviruses [, ]. ORF2 encodes a structural protein []. This signature finds ORF2, the structural coat protein. Two different families of caliciviruses can be distinguished on the basis of sequence similarity, namely those classified as small round structured viruses (SRSVs) and those classed as non-SRSVs. Rabbit hemorrhagic disease virus (RHDV) which causes a highly contagious disease of wild and domestic rabbits belongs to the family Caliciviridae []. The capsid protein self assembles to form an icosahedral capsid with a T=3 symmetry. It is about 38nm in diameter and consists of 180 capsid proteins. The capsid encapsulates the genomic RNA and VP2 proteins and attaches the virion to target cells by binding histo-blood group antigens present on gastroduodenal epithelial cells. The Shell domain (S domain) contains elements essential for the formation of the icosahedron. The Protruding domain (P domain) is divided into sub-domains P1 and P2. An hypervariable region in P2 is thought to play an important role in receptor binding and immune reactivity. This entry includes the Calicivirus coat protein as well as the non-structural polyprotein.; PDB: 2OBT_A 2OBS_A 2OBR_A 3D26_B 2ZL6_B 1IHM_B 3BY2_A 3BY1_A 2ZL7_A 2ZL5_A ....
Probab=20.80 E-value=1.1e+02 Score=27.19 Aligned_cols=39 Identities=26% Similarity=0.390 Sum_probs=26.2
Q ss_pred eeeeCcccccCHHHHhcCcccccccCcceEEEEeeceEEEE
Q 029842 67 LLDLCPEKVTNYEEKLKNFYTEHIHADEEIRYCLEGSGYFD 107 (187)
Q Consensus 67 vv~v~~~~~p~~~~~~~~~~~eH~H~~~Ei~yileG~g~f~ 107 (187)
.+.+.|+..|+..-+...|-. +--.-|+++.++|+|.|.
T Consensus 85 ~~~LgP~lNPYl~HLs~MY~G--W~G~meVrv~vsGSgf~a 123 (293)
T PF00915_consen 85 SLQLGPELNPYLAHLSRMYAG--WSGSMEVRVSVSGSGFFA 123 (293)
T ss_dssp EEESSGGGSHHHHHHHTTBSE--EES-EEEEEEEE--TTEE
T ss_pred ccccCCCcCcHHHHHHHHHhh--hcCcEEEEEEeccccccc
Confidence 366777766776666666544 455789999999999876
No 176
>COG3323 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.65 E-value=1.2e+02 Score=23.01 Aligned_cols=41 Identities=22% Similarity=0.268 Sum_probs=30.7
Q ss_pred eCcccccCHHHHhcCcccccccCcceEEEEeeceEEEEEec
Q 029842 70 LCPEKVTNYEEKLKNFYTEHIHADEEIRYCLEGSGYFDVRD 110 (187)
Q Consensus 70 v~~~~~p~~~~~~~~~~~eH~H~~~Ei~yileG~g~f~i~~ 110 (187)
|+.+.+.+..+++.....-|.-++++..+-.+|+|+|.=.+
T Consensus 12 VP~~~~e~vr~aL~~aGag~iG~Y~~C~~~~~g~G~frP~e 52 (109)
T COG3323 12 VPEEYVEQVRDALFEAGAGHIGNYDHCTFSSEGTGQFRPLE 52 (109)
T ss_pred eCHHHHHHHHHHHHhcCCcceeccceEEEEeeeeEEEeecC
Confidence 34444445556666667778889999999999999998654
No 177
>CHL00010 infA translation initiation factor 1
Probab=20.61 E-value=1.1e+02 Score=21.32 Aligned_cols=12 Identities=33% Similarity=0.457 Sum_probs=8.2
Q ss_pred EEEeCCCEEEeC
Q 029842 118 IWIKAGDLIVLP 129 (187)
Q Consensus 118 ~~v~~GDlIiIP 129 (187)
+.+..||.+.+-
T Consensus 45 i~~~vGD~V~ve 56 (78)
T CHL00010 45 IRILPGDRVKVE 56 (78)
T ss_pred cccCCCCEEEEE
Confidence 556678887764
No 178
>smart00652 eIF1a eukaryotic translation initiation factor 1A.
Probab=20.23 E-value=1.7e+02 Score=20.75 Aligned_cols=13 Identities=31% Similarity=1.183 Sum_probs=10.1
Q ss_pred EEEEeCCCEEEeC
Q 029842 117 RIWIKAGDLIVLP 129 (187)
Q Consensus 117 ~~~v~~GDlIiIP 129 (187)
.+.+.+||+++|-
T Consensus 41 ~iwI~~GD~VlVe 53 (83)
T smart00652 41 KVWIRRGDIVLVD 53 (83)
T ss_pred cEEEcCCCEEEEE
Confidence 5778888888874
No 179
>KOG0498 consensus K+-channel ERG and related proteins, contain PAS/PAC sensor domain [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=20.19 E-value=1.5e+02 Score=29.55 Aligned_cols=36 Identities=14% Similarity=0.175 Sum_probs=29.4
Q ss_pred CcceEEEEeeceEEEEEecCCCcEEEEEEeCCCEEE
Q 029842 92 ADEEIRYCLEGSGYFDVRDESDQWIRIWIKAGDLIV 127 (187)
Q Consensus 92 ~~~Ei~yileG~g~f~i~~~~d~~~~~~v~~GDlIi 127 (187)
.-.+++||+.|+....-.+.++.-....+++||++=
T Consensus 459 ~v~~myFI~rG~le~~~~~~g~~~~~~~L~~Gd~~G 494 (727)
T KOG0498|consen 459 PVTDMYFIVRGSLESITTDGGGFFVVAILGPGDFFG 494 (727)
T ss_pred ccceeEEEEeeeEEEEEccCCceEEEEEecCCCccc
Confidence 367999999999988777655566788999999874
Done!