Query 029255
Match_columns 196
No_of_seqs 186 out of 768
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 10:00:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029255.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029255hhsearch_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 5.2E-65 1.1E-69 415.0 12.5 177 8-184 1-178 (179)
2 PF03079 ARD: ARD/ARD' family; 100.0 2.3E-49 5E-54 322.9 12.7 155 10-164 1-157 (157)
3 COG1791 Uncharacterized conser 100.0 5.1E-47 1.1E-51 311.0 15.5 168 8-184 1-180 (181)
4 PF07883 Cupin_2: Cupin domain 98.9 7.1E-09 1.5E-13 71.2 8.3 61 91-156 10-71 (71)
5 COG1917 Uncharacterized conser 98.9 7.2E-09 1.6E-13 80.4 8.0 63 91-158 55-118 (131)
6 COG0662 {ManC} Mannose-6-phosp 98.8 1.8E-08 3.8E-13 78.8 8.4 60 93-157 50-110 (127)
7 smart00835 Cupin_1 Cupin. This 98.8 1.6E-07 3.4E-12 74.5 11.7 77 71-157 32-110 (146)
8 PRK04190 glucose-6-phosphate i 98.7 1.3E-07 2.7E-12 79.8 11.6 85 69-159 68-157 (191)
9 TIGR03037 anthran_nbaC 3-hydro 98.7 3.8E-08 8.2E-13 80.9 7.7 55 92-147 41-95 (159)
10 PF00190 Cupin_1: Cupin; Inte 98.7 1.3E-07 2.8E-12 74.9 9.7 85 62-157 28-119 (144)
11 PRK13264 3-hydroxyanthranilate 98.6 1.1E-07 2.3E-12 79.5 7.4 55 92-147 47-101 (177)
12 TIGR03214 ura-cupin putative a 98.6 2.4E-07 5.3E-12 80.8 10.0 59 94-158 195-253 (260)
13 TIGR03404 bicupin_oxalic bicup 98.6 4.2E-07 9.1E-12 83.2 11.6 68 92-159 258-326 (367)
14 PF02311 AraC_binding: AraC-li 98.5 4.7E-07 1E-11 67.3 7.7 60 91-155 15-74 (136)
15 COG2140 Thermophilic glucose-6 98.4 2.5E-06 5.4E-11 72.9 9.3 69 93-161 94-165 (209)
16 PRK13290 ectC L-ectoine syntha 98.4 2.2E-06 4.8E-11 67.6 8.4 61 92-158 48-109 (125)
17 TIGR03404 bicupin_oxalic bicup 98.3 3.8E-06 8.2E-11 77.0 9.7 66 92-158 80-145 (367)
18 PRK09943 DNA-binding transcrip 98.3 3.7E-06 8E-11 69.1 8.5 62 92-158 121-182 (185)
19 PF06560 GPI: Glucose-6-phosph 98.3 5.4E-06 1.2E-10 69.6 9.5 93 61-160 43-148 (182)
20 PLN00212 glutelin; Provisional 98.2 1E-05 2.2E-10 76.9 9.8 69 90-158 91-184 (493)
21 PF02041 Auxin_BP: Auxin bindi 98.1 1.7E-05 3.7E-10 65.0 8.2 72 92-163 57-133 (167)
22 COG4297 Uncharacterized protei 98.1 2.1E-05 4.5E-10 63.9 8.1 110 56-183 34-145 (163)
23 PRK11171 hypothetical protein; 98.1 2.6E-05 5.7E-10 68.2 9.3 58 95-158 201-258 (266)
24 PRK13500 transcriptional activ 98.0 1.2E-05 2.5E-10 71.0 7.1 66 73-150 49-114 (312)
25 PRK13501 transcriptional activ 98.0 1.5E-05 3.2E-10 69.1 6.5 51 92-147 31-81 (290)
26 PRK10296 DNA-binding transcrip 98.0 3E-05 6.5E-10 66.5 7.9 49 91-144 35-83 (278)
27 TIGR01479 GMP_PMI mannose-1-ph 97.9 4.9E-05 1.1E-09 71.3 8.7 63 92-159 389-452 (468)
28 PRK13503 transcriptional activ 97.9 1.6E-05 3.4E-10 67.7 4.9 53 90-147 26-78 (278)
29 PRK13502 transcriptional activ 97.9 3.9E-05 8.4E-10 65.8 7.3 51 92-147 31-81 (282)
30 PRK10371 DNA-binding transcrip 97.9 3.2E-05 6.8E-10 68.2 6.7 52 91-147 38-89 (302)
31 COG4101 Predicted mannose-6-ph 97.9 0.00011 2.4E-09 58.4 8.9 72 70-153 47-119 (142)
32 PRK15457 ethanolamine utilizat 97.8 6.4E-05 1.4E-09 65.3 7.5 44 95-143 171-214 (233)
33 TIGR02297 HpaA 4-hydroxyphenyl 97.8 5.6E-05 1.2E-09 64.8 6.6 58 92-154 36-94 (287)
34 PRK15460 cpsB mannose-1-phosph 97.7 0.00024 5.3E-09 67.3 10.1 61 93-158 399-460 (478)
35 COG3837 Uncharacterized conser 97.7 0.00014 3E-09 59.9 7.1 65 92-161 56-123 (161)
36 PF01050 MannoseP_isomer: Mann 97.7 0.00037 8E-09 56.7 9.2 76 64-155 59-135 (151)
37 PF12973 Cupin_7: ChrR Cupin-l 97.7 8.9E-05 1.9E-09 54.5 5.1 58 70-146 25-82 (91)
38 TIGR02451 anti_sig_ChrR anti-s 97.6 0.00033 7.1E-09 59.8 8.6 72 69-159 127-198 (215)
39 PLN00212 glutelin; Provisional 97.6 0.00067 1.4E-08 64.7 11.3 69 90-159 359-429 (493)
40 COG3435 Gentisate 1,2-dioxygen 97.6 8.1E-05 1.8E-09 67.1 4.6 51 90-144 103-153 (351)
41 PRK11171 hypothetical protein; 97.6 0.00042 9E-09 60.7 8.6 51 98-153 82-132 (266)
42 TIGR03214 ura-cupin putative a 97.5 0.00069 1.5E-08 59.2 9.9 63 94-161 74-140 (260)
43 TIGR02272 gentisate_1_2 gentis 97.5 0.0004 8.6E-09 63.3 7.5 54 92-149 94-147 (335)
44 PF05899 Cupin_3: Protein of u 97.4 0.00035 7.5E-09 50.0 5.5 43 99-145 25-67 (74)
45 PF06052 3-HAO: 3-hydroxyanthr 97.2 0.0023 5E-08 52.4 8.1 53 93-146 47-99 (151)
46 TIGR02272 gentisate_1_2 gentis 97.0 0.0077 1.7E-07 55.0 10.6 87 56-147 215-313 (335)
47 PF06249 EutQ: Ethanolamine ut 96.9 0.0043 9.3E-08 50.9 7.6 43 98-145 94-136 (152)
48 PF05523 FdtA: WxcM-like, C-te 96.9 0.0055 1.2E-07 48.5 7.9 56 92-148 46-103 (131)
49 PF12852 Cupin_6: Cupin 96.7 0.0041 8.8E-08 50.7 5.6 44 101-147 37-80 (186)
50 COG3450 Predicted enzyme of th 96.4 0.0075 1.6E-07 47.4 5.3 46 94-143 57-103 (116)
51 PRK10572 DNA-binding transcrip 96.3 0.012 2.6E-07 50.7 6.4 51 92-147 42-92 (290)
52 COG4766 EutQ Ethanolamine util 96.1 0.025 5.5E-07 46.8 7.0 85 70-163 88-174 (176)
53 PF04209 HgmA: homogentisate 1 95.8 0.02 4.4E-07 53.8 6.2 56 96-156 143-198 (424)
54 PF02373 JmjC: JmjC domain, hy 95.3 0.04 8.7E-07 40.7 5.0 27 118-144 77-103 (114)
55 TIGR01015 hmgA homogentisate 1 95.3 0.074 1.6E-06 50.2 7.7 56 97-157 146-201 (429)
56 PRK05341 homogentisate 1,2-dio 94.9 0.1 2.3E-06 49.3 7.6 56 97-157 152-208 (438)
57 COG3257 GlxB Uncharacterized p 94.4 0.094 2E-06 45.9 5.6 57 96-158 200-256 (264)
58 PLN02658 homogentisate 1,2-dio 94.2 0.18 4E-06 47.6 7.6 55 97-156 145-200 (435)
59 KOG3995 3-hydroxyanthranilate 94.0 0.08 1.7E-06 46.1 4.4 49 93-142 47-95 (279)
60 PRK09685 DNA-binding transcrip 93.7 0.19 4.1E-06 43.4 6.2 49 101-154 73-121 (302)
61 PF06339 Ectoine_synth: Ectoin 92.9 0.62 1.3E-05 37.2 7.5 57 98-159 54-110 (126)
62 PF14525 AraC_binding_2: AraC- 92.9 0.44 9.6E-06 36.8 6.7 49 102-155 58-106 (172)
63 PF13621 Cupin_8: Cupin-like d 92.7 0.36 7.8E-06 39.9 6.2 38 120-157 207-246 (251)
64 PF08007 Cupin_4: Cupin superf 91.6 0.81 1.8E-05 41.0 7.6 55 92-146 128-200 (319)
65 PF14499 DUF4437: Domain of un 91.4 0.26 5.7E-06 43.5 4.1 51 92-146 49-99 (251)
66 COG3435 Gentisate 1,2-dioxygen 90.9 0.72 1.6E-05 42.2 6.4 97 55-161 225-336 (351)
67 PRK12335 tellurite resistance 90.5 1.8 3.9E-05 37.8 8.6 78 84-161 16-97 (287)
68 PF07385 DUF1498: Protein of u 90.5 1.2 2.6E-05 38.9 7.2 26 123-148 155-180 (225)
69 PF00908 dTDP_sugar_isom: dTDP 90.4 2.5 5.4E-05 35.2 8.9 56 93-148 57-124 (176)
70 COG3257 GlxB Uncharacterized p 89.6 1.2 2.6E-05 39.1 6.6 42 100-146 84-125 (264)
71 PF02678 Pirin: Pirin; InterP 89.6 2.6 5.7E-05 32.4 7.8 61 92-156 42-106 (107)
72 PF04962 KduI: KduI/IolB famil 89.5 0.55 1.2E-05 41.4 4.6 46 92-140 166-227 (261)
73 PF11699 CENP-C_C: Mif2/CENP-C 88.9 2.8 6E-05 31.1 7.2 66 68-147 11-76 (85)
74 TIGR01221 rmlC dTDP-4-dehydror 88.8 4.1 8.9E-05 34.0 9.0 58 91-148 56-124 (176)
75 KOG2757 Mannose-6-phosphate is 88.7 1.1 2.3E-05 41.9 5.9 56 99-159 353-408 (411)
76 COG3822 ABC-type sugar transpo 88.5 0.68 1.5E-05 39.8 4.2 59 90-148 97-179 (225)
77 COG3508 HmgA Homogentisate 1,2 87.2 2.5 5.3E-05 39.5 7.3 46 98-148 145-190 (427)
78 TIGR00218 manA mannose-6-phosp 83.4 0.59 1.3E-05 41.5 1.4 20 123-142 152-171 (302)
79 COG1898 RfbC dTDP-4-dehydrorha 82.2 11 0.00023 31.7 8.3 58 92-149 58-125 (173)
80 COG1482 ManA Phosphomannose is 81.9 0.98 2.1E-05 41.1 2.2 23 123-145 159-181 (312)
81 PF13759 2OG-FeII_Oxy_5: Putat 80.0 2.3 5E-05 31.4 3.4 26 120-145 64-89 (101)
82 PF09313 DUF1971: Domain of un 77.8 9.4 0.0002 28.1 5.9 59 89-147 13-75 (82)
83 PF14499 DUF4437: Domain of un 77.3 2.4 5.3E-05 37.4 3.2 61 92-155 184-244 (251)
84 PRK15131 mannose-6-phosphate i 72.7 2.8 6E-05 39.0 2.5 23 123-145 238-260 (389)
85 TIGR00218 manA mannose-6-phosp 71.9 11 0.00023 33.5 5.9 40 99-143 253-292 (302)
86 KOG3706 Uncharacterized conser 70.9 3.2 6.9E-05 40.3 2.5 67 92-158 331-417 (629)
87 PF06865 DUF1255: Protein of u 70.2 20 0.00044 27.2 6.3 45 100-147 42-86 (94)
88 COG1741 Pirin-related protein 69.3 18 0.0004 32.3 6.8 65 91-159 56-125 (276)
89 PF06172 Cupin_5: Cupin superf 67.3 48 0.001 26.6 8.3 56 90-145 52-114 (139)
90 PRK10579 hypothetical protein; 66.6 29 0.00063 26.4 6.4 45 100-147 42-86 (94)
91 PRK15131 mannose-6-phosphate i 66.4 14 0.00031 34.4 5.7 41 99-144 339-379 (389)
92 cd00038 CAP_ED effector domain 65.4 29 0.00062 23.8 6.0 37 99-135 35-72 (115)
93 COG2850 Uncharacterized conser 61.7 5.4 0.00012 37.3 2.0 23 123-145 180-202 (383)
94 PRK00924 5-keto-4-deoxyuronate 59.9 19 0.00042 32.3 5.2 51 92-143 191-246 (276)
95 PF00027 cNMP_binding: Cyclic 59.2 38 0.00082 22.7 5.6 37 99-135 17-54 (91)
96 PRK11753 DNA-binding transcrip 58.4 67 0.0015 25.7 7.8 37 99-135 38-75 (211)
97 PRK09391 fixK transcriptional 57.6 59 0.0013 27.1 7.5 57 99-155 56-113 (230)
98 COG1482 ManA Phosphomannose is 57.0 33 0.00071 31.4 6.2 82 59-147 205-303 (312)
99 PRK15186 AraC family transcrip 56.6 27 0.00059 31.1 5.6 43 101-147 40-82 (291)
100 PF00018 SH3_1: SH3 domain; I 56.2 3.8 8.2E-05 26.2 0.0 34 124-164 14-47 (48)
101 PRK13918 CRP/FNR family transc 55.8 51 0.0011 26.3 6.7 36 100-135 27-63 (202)
102 smart00100 cNMP Cyclic nucleot 49.3 57 0.0012 22.3 5.3 38 99-136 35-73 (120)
103 PRK10402 DNA-binding transcrip 47.8 1.6E+02 0.0034 24.3 8.9 37 99-135 49-86 (226)
104 PRK09392 ftrB transcriptional 47.3 1E+02 0.0022 25.4 7.3 57 99-155 48-107 (236)
105 smart00652 eIF1a eukaryotic tr 45.1 37 0.0008 24.9 3.8 28 107-134 15-52 (83)
106 PLN02288 mannose-6-phosphate i 44.2 38 0.00082 31.8 4.6 39 98-139 353-391 (394)
107 PLN02288 mannose-6-phosphate i 44.0 23 0.0005 33.2 3.2 24 123-146 252-275 (394)
108 cd05793 S1_IF1A S1_IF1A: Trans 43.9 41 0.0009 24.3 3.9 28 107-134 10-47 (77)
109 PF05995 CDO_I: Cysteine dioxy 42.2 1.9E+02 0.0041 23.6 10.1 70 90-159 86-165 (175)
110 KOG3416 Predicted nucleic acid 42.1 41 0.0009 27.1 3.9 56 98-164 34-93 (134)
111 PRK15372 pathogenicity island 41.5 82 0.0018 28.3 6.0 76 100-185 55-134 (292)
112 cd06919 Asp_decarbox Aspartate 40.5 15 0.00033 28.8 1.2 30 103-136 56-88 (111)
113 PF05726 Pirin_C: Pirin C-term 39.5 51 0.0011 24.5 3.9 53 99-160 20-72 (104)
114 PF10983 DUF2793: Protein of u 38.8 68 0.0015 23.9 4.4 42 127-169 29-75 (87)
115 cd04456 S1_IF1A_like S1_IF1A_l 37.9 53 0.0011 23.8 3.6 28 107-134 10-47 (78)
116 PF05721 PhyH: Phytanoyl-CoA d 36.4 31 0.00067 26.8 2.4 28 119-146 177-204 (211)
117 TIGR02466 conserved hypothetic 36.0 61 0.0013 27.5 4.3 86 57-144 75-184 (201)
118 COG3123 Uncharacterized protei 35.9 1.1E+02 0.0025 23.1 5.2 43 99-144 41-83 (94)
119 TIGR00223 panD L-aspartate-alp 35.9 19 0.00042 28.8 1.1 30 103-136 57-89 (126)
120 PRK05449 aspartate alpha-decar 35.5 20 0.00043 28.7 1.2 30 103-136 57-89 (126)
121 PF07653 SH3_2: Variant SH3 do 33.8 43 0.00093 21.8 2.4 35 123-165 15-49 (55)
122 PRK11161 fumarate/nitrate redu 33.7 1.9E+02 0.0041 23.7 6.9 36 99-134 55-91 (235)
123 TIGR00523 eIF-1A eukaryotic/ar 33.7 68 0.0015 24.4 3.8 28 107-134 29-66 (99)
124 PHA02890 hypothetical protein; 33.6 2.4E+02 0.0052 25.4 7.7 57 100-158 91-149 (278)
125 COG0664 Crp cAMP-binding prote 32.5 89 0.0019 24.3 4.5 39 100-138 42-81 (214)
126 TIGR03697 NtcA_cyano global ni 32.3 1.1E+02 0.0024 24.0 5.1 35 100-134 12-47 (193)
127 PRK04012 translation initiatio 31.6 79 0.0017 24.1 3.9 28 107-134 31-68 (100)
128 COG0361 InfA Translation initi 30.7 96 0.0021 22.7 4.0 12 123-134 44-55 (75)
129 PF01176 eIF-1a: Translation i 30.2 48 0.001 22.9 2.3 28 107-134 13-50 (65)
130 PF13640 2OG-FeII_Oxy_3: 2OG-F 29.4 93 0.002 22.1 3.8 57 89-145 9-86 (100)
131 PF04622 ERG2_Sigma1R: ERG2 an 29.0 2.1E+02 0.0045 24.8 6.4 62 96-165 116-177 (216)
132 PF06719 AraC_N: AraC-type tra 28.2 3E+02 0.0065 21.7 7.2 58 96-158 20-80 (155)
133 PLN02868 acyl-CoA thioesterase 28.0 1.3E+02 0.0028 27.7 5.4 36 99-134 49-84 (413)
134 PF01987 AIM24: Mitochondrial 27.8 83 0.0018 26.0 3.7 33 104-137 134-166 (215)
135 KOG1417 Homogentisate 1,2-diox 27.5 1.9E+02 0.004 27.0 6.1 51 103-156 157-207 (446)
136 cd00248 Mth938-like Mth938-lik 27.4 65 0.0014 24.4 2.8 27 108-142 6-32 (109)
137 PF13532 2OG-FeII_Oxy_2: 2OG-F 27.3 1.9E+02 0.0041 23.0 5.7 38 103-140 127-166 (194)
138 PRK10202 ebgC cryptic beta-D-g 26.5 3.1E+02 0.0067 21.9 6.7 46 98-143 64-127 (149)
139 cd05792 S1_eIF1AD_like S1_eIF1 26.0 1.2E+02 0.0026 22.1 3.8 28 107-134 10-47 (78)
140 TIGR03805 beta_helix_1 paralle 25.8 40 0.00087 30.2 1.6 16 125-140 7-22 (314)
141 TIGR00568 alkb DNA alkylation 25.5 1.4E+02 0.003 24.6 4.6 40 103-142 125-166 (169)
142 TIGR03027 pepcterm_export puta 25.0 46 0.001 26.7 1.7 16 123-138 149-164 (165)
143 COG3806 ChrR Transcriptional a 24.7 1.1E+02 0.0023 26.6 3.9 55 90-153 139-193 (216)
144 PHA02984 hypothetical protein; 24.7 4.4E+02 0.0095 23.9 7.8 57 100-157 92-151 (286)
145 PRK15401 alpha-ketoglutarate-d 24.6 1.4E+02 0.0029 25.8 4.5 41 103-143 146-188 (213)
146 cd03028 GRX_PICOT_like Glutare 23.4 2.1E+02 0.0046 20.4 4.8 53 35-89 30-82 (90)
147 COG0853 PanD Aspartate 1-decar 22.8 31 0.00067 27.6 0.2 49 65-136 37-88 (126)
148 PLN00208 translation initiatio 22.7 1.4E+02 0.0031 24.4 4.0 28 108-135 43-80 (145)
149 PF11142 DUF2917: Protein of u 22.7 2E+02 0.0043 19.8 4.3 39 103-144 20-58 (63)
150 PF04074 DUF386: Domain of unk 21.0 4.2E+02 0.0091 20.9 6.6 46 99-144 69-135 (153)
151 PF02261 Asp_decarbox: Asparta 20.8 34 0.00073 27.0 0.1 29 103-135 57-88 (116)
152 PRK05467 Fe(II)-dependent oxyg 20.7 1.9E+02 0.0042 25.0 4.8 32 122-153 141-173 (226)
153 PF13464 DUF4115: Domain of un 20.6 3E+02 0.0065 19.1 7.2 45 104-148 3-48 (77)
154 PF05962 HutD: HutD; InterPro 20.4 1.5E+02 0.0032 24.6 3.8 48 100-154 136-183 (184)
155 COG3145 AlkB Alkylated DNA rep 20.3 1.9E+02 0.0041 24.7 4.5 41 103-143 136-178 (194)
156 TIGR01450 recC exodeoxyribonuc 20.2 1.1E+02 0.0023 32.2 3.6 52 59-111 373-424 (1067)
157 TIGR00365 monothiol glutaredox 20.1 2.5E+02 0.0054 20.5 4.7 52 35-88 34-85 (97)
No 1
>KOG2107 consensus Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=100.00 E-value=5.2e-65 Score=414.98 Aligned_cols=177 Identities=71% Similarity=1.302 Sum_probs=173.3
Q ss_pred heeeEEecCC-CCCCCCCCCCCCCCcCCHhHHhhcCeEEEEeCCCCccChHHHHHHHHhcCCCeeeeEEECCCCCCChHH
Q 029255 8 VIQAWYMDDS-DEDQRLPHHKDPKEFVSLDQLSELGVLSWRLDADNYETDEELKKIREDRGYSYMDFCEVCPEKLPNYEE 86 (196)
Q Consensus 8 m~~aw~~~~~-~~~~~l~~~~~p~~~v~~~~L~~~GV~~~~~~~~~~~~~~~i~~l~~~rGy~~~Dvv~l~p~~~p~~e~ 86 (196)
||+||||++. ++|||+|||.+|++.||+++|+++||+||++++++++.+.+|++|++++||+.+|+++++++++|||++
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 8999999995 599999999999999999999999999999999999899999999999999999999999999999999
Q ss_pred HhhccccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCCCceeecC
Q 029255 87 KIKNFFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGDPVWTPFN 166 (196)
Q Consensus 87 ~~~~f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~~gW~~~~ 166 (196)
|+++||+||.|.++|||||++|+|||+|++.+|+||||.|++||||+|||||+||||++++++++|+|||.++|.|+|+|
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 CCCCCchhHHHHHHHHhh
Q 029255 167 RPHDHLPARKGYVQNFLQ 184 (196)
Q Consensus 167 r~~d~~~~r~~yl~~~~~ 184 (196)
||+|..++|++||..|..
T Consensus 161 R~~d~l~~r~~yl~~i~~ 178 (179)
T KOG2107|consen 161 RPHDELPARKQYLNFISQ 178 (179)
T ss_pred CccccchhHHHHHhhccc
Confidence 999999999999998863
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=2.3e-49 Score=322.86 Aligned_cols=155 Identities=58% Similarity=1.009 Sum_probs=133.7
Q ss_pred eeEEecCCC-CCCCCCCCCCCCCcCCHhHHhhcCeEEEEeCCCCccChHHHHHHHHhcCCCeeee-EEECCCCCCChHHH
Q 029255 10 QAWYMDDSD-EDQRLPHHKDPKEFVSLDQLSELGVLSWRLDADNYETDEELKKIREDRGYSYMDF-CEVCPEKLPNYEEK 87 (196)
Q Consensus 10 ~aw~~~~~~-~~~~l~~~~~p~~~v~~~~L~~~GV~~~~~~~~~~~~~~~i~~l~~~rGy~~~Dv-v~l~p~~~p~~e~~ 87 (196)
|||||++.. +|+++||+++|++++|..+|+++||.+|+++++..+....++.+.+.++|..+++ |...+..+||++++
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 699999965 7999999999999999999999999999999887777889999999999999886 44444446999999
Q ss_pred hhccccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCCCceee
Q 029255 88 IKNFFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGDPVWTP 164 (196)
Q Consensus 88 ~~~f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~~gW~~ 164 (196)
+++|+.||+|+++|||||++|+|+|+|++.++.|+||.|++||||+||+||+|||+++++++++|||||++++||+|
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 99999999999999999999999999999999999999999999999999999999999999999999999999997
No 3
>COG1791 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=100.00 E-value=5.1e-47 Score=311.01 Aligned_cols=168 Identities=32% Similarity=0.551 Sum_probs=147.5
Q ss_pred heeeEEecCCCCCCCCCCCCCCCCcCCHhHHhhcCeEE--EEeCCCCc----------cChHHHHHHHHhcCCCeeeeEE
Q 029255 8 VIQAWYMDDSDEDQRLPHHKDPKEFVSLDQLSELGVLS--WRLDADNY----------ETDEELKKIREDRGYSYMDFCE 75 (196)
Q Consensus 8 m~~aw~~~~~~~~~~l~~~~~p~~~v~~~~L~~~GV~~--~~~~~~~~----------~~~~~i~~l~~~rGy~~~Dvv~ 75 (196)
|++++.+++. . -..++..+ ..+|+++||.| |.+.+... .+..+|++|++++||+++|||+
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----K--IITNQDEI--APELSKIEVSFERWEATALIKHGAEKEHIIDAYETEIDRLIRERGYKNRDVVS 72 (181)
T ss_pred CceEEEecCc----c--cccCHhHh--hhhcccceeEhhhhhhccccccCcchhhhHhhHHHHHHHHHHhhCCceeeEEE
Confidence 7889888877 1 11234455 47888999999 55322210 1678999999999999999999
Q ss_pred ECCCCCCChHHHhhccccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEE
Q 029255 76 VCPEKLPNYEEKIKNFFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRL 155 (196)
Q Consensus 76 l~p~~~p~~e~~~~~f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRl 155 (196)
|+|++ |++++++++|++||+|.++||||||+|+|+|+|++.+++|++|.|++||||+||+||+|||+++++++|+||||
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 99987 99999999999999999999999999999999998888999999999999999999999999999999999999
Q ss_pred ecCCCceeecCCCCCCchhHHHHHHHHhh
Q 029255 156 FVGDPVWTPFNRPHDHLPARKGYVQNFLQ 184 (196)
Q Consensus 156 F~~~~gW~~~~r~~d~~~~r~~yl~~~~~ 184 (196)
|+.++||+|++|..|..+.|+.|+..+.+
T Consensus 152 F~~~~gWVa~ytg~di~~~~~~y~~~i~~ 180 (181)
T COG1791 152 FTEPEGWVAIYTGDDIADRFPKYIEEINQ 180 (181)
T ss_pred eeCCCCceeeecCchhHHHHHHHHHHhhc
Confidence 99999999999988888889989998763
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=98.93 E-value=7.1e-09 Score=71.24 Aligned_cols=61 Identities=26% Similarity=0.456 Sum_probs=53.0
Q ss_pred cccccccCcc-eEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEe
Q 029255 91 FFEEHLHTDE-EIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLF 156 (196)
Q Consensus 91 f~~eH~H~~d-Eiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF 156 (196)
....|.|+.. |++||++|++.+.+. ++ ++.+++||.+.+|+|+.|++....+..++.+-+|
T Consensus 10 ~~~~h~H~~~~e~~~vl~G~~~~~~~---~~--~~~l~~Gd~~~i~~~~~H~~~n~~~~~~~~l~V~ 71 (71)
T PF07883_consen 10 SIPPHRHPGEDEFFYVLSGEGTLTVD---GE--RVELKPGDAIYIPPGVPHQVRNPGDEPARFLVVY 71 (71)
T ss_dssp EEEEEEESSEEEEEEEEESEEEEEET---TE--EEEEETTEEEEEETTSEEEEEEESSSEEEEEEEE
T ss_pred CCCCEECCCCCEEEEEEECCEEEEEc---cE--EeEccCCEEEEECCCCeEEEEECCCCCEEEEEEC
Confidence 3679999987 999999999999974 55 5789999999999999999998888777777665
No 5
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=98.89 E-value=7.2e-09 Score=80.44 Aligned_cols=63 Identities=22% Similarity=0.398 Sum_probs=52.3
Q ss_pred cccccccC-cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecC
Q 029255 91 FFEEHLHT-DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVG 158 (196)
Q Consensus 91 f~~eH~H~-~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~ 158 (196)
...+|+|+ .++..|||+|++.|.+. ++ ...+++||+|++|+|+.||+...++..+..|-++..
T Consensus 55 ~~~~H~hp~~~~~~~Vl~G~~~~~~~---g~--~~~l~~Gd~i~ip~g~~H~~~a~~~~~~~~l~v~~~ 118 (131)
T COG1917 55 VIPWHTHPLGEQTIYVLEGEGTVQLE---GE--KKELKAGDVIIIPPGVVHGLKAVEDEPMVLLLVFPL 118 (131)
T ss_pred ccccccCCCcceEEEEEecEEEEEec---CC--ceEecCCCEEEECCCCeeeeccCCCCceeEEEEeee
Confidence 37899998 78999999999999997 22 368999999999999999999877764555555554
No 6
>COG0662 {ManC} Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=98.83 E-value=1.8e-08 Score=78.83 Aligned_cols=60 Identities=23% Similarity=0.365 Sum_probs=48.9
Q ss_pred cccccCc-ceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEec
Q 029255 93 EEHLHTD-EEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFV 157 (196)
Q Consensus 93 ~eH~H~~-dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~ 157 (196)
.+|.|.. +|++||++|+|.+.++ |+ .+.+++||.++||+|+.|++....+..++.+-+-.
T Consensus 50 ~~~~H~~~dE~~~Vl~G~g~v~~~---~~--~~~v~~gd~~~iP~g~~H~~~N~G~~~L~liei~~ 110 (127)
T COG0662 50 SLHHHHHRDEHWYVLEGTGKVTIG---GE--EVEVKAGDSVYIPAGTPHRVRNTGKIPLVLIEVQS 110 (127)
T ss_pred CcccccCcceEEEEEeeEEEEEEC---CE--EEEecCCCEEEECCCCcEEEEcCCCcceEEEEEec
Confidence 5666655 9999999999999997 44 48999999999999999999877665566655543
No 7
>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=98.75 E-value=1.6e-07 Score=74.49 Aligned_cols=77 Identities=23% Similarity=0.354 Sum_probs=60.3
Q ss_pred eeeEEECCCCCCChHHHhhccccccccC-cceEEEEEeceEEEEEEeCC-CeEEEEEEecCCEEEeCCCCeeeeeecCCC
Q 029255 71 MDFCEVCPEKLPNYEEKIKNFFEEHLHT-DEEIRYCVAGSGYFDVRDRN-EKWIRIWVKKGGMIVLPAGCYHRFTLDTDN 148 (196)
Q Consensus 71 ~Dvv~l~p~~~p~~e~~~~~f~~eH~H~-~dEiryil~G~g~f~v~~~~-d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~ 148 (196)
.-.+++.|.. +...|.|. .+|++||++|++.+.+.+.+ ++.....+++||++.||+|+.|++....+.
T Consensus 32 ~~~~~i~pg~----------~~~~h~H~~~~e~~~Vl~G~~~~~~~~~~~~~~~~~~l~~GD~~~ip~g~~H~~~n~~~~ 101 (146)
T smart00835 32 AARVNLEPGG----------MLPPHYHPRATELLYVVRGEGRVGVVDPNGNKVYDARLREGDVFVVPQGHPHFQVNSGDE 101 (146)
T ss_pred EEEEEecCCc----------CcCCeeCCCCCEEEEEEeCeEEEEEEeCCCCeEEEEEecCCCEEEECCCCEEEEEcCCCC
Confidence 3555677664 36799997 58999999999999997653 456678999999999999999999876666
Q ss_pred cEEEEEEec
Q 029255 149 YIKAMRLFV 157 (196)
Q Consensus 149 ~~~alRlF~ 157 (196)
.+..+-+..
T Consensus 102 ~~~~l~~~~ 110 (146)
T smart00835 102 NLEFVAFNT 110 (146)
T ss_pred CEEEEEEec
Confidence 666664333
No 8
>PRK04190 glucose-6-phosphate isomerase; Provisional
Probab=98.75 E-value=1.3e-07 Score=79.75 Aligned_cols=85 Identities=21% Similarity=0.334 Sum_probs=65.2
Q ss_pred CeeeeEEECCCCCCChHHHhhcccc--ccccC---cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeee
Q 029255 69 SYMDFCEVCPEKLPNYEEKIKNFFE--EHLHT---DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFT 143 (196)
Q Consensus 69 ~~~Dvv~l~p~~~p~~e~~~~~f~~--eH~H~---~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~ 143 (196)
-..++++|.|.... +.|+. -|.|. ..|++||++|+|.+.+.+.+++...+.+++||++.||+|+.|++.
T Consensus 68 L~~g~t~l~PG~~g------~e~~mt~gH~H~~~~~~EiyyvlsG~g~~~l~~~~G~~~~~~v~pGd~v~IPpg~~H~~i 141 (191)
T PRK04190 68 LNFGTTRLYPGKVG------DEYFMTKGHFHAKADRAEIYYGLKGKGLMLLQDPEGEARWIEMEPGTVVYVPPYWAHRSV 141 (191)
T ss_pred eEEEEEEECCCcEe------cccccCCCeEcCCCCCCEEEEEEeCEEEEEEecCCCcEEEEEECCCCEEEECCCCcEEeE
Confidence 45588999987521 23332 37774 369999999999999986665666789999999999999999998
Q ss_pred ecCCCcEEEEEEecCC
Q 029255 144 LDTDNYIKAMRLFVGD 159 (196)
Q Consensus 144 ~~~~~~~~alRlF~~~ 159 (196)
...+..++.+-++...
T Consensus 142 N~G~epl~fl~v~p~~ 157 (191)
T PRK04190 142 NTGDEPLVFLACYPAD 157 (191)
T ss_pred ECCCCCEEEEEEEcCC
Confidence 7666667777666544
No 9
>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=98.73 E-value=3.8e-08 Score=80.93 Aligned_cols=55 Identities=22% Similarity=0.323 Sum_probs=47.1
Q ss_pred ccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
+.+|.|+.||.||+++|+..+.+++. ++.-.+.+++||+++||+|++|.+...++
T Consensus 41 ~d~H~~~tdE~FyqleG~~~l~v~d~-g~~~~v~L~eGd~flvP~gvpHsP~r~~~ 95 (159)
T TIGR03037 41 TDFHDDPGEEFFYQLKGEMYLKVTEE-GKREDVPIREGDIFLLPPHVPHSPQRPAG 95 (159)
T ss_pred cccccCCCceEEEEEcceEEEEEEcC-CcEEEEEECCCCEEEeCCCCCcccccCCC
Confidence 57899999999999999999999853 33335899999999999999999977544
No 10
>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=98.70 E-value=1.3e-07 Score=74.86 Aligned_cols=85 Identities=24% Similarity=0.323 Sum_probs=59.3
Q ss_pred HHHhcCCCeeeeEEECCCCCCChHHHhhccccccccCcceEEEEEeceEEEEEEeCCC-----eEEEE--EEecCCEEEe
Q 029255 62 IREDRGYSYMDFCEVCPEKLPNYEEKIKNFFEEHLHTDEEIRYCVAGSGYFDVRDRNE-----KWIRI--WVKKGGMIVL 134 (196)
Q Consensus 62 l~~~rGy~~~Dvv~l~p~~~p~~e~~~~~f~~eH~H~~dEiryil~G~g~f~v~~~~d-----~~~~i--~~~~GDlI~V 134 (196)
+....++ ..-.+.|.|.. +...|.|...|+.||++|+|.+.+-..++ +...- .+++||+++|
T Consensus 28 ~~~~~~~-~~~~~~i~pg~----------~~~Ph~h~a~~i~~V~~G~~~~~~v~~~~~~~~~~~~~~~v~l~~Gdv~~v 96 (144)
T PF00190_consen 28 LLGLNGV-AVRRVLIEPGG----------LRAPHYHNADEIVYVIEGRGRVGVVGPGGPQEEFRDFSQKVRLKAGDVFVV 96 (144)
T ss_dssp HHHHTTE-EEEEEEEETTE----------EEEEEEESSEEEEEEEESEEEEEEEETTCSSSEEEEEEEEEEEETTEEEEE
T ss_pred eecccce-EEEeeehhcCC----------ccceeEeeeeEEeeeeccceEEEEEecCCccccceeeeceeeeecccceee
Confidence 3333444 33455567664 47899996699999999999999987654 23333 4999999999
Q ss_pred CCCCeeeeeecCCCcEEEEEEec
Q 029255 135 PAGCYHRFTLDTDNYIKAMRLFV 157 (196)
Q Consensus 135 PaG~~H~F~~~~~~~~~alRlF~ 157 (196)
|+|..||...+.+.....+.+|.
T Consensus 97 P~G~~h~~~n~~~~~~~~~~~f~ 119 (144)
T PF00190_consen 97 PAGHPHWIINDGDDEALVLIIFD 119 (144)
T ss_dssp -TT-EEEEEECSSSSEEEEEEEE
T ss_pred ccceeEEEEcCCCCCCEEEEEEE
Confidence 99999999988633444444443
No 11
>PRK13264 3-hydroxyanthranilate 3,4-dioxygenase; Provisional
Probab=98.62 E-value=1.1e-07 Score=79.52 Aligned_cols=55 Identities=24% Similarity=0.400 Sum_probs=46.9
Q ss_pred ccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
+.+|.|+.||.||+++|++...+++ +++.-.+.+++||+++||+|++|+....++
T Consensus 47 ~d~H~~~tdE~FyqleG~~~l~v~d-~g~~~~v~L~eGd~fllP~gvpHsP~r~~~ 101 (177)
T PRK13264 47 TDFHYDPGEEFFYQLEGDMYLKVQE-DGKRRDVPIREGEMFLLPPHVPHSPQREAG 101 (177)
T ss_pred cccccCCCceEEEEECCeEEEEEEc-CCceeeEEECCCCEEEeCCCCCcCCccCCC
Confidence 6789999999999999999999985 343336899999999999999999976433
No 12
>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=98.62 E-value=2.4e-07 Score=80.82 Aligned_cols=59 Identities=20% Similarity=0.376 Sum_probs=51.0
Q ss_pred ccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecC
Q 029255 94 EHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVG 158 (196)
Q Consensus 94 eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~ 158 (196)
-|+|..+|..|||+|+|.|.+. ++| +.|++||+|.||||..||+..+.+..++.| |+++
T Consensus 195 ~~~H~~eh~~yiL~G~G~~~~~---g~~--~~V~~GD~i~i~~~~~h~~~~~G~~~~~~l-~ykd 253 (260)
T TIGR03214 195 IETHVMEHGLYVLEGKGVYNLD---NNW--VPVEAGDYIWMGAYCPQACYAGGRGEFRYL-LYKD 253 (260)
T ss_pred cccccceeEEEEEeceEEEEEC---CEE--EEecCCCEEEECCCCCEEEEecCCCcEEEE-EEcc
Confidence 5788889999999999999884 776 679999999999999999998776667777 6665
No 13
>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=98.61 E-value=4.2e-07 Score=83.17 Aligned_cols=68 Identities=19% Similarity=0.240 Sum_probs=58.2
Q ss_pred ccccccCc-ceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCC
Q 029255 92 FEEHLHTD-EEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGD 159 (196)
Q Consensus 92 ~~eH~H~~-dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~ 159 (196)
...|.|.. +|+.||++|++.+.+.+.+++.....+++||+++||+|..|++....+..++.+-+|+.+
T Consensus 258 ~~~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 258 RELHWHPNADEWQYFIQGQARMTVFAAGGNARTFDYQAGDVGYVPRNMGHYVENTGDETLVFLEVFKAD 326 (367)
T ss_pred cCCeeCcCCCeEEEEEEEEEEEEEEecCCcEEEEEECCCCEEEECCCCeEEEEECCCCCEEEEEEECCC
Confidence 67899995 899999999999999765554445789999999999999999997766678899888874
No 14
>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=98.52 E-value=4.7e-07 Score=67.31 Aligned_cols=60 Identities=23% Similarity=0.411 Sum_probs=43.2
Q ss_pred cccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEE
Q 029255 91 FFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRL 155 (196)
Q Consensus 91 f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRl 155 (196)
.+..|.|+.-|+.||++|+|.+.++ ++ ...+++||++++|+|..|.+...++......-+
T Consensus 15 ~~~~h~h~~~~i~~v~~G~~~~~~~---~~--~~~l~~g~~~li~p~~~H~~~~~~~~~~~~~~i 74 (136)
T PF02311_consen 15 EFPPHWHDFYEIIYVLSGEGTLHID---GQ--EYPLKPGDLFLIPPGQPHSYYPDSNEPWEYYWI 74 (136)
T ss_dssp SEEEETT-SEEEEEEEEE-EEEEET---TE--EEEE-TT-EEEE-TTS-EEEEE-TTSEEEEEEE
T ss_pred ccCCEECCCEEEEEEeCCEEEEEEC---CE--EEEEECCEEEEecCCccEEEecCCCCCEEEEEE
Confidence 4688999999999999999999885 54 478999999999999999999888644443333
No 15
>COG2140 Thermophilic glucose-6-phosphate isomerase and related metalloenzymes [Carbohydrate transport and metabolism / General function prediction only]
Probab=98.36 E-value=2.5e-06 Score=72.93 Aligned_cols=69 Identities=26% Similarity=0.378 Sum_probs=60.3
Q ss_pred cccccCc-ce--EEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCCCc
Q 029255 93 EEHLHTD-EE--IRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGDPV 161 (196)
Q Consensus 93 ~eH~H~~-dE--iryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~~g 161 (196)
.-|.|+. || +.|+++|+|.+.|...+++.+.+.+++||+|+||+|--|+-..+.+..+..+-+|....+
T Consensus 94 ~~H~Hp~ade~E~y~vi~G~g~m~v~~~~G~~~v~~~~~Gd~iyVPp~~gH~t~N~Gd~pLvf~~v~~~~~~ 165 (209)
T COG2140 94 ELHYHPNADEPEIYYVLKGEGRMLVQKPEGEARVIAVRAGDVIYVPPGYGHYTINTGDEPLVFLNVYPADAG 165 (209)
T ss_pred ccccCCCCCcccEEEEEeccEEEEEEcCCCcEEEEEecCCcEEEeCCCcceEeecCCCCCEEEEEEEeCCCC
Confidence 4599975 55 999999999999998888888899999999999999999998877777888888877644
No 16
>PRK13290 ectC L-ectoine synthase; Reviewed
Probab=98.36 E-value=2.2e-06 Score=67.56 Aligned_cols=61 Identities=18% Similarity=0.286 Sum_probs=49.3
Q ss_pred ccccccCcceEEEEEeceEEEE-EEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecC
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFD-VRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVG 158 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~-v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~ 158 (196)
...|+|...|+.|||+|++.|. +. +++ .+.+++||.+.+|+|..|++... ..+..|-+++.
T Consensus 48 ~~~h~h~~~E~~yVL~G~~~~~~i~--~g~--~~~L~aGD~i~~~~~~~H~~~N~--e~~~~l~v~tP 109 (125)
T PRK13290 48 THLHYKNHLEAVYCIEGEGEVEDLA--TGE--VHPIRPGTMYALDKHDRHYLRAG--EDMRLVCVFNP 109 (125)
T ss_pred ccceeCCCEEEEEEEeCEEEEEEcC--CCE--EEEeCCCeEEEECCCCcEEEEcC--CCEEEEEEECC
Confidence 4568887679999999999999 63 244 37899999999999999999986 34666666764
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=98.31 E-value=3.8e-06 Score=76.96 Aligned_cols=66 Identities=23% Similarity=0.218 Sum_probs=53.9
Q ss_pred ccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecC
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVG 158 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~ 158 (196)
...|.|..+|+.||++|++.+.+.+.+++.+...+++||++++|+|..|.+....+ ....+-+|..
T Consensus 80 ~~~HwH~~~E~~yVl~G~~~v~~~d~~g~~~~~~L~~GD~~~fP~g~~H~~~n~~~-~~~~l~vf~~ 145 (367)
T TIGR03404 80 RELHWHKEAEWAYVLYGSCRITAVDENGRNYIDDVGAGDLWYFPPGIPHSLQGLDE-GCEFLLVFDD 145 (367)
T ss_pred CCcccCCCceEEEEEeeEEEEEEEcCCCcEEEeEECCCCEEEECCCCeEEEEECCC-CeEEEEEeCC
Confidence 46899998999999999999999866667655579999999999999999987643 3555555554
No 18
>PRK09943 DNA-binding transcriptional repressor PuuR; Provisional
Probab=98.29 E-value=3.7e-06 Score=69.10 Aligned_cols=62 Identities=16% Similarity=0.200 Sum_probs=51.1
Q ss_pred ccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecC
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVG 158 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~ 158 (196)
...|.|..+|+.||++|++.+.+. ++ .+.+++||.+.+|+++.|++....+..++++-++..
T Consensus 121 ~~~~~h~~~E~~~Vl~G~~~~~~~---~~--~~~l~~Gd~~~~~~~~~H~~~n~~~~~~~~l~~~~p 182 (185)
T PRK09943 121 GERIKHQGEEIGTVLEGEIVLTIN---GQ--DYHLVAGQSYAINTGIPHSFSNTSAGICRIISAHTP 182 (185)
T ss_pred ccccccCCcEEEEEEEeEEEEEEC---CE--EEEecCCCEEEEcCCCCeeeeCCCCCCeEEEEEeCC
Confidence 346778889999999999999985 44 478999999999999999998766666777766553
No 19
>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=98.29 E-value=5.4e-06 Score=69.58 Aligned_cols=93 Identities=20% Similarity=0.327 Sum_probs=57.2
Q ss_pred HHHHhcCCCeeeeEEECCCCCCChHHHhhcccc--ccccCc-------ceEEEEEeceEEEEEEeCCC----eEEEEEEe
Q 029255 61 KIREDRGYSYMDFCEVCPEKLPNYEEKIKNFFE--EHLHTD-------EEIRYCVAGSGYFDVRDRNE----KWIRIWVK 127 (196)
Q Consensus 61 ~l~~~rGy~~~Dvv~l~p~~~p~~e~~~~~f~~--eH~H~~-------dEiryil~G~g~f~v~~~~d----~~~~i~~~ 127 (196)
.+.++++..+ |+..|.|..+. .+|+. =|.|.. .|++++++|+|.|-+.+.++ +++.+.++
T Consensus 43 ~~~~~~~L~y-giTvi~Pg~vG------~E~~~T~GH~H~~~~~~~~~pEvY~vl~G~g~~lLq~~~~~~~~~~~~v~~~ 115 (182)
T PF06560_consen 43 EWLQKRNLRY-GITVIPPGKVG------GEYFMTKGHYHPISPCGLSYPEVYEVLSGEGLILLQKEEGDDVGDVIAVEAK 115 (182)
T ss_dssp -------EEE-EEEEE---EET------TEE-B---BB-SS----TT--EEEEEEESSEEEEEE-TTS-----EEEEEE-
T ss_pred ccceeeeEEe-eeEEEcCcccC------CccccCCCccCCccccCCCCCcEEEEEeCEEEEEEEecCCCcceeEEEEEeC
Confidence 3555666644 99999988754 34443 477764 79999999999999998877 77889999
Q ss_pred cCCEEEeCCCCeeeeeecCCCcEEEEEEecCCC
Q 029255 128 KGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGDP 160 (196)
Q Consensus 128 ~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~~ 160 (196)
+||+++||+|.-|+-..+.+..+++.-++...-
T Consensus 116 ~G~~v~IPp~yaH~tIN~g~~~L~~~~~~~~~~ 148 (182)
T PF06560_consen 116 PGDVVYIPPGYAHRTINTGDEPLVFAAWVPRDA 148 (182)
T ss_dssp TTEEEEE-TT-EEEEEE-SSS-EEEEEEEETT-
T ss_pred CCCEEEECCCceEEEEECCCCcEEEEEEEecCC
Confidence 999999999999998766666677776665443
No 20
>PLN00212 glutelin; Provisional
Probab=98.17 E-value=1e-05 Score=76.88 Aligned_cols=69 Identities=19% Similarity=0.272 Sum_probs=55.2
Q ss_pred ccccccccCcceEEEEEeceEEEEEEeCCC-------------------------eEEEEEEecCCEEEeCCCCeeeeee
Q 029255 90 NFFEEHLHTDEEIRYCVAGSGYFDVRDRNE-------------------------KWIRIWVKKGGMIVLPAGCYHRFTL 144 (196)
Q Consensus 90 ~f~~eH~H~~dEiryil~G~g~f~v~~~~d-------------------------~~~~i~~~~GDlI~VPaG~~H~F~~ 144 (196)
.++..|.|...++.||+.|+|++.+-.++- ..-...+++||+|.||||+.||...
T Consensus 91 gL~lP~y~na~~liyV~qG~G~~G~v~pGcpeT~~~~~~~~~~~~~~~~~~~~d~hqkv~~lr~GDViaiPaG~~hw~yN 170 (493)
T PLN00212 91 GLLLPRYSNTPGLVYIIQGRGSMGLTFPGCPATYQQQFQQFLTEGQSQSQKFRDEHQKIHQFRQGDVVALPAGVAHWFYN 170 (493)
T ss_pred cccCccccCCCeEEEEEeCeEEEEEEeCCCcchhhhhcccccccccccccccccccccceEeccCCEEEECCCCeEEEEe
Confidence 468899998899999999999999974210 0001478999999999999999998
Q ss_pred cCCCcEEEEEEecC
Q 029255 145 DTDNYIKAMRLFVG 158 (196)
Q Consensus 145 ~~~~~~~alRlF~~ 158 (196)
+.+..++++.++..
T Consensus 171 ~Gd~~~v~v~~~d~ 184 (493)
T PLN00212 171 DGDAPVVALYVYDI 184 (493)
T ss_pred CCCCcEEEEEEEec
Confidence 87777888877754
No 21
>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=98.09 E-value=1.7e-05 Score=65.01 Aligned_cols=72 Identities=17% Similarity=0.205 Sum_probs=46.6
Q ss_pred ccccccCcceEEEEEeceEEEEEEeC----CCeEEEEEEecCCEEEeCCCCeee-eeecCCCcEEEEEEecCCCcee
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFDVRDR----NEKWIRIWVKKGGMIVLPAGCYHR-FTLDTDNYIKAMRLFVGDPVWT 163 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~v~~~----~d~~~~i~~~~GDlI~VPaG~~H~-F~~~~~~~~~alRlF~~~~gW~ 163 (196)
-..|.|+.|||++|++|+|+..+... .++--.+...+++.+.||.|-.|. |.+++...+.++-+.+.+|.=+
T Consensus 57 TPiHRHsCEEVFvVLkG~GTl~l~~~~~~~pG~pqef~~~pnSTf~IPvn~~HQv~NT~e~eDlqvlViiSrpPvkv 133 (167)
T PF02041_consen 57 TPIHRHSCEEVFVVLKGSGTLYLASSHEKYPGKPQEFPIFPNSTFHIPVNDAHQVWNTNEHEDLQVLVIISRPPVKV 133 (167)
T ss_dssp --EEEESS-EEEEEEE--EEEEE--SSSSS--S-EEEEE-TTEEEEE-TT--EEEE---SSS-EEEEEEEESSS--E
T ss_pred CCCccccccEEEEEEecceEEEEecccccCCCCceEEEecCCCeEEeCCCCcceeecCCCCcceEEEEEecCCCeEE
Confidence 46899999999999999999999854 245557899999999999999997 5677678899999998887543
No 22
>COG4297 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]
Probab=98.06 E-value=2.1e-05 Score=63.86 Aligned_cols=110 Identities=12% Similarity=0.167 Sum_probs=80.1
Q ss_pred hHHHHHHHHhcCCCeeeeEEECCCCCCChHHHhhccccccccCc-ceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEe
Q 029255 56 DEELKKIREDRGYSYMDFCEVCPEKLPNYEEKIKNFFEEHLHTD-EEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVL 134 (196)
Q Consensus 56 ~~~i~~l~~~rGy~~~Dvv~l~p~~~p~~e~~~~~f~~eH~H~~-dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~V 134 (196)
...++++.+++|+.. +++ + .-|---|.|+. -|+..++.|++...+++.++. .+.+..||.|+|
T Consensus 34 a~~~e~~~~~~gW~g----sW~-g---------~Vf~yHHYHs~aHEVl~vlrgqA~l~iGG~~G~--el~v~~GDvlli 97 (163)
T COG4297 34 AAQVEDHFKANGWFG----SWR-G---------GVFNYHHYHSGAHEVLGVLRGQAGLQIGGADGQ--ELEVGEGDVLLI 97 (163)
T ss_pred HHHHHHHHhhcCCcc----ccc-c---------cccccccccCCcceEEEEecceeEEEecCCCCc--eeeecCCCEEEE
Confidence 467999999999963 111 1 22334678886 799999999999999988887 589999999999
Q ss_pred CCCCeeeeeecCCCcEEEEEEecCCCceeecCCCCCC-chhHHHHHHHHh
Q 029255 135 PAGCYHRFTLDTDNYIKAMRLFVGDPVWTPFNRPHDH-LPARKGYVQNFL 183 (196)
Q Consensus 135 PaG~~H~F~~~~~~~~~alRlF~~~~gW~~~~r~~d~-~~~r~~yl~~~~ 183 (196)
|||+-|+-- ..+..|+.|--|.....|-- .++++. .+.-.+..+++.
T Consensus 98 PAGvGH~rl-~sS~DF~VvGaYp~G~q~di-qtg~~t~~aear~~I~~vp 145 (163)
T COG4297 98 PAGVGHCRL-HSSADFQVVGAYPPGQQADI-QTGAPTDLAEARARIKSVP 145 (163)
T ss_pred ecCcccccc-cCCCCeEEEcccCCcccccc-cCCCCccHHHHHHHHHcCC
Confidence 999999743 34556899988888776653 666533 333334455544
No 23
>PRK11171 hypothetical protein; Provisional
Probab=98.05 E-value=2.6e-05 Score=68.24 Aligned_cols=58 Identities=21% Similarity=0.399 Sum_probs=47.3
Q ss_pred cccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecC
Q 029255 95 HLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVG 158 (196)
Q Consensus 95 H~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~ 158 (196)
|.|..+|..||++|+|.+.+. ++| ..+++||.|.+|++..|+|....+..++.+ +|++
T Consensus 201 ~~~~~ee~i~Vl~G~~~~~~~---~~~--~~l~~GD~i~~~~~~~h~~~N~g~~~~~yl-~~k~ 258 (266)
T PRK11171 201 ETHVMEHGLYVLEGKGVYRLN---NDW--VEVEAGDFIWMRAYCPQACYAGGPGPFRYL-LYKD 258 (266)
T ss_pred cCCCceEEEEEEeCEEEEEEC---CEE--EEeCCCCEEEECCCCCEEEECCCCCcEEEE-EEcc
Confidence 568889999999999999984 665 679999999999999999997655444544 4444
No 24
>PRK13500 transcriptional activator RhaR; Provisional
Probab=98.05 E-value=1.2e-05 Score=70.99 Aligned_cols=66 Identities=20% Similarity=0.300 Sum_probs=52.8
Q ss_pred eEEECCCCCCChHHHhhccccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcE
Q 029255 73 FCEVCPEKLPNYEEKIKNFFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYI 150 (196)
Q Consensus 73 vv~l~p~~~p~~e~~~~~f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~ 150 (196)
.|.+.+.. |+. .+.+|.|+.-|+.||++|+|.+.+. ++ ...+++||+++||+|..|.+...++...
T Consensus 49 ~~~v~~~~-~~~------~~~~H~H~~~el~~v~~G~g~~~v~---~~--~~~l~~Gdl~~I~~~~~H~~~~~~~~~~ 114 (312)
T PRK13500 49 AVAVADRY-PQD------VFAEHTHDFCELVIVWRGNGLHVLN---DR--PYRITRGDLFYIHADDKHSYASVNDLVL 114 (312)
T ss_pred CEEEecCC-CCC------CCCccccceEEEEEEEcCeEEEEEC---CE--EEeecCCeEEEECCCCeecccccCCceE
Confidence 36666553 532 3789999999999999999999996 43 4789999999999999999987555333
No 25
>PRK13501 transcriptional activator RhaR; Provisional
Probab=97.99 E-value=1.5e-05 Score=69.07 Aligned_cols=51 Identities=24% Similarity=0.301 Sum_probs=45.0
Q ss_pred ccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
..+|.|+.-|+.||++|+|.+.|. ++ .+.+++||+++||+|..|.+....+
T Consensus 31 ~~~H~H~~~ei~~i~~G~~~~~i~---~~--~~~l~~g~~~~I~p~~~H~~~~~~~ 81 (290)
T PRK13501 31 FVEHTHQFCEIVIVWRGNGLHVLN---DH--PYRITCGDVFYIQAADHHSYESVHD 81 (290)
T ss_pred CccccccceeEEEEecCceEEEEC---Ce--eeeecCCeEEEEcCCCcccccccCC
Confidence 568999999999999999999995 44 4789999999999999999886543
No 26
>PRK10296 DNA-binding transcriptional regulator ChbR; Provisional
Probab=97.96 E-value=3e-05 Score=66.51 Aligned_cols=49 Identities=22% Similarity=0.423 Sum_probs=43.1
Q ss_pred cccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeee
Q 029255 91 FFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTL 144 (196)
Q Consensus 91 f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~ 144 (196)
....|.|+.-|+.||++|++.+.+. ++ .+.+.+||+++||+|..|.+..
T Consensus 35 ~~~~H~H~~~ei~~v~~G~~~~~i~---~~--~~~l~~g~l~~i~p~~~H~~~~ 83 (278)
T PRK10296 35 VSGLHQHDYYEFTLVLTGRYYQEIN---GK--RVLLERGDFVFIPLGSHHQSFY 83 (278)
T ss_pred CCCCcccccEEEEEEEeceEEEEEC---CE--EEEECCCcEEEeCCCCccceee
Confidence 4579999999999999999999995 44 4799999999999999997643
No 27
>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=97.90 E-value=4.9e-05 Score=71.34 Aligned_cols=63 Identities=14% Similarity=0.294 Sum_probs=50.5
Q ss_pred ccccccC-cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCC
Q 029255 92 FEEHLHT-DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGD 159 (196)
Q Consensus 92 ~~eH~H~-~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~ 159 (196)
...|.|. .+|.+||++|++.+.+. ++ .+.+++||.+.+|+|+.|++....+..++.+-+++++
T Consensus 389 ~~~h~H~~~~E~~~Vl~G~~~v~~d---g~--~~~l~~GDsi~ip~~~~H~~~N~g~~~~~~i~v~~~~ 452 (468)
T TIGR01479 389 LSLQMHHHRAEHWIVVSGTARVTIG---DE--TLLLTENESTYIPLGVIHRLENPGKIPLELIEVQSGS 452 (468)
T ss_pred cCccccCCCceEEEEEeeEEEEEEC---CE--EEEecCCCEEEECCCCcEEEEcCCCCCEEEEEEEcCC
Confidence 3456554 36888999999999995 44 4789999999999999999998777667877777643
No 28
>PRK13503 transcriptional activator RhaS; Provisional
Probab=97.89 E-value=1.6e-05 Score=67.73 Aligned_cols=53 Identities=19% Similarity=0.209 Sum_probs=45.6
Q ss_pred ccccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 90 NFFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 90 ~f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
..+.+|.|+.-|+.||++|+|.+.+. ++ .+.+++||+++||+|..|.+...++
T Consensus 26 ~~~~~H~H~~~ei~~v~~G~~~~~i~---~~--~~~l~~g~~~~i~~~~~h~~~~~~~ 78 (278)
T PRK13503 26 AAFPEHHHDFHEIVIVEHGTGIHVFN---GQ--PYTLSGGTVCFVRDHDRHLYEHTDN 78 (278)
T ss_pred ccccccccCceeEEEEecCceeeEec---CC--cccccCCcEEEECCCccchhhhccC
Confidence 34679999999999999999999997 33 3689999999999999998876544
No 29
>PRK13502 transcriptional activator RhaR; Provisional
Probab=97.89 E-value=3.9e-05 Score=65.83 Aligned_cols=51 Identities=25% Similarity=0.381 Sum_probs=45.0
Q ss_pred ccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
+..|.|+.-|+.|+++|+|.+.+. ++ ...+++||+++||+|..|.+...++
T Consensus 31 ~~~H~h~~~~l~~v~~G~~~~~i~---~~--~~~l~~g~l~li~~~~~H~~~~~~~ 81 (282)
T PRK13502 31 FAEHTHEFCELVMVWRGNGLHVLN---ER--PYRITRGDLFYIRAEDKHSYTSVND 81 (282)
T ss_pred CCccccceEEEEEEecCcEEEEEC---CE--EEeecCCcEEEECCCCcccccccCC
Confidence 678999999999999999999995 44 4789999999999999999876554
No 30
>PRK10371 DNA-binding transcriptional regulator MelR; Provisional
Probab=97.88 E-value=3.2e-05 Score=68.25 Aligned_cols=52 Identities=15% Similarity=0.239 Sum_probs=45.2
Q ss_pred cccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 91 FFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 91 f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
...+|.|.+-|+.|+++|++.|.+. ++ .+.+.+||+++||+|+.|.+...++
T Consensus 38 m~~~HwH~e~Ei~yv~~G~~~~~i~---g~--~~~l~~Gd~ili~s~~~H~~~~~~~ 89 (302)
T PRK10371 38 MPTSHWHGQVEVNVPFDGDVEYLIN---NE--KVQINQGHITLFWACTPHQLTDPGN 89 (302)
T ss_pred CCCCCccccEEEEEecCCcEEEEEC---CE--EEEEcCCcEEEEecCCcccccccCC
Confidence 3689999999999999999999996 44 4789999999999999998876444
No 31
>COG4101 Predicted mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=97.87 E-value=0.00011 Score=58.42 Aligned_cols=72 Identities=22% Similarity=0.290 Sum_probs=54.7
Q ss_pred eeeeEEECCCCCCChHHHhhccccccccCc-ceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCC
Q 029255 70 YMDFCEVCPEKLPNYEEKIKNFFEEHLHTD-EEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDN 148 (196)
Q Consensus 70 ~~Dvv~l~p~~~p~~e~~~~~f~~eH~H~~-dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~ 148 (196)
++-+|+|.|+.- -..|.|.+ |-+.|+|+|+.....++.=+ .-+.+.+||+|.||+|++|--..-++.
T Consensus 47 ~~~~vTi~pgAk----------akaH~H~~hEtaIYvlsG~ah~w~G~rLE--~ha~~~pGDf~YiPpgVPHqp~N~S~e 114 (142)
T COG4101 47 CMHLVTIPPGAK----------AKAHLHEEHETAIYVLSGEAHTWYGNRLE--EHAEVGPGDFFYIPPGVPHQPANLSTE 114 (142)
T ss_pred eEEEEeeCCCcc----------ccccccccccEEEEEEeceeeeeecccee--eeEEecCCCeEEcCCCCCCcccccCCC
Confidence 568899988741 35799987 78899999999988863322 357899999999999999986544444
Q ss_pred cEEEE
Q 029255 149 YIKAM 153 (196)
Q Consensus 149 ~~~al 153 (196)
-..|+
T Consensus 115 p~s~v 119 (142)
T COG4101 115 PLSAV 119 (142)
T ss_pred CeEEE
Confidence 45555
No 32
>PRK15457 ethanolamine utilization protein EutQ; Provisional
Probab=97.82 E-value=6.4e-05 Score=65.30 Aligned_cols=44 Identities=18% Similarity=0.284 Sum_probs=37.2
Q ss_pred cccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeee
Q 029255 95 HLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFT 143 (196)
Q Consensus 95 H~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~ 143 (196)
+++..+|+.||++|+..|.+. ++ .+.+++||+|+||+|..|.|.
T Consensus 171 wtl~~dEi~YVLEGe~~l~Id---G~--t~~l~pGDvlfIPkGs~~hf~ 214 (233)
T PRK15457 171 WTLNYDEIDMVLEGELHVRHE---GE--TMIAKAGDVMFIPKGSSIEFG 214 (233)
T ss_pred eeccceEEEEEEEeEEEEEEC---CE--EEEeCCCcEEEECCCCeEEec
Confidence 455779999999999999994 44 478999999999999996553
No 33
>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=97.79 E-value=5.6e-05 Score=64.77 Aligned_cols=58 Identities=19% Similarity=0.237 Sum_probs=48.1
Q ss_pred ccccccC-cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEE
Q 029255 92 FEEHLHT-DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMR 154 (196)
Q Consensus 92 ~~eH~H~-~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alR 154 (196)
...|.|+ .-|+.|+++|++.+.+. ++ .+.+++||+++||+|+.|.+...++....++.
T Consensus 36 ~~~H~H~~~~~l~~~~~G~~~~~~~---~~--~~~l~~g~~~ii~~~~~H~~~~~~~~~~~~i~ 94 (287)
T TIGR02297 36 MPVHFHDRYYQLHYLTEGSIALQLD---EH--EYSEYAPCFFLTPPSVPHGFVTDLDADGHVLT 94 (287)
T ss_pred CCCcccccceeEEEEeeCceEEEEC---CE--EEEecCCeEEEeCCCCccccccCCCcceEEEE
Confidence 5789998 69999999999999985 43 47899999999999999998776654445554
No 34
>PRK15460 cpsB mannose-1-phosphate guanyltransferase; Provisional
Probab=97.71 E-value=0.00024 Score=67.31 Aligned_cols=61 Identities=16% Similarity=0.211 Sum_probs=48.1
Q ss_pred cccccC-cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecC
Q 029255 93 EEHLHT-DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVG 158 (196)
Q Consensus 93 ~eH~H~-~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~ 158 (196)
..|.|. .+|..||++|++.+.+. |+ .+.+.+||.|.+|+|+.|++....+..++.|-+.++
T Consensus 399 ~~~~H~~~~E~~~VlsG~~~v~id---g~--~~~L~~GDSi~ip~g~~H~~~N~g~~~l~iI~V~~g 460 (478)
T PRK15460 399 SVQMHHHRAEHWVVVAGTAKVTID---GD--IKLLGENESIYIPLGATHCLENPGKIPLDLIEVRSG 460 (478)
T ss_pred CcCCCCCCceEEEEEeeEEEEEEC---CE--EEEecCCCEEEECCCCcEEEEcCCCCCEEEEEEEcC
Confidence 345553 36999999999999995 55 478999999999999999999766656666655444
No 35
>COG3837 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=97.69 E-value=0.00014 Score=59.89 Aligned_cols=65 Identities=20% Similarity=0.353 Sum_probs=51.9
Q ss_pred ccccccC-cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCC--CeeeeeecCCCcEEEEEEecCCCc
Q 029255 92 FEEHLHT-DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAG--CYHRFTLDTDNYIKAMRLFVGDPV 161 (196)
Q Consensus 92 ~~eH~H~-~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG--~~H~F~~~~~~~~~alRlF~~~~g 161 (196)
-..|.|+ +||.+|||+|++.+.+. +. +..+++||.+-.||| +-|-|......-++.|-+-+..+.
T Consensus 56 s~~H~Hs~edEfv~ILeGE~~l~~d---~~--e~~lrpGD~~gFpAG~~~aHhliN~s~~~~~yL~vG~r~~~ 123 (161)
T COG3837 56 SLRHWHSAEDEFVYILEGEGTLRED---GG--ETRLRPGDSAGFPAGVGNAHHLINRSDVILRYLEVGTREPD 123 (161)
T ss_pred ccccccccCceEEEEEcCceEEEEC---Ce--eEEecCCceeeccCCCcceeEEeecCCceEEEEEecccccc
Confidence 3457775 48999999999999885 32 468999999999999 999999888766777766665543
No 36
>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=97.66 E-value=0.00037 Score=56.73 Aligned_cols=76 Identities=21% Similarity=0.338 Sum_probs=57.3
Q ss_pred HhcCCCeeeeEEECCCCCCChHHHhhccccccccCc-ceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeee
Q 029255 64 EDRGYSYMDFCEVCPEKLPNYEEKIKNFFEEHLHTD-EEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRF 142 (196)
Q Consensus 64 ~~rGy~~~Dvv~l~p~~~p~~e~~~~~f~~eH~H~~-dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F 142 (196)
...+|+. -.++|.|+. -+..|.|.. .|.++|++|+|.+.+. |+. ..+.+||.+.||+|..|+.
T Consensus 59 ~~~~~~v-kri~V~pG~----------~lSlq~H~~R~E~W~Vv~G~a~v~~~---~~~--~~~~~g~sv~Ip~g~~H~i 122 (151)
T PF01050_consen 59 EGEGYKV-KRITVNPGK----------RLSLQYHHHRSEHWTVVSGTAEVTLD---DEE--FTLKEGDSVYIPRGAKHRI 122 (151)
T ss_pred ccCCEEE-EEEEEcCCC----------ccceeeecccccEEEEEeCeEEEEEC---CEE--EEEcCCCEEEECCCCEEEE
Confidence 3455654 567777764 367788876 9999999999999995 553 6799999999999999999
Q ss_pred eecCCCcEEEEEE
Q 029255 143 TLDTDNYIKAMRL 155 (196)
Q Consensus 143 ~~~~~~~~~alRl 155 (196)
....+..+..|-+
T Consensus 123 ~n~g~~~L~~IEV 135 (151)
T PF01050_consen 123 ENPGKTPLEIIEV 135 (151)
T ss_pred ECCCCcCcEEEEE
Confidence 7654434555544
No 37
>PF12973 Cupin_7: ChrR Cupin-like domain; PDB: 3O14_B 2Z2S_F 2Q1Z_B 3EBR_A.
Probab=97.66 E-value=8.9e-05 Score=54.48 Aligned_cols=58 Identities=19% Similarity=0.210 Sum_probs=42.4
Q ss_pred eeeeEEECCCCCCChHHHhhccccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecC
Q 029255 70 YMDFCEVCPEKLPNYEEKIKNFFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDT 146 (196)
Q Consensus 70 ~~Dvv~l~p~~~p~~e~~~~~f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~ 146 (196)
..-++.+.|+. -+..|.|...|-.|||+|+.. . .++ .+.+||+|..|+|+.|.+...+
T Consensus 25 ~~~L~r~~pG~----------~~p~H~H~g~ee~~VLeG~~~--d--~~~-----~~~~G~~~~~p~g~~h~~~s~~ 82 (91)
T PF12973_consen 25 RVSLLRLEPGA----------SLPRHRHPGGEEILVLEGELS--D--GDG-----RYGAGDWLRLPPGSSHTPRSDE 82 (91)
T ss_dssp EEEEEEE-TTE----------EEEEEEESS-EEEEEEECEEE--E--TTC-----EEETTEEEEE-TTEEEEEEESS
T ss_pred EEEEEEECCCC----------CcCccCCCCcEEEEEEEEEEE--E--CCc-----cCCCCeEEEeCCCCccccCcCC
Confidence 44566666653 488999999888899999965 2 233 3589999999999999999643
No 38
>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=97.61 E-value=0.00033 Score=59.77 Aligned_cols=72 Identities=11% Similarity=0.124 Sum_probs=56.6
Q ss_pred CeeeeEEECCCCCCChHHHhhccccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCC
Q 029255 69 SYMDFCEVCPEKLPNYEEKIKNFFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDN 148 (196)
Q Consensus 69 ~~~Dvv~l~p~~~p~~e~~~~~f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~ 148 (196)
...-++.|.|+. -+..|+|...|+.+||+|+ |. +.++ ...+||+|.+|+|..|.+++..+.
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 ARVRLLYIEAGQ----------SIPQHTHKGFELTLVLHGA--FS--DETG-----VYGVGDFEEADGSVQHQPRTVSGG 187 (215)
T ss_pred cEEEEEEECCCC----------ccCCCcCCCcEEEEEEEEE--EE--cCCC-----ccCCCeEEECCCCCCcCcccCCCC
Confidence 455677777764 2889999999999999999 43 2332 478999999999999999998877
Q ss_pred cEEEEEEecCC
Q 029255 149 YIKAMRLFVGD 159 (196)
Q Consensus 149 ~~~alRlF~~~ 159 (196)
.+.++-+...+
T Consensus 188 ~Cicl~v~dap 198 (215)
T TIGR02451 188 DCLCLAVLDAP 198 (215)
T ss_pred CeEEEEEecCC
Confidence 77777666554
No 39
>PLN00212 glutelin; Provisional
Probab=97.60 E-value=0.00067 Score=64.72 Aligned_cols=69 Identities=9% Similarity=0.192 Sum_probs=57.5
Q ss_pred ccccccccCc-ceEEEEEeceEEEEEEeCC-CeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCC
Q 029255 90 NFFEEHLHTD-EEIRYCVAGSGYFDVRDRN-EKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGD 159 (196)
Q Consensus 90 ~f~~eH~H~~-dEiryil~G~g~f~v~~~~-d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~ 159 (196)
..+..|+|.. -||.|+++|+|...|-+.+ ..++.=.+++||+++||+|..|--.++.++ +..+-+.+..
T Consensus 359 am~~PHwn~nA~eI~yV~rG~g~vqvV~~~g~~vf~~~L~~GdvfVVPqg~~v~~~A~~eg-fe~v~F~tna 429 (493)
T PLN00212 359 ALLSPFWNVNAHSVVYITQGRARVQVVSNNGKTVFNGVLRPGQLLIIPQHYAVLKKAEREG-CQYIAFKTNA 429 (493)
T ss_pred cccCCeecCCCCEEEEEeecceEEEEEcCCCCEEEEEEEcCCCEEEECCCCeEEEeecCCc-eEEEEeecCC
Confidence 4488999987 8999999999999998655 567777899999999999999987777554 7777666665
No 40
>COG3435 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=97.58 E-value=8.1e-05 Score=67.12 Aligned_cols=51 Identities=25% Similarity=0.468 Sum_probs=44.6
Q ss_pred ccccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeee
Q 029255 90 NFFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTL 144 (196)
Q Consensus 90 ~f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~ 144 (196)
..-..|.|+..-+|||++|.|.|.+. |++ ++.+++||+|+.|+++.|-...
T Consensus 103 EvApsHrHsqsAlRFvveG~Ga~T~V--dGe--r~~M~~GDfilTP~w~wHdHgn 153 (351)
T COG3435 103 EVAPSHRHNQSALRFVVEGKGAYTVV--DGE--RTPMEAGDFILTPAWTWHDHGN 153 (351)
T ss_pred ccCCcccccccceEEEEeccceeEee--cCc--eeeccCCCEEEccCceeccCCC
Confidence 34679999999999999999999997 444 6899999999999999997643
No 41
>PRK11171 hypothetical protein; Provisional
Probab=97.55 E-value=0.00042 Score=60.73 Aligned_cols=51 Identities=18% Similarity=0.217 Sum_probs=40.9
Q ss_pred CcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEE
Q 029255 98 TDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAM 153 (196)
Q Consensus 98 ~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~al 153 (196)
..+|+.||++|++.+.+. ++ ...+++||.+.+|+|+.|+|....+.....+
T Consensus 82 ~~eE~~~VlsG~l~v~~~---g~--~~~L~~GDsi~~p~~~~H~~~N~g~~~a~~l 132 (266)
T PRK11171 82 GAETFLFVVEGEITLTLE---GK--THALSEGGYAYLPPGSDWTLRNAGAEDARFH 132 (266)
T ss_pred CceEEEEEEeCEEEEEEC---CE--EEEECCCCEEEECCCCCEEEEECCCCCEEEE
Confidence 458999999999999985 44 4789999999999999999986444334443
No 42
>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=97.54 E-value=0.00069 Score=59.23 Aligned_cols=63 Identities=11% Similarity=0.115 Sum_probs=46.4
Q ss_pred ccccCc-ceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEE---EEEecCCCc
Q 029255 94 EHLHTD-EEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKA---MRLFVGDPV 161 (196)
Q Consensus 94 eH~H~~-dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~a---lRlF~~~~g 161 (196)
.|.|.. +|+.||++|++.+.+. +++ ..+++||.+.+|+|..|+|....+...+. .+-|...+|
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 GFGGEGIETFLFVISGEVNVTAE---GET--HELREGGYAYLPPGSKWTLANAQAEDARFFLYKKRYQPVEG 140 (260)
T ss_pred CCCCCceEEEEEEEeCEEEEEEC---CEE--EEECCCCEEEECCCCCEEEEECCCCCEEEEEEEeeeEEcCC
Confidence 455666 8999999999998875 443 68999999999999999997655443333 334444444
No 43
>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=97.46 E-value=0.0004 Score=63.30 Aligned_cols=54 Identities=26% Similarity=0.441 Sum_probs=45.9
Q ss_pred ccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCc
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNY 149 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~ 149 (196)
-..|.|...-++||++|+|.|.+- +++ ++.+++||+|++|++..|....+.+..
T Consensus 94 ~~~HRht~sAl~~vveG~G~~t~V--~g~--~~~~~~gD~~~tP~w~wH~H~n~~d~~ 147 (335)
T TIGR02272 94 APSHRHTQSALRFIVEGKGAFTAV--DGE--RTTMHPGDFIITPSWTWHDHGNPGDEP 147 (335)
T ss_pred CCccccccceEEEEEEcCceEEEE--CCE--EEeeeCCCEEEeCCCeeEecccCCCCc
Confidence 568999999999999999988774 455 689999999999999999987655443
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=97.43 E-value=0.00035 Score=49.99 Aligned_cols=43 Identities=19% Similarity=0.364 Sum_probs=34.9
Q ss_pred cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeec
Q 029255 99 DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLD 145 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~ 145 (196)
.+|..|||+|++.+... ++. .+.+++||++++|+|..-.++..
T Consensus 25 ~~E~~~vleG~v~it~~--~G~--~~~~~aGD~~~~p~G~~~~w~v~ 67 (74)
T PF05899_consen 25 EDEFFYVLEGEVTITDE--DGE--TVTFKAGDAFFLPKGWTGTWEVR 67 (74)
T ss_dssp SEEEEEEEEEEEEEEET--TTE--EEEEETTEEEEE-TTEEEEEEEE
T ss_pred CCEEEEEEEeEEEEEEC--CCC--EEEEcCCcEEEECCCCEEEEEEC
Confidence 39999999999888874 555 48999999999999997776653
No 45
>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=97.17 E-value=0.0023 Score=52.38 Aligned_cols=53 Identities=26% Similarity=0.423 Sum_probs=39.4
Q ss_pred cccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecC
Q 029255 93 EEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDT 146 (196)
Q Consensus 93 ~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~ 146 (196)
..|.-+.+|.||.++|.....|.+ +++.-.|.++.||+..+|++++|...-.+
T Consensus 47 DyHine~eE~FyQ~kG~m~Lkv~e-~g~~kdi~I~EGe~fLLP~~vpHsP~R~~ 99 (151)
T PF06052_consen 47 DYHINETEEFFYQLKGDMCLKVVE-DGKFKDIPIREGEMFLLPANVPHSPQRPA 99 (151)
T ss_dssp SEEE-SS-EEEEEEES-EEEEEEE-TTEEEEEEE-TTEEEEE-TT--EEEEE-T
T ss_pred ccccCCcceEEEEEeCcEEEEEEe-CCceEEEEeCCCcEEecCCCCCCCCcCCC
Confidence 678888999999999999999985 46666899999999999999999876544
No 46
>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=96.99 E-value=0.0077 Score=55.00 Aligned_cols=87 Identities=17% Similarity=0.135 Sum_probs=59.8
Q ss_pred hHHHHHHHH---hcCCCeeeeEEECCCCCCCh----HHHhhc-----cccccccCcceEEEEEeceEEEEEEeCCCeEEE
Q 029255 56 DEELKKIRE---DRGYSYMDFCEVCPEKLPNY----EEKIKN-----FFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIR 123 (196)
Q Consensus 56 ~~~i~~l~~---~rGy~~~Dvv~l~p~~~p~~----e~~~~~-----f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~ 123 (196)
.+.|+++.+ ..+|...-+--++|.+-+.. ...+.. --..|.|+...|++|++|+|+-.|+ ++ +
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 REALDDLTRTGEWDPWHGLKLRYVNPATGGYPMPTIGAFIQLLPKGFRTATYRSTDATVFCVVEGRGQVRIG---DA--V 289 (335)
T ss_pred HHHHHHHHhccCCCCCceEEEEEeCCCCCCCcchhHHHHHhccCCCCCCCCccccccEEEEEEeCeEEEEEC---CE--E
Confidence 355555543 23554444456677654432 222221 2457899999999999999999995 44 5
Q ss_pred EEEecCCEEEeCCCCeeeeeecCC
Q 029255 124 IWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 124 i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
+..++||+++||+...|.+..+++
T Consensus 290 ~~W~~gD~f~vPsW~~~~h~a~~d 313 (335)
T TIGR02272 290 FRFSPKDVFVVPSWHPVRFEASDD 313 (335)
T ss_pred EEecCCCEEEECCCCcEecccCCC
Confidence 889999999999998888877643
No 47
>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=96.92 E-value=0.0043 Score=50.86 Aligned_cols=43 Identities=26% Similarity=0.558 Sum_probs=32.4
Q ss_pred CcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeec
Q 029255 98 TDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLD 145 (196)
Q Consensus 98 ~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~ 145 (196)
..||+-||++|+ |.+. .+++ .+..++||+|.||+|..=.|...
T Consensus 94 ~YDEi~~VlEG~--L~i~-~~G~--~~~A~~GDvi~iPkGs~I~fst~ 136 (152)
T PF06249_consen 94 TYDEIKYVLEGT--LEIS-IDGQ--TVTAKPGDVIFIPKGSTITFSTP 136 (152)
T ss_dssp SSEEEEEEEEEE--EEEE-ETTE--EEEEETT-EEEE-TT-EEEEEEE
T ss_pred ecceEEEEEEeE--EEEE-ECCE--EEEEcCCcEEEECCCCEEEEecC
Confidence 469999999987 5555 3466 47899999999999999999764
No 48
>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=96.91 E-value=0.0055 Score=48.45 Aligned_cols=56 Identities=16% Similarity=0.208 Sum_probs=36.1
Q ss_pred ccccccCc-ceEEEEEeceEEEEEEeCCCeEEEEEEecCC-EEEeCCCCeeeeeecCCC
Q 029255 92 FEEHLHTD-EEIRYCVAGSGYFDVRDRNEKWIRIWVKKGG-MIVLPAGCYHRFTLDTDN 148 (196)
Q Consensus 92 ~~eH~H~~-dEiryil~G~g~f~v~~~~d~~~~i~~~~GD-lI~VPaG~~H~F~~~~~~ 148 (196)
-.+|.|.. .|.+++++|+..+.+.+...+ -.+.+...+ .|.||+|+.|.+..-+.+
T Consensus 46 RG~H~Hk~~~~~~~~l~Gs~~v~~~d~~~~-~~~~L~~~~~~L~Ippg~w~~~~~~s~~ 103 (131)
T PF05523_consen 46 RGWHAHKKTTQWFIVLSGSFKVVLDDGREE-EEFILDEPNKGLYIPPGVWHGIKNFSED 103 (131)
T ss_dssp EEEEEESS--EEEEEEES-EEEEEE-SS-E-EEEEE--TTEEEEE-TT-EEEEE---TT
T ss_pred ccccccccccEEEEEEeCEEEEEEecCCCc-EEEEECCCCeEEEECCchhhHhhccCCC
Confidence 35999976 899999999999999865443 455665554 799999999999765555
No 49
>PF12852 Cupin_6: Cupin
Probab=96.66 E-value=0.0041 Score=50.68 Aligned_cols=44 Identities=25% Similarity=0.490 Sum_probs=35.2
Q ss_pred eEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 101 EIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 101 Eiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
-+.+|++|++++.+.+. +. .+.+++||++++|.|..|++..++.
T Consensus 37 ~fh~V~~G~~~l~~~~~-~~--~~~L~~GDivllp~g~~H~l~~~~~ 80 (186)
T PF12852_consen 37 SFHVVLRGSCWLRVPGG-GE--PIRLEAGDIVLLPRGTAHVLSSDPD 80 (186)
T ss_pred EEEEEECCeEEEEEcCC-CC--eEEecCCCEEEEcCCCCeEeCCCCC
Confidence 45788999999998632 23 4899999999999999999954443
No 50
>COG3450 Predicted enzyme of the cupin superfamily [General function prediction only]
Probab=96.38 E-value=0.0075 Score=47.41 Aligned_cols=46 Identities=17% Similarity=0.253 Sum_probs=36.4
Q ss_pred cccc-CcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeee
Q 029255 94 EHLH-TDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFT 143 (196)
Q Consensus 94 eH~H-~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~ 143 (196)
+|.+ +.+|..+||+|.+.+.-. +++ .+.+++||++++|+|..=.-.
T Consensus 57 ~r~~y~~~E~chil~G~v~~T~d--~Ge--~v~~~aGD~~~~~~G~~g~W~ 103 (116)
T COG3450 57 FRVTYDEDEFCHILEGRVEVTPD--GGE--PVEVRAGDSFVFPAGFKGTWE 103 (116)
T ss_pred ceEEcccceEEEEEeeEEEEECC--CCe--EEEEcCCCEEEECCCCeEEEE
Confidence 4444 348999999999998875 455 478999999999999876443
No 51
>PRK10572 DNA-binding transcriptional regulator AraC; Provisional
Probab=96.25 E-value=0.012 Score=50.68 Aligned_cols=51 Identities=14% Similarity=0.234 Sum_probs=41.4
Q ss_pred ccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
...|-...-++.|+++|+|.+.+. ++ +..+++||+|++|+|+.|.+...++
T Consensus 42 ~r~~~~~~~~i~~~~~G~~~~~~~---~~--~~~~~~g~~i~i~p~~~h~~~~~~~ 92 (290)
T PRK10572 42 DRPLGMKGYILNLTIRGQGVIFNG---GR--AFVCRPGDLLLFPPGEIHHYGRHPD 92 (290)
T ss_pred ecCCCccceEEEEEEeccEEEecC---Ce--eEecCCCCEEEECCCCceeeccCCC
Confidence 456666677889999999999874 44 4789999999999999999865443
No 52
>COG4766 EutQ Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=96.06 E-value=0.025 Score=46.80 Aligned_cols=85 Identities=18% Similarity=0.262 Sum_probs=57.4
Q ss_pred eeeeEEECCCCC--CChHHHhhccccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 70 YMDFCEVCPEKL--PNYEEKIKNFFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 70 ~~Dvv~l~p~~~--p~~e~~~~~f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
.-|+|+.....- -.|-+....+|.|-. ..||+-|||+|+....+. |+ .+..++||+|.||.|-.--|+....
T Consensus 88 ~tdLvt~~~g~~l~aG~m~~~~~tf~wtl-~yDe~d~VlEGrL~V~~~---g~--tv~a~aGDvifiPKgssIefst~ge 161 (176)
T COG4766 88 TTDLVTEQEGSRLGAGLMEMKNTTFPWTL-NYDEIDYVLEGRLHVRID---GR--TVIAGAGDVIFIPKGSSIEFSTTGE 161 (176)
T ss_pred eeceeecccCCccccceeeeccccCccee-cccceeEEEeeeEEEEEc---CC--eEecCCCcEEEecCCCeEEEeccce
Confidence 447777664420 124444456777744 579999999999766654 33 4789999999999999999987555
Q ss_pred CcEEEEEEecCCCcee
Q 029255 148 NYIKAMRLFVGDPVWT 163 (196)
Q Consensus 148 ~~~~alRlF~~~~gW~ 163 (196)
.+.+ +++=+..|.
T Consensus 162 --a~fl-yvtyPanWq 174 (176)
T COG4766 162 --AKFL-YVTYPANWQ 174 (176)
T ss_pred --EEEE-EEEcccccc
Confidence 3433 444455564
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=95.83 E-value=0.02 Score=53.80 Aligned_cols=56 Identities=21% Similarity=0.272 Sum_probs=38.0
Q ss_pred ccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEe
Q 029255 96 LHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLF 156 (196)
Q Consensus 96 ~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF 156 (196)
-.+.||+.|+-+|++.+.-+ - + .+.+++||+++||.||.++..+....+.-++-.|
T Consensus 143 NaDGD~Li~~q~G~l~l~Te-~-G---~L~v~pGd~~VIPRG~~~rv~l~~p~rgyi~E~~ 198 (424)
T PF04209_consen 143 NADGDELIFPQQGSLRLETE-F-G---RLDVRPGDYVVIPRGTRFRVELPGPARGYIIENF 198 (424)
T ss_dssp ESSEEEEEEEEES-EEEEET-T-E---EEEE-TTEEEEE-TT--EEEE-SSSEEEEEEEEE
T ss_pred cCCCCEEEEEEECCEEEEec-C-e---eEEEcCCeEEEECCeeEEEEEeCCCceEEEEEcC
Confidence 34559999999999888775 2 3 4889999999999999999998855444444444
No 54
>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=95.29 E-value=0.04 Score=40.71 Aligned_cols=27 Identities=26% Similarity=0.453 Sum_probs=18.4
Q ss_pred CCeEEEEEEecCCEEEeCCCCeeeeee
Q 029255 118 NEKWIRIWVKKGGMIVLPAGCYHRFTL 144 (196)
Q Consensus 118 ~d~~~~i~~~~GDlI~VPaG~~H~F~~ 144 (196)
+-+.+++..++||+|+||||.+|+--.
T Consensus 77 gi~~~~~~Q~~Ge~V~i~pg~~H~v~n 103 (114)
T PF02373_consen 77 GIPVYRFVQKPGEFVFIPPGAYHQVFN 103 (114)
T ss_dssp TS--EEEEEETT-EEEE-TT-EEEEEE
T ss_pred CcccccceECCCCEEEECCCceEEEEe
Confidence 345668899999999999999999644
No 55
>TIGR01015 hmgA homogentisate 1,2-dioxygenase. Missing in human disease alkaptonuria.
Probab=95.26 E-value=0.074 Score=50.15 Aligned_cols=56 Identities=14% Similarity=0.134 Sum_probs=44.1
Q ss_pred cCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEec
Q 029255 97 HTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFV 157 (196)
Q Consensus 97 H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~ 157 (196)
.+.|++.++-+|++.+.-+ -+ .+.+++||+++||.||.++..+....+.-++-.|.
T Consensus 146 aDGD~Livpq~G~l~i~TE-fG----~L~v~pgei~VIPRG~~frv~l~gp~rgyi~E~~g 201 (429)
T TIGR01015 146 ADGDFLIVPQQGALLITTE-FG----RLLVEPNEICVIPRGVRFRVTVLEPARGYICEVYG 201 (429)
T ss_pred cCCCEEEEEEeCcEEEEEe-cc----ceEecCCCEEEecCccEEEEeeCCCceEEEEeccC
Confidence 3559999999999998886 33 48999999999999999999986544444444454
No 56
>PRK05341 homogentisate 1,2-dioxygenase; Provisional
Probab=94.87 E-value=0.1 Score=49.28 Aligned_cols=56 Identities=16% Similarity=0.102 Sum_probs=42.8
Q ss_pred cCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecC-CCcEEEEEEec
Q 029255 97 HTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDT-DNYIKAMRLFV 157 (196)
Q Consensus 97 H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~-~~~~~alRlF~ 157 (196)
.+.|++.++-+|++.+.-+ -+ .+.+++||+++||.||.++..+.+ ..+.-++-.|.
T Consensus 152 aDGD~Livpq~G~l~i~TE-fG----~L~v~pgei~VIPRG~~frv~l~~gp~rgyi~E~~g 208 (438)
T PRK05341 152 ADGELLIVPQQGRLRLATE-LG----VLDVEPGEIAVIPRGVKFRVELPDGPARGYVCENYG 208 (438)
T ss_pred CCCCEEEEEEeCCEEEEEe-cc----ceEecCCCEEEEcCccEEEEecCCCCeeEEEEEecC
Confidence 3559999999999998886 32 489999999999999999999744 33333343343
No 57
>COG3257 GlxB Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]
Probab=94.36 E-value=0.094 Score=45.86 Aligned_cols=57 Identities=21% Similarity=0.394 Sum_probs=45.3
Q ss_pred ccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecC
Q 029255 96 LHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVG 158 (196)
Q Consensus 96 ~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~ 158 (196)
+|--|--.|||+|.|.|.+. ..| +.|++||+|-+-|-.+-+...+..+.++-| |+++
T Consensus 200 tHvmEHGlyvLeGk~vYrLn---~dw--v~V~aGD~mwm~A~cpQacyagG~g~frYL-lyKD 256 (264)
T COG3257 200 THVMEHGLYVLEGKGVYRLN---NNW--VPVEAGDYIWMGAYCPQACYAGGRGAFRYL-LYKD 256 (264)
T ss_pred hhhhhcceEEEecceEEeec---Cce--EEeecccEEEeeccChhhhccCCCCceEEE-EEec
Confidence 45556679999999999995 556 689999999999988888877766666666 5554
No 58
>PLN02658 homogentisate 1,2-dioxygenase
Probab=94.23 E-value=0.18 Score=47.60 Aligned_cols=55 Identities=15% Similarity=0.248 Sum_probs=42.7
Q ss_pred cCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecC-CCcEEEEEEe
Q 029255 97 HTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDT-DNYIKAMRLF 156 (196)
Q Consensus 97 H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~-~~~~~alRlF 156 (196)
.+.|++.++-+|++.+.-+ -+ .+.+++||+++||.||.++..+.+ ..+.-.+-.|
T Consensus 145 aDGD~Livpq~G~l~i~TE-fG----~L~v~pgei~VIPRG~~frv~l~~gp~rgyv~E~~ 200 (435)
T PLN02658 145 ADGDFLIVPQQGRLWIKTE-LG----KLQVSPGEIVVIPRGFRFAVDLPDGPSRGYVLEIF 200 (435)
T ss_pred CCCCEEEEEEeCCEEEEEe-cc----ceEecCCCEEEecCccEEEEecCCCCeeEEEEeec
Confidence 3559999999999998886 33 489999999999999999999744 3334444444
No 59
>KOG3995 consensus 3-hydroxyanthranilate oxygenase HAAO [Amino acid transport and metabolism]
Probab=93.97 E-value=0.08 Score=46.12 Aligned_cols=49 Identities=24% Similarity=0.431 Sum_probs=42.1
Q ss_pred cccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeee
Q 029255 93 EEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRF 142 (196)
Q Consensus 93 ~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F 142 (196)
..|.-+.+|.||-++|+....|-+. ++.-.|.++.||+..+|++++|..
T Consensus 47 dyHieegeE~FyQ~KGdMvLKVie~-g~~rDivI~qGe~flLParVpHSP 95 (279)
T KOG3995|consen 47 DYHIEEGEEVFYQLKGDMVLKVLEQ-GKHRDVVIRQGEIFLLPARVPHSP 95 (279)
T ss_pred ccccCCcchhheeecCceEEeeecc-CcceeeEEecCcEEEeccCCCCCh
Confidence 5688888999999999999999854 444579999999999999999953
No 60
>PRK09685 DNA-binding transcriptional activator FeaR; Provisional
Probab=93.66 E-value=0.19 Score=43.39 Aligned_cols=49 Identities=6% Similarity=0.087 Sum_probs=36.6
Q ss_pred eEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEE
Q 029255 101 EIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMR 154 (196)
Q Consensus 101 Eiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alR 154 (196)
-+.++++|++.+.+. ++ .+.+.+||++++|++.+|.+..........+.
T Consensus 73 ~l~~~~~G~~~~~~~---g~--~~~l~~G~~~l~~~~~p~~~~~~~~~~~~~l~ 121 (302)
T PRK09685 73 FTVFQLSGHAIIEQD---DR--QVQLAAGDITLIDASRPCSIYPQGLSEQISLL 121 (302)
T ss_pred EEEEEecceEEEEEC---Ce--EEEEcCCCEEEEECCCCcEeecCCCceeEEEE
Confidence 466778999998885 33 47899999999999999988765543333333
No 61
>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=92.92 E-value=0.62 Score=37.24 Aligned_cols=57 Identities=21% Similarity=0.262 Sum_probs=48.0
Q ss_pred CcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCC
Q 029255 98 TDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGD 159 (196)
Q Consensus 98 ~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~ 159 (196)
..-|..|+++|+|..-.. .++++ ..++||.+..+-..=.|...+.+ .+.++=.|.++
T Consensus 54 nHlEAvyci~G~Gev~~~-~~G~~--~~i~pGt~YaLd~hD~H~lra~~--dm~~vCVFnPp 110 (126)
T PF06339_consen 54 NHLEAVYCIEGEGEVEDL-DTGEV--HPIKPGTMYALDKHDRHYLRAKT--DMRLVCVFNPP 110 (126)
T ss_pred CceEEEEEEeceEEEEEc-cCCcE--EEcCCCeEEecCCCccEEEEecC--CEEEEEEcCCC
Confidence 347999999999998776 35664 57999999999999999999988 47888889876
No 62
>PF14525 AraC_binding_2: AraC-binding-like domain
Probab=92.88 E-value=0.44 Score=36.80 Aligned_cols=49 Identities=14% Similarity=0.277 Sum_probs=38.3
Q ss_pred EEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEE
Q 029255 102 IRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRL 155 (196)
Q Consensus 102 iryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRl 155 (196)
+.+.++|++.+..+ +. .+.+.+||+++++++-+.++...+......+++
T Consensus 58 l~~~~~G~~~~~~~---g~--~~~~~pg~~~l~d~~~~~~~~~~~~~~~~~l~i 106 (172)
T PF14525_consen 58 LVLPLSGSARIEQG---GR--EVELAPGDVVLLDPGQPYRLEFSAGCRQLSLRI 106 (172)
T ss_pred EEEEccCCEEEEEC---CE--EEEEcCCeEEEEcCCCCEEEEECCCccEEEEEE
Confidence 45566777766654 43 589999999999999999999887766667766
No 63
>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=92.66 E-value=0.36 Score=39.86 Aligned_cols=38 Identities=18% Similarity=0.340 Sum_probs=25.1
Q ss_pred eEEEEEEecCCEEEeCCCCeeeeeec-CCC-cEEEEEEec
Q 029255 120 KWIRIWVKKGGMIVLPAGCYHRFTLD-TDN-YIKAMRLFV 157 (196)
Q Consensus 120 ~~~~i~~~~GDlI~VPaG~~H~F~~~-~~~-~~~alRlF~ 157 (196)
..+.+.+++||+|.||+|-.|..... +++ .+..=..|.
T Consensus 207 ~~~~~~l~pGD~LfiP~gWwH~V~~~~~~~~sisvn~w~~ 246 (251)
T PF13621_consen 207 PPYEVVLEPGDVLFIPPGWWHQVENLSDDDLSISVNYWFR 246 (251)
T ss_dssp -EEEEEEETT-EEEE-TT-EEEEEESTTSSCEEEEEEEEE
T ss_pred ceeEEEECCCeEEEECCCCeEEEEEcCCCCeEEEEEEEec
Confidence 46789999999999999999999876 343 444333443
No 64
>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=91.60 E-value=0.81 Score=40.98 Aligned_cols=55 Identities=16% Similarity=0.325 Sum_probs=37.5
Q ss_pred ccccccCcceEEEEEeceEEEEEEeC----------------C--CeEEEEEEecCCEEEeCCCCeeeeeecC
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFDVRDR----------------N--EKWIRIWVKKGGMIVLPAGCYHRFTLDT 146 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~v~~~----------------~--d~~~~i~~~~GDlI~VPaG~~H~F~~~~ 146 (196)
+..|+=..|=+.+-++|+=...|... + .....+.++|||+|.||+|+.|..++..
T Consensus 128 ~~~H~D~~dvfvlQ~~G~K~W~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~pGD~LYlPrG~~H~~~~~~ 200 (319)
T PF08007_consen 128 FGPHYDDHDVFVLQLEGRKRWRLYPPPDEPAPLYSDQPFKQLEEFEPVEEVVLEPGDVLYLPRGWWHQAVTTD 200 (319)
T ss_dssp SECEE-SSEEEEEEEES-EEEEEE-SCCCTTTSSCE--TTTCG--STSEEEEE-TT-EEEE-TT-EEEEEESS
T ss_pred ccCEECCcccEEEECCceeEEEECCCCcccccccCCCCccccccCceeEEEEECCCCEEEECCCccCCCCCCC
Confidence 66777666777777899988888751 0 2245789999999999999999998876
No 65
>PF14499 DUF4437: Domain of unknown function (DUF4437); PDB: 2QDR_A.
Probab=91.37 E-value=0.26 Score=43.46 Aligned_cols=51 Identities=20% Similarity=0.234 Sum_probs=30.7
Q ss_pred ccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecC
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDT 146 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~ 146 (196)
-..|+|.-++-.||++|....+=. +--...+.+|.+...|+|..|.--+..
T Consensus 49 ~pph~H~~~~~~~Vi~G~~~~~~~----~a~~~~l~~Gsy~~~PaG~~h~~~~~~ 99 (251)
T PF14499_consen 49 SPPHIHNADYRGTVISGELHNGDP----KAAAMWLPAGSYWFQPAGEPHITAAEG 99 (251)
T ss_dssp E--BEESS-EEEEEEESEEEETTE----E-----E-TTEEEEE-TT-EEEETTS-
T ss_pred CCCcceeeeEEEEEEEeEEEcCCC----cccceecCCCceEeccCCCceeeeccC
Confidence 369999999999999998655322 212356999999999999877654433
No 66
>COG3435 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=90.85 E-value=0.72 Score=42.15 Aligned_cols=97 Identities=28% Similarity=0.440 Sum_probs=66.7
Q ss_pred ChHHHHHHHHhc------CCCeeeeEEECCCC----CCChHHHh----hcc-ccccccCcceEEEEEeceEEEEEEeCCC
Q 029255 55 TDEELKKIREDR------GYSYMDFCEVCPEK----LPNYEEKI----KNF-FEEHLHTDEEIRYCVAGSGYFDVRDRNE 119 (196)
Q Consensus 55 ~~~~i~~l~~~r------Gy~~~Dvv~l~p~~----~p~~e~~~----~~f-~~eH~H~~dEiryil~G~g~f~v~~~~d 119 (196)
+.+.|++|.... ||+.+ -++|-+ ||...+.+ ..| -..|.|.+.-|+-|++|+|+-.|. +
T Consensus 225 t~eAL~~la~~e~~dp~dG~~~r---yvNP~TGg~~mptI~a~mqlL~~Gf~~~~~r~t~s~iy~V~eGsg~~~Ig---~ 298 (351)
T COG3435 225 TREALERLARLEEPDPFDGYKMR---YVNPVTGGYAMPTIGAFMQLLPPGFHGKAHRHTDSTIYHVVEGSGYTIIG---G 298 (351)
T ss_pred HHHHHHHHHhccCCCCCCcceEE---EecCCCCCCcCchHHHHHHhcCCcccCCceeccCCEEEEEEecceeEEEC---C
Confidence 467788888776 65432 223321 23333322 344 458999999999999999999996 4
Q ss_pred eEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCCCc
Q 029255 120 KWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGDPV 161 (196)
Q Consensus 120 ~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~~g 161 (196)
+ +.....||+++||.=-.|.+..+++. .++--|++.|.
T Consensus 299 ~--rf~~~~~D~fvVPsW~~~~~~~gs~d--a~LFsfsD~PV 336 (351)
T COG3435 299 E--RFDWSAGDIFVVPSWAWHEHVNGSED--AVLFSFSDRPV 336 (351)
T ss_pred E--EeeccCCCEEEccCcceeecccCCcc--eEEEecCCcHH
Confidence 4 67899999999999999999887543 33444555554
No 67
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=90.47 E-value=1.8 Score=37.79 Aligned_cols=78 Identities=12% Similarity=0.115 Sum_probs=56.9
Q ss_pred hHHHhhccccccccCc--ceEEEEEeceEEEEEEeCCCeEE--EEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCC
Q 029255 84 YEEKIKNFFEEHLHTD--EEIRYCVAGSGYFDVRDRNEKWI--RIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGD 159 (196)
Q Consensus 84 ~e~~~~~f~~eH~H~~--dEiryil~G~g~f~v~~~~d~~~--~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~ 159 (196)
.+.+.+.|...|.|.. -|.+-|++|+..|.+-+.++... ......+..-+||++.-|+....+++----+.||..+
T Consensus 16 ~~~~p~~~~~~H~t~~g~~~~~~vl~G~l~~~~~de~g~~~~~~~l~~~~~~~~i~p~~wh~v~~~s~d~~~~l~fy~~~ 95 (287)
T PRK12335 16 KDTLPEMFQEKHNTKEGTWAKLTVLKGELKFYELTEDGEELSEHIFDAENQPPFIEPQAWHRIEAASDDLECQLSFYCKP 95 (287)
T ss_pred hhhchHHHHhccCCCCCcceEEEEEeeeEEEEEECCCCCeeeEEEEecCCCCceeCCcceEEEEEcCCCcEEEEEEEEcc
Confidence 4556689999999963 79999999999998875554322 2334444555799999999998776666667777765
Q ss_pred Cc
Q 029255 160 PV 161 (196)
Q Consensus 160 ~g 161 (196)
..
T Consensus 96 ~~ 97 (287)
T PRK12335 96 ED 97 (287)
T ss_pred hh
Confidence 43
No 68
>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=90.46 E-value=1.2 Score=38.86 Aligned_cols=26 Identities=31% Similarity=0.587 Sum_probs=19.1
Q ss_pred EEEEecCCEEEeCCCCeeeeeecCCC
Q 029255 123 RIWVKKGGMIVLPAGCYHRFTLDTDN 148 (196)
Q Consensus 123 ~i~~~~GDlI~VPaG~~H~F~~~~~~ 148 (196)
.|.+.||.-|.||+|++|+|-.....
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 57889999999999999999986554
No 69
>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=90.43 E-value=2.5 Score=35.18 Aligned_cols=56 Identities=20% Similarity=0.439 Sum_probs=41.1
Q ss_pred cccccC----cceEEEEEeceEEEEEEe--CC----CeEEEEEEecCC--EEEeCCCCeeeeeecCCC
Q 029255 93 EEHLHT----DEEIRYCVAGSGYFDVRD--RN----EKWIRIWVKKGG--MIVLPAGCYHRFTLDTDN 148 (196)
Q Consensus 93 ~eH~H~----~dEiryil~G~g~f~v~~--~~----d~~~~i~~~~GD--lI~VPaG~~H~F~~~~~~ 148 (196)
-.|.|. ...+..++.|+.+-.+-| ++ ++|..+.+.+++ .|.||+|.-|.|..-+++
T Consensus 57 GlH~q~~~~~q~Klv~~~~G~i~dV~vDlR~~SpTfg~~~~~~Ls~~n~~~l~IP~G~aHGf~~l~d~ 124 (176)
T PF00908_consen 57 GLHYQSPPYAQAKLVRCLRGEIFDVAVDLRKGSPTFGKWVSVELSAENPRQLYIPPGVAHGFQTLEDD 124 (176)
T ss_dssp EEEEESTTT-EEEEEEEEESEEEEEEEE-BTTSTTTT-EEEEEEETTT--EEEE-TTEEEEEEESSSE
T ss_pred EEEEecCCCCCCcEEEEecCeEEEEEEECCCCCCCCCEEEEEEeCccccCEEEeCCcceeeEEeccCc
Confidence 355554 457888999998665554 22 789999998887 699999999999876664
No 70
>COG3257 GlxB Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]
Probab=89.64 E-value=1.2 Score=39.07 Aligned_cols=42 Identities=21% Similarity=0.309 Sum_probs=34.7
Q ss_pred ceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecC
Q 029255 100 EEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDT 146 (196)
Q Consensus 100 dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~ 146 (196)
+-+.||++|+....+. ++ ...++.|++..||+|..|.++...
T Consensus 84 e~~lfVv~Ge~tv~~~---G~--th~l~eggyaylPpgs~~~~~N~~ 125 (264)
T COG3257 84 ETFLFVVSGEITVKAE---GK--THALREGGYAYLPPGSGWTLRNAQ 125 (264)
T ss_pred eEEEEEEeeeEEEEEc---Ce--EEEeccCCeEEeCCCCcceEeecc
Confidence 5578999999887775 44 368999999999999999998543
No 71
>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=89.56 E-value=2.6 Score=32.38 Aligned_cols=61 Identities=23% Similarity=0.341 Sum_probs=40.6
Q ss_pred ccccccCc-ceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCC--CeeeeeecCC-CcEEEEEEe
Q 029255 92 FEEHLHTD-EEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAG--CYHRFTLDTD-NYIKAMRLF 156 (196)
Q Consensus 92 ~~eH~H~~-dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG--~~H~F~~~~~-~~~~alRlF 156 (196)
|..|.|.. +-+.|+++|+.... |.-+. +-.+++||+-.+=|| +.|-=..... ..+..+.|+
T Consensus 42 f~~HPH~g~eivTyv~~G~~~H~--Ds~G~--~~~l~~G~vq~m~AG~Gi~H~E~~~~~~~~~~~lQlW 106 (107)
T PF02678_consen 42 FPMHPHRGFEIVTYVLEGELRHR--DSLGN--RGVLRAGDVQWMTAGSGIVHSERNASDGGPLHGLQLW 106 (107)
T ss_dssp EEEEEECSEEEEEEEEESEEEEE--ETTSE--EEEEETTEEEEEE-TTTEEEEEEE-TSSS-EEEEEEE
T ss_pred CCCcCCCCceEEEEEecCEEEEE--CCCCC--eeEeCCCeEEEEeCCCCceEEEecCCCCCeEEEEEEc
Confidence 79999998 77799999987544 33333 467999999666554 7776444443 556666654
No 72
>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=89.54 E-value=0.55 Score=41.39 Aligned_cols=46 Identities=30% Similarity=0.621 Sum_probs=30.0
Q ss_pred ccccccCc---------ceEEEEE-eceEEEEEE-----eCC-CeEEEEEEecCCEEEeCCCCee
Q 029255 92 FEEHLHTD---------EEIRYCV-AGSGYFDVR-----DRN-EKWIRIWVKKGGMIVLPAGCYH 140 (196)
Q Consensus 92 ~~eH~H~~---------dEiryil-~G~g~f~v~-----~~~-d~~~~i~~~~GDlI~VPaG~~H 140 (196)
++.|.|+. +|++|+. ...-=|.++ +.+ ++ .+.++.||.++||.| +|
T Consensus 166 yPPH~Hd~~~~~~e~~leEiYyf~~~p~~Gfg~q~~y~~~~~~d~--~~~V~~~d~V~iP~g-yH 227 (261)
T PF04962_consen 166 YPPHKHDRRMEPDETELEEIYYFRFNPPQGFGFQRVYTDDPQLDE--HYVVRNGDAVLIPSG-YH 227 (261)
T ss_dssp -SEEE-CCEEEESEECTEEEEEEESSTTS-EEEEEEE-TTSSSEE--EEEEETTEEEEESTT-B-
T ss_pred cCCccCCCcCCCccccceeEEEEEccCcccEEEEEEECCCCCCcE--EEEEECCCEEEeCCC-CC
Confidence 89999998 8999884 322224442 111 33 478999999999999 77
No 73
>PF11699 CENP-C_C: Mif2/CENP-C like; PDB: 2VPV_B.
Probab=88.92 E-value=2.8 Score=31.09 Aligned_cols=66 Identities=20% Similarity=0.270 Sum_probs=42.6
Q ss_pred CCeeeeEEECCCCCCChHHHhhccccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 68 YSYMDFCEVCPEKLPNYEEKIKNFFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 68 y~~~Dvv~l~p~~~p~~e~~~~~f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
+-..-++.|.|+.. | -.-++..+--++||+.|.....++ +. ...+.+|+...||+|-.=-+....+
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 FFASGMLELPPGGE-----K----PPKNSRDNTMVFYVIKGKVEVTIH---ET--SFVVTKGGSFQVPRGNYYSIKNIGN 76 (85)
T ss_dssp S-EEEEEEE-TCCC-----E----EEEE--SEEEEEEEEESEEEEEET---TE--EEEEETT-EEEE-TT-EEEEEE-SS
T ss_pred CceeEEEEeCCCCc-----c----CCcccCCcEEEEEEEeCEEEEEEc---Cc--EEEEeCCCEEEECCCCEEEEEECCC
Confidence 44556677776641 0 234556677899999999999997 33 4779999999999998777765444
No 74
>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=88.85 E-value=4.1 Score=33.95 Aligned_cols=58 Identities=19% Similarity=0.347 Sum_probs=43.5
Q ss_pred ccccccc---CcceEEEEEeceEEEEEEeC--C----CeEEEEEEec--CCEEEeCCCCeeeeeecCCC
Q 029255 91 FFEEHLH---TDEEIRYCVAGSGYFDVRDR--N----EKWIRIWVKK--GGMIVLPAGCYHRFTLDTDN 148 (196)
Q Consensus 91 f~~eH~H---~~dEiryil~G~g~f~v~~~--~----d~~~~i~~~~--GDlI~VPaG~~H~F~~~~~~ 148 (196)
.--.|.| ....+..++.|+.+-.+-|. + ++|..+.+.+ +-.|.||+|.-|-|.+-+++
T Consensus 56 lRGlH~q~~~~q~Klv~c~~G~i~dV~VDlR~~SpTfG~~~~~~L~~~~~~~l~IP~G~aHGF~~L~d~ 124 (176)
T TIGR01221 56 LRGLHYQRPHPQGKLVRVLRGEVFDVAVDLRRNSPTFGKWVGVLLSAENKRQLWIPEGFAHGFVVLSDE 124 (176)
T ss_pred EEEEEECCCCCCceEEEEccCCEEEEEEECCCCcCCCCeEEEEEECCCCCCEEEeCCcceeEEEEcCCC
Confidence 3446665 57899999999987655542 2 5788888877 55999999999999865554
No 75
>KOG2757 consensus Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=88.69 E-value=1.1 Score=41.93 Aligned_cols=56 Identities=21% Similarity=0.419 Sum_probs=44.6
Q ss_pred cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCC
Q 029255 99 DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGD 159 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~ 159 (196)
..-|..+++|+|+.... .++ .+.+++||++.|||...=.|..++++ ++.-|-|...
T Consensus 353 ~~SIllv~~G~g~l~~~-t~~---~~~v~rG~V~fI~a~~~i~~~~~sd~-~~~yrAf~~~ 408 (411)
T KOG2757|consen 353 GPSILLVLKGSGILKTD-TDS---KILVNRGDVLFIPANHPIHLSSSSDP-FLGYRAFSNS 408 (411)
T ss_pred CceEEEEEecceEEecC-CCC---ceeeccCcEEEEcCCCCceeeccCcc-eeeeeccccc
Confidence 35689999999998875 233 47899999999999999988887665 7777777653
No 76
>COG3822 ABC-type sugar transport system, auxiliary component [General function prediction only]
Probab=88.51 E-value=0.68 Score=39.80 Aligned_cols=59 Identities=22% Similarity=0.261 Sum_probs=41.6
Q ss_pred ccccccccCcceEEEEEeceEEEEEEeC------------------CC------eEEEEEEecCCEEEeCCCCeeeeeec
Q 029255 90 NFFEEHLHTDEEIRYCVAGSGYFDVRDR------------------NE------KWIRIWVKKGGMIVLPAGCYHRFTLD 145 (196)
Q Consensus 90 ~f~~eH~H~~dEiryil~G~g~f~v~~~------------------~d------~~~~i~~~~GDlI~VPaG~~H~F~~~ 145 (196)
+.-+.|.|.-...=.|-.|.|.+-++-- |+ -|-.+.++||.-|.+|+|++|+|-+.
T Consensus 97 QvtPmHrH~~k~eDiinrgggtlv~el~~~d~~~~~~~ks~vtv~~dg~r~~~~ag~~lkL~PGesitL~Pg~~HsFwae 176 (225)
T COG3822 97 QVTPMHRHWRKPEDIINRGGGTLVVELWNVDLVEGQDEKSDVTVPVDGCRQTHTAGSQLKLSPGESITLPPGLYHSFWAE 176 (225)
T ss_pred CcCcccccccchhhhhhcCCceEEEEEeccccccCcCCCCCeEecCCCcEEEeccceeEEECCCCcEecCCCceeeeeec
Confidence 4467899985444456777777776510 11 12368899999999999999999986
Q ss_pred CCC
Q 029255 146 TDN 148 (196)
Q Consensus 146 ~~~ 148 (196)
...
T Consensus 177 ~g~ 179 (225)
T COG3822 177 EGG 179 (225)
T ss_pred CCc
Confidence 664
No 77
>COG3508 HmgA Homogentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=87.18 E-value=2.5 Score=39.53 Aligned_cols=46 Identities=20% Similarity=0.238 Sum_probs=38.6
Q ss_pred CcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCC
Q 029255 98 TDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDN 148 (196)
Q Consensus 98 ~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~ 148 (196)
+.|++.++-.|+..|.-+ -+ .+.|++||+.+||.||.-+...-+..
T Consensus 145 Dge~Livpq~G~l~l~te-~G----~l~v~pgeiavIPRG~~frve~~~~~ 190 (427)
T COG3508 145 DGELLIVPQQGELRLKTE-LG----VLEVEPGEIAVIPRGTTFRVELKDGE 190 (427)
T ss_pred CCCEEEEeecceEEEEEe-ec----eEEecCCcEEEeeCCceEEEEecCCc
Confidence 348999999999999886 32 58999999999999999998875543
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=83.37 E-value=0.59 Score=41.50 Aligned_cols=20 Identities=35% Similarity=0.697 Sum_probs=18.5
Q ss_pred EEEEecCCEEEeCCCCeeee
Q 029255 123 RIWVKKGGMIVLPAGCYHRF 142 (196)
Q Consensus 123 ~i~~~~GDlI~VPaG~~H~F 142 (196)
.+.+++||.|.||||+.|-.
T Consensus 152 ~v~v~~Gd~i~ipaGt~HA~ 171 (302)
T TIGR00218 152 RIKLKPGDFFYVPSGTPHAY 171 (302)
T ss_pred ccccCCCCEEEeCCCCcccc
Confidence 68999999999999999973
No 79
>COG1898 RfbC dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]
Probab=82.15 E-value=11 Score=31.67 Aligned_cols=58 Identities=19% Similarity=0.342 Sum_probs=43.6
Q ss_pred ccccccCc--ceEEEEEeceEEEEEEeC--CC----eEEEEEEecC--CEEEeCCCCeeeeeecCCCc
Q 029255 92 FEEHLHTD--EEIRYCVAGSGYFDVRDR--NE----KWIRIWVKKG--GMIVLPAGCYHRFTLDTDNY 149 (196)
Q Consensus 92 ~~eH~H~~--dEiryil~G~g~f~v~~~--~d----~~~~i~~~~G--DlI~VPaG~~H~F~~~~~~~ 149 (196)
--.|.|.. .+...++.|+..-.+.|. +. +|..+.+... -+|.||+|.-|-|..-++..
T Consensus 58 RGlHyq~~~q~klv~~v~G~v~dv~vDlR~~SpTyg~~~~~~ls~~N~~~l~IP~G~AHGf~~L~d~~ 125 (173)
T COG1898 58 RGLHYQHKPQGKLVRVVSGKVFDVAVDLRKDSPTYGKWVGVVLSAENKRQLYIPPGFAHGFQVLSDDA 125 (173)
T ss_pred EEEEcccCCCCeEEEEecCeEEEEEEEccCCCCCcceEEEEEecCCCceEEEeCCcccceeEEccCce
Confidence 34777754 688999999987666542 33 5877777755 78999999999998766643
No 80
>COG1482 ManA Phosphomannose isomerase [Carbohydrate transport and metabolism]
Probab=81.93 E-value=0.98 Score=41.11 Aligned_cols=23 Identities=35% Similarity=0.567 Sum_probs=20.4
Q ss_pred EEEEecCCEEEeCCCCeeeeeec
Q 029255 123 RIWVKKGGMIVLPAGCYHRFTLD 145 (196)
Q Consensus 123 ~i~~~~GDlI~VPaG~~H~F~~~ 145 (196)
+|.++|||.+.|||||.|-.-.+
T Consensus 159 ~v~lkpGe~~fl~Agt~HA~~~G 181 (312)
T COG1482 159 RVKLKPGEAFFLPAGTPHAYLKG 181 (312)
T ss_pred EEecCCCCEEEecCCCceeeccc
Confidence 78999999999999999987543
No 81
>PF13759 2OG-FeII_Oxy_5: Putative 2OG-Fe(II) oxygenase; PDB: 3BVC_B 2RG4_A.
Probab=80.04 E-value=2.3 Score=31.40 Aligned_cols=26 Identities=12% Similarity=0.368 Sum_probs=18.0
Q ss_pred eEEEEEEecCCEEEeCCCCeeeeeec
Q 029255 120 KWIRIWVKKGGMIVLPAGCYHRFTLD 145 (196)
Q Consensus 120 ~~~~i~~~~GDlI~VPaG~~H~F~~~ 145 (196)
.++.+..++||||+-|+-+.|.-..-
T Consensus 64 ~~~~~~p~~G~lvlFPs~l~H~v~p~ 89 (101)
T PF13759_consen 64 PYYIVEPEEGDLVLFPSWLWHGVPPN 89 (101)
T ss_dssp SEEEE---TTEEEEEETTSEEEE---
T ss_pred ceEEeCCCCCEEEEeCCCCEEeccCc
Confidence 36689999999999999999997643
No 82
>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=77.76 E-value=9.4 Score=28.10 Aligned_cols=59 Identities=17% Similarity=0.148 Sum_probs=40.3
Q ss_pred hccccccccCc--ceEEEEEeceEEEEEEeCCCe--EEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 89 KNFFEEHLHTD--EEIRYCVAGSGYFDVRDRNEK--WIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 89 ~~f~~eH~H~~--dEiryil~G~g~f~v~~~~d~--~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
+.|..-|.=.. =...-|++|+..|..-+.++. -..+.+.+|+.-+||+...|+...-++
T Consensus 13 ~~l~~~H~TK~GtWg~l~Vl~G~L~f~~~~~~~~~~~~~~~~~~~~~~~i~Pq~wH~V~p~s~ 75 (82)
T PF09313_consen 13 AALLERHNTKAGTWGKLRVLEGELKFYGLDEEGEEPEEEVFIPAGQPPVIEPQQWHRVEPLSD 75 (82)
T ss_dssp GGGGSSBCCSTTEEEEEEEEESEEEEEEESSTT-SESEEEEEETTEEEEE-TT-EEEEEESST
T ss_pred HHHHhhcCCCCCeEEEEEEEeeEEEEEEECCCCCceeEEEEeCCCCCceeCCCceEEEEECCC
Confidence 55666664333 144668999999999855322 226789999999999999999985444
No 83
>PF14499 DUF4437: Domain of unknown function (DUF4437); PDB: 2QDR_A.
Probab=77.25 E-value=2.4 Score=37.40 Aligned_cols=61 Identities=15% Similarity=0.143 Sum_probs=35.3
Q ss_pred ccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEE
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRL 155 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRl 155 (196)
...|+|+..|=-|+++|+..+.+.+..+. -.+.+|.++-.|+++.|....+++..+.-||-
T Consensus 184 g~i~~h~~~eraVvI~G~~~~~~~~~~~~---~~L~~GSYf~s~~~~~H~~~~~e~~~vlyIRt 244 (251)
T PF14499_consen 184 GRIHTHASNERAVVISGELDYQSYGASNF---GTLDPGSYFGSPGHITHGIFITEDECVLYIRT 244 (251)
T ss_dssp -SEEE--S-EEEEEEEEEEEETTEEEETT---EEEEE-TT-EE--E------EESS-EEEEEEE
T ss_pred CceeccCCceEEEEEEeEEEEeecccCCC---ccccCCcccccCCcccccccccCCCEEEEEEE
Confidence 45899999999999999999866533332 47899999999999999976777776666664
No 84
>PRK15131 mannose-6-phosphate isomerase; Provisional
Probab=72.68 E-value=2.8 Score=39.04 Aligned_cols=23 Identities=17% Similarity=0.193 Sum_probs=20.6
Q ss_pred EEEEecCCEEEeCCCCeeeeeec
Q 029255 123 RIWVKKGGMIVLPAGCYHRFTLD 145 (196)
Q Consensus 123 ~i~~~~GDlI~VPaG~~H~F~~~ 145 (196)
.|.++|||.|.||||+.|-.-.|
T Consensus 238 ~v~l~pGeaifipAg~~HAyl~G 260 (389)
T PRK15131 238 VVKLNPGEAMFLFAETPHAYLQG 260 (389)
T ss_pred EEEeCCCCEEEeCCCCCeEEcCC
Confidence 68999999999999999987654
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=71.92 E-value=11 Score=33.51 Aligned_cols=40 Identities=25% Similarity=0.210 Sum_probs=30.5
Q ss_pred cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeee
Q 029255 99 DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFT 143 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~ 143 (196)
.-.+.++++|++..... +. .+.+++|+.++|||+....-.
T Consensus 253 ~~~il~v~~G~~~i~~~---~~--~~~l~~G~~~~ipa~~~~~~i 292 (302)
T TIGR00218 253 SALILSVLEGSGRIKSG---GK--TLPLKKGESFFIPAHLGPFTI 292 (302)
T ss_pred CcEEEEEEcceEEEEEC---CE--EEEEecccEEEEccCCccEEE
Confidence 35788899999987542 32 477899999999999865433
No 86
>KOG3706 consensus Uncharacterized conserved protein [Function unknown]
Probab=70.95 E-value=3.2 Score=40.28 Aligned_cols=67 Identities=18% Similarity=0.193 Sum_probs=44.0
Q ss_pred ccccccCcceEEEEEeceEEEEE--------------------EeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEE
Q 029255 92 FEEHLHTDEEIRYCVAGSGYFDV--------------------RDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIK 151 (196)
Q Consensus 92 ~~eH~H~~dEiryil~G~g~f~v--------------------~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~ 151 (196)
|..|.-+-|-..+-|+|+-+.-+ .+.+.-++...+++||+|.+|.|+-|-..+...-+-.
T Consensus 331 faPHyDdIeaFvlQvEGrK~Wrly~P~~~~eel~l~sS~Nf~eedlgePV~e~vle~GDllYfPRG~IHQA~t~~~vHSl 410 (629)
T KOG3706|consen 331 FAPHYDDIEAFVLQVEGRKHWRLYHPTVPLEELALVSSDNFTEEDLGEPVHEFVLEPGDLLYFPRGTIHQADTPALVHSL 410 (629)
T ss_pred CCCchhhhhhhhheeccceeeEeecCCCcHhhhhhccCCCCChhHhCCchHHhhcCCCcEEEecCcceeeccccchhcee
Confidence 44554444444555666555444 3344457788899999999999999999887765444
Q ss_pred EEEEecC
Q 029255 152 AMRLFVG 158 (196)
Q Consensus 152 alRlF~~ 158 (196)
.+-+-+.
T Consensus 411 HvTlSty 417 (629)
T KOG3706|consen 411 HVTLSTY 417 (629)
T ss_pred EEEeehh
Confidence 4444433
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=70.23 E-value=20 Score=27.23 Aligned_cols=45 Identities=16% Similarity=0.220 Sum_probs=32.5
Q ss_pred ceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 100 EEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 100 dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
.|+.=|++|++...+.+ .+.| ....+|+-..|||+..-.....+.
T Consensus 42 ~E~M~vvsG~l~V~lpg-~~ew--~~~~aGesF~VpanssF~v~v~~~ 86 (94)
T PF06865_consen 42 PERMEVVSGELEVKLPG-EDEW--QTYSAGESFEVPANSSFDVKVKEP 86 (94)
T ss_dssp -EEEEEEESEEEEEETT--SS---EEEETT-EEEE-TTEEEEEEESS-
T ss_pred CEEEEEEEeEEEEEcCC-Cccc--EEeCCCCeEEECCCCeEEEEECcc
Confidence 78899999999998863 3567 579999999999998877766544
No 88
>COG1741 Pirin-related protein [General function prediction only]
Probab=69.29 E-value=18 Score=32.27 Aligned_cols=65 Identities=20% Similarity=0.258 Sum_probs=45.1
Q ss_pred cccccccCc-ceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCC--Ceeee-ee-cCCCcEEEEEEecCC
Q 029255 91 FFEEHLHTD-EEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAG--CYHRF-TL-DTDNYIKAMRLFVGD 159 (196)
Q Consensus 91 f~~eH~H~~-dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG--~~H~F-~~-~~~~~~~alRlF~~~ 159 (196)
.|.+|.|.. +=+.|+++|+....=. .+. .-.+.+||+-..=|| |.|.= .. .+...+..+.++...
T Consensus 56 ~f~pHPHrg~etvTyvl~G~i~HrDS--~Gn--~~~i~pGdvqwMTAG~GI~HSE~~~~~~~~~l~~~QlWv~l 125 (276)
T COG1741 56 GFPPHPHRGLETVTYVLDGEIEHRDS--LGN--KGVIRPGDVQWMTAGSGIVHSEMNPPSTGKPLHGLQLWVNL 125 (276)
T ss_pred cCCCCCCCCcEEEEEEEccEEEEeec--CCc--eeeecccceeEEcCCCceeecccCCccCCCccceeeeecCC
Confidence 699999998 6679999999665443 232 356889999777665 67753 33 344457777776554
No 89
>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=67.30 E-value=48 Score=26.56 Aligned_cols=56 Identities=23% Similarity=0.337 Sum_probs=38.6
Q ss_pred ccccccccCcceEEEEEece-EEEEEEeCCCeEEEEEEec----CC--EEEeCCCCeeeeeec
Q 029255 90 NFFEEHLHTDEEIRYCVAGS-GYFDVRDRNEKWIRIWVKK----GG--MIVLPAGCYHRFTLD 145 (196)
Q Consensus 90 ~f~~eH~H~~dEiryil~G~-g~f~v~~~~d~~~~i~~~~----GD--lI~VPaG~~H~F~~~ 145 (196)
.+-.+|.-..||++++..|. ..+.+-+.++.+.++.+.+ |. .++||+|+.....+.
T Consensus 52 ~~S~~Hrv~sdEiw~~~~G~pl~l~~i~~dg~~~~~~LG~d~~~g~~~q~vVp~G~W~aa~l~ 114 (139)
T PF06172_consen 52 EFSAWHRVDSDEIWHFHAGDPLELHLIDPDGSYETVVLGPDLAAGERPQVVVPAGTWQAAELE 114 (139)
T ss_dssp BEEEEEEESSEEEEEEEEES-EEEEEECTTSTEEEEEESSTTCTTEBSEEEE-TTSEEEEEEC
T ss_pred CCCccEEcCCCEEEEEEcCCCEEEEEEcCCCCeEEEEECCCCCCCceEEEEECCCEEEEcccc
Confidence 35667777789999999994 4455555677776766643 33 489999997776543
No 90
>PRK10579 hypothetical protein; Provisional
Probab=66.62 E-value=29 Score=26.43 Aligned_cols=45 Identities=11% Similarity=0.186 Sum_probs=36.2
Q ss_pred ceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 100 EEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 100 dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
.|+.=|++|++...+.+ .++| ....+|+-..||++..-.......
T Consensus 42 ~E~MeivsG~l~V~Lpg-~~ew--~~~~aG~sF~VpanssF~l~v~~~ 86 (94)
T PRK10579 42 PEEMTVISGALNVLLPG-ATDW--QVYEAGEVFNVPGHSEFHLQVAEP 86 (94)
T ss_pred cEEEEEEeeEEEEECCC-Cccc--EEeCCCCEEEECCCCeEEEEECcc
Confidence 78899999999988863 3567 579999999999998776655443
No 91
>PRK15131 mannose-6-phosphate isomerase; Provisional
Probab=66.39 E-value=14 Score=34.35 Aligned_cols=41 Identities=17% Similarity=0.227 Sum_probs=31.3
Q ss_pred cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeee
Q 029255 99 DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTL 144 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~ 144 (196)
.-.|.++++|++..... ++ .+.+++|+.+.|||+....-..
T Consensus 339 ~~~Illv~~G~~~i~~~--~~---~~~l~~G~~~fipa~~~~~~~~ 379 (389)
T PRK15131 339 SAAILFCVEGEAVLWKG--EQ---QLTLKPGESAFIAANESPVTVS 379 (389)
T ss_pred CcEEEEEEcceEEEEeC--Ce---EEEECCCCEEEEeCCCccEEEe
Confidence 35889999999997542 33 3679999999999987765433
No 92
>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=65.40 E-value=29 Score=23.81 Aligned_cols=37 Identities=14% Similarity=0.095 Sum_probs=27.8
Q ss_pred cceEEEEEeceEEEEEEeCCC-eEEEEEEecCCEEEeC
Q 029255 99 DEEIRYCVAGSGYFDVRDRNE-KWIRIWVKKGGMIVLP 135 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d-~~~~i~~~~GDlI~VP 135 (196)
.+.+++|++|.......+.++ +.....+.+|+++-.+
T Consensus 35 ~~~~~~i~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~ 72 (115)
T cd00038 35 ADSLYIVLSGSVEVYKLDEDGREQIVGFLGPGDLFGEL 72 (115)
T ss_pred CCeEEEEEeCEEEEEEECCCCcEEEEEecCCccCcChH
Confidence 377999999999888875543 3556678899987554
No 93
>COG2850 Uncharacterized conserved protein [Function unknown]
Probab=61.72 E-value=5.4 Score=37.31 Aligned_cols=23 Identities=17% Similarity=0.314 Sum_probs=20.2
Q ss_pred EEEEecCCEEEeCCCCeeeeeec
Q 029255 123 RIWVKKGGMIVLPAGCYHRFTLD 145 (196)
Q Consensus 123 ~i~~~~GDlI~VPaG~~H~F~~~ 145 (196)
...++|||++.||+|..|.-.+.
T Consensus 180 d~vlepGDiLYiPp~~~H~gvae 202 (383)
T COG2850 180 DEVLEPGDILYIPPGFPHYGVAE 202 (383)
T ss_pred hhhcCCCceeecCCCCCcCCccc
Confidence 45789999999999999998765
No 94
>PRK00924 5-keto-4-deoxyuronate isomerase; Provisional
Probab=59.93 E-value=19 Score=32.27 Aligned_cols=51 Identities=14% Similarity=0.146 Sum_probs=31.2
Q ss_pred ccccccC-cceEEE-EEe---ceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeee
Q 029255 92 FEEHLHT-DEEIRY-CVA---GSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFT 143 (196)
Q Consensus 92 ~~eH~H~-~dEiry-il~---G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~ 143 (196)
++.|+|+ ..|++| +-- +.++-..+.. ++---+.|+.||.+++|+=--|.-.
T Consensus 191 yPPHkHDrr~E~YlYf~l~~~qrV~h~mG~p-dETrh~~v~n~~aVisP~wsih~g~ 246 (276)
T PRK00924 191 MPCHTHDRRMEVYFYFDMPEDARVFHFMGEP-QETRHIVVHNEQAVISPSWSIHSGV 246 (276)
T ss_pred CCCccCCCCcceEEEEEcCCCceEEecCCCc-cceeeEEEECCCEEECCCcceecCc
Confidence 8999998 456544 221 1222222211 2222488999999999998777654
No 95
>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=59.16 E-value=38 Score=22.68 Aligned_cols=37 Identities=14% Similarity=0.129 Sum_probs=28.7
Q ss_pred cceEEEEEeceEEEEEEeCCCe-EEEEEEecCCEEEeC
Q 029255 99 DEEIRYCVAGSGYFDVRDRNEK-WIRIWVKKGGMIVLP 135 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d~-~~~i~~~~GDlI~VP 135 (196)
.+.++||++|.+.....+.+++ .+--.+.+||++-..
T Consensus 17 ~~~~~~i~~G~v~~~~~~~~~~~~~~~~~~~g~~~g~~ 54 (91)
T PF00027_consen 17 CDHIYIILSGEVKVSSINEDGKEQIIFFLGPGDIFGEI 54 (91)
T ss_dssp ESEEEEEEESEEEEEEETTTSEEEEEEEEETTEEESGH
T ss_pred CCEEEEEEECceEEEeceecceeeeecceeeeccccce
Confidence 5899999999999998866665 335678899986544
No 96
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=58.38 E-value=67 Score=25.72 Aligned_cols=37 Identities=24% Similarity=0.331 Sum_probs=27.0
Q ss_pred cceEEEEEeceEEEEEEeCCC-eEEEEEEecCCEEEeC
Q 029255 99 DEEIRYCVAGSGYFDVRDRNE-KWIRIWVKKGGMIVLP 135 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d-~~~~i~~~~GDlI~VP 135 (196)
.+.+++|++|.......+.++ +.+--.+.+||++-..
T Consensus 38 ~~~~y~V~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~ 75 (211)
T PRK11753 38 AETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGEL 75 (211)
T ss_pred CCeEEEEEeCEEEEEEECCCCCEEEEEEcCCCCEEeeh
Confidence 467999999999877665544 3444578999997543
No 97
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=57.61 E-value=59 Score=27.08 Aligned_cols=57 Identities=16% Similarity=0.105 Sum_probs=37.1
Q ss_pred cceEEEEEeceEEEEEEeCCCe-EEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEE
Q 029255 99 DEEIRYCVAGSGYFDVRDRNEK-WIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRL 155 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d~-~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRl 155 (196)
.+-+++|++|......-+.+++ .+--.+.+||++-...+..+.++...-.....+.+
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 3678999999998777655554 34445689999877766655555443333444433
No 98
>COG1482 ManA Phosphomannose isomerase [Carbohydrate transport and metabolism]
Probab=57.01 E-value=33 Score=31.36 Aligned_cols=82 Identities=16% Similarity=0.178 Sum_probs=52.8
Q ss_pred HHHHHHhcCCCeeeeEEECCCCCCChHHHhh-------cc--c--ccc------ccCcceEEEEEeceEEEEEEeCCCeE
Q 029255 59 LKKIREDRGYSYMDFCEVCPEKLPNYEEKIK-------NF--F--EEH------LHTDEEIRYCVAGSGYFDVRDRNEKW 121 (196)
Q Consensus 59 i~~l~~~rGy~~~Dvv~l~p~~~p~~e~~~~-------~f--~--~eH------~H~~dEiryil~G~g~f~v~~~~d~~ 121 (196)
+..|++-.-++..|+.++... |..+..-. .| + ..+ .+....|.++++|+|..... ++
T Consensus 205 ~~~lr~l~~~k~~~~~~~~~~--~~~~~~~~~~~v~~~~F~l~~~~i~~~~~~~~~~~~~il~v~eG~~~l~~~---~~- 278 (312)
T COG1482 205 IGELRELHLFKAKDVITLPTQ--PRKQGAELTYPVPNEDFALYKWDISGTAEFIKQESFSILLVLEGEGTLIGG---GQ- 278 (312)
T ss_pred chhHHhhhhccccchhhcCCc--ccccCceEEEeccccceEEEEEeccChhhhccCCCcEEEEEEcCeEEEecC---CE-
Confidence 456777778888888888522 11111111 11 1 111 23356889999999987764 44
Q ss_pred EEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 122 IRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 122 ~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
.+.+++|.-++||+...=+.-.+..
T Consensus 279 -~~~l~~G~s~~ipa~~~~~~i~g~~ 303 (312)
T COG1482 279 -TLKLKKGESFFIPANDGPYTIEGEG 303 (312)
T ss_pred -EEEEcCCcEEEEEcCCCcEEEEecc
Confidence 4789999999999997776655443
No 99
>PRK15186 AraC family transcriptional regulator; Provisional
Probab=56.58 E-value=27 Score=31.07 Aligned_cols=43 Identities=12% Similarity=0.083 Sum_probs=32.8
Q ss_pred eEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCC
Q 029255 101 EIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTD 147 (196)
Q Consensus 101 Eiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~ 147 (196)
=+.++..|.....- .++++ +.|.+|.+|++|.+..|.+...+.
T Consensus 40 ~li~v~~G~~~i~~--~~g~~--l~i~~p~~~~~p~~~~~~~~~~~~ 82 (291)
T PRK15186 40 VLIKLTTGKISITT--SSGEY--ITASGPMLIFLAKDQTIHITMEET 82 (291)
T ss_pred EEEEeccceEEEEe--CCCce--EEeCCCeEEEEeCCcEEEEEeccc
Confidence 45777777755544 34543 789999999999999999987664
No 100
>PF00018 SH3_1: SH3 domain; InterPro: IPR001452 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 []. The crystal structure of the SH3 domain of the cytoskeletal protein spectrin, and the solution structures of SH3 domains of phospholipase C (PLC-y) and phosphatidylinositol 3-kinase p85 alpha-subunit, have been determined [, , ]. In spite of relatively limited sequence similarity, their overall structures are similar. The domains belong to the alpha+beta structural class, with 5 to 8 beta-strands forming 2 tightly-packed, anti-parallel beta-sheets arranged in a barrel-like structure, and intervening loops sometimes forming helices. Conserved aliphatic and aromatic residues form a hydrophobic core (A11, L23, A29, V34, W42, L52 and V59 in PLC-y []) and a hydrophobic pocket on the molecular surface (L12, F13, W53 and P55 in PLC-y). The conserved core is believed to stabilise the fold, while the pocket is thought to serve as a binding site for target proteins. Conserved carboxylic amino acids located in the loops, on the periphery of the pocket (D14 and E22), may be involved in protein-protein interactions via proline-rich regions. The N- and C-termini are packed in close proximity, indicating that they are independent structural modules.; GO: 0005515 protein binding; PDB: 1UHF_A 1W1F_A 1WA7_A 1SEM_A 1KFZ_A 2SEM_B 1K76_A 3SEM_B 1X2Q_A 2J06_B ....
Probab=56.16 E-value=3.8 Score=26.21 Aligned_cols=34 Identities=26% Similarity=0.474 Sum_probs=16.9
Q ss_pred EEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCCCceee
Q 029255 124 IWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGDPVWTP 164 (196)
Q Consensus 124 i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~~gW~~ 164 (196)
+.+++||.|.| .....+.-..+....++..||+|
T Consensus 14 Ls~~~Gd~i~v-------~~~~~~~Ww~~~~~~~~~~G~vP 47 (48)
T PF00018_consen 14 LSFKKGDIIEV-------LEKSDDGWWKVRNESTGKEGWVP 47 (48)
T ss_dssp SEB-TTEEEEE-------EEESSSSEEEEEETTTTEEEEEE
T ss_pred EeEECCCEEEE-------EEecCCCEEEEEECCCCcEEEee
Confidence 66777777665 12222233444444445566665
No 101
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=55.81 E-value=51 Score=26.28 Aligned_cols=36 Identities=11% Similarity=0.075 Sum_probs=27.0
Q ss_pred ceEEEEEeceEEEEEEeCCCe-EEEEEEecCCEEEeC
Q 029255 100 EEIRYCVAGSGYFDVRDRNEK-WIRIWVKKGGMIVLP 135 (196)
Q Consensus 100 dEiryil~G~g~f~v~~~~d~-~~~i~~~~GDlI~VP 135 (196)
+.+++|++|.......+.+++ .+--.+.+||++-.+
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 568999999999887766655 444455999997654
No 102
>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=49.28 E-value=57 Score=22.29 Aligned_cols=38 Identities=11% Similarity=-0.052 Sum_probs=27.7
Q ss_pred cceEEEEEeceEEEEEEeCCC-eEEEEEEecCCEEEeCC
Q 029255 99 DEEIRYCVAGSGYFDVRDRNE-KWIRIWVKKGGMIVLPA 136 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d-~~~~i~~~~GDlI~VPa 136 (196)
.+.+++|++|.......+.++ ..+.-.+.+||++-...
T Consensus 35 ~~~~y~v~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~~ 73 (120)
T smart00100 35 GDSFYIILSGEVRVYKVLEDGREQILGILGPGDFFGELA 73 (120)
T ss_pred CCcEEEEEeeEEEEEEECCCCceEEEEeecCCceechhh
Confidence 478999999999888764443 34556778999876643
No 103
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=47.83 E-value=1.6e+02 Score=24.31 Aligned_cols=37 Identities=14% Similarity=-0.024 Sum_probs=27.1
Q ss_pred cceEEEEEeceEEEEEEeCCCe-EEEEEEecCCEEEeC
Q 029255 99 DEEIRYCVAGSGYFDVRDRNEK-WIRIWVKKGGMIVLP 135 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d~-~~~i~~~~GDlI~VP 135 (196)
.+.+++|++|.......+.+|+ .+--.+.+||++-..
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 3789999999998777655554 333457899987654
No 104
>PRK09392 ftrB transcriptional activator FtrB; Provisional
Probab=47.33 E-value=1e+02 Score=25.41 Aligned_cols=57 Identities=5% Similarity=0.007 Sum_probs=34.6
Q ss_pred cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeC---CCCeeeeeecCCCcEEEEEE
Q 029255 99 DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLP---AGCYHRFTLDTDNYIKAMRL 155 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VP---aG~~H~F~~~~~~~~~alRl 155 (196)
.+.+++|++|.........+++..-..+.+||++-.. .+..+.++...-.....+++
T Consensus 48 ~~~~~~v~~G~v~~~~~~~~~~~~i~~~~~g~~~g~~~~~~~~~~~~~~~A~~~~~~~~i 107 (236)
T PRK09392 48 ADFLFVVLDGLVELSASSQDRETTLAILRPVSTFILAAVVLDAPYLMSARTLTRSRVLMI 107 (236)
T ss_pred cceEEEEEeCEEEEEEcCCCceEEEEEeCCCchhhhHHHhCCCCCceEEEEcCceEEEEE
Confidence 4789999999998876544445445578889976432 23334443333333555554
No 105
>smart00652 eIF1a eukaryotic translation initiation factor 1A.
Probab=45.09 E-value=37 Score=24.90 Aligned_cols=28 Identities=21% Similarity=0.667 Sum_probs=16.8
Q ss_pred eceEEEEEEeCCCeEE----------EEEEecCCEEEe
Q 029255 107 AGSGYFDVRDRNEKWI----------RIWVKKGGMIVL 134 (196)
Q Consensus 107 ~G~g~f~v~~~~d~~~----------~i~~~~GDlI~V 134 (196)
-|.+.|.|...++..+ +|.+..||+++|
T Consensus 15 lG~~~~~V~~~dG~~~la~ipgK~Rk~iwI~~GD~VlV 52 (83)
T smart00652 15 LGNGRLEVMCADGKERLARIPGKMRKKVWIRRGDIVLV 52 (83)
T ss_pred cCCCEEEEEECCCCEEEEEEchhhcccEEEcCCCEEEE
Confidence 3566777665554422 456667777666
No 106
>PLN02288 mannose-6-phosphate isomerase
Probab=44.22 E-value=38 Score=31.76 Aligned_cols=39 Identities=18% Similarity=0.348 Sum_probs=29.3
Q ss_pred CcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCe
Q 029255 98 TDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCY 139 (196)
Q Consensus 98 ~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~ 139 (196)
....|.++++|++..... ++. ..+.+++|+.+.||++..
T Consensus 353 ~gp~Illv~~G~~~i~~~--~~~-~~~~l~~G~~~fv~a~~~ 391 (394)
T PLN02288 353 PGPSVFLVIEGEGVLSTG--SSE-DGTAAKRGDVFFVPAGTE 391 (394)
T ss_pred CCCEEEEEEcCEEEEecC--Ccc-ceEEEeceeEEEEeCCCc
Confidence 446899999999987653 222 136799999999999753
No 107
>PLN02288 mannose-6-phosphate isomerase
Probab=43.98 E-value=23 Score=33.15 Aligned_cols=24 Identities=17% Similarity=0.180 Sum_probs=21.0
Q ss_pred EEEEecCCEEEeCCCCeeeeeecC
Q 029255 123 RIWVKKGGMIVLPAGCYHRFTLDT 146 (196)
Q Consensus 123 ~i~~~~GDlI~VPaG~~H~F~~~~ 146 (196)
.|.++||+-|.+|||+.|-.-.|.
T Consensus 252 ~v~L~PGeaifl~ag~~HAYl~G~ 275 (394)
T PLN02288 252 YVKLNPGEALYLGANEPHAYLSGE 275 (394)
T ss_pred eEecCCCCEEEecCCCCceecCCC
Confidence 689999999999999999876543
No 108
>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=43.90 E-value=41 Score=24.29 Aligned_cols=28 Identities=29% Similarity=0.705 Sum_probs=15.8
Q ss_pred eceEEEEEEeCCCeEE----------EEEEecCCEEEe
Q 029255 107 AGSGYFDVRDRNEKWI----------RIWVKKGGMIVL 134 (196)
Q Consensus 107 ~G~g~f~v~~~~d~~~----------~i~~~~GDlI~V 134 (196)
-|.+.|.|...++..+ +|.+.+||+++|
T Consensus 10 ~g~~~~~V~~~~g~~~la~i~gK~rk~iwI~~GD~V~V 47 (77)
T cd05793 10 LGNGRLEVRCFDGKKRLCRIRGKMRKRVWINEGDIVLV 47 (77)
T ss_pred cCCCEEEEEECCCCEEEEEEchhhcccEEEcCCCEEEE
Confidence 3555566554444322 466777777766
No 109
>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=42.18 E-value=1.9e+02 Score=23.61 Aligned_cols=70 Identities=10% Similarity=-0.004 Sum_probs=43.0
Q ss_pred ccccccccCcc-eEEEEEeceEEEEEEe-CCC--eE-----EEEEEecCCEEEeCCCCeeeee-ecCCCcEEEEEEecCC
Q 029255 90 NFFEEHLHTDE-EIRYCVAGSGYFDVRD-RNE--KW-----IRIWVKKGGMIVLPAGCYHRFT-LDTDNYIKAMRLFVGD 159 (196)
Q Consensus 90 ~f~~eH~H~~d-Eiryil~G~g~f~v~~-~~d--~~-----~~i~~~~GDlI~VPaG~~H~F~-~~~~~~~~alRlF~~~ 159 (196)
++-..|-|... =+..|++|+..-..=. .++ .. .......|...+.+.+--|+.. .+.+.....|.+|.++
T Consensus 86 q~S~IHDH~~s~g~~~vl~G~l~e~~y~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~iH~v~n~s~~~~avSLHvYspP 165 (175)
T PF05995_consen 86 QRSPIHDHGGSWGWVKVLSGELEETRYRRPDDGGAPLELVGRERLLPGGVTYIFDPHGIHRVENPSGDEPAVSLHVYSPP 165 (175)
T ss_dssp -B--EEE-TTSEEEEEEEESEEEEEEEEESTSSS-EEEECEEEEEETTTEEEEBTTTBEEEEEES-SSS-EEEEEEEES-
T ss_pred CcCCCCCCCCceEEEEEecceEEEEEeccCCcccCcccccCceEecCCCeEEecCCCCeEEeccCCCCCCEEEEEEcCCC
Confidence 44678999865 4677999986543311 222 11 1334567777788999999995 4446778999999885
No 110
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=42.12 E-value=41 Score=27.14 Aligned_cols=56 Identities=27% Similarity=0.420 Sum_probs=37.8
Q ss_pred CcceEEEEE----eceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCCCceee
Q 029255 98 TDEEIRYCV----AGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGDPVWTP 164 (196)
Q Consensus 98 ~~dEiryil----~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~~gW~~ 164 (196)
+..|++-++ .|+..+.|-+.-+ -.++|||.|-+-.|..--|. -+++||.+..||+.
T Consensus 34 dg~~v~~~kVaD~TgsI~isvW~e~~----~~~~PGDIirLt~Gy~Si~q-------g~LtL~~GK~Ge~~ 93 (134)
T KOG3416|consen 34 DGHEVRSCKVADETGSINISVWDEEG----CLIQPGDIIRLTGGYASIFQ-------GCLTLYVGKGGEVQ 93 (134)
T ss_pred CCCEEEEEEEecccceEEEEEecCcC----cccCCccEEEecccchhhhc-------CceEEEecCCceEe
Confidence 346887776 4677788874322 46899999999777544332 26777777777764
No 111
>PRK15372 pathogenicity island 2 effector protein SseI; Provisional
Probab=41.51 E-value=82 Score=28.34 Aligned_cols=76 Identities=18% Similarity=0.298 Sum_probs=51.1
Q ss_pred ceEEEEEeceEEEEEEeCCCe-EEEEEEe-cCCE-EEeCCC-CeeeeeecCCCcEEEEEEecCCCceeecCCCCCCchhH
Q 029255 100 EEIRYCVAGSGYFDVRDRNEK-WIRIWVK-KGGM-IVLPAG-CYHRFTLDTDNYIKAMRLFVGDPVWTPFNRPHDHLPAR 175 (196)
Q Consensus 100 dEiryil~G~g~f~v~~~~d~-~~~i~~~-~GDl-I~VPaG-~~H~F~~~~~~~~~alRlF~~~~gW~~~~r~~d~~~~r 175 (196)
|.|....+|.-+|+|.+.+++ .+.|.+. .|-+ +.+|.| +.|.+++...+.+ +..-.++|-+.|--+
T Consensus 55 enI~~~r~g~n~fcI~den~qEILSvt~dda~~YTV~c~g~~~t~~~~~~~~~~v--------~~~~~~~nlt~di~a-- 124 (292)
T PRK15372 55 ENIHSGLHGENYFCILDEDSQEILSVTLDDVGNYTVNCQGYSETHHLTMATEPGV--------ERTDITYNLTSDIDA-- 124 (292)
T ss_pred hhhhcccCCCceEEEEcCCCceeEEEEEcCCCceEEEeCCcceEEEeeccCCCcc--------hhccCccccccCCCH--
Confidence 455667889999999988765 5577777 6655 444444 6788887666432 233467788777533
Q ss_pred HHHHHHHhhc
Q 029255 176 KGYVQNFLQK 185 (196)
Q Consensus 176 ~~yl~~~~~~ 185 (196)
.+||..|+..
T Consensus 125 ~~yl~el~~~ 134 (292)
T PRK15372 125 AAYLEELKQN 134 (292)
T ss_pred HHHHHHhhcC
Confidence 4699999843
No 112
>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=40.51 E-value=15 Score=28.75 Aligned_cols=30 Identities=20% Similarity=0.360 Sum_probs=22.1
Q ss_pred EEEEec---eEEEEEEeCCCeEEEEEEecCCEEEeCC
Q 029255 103 RYCVAG---SGYFDVRDRNEKWIRIWVKKGGMIVLPA 136 (196)
Q Consensus 103 ryil~G---~g~f~v~~~~d~~~~i~~~~GDlI~VPa 136 (196)
.|++.| ||..++.+.. ...+++||.|+|=+
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 567765 5999997432 35899999999844
No 113
>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=39.51 E-value=51 Score=24.48 Aligned_cols=53 Identities=23% Similarity=0.313 Sum_probs=34.4
Q ss_pred cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCCC
Q 029255 99 DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGDP 160 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~~ 160 (196)
.+=..|+++|++.+ . ++. ..+.+|+++++..|..=.++.++ .....| |+.++|
T Consensus 20 ~~~~iyv~~G~~~v--~--~~~---~~~~~~~~~~l~~g~~i~~~a~~-~~a~~l-ll~GeP 72 (104)
T PF05726_consen 20 HNAFIYVLEGSVEV--G--GEE---DPLEAGQLVVLEDGDEIELTAGE-EGARFL-LLGGEP 72 (104)
T ss_dssp -EEEEEEEESEEEE--T--TTT---EEEETTEEEEE-SECEEEEEESS-SSEEEE-EEEE--
T ss_pred CEEEEEEEECcEEE--C--CCc---ceECCCcEEEECCCceEEEEECC-CCcEEE-EEEccC
Confidence 36679999999653 2 222 57899999999988887888774 334544 555543
No 114
>PF10983 DUF2793: Protein of unknown function (DUF2793); InterPro: IPR021251 This entry is represented by Bacteriophage D3112, Orf54. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=38.78 E-value=68 Score=23.89 Aligned_cols=42 Identities=24% Similarity=0.474 Sum_probs=27.6
Q ss_pred ecCCEEEeCCCCeeeeeecCCCcEEE-----EEEecCCCceeecCCCC
Q 029255 127 KKGGMIVLPAGCYHRFTLDTDNYIKA-----MRLFVGDPVWTPFNRPH 169 (196)
Q Consensus 127 ~~GDlI~VPaG~~H~F~~~~~~~~~a-----lRlF~~~~gW~~~~r~~ 169 (196)
..||..+||+|-.=-+ .+.+..+.+ -+|+...+||.++....
T Consensus 29 ~~Gd~yiv~~~atGaW-aG~~g~iA~~~~g~W~f~~P~~GW~a~v~~~ 75 (87)
T PF10983_consen 29 AEGDRYIVPAGATGAW-AGQDGKIAAWQDGAWRFLTPRPGWRAWVADE 75 (87)
T ss_pred CCCCEEEECCCCCccc-ccCCCCEEEEECCeEEEeCCCCCcEEEEeCC
Confidence 3588888888843211 222344444 78999999999987754
No 115
>cd04456 S1_IF1A_like S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is also referred to as eIF1A in eukaryotes and aIF1A in archaea. 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=37.91 E-value=53 Score=23.82 Aligned_cols=28 Identities=21% Similarity=0.595 Sum_probs=17.1
Q ss_pred eceEEEEEEeCCCeEE----------EEEEecCCEEEe
Q 029255 107 AGSGYFDVRDRNEKWI----------RIWVKKGGMIVL 134 (196)
Q Consensus 107 ~G~g~f~v~~~~d~~~----------~i~~~~GDlI~V 134 (196)
-|.+.|.|...|+..+ +|.+.+||+++|
T Consensus 10 lG~~~~~V~~~dg~~~l~~i~gK~Rk~iwI~~GD~VlV 47 (78)
T cd04456 10 LGNNRHEVECADGQRRLVSIPGKLRKNIWIKRGDFLIV 47 (78)
T ss_pred CCCCEEEEEECCCCEEEEEEchhhccCEEEcCCCEEEE
Confidence 3556666664444322 466788888887
No 116
>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=36.39 E-value=31 Score=26.84 Aligned_cols=28 Identities=18% Similarity=0.433 Sum_probs=21.7
Q ss_pred CeEEEEEEecCCEEEeCCCCeeeeeecC
Q 029255 119 EKWIRIWVKKGGMIVLPAGCYHRFTLDT 146 (196)
Q Consensus 119 d~~~~i~~~~GDlI~VPaG~~H~F~~~~ 146 (196)
..++.+.+++||+|+.-..+.|+-....
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 3567899999999999999999976533
No 117
>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=36.03 E-value=61 Score=27.47 Aligned_cols=86 Identities=13% Similarity=0.123 Sum_probs=48.8
Q ss_pred HHHHHHHHhcCCCe-eeeEEECCCCCCChHHHhhccccccccCcc---eEEEEE--eceEEEEEEeC-------------
Q 029255 57 EELKKIREDRGYSY-MDFCEVCPEKLPNYEEKIKNFFEEHLHTDE---EIRYCV--AGSGYFDVRDR------------- 117 (196)
Q Consensus 57 ~~i~~l~~~rGy~~-~Dvv~l~p~~~p~~e~~~~~f~~eH~H~~d---Eiryil--~G~g~f~v~~~------------- 117 (196)
..+.+..++.|+.. .--+.+..- .+|.-. ...+...|.|+.- =++|+- +|.|...+++.
T Consensus 75 ~~v~~~~~~l~~d~~~~~l~i~~~-W~ni~~-~Gg~h~~H~Hp~~~lSgvyYl~~p~~~g~~~f~~p~~~~~~~~~~~~~ 152 (201)
T TIGR02466 75 KHVAKFARDLEGDNDGLELRIQKA-WVNILP-QGGTHSPHLHPGSVISGTYYVQTPENCGAIKFEDPRLDDMMAAPMRIP 152 (201)
T ss_pred HHHHHHHHHcCCCccccceEEeeE-eEEEcC-CCCccCceECCCceEEEEEEEeCCCCCCceeEecCcchhhhccccccC
Confidence 44566667777732 111222211 244332 3578899999975 446655 22222222211
Q ss_pred -----CCeEEEEEEecCCEEEeCCCCeeeeee
Q 029255 118 -----NEKWIRIWVKKGGMIVLPAGCYHRFTL 144 (196)
Q Consensus 118 -----~d~~~~i~~~~GDlI~VPaG~~H~F~~ 144 (196)
...++.+.-++||+|+-|.=+.|.-..
T Consensus 153 ~~~~~~~~~~~v~P~~G~lvlFPS~L~H~v~p 184 (201)
T TIGR02466 153 NAKRAVQRFVYVPPQEGRVLLFESWLRHEVPP 184 (201)
T ss_pred ccccccCccEEECCCCCeEEEECCCCceecCC
Confidence 012445667999999999999998654
No 118
>COG3123 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.94 E-value=1.1e+02 Score=23.11 Aligned_cols=43 Identities=14% Similarity=0.220 Sum_probs=33.6
Q ss_pred cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeee
Q 029255 99 DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTL 144 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~ 144 (196)
..|+.=++.|++.+-+- ..++| ....+|..+.||++-.--...
T Consensus 41 ~~E~Mtvv~Gal~v~lp-gs~dW--q~~~~Ge~F~VpgnS~F~lqV 83 (94)
T COG3123 41 APEEMTVVSGALTVLLP-GSDDW--QVYTAGEVFNVPGNSEFDLQV 83 (94)
T ss_pred CceEEEEEeeEEEEEcC-CCccc--EEecCCceEEcCCCCeEEEEE
Confidence 46888899999988886 34667 578999999999997655443
No 119
>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=35.88 E-value=19 Score=28.80 Aligned_cols=30 Identities=23% Similarity=0.432 Sum_probs=22.1
Q ss_pred EEEEec---eEEEEEEeCCCeEEEEEEecCCEEEeCC
Q 029255 103 RYCVAG---SGYFDVRDRNEKWIRIWVKKGGMIVLPA 136 (196)
Q Consensus 103 ryil~G---~g~f~v~~~~d~~~~i~~~~GDlI~VPa 136 (196)
.|++.| ||.+++.+.. ...+++||.|+|=+
T Consensus 57 TYvI~G~~GSg~I~lNGAA----Arl~~~GD~VII~s 89 (126)
T TIGR00223 57 TYAIAGKRGSRIICVNGAA----ARCVSVGDIVIIAS 89 (126)
T ss_pred EEEEEcCCCCCEEEeCCHH----HhcCCCCCEEEEEE
Confidence 567765 5999997432 35899999999854
No 120
>PRK05449 aspartate alpha-decarboxylase; Provisional
Probab=35.48 E-value=20 Score=28.71 Aligned_cols=30 Identities=27% Similarity=0.525 Sum_probs=22.1
Q ss_pred EEEEec---eEEEEEEeCCCeEEEEEEecCCEEEeCC
Q 029255 103 RYCVAG---SGYFDVRDRNEKWIRIWVKKGGMIVLPA 136 (196)
Q Consensus 103 ryil~G---~g~f~v~~~~d~~~~i~~~~GDlI~VPa 136 (196)
.|++.| ||.+++.+.. ...+++||.|+|=+
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 567665 5999997432 35899999999854
No 121
>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=33.81 E-value=43 Score=21.80 Aligned_cols=35 Identities=26% Similarity=0.298 Sum_probs=19.5
Q ss_pred EEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCCCceeec
Q 029255 123 RIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGDPVWTPF 165 (196)
Q Consensus 123 ~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~~gW~~~ 165 (196)
.+.+++||+|.|= -....+....+. . .+..||+|-
T Consensus 15 ~Ls~~~Gd~i~v~------~~~~~~~ww~~~-~-~g~~G~~P~ 49 (55)
T PF07653_consen 15 ELSFKKGDVIEVL------GEKDDDGWWLGE-N-NGRRGWFPS 49 (55)
T ss_dssp B-EB-TTEEEEEE------EEECSTSEEEEE-E-TTEEEEEEG
T ss_pred ceEEecCCEEEEE------EeecCCCEEEEE-E-CCcEEEEcH
Confidence 3789999998874 011223334443 3 677899984
No 122
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=33.72 E-value=1.9e+02 Score=23.66 Aligned_cols=36 Identities=8% Similarity=-0.039 Sum_probs=26.1
Q ss_pred cceEEEEEeceEEEEEEeCCCe-EEEEEEecCCEEEe
Q 029255 99 DEEIRYCVAGSGYFDVRDRNEK-WIRIWVKKGGMIVL 134 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d~-~~~i~~~~GDlI~V 134 (196)
.+.+++|++|.......+.+++ .+--.+.+||++-.
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 3678999999998777655544 44445689999854
No 123
>TIGR00523 eIF-1A eukaryotic/archaeal initiation factor 1A. Recommended nomenclature: eIF-1A for eukaryotes, aIF-1A for Archaea. Also called eIF-4C
Probab=33.68 E-value=68 Score=24.37 Aligned_cols=28 Identities=32% Similarity=0.709 Sum_probs=16.3
Q ss_pred eceEEEEEEeCCCeEE----------EEEEecCCEEEe
Q 029255 107 AGSGYFDVRDRNEKWI----------RIWVKKGGMIVL 134 (196)
Q Consensus 107 ~G~g~f~v~~~~d~~~----------~i~~~~GDlI~V 134 (196)
-|.+.|.|...++..+ +|.+.+||+++|
T Consensus 29 lG~~~~~V~~~dG~~~la~i~GK~Rk~iwI~~GD~VlV 66 (99)
T TIGR00523 29 LGAGRVKVRCLDGKTRLGRIPGKLKKRIWIREGDVVIV 66 (99)
T ss_pred cCCCEEEEEeCCCCEEEEEEchhhcccEEecCCCEEEE
Confidence 3566666665444322 456667777666
No 124
>PHA02890 hypothetical protein; Provisional
Probab=33.62 E-value=2.4e+02 Score=25.44 Aligned_cols=57 Identities=16% Similarity=0.226 Sum_probs=43.3
Q ss_pred ceEEE--EEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecC
Q 029255 100 EEIRY--CVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVG 158 (196)
Q Consensus 100 dEiry--il~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~ 158 (196)
-|-+| +|+|++..-+. .+|+-+.-.+.+||-+++--|+.|.-.+ .+-.+..+++=.+
T Consensus 91 nEy~FVlCL~Gs~~In~~-~~d~~iS~~I~kGeaF~mdv~t~H~i~T-Knl~L~Viky~vd 149 (278)
T PHA02890 91 IECFFVACIEGSCKINVN-IGDREISDHIHENQGFIMDVGLDHAIDS-DNVGLFITKFEVD 149 (278)
T ss_pred ccEEEEEEeCCeEEEEEe-cCCceeeeeeecCceEEEEccceEEEEc-cceeEEEEEEEec
Confidence 35555 47999998887 5677788899999999999999999887 5545555555443
No 125
>COG0664 Crp cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
Probab=32.50 E-value=89 Score=24.31 Aligned_cols=39 Identities=10% Similarity=0.085 Sum_probs=29.4
Q ss_pred ceEEEEEeceEEEEEEeCCCeEEEE-EEecCCEEEeCCCC
Q 029255 100 EEIRYCVAGSGYFDVRDRNEKWIRI-WVKKGGMIVLPAGC 138 (196)
Q Consensus 100 dEiryil~G~g~f~v~~~~d~~~~i-~~~~GDlI~VPaG~ 138 (196)
+-+++|++|.........+++..-+ .+.+||++-..+=.
T Consensus 42 ~~~y~v~~G~v~~~~~~~~G~~~~~~~~~~g~~fg~~~l~ 81 (214)
T COG0664 42 DSLYIILSGIVKLYANTEDGREIILGFLGPGDFFGELALL 81 (214)
T ss_pred ceEEEEEEeEEEEEEECCCCcEEEEEEecCCchhhhHHHh
Confidence 4489999999999988766654333 58899998877544
No 126
>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=32.31 E-value=1.1e+02 Score=23.97 Aligned_cols=35 Identities=6% Similarity=0.083 Sum_probs=26.2
Q ss_pred ceEEEEEeceEEEEEEeCCCe-EEEEEEecCCEEEe
Q 029255 100 EEIRYCVAGSGYFDVRDRNEK-WIRIWVKKGGMIVL 134 (196)
Q Consensus 100 dEiryil~G~g~f~v~~~~d~-~~~i~~~~GDlI~V 134 (196)
+-+++|++|.......+.+++ .+--.+.+||++-.
T Consensus 12 ~~~~~i~~G~v~~~~~~~~G~e~~l~~~~~g~~~G~ 47 (193)
T TIGR03697 12 EKVYFLRRGAVKLSRVYESGEEITVALLRENSVFGV 47 (193)
T ss_pred CcEEEEEecEEEEEEeCCCCcEeeeEEccCCCEeee
Confidence 678999999998887656554 43456899998743
No 127
>PRK04012 translation initiation factor IF-1A; Provisional
Probab=31.65 E-value=79 Score=24.11 Aligned_cols=28 Identities=21% Similarity=0.546 Sum_probs=16.8
Q ss_pred eceEEEEEEeCCCeEE----------EEEEecCCEEEe
Q 029255 107 AGSGYFDVRDRNEKWI----------RIWVKKGGMIVL 134 (196)
Q Consensus 107 ~G~g~f~v~~~~d~~~----------~i~~~~GDlI~V 134 (196)
-|.+.|.|...|+..+ +|.+.+||+++|
T Consensus 31 lG~~~~~V~~~dG~~~la~i~GK~Rk~IwI~~GD~VlV 68 (100)
T PRK04012 31 LGANRVRVRCMDGVERMGRIPGKMKKRMWIREGDVVIV 68 (100)
T ss_pred cCCCEEEEEeCCCCEEEEEEchhhcccEEecCCCEEEE
Confidence 3566677665444322 466777777776
No 128
>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]
Probab=30.70 E-value=96 Score=22.65 Aligned_cols=12 Identities=25% Similarity=0.626 Sum_probs=9.7
Q ss_pred EEEEecCCEEEe
Q 029255 123 RIWVKKGGMIVL 134 (196)
Q Consensus 123 ~i~~~~GDlI~V 134 (196)
+|.+.+||.++|
T Consensus 44 ~i~I~~GD~V~V 55 (75)
T COG0361 44 RIRILPGDVVLV 55 (75)
T ss_pred eEEeCCCCEEEE
Confidence 677888888877
No 129
>PF01176 eIF-1a: Translation initiation factor 1A / IF-1; InterPro: IPR006196 The S1 domain of around 70 amino acids, originally identified in ribosomal protein S1, is found in a large number of RNA-associated proteins. It has been shown that S1 proteins bind RNA through their S1 domains with some degree of sequence specificity. This type of S1 domain is found in translation initiation factor 1. The solution structure of one S1 RNA-binding domain from Escherichia coli polynucleotide phosphorylase has been determined []. It displays some similarity with the cold shock domain (CSD) (IPR002059 from INTERPRO). Both the S1 and the CSD domain consist of an antiparallel beta barrel of the same topology with 5 beta strands. This fold is also shared by many other proteins of unrelated function and is known as the OB fold. However, the S1 and CSD fold can be distinguished from the other OB folds by the presence of a short 3(10) helix at the end of strand 3. This unique feature is likely to form a part of the DNA/RNA-binding site. This entry is specific for bacterial, chloroplastic and eukaryotic IF-1 type S1 domains.; GO: 0003723 RNA binding, 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1JT8_A 3I4O_A 1AH9_A 1ZO1_W 1D7Q_A 2OQK_A 2DGY_A 1HR0_W.
Probab=30.16 E-value=48 Score=22.88 Aligned_cols=28 Identities=29% Similarity=0.717 Sum_probs=15.6
Q ss_pred eceEEEEEEeCCCeEE----------EEEEecCCEEEe
Q 029255 107 AGSGYFDVRDRNEKWI----------RIWVKKGGMIVL 134 (196)
Q Consensus 107 ~G~g~f~v~~~~d~~~----------~i~~~~GDlI~V 134 (196)
-|...|.|...+++.+ +|.+.+||+++|
T Consensus 13 lG~~~~~V~~~dg~~~l~~i~gK~r~~iwI~~GD~V~V 50 (65)
T PF01176_consen 13 LGNNLFEVECEDGEERLARIPGKFRKRIWIKRGDFVLV 50 (65)
T ss_dssp ESSSEEEEEETTSEEEEEEE-HHHHTCC---TTEEEEE
T ss_pred CCCCEEEEEeCCCCEEEEEeccceeeeEecCCCCEEEE
Confidence 4666677766555432 356677888766
No 130
>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=29.36 E-value=93 Score=22.08 Aligned_cols=57 Identities=16% Similarity=0.300 Sum_probs=33.5
Q ss_pred hccccccccC---c-ceEEEE--Ee-c-----eEEEEEEeC---CCeEEEEE-----EecCCEEEeCC-CCeeeeeec
Q 029255 89 KNFFEEHLHT---D-EEIRYC--VA-G-----SGYFDVRDR---NEKWIRIW-----VKKGGMIVLPA-GCYHRFTLD 145 (196)
Q Consensus 89 ~~f~~eH~H~---~-dEiryi--l~-G-----~g~f~v~~~---~d~~~~i~-----~~~GDlI~VPa-G~~H~F~~~ 145 (196)
..++.+|+.. . ..+.++ |+ . .|.+.+... ++....+. -++|++|+.|. .+.|..+.-
T Consensus 9 G~~~~~H~D~~~~~~~~~t~llyL~~~~~~~~GG~l~~~~~~~~~~~~~~~~~~~~~p~~g~~v~F~~~~~~H~v~~v 86 (100)
T PF13640_consen 9 GGFFGPHTDNSYDPHRRVTLLLYLNDPEWEFEGGELEFYPSKDSDDVSREVEDFDIVPKPGRLVIFPSDNSLHGVTPV 86 (100)
T ss_dssp TEEEEEEESSSCCCSEEEEEEEESS-CS-HCEE--EEETTTS-TSSTCEEEGGGSEE-BTTEEEEEESCTCEEEEEEE
T ss_pred CCEEeeeECCCCCCcceEEEEEEECCCCcccCCCEEEEeccccCCCcceEEEeccccCCCCEEEEEeCCCCeecCccc
Confidence 4567788876 3 333333 44 2 255555531 22223344 89999999999 999998765
No 131
>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=28.98 E-value=2.1e+02 Score=24.80 Aligned_cols=62 Identities=16% Similarity=0.225 Sum_probs=44.6
Q ss_pred ccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEecCCCceeec
Q 029255 96 LHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLFVGDPVWTPF 165 (196)
Q Consensus 96 ~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF~~~~gW~~~ 165 (196)
.|-.|.-+.||+|+..=...+ +.-....+|||....|.|...-..+.++-. ++-+ ..||+|-
T Consensus 116 rh~ad~y~tIL~G~~~~~~~g---~~~~evy~pGd~~~l~rg~a~~y~m~~~tw--~LEY---~RG~IP~ 177 (216)
T PF04622_consen 116 RHWADDYFTILSGEQWAWSPG---SLEPEVYKPGDSHHLPRGEAKQYQMPPGTW--ALEY---GRGWIPS 177 (216)
T ss_pred ceEeeeEEEEEEEEEEEEcCC---CCCceEeccCCEEEecCceEEEEEeCCCeE--EEEe---cCCchhh
Confidence 355688899999997655542 222567889999999999999999877643 3333 3678773
No 132
>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=28.17 E-value=3e+02 Score=21.73 Aligned_cols=58 Identities=12% Similarity=0.059 Sum_probs=43.7
Q ss_pred ccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeee---eecCCCcEEEEEEecC
Q 029255 96 LHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRF---TLDTDNYIKAMRLFVG 158 (196)
Q Consensus 96 ~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F---~~~~~~~~~alRlF~~ 158 (196)
.--+.=+.+|+.|+=...++ ++ .+...+|+++++|.+++=.. .++++.-+.++++.-+
T Consensus 20 ~~y~p~i~~vlQG~K~~~~g---~~--~~~Y~~g~~lv~~~~lPv~~~v~~AS~~~P~l~l~l~ld 80 (155)
T PF06719_consen 20 CVYEPSICIVLQGSKRVHLG---DQ--VFEYDAGQYLVSSVDLPVESEVVEASPEEPYLALSLELD 80 (155)
T ss_pred eecCCeEEEEEeeeEEEEEC---Cc--eEEecCCcEEEecCCCcEEEEEeeccCCCCEEEEEEEcC
Confidence 33345678999999888885 44 37899999999999987654 4566777899998643
No 133
>PLN02868 acyl-CoA thioesterase family protein
Probab=27.99 E-value=1.3e+02 Score=27.70 Aligned_cols=36 Identities=8% Similarity=0.072 Sum_probs=26.7
Q ss_pred cceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEe
Q 029255 99 DEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVL 134 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~V 134 (196)
-+.+++|++|+......+.+++.+-..+++||++-.
T Consensus 49 ~~~lyiI~~G~V~v~~~~~~ge~~l~~l~~Gd~fG~ 84 (413)
T PLN02868 49 GDGLYFIWKGEAEVSGPAEEESRPEFLLKRYDYFGY 84 (413)
T ss_pred CceEEEEEeCEEEEEEECCCCcEEEEEeCCCCEeeh
Confidence 367999999999877765555544456789999774
No 134
>PF01987 AIM24: Mitochondrial biogenesis AIM24; InterPro: IPR002838 The proteins in this family have no known function.; PDB: 1PG6_A 1YOX_D.
Probab=27.78 E-value=83 Score=26.02 Aligned_cols=33 Identities=18% Similarity=0.227 Sum_probs=26.2
Q ss_pred EEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCC
Q 029255 104 YCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAG 137 (196)
Q Consensus 104 yil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG 137 (196)
.-+.|+|...+.. .+..+.+.+.+|+-++|.++
T Consensus 134 ~~l~G~G~v~l~~-~G~i~~i~L~~ge~~~Vd~~ 166 (215)
T PF01987_consen 134 LKLSGRGTVFLSG-YGAIYEIDLAPGEEIIVDPG 166 (215)
T ss_dssp EEEESSCEEEEEE-CCSEEEEEEE-EEEEEEEGG
T ss_pred EEEEEEEEEEEEe-CCcEEEEEccCCceEEEcCC
Confidence 4588999999985 46778899999999998776
No 135
>KOG1417 consensus Homogentisate 1,2-dioxygenase [Amino acid transport and metabolism]
Probab=27.49 E-value=1.9e+02 Score=26.97 Aligned_cols=51 Identities=14% Similarity=0.196 Sum_probs=33.7
Q ss_pred EEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEEEe
Q 029255 103 RYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMRLF 156 (196)
Q Consensus 103 ryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alRlF 156 (196)
++|+--+|...|..+-+ |+.|.++.+-+||.|++-..+.....+--.+.+|
T Consensus 157 FLiVPQ~G~L~I~TEfG---rllV~P~EI~VIpqG~RFsi~v~~~sRGYilEvY 207 (446)
T KOG1417|consen 157 FLIVPQQGRLWITTEFG---RLLVTPNEIAVIPQGIRFSIDVPGPSRGYILEVY 207 (446)
T ss_pred EEEecccCcEEEEeecc---ceeecccceEEeecccEEEEecCCCCcceEEEEe
Confidence 45555556666653323 6899999999999999887766544443344444
No 136
>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=27.36 E-value=65 Score=24.43 Aligned_cols=27 Identities=30% Similarity=0.525 Sum_probs=20.2
Q ss_pred ceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeee
Q 029255 108 GSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRF 142 (196)
Q Consensus 108 G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F 142 (196)
|.|.|.|. +..+ .|++|+.|.++..|-
T Consensus 6 ~~g~~~i~---g~~y-----~~~viv~p~~~~~w~ 32 (109)
T cd00248 6 GPGGFRIA---GQVY-----RGPLLVLPDGVVPWD 32 (109)
T ss_pred cCCEEEEC---CEEE-----eeCEEEeCCceeecC
Confidence 55667774 5444 599999999999993
No 137
>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=27.28 E-value=1.9e+02 Score=23.03 Aligned_cols=38 Identities=16% Similarity=0.341 Sum_probs=26.8
Q ss_pred EEEEeceEEEEEEeC--CCeEEEEEEecCCEEEeCCCCee
Q 029255 103 RYCVAGSGYFDVRDR--NEKWIRIWVKKGGMIVLPAGCYH 140 (196)
Q Consensus 103 ryil~G~g~f~v~~~--~d~~~~i~~~~GDlI~VPaG~~H 140 (196)
.+=|-+++.|.++.. .+..+.+.+..||+++.-...+.
T Consensus 127 slSLG~~~~~~f~~~~~~~~~~~~~L~~gsl~vm~g~~r~ 166 (194)
T PF13532_consen 127 SLSLGSSRVFRFRNKSDDDEPIEVPLPPGSLLVMSGEARY 166 (194)
T ss_dssp EEEEES-EEEEEEECGGTS-EEEEEE-TTEEEEEETTHHH
T ss_pred EEEEccCceEEEeeccCCCccEEEEcCCCCEEEeChHHhh
Confidence 344567888999864 35788999999999999877543
No 138
>PRK10202 ebgC cryptic beta-D-galactosidase subunit beta; Reviewed
Probab=26.51 E-value=3.1e+02 Score=21.93 Aligned_cols=46 Identities=15% Similarity=0.208 Sum_probs=31.9
Q ss_pred CcceEEEEEeceEEEEEEeCC------------C------eEEEEEEecCCEEEeCCCCeeeee
Q 029255 98 TDEEIRYCVAGSGYFDVRDRN------------E------KWIRIWVKKGGMIVLPAGCYHRFT 143 (196)
Q Consensus 98 ~~dEiryil~G~g~f~v~~~~------------d------~~~~i~~~~GDlI~VPaG~~H~F~ 143 (196)
..-.|-|+|+|+=.+.+.... | ....+.+.+|+++++-++=.|+..
T Consensus 64 ~YiDIq~~l~G~E~i~~~~~~~~~~~~~y~~e~D~~f~~~~~~~v~l~~G~F~iffP~daH~P~ 127 (149)
T PRK10202 64 RYFEVHYYLQGQQKIEYAPKETLQVVEYYRDETDREYLKGCGETVEVHEGQIVICDIHEAYRFI 127 (149)
T ss_pred cEEEEEEEEeCeEEEEEEEcccCccccccCcccCeeeccCCCcEEEeCCCeEEEECCcccccCC
Confidence 347788888888877775210 1 111577888888888888888876
No 139
>cd05792 S1_eIF1AD_like S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD)-like, S1-like RNA-binding domain. eIF1AD is also known as MGC11102 protein. Little is known about the function of eIF1AD. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins, including translation initiation factor IF1A (also referred to as eIF1A in eukaryotes). eIF1A 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.
Probab=25.98 E-value=1.2e+02 Score=22.13 Aligned_cols=28 Identities=25% Similarity=0.671 Sum_probs=17.5
Q ss_pred eceEEEEEEeCCCeEE----------EEEEecCCEEEe
Q 029255 107 AGSGYFDVRDRNEKWI----------RIWVKKGGMIVL 134 (196)
Q Consensus 107 ~G~g~f~v~~~~d~~~----------~i~~~~GDlI~V 134 (196)
.|...|.+...+++.. ++.++.||+++|
T Consensus 10 ~G~n~~~V~~~dG~~~l~~iP~KfRk~iWIkrGd~VlV 47 (78)
T cd05792 10 KGNNLHEVETPNGSRYLVSMPTKFRKNIWIKRGDFVLV 47 (78)
T ss_pred CCCcEEEEEcCCCCEEEEEechhhcccEEEEeCCEEEE
Confidence 4555566655544322 567888898887
No 140
>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=25.85 E-value=40 Score=30.23 Aligned_cols=16 Identities=38% Similarity=0.737 Sum_probs=14.5
Q ss_pred EEecCCEEEeCCCCee
Q 029255 125 WVKKGGMIVLPAGCYH 140 (196)
Q Consensus 125 ~~~~GDlI~VPaG~~H 140 (196)
..++||.|.||+|+|+
T Consensus 7 ~A~~GDtI~l~~G~Y~ 22 (314)
T TIGR03805 7 AAQPGDTIVLPEGVFQ 22 (314)
T ss_pred hCCCCCEEEECCCEEE
Confidence 4679999999999998
No 141
>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=25.52 E-value=1.4e+02 Score=24.59 Aligned_cols=40 Identities=13% Similarity=0.213 Sum_probs=30.4
Q ss_pred EEEEeceEEEEEEeC--CCeEEEEEEecCCEEEeCCCCeeee
Q 029255 103 RYCVAGSGYFDVRDR--NEKWIRIWVKKGGMIVLPAGCYHRF 142 (196)
Q Consensus 103 ryil~G~g~f~v~~~--~d~~~~i~~~~GDlI~VPaG~~H~F 142 (196)
.+=|.-++.|.++.. ++....+.++.||+|+.-...+++|
T Consensus 125 SvSLG~~r~F~~~~~~~~~~~~~l~L~sGsllvM~G~sR~~~ 166 (169)
T TIGR00568 125 SVSLGLPAIFLIGGLKRNDPPKRLRLHSGDVVIMGGESRLAF 166 (169)
T ss_pred EEeCCCCEEEEecCCcCCCceEEEEeCCCCEEEECCchhccc
Confidence 344567788888753 3446789999999999988877765
No 142
>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=24.99 E-value=46 Score=26.71 Aligned_cols=16 Identities=19% Similarity=0.574 Sum_probs=13.9
Q ss_pred EEEEecCCEEEeCCCC
Q 029255 123 RIWVKKGGMIVLPAGC 138 (196)
Q Consensus 123 ~i~~~~GDlI~VPaG~ 138 (196)
.+.+++||.|+||..+
T Consensus 149 n~~L~~gD~I~Vp~~~ 164 (165)
T TIGR03027 149 NVELKPGDVLIIPESW 164 (165)
T ss_pred CceeCCCCEEEEeccc
Confidence 4789999999999764
No 143
>COG3806 ChrR Transcriptional activator [Transcription]
Probab=24.73 E-value=1.1e+02 Score=26.64 Aligned_cols=55 Identities=16% Similarity=0.145 Sum_probs=39.7
Q ss_pred ccccccccCcceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEE
Q 029255 90 NFFEEHLHTDEEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAM 153 (196)
Q Consensus 90 ~f~~eH~H~~dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~al 153 (196)
..+..|+|..-|-..+++|. |+-+ ++ ....||++.-+.++.|-.....+..+.++
T Consensus 139 ~s~P~HtH~G~E~t~vl~G~--~sde--~G-----~y~vgD~~~~d~~v~H~piv~~~~eClcl 193 (216)
T COG3806 139 RSFPDHTHVGIERTAVLEGA--FSDE--NG-----EYLVGDFTLADGTVQHSPIVLPPGECLCL 193 (216)
T ss_pred cccccccccceEEEEEEeec--cccC--CC-----ccccCceeecCCccccccccCCCCCceEE
Confidence 34889999999988888775 6654 33 36679999999999998654444334444
No 144
>PHA02984 hypothetical protein; Provisional
Probab=24.72 E-value=4.4e+02 Score=23.95 Aligned_cols=57 Identities=16% Similarity=0.157 Sum_probs=41.9
Q ss_pred ceEEE--EEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecC-CCcEEEEEEec
Q 029255 100 EEIRY--CVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDT-DNYIKAMRLFV 157 (196)
Q Consensus 100 dEiry--il~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~-~~~~~alRlF~ 157 (196)
-|-+| +|+|++...+- .+++.+...+++|+-+.+--++.|.-++.. +-++..+++=.
T Consensus 92 nEy~FvlCl~G~~~I~~~-~~~~~is~~I~kGeaf~md~~t~h~i~T~~knl~L~Vi~y~v 151 (286)
T PHA02984 92 NEYMFVLCLNGKTSIECF-NKGSKITNTIKKGEAFTLNLKTKYVTTTKDKNLHLAVITYTS 151 (286)
T ss_pred ccEEEEEEcCCeEEEEEe-cCCceeeeEEecCceEEEEccceEEEEeCCCceEEEEEEEEe
Confidence 45554 57899988887 456678899999999999999999987653 33444444433
No 145
>PRK15401 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional
Probab=24.60 E-value=1.4e+02 Score=25.79 Aligned_cols=41 Identities=17% Similarity=0.307 Sum_probs=31.1
Q ss_pred EEEEeceEEEEEEe--CCCeEEEEEEecCCEEEeCCCCeeeee
Q 029255 103 RYCVAGSGYFDVRD--RNEKWIRIWVKKGGMIVLPAGCYHRFT 143 (196)
Q Consensus 103 ryil~G~g~f~v~~--~~d~~~~i~~~~GDlI~VPaG~~H~F~ 143 (196)
.+=|..++.|.++. .+++...+.++.||+|+.-...++|+-
T Consensus 146 SvSLG~~~~F~~~~~~~~~~~~~l~L~~Gdllvm~G~sr~~~H 188 (213)
T PRK15401 146 SVSLGLPAVFQFGGLKRSDPLQRILLEHGDVVVWGGPSRLRYH 188 (213)
T ss_pred EEeCCCCeEEEecccCCCCceEEEEeCCCCEEEECchHhheec
Confidence 44466788899874 245578999999999999777777663
No 146
>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=23.38 E-value=2.1e+02 Score=20.37 Aligned_cols=53 Identities=17% Similarity=0.115 Sum_probs=34.9
Q ss_pred HhHHhhcCeEEEEeCCCCccChHHHHHHHHhcCCCeeeeEEECCCCCCChHHHhh
Q 029255 35 LDQLSELGVLSWRLDADNYETDEELKKIREDRGYSYMDFCEVCPEKLPNYEEKIK 89 (196)
Q Consensus 35 ~~~L~~~GV~~~~~~~~~~~~~~~i~~l~~~rGy~~~Dvv~l~p~~~p~~e~~~~ 89 (196)
.+.|.+.||.|..++... .....+.|++-.|..+.=+|-+....+..+++..+
T Consensus 30 k~~L~~~~i~y~~idv~~--~~~~~~~l~~~~g~~tvP~vfi~g~~iGG~~~l~~ 82 (90)
T cd03028 30 VQILNQLGVDFGTFDILE--DEEVRQGLKEYSNWPTFPQLYVNGELVGGCDIVKE 82 (90)
T ss_pred HHHHHHcCCCeEEEEcCC--CHHHHHHHHHHhCCCCCCEEEECCEEEeCHHHHHH
Confidence 467888999998877643 23444677777788776677776555455555443
No 147
>COG0853 PanD Aspartate 1-decarboxylase [Coenzyme metabolism]
Probab=22.77 E-value=31 Score=27.63 Aligned_cols=49 Identities=20% Similarity=0.316 Sum_probs=31.4
Q ss_pred hcCCCeeeeEEECCCCCCChHHHhhccccccccCcceEEEEEe---ceEEEEEEeCCCeEEEEEEecCCEEEeCC
Q 029255 65 DRGYSYMDFCEVCPEKLPNYEEKIKNFFEEHLHTDEEIRYCVA---GSGYFDVRDRNEKWIRIWVKKGGMIVLPA 136 (196)
Q Consensus 65 ~rGy~~~Dvv~l~p~~~p~~e~~~~~f~~eH~H~~dEiryil~---G~g~f~v~~~~d~~~~i~~~~GDlI~VPa 136 (196)
=+-|...|+++++-+. +| ..|++. |||..++.+.- ...|++||+++|-+
T Consensus 37 ile~EkV~I~N~nNGa---------Rf----------~TYvI~g~rGSg~I~lNGAA----Arl~~~GD~VII~s 88 (126)
T COG0853 37 ILENEKVDIVNVNNGA---------RF----------STYVIAGERGSGVICLNGAA----ARLVQVGDLVIIMS 88 (126)
T ss_pred CCCCceEEEEECCCCc---------EE----------EEEEEEccCCCcEEEechHH----HhhCCCCCEEEEEE
Confidence 3445667777777542 11 145554 68888886432 35899999998854
No 148
>PLN00208 translation initiation factor (eIF); Provisional
Probab=22.69 E-value=1.4e+02 Score=24.39 Aligned_cols=28 Identities=18% Similarity=0.472 Sum_probs=17.3
Q ss_pred ceEEEEEEeCCCeEE----------EEEEecCCEEEeC
Q 029255 108 GSGYFDVRDRNEKWI----------RIWVKKGGMIVLP 135 (196)
Q Consensus 108 G~g~f~v~~~~d~~~----------~i~~~~GDlI~VP 135 (196)
|.+.|.|...++..+ +|.+.+||+++|-
T Consensus 43 Gn~~~~V~c~dG~~rLa~IpGKmRKrIWI~~GD~VlVe 80 (145)
T PLN00208 43 GNGRCEALCIDGTKRLCHIRGKMRKKVWIAAGDIILVG 80 (145)
T ss_pred CCCEEEEEECCCCEEEEEEeccceeeEEecCCCEEEEE
Confidence 456666664443321 5778888888873
No 149
>PF11142 DUF2917: Protein of unknown function (DUF2917); InterPro: IPR021317 This bacterial family of proteins appears to be restricted to Proteobacteria.
Probab=22.68 E-value=2e+02 Score=19.81 Aligned_cols=39 Identities=13% Similarity=0.260 Sum_probs=28.5
Q ss_pred EEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeee
Q 029255 103 RYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTL 144 (196)
Q Consensus 103 ryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~ 144 (196)
.-+.+|..-....+..+ -+.+++||-+.||+|-.=+...
T Consensus 20 l~v~~G~vWlT~~g~~~---D~~L~~G~~l~l~~g~~vvl~a 58 (63)
T PF11142_consen 20 LRVESGRVWLTREGDPD---DYWLQAGDSLRLRRGGRVVLSA 58 (63)
T ss_pred EEEccccEEEECCCCCC---CEEECCCCEEEeCCCCEEEEEe
Confidence 66778887777764222 2568999999999998766655
No 150
>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=21.01 E-value=4.2e+02 Score=20.85 Aligned_cols=46 Identities=20% Similarity=0.179 Sum_probs=28.6
Q ss_pred cceEEEEEeceEEEEEE-e--------------------CCCeEEEEEEecCCEEEeCCCCeeeeee
Q 029255 99 DEEIRYCVAGSGYFDVR-D--------------------RNEKWIRIWVKKGGMIVLPAGCYHRFTL 144 (196)
Q Consensus 99 ~dEiryil~G~g~f~v~-~--------------------~~d~~~~i~~~~GDlI~VPaG~~H~F~~ 144 (196)
.-.|-|+|+|+=.+.+. . .+.....|.+.+|+++++=||-.|+...
T Consensus 69 yiDiq~~l~G~E~i~~~~~~~~~~~~~~yd~~~D~~f~~~~~~~~~i~l~~g~f~iffP~d~H~p~~ 135 (153)
T PF04074_consen 69 YIDIQYVLEGEERIGWSADIEDLEVVQPYDEEKDIAFYEDGKNESFITLKPGDFAIFFPEDAHRPGC 135 (153)
T ss_dssp EEEEEEEEES-EEEEEE-S---GGGS---BTTTTBEEES--TTEEEEEE-TTEEEEE-TT--EEEEE
T ss_pred EEEEEeeccccEEEEEEcCcccCcccccCCCCCCEEEecCCCCceEEEEcCCEEEEECCCccccccc
Confidence 36788889998888872 1 0111236789999999999999999653
No 151
>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=20.83 E-value=34 Score=27.05 Aligned_cols=29 Identities=21% Similarity=0.409 Sum_probs=18.3
Q ss_pred EEEEec---eEEEEEEeCCCeEEEEEEecCCEEEeC
Q 029255 103 RYCVAG---SGYFDVRDRNEKWIRIWVKKGGMIVLP 135 (196)
Q Consensus 103 ryil~G---~g~f~v~~~~d~~~~i~~~~GDlI~VP 135 (196)
.|++.| ||..++.+.. ...+++||.|+|=
T Consensus 57 TYvI~g~~GSg~I~lNGaA----Arl~~~GD~vII~ 88 (116)
T PF02261_consen 57 TYVIPGERGSGVICLNGAA----ARLVQVGDRVIIM 88 (116)
T ss_dssp EEEEEESTTTT-EEEEGGG----GGCS-TT-EEEEE
T ss_pred EEEEEccCCCcEEEECCHH----HhccCCCCEEEEE
Confidence 466655 5899998543 2478999999884
No 152
>PRK05467 Fe(II)-dependent oxygenase superfamily protein; Provisional
Probab=20.70 E-value=1.9e+02 Score=24.97 Aligned_cols=32 Identities=19% Similarity=0.390 Sum_probs=24.6
Q ss_pred EEEEEecCCEEEeCCCCeeeeee-cCCCcEEEE
Q 029255 122 IRIWVKKGGMIVLPAGCYHRFTL-DTDNYIKAM 153 (196)
Q Consensus 122 ~~i~~~~GDlI~VPaG~~H~F~~-~~~~~~~al 153 (196)
..|..++||+|+-|..+.|.-.. +....+.++
T Consensus 141 ~~Vkp~aG~~vlfps~~lH~v~pVt~G~R~~~~ 173 (226)
T PRK05467 141 HRVKLPAGDLVLYPSTSLHRVTPVTRGVRVASF 173 (226)
T ss_pred EEEecCCCeEEEECCCCceeeeeccCccEEEEE
Confidence 36888999999999999999876 444444443
No 153
>PF13464 DUF4115: Domain of unknown function (DUF4115)
Probab=20.65 E-value=3e+02 Score=19.05 Aligned_cols=45 Identities=16% Similarity=0.224 Sum_probs=34.1
Q ss_pred EEEeceEEEEEEeCCCe-EEEEEEecCCEEEeCCCCeeeeeecCCC
Q 029255 104 YCVAGSGYFDVRDRNEK-WIRIWVKKGGMIVLPAGCYHRFTLDTDN 148 (196)
Q Consensus 104 yil~G~g~f~v~~~~d~-~~~i~~~~GDlI~VPaG~~H~F~~~~~~ 148 (196)
+-..|.+...|.+.+++ .+.-.+++||-+.++.+-+=.+.++...
T Consensus 3 l~a~~~sWv~V~d~dG~~~~~~~l~~G~~~~~~~~~~~~i~iGna~ 48 (77)
T PF13464_consen 3 LTATGDSWVEVTDADGKVLFSGTLKAGETKTFEGKEPFRIRIGNAG 48 (77)
T ss_pred EEEeCCeEEEEEeCCCcEeeeeeeCCCcEEEEeCCCCEEEEEeCCC
Confidence 34568888999876664 5677889999999887777777776654
No 154
>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=20.36 E-value=1.5e+02 Score=24.58 Aligned_cols=48 Identities=13% Similarity=0.255 Sum_probs=27.2
Q ss_pred ceEEEEEeceEEEEEEeCCCeEEEEEEecCCEEEeCCCCeeeeeecCCCcEEEEE
Q 029255 100 EEIRYCVAGSGYFDVRDRNEKWIRIWVKKGGMIVLPAGCYHRFTLDTDNYIKAMR 154 (196)
Q Consensus 100 dEiryil~G~g~f~v~~~~d~~~~i~~~~GDlI~VPaG~~H~F~~~~~~~~~alR 154 (196)
.-+.|+++|+. .+. .+++ .+.+.+||++.+-. .+...+.....+..++
T Consensus 136 ~~l~~~~~G~~--~i~-~~~~--~~~L~~~d~l~~~~--~~~~~l~~~g~ll~v~ 183 (184)
T PF05962_consen 136 TVLVYVLEGAW--SIT-EGGN--CISLSAGDLLLIDD--EEDLPLTGDGQLLWVS 183 (184)
T ss_dssp EEEEEESSS-E--EEC-CCEE--EEEE-TT-EEEEES--EECEEEEEECCEEEEE
T ss_pred EEEEEEeeCcE--EEe-cCCC--ceEcCCCCEEEEeC--CCceEecCCeeEEEEe
Confidence 45578888864 443 1222 58899999998866 4444555555555544
No 155
>COG3145 AlkB Alkylated DNA repair protein [DNA replication, recombination, and repair]
Probab=20.34 E-value=1.9e+02 Score=24.67 Aligned_cols=41 Identities=15% Similarity=0.323 Sum_probs=31.0
Q ss_pred EEEEeceEEEEEEeCC--CeEEEEEEecCCEEEeCCCCeeeee
Q 029255 103 RYCVAGSGYFDVRDRN--EKWIRIWVKKGGMIVLPAGCYHRFT 143 (196)
Q Consensus 103 ryil~G~g~f~v~~~~--d~~~~i~~~~GDlI~VPaG~~H~F~ 143 (196)
.+=+-..+.|.++... +.+.++.++.||+++.=....+-|.
T Consensus 136 slSLg~~~~F~~~~~~r~~~~~~~~L~~Gdvvvm~G~~r~~~~ 178 (194)
T COG3145 136 SLSLGAPCIFRLRGRRRRGPGLRLRLEHGDVVVMGGPSRLAWH 178 (194)
T ss_pred EEecCCCeEEEeccccCCCCceeEEecCCCEEEecCCcccccc
Confidence 3445678889998665 6788999999999998666665544
No 156
>TIGR01450 recC exodeoxyribonuclease V, gamma subunit. This model describes the gamma subunit of exodeoxyribonuclease V. Species containing this protein should also have the alpha (TIGR01447) and beta (TIGR00609) subunits. Candidates from Borrelia and from the Chlamydias differ dramatically and score between trusted and noise cutoffs.
Probab=20.20 E-value=1.1e+02 Score=32.24 Aligned_cols=52 Identities=17% Similarity=0.289 Sum_probs=40.3
Q ss_pred HHHHHHhcCCCeeeeEEECCCCCCChHHHhhccccccccCcceEEEEEeceEE
Q 029255 59 LKKIREDRGYSYMDFCEVCPEKLPNYEEKIKNFFEEHLHTDEEIRYCVAGSGY 111 (196)
Q Consensus 59 i~~l~~~rGy~~~Dvv~l~p~~~p~~e~~~~~f~~eH~H~~dEiryil~G~g~ 111 (196)
+..+.+..|++.+|++.++|+ +..|...++..|..+.|+...+-|.++....
T Consensus 373 l~ll~~d~~lrprDI~Vm~pd-ie~Y~p~I~aVF~~~~~~~~~IP~~i~d~~~ 424 (1067)
T TIGR01450 373 LALLEEDPTLQPRDIIVMVPD-IDSYAPYIEAVFGQAPVDARFLPYSLSDRRL 424 (1067)
T ss_pred HHHHhhCCCCCccceEEECCC-hHHhhhHHHHHcCCCCCCCCcCCeEecCCcc
Confidence 344445589999999999998 6889999999999987775567666655543
No 157
>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=20.07 E-value=2.5e+02 Score=20.51 Aligned_cols=52 Identities=15% Similarity=0.050 Sum_probs=30.0
Q ss_pred HhHHhhcCeEEEEeCCCCccChHHHHHHHHhcCCCeeeeEEECCCCCCChHHHh
Q 029255 35 LDQLSELGVLSWRLDADNYETDEELKKIREDRGYSYMDFCEVCPEKLPNYEEKI 88 (196)
Q Consensus 35 ~~~L~~~GV~~~~~~~~~~~~~~~i~~l~~~rGy~~~Dvv~l~p~~~p~~e~~~ 88 (196)
.+-|.++||.|..++... .....+.|++-.|..+.=.|-+....+..+++..
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 466777788887666542 2344456666667666555666654444444443
Done!