Query gi|254780333|ref|YP_003064746.1| alanine racemase [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 370
No_of_seqs 154 out of 2702
Neff 7.1
Searched_HMMs 39220
Date Sun May 29 16:44:31 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780333.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK11930 putative bifunctional 100.0 0 0 831.4 36.8 354 3-369 459-821 (824)
2 PRK00053 alr alanine racemase; 100.0 0 0 827.8 35.1 354 4-369 1-359 (360)
3 TIGR00492 alr alanine racemase 100.0 0 0 833.0 30.8 352 7-369 4-381 (383)
4 cd06827 PLPDE_III_AR_proteobac 100.0 0 0 808.1 34.5 349 6-369 1-353 (354)
5 cd06825 PLPDE_III_VanT Type II 100.0 0 0 802.8 33.8 351 6-370 1-368 (368)
6 PRK13340 alanine racemase; Rev 100.0 0 0 798.2 34.3 346 7-369 40-402 (404)
7 cd00430 PLPDE_III_AR Type III 100.0 0 0 796.5 35.5 352 7-369 2-366 (367)
8 PRK03646 dadX alanine racemase 100.0 0 0 797.9 34.0 349 4-369 1-354 (355)
9 COG0787 Alr Alanine racemase [ 100.0 0 0 789.6 34.2 356 4-370 2-359 (360)
10 cd06826 PLPDE_III_AR2 Type III 100.0 0 0 769.5 35.0 349 7-369 2-364 (365)
11 cd06815 PLPDE_III_AR_like_1 Ty 100.0 0 0 392.3 27.6 311 6-337 1-333 (353)
12 pfam01168 Ala_racemase_N Alani 100.0 0 0 346.8 18.7 211 11-224 1-216 (216)
13 pfam00842 Ala_racemase_C Alani 100.0 0 0 319.6 12.1 125 235-370 1-125 (125)
14 cd06808 PLPDE_III Type III Pyr 100.0 3.2E-32 8.1E-37 228.1 16.1 196 16-217 1-211 (211)
15 cd06820 PLPDE_III_LS_D-TA_like 99.9 1.4E-23 3.6E-28 172.2 23.6 300 6-340 3-324 (353)
16 COG3457 Predicted amino acid r 99.9 7.3E-24 1.9E-28 174.1 17.7 311 5-338 2-332 (353)
17 cd06821 PLPDE_III_D-TA Type II 99.9 2.6E-22 6.6E-27 164.1 25.5 303 5-344 8-334 (361)
18 cd06818 PLPDE_III_cryptic_DSD 99.9 2.1E-21 5.3E-26 158.2 26.1 303 6-340 3-356 (382)
19 cd06819 PLPDE_III_LS_D-TA Type 99.9 3.6E-21 9.1E-26 156.7 25.7 293 5-340 6-329 (358)
20 cd06812 PLPDE_III_DSD_D-TA_lik 99.9 7.6E-21 1.9E-25 154.6 23.3 317 5-344 5-350 (374)
21 cd06813 PLPDE_III_DSD_D-TA_lik 99.9 2.2E-18 5.7E-23 138.6 23.6 313 5-352 10-365 (388)
22 cd06817 PLPDE_III_DSD Type III 99.9 5.7E-19 1.4E-23 142.5 20.5 316 5-344 5-365 (389)
23 cd06814 PLPDE_III_DSD_D-TA_lik 99.8 4E-18 1E-22 137.0 24.1 320 6-351 9-361 (379)
24 cd07376 PLPDE_III_DSD_D-TA_lik 99.8 2.7E-18 6.8E-23 138.1 21.3 292 15-340 1-318 (345)
25 cd06843 PLPDE_III_PvsE_like Ty 99.7 8E-15 2E-19 115.7 22.7 313 9-340 5-355 (377)
26 COG3616 Predicted amino acid a 99.7 3.4E-14 8.7E-19 111.6 21.4 304 6-340 18-341 (368)
27 cd06828 PLPDE_III_DapDC Type I 99.7 6.7E-13 1.7E-17 103.3 26.5 307 7-340 4-352 (373)
28 cd06810 PLPDE_III_ODC_DapDC_li 99.7 9.9E-13 2.5E-17 102.1 27.3 308 8-340 3-347 (368)
29 cd06839 PLPDE_III_Btrk_like Ty 99.7 1.3E-12 3.2E-17 101.5 26.5 307 7-340 8-360 (382)
30 cd06841 PLPDE_III_MccE_like Ty 99.6 3E-12 7.5E-17 99.1 27.5 306 7-339 8-354 (379)
31 cd06840 PLPDE_III_Bif_AspK_Dap 99.6 3.1E-12 7.9E-17 98.9 24.7 302 7-340 13-347 (368)
32 cd06831 PLPDE_III_ODC_like_AZI 99.6 3.4E-12 8.7E-17 98.7 24.1 313 9-339 16-359 (394)
33 TIGR03099 dCO2ase_PEP1 pyridox 99.6 2.3E-11 5.7E-16 93.4 26.4 307 7-340 26-376 (398)
34 COG0019 LysA Diaminopimelate d 99.6 2.1E-11 5.3E-16 93.6 25.1 318 7-353 28-386 (394)
35 cd06842 PLPDE_III_Y4yA_like Ty 99.5 4.3E-11 1.1E-15 91.5 25.1 157 7-168 11-180 (423)
36 cd00622 PLPDE_III_ODC Type III 99.5 7.2E-11 1.8E-15 90.1 25.2 307 7-340 3-341 (362)
37 cd06836 PLPDE_III_ODC_DapDC_li 99.5 8.8E-11 2.2E-15 89.5 25.4 303 7-340 4-356 (379)
38 cd06824 PLPDE_III_Yggs_like Py 99.4 3.7E-11 9.4E-16 92.0 15.3 203 12-221 5-223 (224)
39 cd06829 PLPDE_III_CANSDC Type 99.4 3.4E-09 8.7E-14 79.3 25.2 293 8-340 3-324 (346)
40 cd06811 PLPDE_III_yhfX_like Ty 99.4 5E-10 1.3E-14 84.7 20.1 255 9-271 31-309 (382)
41 cd00635 PLPDE_III_YBL036c_like 99.3 1.8E-10 4.6E-15 87.5 15.9 203 12-221 4-222 (222)
42 PRK11165 diaminopimelate decar 99.3 2.4E-08 6.2E-13 73.8 25.2 320 7-360 19-390 (412)
43 PRK08961 bifunctional aspartat 99.3 5.8E-08 1.5E-12 71.3 25.0 310 7-352 507-854 (865)
44 COG0325 Predicted enzyme with 99.2 2.5E-10 6.3E-15 86.6 12.7 205 12-223 6-226 (228)
45 cd06822 PLPDE_III_YBL036c_euk 99.2 1.2E-09 3.2E-14 82.1 15.1 204 12-221 4-227 (227)
46 TIGR01048 lysA diaminopimelate 99.1 4.8E-08 1.2E-12 71.9 19.1 323 10-359 29-409 (431)
47 pfam02784 Orn_Arg_deC_N Pyrido 99.1 2.9E-08 7.5E-13 73.2 16.5 147 12-167 1-164 (245)
48 cd06830 PLPDE_III_ADC Type III 98.7 7.2E-06 1.8E-10 57.8 17.4 155 8-166 7-196 (409)
49 TIGR00044 TIGR00044 conserved 98.4 5.3E-06 1.4E-10 58.6 10.7 181 28-222 40-249 (250)
50 KOG0622 consensus 98.3 3.8E-05 9.7E-10 53.1 14.0 236 7-254 57-319 (448)
51 KOG3157 consensus 98.3 2.2E-05 5.7E-10 54.6 11.7 206 14-225 9-239 (244)
52 TIGR01047 nspC carboxynorsperm 97.9 0.00021 5.4E-09 48.3 11.0 175 9-191 6-214 (403)
53 TIGR02090 LEU1_arch isopropylm 95.0 0.066 1.7E-06 32.1 5.5 183 46-254 25-276 (371)
54 TIGR00693 thiE thiamine-phosph 92.6 0.78 2E-05 25.2 7.3 89 19-112 94-203 (210)
55 COG2333 ComEC Predicted hydrol 76.5 5.9 0.00015 19.5 5.0 62 216-280 184-246 (293)
56 pfam01081 Aldolase KDPG and KH 75.3 6.4 0.00016 19.3 7.8 111 24-147 2-119 (196)
57 TIGR03275 methan_mark_8 putati 71.0 8 0.0002 18.7 6.8 139 9-166 39-199 (259)
58 TIGR02049 gshA_ferroox glutama 69.7 3.7 9.4E-05 20.9 2.4 11 211-221 266-276 (436)
59 PRK09426 methylmalonyl-CoA mut 68.1 9.2 0.00023 18.3 5.3 25 193-217 316-340 (715)
60 TIGR00707 argD acetylornithine 67.1 5.6 0.00014 19.7 2.9 120 36-155 63-220 (402)
61 COG0194 Gmk Guanylate kinase [ 65.9 10 0.00026 18.0 8.7 74 21-95 57-132 (191)
62 smart00851 MGS MGS-like domain 65.1 11 0.00027 17.9 4.5 37 44-82 1-37 (90)
63 pfam09872 DUF2099 Uncharacteri 64.8 11 0.00027 17.9 6.6 47 9-57 39-89 (257)
64 PRK07455 keto-hydroxyglutarate 62.3 12 0.0003 17.6 8.2 110 24-147 8-124 (210)
65 PRK02615 thiamine-phosphate py 61.6 12 0.00031 17.5 8.1 22 251-274 259-280 (345)
66 PRK08782 consensus 61.4 12 0.00031 17.5 7.3 93 19-114 6-105 (219)
67 TIGR02546 III_secr_ATP type II 61.2 12 0.00032 17.5 4.1 174 42-227 163-395 (430)
68 PRK08104 consensus 61.1 12 0.00032 17.5 7.0 80 23-105 8-94 (212)
69 PRK13121 consensus 60.9 13 0.00032 17.4 6.5 75 22-97 87-169 (265)
70 COG2185 Sbm Methylmalonyl-CoA 60.3 13 0.00033 17.4 5.7 15 44-58 28-42 (143)
71 TIGR01037 pyrD_sub1_fam dihydr 60.1 9.8 0.00025 18.1 3.1 22 117-138 49-71 (308)
72 PRK11539 hypothetical protein; 56.2 15 0.00038 16.9 4.2 40 238-279 654-693 (754)
73 PRK13132 consensus 55.4 15 0.00039 16.8 9.1 77 19-96 75-158 (246)
74 TIGR00326 eubact_ribD riboflav 53.8 11 0.00027 17.9 2.4 40 45-84 101-148 (393)
75 PRK13117 consensus 52.7 17 0.00044 16.6 8.8 76 21-97 86-169 (268)
76 PRK06015 keto-hydroxyglutarate 51.4 18 0.00046 16.4 7.6 92 21-115 6-104 (212)
77 pfam08661 Rep_fac-A_3 Replicat 51.0 2.1 5.4E-05 22.4 -1.6 18 352-369 94-111 (111)
78 PRK05718 keto-hydroxyglutarate 50.6 18 0.00047 16.4 7.5 94 21-117 6-106 (212)
79 pfam02142 MGS MGS-like domain. 49.6 19 0.00049 16.3 5.4 36 44-81 1-36 (92)
80 PRK03562 glutathione-regulated 49.3 19 0.00049 16.2 10.3 123 40-165 406-563 (615)
81 TIGR01885 Orn_aminotrans ornit 45.1 15 0.00038 16.9 2.0 11 126-136 243-253 (426)
82 cd00377 ICL_PEPM Members of th 43.9 23 0.00059 15.7 10.3 120 35-189 11-137 (243)
83 COG4992 ArgD Ornithine/acetylo 43.9 23 0.00059 15.7 3.0 33 248-281 274-307 (404)
84 pfam03420 Peptidase_U9 Prohead 43.7 8.8 0.00022 18.4 0.7 17 318-335 166-182 (220)
85 pfam11948 DUF3465 Protein of u 43.2 14 0.00035 17.1 1.6 16 246-261 84-99 (131)
86 cd02071 MM_CoA_mut_B12_BD meth 42.9 24 0.00061 15.6 5.7 28 32-59 3-30 (122)
87 TIGR01993 Pyr-5-nucltdase pyri 42.8 16 0.00041 16.7 1.9 106 133-239 32-167 (205)
88 TIGR02317 prpB methylisocitrat 42.3 25 0.00063 15.5 6.2 76 57-140 15-92 (287)
89 PRK13116 consensus 42.2 25 0.00063 15.5 8.7 83 14-97 79-169 (278)
90 PRK13113 consensus 42.1 25 0.00063 15.5 7.0 58 30-88 95-159 (263)
91 PRK06552 keto-hydroxyglutarate 42.0 25 0.00063 15.5 7.3 114 22-147 6-127 (209)
92 PRK04017 hypothetical protein; 41.0 22 0.00056 15.9 2.3 30 62-91 28-57 (132)
93 TIGR02967 guan_deamin guanine 40.9 9.7 0.00025 18.1 0.5 25 141-168 198-223 (426)
94 cd00452 KDPG_aldolase KDPG and 40.4 26 0.00067 15.3 7.3 106 29-147 3-115 (190)
95 PRK04180 pyridoxine biosynthes 40.4 26 0.00065 15.4 2.6 41 25-75 14-55 (293)
96 TIGR02076 pyrH_arch uridylate 40.0 18 0.00047 16.4 1.8 49 11-67 15-70 (232)
97 pfam03060 NPD 2-nitropropane d 39.8 27 0.00069 15.3 7.7 17 12-28 46-62 (330)
98 PRK08904 consensus 39.1 28 0.0007 15.2 7.5 81 23-106 3-90 (207)
99 pfam04481 DUF561 Protein of un 38.7 28 0.00071 15.2 6.6 64 44-108 28-92 (243)
100 PRK13125 trpA tryptophan synth 38.7 28 0.00071 15.2 5.5 74 21-96 70-153 (247)
101 PRK06857 consensus 37.5 29 0.00075 15.1 7.8 87 24-114 7-100 (209)
102 PRK13112 consensus 36.8 30 0.00076 15.0 8.4 76 20-96 86-169 (279)
103 cd04727 pdxS PdxS is a subunit 36.2 14 0.00037 17.0 0.8 15 208-222 217-231 (283)
104 COG0214 SNZ1 Pyridoxine biosyn 35.6 14 0.00035 17.2 0.6 41 26-76 18-59 (296)
105 PRK13306 ulaD 3-keto-L-gulonat 35.5 31 0.0008 14.9 12.3 29 4-32 3-31 (216)
106 CHL00113 rps4 ribosomal protei 35.0 32 0.00081 14.8 4.5 15 203-217 84-100 (201)
107 COG0117 RibD Pyrimidine deamin 34.8 23 0.00059 15.7 1.7 40 63-102 51-99 (146)
108 pfam02581 TMP-TENI Thiamine mo 34.7 32 0.00082 14.8 6.0 16 46-61 15-30 (180)
109 PRK03659 glutathione-regulated 34.0 33 0.00085 14.7 10.1 37 40-76 407-444 (602)
110 COG4022 Uncharacterized protei 33.9 33 0.00085 14.7 7.2 51 10-63 45-100 (286)
111 PRK13138 consensus 33.0 34 0.00088 14.6 7.3 76 20-96 81-166 (264)
112 TIGR01351 adk adenylate kinase 32.9 11 0.00029 17.7 -0.2 59 80-143 2-65 (232)
113 cd02811 IDI-2_FMN Isopentenyl- 32.8 35 0.00088 14.6 9.8 112 47-166 73-218 (326)
114 COG1188 Ribosome-associated he 32.6 35 0.00089 14.6 3.7 30 295-339 31-61 (100)
115 TIGR02669 SpoIID_LytB SpoIID/L 32.6 18 0.00046 16.4 0.8 43 303-350 254-305 (323)
116 TIGR01700 PNPH purine nucleosi 32.6 26 0.00067 15.3 1.7 36 50-87 183-218 (259)
117 PTZ00328 eukaryotic initiation 32.5 35 0.00089 14.6 2.3 102 197-339 13-114 (166)
118 PRK09140 2-dehydro-3-deoxy-6-p 32.2 35 0.0009 14.5 7.1 167 23-221 4-177 (206)
119 TIGR02832 spo_yunB sporulation 30.2 28 0.00071 15.2 1.5 41 244-285 101-141 (220)
120 pfam00278 Orn_DAP_Arg_deC Pyri 30.2 38 0.00098 14.3 7.0 36 304-340 51-89 (110)
121 TIGR02660 nifV_homocitr homoci 29.7 39 0.00099 14.2 4.0 156 46-212 26-217 (369)
122 TIGR01461 greB transcription e 29.0 31 0.00078 14.9 1.5 36 304-339 100-142 (157)
123 TIGR01359 UMP_CMP_kin_fam UMP- 28.9 30 0.00076 15.0 1.4 17 47-63 15-31 (189)
124 COG0159 TrpA Tryptophan syntha 28.6 41 0.001 14.1 9.4 79 18-97 80-169 (265)
125 pfam04246 RseC_MucC Positive r 28.5 41 0.001 14.1 2.8 23 318-340 42-64 (135)
126 PRK13127 consensus 28.3 41 0.0011 14.1 7.9 81 14-96 73-161 (262)
127 TIGR01182 eda 2-dehydro-3-deox 28.2 41 0.0011 14.1 5.4 78 25-104 3-87 (205)
128 KOG0306 consensus 27.9 38 0.00097 14.3 1.8 22 301-322 420-441 (888)
129 COG0124 HisS Histidyl-tRNA syn 27.4 43 0.0011 14.0 3.8 15 270-284 307-321 (429)
130 PRK13534 7-cyano-7-deazaguanin 27.3 43 0.0011 14.0 5.7 91 264-357 522-624 (630)
131 PRK13305 sgbH 3-keto-L-gulonat 27.2 43 0.0011 14.0 9.1 25 6-30 5-29 (220)
132 KOG3271 consensus 26.8 40 0.001 14.2 1.8 14 297-310 29-42 (156)
133 KOG0048 consensus 26.4 44 0.0011 13.9 4.1 90 77-167 3-94 (238)
134 PRK13114 consensus 26.2 45 0.0011 13.8 9.4 83 14-97 75-165 (266)
135 LOAD_Ccd1 consensus 26.0 45 0.0012 13.8 3.0 34 326-359 22-56 (71)
136 PRK13137 consensus 25.9 45 0.0012 13.8 7.7 67 29-96 100-174 (266)
137 PRK13958 N-(5'-phosphoribosyl) 25.9 45 0.0012 13.8 8.1 52 44-95 9-71 (207)
138 TIGR02152 D_ribokin_bact ribok 25.7 46 0.0012 13.8 2.4 56 28-86 53-113 (303)
139 PRK09627 oorA 2-oxoglutarate-a 25.6 46 0.0012 13.8 8.0 19 44-62 8-26 (375)
140 TIGR00858 bioF 8-amino-7-oxono 25.5 46 0.0012 13.8 1.9 92 34-130 87-197 (378)
141 pfam00682 HMGL-like HMGL-like. 25.5 46 0.0012 13.8 4.0 18 46-63 17-34 (237)
142 COG1107 Archaea-specific RecJ- 25.3 29 0.00073 15.1 0.8 10 270-279 644-653 (715)
143 cd04724 Tryptophan_synthase_al 25.3 47 0.0012 13.7 8.2 76 20-96 65-150 (242)
144 TIGR01628 PABP-1234 polyadenyl 25.2 47 0.0012 13.7 2.6 65 98-165 446-517 (860)
145 pfam01136 Peptidase_U32 Peptid 25.1 47 0.0012 13.7 9.2 56 45-100 4-62 (232)
146 TIGR03000 plancto_dom_1 Planct 25.0 42 0.0011 14.0 1.6 10 268-277 6-16 (81)
147 PRK03708 ppnK inorganic polyph 24.6 48 0.0012 13.7 5.4 91 45-152 18-112 (278)
148 pfam03709 OKR_DC_1_N Orn/Lys/A 24.5 48 0.0012 13.7 8.2 70 42-130 3-72 (111)
149 PRK13131 consensus 24.0 49 0.0013 13.6 6.3 79 17-96 72-161 (257)
150 PHA00911 21 prohead core scaff 23.5 11 0.00028 17.8 -1.6 11 153-163 31-41 (213)
151 PRK03372 ppnK inorganic polyph 23.2 51 0.0013 13.5 6.0 116 29-152 4-125 (303)
152 TIGR00959 ffh signal recogniti 23.2 51 0.0013 13.5 6.1 170 8-188 201-390 (439)
153 TIGR01416 Rieske_proteo ubiqui 23.2 19 0.00049 16.2 -0.4 46 53-99 37-83 (192)
154 COG1794 RacX Aspartate racemas 23.0 51 0.0013 13.5 8.1 20 45-64 64-83 (230)
155 PRK03512 thiamine-phosphate py 22.9 52 0.0013 13.5 7.9 24 31-61 14-37 (211)
156 COG0027 PurT Formate-dependent 22.7 52 0.0013 13.4 4.7 91 45-138 24-118 (394)
157 cd01850 CDC_Septin CDC/Septin. 22.4 53 0.0013 13.4 2.7 13 175-187 157-169 (276)
158 TIGR02213 lolE_release lipopro 22.4 49 0.0013 13.6 1.5 41 71-117 104-144 (416)
159 TIGR02043 ZntR Zn(II)-responsi 22.3 53 0.0014 13.4 2.4 45 134-189 56-100 (132)
160 TIGR01202 bchC Chlorophyll syn 21.6 55 0.0014 13.3 1.7 128 37-169 157-304 (325)
161 PRK04165 acetyl-CoA decarbonyl 20.7 57 0.0015 13.2 4.2 112 12-132 103-235 (454)
162 PRK02649 ppnK inorganic polyph 20.7 57 0.0015 13.2 6.0 99 45-152 19-124 (305)
163 TIGR02666 moaA molybdenum cofa 20.7 57 0.0015 13.2 9.8 103 43-157 77-190 (346)
164 TIGR02988 YaaA_near_RecF S4 do 20.5 58 0.0015 13.1 2.3 29 295-337 31-59 (60)
165 PRK00230 orotidine 5'-phosphat 20.2 59 0.0015 13.1 8.4 30 6-38 4-33 (231)
166 TIGR00216 ispH_lytB 4-hydroxy- 20.2 59 0.0015 13.1 2.2 10 77-86 31-40 (354)
167 PRK13140 consensus 20.1 59 0.0015 13.1 8.4 75 20-96 82-165 (257)
No 1
>PRK11930 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional
Probab=100.00 E-value=0 Score=831.37 Aligned_cols=354 Identities=29% Similarity=0.402 Sum_probs=330.1
Q ss_pred CCCCEEEEEEHHHHHHHHHHHHHH-CCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEE
Q ss_conf 888509998688999999999862-8997599999328665798999999998799899985599999999838985267
Q gi|254780333|r 3 SNEFLRLKIDLTALKNNWHSMNAL-SGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIF 81 (370)
Q Consensus 3 ~~~~~~leIdl~al~~Ni~~i~~~-~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Il 81 (370)
+.+-+|+||||+||+||++.+|++ .|++|+||||||||||||+.+||++|+++|||+||||+++||++||++|++.|||
T Consensus 459 ~~h~T~lEIdL~Ai~~N~~~~r~~l~p~tkimaVVKAdAYGhGa~evAk~l~~~gvd~~aVA~~~Ea~~LR~~Gi~~pIl 538 (824)
T PRK11930 459 KVHETILEINLDAIVHNLNYYRSKLKPETKMMCMVKAFAYGAGSYEIAKTLQEHRVDYLAVAVADEGSELRKAGITLPIM 538 (824)
T ss_pred CCCCCEEEEEHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEEEEHHHHHHHHHCCCCCCEE
T ss_conf 55885899988999999999997479997699999634466349999999998499999992599999999749999879
Q ss_pred EECCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHH-HCC-CCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCHHH
Q ss_conf 30689746988887542101348998999988887-608-8776167612666765569889999998888631000124
Q gi|254780333|r 82 VLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLM-SCG-VSHPYALQVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSL 159 (370)
Q Consensus 82 vl~~~~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~-~~~-~~~~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~~~~i~g 159 (370)
+|++. +.+++.+++++++|+|+|.++++.+.+.. +.+ +..+|||||||||||+||.++|+.++++.+...+.+.++|
T Consensus 539 vl~~~-~~~~~~~~~~~l~~~v~s~~~l~~l~~~~~~~~~~~~~vHlkiDTGM~RlGf~~~e~~~l~~~l~~~~~l~~~g 617 (824)
T PRK11930 539 VMNPE-LTSFKTIIDYKLEPEVYSFHLLDALIKEAEKKGLTNFPIHIKIDTGMHRLGFEPEDIPELIERLKKQSAVIVRS 617 (824)
T ss_pred EECCC-HHHHHHHHHHCCCCEECCHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHCCCCCEEE
T ss_conf 93486-67799999808911078799999999999972999740899975999978599899999999998289985536
Q ss_pred HHCCCCCCCCCC-CHHHHHHHHHHHHHHHHHC-----CCCHHHCCCCHHCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCC
Q ss_conf 320124333346-6788999999999975434-----8860111641100477322202048735306787767556764
Q gi|254780333|r 160 IISHLACADDPS-SHVNSVQLERFRTLISHYK-----GIEASLASSSGILLGPNYHFQLTRPGISLYGGTDKINKSHPMQ 233 (370)
Q Consensus 160 i~THfa~ad~~~-~~~~~~Q~~~F~~~~~~~~-----~~~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG~~~~~~~~~~l~ 233 (370)
+|||||+||+++ +.++..|+++|+++++.++ ...+|++||+|++++|+++||||||||+|||++|.. ...+||
T Consensus 618 i~SHfa~aD~~~~~~~t~~Q~~~F~~~~~~l~~~~~~~~~~H~aNSagi~~~p~~~~DmVR~Gi~LYG~~p~~-~~~~Lk 696 (824)
T PRK11930 618 VFSHLAGSDDPQHDDFTRQQIELFDKASEELQSALNYKPLRHILNTSGIERFPGAQYDMVRLGIGLYGVSASG-NQIKLR 696 (824)
T ss_pred EECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCHHHHCCCCCCCCEEEECCEEECCCCCC-CCCCCE
T ss_conf 6745888899998579999999999999999871688762786078988659844698685283516869888-777966
Q ss_pred CEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEEC
Q ss_conf 10012368863267148983466565346776417971233002601023685433444323288699999995077004
Q gi|254780333|r 234 TVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGKI 313 (370)
Q Consensus 234 pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGrv 313 (370)
|||+|+|+|++||++++|++||||++|++++|++|||||+||||||||.+||. +++|+|+|++|||+|||
T Consensus 697 pv~sl~s~I~~ik~v~~Ge~VgYg~t~~a~~~~~IAtipiGYADG~~R~lsn~----------~g~Vli~G~~~pivGrI 766 (824)
T PRK11930 697 NVSTLKTTILQIRDIPKGDTVGYSRKGRVEKPSRIATIPIGYADGLNRHLGNG----------VGYVLVNGKKAPIVGNI 766 (824)
T ss_pred EEEEEEEEEEEEEEECCCCCCCCCCCEECCCCCEEEEEEECCCCCCCCCCCCC----------CCEEEECCEEEEEEEEE
T ss_conf 60899999999998385698679995582899689999523102766225799----------83899999992256487
Q ss_pred CCCCEEEECCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCCEEEECCCCCCCCCCC
Q ss_conf 25647996688778788878999788889989999817946042154888736445
Q gi|254780333|r 314 TMDMTMFDITDSLSIEVGDYIQIFGPDIKLDDVALASGTTNYDLLVRIGTRYAKFY 369 (370)
Q Consensus 314 ~MD~~~vdvt~~~~~~~GD~V~l~G~~i~~~~~A~~~gti~yEil~~i~~RvpRiY 369 (370)
||||+|||||+++ +++||+|+|||++++++|+|+++|||+||++|+|++||||+|
T Consensus 767 cMD~~mvDvt~i~-~~~GDeV~l~G~~i~~~elA~~~~TI~YEilt~i~~Rv~RvY 821 (824)
T PRK11930 767 CMDMCMIDVTDIH-ANEGDKVIIFGEELPVTELADALNTIPYEILTSISPRVKRVF 821 (824)
T ss_pred ECCEEEEECCCCC-CCCCCEEEEECCCCCHHHHHHHHCCCHHEEECCCCCCCCEEE
T ss_conf 3356999888998-999999999899999999999859910123237899887562
No 2
>PRK00053 alr alanine racemase; Reviewed
Probab=100.00 E-value=0 Score=827.83 Aligned_cols=354 Identities=35% Similarity=0.524 Sum_probs=338.1
Q ss_pred CCCEEEEEEHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEE
Q ss_conf 88509998688999999999862899759999932866579899999999879989998559999999983898526730
Q gi|254780333|r 4 NEFLRLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVL 83 (370)
Q Consensus 4 ~~~~~leIdl~al~~Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl 83 (370)
.|.+|+|||++||++|++.+|++++++++||||||||||||+.++++++.++||++||||+++||++||++|++.|||+|
T Consensus 1 mr~t~~eIdl~al~~N~~~i~~~~~~~~i~aVVKAnAYGhG~~~va~~l~~~Gv~~faVa~~~EAi~LR~~g~~~~Ilvl 80 (360)
T PRK00053 1 MRPAWAEIDLDALAHNLRQLRQLAGSSKLMAVVKANAYGHGAVEVAKTLLEAGADGFGVATLEEALELREAGITAPILLL 80 (360)
T ss_pred CCCEEEEEEHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCHHHHHHHHHHCCCCEEEEEEHHHHHHHHHCCCCCCEEEE
T ss_conf 98779998399999999999965899809999944225488999999999879799999189999999963999998997
Q ss_pred CCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHCC
Q ss_conf 68974698888754210134899899998888760887761676126667655698899999988886310001243201
Q gi|254780333|r 84 YGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLIISH 163 (370)
Q Consensus 84 ~~~~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~~~~i~gi~TH 163 (370)
+++.+++++.+.+++++++|+|.++++.+++... ++..+|||||||||||+||.++|+.++++.+..+++++++|+|||
T Consensus 81 ~~~~~~~~~~~~~~~l~~~i~s~~~l~~~~~~~~-~~~~~vhlkiDTGM~RlG~~~~e~~~~~~~i~~~~~l~~~gi~SH 159 (360)
T PRK00053 81 GGFFEADLPLIVAYDIETAVHSLEQLRALEKAAL-SAPLKVHLKVDTGMHRLGVRPEEAEAALERLRALPNLRLEGIMSH 159 (360)
T ss_pred CCCCHHHHHHHHHCCCEEEECCHHHHHHHHHHCC-CCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEE
T ss_conf 6999799999997598899998999999997461-589549999858987478887899999999985899827899741
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHC--CCCHHHCCCCHHCCCCCCCCHHHCCCCCCCCCCCCC---CCCCCCCCEEEE
Q ss_conf 243333466788999999999975434--886011164110047732220204873530678776---755676410012
Q gi|254780333|r 164 LACADDPSSHVNSVQLERFRTLISHYK--GIEASLASSSGILLGPNYHFQLTRPGISLYGGTDKI---NKSHPMQTVVTA 238 (370)
Q Consensus 164 fa~ad~~~~~~~~~Q~~~F~~~~~~~~--~~~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG~~~~~---~~~~~l~pv~~l 238 (370)
||+||+++.++++.|+++|.++++.++ +...|++||+|++++|++++|||||||+|||++|.. ....+|||||+|
T Consensus 160 la~AD~~~~~~~~~Q~~~F~~~~~~l~~~~~~~h~aNSag~l~~~~~~~d~VR~Gi~lYG~~P~~~~~~~~~~lkpv~sl 239 (360)
T PRK00053 160 FATADEPDNSYTDEQLARFKAFLAGLPGKGKVRHLANSAAILRWPDLHFDWVRPGIALYGYSPSGEDLGLDLGLKPAMTL 239 (360)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCEEEHHCCHHHHCCCCCCCCEECCCCEEECCCCCCCCCCCCCCCEEEEEE
T ss_conf 12478888589999999999999863107969864236987709733477152380102798775544545586456999
Q ss_pred EEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEECCCCCE
Q ss_conf 36886326714898346656534677641797123300260102368543344432328869999999507700425647
Q gi|254780333|r 239 EARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGKITMDMT 318 (370)
Q Consensus 239 ~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGrv~MD~~ 318 (370)
+|+|++||++++|++||||++|++++|++|||||+||||||||++|| +++|+|+|++|||+|||||||+
T Consensus 240 ~a~I~~i~~v~~G~~VgYg~t~~a~~~~~ia~v~iGYaDG~~R~ls~-----------~~~v~i~G~~~pivGrv~MD~~ 308 (360)
T PRK00053 240 KSSLIAVRELKAGEGVGYGGTFTAERDTRIAVVPIGYADGYPRNLPN-----------GTPVLVNGRRVPIVGRVSMDQL 308 (360)
T ss_pred EEEEEEEEECCCCCEECCCCCEECCCCCEEEEEEEECCCCCCCCCCC-----------CCEEEECCEEEEEECEEECCEE
T ss_conf 99800578527988243799314577836999710314563431479-----------9689999999588478604538
Q ss_pred EEECCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCCEEEECCCCCCCCCCC
Q ss_conf 996688778788878999788889989999817946042154888736445
Q gi|254780333|r 319 MFDITDSLSIEVGDYIQIFGPDIKLDDVALASGTTNYDLLVRIGTRYAKFY 369 (370)
Q Consensus 319 ~vdvt~~~~~~~GD~V~l~G~~i~~~~~A~~~gti~yEil~~i~~RvpRiY 369 (370)
|||+|+.+++++||+|+|||++++++++|+++|||+||++|+|++|+||+|
T Consensus 309 ~vdvt~~~~~~~Gd~V~l~G~~i~~~~~A~~~~Ti~yEilt~l~~Rv~R~y 359 (360)
T PRK00053 309 TVDLTDIPQVKVGDEVTLWGEALTAEDWAEIIGTINYELLCKLTPRVPRVY 359 (360)
T ss_pred EEECCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCHHHHHHCCCCCCCEEE
T ss_conf 998889988999999999899999999999878962237437788887076
No 3
>TIGR00492 alr alanine racemase; InterPro: IPR000821 Alanine racemase catalyses the pyridoxal-dependent conversion of L-alanine into D-alanine, a key component of bacterial peptidoglycan . In Escherichia coli and Salmonella typhimurium, there are two alanine racemase isoforms, alr is a biosynthetic form required for cell wall formation; and dadB functions in L-alanine catabolism. By contrast with dadB and alr, both of which are monomeric enzymes, the alanine racemase of Bacillaceae are homodimers. In Pseudomonas putida, a broad-specificity amino acid racemase is structurally and functionally related to alanine racemase. The 3D-structure of the dimeric alanine racemase from Bacillus stearothermophilus has been determined to a resolution of 1.9 A . Each monomer comprises two domains, with an eight-stranded alpha/beta barrel at the N-terminus, and a C-terminal beta-strand domain. In the dimer, the mouth of the alpha/beta barrel of one monomer faces the second domain of the other monomer. The pyridoxal 5'-phosphate (PLP) cofactor lies in and above the barrel mouth and is covalently linked via an aldimine linkage to Lys39. Several other residues are involved in anchoring the PLP, for example, Arg219 forms a hydrogen bond with the pyridine nitrogen of the cofactor, which is assumed to influence electron delocalisation in PLP-alanine intermediates; Arg136 donates a hydrogen bond to the phenolic oxygen of PLP, and may be involved in substrate binding and stabilisation of intermediates; and Tyr265' is postulated to be a 2 proton donor to the carbanion intermediate .; GO: 0008784 alanine racemase activity, 0006522 alanine metabolic process.
Probab=100.00 E-value=0 Score=832.97 Aligned_cols=352 Identities=35% Similarity=0.543 Sum_probs=334.7
Q ss_pred EEEEEEHHHHHHHHHHHHH-HCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECC
Q ss_conf 0999868899999999986-289975999993286657989999999987998999855999999998389852673068
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNA-LSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYG 85 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~-~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~ 85 (370)
.|+|||++||+||++.+|+ ..+++++||||||||||||+.++++++.++|+|+||||+++||++||+.|++.|||+|++
T Consensus 4 ~~~~id~~ALk~Nl~~~k~~~~~~~~~~AVVKANAYGHG~~~~a~~~~~~Gad~lavA~LeEAi~LR~~G~~~PIL~Lg~ 83 (383)
T TIGR00492 4 AWVEIDLAALKHNLSAIKKQIGPKSKIMAVVKANAYGHGLIEVAKTLLQAGADYLAVATLEEAIELRKAGITAPILLLGG 83 (383)
T ss_pred EEEEECHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHCCCCCCEEEEEC
T ss_conf 58999267899999999974688756999981484260189999999865896640002467799885478875788504
Q ss_pred CC-HHHHHHHHHHHHHCCCCCHHHHHHHHHHH-HCC--CCCCCEEEECCCCCCCCCCHH-HHHHHHHHHHHHHCCC-HHH
Q ss_conf 97-46988887542101348998999988887-608--877616761266676556988-9999998888631000-124
Q gi|254780333|r 86 IH-PGQEKIIFDTNLIPVISSVPQLTFYSKLM-SCG--VSHPYALQVDTGFNRLGLSLQ-EALDFTHNSFNKKLGQ-LSL 159 (370)
Q Consensus 86 ~~-~~~~~~~~~~~i~~~i~s~~~l~~l~~~~-~~~--~~~~vhlkiDTGM~R~G~~~~-e~~~~~~~~~~~~~~~-i~g 159 (370)
++ +++++.+.+++++++++|.+||+.+++.. +.. +.++|||||||||||+|+.++ +....+.++.+.+.+. ++|
T Consensus 84 ~~~~~~~~~~~~~~l~~~v~s~Eql~~~~~~~lk~~sa~~l~vhlK~DTGM~RLG~~~~f~~~~~~~~~~~~~~~~~~~g 163 (383)
T TIGR00492 84 FFSAEDLKILAAWDLTTTVHSVEQLKALEEALLKEPSAKRLKVHLKIDTGMNRLGVKPDFEEALFVQKLRALSKLLELEG 163 (383)
T ss_pred CCCHHHHHHHHHCCCEEEEECHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCC
T ss_conf 79988999998618638980889999999984104478747899862388864788865789999999983645643021
Q ss_pred HHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCC--CC----HHHCCCCHHCCCCCCC----CHHHCCCCCCCCCCCCC---
Q ss_conf 32012433334667889999999999754348--86----0111641100477322----20204873530678776---
Q gi|254780333|r 160 IISHLACADDPSSHVNSVQLERFRTLISHYKG--IE----ASLASSSGILLGPNYH----FQLTRPGISLYGGTDKI--- 226 (370)
Q Consensus 160 i~THfa~ad~~~~~~~~~Q~~~F~~~~~~~~~--~~----~h~~nS~~~l~~p~~~----~d~vR~Gi~lYG~~~~~--- 226 (370)
||||||+||+++..++..|+++|.++++.++. +. +|+|||||+|++|+++ ||||||||.|||.+|+.
T Consensus 164 i~sHfa~AD~~~~~~~~~Q~~~F~~~~~~L~~~~i~~~~~~h~aNSaaiL~~~~~~enr~fd~vRpGIiLYG~~Ps~~~~ 243 (383)
T TIGR00492 164 IFSHFATADEPKTTTTKKQIERFLSFLEGLKQQKIELIPFRHIANSAAILSLPEGHENRLFDMVRPGIILYGLYPSADMK 243 (383)
T ss_pred EECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEEECCHHHHCCCCCHHCC
T ss_conf 12145676772214799999999999851343686476335421017864453356664011442143532147620014
Q ss_pred -CCCCCCCCEEEEEEEEEEEEEECCCC-CCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECC
Q ss_conf -75567641001236886326714898-3466565346776417971233002601023685433444323288699999
Q gi|254780333|r 227 -NKSHPMQTVVTAEARIILIRKALAGE-LVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKG 304 (370)
Q Consensus 227 -~~~~~l~pv~~l~s~i~~ir~l~~G~-~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G 304 (370)
...+.|+|||||+|+|++||.+++|| +||||++|++++|++|||||+||||||||++|| +.+|||||
T Consensus 244 ~~~~~~L~PVlsL~s~i~~vr~~k~Ger~VsYG~~~~a~~d~~iGvva~GYaDG~pR~l~n-----------~~~VL~~G 312 (383)
T TIGR00492 244 DGAPLGLKPVLSLKSKIIQVRTVKKGERPVSYGGTFTAEEDTKIGVVAIGYADGYPRALSN-----------GTPVLVNG 312 (383)
T ss_pred CCCCCCCCCCEEEEEEEEEEEEECCCCCCCCCCEEEECCCCCEEEEEEECHHCCCHHHCCC-----------CCEEEECC
T ss_conf 5543475031267899999874058897424672486578736899962002475211589-----------86798867
Q ss_pred EEEEEEEECCCCCEEEECCCCCCCCCCCEEEEEC----CCCCHHHHHHHHCCCCEEEECCCCCCCCCCC
Q ss_conf 9950770042564799668877878887899978----8889989999817946042154888736445
Q gi|254780333|r 305 YMVPILGKITMDMTMFDITDSLSIEVGDYIQIFG----PDIKLDDVALASGTTNYDLLVRIGTRYAKFY 369 (370)
Q Consensus 305 ~~~pivGrv~MD~~~vdvt~~~~~~~GD~V~l~G----~~i~~~~~A~~~gti~yEil~~i~~RvpRiY 369 (370)
|+||++|||||||+|||++...+.+.||+|+||| ++|++|++|+..+||+||++|.|++||||+|
T Consensus 313 ~~~~~~G~V~MD~~~V~L~~~~~~k~G~~Vil~G~~~~~~i~~d~~a~~l~ti~YEl~c~l~~Rv~r~y 381 (383)
T TIGR00492 313 KRVPIVGRVCMDMLMVDLGPNLQAKTGDEVILWGDDSDKEISIDEIAKFLGTIAYELICTLSKRVPRVY 381 (383)
T ss_pred EEEEEEEEEEEEEEEEECCCCCCCCCCCEEEEEECCCCCCCCHHHHHHHHCHHHHHHHHCCCCEEEEEE
T ss_conf 463144101410066623888889876168997468764378899998727134456624654012256
No 4
>cd06827 PLPDE_III_AR_proteobact Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases. This subfamily is composed mainly of proteobacterial alanine racemases (EC 5.1.1.1), fold type III PLP-dependent enzymes that catalyze the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. hese proteins are similar to other bacterial ARs and are fold type III PLP-dependent enzymes containing contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.
Probab=100.00 E-value=0 Score=808.08 Aligned_cols=349 Identities=34% Similarity=0.498 Sum_probs=329.8
Q ss_pred CEEEEEEHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECC
Q ss_conf 50999868899999999986289975999993286657989999999987998999855999999998389852673068
Q gi|254780333|r 6 FLRLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYG 85 (370)
Q Consensus 6 ~~~leIdl~al~~Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~ 85 (370)
.+|+||||+||+||++.+|++++++++||||||||||||+.++++++. ++++||||+++||++||++|++.|||+|++
T Consensus 1 P~~~eIdl~al~~N~~~ir~~~~~~~i~aVVKAnAYGhG~~~va~~l~--~~~~faVa~~~Ea~~LR~~g~~~~IlvL~g 78 (354)
T cd06827 1 PARATIDLAALRHNLRLVRELAPNSKILAVVKANAYGHGLVRVAKALA--DADGFAVACIEEALALREAGITKPILLLEG 78 (354)
T ss_pred CEEEEEEHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCHHHHHHHHH--CCCEEEEEEHHHHHHHHHCCCCCCEEEEEC
T ss_conf 989999799999999999976899839999984636486999999985--699799948999999997399986699937
Q ss_pred -CCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHCCC
Q ss_conf -9746988887542101348998999988887608877616761266676556988999999888863100012432012
Q gi|254780333|r 86 -IHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLIISHL 164 (370)
Q Consensus 86 -~~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~~~~i~gi~THf 164 (370)
..+++++.+.+++++++|+|.++++++++. +.+++.++||||||||||+||.++|+.++++.+...+++.++|+||||
T Consensus 79 ~~~~~~~~~~~~~~l~~~i~s~~~l~~l~~~-~~~~~~~vhlkiDTGM~RlG~~~~e~~~~~~~l~~~~~l~~~gi~SHf 157 (354)
T cd06827 79 FFSADELPLAAEYNLWTVVHSEEQLEWLEQA-ALSKPLNVWLKLDSGMHRLGFSPEEYAAAYQRLKASPNVASIVLMTHF 157 (354)
T ss_pred CCCHHHHHHHHHCCCEEEECCHHHHHHHHHH-CCCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEEC
T ss_conf 8998999999984998999989999999862-848995499997578885789989999999999858998568998402
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHCCCCHHCCCCCCCCHHHCCCCCCCCCCCCC---CCCCCCCCEEEEEEE
Q ss_conf 43333466788999999999975434886011164110047732220204873530678776---755676410012368
Q gi|254780333|r 165 ACADDPSSHVNSVQLERFRTLISHYKGIEASLASSSGILLGPNYHFQLTRPGISLYGGTDKI---NKSHPMQTVVTAEAR 241 (370)
Q Consensus 165 a~ad~~~~~~~~~Q~~~F~~~~~~~~~~~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG~~~~~---~~~~~l~pv~~l~s~ 241 (370)
|+||+++.++++.|+++|+++++.++ ...|++||+|++++|+.++||||||++|||++|.. ....+|||||+|+|+
T Consensus 158 a~AD~~~~~~t~~Q~~~F~~~~~~~~-~~~h~aNSa~~l~~~~~~~d~VR~Gi~lYG~~P~~~~~~~~~~Lkpv~sl~a~ 236 (354)
T cd06827 158 ACADEPDSPGTAKQLAIFEQATAGLP-GPRSLANSAAILAWPEAHGDWVRPGIMLYGASPFADKSGADLGLKPVMTLSSE 236 (354)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHCCCC-CCEEEECCHHHHCCCCCCCCEECCCEEEECCCCCCCCCCCCCCCEEEEEEEEE
T ss_conf 45788887899999999999971488-66667178877459522477234674615688776666545585465899998
Q ss_pred EEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEECCCCCEEEE
Q ss_conf 86326714898346656534677641797123300260102368543344432328869999999507700425647996
Q gi|254780333|r 242 IILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGKITMDMTMFD 321 (370)
Q Consensus 242 i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGrv~MD~~~vd 321 (370)
|++||++++|++||||++|++++|++|||||+||||||||.+|| +++|+|+|++|||+|||||||+|||
T Consensus 237 v~~vk~v~~G~~VgYg~t~~a~~~~~iA~vpiGYaDG~~R~~s~-----------~~~V~i~G~~~pivGrI~MD~~~vD 305 (354)
T cd06827 237 IIAVRELKAGESVGYGATWTAPRPMRIGVVAIGYGDGYPRHAPS-----------GTPVLVNGQRTPLVGRVSMDMLTVD 305 (354)
T ss_pred EEEEEECCCCCCEECCCCEECCCCCEEEEEEEECCCCCCCCCCC-----------CCEEEECCEEEEEECEEECCEEEEE
T ss_conf 45789769999231697411366735999830411463531579-----------9789999999776567505358998
Q ss_pred CCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCCEEEECCCCCCCCCCC
Q ss_conf 688778788878999788889989999817946042154888736445
Q gi|254780333|r 322 ITDSLSIEVGDYIQIFGPDIKLDDVALASGTTNYDLLVRIGTRYAKFY 369 (370)
Q Consensus 322 vt~~~~~~~GD~V~l~G~~i~~~~~A~~~gti~yEil~~i~~RvpRiY 369 (370)
+|+++++++||+|+|||+++|++++|+++|||+||++|+|++|+||+|
T Consensus 306 vt~~~~~~~GD~V~l~G~~i~~~~~A~~~~TI~yEilt~l~~Rv~RvY 353 (354)
T cd06827 306 LTDLPEAKVGDPVELWGKGLPVDEVAAAAGTIGYELLCRLTPRVPRVY 353 (354)
T ss_pred CCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCHHHHHHCCCCCCCCEE
T ss_conf 889977899999999689999999999878964246327788888176
No 5
>cd06825 PLPDE_III_VanT Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, VanT and similar proteins. This subfamily is composed of Enterococcus gallinarum VanT and similar proteins. VanT is a membrane-bound serine racemase (EC 5.1.1.18) that is essential for vancomycin resistance in Enterococcus gallinarum. It converts L-serine into its D-enantiomer (D-serine) for peptidoglycan synthesis. The C-terminal region of this protein contains a PLP-binding TIM-barrel domain followed by beta-sandwich domain, which is homologous to the fold type III PLP-dependent enzyme, bacterial alanine racemase (AR). AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. On the basis of this similarity, it has been suggested that dimer formation of VanT is required for its catalytic activity, and that it catalyzes the racemization of serine in a mechanistically similar manner to that of alanine by
Probab=100.00 E-value=0 Score=802.82 Aligned_cols=351 Identities=34% Similarity=0.475 Sum_probs=323.2
Q ss_pred CEEEEEEHHHHHHHHHHHHHHC-CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEEC
Q ss_conf 5099986889999999998628-997599999328665798999999998799899985599999999838985267306
Q gi|254780333|r 6 FLRLKIDLTALKNNWHSMNALS-GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLY 84 (370)
Q Consensus 6 ~~~leIdl~al~~Ni~~i~~~~-~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~ 84 (370)
++|+||||+||+||++.+|++. +++++||||||||||||+.+|++++.++||++||||+++||++||++|++.|||+|+
T Consensus 1 rawleIdl~al~~N~~~i~~~~~~~~~i~aVVKAnAYGhG~~~va~~l~~~Gv~~f~Va~~~EA~~LR~~g~~~~Ilvl~ 80 (368)
T cd06825 1 RAWLEIDLSALEHNVKEIKRLLPSTCKLMAVVKANAYGHGDVEVARVLEQIGIDFFAVATIDEGIRLREAGIKGEILILG 80 (368)
T ss_pred CEEEEEEHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHCCCCEEEEEEHHHHHHHHHCCCCCCEEEEC
T ss_conf 92999869999999999997479998799999564266889999999998698999991999999999629999989976
Q ss_pred CCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHCCC
Q ss_conf 89746988887542101348998999988887608877616761266676556988999999888863100012432012
Q gi|254780333|r 85 GIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLIISHL 164 (370)
Q Consensus 85 ~~~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~~~~i~gi~THf 164 (370)
++.+++++.+.+++++++++|.++++.+++ .+.+.++||||||||||+||.++|... +.++...++++++|+||||
T Consensus 81 ~~~~~~~~~~~~~~l~~~i~s~~~~~~l~~---~~~~~~vhLkiDTGM~RlG~~~~e~~~-~~~~~~~~~l~~~gi~SH~ 156 (368)
T cd06825 81 YTPPVRAKELKKYSLTQTLISEAYAEELSK---YAVNIKVHLKVDTGMHRLGESPEDIDS-ILAIYRLKNLKVSGIFSHL 156 (368)
T ss_pred CCCHHHHHHHHHCCCEEEECCHHHHHHHHH---CCCCCEEEEEECCCCCCCCCCHHHHHH-HHHHHHCCCCCEEEEEEEE
T ss_conf 998788999997599899996999999972---799860799970799867888789999-9999867999547898530
Q ss_pred CCCCCCCC---HHHHHHHHHHHHHHHHHC-----CCCHHHCCCCHHCCCCCCCCHHHCCCCCCCCCCCCCC----CCCCC
Q ss_conf 43333466---788999999999975434-----8860111641100477322202048735306787767----55676
Q gi|254780333|r 165 ACADDPSS---HVNSVQLERFRTLISHYK-----GIEASLASSSGILLGPNYHFQLTRPGISLYGGTDKIN----KSHPM 232 (370)
Q Consensus 165 a~ad~~~~---~~~~~Q~~~F~~~~~~~~-----~~~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG~~~~~~----~~~~l 232 (370)
|+||++++ .+|+.|+++|.++++.++ ....|++||+|++++|++++||||||++|||+++.+. ...+|
T Consensus 157 a~AD~~~~~~~~~t~~Q~~~F~~~~~~l~~~~~~~~~~h~aNSagil~~p~~~~d~vRpGi~LYG~~~~~~~~~~~~~~L 236 (368)
T cd06825 157 CVSDSLDEDDIAFTKHQIACFDQVLADLKARGIEVGKIHIQSSYGILNYPDLKYDYVRPGILLYGVLSDPNDPTKLGLDL 236 (368)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCHHHHHCCCCCCCCEECCCEEEECCCCCCCCCCCCCCCC
T ss_conf 02566898335899999999999999998748984548742717876395024881267346267888854344456685
Q ss_pred CCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEE
Q ss_conf 41001236886326714898346656534677641797123300260102368543344432328869999999507700
Q gi|254780333|r 233 QTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGK 312 (370)
Q Consensus 233 ~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGr 312 (370)
||||+|+|+|++||++++|++||||++|++++|++|||||+||||||||++||. +++|+|+|++||||||
T Consensus 237 kPvmsl~a~I~~ir~v~~G~~VgYg~~~~a~~~~~ia~v~iGYaDG~~R~lsn~----------~~~V~i~G~~~pivGr 306 (368)
T cd06825 237 RPVLSLKAKVILVRKVAKGEAVGYGRLFVASRTTRIATVSIGYADGYPRSLSNQ----------KAYVLINGKRAPIIGN 306 (368)
T ss_pred CEEEEEEEEEEEEEECCCCCEECCCCCCCCCCCCEEEEEEEECCCCCCHHHCCC----------CCEEEECCEEEEEECE
T ss_conf 146999999545420699784536863346787279998114115634233379----------7489999999577488
Q ss_pred CCCCCEEEECCCCCCCCCCCEEEEECCC----CCHHHHHHHHCCCCEEEECCCCCCCCCCCC
Q ss_conf 4256479966887787888789997888----899899998179460421548887364459
Q gi|254780333|r 313 ITMDMTMFDITDSLSIEVGDYIQIFGPD----IKLDDVALASGTTNYDLLVRIGTRYAKFYT 370 (370)
Q Consensus 313 v~MD~~~vdvt~~~~~~~GD~V~l~G~~----i~~~~~A~~~gti~yEil~~i~~RvpRiY~ 370 (370)
|||||+|||||+++++++||+|+|||++ ++++++|+++|||+||++|+|++||||+|-
T Consensus 307 V~MD~~~vDvt~~~~v~~GD~V~l~G~~~~~~i~~~~~A~~~~TI~yEilt~l~~Rv~RvYk 368 (368)
T cd06825 307 ICMDQLMVDVTDIPEVKEGDTATLIGQDGDEELSADEVARNAHTITNELLSRIGERVKRIYK 368 (368)
T ss_pred ECCCEEEEECCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHCCCCCHHHHCCCCCCCCEEC
T ss_conf 71454899898998899999999982899877899999998689640563087888883209
No 6
>PRK13340 alanine racemase; Reviewed
Probab=100.00 E-value=0 Score=798.18 Aligned_cols=346 Identities=27% Similarity=0.400 Sum_probs=318.4
Q ss_pred EEEEEEHHHHHHHHHHHHHH-CCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECC
Q ss_conf 09998688999999999862-89975999993286657989999999987998999855999999998389852673068
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNAL-SGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYG 85 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~-~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~ 85 (370)
+|+||||+||+||++++|++ .+++++||||||||||||+.+|++++.++||++||||+++||++||++|++.|||+|++
T Consensus 40 aW~EIdL~al~~N~~~ir~~l~~~~ki~AVVKAnAYGhG~~~va~~l~~~G~~~faVA~~~EAi~LR~~gi~~pIlvl~~ 119 (404)
T PRK13340 40 AWLEISRGALDFNIKKFKRRLAANSKVCAVMKADAYGHGIEGVMPTIIENNVPCIAIASNEEARRVRELGFTGPLLRVRS 119 (404)
T ss_pred EEEEECHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHCCCCEEEEEEHHHHHHHHHCCCCCCEEEEEC
T ss_conf 89999799999999999985699998999991110207699999999987999999949999999996599999799918
Q ss_pred CCHHHHHHHHHHHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECC-CCCCCCCCHHHHHHHHH--HHHHHHCCCHHHHH
Q ss_conf 9746988887542101348998999988887-60887761676126-66765569889999998--88863100012432
Q gi|254780333|r 86 IHPGQEKIIFDTNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDT-GFNRLGLSLQEALDFTH--NSFNKKLGQLSLII 161 (370)
Q Consensus 86 ~~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDT-GM~R~G~~~~e~~~~~~--~~~~~~~~~i~gi~ 161 (370)
+.+++++.+.+++++++|+|.++++.+.++. +.+++.++|||||| ||||+||.+++...+.. ++...++++++|+|
T Consensus 120 ~~~~~~~~~~~~~l~~~I~s~~~l~~l~~~a~~~~~~~~vHlkiDTtGM~RlG~~~~~~~~~~~~~~i~~~~~l~v~Gi~ 199 (404)
T PRK13340 120 AEPAEIEQALRYRLEELIGDDEQAKLLANIAKKNGKPIDIHLALNSGGMGRNGLDPSTFRGAWEAVRIATLPSLGIVGIM 199 (404)
T ss_pred CCHHHHHHHHHCCCCEEECCHHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEE
T ss_conf 89899999997699259997999999999999719954799998168866679881028999999999608997778998
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHH--------CCCCHHHCCCCHHCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCC
Q ss_conf 0124333346678899999999997543--------48860111641100477322202048735306787767556764
Q gi|254780333|r 162 SHLACADDPSSHVNSVQLERFRTLISHY--------KGIEASLASSSGILLGPNYHFQLTRPGISLYGGTDKINKSHPMQ 233 (370)
Q Consensus 162 THfa~ad~~~~~~~~~Q~~~F~~~~~~~--------~~~~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG~~~~~~~~~~l~ 233 (370)
||||+||+++ +..|+++|+++...+ ++...|++||+|++++|+.++||||||++|||++|. +.+||
T Consensus 200 SHfa~AD~~~---~~~q~~~F~~~~~~l~~~~~~~~~~~~~H~aNSagil~~p~~~~D~VRpGi~LYG~~P~---~~~Lk 273 (404)
T PRK13340 200 THFPNEDAGE---VRWKLARFDQATQGLIGEAGLKREKITLHVANSYATLNVPEAHLDMVRPGGVLYGDSPA---NTPYK 273 (404)
T ss_pred EECCCCCCCC---HHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHCCCHHHCCCCCCCCEEECCCCC---CCCCC
T ss_conf 2048899971---59999999999986788752678865399837488760933106712677056688988---77878
Q ss_pred CEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEEC
Q ss_conf 10012368863267148983466565346776417971233002601023685433444323288699999995077004
Q gi|254780333|r 234 TVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGKI 313 (370)
Q Consensus 234 pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGrv 313 (370)
|||+|+|+|++||++++|++||||++|++++|++|||||+||||||||.+|| +++|+|+|++|||+|||
T Consensus 274 pvmsl~a~I~~ir~v~~G~~VgYG~t~~a~~~~~iAtvpiGYADG~~R~lsn-----------~g~VlI~G~~~pivGrI 342 (404)
T PRK13340 274 RIMTFKSRIASLNTLPKGSTVGYDRTFTLERDSRLANLPVGYADGYPRHAPN-----------GGPVLINGQRAPVVGRV 342 (404)
T ss_pred CEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCC-----------CCEEEECCEEEEEEEEE
T ss_conf 5489998877888707998314465402478748999721122452411479-----------80899999991256188
Q ss_pred CCCCEEEECCCCCCCCCCCEEEEECCC----CCHHHHHHHHCCCCEEEECCCCCCCCCCC
Q ss_conf 256479966887787888789997888----89989999817946042154888736445
Q gi|254780333|r 314 TMDMTMFDITDSLSIEVGDYIQIFGPD----IKLDDVALASGTTNYDLLVRIGTRYAKFY 369 (370)
Q Consensus 314 ~MD~~~vdvt~~~~~~~GD~V~l~G~~----i~~~~~A~~~gti~yEil~~i~~RvpRiY 369 (370)
||||+|||||+++++++||+|+|||++ ++++|+|+++|||+||++|+|++|+||+|
T Consensus 343 ~MD~~mVDvt~~~~v~~GD~V~L~G~~~~~~is~~~~A~~~gTI~yEilt~l~~RvpRvY 402 (404)
T PRK13340 343 SMNTLMVDVTDCPNVGPGDEVVLFGKQGNAEITVDEVEEASGTIFPELYCAWGATNPRIY 402 (404)
T ss_pred ECCEEEEECCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHCCCCCCHHHCCCCCCCCEE
T ss_conf 043489988899889999999997899988769999999869950104207788888373
No 7
>cd00430 PLPDE_III_AR Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase. This family includes predominantly bacterial alanine racemases (AR), some serine racemases (SerRac), and putative bifunctional enzymes containing N-terminal UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase (murF) and C-terminal AR domains. These proteins are fold type III PLP-dependent enzymes that play essential roles in peptidoglycan biosynthesis. AR catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. SerRac converts L-serine into its D-enantiomer (D-serine) for peptidoglycan synthesis. murF catalyzes the addition of D-Ala-D-Ala to UDPMurNAc-tripeptide, the final step in the synthesis of the cytoplasmic precursor of bacterial cell wall peptidoglycan. Members of this family contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with activ
Probab=100.00 E-value=0 Score=796.49 Aligned_cols=352 Identities=36% Similarity=0.538 Sum_probs=335.2
Q ss_pred EEEEEEHHHHHHHHHHHHHHC-CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECC
Q ss_conf 099986889999999998628-9975999993286657989999999987998999855999999998389852673068
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNALS-GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYG 85 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~~-~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~ 85 (370)
+|+|||++||+||++.+|++. +++++||||||||||||+.+|++++.++||++||||+++||++||++|++.|||+|++
T Consensus 2 ~~~eIdl~al~~N~~~lr~~~~~~~ki~aVVKAnAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~LR~~g~~~~Ilvl~~ 81 (367)
T cd00430 2 TWAEIDLDALRHNLRVIRRLLGPGTKIMAVVKADAYGHGAVEVAKALEEAGADYFAVATLEEALELREAGITAPILVLGG 81 (367)
T ss_pred EEEEEEHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHCCCCEEEEEEHHHHHHHHHCCCCCCEEEECC
T ss_conf 29998199999999999985689986999996554657789999999987979999854999999997299998599668
Q ss_pred CCHHHHHHHHHHHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHCCC
Q ss_conf 9746988887542101348998999988887-608877616761266676556988999999888863100012432012
Q gi|254780333|r 86 IHPGQEKIIFDTNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLIISHL 164 (370)
Q Consensus 86 ~~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~~~~i~gi~THf 164 (370)
+.+++++.+.+++++++|+|.++++.+.+.. +.+.+.++||||||||||+||.++|+.++++++..++++.++|+||||
T Consensus 82 ~~~~~~~~~~~~~l~~~i~s~~~l~~l~~~~~~~~~~~~vhlkiDTGM~RlG~~~~e~~~~~~~l~~~~~l~~~gi~SHl 161 (367)
T cd00430 82 TPPEEAEEAIEYDLTPTVSSLEQAEALSAAAARLGKTLKVHLKIDTGMGRLGFRPEEAEELLEALKALPGLELEGVFTHF 161 (367)
T ss_pred CCHHHHHHHHHCCEEEEECCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEEEC
T ss_conf 99799999996180768786999999999988759982399998068875788979999999999868996188997402
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHC-----CCCHHHCCCCHHCCCCCCCCHHHCCCCCCCCCCCCCC--CCCCCCCEEE
Q ss_conf 43333466788999999999975434-----8860111641100477322202048735306787767--5567641001
Q gi|254780333|r 165 ACADDPSSHVNSVQLERFRTLISHYK-----GIEASLASSSGILLGPNYHFQLTRPGISLYGGTDKIN--KSHPMQTVVT 237 (370)
Q Consensus 165 a~ad~~~~~~~~~Q~~~F~~~~~~~~-----~~~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG~~~~~~--~~~~l~pv~~ 237 (370)
++||+++.++++.|+++|+++++.++ ....|++||+|++++|+.++||||||++|||++|... ...+|||||+
T Consensus 162 a~ad~~~~~~~~~Q~~~F~~~~~~l~~~~~~~~~~h~aNS~~~l~~~~~~~d~vRpGi~LYG~~p~~~~~~~~~Lkpv~~ 241 (367)
T cd00430 162 ATADEPDKAYTRRQLERFLEALAELEEAGIPPPLKHLANSAAILRFPEAHFDMVRPGIALYGLYPSPEVKSPLGLKPVMS 241 (367)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCHHHHCCCCCCCCEEECCEEEECCCCCCCCCCCCCCCCEEE
T ss_conf 35788770788999999999999998648997637601689777395003880601654426888734455668621079
Q ss_pred EEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEECCCCC
Q ss_conf 23688632671489834665653467764179712330026010236854334443232886999999950770042564
Q gi|254780333|r 238 AEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGKITMDM 317 (370)
Q Consensus 238 l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGrv~MD~ 317 (370)
|+|+|++||++++|++||||++|++++|++|||+|+||||||||++|| +++|+|+|++|||+|||||||
T Consensus 242 l~a~ii~ir~v~~G~~VGYg~~~~a~~~~~ia~v~iGYaDG~pr~~~~-----------~~~v~i~g~~~~ivGrvsMD~ 310 (367)
T cd00430 242 LKARVVQVKTVPAGEGVSYGRTYTAPRPTRIATLPVGYADGYPRALSN-----------KGEVLIRGKRAPIVGRVCMDQ 310 (367)
T ss_pred EEEEEEEEEECCCCCCCCCCCCEECCCCCEEEEECCCCCCCCCCCCCC-----------CCEEEECCEEEEEEEEEECCE
T ss_conf 999999989718979234899403587834899711122564510268-----------868999999925633750554
Q ss_pred EEEECCCCCCCCCCCEEEEECCC----CCHHHHHHHHCCCCEEEECCCCCCCCCCC
Q ss_conf 79966887787888789997888----89989999817946042154888736445
Q gi|254780333|r 318 TMFDITDSLSIEVGDYIQIFGPD----IKLDDVALASGTTNYDLLVRIGTRYAKFY 369 (370)
Q Consensus 318 ~~vdvt~~~~~~~GD~V~l~G~~----i~~~~~A~~~gti~yEil~~i~~RvpRiY 369 (370)
+|||+|+.+++++||+|+|||++ ++++++|+++|||+||+||+|++|+||+|
T Consensus 311 ~~vdvt~~~~~~~Gd~V~l~G~~~~~~~~~~~~A~~~~ti~yEilt~l~~R~~R~y 366 (367)
T cd00430 311 TMVDVTDIPDVKVGDEVVLFGRQGDEEITAEELAELAGTINYEILCRISKRVPRIY 366 (367)
T ss_pred EEEECCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHCCCHHHHHHCCCCCCCCEE
T ss_conf 89988899889999999998189988779999999878972346327788888076
No 8
>PRK03646 dadX alanine racemase; Reviewed
Probab=100.00 E-value=0 Score=797.95 Aligned_cols=349 Identities=30% Similarity=0.433 Sum_probs=326.8
Q ss_pred CCCEEEEEEHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEE
Q ss_conf 88509998688999999999862899759999932866579899999999879989998559999999983898526730
Q gi|254780333|r 4 NEFLRLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVL 83 (370)
Q Consensus 4 ~~~~~leIdl~al~~Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl 83 (370)
.|.+|+||||+||+||++.+|++.+++++||||||||||||+.+|++++ +|+++||||+++||++||++|++.|||+|
T Consensus 1 tRp~~a~IdL~al~~N~~~lr~~~~~~~i~aVVKAnAYGhG~~~va~~l--~g~~~faVa~~~Ea~~LR~~gi~~pIlvl 78 (355)
T PRK03646 1 TRPIQASLDLQALKQNLSIVREAAPGARVWSVVKANAYGHGIERIWSAL--GATDGFAVLNLEEAITLRERGWKGPILML 78 (355)
T ss_pred CCCEEEEEEHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCHHHHHHHH--HCCCEEEEEEHHHHHHHHHCCCCCCEEEE
T ss_conf 9878999969999999999985589986999995344648799999998--38997999469999999964999977975
Q ss_pred CCC-CHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHC
Q ss_conf 689-7469888875421013489989999888876088776167612666765569889999998888631000124320
Q gi|254780333|r 84 YGI-HPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLIIS 162 (370)
Q Consensus 84 ~~~-~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~~~~i~gi~T 162 (370)
+++ .+++++.+.+++++++++|.++++.+++. +.+++.++||||||||||+||.++|..++..++...+++.++|+||
T Consensus 79 ~g~~~~~~~~~~~~~~l~~~i~s~~~l~~l~~~-~~~~~~~vhlkiDTGM~RlG~~~~e~~~~~~~l~~~~~l~~~gi~S 157 (355)
T PRK03646 79 EGFFHAQELELYDQHRLTTCVHSNWQLKALQNA-RLKAPLDIYLKVNSGMNRLGFQPERVQTVWQQLRAMGNVGEMTLMS 157 (355)
T ss_pred CCCCCHHHHHHHHHCCCEEEECCHHHHHHHHHH-CCCCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEE
T ss_conf 388998999999981986875819999999863-5179946999990798778988578999999998489987589998
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHCCCCHHCCCCCCCCHHHCCCCCCCCCCCCCC----CCCCCCCEEEE
Q ss_conf 12433334667889999999999754348860111641100477322202048735306787767----55676410012
Q gi|254780333|r 163 HLACADDPSSHVNSVQLERFRTLISHYKGIEASLASSSGILLGPNYHFQLTRPGISLYGGTDKIN----KSHPMQTVVTA 238 (370)
Q Consensus 163 Hfa~ad~~~~~~~~~Q~~~F~~~~~~~~~~~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG~~~~~~----~~~~l~pv~~l 238 (370)
|||+||+++ .++.|+++|+++.+.++ ...|++||+|++++|+.++||||||++|||++|... .+.+|||||+|
T Consensus 158 Hfa~ad~~~--~~~~Q~~~F~~~~~~l~-~~~~lanSa~~l~~p~~~~d~vR~Gi~lYG~~p~~~~~~~~~~~LkPvmsl 234 (355)
T PRK03646 158 HFARADHPD--GISEAMARIEQAAEGLE-CERSLSNSAATLWHPQAHSDWVRPGIILYGASPSGQWRDIANTGLRPVMTL 234 (355)
T ss_pred EECCCCCCH--HHHHHHHHHHHHHHCCC-CCEEEECCHHHHCCCCCCCCEEEEEEEEECCCCCCCCCCCCCCCCCEEEEE
T ss_conf 624578806--79999999999972678-665452879997898567974632378356886644444423477220899
Q ss_pred EEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEECCCCCE
Q ss_conf 36886326714898346656534677641797123300260102368543344432328869999999507700425647
Q gi|254780333|r 239 EARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGKITMDMT 318 (370)
Q Consensus 239 ~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGrv~MD~~ 318 (370)
+|+|++||++++|++||||++|++++|++|||+|+||||||||.+|| +++|+|+|++|||+|||||||+
T Consensus 235 ~a~i~~vk~l~~G~~VgYg~t~~a~~~~~ia~vpiGYaDG~~R~~sn-----------~~~V~i~G~~~pivGrI~MD~~ 303 (355)
T PRK03646 235 SSEIIGVQTLPAGERVGYGGRYTARREQRIGIVAAGYADGYPRHAPT-----------GTPVLVDGVRTRTVGTVSMDML 303 (355)
T ss_pred EEEEEEEEECCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCC-----------CCEEEECCEEEEEECEECCCEE
T ss_conf 99999999816899546787524247569999840413563433579-----------9789999999547677645568
Q ss_pred EEECCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCCEEEECCCCCCCCCCC
Q ss_conf 996688778788878999788889989999817946042154888736445
Q gi|254780333|r 319 MFDITDSLSIEVGDYIQIFGPDIKLDDVALASGTTNYDLLVRIGTRYAKFY 369 (370)
Q Consensus 319 ~vdvt~~~~~~~GD~V~l~G~~i~~~~~A~~~gti~yEil~~i~~RvpRiY 369 (370)
|||||+.|++++||+|+|||++++++|+|+++|||+||++|+|++||||||
T Consensus 304 ~vDvt~~~~~~~Gd~V~l~G~~i~~~~~A~~~gTI~yEilt~l~~RvpRvY 354 (355)
T PRK03646 304 AVDLTPCPQAGIGTPVELWGKEIKIDDVAAAAGTIGYELMCALALRVPVVT 354 (355)
T ss_pred EEECCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCHHHHHHCCCCCCCEEE
T ss_conf 998889987899999999899999999999869946678637788888166
No 9
>COG0787 Alr Alanine racemase [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=0 Score=789.57 Aligned_cols=356 Identities=42% Similarity=0.651 Sum_probs=335.3
Q ss_pred CCCEEEEEEHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCC-CCEEE
Q ss_conf 88509998688999999999862899759999932866579899999999879989998559999999983898-52673
Q gi|254780333|r 4 NEFLRLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQ-ARIFV 82 (370)
Q Consensus 4 ~~~~~leIdl~al~~Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~-~~Ilv 82 (370)
.+..++||||+||+||++.++++.+++++||||||||||||+++||+++.++||+.||||+++||++||+.|++ .|||+
T Consensus 2 ~~~~~~~Idl~Al~~N~~~i~~~~~~~~~~AVVKAnAYGhG~~~va~~l~~~g~~~f~VA~l~EAi~LR~~gi~~~~Ilv 81 (360)
T COG0787 2 MRPATAEIDLGALRHNLRALRELAGPAKLMAVVKANAYGHGAVRVAKALLDAGADGFGVASLEEAIELREAGITGAPILV 81 (360)
T ss_pred CCCEEEEEEHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHCCCCCCCEEE
T ss_conf 97779998689999999999974788579999965436778999999999859998998629999999971888997899
Q ss_pred ECCCCHHHH-HHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHH
Q ss_conf 068974698-8887542101348998999988887608877616761266676556988999999888863100012432
Q gi|254780333|r 83 LYGIHPGQE-KIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLII 161 (370)
Q Consensus 83 l~~~~~~~~-~~~~~~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~~~~i~gi~ 161 (370)
|++..+.+. +.+.+++++++|+|.+|++.+.+......++++|||+||||||+||.++|...+.......++..++|+|
T Consensus 82 L~g~~~~~~~~~~~~~~l~~~v~s~~ql~~l~~~~~~~~~l~vhLkiDTGM~RlG~~~~~~~~~~~~~~~~~~~~~~gi~ 161 (360)
T COG0787 82 LEGFFPAEELELAAAYNLTPVVNSLEQLEALKNAALKNKPLKVHLKIDTGMNRLGLRPEEAVALAIDLIALKNLDLEGIF 161 (360)
T ss_pred ECCCCCHHHHHHHHHCCCEEEECCHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEE
T ss_conf 73758835678999869738889999999999755106962799997789875798848999999987632487559997
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHCCCCHHCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCEEEEEEE
Q ss_conf 01243333466788999999999975434886011164110047732220204873530678776755676410012368
Q gi|254780333|r 162 SHLACADDPSSHVNSVQLERFRTLISHYKGIEASLASSSGILLGPNYHFQLTRPGISLYGGTDKINKSHPMQTVVTAEAR 241 (370)
Q Consensus 162 THfa~ad~~~~~~~~~Q~~~F~~~~~~~~~~~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG~~~~~~~~~~l~pv~~l~s~ 241 (370)
|||++||+++.+++..|+++|......+++...|++||++++++|+.|+||||||++|||++|......+|||||+|+|+
T Consensus 162 SHfa~ADe~~~~~~~~Q~~~F~~~~~~~~~~~~h~aNSa~~~~~~~~~~d~vRpGi~lYG~~P~~~~~~~lkpvmtl~a~ 241 (360)
T COG0787 162 SHFACADEPEDPYTLKQLERFNLAKQGLPGELSHLANSAGLLLGPDYHFDMVRPGIALYGLSPSGGLDNGLKPVMTLKAR 241 (360)
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHCCCCCCCCEEECCEEEECCCCCCCCCCCCCCEEEEEEE
T ss_conf 15677888898278999999999864698753788555877068642251464001322688565667785310799998
Q ss_pred EEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEECCCCCEEEE
Q ss_conf 86326714898346656534677641797123300260102368543344432328869999999507700425647996
Q gi|254780333|r 242 IILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGKITMDMTMFD 321 (370)
Q Consensus 242 i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGrv~MD~~~vd 321 (370)
|+++|++++|++||||++|++++||+|||||+||||||||++|| +.+|+|+|+|||++|||||||+|||
T Consensus 242 ii~vr~v~~Ge~VgYG~t~~a~~~t~iavv~iGYaDG~pR~~~~-----------~~~Vli~G~r~pivGrVsMD~~~Vd 310 (360)
T COG0787 242 IIQVRTVPAGETVGYGATFTAERDTRIAVVAIGYADGYPRALSN-----------GTPVLINGKRVPIVGRVSMDMIMVD 310 (360)
T ss_pred EEEEEEECCCCCCCCCCEEECCCCCEEEEEECCCCCCCHHHCCC-----------CCEEEECCEEEEEEEEEECEEEEEE
T ss_conf 88999857999524770798258826899863345774201689-----------9779999998157638842069998
Q ss_pred CCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCCEEEECCCCCCCCCCCC
Q ss_conf 6887787888789997888899899998179460421548887364459
Q gi|254780333|r 322 ITDSLSIEVGDYIQIFGPDIKLDDVALASGTTNYDLLVRIGTRYAKFYT 370 (370)
Q Consensus 322 vt~~~~~~~GD~V~l~G~~i~~~~~A~~~gti~yEil~~i~~RvpRiY~ 370 (370)
||+.+.+++||+|+|||++++++|+|+.+|||+||++|.|+.|+||+|.
T Consensus 311 l~~~~~~~~Gd~V~L~G~~i~~de~A~~~gti~YEll~~l~~Rv~R~Yv 359 (360)
T COG0787 311 LTDLPQVKVGDEVELFGEEITVDEVAEAAGTINYELLTLLGSRVPRVYV 359 (360)
T ss_pred CCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCHHHHHHCCCCCCEEEEC
T ss_conf 8998778999999998999999999988498367674166787337943
No 10
>cd06826 PLPDE_III_AR2 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2. This subfamily is composed of bacterial alanine racemases (EC 5.1.1.1) with similarity to Yersinia pestis and Vibrio cholerae alanine racemase (AR) 2. ARs catalyze the interconversion between L- and D-alanine, an essential component of the peptidoglycan layer of bacterial cell walls. These proteins are similar to other bacterial ARs and are fold type III PLP-dependent enzymes containing contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.
Probab=100.00 E-value=0 Score=769.52 Aligned_cols=349 Identities=27% Similarity=0.395 Sum_probs=315.3
Q ss_pred EEEEEEHHHHHHHHHHHHHHC-CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECC
Q ss_conf 099986889999999998628-9975999993286657989999999987998999855999999998389852673068
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNALS-GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYG 85 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~~-~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~ 85 (370)
+|+|||++||+||++.+|++. +++++||||||||||||+.++++++.++||++|||++++||++||++|++.|||+|++
T Consensus 2 ~wleIdl~al~~N~~~ir~~~~~~~ki~aVVKAnAYGhG~~~va~~l~~~gv~~faVa~~~EA~~LR~~g~~~~Il~l~~ 81 (365)
T cd06826 2 AWLEISTGAFENNIKLLKKLLGGNTKLCAVMKADAYGHGIALVMPSIIAQNIPCVGITSNEEARVVREAGFTGKILRVRT 81 (365)
T ss_pred CEEEEEHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHCCCCCCEEEECC
T ss_conf 45998099999999999963899997999995620228789999999987999999687999999996599998799868
Q ss_pred CCHHHHHHHHHHHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECC-CCCCCCCCHHHHH--HHHHHHHHHHCCCHHHHH
Q ss_conf 9746988887542101348998999988887-60887761676126-6676556988999--999888863100012432
Q gi|254780333|r 86 IHPGQEKIIFDTNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDT-GFNRLGLSLQEAL--DFTHNSFNKKLGQLSLII 161 (370)
Q Consensus 86 ~~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDT-GM~R~G~~~~e~~--~~~~~~~~~~~~~i~gi~ 161 (370)
+.|++++.+.+++++++++|.++++.+.++. +.+.+.++|||+|| ||||+||.+++.. ....++...++++++|+|
T Consensus 82 ~~~~e~~~~~~~~l~~~i~s~~~~~~l~~~~~~~~~~~~vhlkiDT~GM~RlG~~~~~~~~~~~~~~~~~~~~l~i~Gi~ 161 (365)
T cd06826 82 ATPSEIEDALAYNIEELIGSLDQAEQIDSLAKRHGKTLPVHLALNSGGMSRNGLELSTAQGKEDAVAIATLPNLKIVGIM 161 (365)
T ss_pred CCHHHHHHHHHCCCCCEECCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEE
T ss_conf 89799999997068609981999999999998709983389997269977578673407899999999738998579998
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHH---H--CCCCHHHCCCCHHCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCEE
Q ss_conf 012433334667889999999999754---3--48860111641100477322202048735306787767556764100
Q gi|254780333|r 162 SHLACADDPSSHVNSVQLERFRTLISH---Y--KGIEASLASSSGILLGPNYHFQLTRPGISLYGGTDKINKSHPMQTVV 236 (370)
Q Consensus 162 THfa~ad~~~~~~~~~Q~~~F~~~~~~---~--~~~~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG~~~~~~~~~~l~pv~ 236 (370)
||||++|+.+...+..|+++|...+.. + +++..|++||++++++|+.++||||||++|||+.|. ..+|||||
T Consensus 162 SH~a~ad~~~~~~~~~~f~~~~~~l~~~~~~~~~~~~~H~anS~~~l~~~~~~~d~vR~Gi~lYG~~p~---~~~lkpv~ 238 (365)
T cd06826 162 THFPVEDEDDVRAKLARFNEDTAWLISNAKLKREKITLHAANSFATLNVPEAHLDMVRPGGILYGDTPP---SPEYKRIM 238 (365)
T ss_pred EECCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCCHHHHCCCCCCCCCCCCCEEEECCCCC---CCCCCCEE
T ss_conf 334788987409999999999999998626777756188614367655941147845578463786977---77778349
Q ss_pred EEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEECCCC
Q ss_conf 12368863267148983466565346776417971233002601023685433444323288699999995077004256
Q gi|254780333|r 237 TAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGKITMD 316 (370)
Q Consensus 237 ~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGrv~MD 316 (370)
+|+|+|+++|++|+|++||||++|++++|++|||||+||||||||++|| +++|+|+|++|||+||||||
T Consensus 239 sl~s~I~~ir~l~~Ge~VGYg~~~~a~~~~~ia~v~iGYaDG~~r~~sn-----------~~~V~i~G~~~pivGrV~MD 307 (365)
T cd06826 239 SFKSRVASLNTYPKGSTVGYDRTFTLTRDSLLANIPVGYSDGYRRSFSN-----------KAHVLINGQRVPVVGKVSMN 307 (365)
T ss_pred EEEEEEEEEEECCCCCCCCCCCEEECCCCEEEEEECCCCCCCCCCCCCC-----------CCEEEECCEEEEEECEEECC
T ss_conf 9999996647838999766686254389828999704332575500279-----------96899999993571777222
Q ss_pred CEEEECCCCCCCCCCCEEEEECC----CCCHHHHHHHHCCCCEEEECCCCCCCCCCC
Q ss_conf 47996688778788878999788----889989999817946042154888736445
Q gi|254780333|r 317 MTMFDITDSLSIEVGDYIQIFGP----DIKLDDVALASGTTNYDLLVRIGTRYAKFY 369 (370)
Q Consensus 317 ~~~vdvt~~~~~~~GD~V~l~G~----~i~~~~~A~~~gti~yEil~~i~~RvpRiY 369 (370)
|+|||||+.+++++||+|+|||. +++++|+|+++|||+||+||+|++|+||+|
T Consensus 308 ~~~vDvt~~~~v~~Gd~v~l~G~~~~~~i~~~~~A~~~~TI~yEllt~l~~RvpRvY 364 (365)
T cd06826 308 TVMVDVTDIPGVKAGDEVVLFGKQGGAEITAAEIEEGSGTILAELYTLWGQTNPRVY 364 (365)
T ss_pred EEEEECCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHCCCHHHHHHCCCCCCCCEE
T ss_conf 689956788789999999997479988879999999859945258518788889254
No 11
>cd06815 PLPDE_III_AR_like_1 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1. This subfamily is composed of uncharacterized bacterial proteins with similarity to bacterial alanine racemases (AR), which are fold type III PLP-dependent enzymes containing an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. It catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. Members of this subfamily may act as PLP-dependent enzymes.
Probab=100.00 E-value=0 Score=392.28 Aligned_cols=311 Identities=26% Similarity=0.253 Sum_probs=256.6
Q ss_pred CEEEEEEHHHHHHHHHHHHHHCC--CCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEE
Q ss_conf 50999868899999999986289--9759999932866579899999999879989998559999999983898526730
Q gi|254780333|r 6 FLRLKIDLTALKNNWHSMNALSG--NARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVL 83 (370)
Q Consensus 6 ~~~leIdl~al~~Ni~~i~~~~~--~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl 83 (370)
+||+||||++|+||++.++++++ +.++++|||||| |..++|+++.++|+++||||+++||.+||++|++.||++|
T Consensus 1 ~PrleIdL~~l~~N~~~l~~~~~~~gi~~~~VvKa~a---G~~~iA~~l~~~G~~~lavari~e~~~LR~~Gi~~pillL 77 (353)
T cd06815 1 YPRLEINLSKIRHNAKVLVELCKSRGIEVTGVTKVVC---GDPEIAEALLEGGITHLADSRIENLKKLKDLGISGPKMLL 77 (353)
T ss_pred CCEEEEEHHHHHHHHHHHHHHHHHCCCEEEEEECCCC---CCHHHHHHHHHCCCCEEEEECHHHHHHHHHCCCCCCEEEE
T ss_conf 9769983999999999999976054988999984468---9599999999879999997028999999975999978997
Q ss_pred CCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHC
Q ss_conf 689746988887542101348998999988887-6088776167612666765569889999998888631000124320
Q gi|254780333|r 84 YGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLIIS 162 (370)
Q Consensus 84 ~~~~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~~~~i~gi~T 162 (370)
+++.+++++.++++..++++++.+.++++++.+ +.++.++|||||||||+|.|+.++|+.++++++..+++++++||||
T Consensus 78 ~~p~~se~~~vv~~~dis~~se~~~i~aLs~~A~~~gk~~~V~l~VDtGm~R~Gv~ped~~~~~~~I~~lp~i~l~GI~T 157 (353)
T cd06815 78 RIPMLSEVEDVVKYADISLNSELETIKALSEEAKKQGKIHKIILMVDLGDLREGVLPEDLLDFVEEILKLPGIELVGIGT 157 (353)
T ss_pred CCCCHHHHHHHHHHCEEEECCCHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCCCCHHHHHHHHHHHHCCCCCEEEEEEE
T ss_conf 26888899999873304202879999999999998698478999996899957889899999999986599959999888
Q ss_pred CCCCCCCCCC-HHHHHHHHHHHHHHHHHCCC---CHHHCCCCHHCCCCCC----CCHHHCCC-CCCCCCCCCCCCCCC--
Q ss_conf 1243333466-78899999999997543488---6011164110047732----22020487-353067877675567--
Q gi|254780333|r 163 HLACADDPSS-HVNSVQLERFRTLISHYKGI---EASLASSSGILLGPNY----HFQLTRPG-ISLYGGTDKINKSHP-- 231 (370)
Q Consensus 163 Hfa~ad~~~~-~~~~~Q~~~F~~~~~~~~~~---~~h~~nS~~~l~~p~~----~~d~vR~G-i~lYG~~~~~~~~~~-- 231 (370)
||+|.+.... ..+..|+.+|.+.++.--+. .+|..||+++-+.... .-|..|+| ..+||..+..+...+
T Consensus 158 hfaC~~gv~pt~~~~~~l~~~~~~ie~~~g~~l~~iSgGnS~~l~~~~~~~~~~~IN~lRiGe~i~~G~~~~~~~~i~~l 237 (353)
T cd06815 158 NLGCYGGVLPTEENMGKLVELKEEIEKEFGIKLPIISGGNSASLPLLLKGELPGGINQLRIGEAILLGRETTYNEPIPGL 237 (353)
T ss_pred CHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCC
T ss_conf 76357888999999999999999999984998766970537768988558985432103333158961257777643000
Q ss_pred CCCEEEEEEEEEEEEE---ECCCC----CCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECC
Q ss_conf 6410012368863267---14898----3466565346776417971233002601023685433444323288699999
Q gi|254780333|r 232 MQTVVTAEARIILIRK---ALAGE----LVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKG 304 (370)
Q Consensus 232 l~pv~~l~s~i~~ir~---l~~G~----~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G 304 (370)
.+.+++|+|.|+.+|+ +|.|+ ..|+-..|..+..++-|++++||.|+.++.++..+ +|
T Consensus 238 ~~d~~~L~aeViEik~kps~p~g~~g~~afG~~~~f~d~g~~~rAIl~iG~~D~~~~~l~p~~---------------~~ 302 (353)
T cd06815 238 YQDAFTLEAEIIEIKEKPSVPIGEIGLDAFGNKPEFEDRGIRKRAILAIGRQDVDPDGLTPVD---------------NG 302 (353)
T ss_pred CCCCEEEEEEEEEEECCCCCCCCCCCCCCCCCCCEECCCCCEEEEEEECCCCCCCHHHCEECC---------------CC
T ss_conf 464189999999950467778763122577875224268841799997665557775634779---------------98
Q ss_pred EEEEEEEECCCCCEEEECCCCC-CCCCCCEEEEE
Q ss_conf 9950770042564799668877-87888789997
Q gi|254780333|r 305 YMVPILGKITMDMTMFDITDSL-SIEVGDYIQIF 337 (370)
Q Consensus 305 ~~~pivGrv~MD~~~vdvt~~~-~~~~GD~V~l~ 337 (370)
..|+|. ||||+|||+|+.. +.++||+|++-
T Consensus 303 --i~IlGa-sSDhlivDit~~~~~~kvGD~i~F~ 333 (353)
T cd06815 303 --IEILGA-SSDHLILDITDSDRDYKVGDEIRFN 333 (353)
T ss_pred --EEEEEC-CCCEEEEECCCCCCCCCCCCEEEEE
T ss_conf --099822-5754899776776888889889996
No 12
>pfam01168 Ala_racemase_N Alanine racemase, N-terminal domain.
Probab=100.00 E-value=0 Score=346.76 Aligned_cols=211 Identities=36% Similarity=0.521 Sum_probs=192.4
Q ss_pred EEHHHHHHHHHHHHHHCC-CCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCCCHH
Q ss_conf 868899999999986289-9759999932866579899999999879989998559999999983898526730689746
Q gi|254780333|r 11 IDLTALKNNWHSMNALSG-NARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGIHPG 89 (370)
Q Consensus 11 Idl~al~~Ni~~i~~~~~-~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~~~~ 89 (370)
||++++++|++.++++++ +++++||+|+||||||+.++++.+. .|+++|||++++||.+||+.|++.+|++|+++.++
T Consensus 1 Idl~~l~~Ni~~i~~~~~~~~~l~aVvK~nayG~g~~~i~~~~~-~g~~~f~v~~~~Ea~~lr~~~~~~~Il~l~~~~~~ 79 (216)
T pfam01168 1 IDLDALRHNIRALRERAGRPVKLMAVVKANAYGHGAVRVARALA-AGADGFGVATLQEALELREAGITAPILVLGFFPPE 79 (216)
T ss_pred CCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHHHHHHHH-HCCCCEEEEEHHHHHHHHHHCCCCCEEEECCCCHH
T ss_conf 97799999999999856999989999777777866999999998-08985598009999999981898707773689969
Q ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHCCCCCCC
Q ss_conf 988887542101348998999988887-6088776167612666765569889999998888631000124320124333
Q gi|254780333|r 90 QEKIIFDTNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLIISHLACAD 168 (370)
Q Consensus 90 ~~~~~~~~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~~~~i~gi~THfa~ad 168 (370)
++..+.+++++++|+|.++++.+.+.. +.+.++++||||||||+|.||.++|+.++++.+. ++++++.|+||||+++|
T Consensus 80 ~~~~~~~~~~~~~v~s~~~l~~l~~~~~~~~~~~~v~l~vdtGm~R~G~~~~~~~~~~~~i~-~~~l~~~Gi~tH~~~~d 158 (216)
T pfam01168 80 ELALAAEYDLIPTVDSLEQAEALSAAAAKLGRPLRVHLKVDTGMGRLGFTPEELPALAEALA-LPGLRLEGLMTHFACAD 158 (216)
T ss_pred HHHHHHHCCCEEEECCHHHHHHHHHHHHHCCCCEEEEEEEEECCCCCCCCHHHHHHHHHHHH-CCCCCEEEEEEECCCCC
T ss_conf 99999985978997889999999999998599808999997478768879999999999985-59996789995058878
Q ss_pred CCCCHHHHHHHHHHHHHHHHHC--CCCHHHCCCCHHCCCCC-CCCHHHCCCCCCCCCCC
Q ss_conf 3466788999999999975434--88601116411004773-22202048735306787
Q gi|254780333|r 169 DPSSHVNSVQLERFRTLISHYK--GIEASLASSSGILLGPN-YHFQLTRPGISLYGGTD 224 (370)
Q Consensus 169 ~~~~~~~~~Q~~~F~~~~~~~~--~~~~h~~nS~~~l~~p~-~~~d~vR~Gi~lYG~~~ 224 (370)
+++ .++..|+++|.++.+.++ +...|++||++++.++. ..+|+||||++|||++|
T Consensus 159 ~~~-~~~~~q~~~f~~~~~~l~~~~~~~s~~nS~~~~~~~~~~~~~~vR~G~~lyG~~p 216 (216)
T pfam01168 159 EPD-ATNRAQLARFRELADALEAAGPVLSLGNSAALLLAPLHEGFDMVRPGIALYGARP 216 (216)
T ss_pred CCC-HHHHHHHHHHHHHHHHHHCCCCEEEHHCCHHHHHHHHHCCCCEEEECHHHCCCCC
T ss_conf 975-8999999999999998656899985116188985375648997830721118798
No 13
>pfam00842 Ala_racemase_C Alanine racemase, C-terminal domain.
Probab=100.00 E-value=0 Score=319.60 Aligned_cols=125 Identities=46% Similarity=0.797 Sum_probs=122.0
Q ss_pred EEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEECC
Q ss_conf 00123688632671489834665653467764179712330026010236854334443232886999999950770042
Q gi|254780333|r 235 VVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGKIT 314 (370)
Q Consensus 235 v~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGrv~ 314 (370)
||+|+|+|+++|++++|++||||++|++++|++||++|+||||||||.+|| +++|+|+|++||++||||
T Consensus 1 Vmsl~s~ii~ir~l~~G~~VgYg~~~~a~~~~~ia~v~iGYaDG~~r~~~~-----------~~~v~i~g~~~pivGrIs 69 (125)
T pfam00842 1 VMSLKARVLQVRTLPAGEGVGYGGTFTAERDTRIATVPIGYADGYPRALSN-----------RGYVLINGKRAPIVGRVS 69 (125)
T ss_pred CEEEEEEEEEEEECCCCCCCCCCCEEECCCCCEEEEEECCCCCCCCCCCCC-----------CCEEEECCEEEEEECEEC
T ss_conf 989999996889869959734699778799819999942233573520679-----------858998999930107261
Q ss_pred CCCEEEECCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCCEEEECCCCCCCCCCCC
Q ss_conf 56479966887787888789997888899899998179460421548887364459
Q gi|254780333|r 315 MDMTMFDITDSLSIEVGDYIQIFGPDIKLDDVALASGTTNYDLLVRIGTRYAKFYT 370 (370)
Q Consensus 315 MD~~~vdvt~~~~~~~GD~V~l~G~~i~~~~~A~~~gti~yEil~~i~~RvpRiY~ 370 (370)
|||+|||+|+.+++++||+|+|||++++++++|+++|||+||++|+|++|+||+|-
T Consensus 70 MD~~~idv~~~~~~~~Gd~V~l~G~~~~~~~~A~~~~ti~yEilt~l~~Rv~R~yi 125 (125)
T pfam00842 70 MDQTMVDVTDIPDVKVGDEVTLFGPQITADEVAEAAGTIPYELLTRLGPRVPRIYV 125 (125)
T ss_pred CCEEEEECCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCHHHHHHCCCCCCCEEEC
T ss_conf 22589955688777789899998999998999998789526886486788863869
No 14
>cd06808 PLPDE_III Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes. The fold type III PLP-dependent enzyme family is predominantly composed of two-domain proteins with similarity to bacterial alanine racemases (AR) including eukaryotic ornithine decarboxylases (ODC), prokaryotic diaminopimelate decarboxylases (DapDC), biosynthetic arginine decarboxylases (ADC), carboxynorspermidine decarboxylases (CANSDC), and similar proteins. AR-like proteins contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. These proteins play important roles in the biosynthesis of amino acids and polyamine. The family also includes the single-domain YBL036c-like proteins, which contain a single PLP-binding TIM-barrel domain without any N- or C-terminal extensions. Due to the lack of a second domain, these p
Probab=100.00 E-value=3.2e-32 Score=228.13 Aligned_cols=196 Identities=23% Similarity=0.269 Sum_probs=165.7
Q ss_pred HHHHHHHHHHHCC-CCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCC-CEEEECCC-CHHHHH
Q ss_conf 9999999986289-97599999328665798999999998799899985599999999838985-26730689-746988
Q gi|254780333|r 16 LKNNWHSMNALSG-NARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQA-RIFVLYGI-HPGQEK 92 (370)
Q Consensus 16 l~~Ni~~i~~~~~-~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~-~Ilvl~~~-~~~~~~ 92 (370)
|++|++.+|+..+ ++++++|||||+|+| +++.+.+.| ++|+|++++|+..+|++|++. +|+..++. .+++++
T Consensus 1 ir~N~~~lk~~l~~~~~i~~avKAn~~~~----v~~~l~~~g-~g~~vas~~E~~~~~~~G~~~~~Il~~g~~~~~~~~~ 75 (211)
T cd06808 1 IRHNYRRLREAAPAGITLFAVVKANANPE----VARTLAALG-TGFDVASLGEALLLRAAGIPPEPILFLGPCKQVSELE 75 (211)
T ss_pred CHHHHHHHHHHCCCCCEEEEEEECCCCHH----HHHHHHHHC-CCEEEEEHHHHHHHHHCCCCHHHHCCCCCCCCHHHHH
T ss_conf 97999999986899988999983088299----999999738-9078960999999997599755610156647668999
Q ss_pred HHHHHHHH-CCCCCHHHHHHHHHHH-HCCCCCCCEEEECCC--CCCCCCCHHHHHHHHHHHHHHHCCCHHHHHCCCCCCC
Q ss_conf 88754210-1348998999988887-608877616761266--6765569889999998888631000124320124333
Q gi|254780333|r 93 IIFDTNLI-PVISSVPQLTFYSKLM-SCGVSHPYALQVDTG--FNRLGLSLQEALDFTHNSFNKKLGQLSLIISHLACAD 168 (370)
Q Consensus 93 ~~~~~~i~-~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTG--M~R~G~~~~e~~~~~~~~~~~~~~~i~gi~THfa~ad 168 (370)
.+.++++. .++.|.++++.++++. +.+++.++||++||| |+|+|++++|+.++++.+...+++++.|++|||++++
T Consensus 76 ~a~~~~~~~~~vds~~~l~~l~~~a~~~~~~~~v~lrintg~~~~rfG~~~~e~~~~~~~~~~~~~l~l~Gi~~H~gs~~ 155 (211)
T cd06808 76 DAAEQGVIVVTVDSLEELEKLEEAALKAGPPARVLLRIDTGDENGKFGVRPEELKALLERAKELPHLRLVGLHTHFGSAD 155 (211)
T ss_pred HHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEECCC
T ss_conf 99996122401067788877899888538885147767227776777889999999999999689866611466543443
Q ss_pred CCCCHHHHHHHHHHHHHHHHHC--CC---CHHHCCCCHHCCC---CCCCCHHHCCCC
Q ss_conf 3466788999999999975434--88---6011164110047---732220204873
Q gi|254780333|r 169 DPSSHVNSVQLERFRTLISHYK--GI---EASLASSSGILLG---PNYHFQLTRPGI 217 (370)
Q Consensus 169 ~~~~~~~~~Q~~~F~~~~~~~~--~~---~~h~~nS~~~l~~---p~~~~d~vR~Gi 217 (370)
+ +......|+++|.++.+.++ ++ ..|+.||.++..+ |..++||||||.
T Consensus 156 ~-~~~~~~~~~~~~~~~~~~l~~~g~~~~~i~iGgg~gv~y~~e~p~~~~~~vrpG~ 211 (211)
T cd06808 156 E-DYSPFVEALSRFVAALDQLGELGIDLEQLSIGGSFAILYLQELPLGTFIIVEPGR 211 (211)
T ss_pred C-CHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCCCCCHHHEEEECCCC
T ss_conf 8-9899999999999999999975969798996998243789889826704634799
No 15
>cd06820 PLPDE_III_LS_D-TA_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like. This subfamily is composed of uncharacterized bacterial proteins with similarity to low specificity D-threonine aldolase (D-TA), which is a fold type III PLP-dependent enzyme that catalyzes the interconversion between D-threonine/D-allo-threonine and glycine plus acetaldehyde. Both PLP and divalent cations (eg. Mn2+) are required for catalytic activity. Low specificity D-TAs show similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on its similarity to AR, it is possible that low specificity D-TAs also form dimers in solution. Experimental data show that the monomeric form of low specificity D-TAs exh
Probab=99.94 E-value=1.4e-23 Score=172.23 Aligned_cols=300 Identities=19% Similarity=0.190 Sum_probs=196.4
Q ss_pred CEEEEEEHHHHHHHHHHHHHHC--CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEE
Q ss_conf 5099986889999999998628--99759999932866579899999999879989998559999999983898526730
Q gi|254780333|r 6 FLRLKIDLTALKNNWHSMNALS--GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVL 83 (370)
Q Consensus 6 ~~~leIdl~al~~Ni~~i~~~~--~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl 83 (370)
=|-+.||++++++|++.+++.+ .+.++-|.+|. |++.++++.+.++|+..|.|+++.||..+++.|++ .||+-
T Consensus 3 TP~l~vd~~~l~~Ni~~m~~~~~~~gv~lrPH~KT----hk~~e~~~~ql~~Ga~g~~vatl~EAe~l~~~G~~-dilla 77 (353)
T cd06820 3 TPALLIDLDRLERNIARMQAYADAHGLSLRPHIKT----HKSPEIARLQLAAGAIGITVATVGEAEVMADAGLS-DIFIA 77 (353)
T ss_pred CCEEEEEHHHHHHHHHHHHHHHHHCCCCEEEEEHH----HCCHHHHHHHHHCCCCEEEEEEHHHHHHHHHCCCC-CEEEE
T ss_conf 97799729999999999999898769947788513----14799999998679974999729999999976997-66884
Q ss_pred CCC-CHHHHHHHH----HHHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCCCCCCCCC-HHHHHHHHHHHHHHHCCC
Q ss_conf 689-746988887----542101348998999988887-6088776167612666765569-889999998888631000
Q gi|254780333|r 84 YGI-HPGQEKIIF----DTNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTGFNRLGLS-LQEALDFTHNSFNKKLGQ 156 (370)
Q Consensus 84 ~~~-~~~~~~~~~----~~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTGM~R~G~~-~~e~~~~~~~~~~~~~~~ 156 (370)
.++ .+..+..+. +..+...+.|.++++.++++. ..+.+..|+|+||+||||.|+. .+++.++++.+...++++
T Consensus 78 ~p~v~~~~~~~l~~l~~~~~i~~~vD~~~~~~~l~~~~~~~~~~~~V~ieid~G~~R~Gv~~~~~~~~l~~~i~~~~~l~ 157 (353)
T cd06820 78 YPIVGRQKLERLRALAERVTLSVGVDSAEVARGLAEVAEGAGRPLEVLVEVDSGMNRCGVQTPEDAVALARAIASAPGLR 157 (353)
T ss_pred CCCCCHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHCCCCE
T ss_conf 36689899999997430498899965799999999999767994289999688888688898699999999998589976
Q ss_pred HHHHHCCCCCC---CCCCCHHHHHHHHHHHHHHHHHC--CCC---HHHCCCCHHCCCC-CCCCHHHCCCCCCCCCC--CC
Q ss_conf 12432012433---33466788999999999975434--886---0111641100477-32220204873530678--77
Q gi|254780333|r 157 LSLIISHLACA---DDPSSHVNSVQLERFRTLISHYK--GIE---ASLASSSGILLGP-NYHFQLTRPGISLYGGT--DK 225 (370)
Q Consensus 157 i~gi~THfa~a---d~~~~~~~~~Q~~~F~~~~~~~~--~~~---~h~~nS~~~l~~p-~~~~d~vR~Gi~lYG~~--~~ 225 (370)
+.|+|+|-... ++..+.... ..+........++ +.. .+...|+...... ....+-+|||..+|-.. ..
T Consensus 158 l~Gv~~y~Gh~~~~~~~~~~~~~-~~~~~~~~~~~l~~~g~~~~~vs~GgT~t~~~~~~~~~~tEl~~G~yvf~D~~~~~ 236 (353)
T cd06820 158 FRGIFTYPGHSYAPGALEEAAAD-EAEALLAAAGILEEAGLEPPVVSGGSTPTLWRSHEVPGITEIRPGTYIFNDASQVA 236 (353)
T ss_pred EEEEEECCCCCCCCHHHHHHHHH-HHHHHHHHHHHHHHCCCCCCEEEECCCCCEEEHHCCCCCCEECCCEEEECCHHHHC
T ss_conf 88999548766783469999999-99999999999884699988898569975460001676516614317951567740
Q ss_pred CCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECC-
Q ss_conf 6755676410012368863267148983466565346776417971233002601023685433444323288699999-
Q gi|254780333|r 226 INKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKG- 304 (370)
Q Consensus 226 ~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G- 304 (370)
.....+.++++++-++|+... .+|..+=..+..-...|. |.|.. ++..+.+
T Consensus 237 ~~~~~~~~~Al~vl~~ViS~p--~~~~~~vd~G~k~ls~d~-----------~~~~~---------------g~g~~~~~ 288 (353)
T cd06820 237 LGACTLDDCALTVLATVVSRP--TAERAVLDAGSKALTSDR-----------GTGTT---------------GYGHLLEY 288 (353)
T ss_pred CCCCCHHHCEEEEEEEEEEEC--CCCCEEEECCCHHHCCCC-----------CCCCC---------------CCCCCCCC
T ss_conf 476883123257888899406--998089905644432567-----------88976---------------77521389
Q ss_pred EEEEEEEECCCCCEEEECCC-CCCCCCCCEEEEECCC
Q ss_conf 99507700425647996688-7787888789997888
Q gi|254780333|r 305 YMVPILGKITMDMTMFDITD-SLSIEVGDYIQIFGPD 340 (370)
Q Consensus 305 ~~~pivGrv~MD~~~vdvt~-~~~~~~GD~V~l~G~~ 340 (370)
....+. +++=.|.++++++ ....++||.|.++=.+
T Consensus 289 ~~~~~~-~~s~EHg~l~~~~~~~~l~vGd~v~~~P~H 324 (353)
T cd06820 289 PDARIV-GLSEEHGVIDLSGCDALPRVGDRVRVVPNH 324 (353)
T ss_pred CCCEEE-EECCCCEEEECCCCCCCCCCCCEEEEEECC
T ss_conf 987794-000774088788877899999999999388
No 16
>COG3457 Predicted amino acid racemase [Amino acid transport and metabolism]
Probab=99.93 E-value=7.3e-24 Score=174.10 Aligned_cols=311 Identities=22% Similarity=0.194 Sum_probs=236.1
Q ss_pred CCEEEEEEHHHHHHHHHHHHHHC--CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEE
Q ss_conf 85099986889999999998628--9975999993286657989999999987998999855999999998389852673
Q gi|254780333|r 5 EFLRLKIDLTALKNNWHSMNALS--GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFV 82 (370)
Q Consensus 5 ~~~~leIdl~al~~Ni~~i~~~~--~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilv 82 (370)
+++.++||++.++.|.+.+++.+ .+.++++|.|.=+ |...+|+++...|+...+-+.++|++++|+.|++.|+.+
T Consensus 2 ~~p~l~Idl~~ieeNak~~~~~a~~~gI~~~~vtK~~~---g~~~iae~l~~~Gi~~iaesr~~n~~~lr~~g~~~~~~L 78 (353)
T COG3457 2 RNPGLIIDLDKIEENAKVLQETAARYGIELYGVTKQFG---GDPFIAEALLALGIEGIAESRIDNAIRLREAGCTIPGHL 78 (353)
T ss_pred CCCCEEEEHHHHHHHHHHHHHHHHHCCCEEEEEEEECC---CCHHHHHHHHHCCCCEEEEHHHHHHHHHHHCCCCCCCEE
T ss_conf 78717876899887689999999873977999875205---881899999965854343022788999997599967547
Q ss_pred ECCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCCCCCCCCCH---HHHHHHHHHHHHHHCCCHH
Q ss_conf 0689746988887542101348998999988887-60887761676126667655698---8999999888863100012
Q gi|254780333|r 83 LYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTGFNRLGLSL---QEALDFTHNSFNKKLGQLS 158 (370)
Q Consensus 83 l~~~~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTGM~R~G~~~---~e~~~~~~~~~~~~~~~i~ 158 (370)
+..+.-++.+..+++--..++++.+.+..+++++ ..|+.++|-|+||-|--|-|... ++.++.++++..++++++.
T Consensus 79 lr~P~~sei~~vv~~~Dvs~~sel~~arqlse~A~~~Gk~h~VlLmVd~~DlreG~~~~~~~~l~~~V~eI~~lkGi~~v 158 (353)
T COG3457 79 LRSPCMSEIEDVVRKVDVSTVSELDTARQLSEAAVRMGKVHDVLLMVDYGDLREGQWGFLIEDLEETVEEIQQLKGIHLV 158 (353)
T ss_pred EECCCHHHHHHHHHHCCEEEEECHHHHHHHHHHHHHHCCCEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEE
T ss_conf 62652889999987357689725899999999999827521699999835666740244788889999999669983598
Q ss_pred HHHCCCCCCCC-CCCHHHHHHHHHHHHHHHHHCCCCH---HHCCCCHHCCCC---CCCCHHHCCCCCCCCC-CCCCCC-C
Q ss_conf 43201243333-4667889999999999754348860---111641100477---3222020487353067-877675-5
Q gi|254780333|r 159 LIISHLACADD-PSSHVNSVQLERFRTLISHYKGIEA---SLASSSGILLGP---NYHFQLTRPGISLYGG-TDKINK-S 229 (370)
Q Consensus 159 gi~THfa~ad~-~~~~~~~~Q~~~F~~~~~~~~~~~~---h~~nS~~~l~~p---~~~~d~vR~Gi~lYG~-~~~~~~-~ 229 (370)
|+-|||.|-.+ .-.+.+-.++-++.+.++...|+.. +..||.+.-..| ....+-.|||-+|.|. .|.... +
T Consensus 159 GlgTnF~Cfg~v~PTp~n~~~ll~~~~~lE~~~Gi~l~~vsagnats~~~L~~~~~~~inhlriG~al~~g~~~~n~~~~ 238 (353)
T COG3457 159 GLGTNFPCFGDVLPTPENLESLLQGKKKLEASSGIQLKQVSAGNATSLTLLPMGSLPGINHLRIGEALTGGVTPTNQYID 238 (353)
T ss_pred EEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCEEEEECCCCCCCHHHHHCCCCCCCCCCCCCCEEECCCCCCHHCCC
T ss_conf 63116654567678840489999999998773295058812798620332014552255554445214536102011023
Q ss_pred CCCCCEEEEEEEEEEEEE---ECCCCCCCCCCCCCCCC--CCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECC
Q ss_conf 676410012368863267---14898346656534677--6417971233002601023685433444323288699999
Q gi|254780333|r 230 HPMQTVVTAEARIILIRK---ALAGELVSYGGQKKLTR--DSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKG 304 (370)
Q Consensus 230 ~~l~pv~~l~s~i~~ir~---l~~G~~VgYg~~~~~~~--~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G 304 (370)
.+-+++|.|.|.|+.++. +|-|++ |++.-.... .-+=|...+|+.|=-.+++++-+.
T Consensus 239 ~~e~da~~lesEIie~k~k~s~~ige~--f~~~~~f~d~g~~~rAi~aig~~dv~~~~~spiD~---------------- 300 (353)
T COG3457 239 WLEQDAMLLESEIIEVKDKPSYPIGEG--FYRRSGFVDAGIRLRAIAAIGEQDVDVVNLSPIDY---------------- 300 (353)
T ss_pred CCCCCHHHHHHHHHHCCCCCCEEECCC--CCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCHHH----------------
T ss_conf 003522101124552157886120542--13566654420347887776552477678862766----------------
Q ss_pred EEEEEEEECCCCCEEEECCCCCCCCCCCEEEEEC
Q ss_conf 9950770042564799668877878887899978
Q gi|254780333|r 305 YMVPILGKITMDMTMFDITDSLSIEVGDYIQIFG 338 (370)
Q Consensus 305 ~~~pivGrv~MD~~~vdvt~~~~~~~GD~V~l~G 338 (370)
-.+++|. +-|++++|+.+.-.+++||.|-+=+
T Consensus 301 -~i~ilga-sSDhvvld~~~q~~v~vgDvv~fr~ 332 (353)
T COG3457 301 -GIDILGA-SSDHVVLDFRDQIFVTVGDVVRFRL 332 (353)
T ss_pred -HHHHHCC-CCCCEEEEECCCCCCEEEEEEEEEE
T ss_conf -5445324-6771899960564322402899984
No 17
>cd06821 PLPDE_III_D-TA Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase. D-threonine aldolase (D-TA, EC 4.3.1.18) reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. Its activity is present in several genera of bacteria but not in fungi. It requires PLP and a divalent cation such as Co2+, Ni2+, Mn2+, or Mg2+ as cofactors for catalytic activity and thermal stability. Members of this subfamily show similarity to bacterial alanine racemase (AR), a fold type III PLP-dependent enzyme which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on its similarity to AR, it is possible that low specificity D-TAs also form dimers in solution. Experimental data show that
Probab=99.93 E-value=2.6e-22 Score=164.10 Aligned_cols=303 Identities=15% Similarity=0.155 Sum_probs=200.2
Q ss_pred CCEEEEEEHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEE
Q ss_conf 8509998688999999999862899-759999932866579899999999879989998559999999983898526730
Q gi|254780333|r 5 EFLRLKIDLTALKNNWHSMNALSGN-ARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVL 83 (370)
Q Consensus 5 ~~~~leIdl~al~~Ni~~i~~~~~~-~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl 83 (370)
+-|.+.||++++++|++.+++++.. .++.|.+|. |...++++...++|+..+.|+++.||..+.+.|++ +||+-
T Consensus 8 ~TPalvvD~~~l~~Ni~~m~~~~~~~~~lRPH~KT----hKs~~ia~~Ql~~Ga~gi~vatl~EAe~~a~~G~~-dIlia 82 (361)
T cd06821 8 ISPALAVYPDRIEENIRRMIRMAGDPQRLRPHVKT----HKMAEIVRLQLEAGITKFKCATIAEAEMLAEAGAP-DVLLA 82 (361)
T ss_pred CCCEEEEEHHHHHHHHHHHHHHHCCCCCEEEEEEC----CCCHHHHHHHHHCCCCCEEECCHHHHHHHHHCCCC-CEEEE
T ss_conf 99739971999999999999962316877789641----17999999999779983796279999999975997-58997
Q ss_pred CCCCHHHHHHHHH-------HHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCCCCCCCCCH-HHHHHHHHHHHHHHC
Q ss_conf 6897469888875-------42101348998999988887-60887761676126667655698-899999988886310
Q gi|254780333|r 84 YGIHPGQEKIIFD-------TNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTGFNRLGLSL-QEALDFTHNSFNKKL 154 (370)
Q Consensus 84 ~~~~~~~~~~~~~-------~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTGM~R~G~~~-~e~~~~~~~~~~~~~ 154 (370)
.++.......+.+ ..+...|.|.++++.++++. +.+.+..|.|+||+||||.|+.+ +++.++++.+...++
T Consensus 83 ~piv~~k~~rl~~l~~~~~~~~i~v~VDs~~~~~~l~~~~~~~~~~~~V~ievD~G~~R~Gv~~~~~a~~La~~i~~~~~ 162 (361)
T cd06821 83 YPLVGPNIERFLELAKKYPGTRFSALVDDLEAAEALSAAAGSAGLTLSVLLDVNTGMNRTGIAPGEDAEELYRAIATLPG 162 (361)
T ss_pred CCCCCHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHCCC
T ss_conf 57765669999998753889779999708999999999998669960699997678886888887999999999985899
Q ss_pred CCHHHHHCCCCCCCCCCC----HHHHHHHHHHHHHHHHHC--CCC---HHHCCCCHHCCCCCCCCHHHCCCCCCCCCCC-
Q ss_conf 001243201243333466----788999999999975434--886---0111641100477322202048735306787-
Q gi|254780333|r 155 GQLSLIISHLACADDPSS----HVNSVQLERFRTLISHYK--GIE---ASLASSSGILLGPNYHFQLTRPGISLYGGTD- 224 (370)
Q Consensus 155 ~~i~gi~THfa~ad~~~~----~~~~~Q~~~F~~~~~~~~--~~~---~h~~nS~~~l~~p~~~~d~vR~Gi~lYG~~~- 224 (370)
+++.|+|+|-...-..+. ...+...++...+.+.++ ++. .+...|+......+....=+|||..+|-...
T Consensus 163 L~l~Gi~~y~Gh~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~vs~GgTpt~~~~~~~~~~Ev~pG~yvf~D~~~ 242 (361)
T cd06821 163 LVLAGLHAYDGHHRNTDLAEREAAADAAYKPVLALREALEAAGLPVPELVAGGTPSFPFHAAYTDVECSPGTFVLWDAGY 242 (361)
T ss_pred CEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEECCCCCCCCCCCCCCCEEECCCEEEECCCHH
T ss_conf 83878986536345678799999999999999999999997499975140579754030003774475376589825234
Q ss_pred -CCCCCCCCCCEEEEEEEEEEEEEECCCCCC-CCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEE
Q ss_conf -767556764100123688632671489834-665653467764179712330026010236854334443232886999
Q gi|254780333|r 225 -KINKSHPMQTVVTAEARIILIRKALAGELV-SYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFI 302 (370)
Q Consensus 225 -~~~~~~~l~pv~~l~s~i~~ir~l~~G~~V-gYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli 302 (370)
......++++++++-++|+.. -.+|.-+ .-|. -....|.- +|-|+..|+|
T Consensus 243 ~~~~~~~~~~~Al~Vla~ViS~--p~~~~~~vDaG~-k~ls~D~~---~p~~~~~~~~---------------------- 294 (361)
T cd06821 243 GSKLPDLGFKPAALVVTRVISH--PTAGRVTLDLGH-KAVASDPP---LPRVCLLGLP---------------------- 294 (361)
T ss_pred HHCCCCCCCCEEEEEEEEEEEE--CCCCEEEECCCC-CCCCCCCC---CCCCEECCCC----------------------
T ss_conf 4226675543226999999714--489906877764-40035679---9851460799----------------------
Q ss_pred CCEEEEEEEECCCCCEEEECCCCCCCCCCCEEEEECCC--CCHH
Q ss_conf 99995077004256479966887787888789997888--8998
Q gi|254780333|r 303 KGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPD--IKLD 344 (370)
Q Consensus 303 ~G~~~pivGrv~MD~~~vdvt~~~~~~~GD~V~l~G~~--i~~~ 344 (370)
.+.++ +.+=.|.++++++..+.++||.|.|+=.+ ++++
T Consensus 295 ---~~~~~-~~s~EHg~l~~~~~~~l~vGd~v~i~P~H~C~t~~ 334 (361)
T cd06821 295 ---DAEPV-GHSEEHLVLETPEAARPEIGDVLYGIPRHICPTVA 334 (361)
T ss_pred ---CCEEC-CCCCCEEEEECCCCCCCCCCCEEEEECCCCCHHHH
T ss_conf ---85680-45686604888988889999999997398485577
No 18
>cd06818 PLPDE_III_cryptic_DSD Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase. This subfamily is composed of Burkholderia cepacia cryptic D-serine dehydratase (cryptic DSD), which is also called D-serine deaminase, and similar bacterial proteins. Members of this subfamily are fold type III PLP-dependent enzymes with similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as dimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on similarity, it is possible cryptic DSDs may also form dimers. Cryptic DSDs are distinct from the ubiquitous bacterial DSDs coded by the dsdA gene, mammalian L-serine dehydratases (LSD) and mammalian serine racemase (SerRac), which are fold type II PLP-dependent enzymes. At present, the enzymatic and biochemical properties
Probab=99.92 E-value=2.1e-21 Score=158.25 Aligned_cols=303 Identities=15% Similarity=0.126 Sum_probs=200.4
Q ss_pred CEEEEEEHHHHHHHHHHHHHHC--CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEE
Q ss_conf 5099986889999999998628--99759999932866579899999999879989998559999999983898526730
Q gi|254780333|r 6 FLRLKIDLTALKNNWHSMNALS--GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVL 83 (370)
Q Consensus 6 ~~~leIdl~al~~Ni~~i~~~~--~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl 83 (370)
-|-+.||++++++|++.+++.+ .+.++-|-+|. |-..++++.+.++|+..+.|+++.||..+.+.|++ +||+-
T Consensus 3 TPaLvvD~~~le~Ni~~M~~~~~~~gv~lRPH~KT----HKs~eia~~Q~~~Ga~git~at~~EAe~~~~~G~~-dilia 77 (382)
T cd06818 3 LPLLVLDASALAHNLAWMQAFAAAHGVKLAPHGKT----TMAPQLFRRQLEAGAWGITVATVAQARVALAFGVR-RVLLA 77 (382)
T ss_pred CCEEEECHHHHHHHHHHHHHHHHHCCCCEEEECCC----CCCHHHHHHHHHCCCCEEEECCHHHHHHHHHCCCC-CEEEE
T ss_conf 97799709999999999999998669835204010----04799999999689983896779999999976986-47994
Q ss_pred CCC-CHHHHHH---HHH----HHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCCCCCCCCC-HHHHHHHHHHHHHHH
Q ss_conf 689-7469888---875----42101348998999988887-6088776167612666765569-889999998888631
Q gi|254780333|r 84 YGI-HPGQEKI---IFD----TNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTGFNRLGLS-LQEALDFTHNSFNKK 153 (370)
Q Consensus 84 ~~~-~~~~~~~---~~~----~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTGM~R~G~~-~~e~~~~~~~~~~~~ 153 (370)
+++ .+..+.. +.+ ..+...+.|.++++.++++. +.+.+..|.|+||+||||.|+. .+++.++++.+...+
T Consensus 78 ~~iv~~~~~~rl~~l~~~~~~~~i~~~vD~~~~~~~l~~~~~~~~~~~~V~ievd~G~~R~Gv~~~~~a~~l~~~i~~~~ 157 (382)
T cd06818 78 NQLVGKANLRRLAALLAADPDFEFFCLVDSVDNVRALAAFFAALERPLNVLIELGVPGGRTGVRTEAEALALADAIAASP 157 (382)
T ss_pred CCCCCHHHHHHHHHHHHCCCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHCC
T ss_conf 26579889999999985089978999962999999999999855994589999788988789998699999999997299
Q ss_pred CCCHHHHHCCCCCCCCCCCHHHHHH----HHHHHHHHHHHC--C---CCHHHCCCCHHCCC------------CCCCCHH
Q ss_conf 0001243201243333466788999----999999975434--8---86011164110047------------7322202
Q gi|254780333|r 154 LGQLSLIISHLACADDPSSHVNSVQ----LERFRTLISHYK--G---IEASLASSSGILLG------------PNYHFQL 212 (370)
Q Consensus 154 ~~~i~gi~THfa~ad~~~~~~~~~Q----~~~F~~~~~~~~--~---~~~h~~nS~~~l~~------------p~~~~d~ 212 (370)
++++.|+++|-...-.........+ .++-.++.+.+. + ....+.+++|+-.+ +.....-
T Consensus 158 ~L~~~Gl~~y~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivs~GgT~~f~~~~~~~~~~~~~~~~~~e 237 (382)
T cd06818 158 ALRLAGVEGYEGVAAHDDSEETLAAVRAFLARAVDLARRLAERGLFPDRELILTAGGSAWFDLVAEALAALALDGPVTLV 237 (382)
T ss_pred CCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCHHHHHHHHCCCCCCCCCEEE
T ss_conf 96594688546756678866899999999999999999999706788897089982895543334554144568773279
Q ss_pred HCCCCCCCCC---CC----C------CCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCC----
Q ss_conf 0487353067---87----7------67556764100123688632671489834665653467764179712330----
Q gi|254780333|r 213 TRPGISLYGG---TD----K------INKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGY---- 275 (370)
Q Consensus 213 vR~Gi~lYG~---~~----~------~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGY---- 275 (370)
+|||..+|-- +. . .....++++++++-++|++.- .+| .+++-.|+
T Consensus 238 lrpG~Yvf~D~g~Y~~~~~~~~~~~~~~~~~~f~~Al~VlttViS~p--~~~----------------~ailDaG~K~ls 299 (382)
T cd06818 238 LRSGCYVTHDHGIYRRAQQALRARDPLSLAGALRPALEIWAYVQSRP--EPG----------------LAILGMGKRDVA 299 (382)
T ss_pred ECCEEEEECCCHHHHHHHHHHHCCCCCCCCCCCCEEEEEEEEEECCC--CCC----------------EEEECCCCCCCC
T ss_conf 86716997452787643244430366553322212159999996424--699----------------699888651200
Q ss_pred -CCCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEECCCCCEEEECCCCCCCCCCCEEEEECCC
Q ss_conf -02601023685433444323288699999995077004256479966887787888789997888
Q gi|254780333|r 276 -ADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPD 340 (370)
Q Consensus 276 -aDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGrv~MD~~~vdvt~~~~~~~GD~V~l~G~~ 340 (370)
--|+|+....+ ..|..++.+..--.+.+++=.|.++.+++..+.++||.|.++=.+
T Consensus 300 ~D~g~P~~~~~~---------~~g~~~~~~~~~~~v~~~seEHgil~~~~~~~l~vGd~v~iiP~H 356 (382)
T cd06818 300 FDAGLPVPLRVF---------RPGGGVVRLPDGWEVTALNDQHAFLRLPPESPLAVGDVIAFGISH 356 (382)
T ss_pred CCCCCCCCCCCC---------CCCCCCCCCCCCEEEECCCCCEEEEECCCCCCCCCCCEEEEECCC
T ss_conf 246998653201---------588532358997078011363247877998999997789997996
No 19
>cd06819 PLPDE_III_LS_D-TA Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase. Low specificity D-threonine aldolase (Low specificity D-TA, EC 4.3.1.18), encoded by dtaAS gene from Arthrobacter sp. strain DK-38, is the prototype of this subfamily. Low specificity D-TAs are fold type III PLP-dependent enzymes that catalyze the interconversion between D-threonine/D-allo-threonine and glycine plus acetaldehyde. Both PLP and divalent cations (eg. Mn2+) are required for catalytic activity. Members of this subfamily show similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on its similarity to AR, it is possible that low specificity D-TAs also form dimers in solution. Experimental data show that t
Probab=99.91 E-value=3.6e-21 Score=156.70 Aligned_cols=293 Identities=15% Similarity=0.193 Sum_probs=198.8
Q ss_pred CCEEEEEEHHHHHHHHHHHHHHC--CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEE
Q ss_conf 85099986889999999998628--9975999993286657989999999987998999855999999998389852673
Q gi|254780333|r 5 EFLRLKIDLTALKNNWHSMNALS--GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFV 82 (370)
Q Consensus 5 ~~~~leIdl~al~~Ni~~i~~~~--~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilv 82 (370)
+-|-+.||++++++|++.+++.+ .+.++-|.+|. |.+.++++...++|+..|.|+++.||..+.+.|++ +||+
T Consensus 6 ~TP~lvvd~~~l~~Ni~~m~~~~~~~gv~lrPH~KT----hks~~i~~~ql~~Ga~gi~~atl~EAe~~~~~G~~-dIll 80 (358)
T cd06819 6 DTPALVLDLDALERNIKRMAAFAKAHGVRLRPHAKT----HKCPAIARRQIAAGAVGVCCQKLSEAEVMAAAGIR-DILI 80 (358)
T ss_pred CCCEEEEEHHHHHHHHHHHHHHHHHCCCCEEEEEHH----HCCHHHHHHHHHCCCCEEEECCHHHHHHHHHCCCC-EEEE
T ss_conf 998399729999999999999998679967777312----07899999999669974996579999999977997-0688
Q ss_pred ECCC-CHHHHHHH----HHHHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCCCCCCCCCH-HHHHHHHHHHHHHHCC
Q ss_conf 0689-74698888----7542101348998999988887-60887761676126667655698-8999999888863100
Q gi|254780333|r 83 LYGI-HPGQEKII----FDTNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTGFNRLGLSL-QEALDFTHNSFNKKLG 155 (370)
Q Consensus 83 l~~~-~~~~~~~~----~~~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTGM~R~G~~~-~e~~~~~~~~~~~~~~ 155 (370)
-.++ .+..+..+ .+..+...+.|.++++.++++. +.+.+..|.|+||+||+|.|+.+ +++.++++.+...+++
T Consensus 81 a~p~v~~~~l~rl~~l~~~~~~~~~vDs~~~~~~l~~~a~~~~~~~~V~Ievd~G~~R~Gv~~~~~~~~la~~I~~~~~l 160 (358)
T cd06819 81 TNEVVGPAKIARLAALARRAPLIVCVDHPDNVRALAAAAVEAGVRLDVLVEIDVGQGRCGVPPGEAALALARTIAALPGL 160 (358)
T ss_pred ECCCCCHHHHHHHHHHHHCCCEEEEEECHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHCCCC
T ss_conf 54668978999999998549989999499999999999986599636999978899877888869999999999848998
Q ss_pred CHHHHHCCCCCC-CCCCCHH----HHHHHHHHHHHHHHHC--CCCHHHCCCCHH--CCC-CCC-CCHHHCCCCCCCCCC-
Q ss_conf 012432012433-3346678----8999999999975434--886011164110--047-732-220204873530678-
Q gi|254780333|r 156 QLSLIISHLACA-DDPSSHV----NSVQLERFRTLISHYK--GIEASLASSSGI--LLG-PNY-HFQLTRPGISLYGGT- 223 (370)
Q Consensus 156 ~i~gi~THfa~a-d~~~~~~----~~~Q~~~F~~~~~~~~--~~~~h~~nS~~~--l~~-p~~-~~d~vR~Gi~lYG~~- 223 (370)
++.|+|+|-... ...+... ...-.++...+.+.++ ++...+-+.+++ +.. .+. ..+=+|||..+|-..
T Consensus 161 ~l~Gi~~y~Gh~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~ivs~GgT~t~~~~~~~~~~tEl~~G~yvf~D~~ 240 (358)
T cd06819 161 RFAGLQAYHGHLQHIRDYEERRAAIAEAAEALQATRDALEAAGLPCEIVTGGGTGTYEFEAASGVYTELQAGSYVFMDAD 240 (358)
T ss_pred EEEECCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEECCCCCCEEEECCCCCEEEECCCEEEEECHH
T ss_conf 06201046533302799899999999999999999999996699985574478875022225673379778429961678
Q ss_pred -C---CCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCC-----CCCEECCCCCCCCCCCCCC
Q ss_conf -7---767556764100123688632671489834665653467764179712330-----0260102368543344432
Q gi|254780333|r 224 -D---KINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGY-----ADGYPLTLSGLDSEHSPSV 294 (370)
Q Consensus 224 -~---~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGY-----aDG~pr~ls~~~~~~~~~~ 294 (370)
. ......++++++++-++|+... .+|. +++..|+ --|+|+-...
T Consensus 241 y~~~~~~~~~~~~~~Al~V~~~ViS~p--~~~~----------------~~vd~G~k~ls~d~g~p~~~~~--------- 293 (358)
T cd06819 241 YGDNEDEGGAPPFENALFVLTTVISAN--APGR----------------AVVDAGLKSLSVDSGLPKVAGR--------- 293 (358)
T ss_pred HHHHCCCCCCCCCCEEEEEEEEEECCC--CCCC----------------EEECCCCCCCCCCCCCCCCCCC---------
T ss_conf 864113456766650079986777257--8882----------------7864776300036788856589---------
Q ss_pred CCCCEEEECCEEEEEEEECCCCCEEEECCCC-CCCCCCCEEEEECCC
Q ss_conf 3288699999995077004256479966887-787888789997888
Q gi|254780333|r 295 FLGGKGFIKGYMVPILGKITMDMTMFDITDS-LSIEVGDYIQIFGPD 340 (370)
Q Consensus 295 ~~~~~vli~G~~~pivGrv~MD~~~vdvt~~-~~~~~GD~V~l~G~~ 340 (370)
.+. .+.+++=.|.++.+.+. .+.++||.|.++=.+
T Consensus 294 --~~~---------~v~~~s~EHg~l~~~~~~~~l~vGd~v~~~P~H 329 (358)
T cd06819 294 --PGL---------SYVRAGDEHGIVELEDGAAPLKIGDRLELVPGH 329 (358)
T ss_pred --CCC---------EEECCCCCEEEEECCCCCCCCCCCCEEEEEECC
T ss_conf --985---------794015750078779987899999999998088
No 20
>cd06812 PLPDE_III_DSD_D-TA_like_1 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1. This subfamily is composed of uncharacterized bacterial proteins with similarity to eukaryotic D-serine dehydratases (DSD) and D-threonine aldolases (D-TA). DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. D-TA reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. DSD and D-TA are fold type III PLP-dependent enzymes, similar to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on their similarity to AR, it is possible mem
Probab=99.90 E-value=7.6e-21 Score=154.61 Aligned_cols=317 Identities=16% Similarity=0.193 Sum_probs=198.5
Q ss_pred CCEEEEEEHHHHHHHHHHHHHHC--CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEE
Q ss_conf 85099986889999999998628--9975999993286657989999999987998999855999999998389852673
Q gi|254780333|r 5 EFLRLKIDLTALKNNWHSMNALS--GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFV 82 (370)
Q Consensus 5 ~~~~leIdl~al~~Ni~~i~~~~--~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilv 82 (370)
+-|-+.||++++++|++.+++.+ .+.++-|-+|. |-+.++++...++|+..|.|+++.||..+.+.|++ +||+
T Consensus 5 ~TPalvvd~~~l~~Ni~~M~~~~~~~g~~lRPH~KT----HKs~eia~~Q~~~Ga~gi~~atv~EAe~~a~~G~~-dIl~ 79 (374)
T cd06812 5 DTPFLLLDEARMDRNIARLRQRLSRLGVRLRPHLKT----AKSLEVARRLLAAGASPATVSTLKEAEAFAEAGYR-DILY 79 (374)
T ss_pred CCCEEEEEHHHHHHHHHHHHHHHHHCCCCEEEEECH----HCCHHHHHHHHHCCCCCEEECCHHHHHHHHHCCCC-EEEE
T ss_conf 997699729999999999999998769966026100----14799999999679984897889999999977987-3999
Q ss_pred ECCCCHHHHHHHHH-----HHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCCCCCCCCCHHH-HHHHHHHHHHHHCC
Q ss_conf 06897469888875-----42101348998999988887-6088776167612666765569889-99999888863100
Q gi|254780333|r 83 LYGIHPGQEKIIFD-----TNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTGFNRLGLSLQE-ALDFTHNSFNKKLG 155 (370)
Q Consensus 83 l~~~~~~~~~~~~~-----~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTGM~R~G~~~~e-~~~~~~~~~~~~~~ 155 (370)
=.++.+..+..+.+ .++...+.|.++++.++++. +.+.+..|.|+||+||||.|+.+++ ....+.++...+.+
T Consensus 80 a~~i~~~kl~rl~~l~~~~~~~~v~VD~~~~~~~l~~~~~~~g~~~~V~Ievd~G~~RtGv~~~~~al~~~~~~~~~~~l 159 (374)
T cd06812 80 AVGIAPAKLPRVLALRRQGVNLTILLDSVEQAQAVAAFSRQHGVRFPVLIEIDCDGHRGGIAPDSDALLEIARILHDGGA 159 (374)
T ss_pred ECCCCHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCC
T ss_conf 35778789999999973699489995579999999999997599446999976899867889706999999999747997
Q ss_pred CHHHHHCCCCCC---CCCCC--HHHHHHHHHHHHHHHHHC--CCCHH---HCCCCHHCCCCCC-CCHHHCCCCCCCCCC-
Q ss_conf 012432012433---33466--788999999999975434--88601---1164110047732-220204873530678-
Q gi|254780333|r 156 QLSLIISHLACA---DDPSS--HVNSVQLERFRTLISHYK--GIEAS---LASSSGILLGPNY-HFQLTRPGISLYGGT- 223 (370)
Q Consensus 156 ~i~gi~THfa~a---d~~~~--~~~~~Q~~~F~~~~~~~~--~~~~h---~~nS~~~l~~p~~-~~d~vR~Gi~lYG~~- 223 (370)
++.|+++|-..+ ++..+ .......+......+.++ ++... ...++......+. ..+=+|||..+|--.
T Consensus 160 ~~~G~~~y~Gh~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~vs~GgTpt~~~~~~~~gvtE~~pG~Yvf~D~~ 239 (374)
T cd06812 160 ELRGVLTHAGESYACRTPEALAAAAEQERAAAVRAAERLRAAGLPCPVVSVGSTPTAHFAEDLTGVTEVRAGVYVFFDLV 239 (374)
T ss_pred CEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCEEECCCCCCCCCCCCEEEECCHH
T ss_conf 45467623874347899999999999999999999999986599988785268874001103677520157215850477
Q ss_pred -CCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEE
Q ss_conf -7767556764100123688632671489834665653467764179712330026010236854334443232886999
Q gi|254780333|r 224 -DKINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFI 302 (370)
Q Consensus 224 -~~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli 302 (370)
...+.......++++-++|++++.- +|.-+=..+.-...+|.-...-|..|+-|.-....+ .. .
T Consensus 240 ~~~~g~~~~~~~Al~Vl~tViS~~p~-~~~~~iDaG~kals~D~g~~~~~~~~g~g~v~~~~g-------------~~-~ 304 (374)
T cd06812 240 MAGIGVCGLDDIALSVVTTVIGHQPE-KGWILIDAGWMALSRDRGTARQAVDQGYGLVCDVAG-------------SP-L 304 (374)
T ss_pred HHCCCCCCHHHHHHEEEEEEEECCCC-CCCEEECCCCCEEECCCCCCCCCCCCCCCEEECCCC-------------CC-C
T ss_conf 75158897565102244576513789-993797577401211457766765566655615778-------------85-8
Q ss_pred CCEEEEEEEECCCCCEEEECCCC-----CCCCCCCEEEEECCC--CCHH
Q ss_conf 99995077004256479966887-----787888789997888--8998
Q gi|254780333|r 303 KGYMVPILGKITMDMTMFDITDS-----LSIEVGDYIQIFGPD--IKLD 344 (370)
Q Consensus 303 ~G~~~pivGrv~MD~~~vdvt~~-----~~~~~GD~V~l~G~~--i~~~ 344 (370)
.| . .+.+.+=.|.++.+.+. ++.++||.|.++=.+ +|++
T Consensus 305 ~~--~-~v~~~seEHg~l~~~~~~~~~~~~l~vGd~v~liP~H~C~T~~ 350 (374)
T cd06812 305 PG--L-IVTSTNQEHGIIALRGGSDLSLPDLPIGTRLRILPNHACATAA 350 (374)
T ss_pred CC--E-EEECCCCCCEEEECCCCCCCCCCCCCCCCEEEEECCCCCCCHH
T ss_conf 98--4-8913556505997788875545679848889996498590211
No 21
>cd06813 PLPDE_III_DSD_D-TA_like_2 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 2. This subfamily is composed of uncharacterized bacterial proteins with similarity to eukaryotic D-serine dehydratases (DSD) and D-threonine aldolases (D-TA). DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. D-TA reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. DSD and D-TA are fold type III PLP-dependent enzymes, similar to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on their similarity to AR, it is possible mem
Probab=99.85 E-value=2.2e-18 Score=138.63 Aligned_cols=313 Identities=16% Similarity=0.187 Sum_probs=205.6
Q ss_pred CCEEEEEEHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHH-CCCCEEEECCHHHHHHHHHHCCCCCEEEE
Q ss_conf 85099986889999999998628997599999328665798999999998-79989998559999999983898526730
Q gi|254780333|r 5 EFLRLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYN-AGVQDFFVTSVEEGVKLRLYTPQARIFVL 83 (370)
Q Consensus 5 ~~~~leIdl~al~~Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~-~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl 83 (370)
+-|.+.||++++++|++.+++.+.+.++=++.|+ |-+.++++.+.+ .|..++.++++.||+.+.+.|++ +||+=
T Consensus 10 ~tP~lvvDld~l~~Ni~~m~~~a~g~~iR~~~Ks----~k~~~l~~~~l~~~g~~Gi~~~~~~EA~~la~~G~~-DILl~ 84 (388)
T cd06813 10 DAPFAFVDLDALDANAADLVRRAGGKPIRVASKS----VRCRALLRRVLAAPGFQGVMAFTLAEALWLARQGFD-DILVA 84 (388)
T ss_pred CCCEEEEEHHHHHHHHHHHHHHHCCCCCEEECCC----CCCHHHHHHHHHHCCCCEEEEECHHHHHHHHHCCCC-CEEEC
T ss_conf 9975775399999999999997379981665040----479999999986059870686559999999866998-18977
Q ss_pred CCC-CHHHHHHHHH-----HHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCCCCCCCC----------CHHHHHHHH
Q ss_conf 689-7469888875-----42101348998999988887-608877616761266676556----------988999999
Q gi|254780333|r 84 YGI-HPGQEKIIFD-----TNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTGFNRLGL----------SLQEALDFT 146 (370)
Q Consensus 84 ~~~-~~~~~~~~~~-----~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTGM~R~G~----------~~~e~~~~~ 146 (370)
.++ .+..+..+.. ..+++.|.|.++++.++++. +.+..+.|.|.||+||+|-|+ +++++.+++
T Consensus 85 ~p~v~~~~l~~l~~~~~~~~~i~~~VD~~~~l~~l~~aa~~~g~~l~V~ieiD~g~~r~G~~~G~~RsgV~~~~~a~~La 164 (388)
T cd06813 85 YPSVDRAALRELAADPKLGATITLMVDSVEHLDLLDAVAAPMRVEVRVCIDIDASLRFGGLHFGVRRSPLHTPAQALALA 164 (388)
T ss_pred CCCCCHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHH
T ss_conf 88889999999985442377179997288899999999986599569999971787666741476768889989999999
Q ss_pred HHHHHHHCCCHHHHHCC---CCC-CCC-CCCHH-----HHHHH-------HHHHHHHHHHC--CCCHHHCCCCHHCCCC-
Q ss_conf 88886310001243201---243-333-46678-----89999-------99999975434--8860111641100477-
Q gi|254780333|r 147 HNSFNKKLGQLSLIISH---LAC-ADD-PSSHV-----NSVQL-------ERFRTLISHYK--GIEASLASSSGILLGP- 206 (370)
Q Consensus 147 ~~~~~~~~~~i~gi~TH---fa~-ad~-~~~~~-----~~~Q~-------~~F~~~~~~~~--~~~~h~~nS~~~l~~p- 206 (370)
+.+...+++++.|+|++ ++. .|. +.... ...|. ++..++++.++ ++...+-|.+|+-.+.
T Consensus 165 ~~I~~~p~L~~~Glm~Yeghia~~~d~~~~~~~~~~~~~~~~~~s~~e~~~r~~~~v~al~~~g~~~~~VngGGTgt~~~ 244 (388)
T cd06813 165 KAIAARPGLRLVGLMGYEAQIAGVGDSVPGKRVKSAVIRLLKKRSIKELAERRAAVVAALRAEGEDLEFVNGGGTGSLES 244 (388)
T ss_pred HHHHHCCCCEEEEEECCCHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEECCCCCCEEC
T ss_conf 99861999748889720065567876552124568999999999999999999999999996199975892489766412
Q ss_pred ---CCCCHHHCCCCCCCCCCCC-CCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECC
Q ss_conf ---3222020487353067877-675567641001236886326714898346656534677641797123300260102
Q gi|254780333|r 207 ---NYHFQLTRPGISLYGGTDK-INKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLT 282 (370)
Q Consensus 207 ---~~~~d~vR~Gi~lYG~~~~-~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ 282 (370)
+..++=+++|..+|..... .......+|++-+-++|+. .-.+|-.+=||+-|.++-+ .| .|.+|+-
T Consensus 245 ~~~~~~~tEv~aGS~l~~p~~fD~~~~~~~~PA~~~a~~Vv~--~P~p~~~t~~gGg~~aSg~-------~g-~~~~p~p 314 (388)
T cd06813 245 TAADAVVTEVTAGSGLYAPALFDHYRSFQPEPAAGFALPVVR--RPAPGIVTCLGGGYIASGP-------AG-KDRLPVP 314 (388)
T ss_pred CCCCCCCEEECCCCEEECCHHCCCCCCCCCCCEEEEECCEEE--CCCCCEEEEECCCEEECCC-------CC-CCCCCCC
T ss_conf 356885216555457984112032000587760788724783--3599879992897054357-------77-7787741
Q ss_pred CCCCCCCCCCCCCCCCEEEECCEE-EEEEEECCCCCEEEECCCCCCCCCCCEEEEECCCCCHHHHHHHHCC
Q ss_conf 368543344432328869999999-5077004256479966887787888789997888899899998179
Q gi|254780333|r 283 LSGLDSEHSPSVFLGGKGFIKGYM-VPILGKITMDMTMFDITDSLSIEVGDYIQIFGPDIKLDDVALASGT 352 (370)
Q Consensus 283 ls~~~~~~~~~~~~~~~vli~G~~-~pivGrv~MD~~~vdvt~~~~~~~GD~V~l~G~~i~~~~~A~~~gt 352 (370)
.. . .|-+ .+.-|+ +=.|+++..+.....++||.|-|.=.+ .+++..+.+.
T Consensus 315 ~~-----------p------~g~~~~~~eG~-~e~q~~l~~~~~~~l~vGD~v~~rp~~--~~~~~~~f~~ 365 (388)
T cd06813 315 WL-----------P------AGLKLLPLEGA-GEVQTPLTGPAAERLGIGDPVWFRHAK--AGELCERFNE 365 (388)
T ss_pred CC-----------C------CCCCCCCCCCC-CCCCCEEECCCCCCCCCCCEEEEECCC--CCHHHHHCCE
T ss_conf 17-----------9------97654455578-764231315877769999989995897--3366661286
No 22
>cd06817 PLPDE_III_DSD Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Eukaryotic D-Serine Dehydratase. This subfamily is composed of chicken D-serine dehydratase (DSD, EC 4.3.1.18) and similar eukaryotic proteins. Chicken DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. It is a fold type III PLP-dependent enzyme with similarity to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as dimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Experimental data suggest that chicken DSD also exists as dimers. Sequence comparison and biochemical experiments show that chicken DSD is distinct from the ubiquitous bacterial DSDs coded by dsdA gene, mammalian L-serine dehydratases (LSD) and mammalian serine racemase (SerRac), which are fold type II PL
Probab=99.85 E-value=5.7e-19 Score=142.49 Aligned_cols=316 Identities=17% Similarity=0.161 Sum_probs=192.5
Q ss_pred CCEEEEEEHHHHHHHHHHHHHHCC--CCEEEEEEECCCCCCCHHHHHHHHHHCC--CCEEEECCHHHHHHHHHHCCCC--
Q ss_conf 850999868899999999986289--9759999932866579899999999879--9899985599999999838985--
Q gi|254780333|r 5 EFLRLKIDLTALKNNWHSMNALSG--NARTAAVVKDNAYGLGCEKIAPALYNAG--VQDFFVTSVEEGVKLRLYTPQA-- 78 (370)
Q Consensus 5 ~~~~leIdl~al~~Ni~~i~~~~~--~~~i~aVVKanAYGhG~~~va~~l~~~G--v~~faVa~~~EA~~lR~~g~~~-- 78 (370)
+-|.+.||++++++|++.+++.+. +.++-|-+|. |.+.++++...++| +..|.|+++.||..+.++|.+.
T Consensus 5 ~TPallvd~~~l~~Ni~~M~~~~~~~gv~lRPH~KT----HKs~~ia~~Ql~aG~~a~git~atv~EAe~~a~~G~~~~~ 80 (389)
T cd06817 5 PTPALVIDRAKFKRNCERMLQRAKALGVKFRPHVKT----HKTLEGTRLQLGEGRPSRGIVVSTLAEAEFLLPLGEEGRV 80 (389)
T ss_pred CCCEEEECHHHHHHHHHHHHHHHHHCCCCCCCCCHH----HCCHHHHHHHHHCCCCCCCEEECCHHHHHHHHHHHHHCCC
T ss_conf 997399819999999999999998759957115176----5169999999977998353897579999999985451662
Q ss_pred -CEEEECCCCHHHHHHHHH---H--HHHCCCCCHHHHHHHHHHH--HCCCCCCCEEEECCCCCCCCCCH--HHHHHHHHH
Q ss_conf -267306897469888875---4--2101348998999988887--60887761676126667655698--899999988
Q gi|254780333|r 79 -RIFVLYGIHPGQEKIIFD---T--NLIPVISSVPQLTFYSKLM--SCGVSHPYALQVDTGFNRLGLSL--QEALDFTHN 148 (370)
Q Consensus 79 -~Ilvl~~~~~~~~~~~~~---~--~i~~~i~s~~~l~~l~~~~--~~~~~~~vhlkiDTGM~R~G~~~--~e~~~~~~~ 148 (370)
.||+=.++.+..+..+.+ . .+..++.+.++++.++++. +.+.+..|.|+||+||||.|+.+ +++.+++++
T Consensus 81 ~dil~a~pv~~~kl~rl~~L~~~~~~l~v~VD~~~~v~~L~~~~~~~~g~~l~V~Ievd~G~~RtGv~~~~~~~~~l~~~ 160 (389)
T cd06817 81 DDILYGLPVPPSKLPRLAELSKKLGHLRVMVDNPEQLDFLEQFQPLKSGKKWSVFIKVDCGTHRAGVPPESEDAKELIQK 160 (389)
T ss_pred EEEEECCCCCHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHH
T ss_conf 28998885787899999998553980899974799999999998862698258999978898967889883999999999
Q ss_pred HHHH-HCCCHHHHHCCCCCC---CCCCCH--HHHHHHHHHHHHHHHHC---CCC---HHHCCCCHHCCCC--------C-
Q ss_conf 8863-100012432012433---334667--88999999999975434---886---0111641100477--------3-
Q gi|254780333|r 149 SFNK-KLGQLSLIISHLACA---DDPSSH--VNSVQLERFRTLISHYK---GIE---ASLASSSGILLGP--------N- 207 (370)
Q Consensus 149 ~~~~-~~~~i~gi~THfa~a---d~~~~~--~~~~Q~~~F~~~~~~~~---~~~---~h~~nS~~~l~~p--------~- 207 (370)
+... +++++.|+++|-... ++..+. ......++-.++.+.++ +.. .+...|+...... +
T Consensus 161 i~~~~~~L~~~Gl~~y~Gh~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~g~~~~vvs~G~Tpt~~~~~~~~~~~~~~~ 240 (389)
T cd06817 161 LEKASEAVELFGFYSHAGHSYSSRSAEDAKEVLREEIEAVLTAAKKLKSIQGDRKLTLSVGATPTAHAAEALVLIPAPSL 240 (389)
T ss_pred HHHCCCCCEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCC
T ss_conf 98567883577886048755578999999999999999999999998862699875899858887220355442245555
Q ss_pred CCCHHHCCCCCCCCCCC--CCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCC
Q ss_conf 22202048735306787--7675567641001236886326714898346656534677641797123300260102368
Q gi|254780333|r 208 YHFQLTRPGISLYGGTD--KINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSG 285 (370)
Q Consensus 208 ~~~d~vR~Gi~lYG~~~--~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~ 285 (370)
....-+|||..+|-... ..+......+++++-++|++... .+|.-+=..++-....|.- -.+.||+-..+..
T Consensus 241 ~~~tEl~pG~Yvf~D~~~~~~g~~~~~~~Al~VlatViS~~p-~~~~~ilDaG~Kals~D~g--~~~~~~g~~~~~~--- 314 (389)
T cd06817 241 SGLLELHAGNYPFYDLQQVATGLCSEEDIAVFVLAEVISVYP-KRNEALVNAGVLALSREPS--RIYGGFGRVIPWP--- 314 (389)
T ss_pred CCCEEEECCCEECCCHHHHHCCCCCCCCEEEEEEEEEEEECC-CCCEEEECCCHHHEECCCC--CCCCCCCEECCCC---
T ss_conf 651497024647268878516999832125899999985538-9983997666001103567--7778854421677---
Q ss_pred CCCCCCCCCCCCCEEEECCEEEEEEEECCCCCEEEECCCC----CCCCCCCEEEEECCC--CCHH
Q ss_conf 5433444323288699999995077004256479966887----787888789997888--8998
Q gi|254780333|r 286 LDSEHSPSVFLGGKGFIKGYMVPILGKITMDMTMFDITDS----LSIEVGDYIQIFGPD--IKLD 344 (370)
Q Consensus 286 ~~~~~~~~~~~~~~vli~G~~~pivGrv~MD~~~vdvt~~----~~~~~GD~V~l~G~~--i~~~ 344 (370)
..+.+..--.+.+.+=.|.++..++. ...++||.|.++=.+ .|++
T Consensus 315 --------------~~~~~~~~~~v~~lseEHg~l~~~~~~~~~~~l~vGd~v~~iP~H~C~Tvn 365 (389)
T cd06817 315 --------------GPIPGHPEWYLVRLSQEHGILQPRDGDLDFKRLKVGSKVRIIPQHACITAA 365 (389)
T ss_pred --------------CCCCCCCCEEEECCCCCEEEEECCCCCCCCCCCCCCCEEEEECCCCCCCCC
T ss_conf --------------764679972883435751578617876556799988889997188590700
No 23
>cd06814 PLPDE_III_DSD_D-TA_like_3 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 3. This subfamily is composed of uncharacterized bacterial proteins with similarity to eukaryotic D-serine dehydratases (DSD) and D-threonine aldolases (D-TA). DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. D-TA reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. DSD and D-TA are fold type III PLP-dependent enzymes, similar to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on their similarity to AR, it is possible mem
Probab=99.85 E-value=4e-18 Score=136.98 Aligned_cols=320 Identities=16% Similarity=0.094 Sum_probs=201.5
Q ss_pred CEEEEEEHHHHHHHHHHHHHHC-CCCEEEEEEECCCCCCCHHHHHHHHHH-CCCCEEEECCHHHHHHHHHHCCCCCEEEE
Q ss_conf 5099986889999999998628-997599999328665798999999998-79989998559999999983898526730
Q gi|254780333|r 6 FLRLKIDLTALKNNWHSMNALS-GNARTAAVVKDNAYGLGCEKIAPALYN-AGVQDFFVTSVEEGVKLRLYTPQARIFVL 83 (370)
Q Consensus 6 ~~~leIdl~al~~Ni~~i~~~~-~~~~i~aVVKanAYGhG~~~va~~l~~-~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl 83 (370)
-|-+.||++++.+|++.+.+.. ++.++=+..|+ |-..++++...+ .|...+.+.+..|+..+-+.+.+.+||+=
T Consensus 9 tP~lvvDldal~~Ni~~m~~~~~~~~~lRph~Ks----~ks~~ll~~~~~~~g~~g~~~~~~~e~~~~~~~~~~~DiLl~ 84 (379)
T cd06814 9 EPTLLLDKDRLDHNIDLLREHLAGSLAYRIVAKS----LPSPPLLRHIMKRAGTRRLMVFHQPFLNAVAKAFPDADILLG 84 (379)
T ss_pred CCEEEEEHHHHHHHHHHHHHHHCCCCCCCCEECC----CCCHHHHHHHHHHCCCCEEEEECHHHHHHHHHHCCCCCEEEC
T ss_conf 9769961899999999999975689973535040----579999999987459875788219999999974766648964
Q ss_pred CCCCHHH-HHH---H------HHHHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCCCCCCCCC-HHHHHHHHHHHHH
Q ss_conf 6897469-888---8------7542101348998999988887-6088776167612666765569-8899999988886
Q gi|254780333|r 84 YGIHPGQ-EKI---I------FDTNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTGFNRLGLS-LQEALDFTHNSFN 151 (370)
Q Consensus 84 ~~~~~~~-~~~---~------~~~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTGM~R~G~~-~~e~~~~~~~~~~ 151 (370)
.+..... ... . ....+++.|.|.++++.++++. +.+...+|.|.||+||+|-|+. .+++.++++.+..
T Consensus 85 ~p~~~~~~~~~~~~~~~~~~~~~~~i~~~VD~~~~l~~l~~~a~~~g~~l~V~ieiDvG~~R~Gv~~~~~a~~la~~I~~ 164 (379)
T cd06814 85 KPMPVAAAARFYRQLTGSAFRPARQLQWLIDTPERLAQYRALARSLGLTLRINLELDVGLHRGGFADPQTLPKALTAIDA 164 (379)
T ss_pred CCCCCHHHHHHHHHHHHCCCCCCCCEEEEEECHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf 87740789999987331002665617999838999999999998759816899996788873887897999999999973
Q ss_pred HHCCCHHHHH---CCCCCCCCCCC--H---HHHHHHHHHHHHHHHHC--CCCHHHCCCCHHCCC----CCCCCHHHCCCC
Q ss_conf 3100012432---01243333466--7---88999999999975434--886011164110047----732220204873
Q gi|254780333|r 152 KKLGQLSLII---SHLACADDPSS--H---VNSVQLERFRTLISHYK--GIEASLASSSGILLG----PNYHFQLTRPGI 217 (370)
Q Consensus 152 ~~~~~i~gi~---THfa~ad~~~~--~---~~~~Q~~~F~~~~~~~~--~~~~h~~nS~~~l~~----p~~~~d~vR~Gi 217 (370)
.+++++.|+| .|.+...+... . ....+.+.|.+...... ++..-+-|.+|+=.+ .+..++-+.+|.
T Consensus 165 ~~~l~l~Glm~Yeghi~~~~~~~~r~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~vngGGTgT~~~~~~~~~~tEv~aGS 244 (379)
T cd06814 165 PPRLRFSGLMGYEPHVAKLPGLISPAKARAAAMARYQAFVALARAHLGAHTQKLTLNTGGSPTYRLYEGDGPVNEVSAGS 244 (379)
T ss_pred CCCCEEEEEEEEHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCEEECCCCCCEEECCCC
T ss_conf 89977989851646565598703189999999999999999998754036766569426874300114799732887773
Q ss_pred CCCCCCCC-CCCCCCCCCEEEEEEEEEEE---EEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCC
Q ss_conf 53067877-67556764100123688632---671489834665653467764179712330026010236854334443
Q gi|254780333|r 218 SLYGGTDK-INKSHPMQTVVTAEARIILI---RKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPS 293 (370)
Q Consensus 218 ~lYG~~~~-~~~~~~l~pv~~l~s~i~~i---r~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~ 293 (370)
.+|..... ......++|++.+-++|+.. ..++.-.+.++.....-+.+.+.-.+.-||-.--|
T Consensus 245 ~~f~p~dfd~~~~~~~~pA~~ia~~Vv~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~i~Gg~w~a~p------------- 311 (379)
T cd06814 245 ALVKPTDFDLPALEDHQPALFIATPVLKVLDALEIPGLPGLGRLLPLWNPNRRRAYFIYGGNWKADP------------- 311 (379)
T ss_pred CEECCCCCCCCCCCCCCCCHHHHCEEEECCCCCCCCCCCCCCEECCCCCCCCCCCEEECCCCCCCCC-------------
T ss_conf 5724010144344455620544100032168772123542221014568875654031178645665-------------
Q ss_pred CCCCCEEEECC-EEEEEEEECCCCCEEEECCCCCCCCCCCEEEEECCCCCHHHHHHHHC
Q ss_conf 23288699999-99507700425647996688778788878999788889989999817
Q gi|254780333|r 294 VFLGGKGFIKG-YMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPDIKLDDVALASG 351 (370)
Q Consensus 294 ~~~~~~vli~G-~~~pivGrv~MD~~~vdvt~~~~~~~GD~V~l~G~~i~~~~~A~~~g 351 (370)
++=.| +..++.|+ +=+|+++..+.....++||.|-|.=.+ .++...+.+
T Consensus 312 ------~~P~Gl~~~~~~g~-se~q~~l~~~~~~~L~vGD~V~lrp~h--a~~~~~~f~ 361 (379)
T cd06814 312 ------VSPAGLRYNGLYGR-SSNQEMLNGSASSQLKVDDYVFLRPTQ--SEAVLLQFG 361 (379)
T ss_pred ------CCCCCCCCCCCCCC-CCCCCEEECCCCCCCCCCCEEEEECCC--CCHHHHHCC
T ss_conf ------47888776750314-666411545776679999999995575--336667248
No 24
>cd07376 PLPDE_III_DSD_D-TA_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase. This family includes eukaryotic D-serine dehydratases (DSD), cryptic DSDs from bacteria, D-threonine aldolases (D-TA), low specificity D-TAs, and similar uncharacterized proteins. DSD catalyzes the dehydration of D-serine to aminoacrylate, which is rapidly hydrolyzed to pyruvate and ammonia. D-TA reversibly catalyzes the aldol cleavage of D-threonine into glycine and acetaldehyde, and the synthesis of D-threonine from glycine and acetaldehyde. Members of this family are fold type III PLP-dependent enzymes, similar to bacterial alanine racemase (AR), which contains an N-terminal PLP-binding TIM barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Based on similarity to AR, it is poss
Probab=99.84 E-value=2.7e-18 Score=138.14 Aligned_cols=292 Identities=17% Similarity=0.158 Sum_probs=182.0
Q ss_pred HHHHHHHHHHHHC--CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCC-CHHHH
Q ss_conf 9999999998628--99759999932866579899999999879989998559999999983898526730689-74698
Q gi|254780333|r 15 ALKNNWHSMNALS--GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGI-HPGQE 91 (370)
Q Consensus 15 al~~Ni~~i~~~~--~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~-~~~~~ 91 (370)
|+++|++.+++.+ .+.++-|-+|. |-..++++...++|+..|.|+++.||..+.+.|++ +||+-.++ .+..+
T Consensus 1 Ale~Ni~~m~~~~~~~g~~lRPH~KT----hK~~~i~~~ql~~Ga~gi~~atl~EAe~~~~~G~~-dIl~a~pi~~~~~l 75 (345)
T cd07376 1 ALEANISRMAARARASGVRLRPHVKT----HKSPELAQRQLAAGARGVTVATLAEAETFAEAGVK-DILMAYPLVGPAAI 75 (345)
T ss_pred CHHHHHHHHHHHHHHCCCCEEEEECH----HCCHHHHHHHHHCCCCEEEEECHHHHHHHHHCCCC-CEEEECCCCCHHHH
T ss_conf 97899999999999769976677500----04899999998679970999469999999976998-38996688998999
Q ss_pred HHHHH-----HHHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCCCCCCCCCHHH--HHHHHHHHHHHHCCCHHHHHCC
Q ss_conf 88875-----42101348998999988887-6088776167612666765569889--9999988886310001243201
Q gi|254780333|r 92 KIIFD-----TNLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTGFNRLGLSLQE--ALDFTHNSFNKKLGQLSLIISH 163 (370)
Q Consensus 92 ~~~~~-----~~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTGM~R~G~~~~e--~~~~~~~~~~~~~~~i~gi~TH 163 (370)
+.+.+ ..+...+.|.++++.++++. +.+.+..|.|+||+||||.|+.+++ ...++..+...+++++.|+|+|
T Consensus 76 ~rl~~l~~~~~~i~~~VDs~~~~~~l~~~a~~~~~~~~V~ievD~G~~R~Gv~~~~~~~l~l~~~i~~~~~l~l~G~~~y 155 (345)
T cd07376 76 ARLAGLLRQEAEFHVLVDSPEALAALAAFAAAHGVRLRVMLEVDVGGHRSGVRPEEAAALALADAVQASPGLRLAGVMAY 155 (345)
T ss_pred HHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCEEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEEEEEEEEE
T ss_conf 99999863498389997089999999999986598278999978899858888877999999999853999189899974
Q ss_pred CCCC-CCCCCH----HHHHHHHHHHHHHHHH-CCCCHHHCCCCHH--CCC--CCCCCHHHCCCCCCCCCCCCC-CCCCCC
Q ss_conf 2433-334667----8899999999997543-4886011164110--047--732220204873530678776-755676
Q gi|254780333|r 164 LACA-DDPSSH----VNSVQLERFRTLISHY-KGIEASLASSSGI--LLG--PNYHFQLTRPGISLYGGTDKI-NKSHPM 232 (370)
Q Consensus 164 fa~a-d~~~~~----~~~~Q~~~F~~~~~~~-~~~~~h~~nS~~~--l~~--p~~~~d~vR~Gi~lYG~~~~~-~~~~~l 232 (370)
-... ...+.. ......+...+..+.+ +++...+-+.+++ +.. .....+=+|||..+|...... .....+
T Consensus 156 ~Gh~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~vs~GgTpt~~~~~~~~~~tEl~~G~yvf~D~~~~~~~~~~~ 235 (345)
T cd07376 156 EGHIYGAGGAREGAQARDQAVAAVRAAAAAAERGLACPTVSGGGTPTYQLTAGDRAVTELRAGSYVFMDTGFDTLGACAQ 235 (345)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEECCCCCCCEEECCCCCCEEECCCEEEECCHHHCCCCCCCC
T ss_conf 71206999989999999999999999999986499988895578887410336887328746348964213201368984
Q ss_pred CCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEE
Q ss_conf 41001236886326714898346656534677641797123300260102368543344432328869999999507700
Q gi|254780333|r 233 QTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGK 312 (370)
Q Consensus 233 ~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGr 312 (370)
+|++..-++++.. .-++|..+=-.+.-....|. +..+.|+.-|.|. .+ +.+
T Consensus 236 ~~aa~~v~~Vis~-~~~~~~~~vd~G~kals~d~--~~~~~~~~~~~p~-------------------------~~-~~~ 286 (345)
T cd07376 236 RPAAFRVTTVISR-PAPTGRAVLDAGWKASSADT--AFIGGGAVLGRPE-------------------------LR-AVL 286 (345)
T ss_pred CCEEEEEEEEEEE-CCCCCEEEECCCCCCCCCCC--CCCCCCCCCCCCC-------------------------CE-EEE
T ss_conf 3300899866652-28886289886222223313--5678887558977-------------------------02-553
Q ss_pred CCCCCEEEEC----CCCCCCCCCCEEEEECCC
Q ss_conf 4256479966----887787888789997888
Q gi|254780333|r 313 ITMDMTMFDI----TDSLSIEVGDYIQIFGPD 340 (370)
Q Consensus 313 v~MD~~~vdv----t~~~~~~~GD~V~l~G~~ 340 (370)
.+-.+-.+.. ++..+.++||.|.|+=.+
T Consensus 287 ~s~ehg~~~~~~~~~~~~~l~vGd~v~liP~H 318 (345)
T cd07376 287 LSEEHEGRSEPLNTPDLDDLPIGDRVFLVPNH 318 (345)
T ss_pred ECCCCCEEECCCCCCCCCCCCCCCEEEEEECC
T ss_conf 01575304515667777899999999998088
No 25
>cd06843 PLPDE_III_PvsE_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE. This subfamily is composed of PvsE from Vibrio parahaemolyticus and similar proteins. PvsE is a vibrioferrin biosynthesis protein which is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. It has been suggested that PvsE may be involved in the biosynthesis of the polycarboxylate siderophore vibrioferrin. It may catalyze the decarboxylation of serine to yield ethanolamine. PvsE may require homodimer formation and the presence of the PLP cofactor for activity.
Probab=99.73 E-value=8e-15 Score=115.66 Aligned_cols=313 Identities=14% Similarity=0.114 Sum_probs=187.7
Q ss_pred EEEEHHHHHHHHHHHHH-HCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCC-
Q ss_conf 99868899999999986-2899759999932866579899999999879989998559999999983898526730689-
Q gi|254780333|r 9 LKIDLTALKNNWHSMNA-LSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGI- 86 (370)
Q Consensus 9 leIdl~al~~Ni~~i~~-~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~- 86 (370)
=..|++.|++|++.+++ +.++.++.--||||- ...+.+.+.+.|+ +|-|+|..|-..++..++..+|..-++.
T Consensus 5 YVyd~~~l~~~~~~l~~a~p~~~~~~YAvKaN~----~~~il~~l~~~G~-g~DvaS~~El~~~~~~~~~~~Iif~gp~K 79 (377)
T cd06843 5 YVYDLAALRAHARALRASLPPGCELFYAIKANS----DPPILRALAPHVD-GFEVASGGEIAHVRAAVPDAPLIFGGPGK 79 (377)
T ss_pred EEECHHHHHHHHHHHHHHCCCCCEEEEEECCCC----CHHHHHHHHHCCC-CEEEECHHHHHHHHHCCCCCCEEECCCCC
T ss_conf 996099999999999985799984999960388----9999999997699-68982999999998539996479889999
Q ss_pred CHHHHHHHHHHHH-HCCCCCHHHHHHHHHHHH-CCCCCCCEEEECCCC--------------CCCCCCHHHHHHHHHHHH
Q ss_conf 7469888875421-013489989999888876-088776167612666--------------765569889999998888
Q gi|254780333|r 87 HPGQEKIIFDTNL-IPVISSVPQLTFYSKLMS-CGVSHPYALQVDTGF--------------NRLGLSLQEALDFTHNSF 150 (370)
Q Consensus 87 ~~~~~~~~~~~~i-~~~i~s~~~l~~l~~~~~-~~~~~~vhlkiDTGM--------------~R~G~~~~e~~~~~~~~~ 150 (370)
.++++..+.+.++ ..++.|.++|+.+.++.+ .++..++-|-|+.+. +++|++++++.++++.+.
T Consensus 80 ~~~~l~~a~~~gv~~i~~DS~~El~~i~~~~~~~~~~~~v~lRinp~~~~~~~~~~~~~~~~sKFGi~~~~~~~~l~~~~ 159 (377)
T cd06843 80 TDSELAQALAQGVERIHVESELELRRLNAVARRAGRTAPVLLRVNLALPDLPSSTLTMGGQPTPFGIDEADLPDALELLR 159 (377)
T ss_pred CHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf 99999999987998899889999999998788619962899999678777775542058888778989899999999998
Q ss_pred HHHCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHC---CCCHHHCCCCHHC----CCCCCCCHHHCCCCC-----
Q ss_conf 6310001243201243333466788999999999975434---8860111641100----477322202048735-----
Q gi|254780333|r 151 NKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLISHYK---GIEASLASSSGIL----LGPNYHFQLTRPGIS----- 218 (370)
Q Consensus 151 ~~~~~~i~gi~THfa~ad~~~~~~~~~Q~~~F~~~~~~~~---~~~~h~~nS~~~l----~~p~~~~d~vR~Gi~----- 218 (370)
..+++++.|+-.|..+. ..+.......+++..++...++ +.....-|-+|=+ ..++..+|+-..+-.
T Consensus 160 ~~~~l~~~Glh~HvGS~-~~d~~~~~~~~~~~~~~~~~~~~~~g~~~~~iDiGGGf~v~y~~~~~~~d~~~~~~~i~~~~ 238 (377)
T cd06843 160 DLPNIRLRGFHFHLMSH-NLDAAAHLALVKAYLETARQWAAEHGLDLDVVNVGGGIGVNYADPEEQFDWAGFCEGLDQLL 238 (377)
T ss_pred HCCCCCEEEEEEECCCC-CCCHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf 28998567777733678-88979999999999999999999719973146505862446788888889899999999999
Q ss_pred -CCCCCC----CCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCC-CCCCCEEEEECCCCCCCEECCCCCCCCCCCC
Q ss_conf -306787----7675567641001236886326714898346656534-6776417971233002601023685433444
Q gi|254780333|r 219 -LYGGTD----KINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKK-LTRDSLIAVAAIGYADGYPLTLSGLDSEHSP 292 (370)
Q Consensus 219 -lYG~~~----~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~-~~~~~~iavipiGYaDG~pr~ls~~~~~~~~ 292 (370)
-|...+ +++..+ ...+..+-++|+.+|.... ..|. .+..+.--..|..|.-..|...........+
T Consensus 239 ~~~~~~~~l~~EPGR~l-va~ag~ll~~V~~vK~~~~-------~~~~~~d~g~~~~~~p~~~~~~~~~~~~~~~~~~~~ 310 (377)
T cd06843 239 AEYEPGLTLRFECGRYI-SAYCGYYVTEVLDLKRSHG-------EWFAVLRGGTHHFRLPAAWGHNHPFSVLPVEEWPYP 310 (377)
T ss_pred HHCCCCCEEEECCCCEE-EECCEEEEEEEEEEEECCC-------CEEEEECCCCCCCCCHHHHCCCCCEEEEECCCCCCC
T ss_conf 85299877997575278-7143499999999975199-------379998155344424134136684488753445555
Q ss_pred CCCCCCEEEECCEEEEEEEECCC--CCEEEECCCCCCCCCCCEEEEECCC
Q ss_conf 32328869999999507700425--6479966887787888789997888
Q gi|254780333|r 293 SVFLGGKGFIKGYMVPILGKITM--DMTMFDITDSLSIEVGDYIQIFGPD 340 (370)
Q Consensus 293 ~~~~~~~vli~G~~~pivGrv~M--D~~~vdvt~~~~~~~GD~V~l~G~~ 340 (370)
. ...-...+.+-|.|..|. |.+.-|+. .|++++||.+.+..-.
T Consensus 311 ~----~~~~~~~~~~~v~Gp~C~s~D~l~~~~~-lp~l~~GD~L~i~~~G 355 (377)
T cd06843 311 W----PRPSVRDTPVTLVGQLCTPKDVLARDVP-VDRLRAGDLVVFPLAG 355 (377)
T ss_pred C----CCCCCCCCEEEEECCCCCCCCEECCCCC-CCCCCCCCEEEECCCC
T ss_conf 5----7766677569999169899888873668-7889999999995887
No 26
>COG3616 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]
Probab=99.69 E-value=3.4e-14 Score=111.60 Aligned_cols=304 Identities=19% Similarity=0.220 Sum_probs=185.9
Q ss_pred CEEEEEEHHHHHHHHHHHHHHC--CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEE
Q ss_conf 5099986889999999998628--99759999932866579899999999879989998559999999983898526730
Q gi|254780333|r 6 FLRLKIDLTALKNNWHSMNALS--GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVL 83 (370)
Q Consensus 6 ~~~leIdl~al~~Ni~~i~~~~--~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl 83 (370)
-|-+.||++++.+|+..+++++ .+.++-+++|. |-+.++++...++|.....++++.||..+..+|++ +||+=
T Consensus 18 tP~~liD~dr~~~Ni~r~qa~~~~~g~~lrph~KT----~k~~~la~~ql~aGa~git~~tl~eae~~a~aGi~-dIl~a 92 (368)
T COG3616 18 TPAALIDLDRLDGNIDRMQARADDHGVRLRPHVKT----HKCPELARIQLDAGAWGITCATLGEAEVFADAGID-DILLA 92 (368)
T ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCEEECCCCC----CCCHHHHHHHHHCCCCEEEEECHHHHHHHHCCCCC-CEEEE
T ss_conf 96431128877636999998605448365012343----35879999998537731576106788998715865-25871
Q ss_pred CCCCHHHHHH-HHHH----H-HHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCCCCCCCCCHH-HHHHHHHHHHHHHCC
Q ss_conf 6897469888-8754----2-101348998999988887-608877616761266676556988-999999888863100
Q gi|254780333|r 84 YGIHPGQEKI-IFDT----N-LIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTGFNRLGLSLQ-EALDFTHNSFNKKLG 155 (370)
Q Consensus 84 ~~~~~~~~~~-~~~~----~-i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTGM~R~G~~~~-e~~~~~~~~~~~~~~ 155 (370)
.++.+..... +.+. . +..++.|.++++.+.++. ..++..++.|++|+|++|-|+... ....+...+...+.+
T Consensus 93 ~p~~~~~~~~~L~~l~~~~~~~~~~iDs~~~~~~l~~~~~~~~~pl~v~iE~D~G~~R~Gv~t~~~~~~La~~~~~~~~l 172 (368)
T COG3616 93 YPLPGRAALAALAELLADPPRISVLIDSVEQLDALAALARDAGKPLRVLIEIDSGLHRSGVRTPEVAEALAAEIAAAPGL 172 (368)
T ss_pred CCCCCHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHCCCE
T ss_conf 58871668999998518998429995788999999999875499746999957888866757868999999765204660
Q ss_pred CHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHH--HCCCCHHHCCCCHHCC----CCCCCCHHHCCCCCCCCCCCCCCC-
Q ss_conf 012432012433334667889999999999754--3488601116411004----773222020487353067877675-
Q gi|254780333|r 156 QLSLIISHLACADDPSSHVNSVQLERFRTLISH--YKGIEASLASSSGILL----GPNYHFQLTRPGISLYGGTDKINK- 228 (370)
Q Consensus 156 ~i~gi~THfa~ad~~~~~~~~~Q~~~F~~~~~~--~~~~~~h~~nS~~~l~----~p~~~~d~vR~Gi~lYG~~~~~~~- 228 (370)
.+.|+|||-..+-....... +.++|. .... ..+.....-.|+++=. ........+|+|-..|...-....
T Consensus 173 ~~~Gv~~y~gh~~~~~~~~~--~~~~~~-a~~~~~~~g~~~~~vt~ggtp~~~~~~~~~~~~e~r~G~Y~~~D~~~~~~g 249 (368)
T COG3616 173 RLAGVMTYPGHSYGPGSEVA--AAERVH-AAALLGAVGRAAPVLTSGGTPTAELVAGLSSTTELRAGNYVFNDLVQVAFG 249 (368)
T ss_pred EEEEEECCCCCCCCCCCHHH--HHHHHH-HHHHHCCCCCCCCEEECCCCCCHHHHCCCCCCEEECCCCEEEHHHHHHHHC
T ss_conf 78555303663467765333--333556-899740568766345327887322213577513651673342136666626
Q ss_pred -CCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECCEEE
Q ss_conf -5676410012368863267148983466565346776417971233002601023685433444323288699999995
Q gi|254780333|r 229 -SHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMV 307 (370)
Q Consensus 229 -~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~ 307 (370)
...---+|+.-+.|++.- .+|.-+-=-+.--..+|...+.-..|-+-|++..... +
T Consensus 250 ~~s~~d~Al~v~atvis~p--~~~~aivdaG~k~ls~D~~~~~~~~~~~~g~~~~~~~------------~--------- 306 (368)
T COG3616 250 IPSLSDGALTVAATVISHP--TPGRAIVDAGSKALSRDRPAARTGFGLGGGYEAARVA------------A--------- 306 (368)
T ss_pred CCCCCCCEEEEEEEEEECC--CCCEEECCCCCCCCCCCCCCCCCCEEECCCCHHHCCC------------C---------
T ss_conf 7751013047767999648--8865640578610005677676642440685432046------------3---------
Q ss_pred EEEEECCCCCEEEECCC--CCCCCCCCEEEEECCC
Q ss_conf 07700425647996688--7787888789997888
Q gi|254780333|r 308 PILGKITMDMTMFDITD--SLSIEVGDYIQIFGPD 340 (370)
Q Consensus 308 pivGrv~MD~~~vdvt~--~~~~~~GD~V~l~G~~ 340 (370)
|=+.+.+=++=.+.+.+ ....++||.|.|.=.+
T Consensus 307 ~e~~~ln~ehg~~~~~~~~~~~l~vGd~v~i~PnH 341 (368)
T COG3616 307 PEVMRLNEEHGTLSVQDPPADLLKVGDRVRLRPNH 341 (368)
T ss_pred CCCCCCCCCEEEEECCCCCCCCCCCCCEEEEECCC
T ss_conf 22356130126995367766668887769960796
No 27
>cd06828 PLPDE_III_DapDC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase. Diaminopimelate decarboxylase (DapDC, EC 4.1.1.20) participates in the last step of lysine biosynthesis. It converts meso-2,6-diaminoheptanedioate to L-lysine. It is a fold type III PLP-dependent enzyme that contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. DapDC exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.
Probab=99.67 E-value=6.7e-13 Score=103.25 Aligned_cols=307 Identities=16% Similarity=0.113 Sum_probs=184.5
Q ss_pred EEEEEEHHHHHHHHHHHHHHC--CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEEC
Q ss_conf 099986889999999998628--997599999328665798999999998799899985599999999838985267306
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNALS--GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLY 84 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~~--~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~ 84 (370)
|--.+|++.|++|++.+++.. ++.+++--+|||. ...+.+.+.+.|+ +|-|+|..|....+++|++..=.+++
T Consensus 4 P~yv~d~~~l~~~~~~l~~~~~~~~~~i~yAvKaN~----~~~il~~l~~~g~-g~dvaS~~El~~al~~G~~~~~Ii~~ 78 (373)
T cd06828 4 PLYVYDEATIRENYRRLKEAFSGPGFKICYAVKANS----NLAILKLLAEEGL-GADVVSGGELYRALKAGFPPERIVFT 78 (373)
T ss_pred CEEEEEHHHHHHHHHHHHHHHCCCCCEEEEEECCCC----CHHHHHHHHHHCC-EEEEECHHHHHHHHHCCCCHHHEEEC
T ss_conf 889988999999999999860458978999862279----9999999998599-18997999999999849995459981
Q ss_pred CC--CHHHHHHHHHHHH-HCCCCCHHHHHHHHHHHH-CCCCCCCEEEEC------------CCC--CCCCCCHHHHHHHH
Q ss_conf 89--7469888875421-013489989999888876-088776167612------------666--76556988999999
Q gi|254780333|r 85 GI--HPGQEKIIFDTNL-IPVISSVPQLTFYSKLMS-CGVSHPYALQVD------------TGF--NRLGLSLQEALDFT 146 (370)
Q Consensus 85 ~~--~~~~~~~~~~~~i-~~~i~s~~~l~~l~~~~~-~~~~~~vhlkiD------------TGM--~R~G~~~~e~~~~~ 146 (370)
++ ..+++..++++++ ..++.|.++|+.+.++.+ .+...++.|-|+ ||. +|+|++++++.+++
T Consensus 79 gp~K~~~~i~~A~~~gv~~i~~Ds~~El~~i~~~~~~~~~~~~v~lRinp~~~~~~~~~~~~~~~~sKFG~~~~~~~~~~ 158 (373)
T cd06828 79 GNGKSDEELELALELGILRINVDSLSELERLGEIAPELGKGAPVALRVNPGVDAGTHPYISTGGKDSKFGIPLEQALEAY 158 (373)
T ss_pred CCCCCHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCEECCCCCCCCCCCHHHHHHHH
T ss_conf 76411378999997398567629999999999862761998549999888988777762313775321389999999999
Q ss_pred HHHHHHHCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHC--CCCHHHCCCCHHCC--C-C-CCCCH------HHC
Q ss_conf 88886310001243201243333466788999999999975434--88601116411004--7-7-32220------204
Q gi|254780333|r 147 HNSFNKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLISHYK--GIEASLASSSGILL--G-P-NYHFQ------LTR 214 (370)
Q Consensus 147 ~~~~~~~~~~i~gi~THfa~ad~~~~~~~~~Q~~~F~~~~~~~~--~~~~h~~nS~~~l~--~-p-~~~~d------~vR 214 (370)
+.+...+++++.|+.-|..+- ..+.+.....+++..++.+.++ +.....-|=+|=+- | + +...| .++
T Consensus 159 ~~~~~~~~l~~~GlhfHvGS~-~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ldiGGGf~v~y~~~~~~~~~~~~~~~i~ 237 (373)
T cd06828 159 RRAKELPGLKLVGLHCHIGSQ-ILDLEPFVEAAEKLLDLAAELRELGIDLEFLDLGGGLGIPYRDEDEPLDIEEYAEAIA 237 (373)
T ss_pred HHHHHCCCCCEEEEEEECCCC-CCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEECCCCCCCCCCCCCCCCCHHHHHHHHH
T ss_conf 999857998468878864766-6887999999999999999999749986577436874645788889989999999999
Q ss_pred CCCCCCCC-CC------CCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECC-CCCC
Q ss_conf 87353067-87------7675567641001236886326714898346656534677641797123300260102-3685
Q gi|254780333|r 215 PGISLYGG-TD------KINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLT-LSGL 286 (370)
Q Consensus 215 ~Gi~lYG~-~~------~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~-ls~~ 286 (370)
.-+.-|.. .+ +++.. =..++..+-++|+.+|+.. +.+++++-.|..|-. |- +-+
T Consensus 238 ~~l~~~~~~~~~~~li~EPGR~-lva~ag~lvt~V~~~k~~~---------------~~~~~~~D~g~~~~~-rP~ly~- 299 (373)
T cd06828 238 EALKELCEGGPDLKLIIEPGRY-IVANAGVLLTRVGYVKETG---------------GKTFVGVDAGMNDLI-RPALYG- 299 (373)
T ss_pred HHHHHHHCCCCCCEEEEECCHH-HHCCCCEEEEEEEEEEECC---------------CEEEEEECCCCCCCC-CHHHCC-
T ss_conf 9999974248986799904268-6506756999999999649---------------808999778634455-656517-
Q ss_pred CCCCCCCCCCCCEEEECCEEEEEEEECCCC--CEEEECCCCCCCCCCCEEEEECCC
Q ss_conf 433444323288699999995077004256--479966887787888789997888
Q gi|254780333|r 287 DSEHSPSVFLGGKGFIKGYMVPILGKITMD--MTMFDITDSLSIEVGDYIQIFGPD 340 (370)
Q Consensus 287 ~~~~~~~~~~~~~vli~G~~~pivGrv~MD--~~~vdvt~~~~~~~GD~V~l~G~~ 340 (370)
..|......+.. --....+-|.|..|+. .+.-|+. .|++++||.+++..-.
T Consensus 300 -~~~~i~~~~~~~-~~~~~~~~v~Gp~C~s~D~l~~~~~-lp~l~~GD~l~~~~~G 352 (373)
T cd06828 300 -AYHEIVPVNKPG-EGETEKVDVVGPICESGDVFAKDRE-LPEVEEGDLLAIHDAG 352 (373)
T ss_pred -CCCCEEECCCCC-CCCCEEEEEECCCCCCCCEECCCCC-CCCCCCCCEEEECCCC
T ss_conf -756117648888-8982489998369898878884642-7899999999992986
No 28
>cd06810 PLPDE_III_ODC_DapDC_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes. This family includes eukaryotic ornithine decarboxylase (ODC, EC 4.1.1.17), diaminopimelate decarboxylase (DapDC, EC 4.1.1.20), plant and prokaryotic biosynthetic arginine decarboxylase (ADC, EC 4.1.1.19), carboxynorspermidine decarboxylase (CANSDC), and ODC-like enzymes from diverse bacterial species. These proteins are fold type III PLP-dependent enzymes that catalyze essential steps in the biosynthesis of polyamine and lysine. ODC and ADC participate in alternative pathways of the biosynthesis of putrescine, which is the precursor of aliphatic polyamines in many organisms. ODC catalyzes the direct synthesis of putrescine from L-ornithine, while ADC converts L-arginine to agmatine, which is hydrolysed to putrescine by agmatinase in a pathway that exists only in plants and bacteria. DapDC converts meso-2,6-diaminoheptanedioate to
Probab=99.67 E-value=9.9e-13 Score=102.12 Aligned_cols=308 Identities=16% Similarity=0.114 Sum_probs=187.0
Q ss_pred EEEEEHHHHHHHHHHHHHHC-CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCC
Q ss_conf 99986889999999998628-99759999932866579899999999879989998559999999983898526730689
Q gi|254780333|r 8 RLKIDLTALKNNWHSMNALS-GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGI 86 (370)
Q Consensus 8 ~leIdl~al~~Ni~~i~~~~-~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~ 86 (370)
--.+|++.|+.|++.+++.. ++.+++--+|||. ...+.+.+.+.|+ +|-|+|..|....++.|++..-.+++++
T Consensus 3 ~yv~d~~~l~~~~~~~~~~~~~~~~i~YAvKaN~----~~~vl~~l~~~g~-g~dvaS~~El~~al~~G~~~~~Ii~~gp 77 (368)
T cd06810 3 FYVYDLDIIRAHYAALKEALPSGVKLFYAVKANP----NPHVLRTLAEAGT-GFDVASKGELALALAAGVPPERIIFTGP 77 (368)
T ss_pred EEEEEHHHHHHHHHHHHHHCCCCCEEEEEECCCC----CHHHHHHHHHHCC-EEEEECHHHHHHHHHCCCCHHHEEEECC
T ss_conf 9998699999999999975799978999965389----9999999998599-1897799999999985999441999455
Q ss_pred --CHHHHHHHHHHHH-HCCCCCHHHHHHHHHHHH-CCCCCCCEEEECCC-------------CCCCCCCHHHHHHHHHHH
Q ss_conf --7469888875421-013489989999888876-08877616761266-------------676556988999999888
Q gi|254780333|r 87 --HPGQEKIIFDTNL-IPVISSVPQLTFYSKLMS-CGVSHPYALQVDTG-------------FNRLGLSLQEALDFTHNS 149 (370)
Q Consensus 87 --~~~~~~~~~~~~i-~~~i~s~~~l~~l~~~~~-~~~~~~vhlkiDTG-------------M~R~G~~~~e~~~~~~~~ 149 (370)
..+++..++++++ ..++.|.++++.+.++.+ .+.+.++.|-++.+ .+|+|++.+|+.++++.+
T Consensus 78 ~K~~~~l~~a~~~gv~~i~~Ds~~El~~i~~~~~~~~~~~~i~lRinp~~~~~~~~~~~~~~~sKFGi~~~~~~~~~~~~ 157 (368)
T cd06810 78 AKSVSEIEAALASGVDHIVVDSLDELERLNELAKKLGPKARILLRVNPDVSAGTHKISTGGLKSKFGLSLSEARAALERA 157 (368)
T ss_pred CCCCHHHHHHHHCCCCCEEECCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCEEECCCCCCCCCCCCHHHHHHHHHHH
T ss_conf 45305699999759784555799999999999985699975999994487877521036888776799999999999999
Q ss_pred HHHHCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHC--CCCHHHCCCCHHCC--CCCCCCHH------HCCCCCC
Q ss_conf 86310001243201243333466788999999999975434--88601116411004--77322202------0487353
Q gi|254780333|r 150 FNKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLISHYK--GIEASLASSSGILL--GPNYHFQL------TRPGISL 219 (370)
Q Consensus 150 ~~~~~~~i~gi~THfa~ad~~~~~~~~~Q~~~F~~~~~~~~--~~~~h~~nS~~~l~--~p~~~~d~------vR~Gi~l 219 (370)
... .+++.|+.-|..+-- .+......-+++..++.+.+. +.....-|=+|=+- +.+...|+ ++.-+.-
T Consensus 158 ~~~-~l~l~GlhfH~GS~~-~~~~~~~~~i~~~~~~~~~~~~~g~~~~~idiGGGf~~~y~~~~~~~~~~~~~i~~~~~~ 235 (368)
T cd06810 158 KEL-DLRLVGLHFHVGSQI-LDLETIVQALSDARELIEELVEMGFPLEMLDLGGGLGIPYDEQPLDFEEYAALINPLLKK 235 (368)
T ss_pred HHC-CCCEEEEEEECCCCC-CCHHHHHHHHHHHHHHHHHHHHHCCCCCEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf 865-996789999768776-886999999999999999998629985346437885777888998999999999999998
Q ss_pred C-CCCCCCC--CCC---CCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCC-CCCCCCCCC
Q ss_conf 0-6787767--556---76410012368863267148983466565346776417971233002601023-685433444
Q gi|254780333|r 220 Y-GGTDKIN--KSH---PMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTL-SGLDSEHSP 292 (370)
Q Consensus 220 Y-G~~~~~~--~~~---~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~l-s~~~~~~~~ 292 (370)
| ...+.+. -+. =...+..+-++|+.+|... +.+++++-.|-.+.++-.+ .+.. +..
T Consensus 236 ~~~~~~~~~l~~EPGR~lva~ag~lv~~V~~~K~~~---------------~~~~~~vd~g~~~~~~~~~~~~~~--~~~ 298 (368)
T cd06810 236 YFPNDPGVTLILEPGRYIVAQAGVLVTRVVAVKVNG---------------GRFFAVVDGGMNHSFRPALAYDAY--HPI 298 (368)
T ss_pred HHCCCCCCEEEECCCHHHHHCCCCEEEEEEEEEECC---------------CCEEEEECCCCCCCCCCHHHCCCC--CCE
T ss_conf 723478968998664456524361999999999759---------------971899766434556623216884--642
Q ss_pred CCC-CCCEEEECCEEEEEEEECCCCC-EEEECCCCCCCCCCCEEEEECCC
Q ss_conf 323-2886999999950770042564-79966887787888789997888
Q gi|254780333|r 293 SVF-LGGKGFIKGYMVPILGKITMDM-TMFDITDSLSIEVGDYIQIFGPD 340 (370)
Q Consensus 293 ~~~-~~~~vli~G~~~pivGrv~MD~-~~vdvt~~~~~~~GD~V~l~G~~ 340 (370)
... ..+. --.-..+-|.|..|+.. ++.+-...|++++||.+.+..-.
T Consensus 299 ~~~~~~~~-~~~~~~~~i~G~~C~~~D~l~~~~~lp~l~~GD~l~~~~~G 347 (368)
T cd06810 299 TPLKAPGP-DEPLVPATLAGPLCDSGDVIGRDRLLPELEVGDLLVFEDMG 347 (368)
T ss_pred EECCCCCC-CCCEEEEEEECCCCCCCCEEEECCCCCCCCCCCEEEECCCC
T ss_conf 86178888-89866999975588868799568857889999999776947
No 29
>cd06839 PLPDE_III_Btrk_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase. This subfamily is composed of Bacillus circulans BtrK decarboxylase and similar proteins. These proteins are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases, eukaryotic ornithine decarboxylases and diaminopimelate decarboxylases. BtrK is presumed to function as a PLP-dependent decarboxylase involved in the biosynthesis of the aminoglycoside antibiotic butirosin. Homodimer formation and the presence of the PLP cofactor may be required for catalytic activity.
Probab=99.66 E-value=1.3e-12 Score=101.46 Aligned_cols=307 Identities=12% Similarity=0.078 Sum_probs=181.7
Q ss_pred EEEEEEHHHHHHHHHHHHHHCC-CCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCC-CEEEEC
Q ss_conf 0999868899999999986289-97599999328665798999999998799899985599999999838985-267306
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNALSG-NARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQA-RIFVLY 84 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~~~-~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~-~Ilvl~ 84 (370)
|--..|++.|++|++.+++..+ ..+++--+||| -...+.+.+.+.|+ +|-|+|..|-...+++|++. +|..-+
T Consensus 8 P~yv~d~~~i~~~~~~l~~alp~~~~i~YAvKaN----~~~~vl~~l~~~G~-g~DvaS~~El~~al~~G~~~~~Ii~~g 82 (382)
T cd06839 8 PFYVYDRDRVRERYAALRAALPPAIEIYYSLKAN----PNPALVAHLRQLGD-GAEVASAGELALALEAGVPPEKILFAG 82 (382)
T ss_pred CEEEEEHHHHHHHHHHHHHHCCCCCEEEEEECCC----CCHHHHHHHHHCCC-EEEEECHHHHHHHHHCCCCCCCEEEEC
T ss_conf 8899879999999999998589997599997048----99999999997499-099989999999998599953107616
Q ss_pred CC-CHHHHHHHHHHHH-HCCCCCHHHHHHHHHHHH-CCCCCCCEEEECCCC-------------CCCCCCHHHHHHHHHH
Q ss_conf 89-7469888875421-013489989999888876-088776167612666-------------7655698899999988
Q gi|254780333|r 85 GI-HPGQEKIIFDTNL-IPVISSVPQLTFYSKLMS-CGVSHPYALQVDTGF-------------NRLGLSLQEALDFTHN 148 (370)
Q Consensus 85 ~~-~~~~~~~~~~~~i-~~~i~s~~~l~~l~~~~~-~~~~~~vhlkiDTGM-------------~R~G~~~~e~~~~~~~ 148 (370)
+. ..++++.++++++ ..++.|.++++.+.++.. .+...++.|-|+.+. +++|+.++++.++++.
T Consensus 83 p~K~~~~l~~a~~~gv~~i~~Ds~~El~~i~~~a~~~~~~~~v~lRinp~~~~~~~~~~~~g~~skFGi~~~~~~~~~~~ 162 (382)
T cd06839 83 PGKSDAELRRAIEAGIGTINVESLEELERIDALAEEHGVVARVALRINPDFELKGSGMKMGGGPSQFGIDVEELPAVLAR 162 (382)
T ss_pred CCCCHHHHHHHHHCCCCEEECCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf 87888999999983995764386799999999998639974699998158877877614478854458999999999999
Q ss_pred HHHHHCCCHHHHHCCCCCCCCCCCHHHHHHHHH----HHHHHHHHCCCCHHHCCCCHHC---CCC-CCCCH------HHC
Q ss_conf 886310001243201243333466788999999----9999754348860111641100---477-32220------204
Q gi|254780333|r 149 SFNKKLGQLSLIISHLACADDPSSHVNSVQLER----FRTLISHYKGIEASLASSSGIL---LGP-NYHFQ------LTR 214 (370)
Q Consensus 149 ~~~~~~~~i~gi~THfa~ad~~~~~~~~~Q~~~----F~~~~~~~~~~~~h~~nS~~~l---~~p-~~~~d------~vR 214 (370)
+.+.+++++.|+-.|..+.-. +.+.-...+++ +.++.+.+ +.....-|=+|=+ ..+ +...| .++
T Consensus 163 ~~~~~~l~~~Glh~H~GS~~~-~~~~~~~a~~~~~~~~~~~~~~~-g~~~~~idiGGGf~v~y~~~~~~~d~~~~~~~i~ 240 (382)
T cd06839 163 IAALPNLRFVGLHIYPGTQIL-DADALIEAFRQTLALALRLAEEL-GLPLEFLDLGGGFGIPYFPGETPLDLEALGAALA 240 (382)
T ss_pred HHHCCCCCEEEEEEECCCCCC-CHHHHHHHHHHHHHHHHHHHHHC-CCCCEEEECCCCCCCCCCCCCCCCCHHHHHHHHH
T ss_conf 984689837888983577778-97999999999999999989865-9885177505873767889899989999999999
Q ss_pred CCCCCCCCC-C------CCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCC
Q ss_conf 873530678-7------767556764100123688632671489834665653467764179712330026010236854
Q gi|254780333|r 215 PGISLYGGT-D------KINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLD 287 (370)
Q Consensus 215 ~Gi~lYG~~-~------~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~ 287 (370)
.-+.-|... + +++. .=..++..+-++|+.+|... +.+++++..|+.+-+.-......
T Consensus 241 ~~~~~~~~~~~~~~l~~EPGR-~lva~ag~lv~~V~~~K~~~---------------~~~~~~~D~g~~~~~~~~~~~~~ 304 (382)
T cd06839 241 ALLAELGDRLPGTRVVLELGR-YLVGEAGVYVTRVLDRKVSR---------------GETFLVTDGGMHHHLAASGNFGQ 304 (382)
T ss_pred HHHHHHHHCCCCCEEEEECCC-EEECCCEEEEEEEEEEEECC---------------CCEEEEEECCCCCCCHHHCCHHH
T ss_conf 999986420589689991350-03215717999999998359---------------95799990753344123223256
Q ss_pred CCC--CCCC---CCCCEEEECCEEEEEEEECCCC--CEEEECCCCCCCCCCCEEEEECCC
Q ss_conf 334--4432---3288699999995077004256--479966887787888789997888
Q gi|254780333|r 288 SEH--SPSV---FLGGKGFIKGYMVPILGKITMD--MTMFDITDSLSIEVGDYIQIFGPD 340 (370)
Q Consensus 288 ~~~--~~~~---~~~~~vli~G~~~pivGrv~MD--~~~vdvt~~~~~~~GD~V~l~G~~ 340 (370)
..+ .|.. ..... .-+.+-|.|.+|+. .+.-|. ..|++++||.+++..-.
T Consensus 305 ~~~~~~p~~~~~~~~~~---~~~~~~v~Gp~C~s~D~l~~~~-~lp~l~~GD~L~i~~~G 360 (382)
T cd06839 305 VLRRNYPLAILNRMGGE---ERETVTVVGPLCTPLDLLGRNV-ELPPLEPGDLVAVLQSG 360 (382)
T ss_pred HHCCCCCEEECCCCCCC---CEEEEEEECCCCCCCCEECCCC-CCCCCCCCCEEEECCCC
T ss_conf 53147607824788889---8169999898888877987054-67889999999995986
No 30
>cd06841 PLPDE_III_MccE_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE. This subfamily is composed of uncharacterized proteins with similarity to Escherichia coli MccE, a hypothetical protein that is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine. Most members of this subfamily share the same domain architecture as ODC and DapDC. A few members, including Escherichia coli MccE, contain an additional acetyltransferase domain at the C-terminus.
Probab=99.65 E-value=3e-12 Score=99.07 Aligned_cols=306 Identities=15% Similarity=0.110 Sum_probs=182.3
Q ss_pred EEEEEEHHHHHHHHHHHHHH----CCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEE
Q ss_conf 09998688999999999862----89975999993286657989999999987998999855999999998389852673
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNAL----SGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFV 82 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~----~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilv 82 (370)
|--..|++.|+.|++.+++. .++.+++--||||. ...+.+.+.+.|+ .|-|+|..|-...+++|+...-++
T Consensus 8 P~yv~d~~~l~~n~~~l~~~~~~~~p~~~i~YAvKaN~----~~~vl~~l~~~G~-g~DvaS~~El~~al~~g~~~~~Ii 82 (379)
T cd06841 8 PFFVFDEDALRENYRELLGAFKKRYPNVVIAYSYKTNY----LPAICKILHEEGG-YAEVVSAMEYELALKLGVPGKRII 82 (379)
T ss_pred CEEEEEHHHHHHHHHHHHHHHHHCCCCEEEEEEECCCC----CHHHHHHHHHHCC-CEEEECHHHHHHHHHCCCCCCEEE
T ss_conf 88998699999999999999876089829999962175----8999999998399-859989999999998599932299
Q ss_pred ECCC--CHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHC-CCCCCCEEEEC----CC-CCCCCCCHHHHHHH---HHHHHH
Q ss_conf 0689--74698888754210134899899998888760-88776167612----66-67655698899999---988886
Q gi|254780333|r 83 LYGI--HPGQEKIIFDTNLIPVISSVPQLTFYSKLMSC-GVSHPYALQVD----TG-FNRLGLSLQEALDF---THNSFN 151 (370)
Q Consensus 83 l~~~--~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~-~~~~~vhlkiD----TG-M~R~G~~~~e~~~~---~~~~~~ 151 (370)
++++ .+++++.++++++..++.|.++++.+.++.+. +...++-|-++ ++ .+|+|+++++..++ ++++..
T Consensus 83 ~~gp~K~~~~i~~a~~~g~~i~vDs~~El~~l~~~a~~~~~~~~i~lRvn~~~~~~~~skFG~~~~~~~~~l~~~~~~~~ 162 (379)
T cd06841 83 FNGPYKSKEELEKALEEGALINIDSFDELERILEIAKELGRVAKVGIRLNMNYGNNVWSRFGFDIEENGEALAALKKIQE 162 (379)
T ss_pred ECCCCCCHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 88998987999999985993044888999999999986499747999965888888643469998999999999998754
Q ss_pred HHCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHCCCCHHCCC----------CCCCCH------HHCC
Q ss_conf 310001243201243333466788999999999975434886011164110047----------732220------2048
Q gi|254780333|r 152 KKLGQLSLIISHLACADDPSSHVNSVQLERFRTLISHYKGIEASLASSSGILLG----------PNYHFQ------LTRP 215 (370)
Q Consensus 152 ~~~~~i~gi~THfa~ad~~~~~~~~~Q~~~F~~~~~~~~~~~~h~~nS~~~l~~----------p~~~~d------~vR~ 215 (370)
.+++++.|+..|..+-- .+.......+++..+++.++.+.....-|=+|=+.. .+...| .++.
T Consensus 163 ~~~l~~~GlhfHvGS~~-~d~~~~~~~~~~~~~~~~~~~~~~~~~idiGGGf~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 241 (379)
T cd06841 163 SKNLSLVGLHCHVGSNI-LNPEAYSAAAKKLIELLDRLFGLELEYLDLGGGFPAKTPLSLAYPQEDTVPDPEDYAEAIAS 241 (379)
T ss_pred CCCCEEEEEEEECCCCC-CCHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf 58972999998889875-89899999999999999996199960998078757677765456788899999999999999
Q ss_pred CCCCCC----CCC----CCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCC
Q ss_conf 735306----787----767556764100123688632671489834665653467764179712330026010236854
Q gi|254780333|r 216 GISLYG----GTD----KINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLD 287 (370)
Q Consensus 216 Gi~lYG----~~~----~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~ 287 (370)
-+.-|. ..+ +++. .=..++..+-++|+.+|+.. +.+++++-.|..+- ++.....+
T Consensus 242 ~l~~~~~~~~~~~~li~EPGR-~lv~~ag~lv~~V~~~K~~~---------------~~~~~~~D~g~~~~-~~~~~~~~ 304 (379)
T cd06841 242 TLKEYYANKENKPKLILEPGR-ALVDDAGYLLGRVVAVKNRY---------------GRNIAVTDAGINNI-PTIFWYHH 304 (379)
T ss_pred HHHHHCCCCCCCCEEEECCCH-HHHHCCEEEEEEEEEEEEEC---------------CCEEEEECCCCCCC-CCHHHCCC
T ss_conf 999855102788669981671-11114157999999999609---------------92799982664577-17465698
Q ss_pred CCCCCCCCCCCEEEECCEEEEEEEECC--CCCEEEECCCCCCCCCCCEEEEECC
Q ss_conf 334443232886999999950770042--5647996688778788878999788
Q gi|254780333|r 288 SEHSPSVFLGGKGFIKGYMVPILGKIT--MDMTMFDITDSLSIEVGDYIQIFGP 339 (370)
Q Consensus 288 ~~~~~~~~~~~~vli~G~~~pivGrv~--MD~~~vdvt~~~~~~~GD~V~l~G~ 339 (370)
.......+.---.-..+-|.|..| +|.+.-++. .|++++||.+++..-
T Consensus 305 ---~~~~~~~~~~~~~~~~~~v~G~~C~~~D~l~~~~~-lp~l~~GD~l~~~~~ 354 (379)
T cd06841 305 ---PILVLRPGKEDPTSKNYDVYGFNCMESDVLFPNVP-LPPLNVGDILAIRNV 354 (379)
T ss_pred ---CEEEECCCCCCCCCEEEEEECCCCCCCCEEEECCC-CCCCCCCCEEEECCC
T ss_conf ---77955788888983089998878663569903513-789999999978783
No 31
>cd06840 PLPDE_III_Bif_AspK_DapDC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bifunctional Aspartate Kinase/Diaminopimelate Decarboxylase. Bifunctional aspartate kinase/diaminopimelate decarboxylase (AspK/DapDC, EC 4.1.1.20/EC 2.7.2.4) typically exists in bacteria. These proteins contain an N-terminal AspK region and a C-terminal DapDC region, which contains a PLP-binding TIM-barrel domain followed by beta-sandwich domain, characteristic of fold type III PLP-dependent enzymes. Members of this subfamily have not been fully characterized. Based on their sequence, these proteins may catalyze both reactions catalyzed by AspK and DapDC. AspK catalyzes the phosphorylation of L-aspartate to produce 4-phospho-L-aspartate while DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine.
Probab=99.62 E-value=3.1e-12 Score=98.93 Aligned_cols=302 Identities=15% Similarity=0.094 Sum_probs=171.9
Q ss_pred EEEEEEHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHH--CCCCCEEEEC
Q ss_conf 09998688999999999862899759999932866579899999999879989998559999999983--8985267306
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLY--TPQARIFVLY 84 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~--g~~~~Ilvl~ 84 (370)
|--.+|++.|+.|++.+++..+..+++--||||. ...+.+.|.+.|+ +|-|+|..|-...++. |++..=.+++
T Consensus 13 P~yVyd~~~i~~~~~~~~~~~~~~~~~YAvKaN~----~~~vl~~l~~~G~-g~dvaS~~El~~al~~~~G~~~~~Iv~~ 87 (368)
T cd06840 13 PCYVYDLETVRARARQVSALKAVDSLFYAIKANP----HPDVLRTLEEAGL-GFECVSIGELDLVLKLFPDLDPRRVLFT 87 (368)
T ss_pred CEEEEEHHHHHHHHHHHHHCCCCCCEEEEEECCC----CHHHHHHHHHCCC-CEEEECHHHHHHHHHHHCCCCHHHEEEC
T ss_conf 8899879999999999972578781899970489----9999999998199-8699899999999986469986886856
Q ss_pred CC--CHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEE------------CCC--CCCCCCCHHHHHHHHHH
Q ss_conf 89--746988887542101348998999988887608877616761------------266--67655698899999988
Q gi|254780333|r 85 GI--HPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYALQV------------DTG--FNRLGLSLQEALDFTHN 148 (370)
Q Consensus 85 ~~--~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlki------------DTG--M~R~G~~~~e~~~~~~~ 148 (370)
++ .+++++.+++.++..++.|.++++.+.++.+ ..++.|-| .|| -+|+|++++|+.++++.
T Consensus 88 gp~K~~~~l~~A~~~gv~i~~Ds~~el~~i~~~~~---~~~v~lRinp~~~~~~~~~~~~~~~~sKFG~~~~e~~~~l~~ 164 (368)
T cd06840 88 PNFAARSEYEQALELGVNVTVDNLHPLREWPELFR---GREVILRIDPGQGEGHHKHVRTGGPESKFGLDVDELDEARDL 164 (368)
T ss_pred CCCCCHHHHHHHHHCCCEEEECCHHHHHHHHHHCC---CCEEEEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf 78899999999998599599888999999987525---880899982686876666420588602479987889999999
Q ss_pred HHHHHCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHCCCCHHCCCC----CCCCHHH--CCCCCCC-C
Q ss_conf 8863100012432012433334667889999999999754348860111641100477----3222020--4873530-6
Q gi|254780333|r 149 SFNKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLISHYKGIEASLASSSGILLGP----NYHFQLT--RPGISLY-G 221 (370)
Q Consensus 149 ~~~~~~~~i~gi~THfa~ad~~~~~~~~~Q~~~F~~~~~~~~~~~~h~~nS~~~l~~p----~~~~d~v--R~Gi~lY-G 221 (370)
.. ..++++.|+..|..+.- .+......-++...++.+.+.. ...-|-+|=+-.| +..+|+- ...+.-+ .
T Consensus 165 ~~-~~~l~~~GlhfH~GS~~-~~~~~~~~~~~~~~~~~~~~~~--~~~ldiGGGf~~~y~~~~~~~~~~~~~~~l~~~~~ 240 (368)
T cd06840 165 AK-KAGIIVIGLHAHSGSGV-EDTDHWARHGDYLASLARHFPA--VRILNVGGGLGIPEAPGGRPIDLDALDAALAAAKA 240 (368)
T ss_pred HH-HCCCCEEEEEEECCCCC-CCHHHHHHHHHHHHHHHHHCCC--CCEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf 98-57993899998678777-8989999999999999973655--23476447657478888886489999999999986
Q ss_pred CCC------CCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCC
Q ss_conf 787------76755676410012368863267148983466565346776417971233002601023685433444323
Q gi|254780333|r 222 GTD------KINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVF 295 (370)
Q Consensus 222 ~~~------~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~ 295 (370)
..+ +++..+ ...+..+-++|+.+|+-.. ++.+++..|..+-+.-.+.+ ..|.....
T Consensus 241 ~~~~~~l~~EPGR~l-va~ag~lvt~V~~~k~~~~---------------~~~~~~d~G~~~~~~~~~~~--~~~~~~~~ 302 (368)
T cd06840 241 AHPQYQLWMEPGRFI-VAESGVLLARVTQIKHKDG---------------VRFVGLETGMNSLIRPALYG--AYHEIVNL 302 (368)
T ss_pred HCCCCEEEECCCHHH-HCCCEEEEEEEEEEEECCC---------------CEEEEECCCCCCCCCHHHCC--CCCCEEEC
T ss_conf 489978998147013-2275179999999986388---------------32899887634556767706--55502534
Q ss_pred CCCEEEECCEEEEEEEECCCC--CEEEECCCCCCCCCCCEEEEECCC
Q ss_conf 288699999995077004256--479966887787888789997888
Q gi|254780333|r 296 LGGKGFIKGYMVPILGKITMD--MTMFDITDSLSIEVGDYIQIFGPD 340 (370)
Q Consensus 296 ~~~~vli~G~~~pivGrv~MD--~~~vdvt~~~~~~~GD~V~l~G~~ 340 (370)
...---....+.|.|..|+. .+.-|.. .|+.++||++.+..-.
T Consensus 303 -~~~~~~~~~~~~v~GptC~~~D~l~~~~~-lp~l~~GD~l~~~~~G 347 (368)
T cd06840 303 -SRLDEPPAGNADVVGPICESGDVLGRDRL-LPETEEGDVILIANAG 347 (368)
T ss_pred -CCCCCCCCEEEEEECCCCCCCCEECCCCC-CCCCCCCCEEEECCCC
T ss_conf -77888885489998379672229894631-7889999999776826
No 32
>cd06831 PLPDE_III_ODC_like_AZI Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase-like Antizyme Inhibitor. Antizyme inhibitor (AZI) is homologous to the fold type III PLP-dependent enzyme ODC but does not retain any decarboxylase activity. Like ODC, AZI is presumed to exist as a homodimer. Antizyme is a regulatory protein that binds directly to the ODC monomer to block its active site, leading to its degradation by the 26S proteasome. AZI binds to Antizyme with a higher affinity than ODC, preventing the formation of the Antizyme-ODC complex. Thus, AZI blocks the ability of Antizyme to promote ODC degradation, which leads to increased ODC enzymatic activity and polyamine levels. AZI also prevents the degradation of other proteins regulated by Antizyme, such as cyclin D1.
Probab=99.61 E-value=3.4e-12 Score=98.66 Aligned_cols=313 Identities=13% Similarity=0.123 Sum_probs=177.9
Q ss_pred EEEEHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCC--
Q ss_conf 998688999999999862899759999932866579899999999879989998559999999983898526730689--
Q gi|254780333|r 9 LKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGI-- 86 (370)
Q Consensus 9 leIdl~al~~Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~-- 86 (370)
-..|++.|++|++.+|+..|+.++.--||||. ...|.+.|.+.|+ +|-|+|..|-...+++|.+..=.+++++
T Consensus 16 yvyD~~~i~~~~~~~~~~lp~v~~~YAvKaN~----~~~il~~L~~~G~-g~DvaS~gEl~~al~aG~~p~~Iif~gp~K 90 (394)
T cd06831 16 FVGDLGKIVKKHSQWQTVMAQIKPFYTVRCNS----TPAVLEILAALGT-GFACSSKNEMALVQELGVSPENIIYTNPCK 90 (394)
T ss_pred EEEEHHHHHHHHHHHHHHCCCCCEEEEECCCC----CHHHHHHHHHCCC-CEEEECHHHHHHHHHCCCCHHHEEECCCCC
T ss_conf 99589999999999998689985787862499----8999999997499-889869999999998699879979779999
Q ss_pred CHHHHHHHHHHHHH-CCCCCHHHHHHHHHHHHCCCCCCCEEEECC----C----CCCCCCCHHHHHHHHHHHHHHHCCCH
Q ss_conf 74698888754210-134899899998888760887761676126----6----67655698899999988886310001
Q gi|254780333|r 87 HPGQEKIIFDTNLI-PVISSVPQLTFYSKLMSCGVSHPYALQVDT----G----FNRLGLSLQEALDFTHNSFNKKLGQL 157 (370)
Q Consensus 87 ~~~~~~~~~~~~i~-~~i~s~~~l~~l~~~~~~~~~~~vhlkiDT----G----M~R~G~~~~e~~~~~~~~~~~~~~~i 157 (370)
.+++++.+.+.++. .++.|.++|+.+.+. ....++.+.|++ + ..++|++.+++.++++.... .++++
T Consensus 91 t~~ei~~A~~~GV~~~~~Ds~~EL~ki~r~---~~~~~v~lri~~~~~~~~~~~~~KFG~~~~~~~~ll~~~~~-~~l~~ 166 (394)
T cd06831 91 QASQIKYAAKVGVNIMTCDNEIELKKIARN---HPNAKLLLHIATEDNIGGEEMNMKFGTTLKNCRHLLECAKE-LDVQI 166 (394)
T ss_pred CHHHHHHHHHCCCCEEECCCHHHHHHHHHH---CCCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHH-CCCEE
T ss_conf 999999999859977853768999999987---89996078873477777775676545679999999999986-49869
Q ss_pred HHHHCCCCCCCCCCCHHHHHHHHHHH---HHHHHHCCCCHHHCCCCHHCCCCCCCCH----HHCCCCCCC-----CC--C
Q ss_conf 24320124333346678899999999---9975434886011164110047732220----204873530-----67--8
Q gi|254780333|r 158 SLIISHLACADDPSSHVNSVQLERFR---TLISHYKGIEASLASSSGILLGPNYHFQ----LTRPGISLY-----GG--T 223 (370)
Q Consensus 158 ~gi~THfa~ad~~~~~~~~~Q~~~F~---~~~~~~~~~~~h~~nS~~~l~~p~~~~d----~vR~Gi~lY-----G~--~ 223 (370)
.|+--|..+.-...+.+ ...+++.. ++.+.+ +.....-|=+|=+..++..++ .+++=+-.| |. .
T Consensus 167 ~Glh~HvGSq~~~~~~~-~~a~~~~~~v~dl~~~~-g~~~~~lDiGGGf~~~~~~~~~~~~~i~~~~~~~f~~~~~~~li 244 (394)
T cd06831 167 VGVKFHVSSSCKEYQTY-VHALSDARCVFDMAEEF-GFKMNMLDIGGGFTGSEIQLEEVNHVIRPLLDVYFPEGSGIQII 244 (394)
T ss_pred EEEEEECCCCCCCHHHH-HHHHHHHHHHHHHHHHC-CCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEE
T ss_conf 99853315776884999-99999999999999971-99974898789988777897999999999999866346897799
Q ss_pred CCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCC----CCCE
Q ss_conf 776755676410012368863267148983466565346776417971233002601023685433444323----2886
Q gi|254780333|r 224 DKINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVF----LGGK 299 (370)
Q Consensus 224 ~~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~----~~~~ 299 (370)
-+++. .=..++.++.++|+..|.......+.=+......++.....+.-|....+.+.+.... ...+.+. .+.+
T Consensus 245 ~EPGR-~lva~ag~l~t~Vi~~k~~~~~~~~~~~~~~~~~~~~~~~~i~~g~yg~~~~~~~~~~-~~~~~~~~~~~~~~~ 322 (394)
T cd06831 245 AEPGS-YYVSSAFTLAVNVIAKKAVENDKHLSSVEKNGSDEPAFVYYMNDGVYGSFASKLSEKL-NTTPEVHKKYKEDEP 322 (394)
T ss_pred ECCCC-EEEECCEEEEEEEEEEEEECCCEEEEECCCCCCCCHHHEEEECCCCCHHHHHHHHHHC-CCCCCCCCCCCCCCC
T ss_conf 50796-7865225899999988851462377632334666500114654000004667665323-567332345567897
Q ss_pred EEECCEEEEEEEECCC--CCEEEECCCCCCCCCCCEEEEECC
Q ss_conf 9999999507700425--647996688778788878999788
Q gi|254780333|r 300 GFIKGYMVPILGKITM--DMTMFDITDSLSIEVGDYIQIFGP 339 (370)
Q Consensus 300 vli~G~~~pivGrv~M--D~~~vdvt~~~~~~~GD~V~l~G~ 339 (370)
+ ..+-|+|.+|. |.+.-|+ ..|++++||.+.+-.-
T Consensus 323 ~----~~~tv~Gp~C~s~Dvl~~~~-~LP~l~~GD~L~i~~~ 359 (394)
T cd06831 323 L----FTSSLWGPSCDELDQIVESC-LLPELNVGDWLIFDNM 359 (394)
T ss_pred E----EEEEEEECCCCCCCEECCCC-CCCCCCCCCEEEECCC
T ss_conf 5----78588963867756989366-8899999999998489
No 33
>TIGR03099 dCO2ase_PEP1 pyridoxal-dependent decarboxylase, exosortase system type 1 associated. The sequences in this family contain the pyridoxal binding domain (pfam02784) and C-terminal sheet domain (pfam00278) of a family of Pyridoxal-dependent decarboxylases. Characterized enzymes in this family decarboxylate substrates such as ornithine, diaminopimelate and arginine. The genes of the family modeled here, with the exception of those observed in certain Burkholderia species, are all found in the context of exopolysaccharide biosynthesis loci containing the exosortase/PEP-CTERM protein sorting system. More specifically, these are characteristic of the type 1 exosortase system represented by the Genome Property GenProp0652. The substrate of these enzymes may be a precursor of the carrier or linker which is hypothesized to release the PEP-CTERM protein from the exosortase enzyme. These enzymes are apparently most closely related to the diaminopimelate decarboxylase modeled by TIGR01048
Probab=99.58 E-value=2.3e-11 Score=93.36 Aligned_cols=307 Identities=12% Similarity=0.043 Sum_probs=182.4
Q ss_pred EEEEEEHHHHHHHHHHHHHHCC-CCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECC
Q ss_conf 0999868899999999986289-975999993286657989999999987998999855999999998389852673068
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNALSG-NARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYG 85 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~~~-~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~ 85 (370)
|--..|++.+++|++.+++.-| ..+++--+|||- ...+.+.|.+.|+ +|-|+|..|-....++|++..=.++++
T Consensus 26 PlyVyd~~~l~~~~~~l~~a~p~~~~i~YAvKaN~----~~~il~~l~~~G~-g~DvaS~gEl~~al~~G~~~~~Ii~~g 100 (398)
T TIGR03099 26 PFYAYDRGLVSERVAALRKALPEELAIHYAVKANP----MPALLAHMAPLVD-GFDVASAGELAVALDTGYDPGCISFAG 100 (398)
T ss_pred CEEEEEHHHHHHHHHHHHHHCCCCCEEEEEEECCC----CHHHHHHHHHCCC-CEEEECHHHHHHHHHCCCCCHHEEECC
T ss_conf 98996699999999999985799984999960289----9999999998199-299969999999998499910017789
Q ss_pred C--CHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH-CCCCCCCEEEECCCC-------------CCCCCCHHHHHHHHHHH
Q ss_conf 9--7469888875421013489989999888876-088776167612666-------------76556988999999888
Q gi|254780333|r 86 I--HPGQEKIIFDTNLIPVISSVPQLTFYSKLMS-CGVSHPYALQVDTGF-------------NRLGLSLQEALDFTHNS 149 (370)
Q Consensus 86 ~--~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~-~~~~~~vhlkiDTGM-------------~R~G~~~~e~~~~~~~~ 149 (370)
+ .+++++.+.+.++..++.|.++++.+.++.. .+...++.|-++.++ +++|++.+++.++++.+
T Consensus 101 p~K~~~~l~~A~~~gv~i~vDS~~El~~i~~~a~~~~~~~~i~lRinp~~~~~~~~~~~~~~~sKFGi~~~~~~~~l~~~ 180 (398)
T TIGR03099 101 PGKTDAELRRALAAGVLINVESLRELNRLAALSEALGLRARVAVRVNPDFELKGSGMKMGGGAKQFGIDAEQVPAALAFI 180 (398)
T ss_pred CCCCHHHHHHHHHCEEEEEECCHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCEECCCCCCCCCCCHHHHHHHHHHH
T ss_conf 98797999988756059964446889999998876599606998616887668786012888554678999999999999
Q ss_pred HHHHCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHH---CCCCHHHCCCCHHCC---CC-CCCCHH------HCCC
Q ss_conf 8631000124320124333346678899999999997543---488601116411004---77-322202------0487
Q gi|254780333|r 150 FNKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLISHY---KGIEASLASSSGILL---GP-NYHFQL------TRPG 216 (370)
Q Consensus 150 ~~~~~~~i~gi~THfa~ad~~~~~~~~~Q~~~F~~~~~~~---~~~~~h~~nS~~~l~---~p-~~~~d~------vR~G 216 (370)
... .+++.|+-.|..+-- .+.+.....+++..++...+ -+.....-|=+|=+- .+ +..+|+ ++..
T Consensus 181 ~~~-~l~~~Glh~HiGS~~-~~~~~~~~a~~~~~~~~~~l~~~~g~~l~~idiGGGf~v~y~~~~~~~d~~~~~~~i~~~ 258 (398)
T TIGR03099 181 KAA-DLDFQGFHIFAGSQN-LNAEAIIEAQAKTLALALRLAESAPAPVRVINIGGGFGIPYFPGNPPLDLAPVGAALAAL 258 (398)
T ss_pred HHC-CCEEEEEEEECCCCC-CCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHH
T ss_conf 866-992999899269898-896999999999999999999975997527762576576778999886999999999999
Q ss_pred CCCCCC-CCC------CCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCC--C-
Q ss_conf 353067-877------675567641001236886326714898346656534677641797123300260102368--5-
Q gi|254780333|r 217 ISLYGG-TDK------INKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSG--L- 286 (370)
Q Consensus 217 i~lYG~-~~~------~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~--~- 286 (370)
+.-|.. .+. ++..+ ..++..+-++|+.+|.-. | .+..++..|..+-+.....- .
T Consensus 259 ~~~~~~~~~~~~l~~EPGR~l-va~ag~llt~V~~~K~~~-~--------------~~~~~~D~G~~~~l~~~~~~~~~~ 322 (398)
T TIGR03099 259 FARLRDALPEVEILLELGRYL-VGEAGIYVCRVIDRKISR-G--------------ETFLVTDGGLHHHLSASGNFGQVI 322 (398)
T ss_pred HHHHHHCCCCCEEEEECCCEE-CCCCEEEEEEEEEEEECC-C--------------CEEEEECCCCCCCCCCCCCHHHHH
T ss_conf 998761279877999067032-006718999999998439-8--------------179994784302533343103431
Q ss_pred CCCCCCCC--CCCCEEEECCEEEEEEEECCCC--CEEEECCCCCCCCCCCEEEEECCC
Q ss_conf 43344432--3288699999995077004256--479966887787888789997888
Q gi|254780333|r 287 DSEHSPSV--FLGGKGFIKGYMVPILGKITMD--MTMFDITDSLSIEVGDYIQIFGPD 340 (370)
Q Consensus 287 ~~~~~~~~--~~~~~vli~G~~~pivGrv~MD--~~~vdvt~~~~~~~GD~V~l~G~~ 340 (370)
...+.... ...+. .-+.+-|+|.+|+. .+.-|. ..|++++||.+.+..-.
T Consensus 323 ~~~~p~~~~~~~~~~---~~~~~~v~Gp~C~s~D~l~~~~-~LP~l~~GD~L~i~~~G 376 (398)
T TIGR03099 323 RRNYPVVIGNRIGGA---VREIASIVGPLCTPLDLLAEKG-TLPVAEPGDLVVIFQSG 376 (398)
T ss_pred CCCCEEEECCCCCCC---CEEEEEEEECCCCCCCEECCCC-CCCCCCCCCEEEECCCC
T ss_conf 025505614678898---7558999912888446888377-16889999999994845
No 34
>COG0019 LysA Diaminopimelate decarboxylase [Amino acid transport and metabolism]
Probab=99.57 E-value=2.1e-11 Score=93.59 Aligned_cols=318 Identities=15% Similarity=0.100 Sum_probs=203.1
Q ss_pred EEEEEEHHHHHHHHHHHHHHCCC--CEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCC-CEEEE
Q ss_conf 09998688999999999862899--7599999328665798999999998799899985599999999838985-26730
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNALSGN--ARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQA-RIFVL 83 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~~~~--~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~-~Ilvl 83 (370)
|-..+|.+.|+.|++.+++.-+. ++++--+|||+ ...|.+.+.+.| ..|-|+|+.|.....++|+.. +|..-
T Consensus 28 P~yvyd~~~l~~~~~~~~~a~~~~~~~i~yAvKAn~----~~~il~~l~~~g-~g~Dv~S~gEl~~al~aG~~~~~I~f~ 102 (394)
T COG0019 28 PVYVYDEATLRRNARELKSAFPGSGAKVFYAVKANS----NPAILRLLAEEG-SGFDVASLGELELALAAGFPPERIVFS 102 (394)
T ss_pred CEEEEEHHHHHHHHHHHHHHHCCCCCEEEEEECCCC----CHHHHHHHHHHC-CCCEECCHHHHHHHHHCCCCHHEEEEC
T ss_conf 889984799999999999861567815999974689----879999999738-886534899999999839992209991
Q ss_pred CCC-CHHHHHHHHHHHHH-CCCCCHHHHHHHHHHHHCCCCCCCEEEECCC--------------CCCCCCCHHHHHHHHH
Q ss_conf 689-74698888754210-1348998999988887608877616761266--------------6765569889999998
Q gi|254780333|r 84 YGI-HPGQEKIIFDTNLI-PVISSVPQLTFYSKLMSCGVSHPYALQVDTG--------------FNRLGLSLQEALDFTH 147 (370)
Q Consensus 84 ~~~-~~~~~~~~~~~~i~-~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTG--------------M~R~G~~~~e~~~~~~ 147 (370)
++. ..+++..+++.++. ..+.|.++|+.+++..... ..+|.+-|++| .+|+|+.++++.+...
T Consensus 103 g~~ks~~ei~~a~e~gi~~i~vdS~~El~~l~~~a~~~-~~~v~lRInP~~~~~th~~~~tg~~~sKFG~~~~~a~~~~~ 181 (394)
T COG0019 103 GPAKSEEEIAFALELGIKLINVDSEEELERLSAIAPGL-VARVSLRINPGVSAGTHEYIATGGKSSKFGISPEEALDVLE 181 (394)
T ss_pred CCCCCHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCC-CCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHH
T ss_conf 89999999999998699389979999999999864566-74499998899877758666778630236989889899999
Q ss_pred HHHHHHCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHC---CCCHHHCCCCHHC--CCCC--CCCHHHCCC---C
Q ss_conf 8886310001243201243333466788999999999975434---8860111641100--4773--222020487---3
Q gi|254780333|r 148 NSFNKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLISHYK---GIEASLASSSGIL--LGPN--YHFQLTRPG---I 217 (370)
Q Consensus 148 ~~~~~~~~~i~gi~THfa~ad~~~~~~~~~Q~~~F~~~~~~~~---~~~~h~~nS~~~l--~~p~--~~~d~vR~G---i 217 (370)
...+..++++.|+..|..|-......+ ...++++.++...+. ++....-|=+|=+ .|.+ ...++-..+ .
T Consensus 182 ~~~~~~~l~~~Glh~HiGSq~~d~~~~-~~a~~~~~~~~~~~~~~~g~~l~~inlGGG~gi~Y~~~~~~~~~~~~~~~l~ 260 (394)
T COG0019 182 RAAKLLGLELVGLHFHIGSQITDLDPF-EEALAKVEELFGRLAEELGIQLEWLNLGGGLGITYEDEYDPPDLAAYAKALK 260 (394)
T ss_pred HHHHCCCCCEEEEEEECCCCCCCCHHH-HHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf 986467882489998517878880899-9999999999999887508874089966985768788788401999999999
Q ss_pred CCCCCC---CC----CCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCC
Q ss_conf 530678---77----67556764100123688632671489834665653467764179712330026010236854334
Q gi|254780333|r 218 SLYGGT---DK----INKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEH 290 (370)
Q Consensus 218 ~lYG~~---~~----~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~ 290 (370)
-.|+-. +. ++... .-++-.+.++|..+|+... .+.+++-.|+.|..+-.+.+.. |
T Consensus 261 ~~~~~~~~~~~l~~EPGR~i-v~~aG~Lvt~V~~~k~~~~---------------~~~v~vD~gm~~~~rpaly~a~--~ 322 (394)
T COG0019 261 EAFGEYAEDVELILEPGRAI-VANAGVLVTEVLDVKENGE---------------RNFVIVDGGMNDLMRPALYGAY--H 322 (394)
T ss_pred HHHHHCCCCCEEEECCCHHH-HHCCEEEEEEEEEEEEECC---------------CEEEEECCHHHCCCCHHHCCCC--C
T ss_conf 99851567865998377577-5154369999999997077---------------2699980344238677775874--4
Q ss_pred CCCC-CCCCEEEECCEEEEEEEECC--CCCEEEECCCCCC-CCCCCEEEEECCC-CCHHHHHHHHCCC
Q ss_conf 4432-32886999999950770042--5647996688778-7888789997888-8998999981794
Q gi|254780333|r 291 SPSV-FLGGKGFIKGYMVPILGKIT--MDMTMFDITDSLS-IEVGDYIQIFGPD-IKLDDVALASGTT 353 (370)
Q Consensus 291 ~~~~-~~~~~vli~G~~~pivGrv~--MD~~~vdvt~~~~-~~~GD~V~l~G~~-i~~~~~A~~~gti 353 (370)
.... ..... .....+-|+|.+| .|.+.-|.. .|. +++||.+.+..-. -+.. ++.+.+..
T Consensus 323 ~~~~~~~~~~--~~~~~~~v~G~~CesgD~~~~d~~-lp~~~~~GD~l~i~~aGAY~~s-m~s~yN~~ 386 (394)
T COG0019 323 HIRLNRTDED--AEREEYDVVGPTCESGDVLARDRA-LPEPLKVGDLLVILDAGAYGAS-MSSNYNGR 386 (394)
T ss_pred CCCCCCCCCC--CCEEEEEEECCCCCCCCEEEEEEE-CCCCCCCCCEEEEECCCHHHHH-HHCCCCCC
T ss_conf 3312456678--873799998787688877712123-7876898999999046326776-60435698
No 35
>cd06842 PLPDE_III_Y4yA_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Y4yA. This subfamily is composed of the hypothetical Rhizobium sp. protein Y4yA and similar uncharacterized bacterial proteins. These proteins are homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine. Proteins in this subfamily may function as PLP-dependent decarboxylases.
Probab=99.55 E-value=4.3e-11 Score=91.54 Aligned_cols=157 Identities=15% Similarity=0.023 Sum_probs=124.8
Q ss_pred EEEEEEHHHHHHHHHHHHHHC----CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEE
Q ss_conf 099986889999999998628----9975999993286657989999999987998999855999999998389852673
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNALS----GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFV 82 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~~----~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilv 82 (370)
|--..|.+.|++|++.+++.. .+.+++--+|||. ...|.+.+.+.|+ ++-|+|..|-....++|++..-++
T Consensus 11 P~yVyd~~~ir~n~~~l~~a~~~~~~~~~i~YAvKAN~----~~~il~~l~~~G~-g~Dv~S~gEl~~al~aG~~~~~Iv 85 (423)
T cd06842 11 PLNVLFPQTFRENIAALRAVLDRHGVDGRVYFARKANK----SLALVRAAAAAGI-GVDVASLAELRQALAAGVRGDRIV 85 (423)
T ss_pred CEEEEEHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCC----CHHHHHHHHHCCC-CEEEECHHHHHHHHHCCCCHHHEE
T ss_conf 97997699999999999999875599826999861068----9999999998499-289869999999998599879989
Q ss_pred ECCC--CHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHC--CCCCCCEEEECC----CCCCCCCCHHHHHHHHHHHHH-HH
Q ss_conf 0689--74698888754210134899899998888760--887761676126----667655698899999988886-31
Q gi|254780333|r 83 LYGI--HPGQEKIIFDTNLIPVISSVPQLTFYSKLMSC--GVSHPYALQVDT----GFNRLGLSLQEALDFTHNSFN-KK 153 (370)
Q Consensus 83 l~~~--~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~--~~~~~vhlkiDT----GM~R~G~~~~e~~~~~~~~~~-~~ 153 (370)
+++. ..+++..+++.++...+.|.++++.+.++.+. ++..+|.|-++. .=+++|++++++.+.++.+.. .+
T Consensus 86 ~~g~~Ks~~ei~~Ai~~gv~i~vDs~~El~~l~~~a~~~~~~~~~V~lRvnp~~~~~~sKFGi~~~~~~~~l~~~~~~~~ 165 (423)
T cd06842 86 ATGPAKTDEFLWLAVRHGATIAVDSLDELDRLLALARGYTTGPARVLLRLSPFPASLPSRFGMPAAEVRTALERLAQLRE 165 (423)
T ss_pred ECCCCCCHHHHHHHHHCCCEEEECCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHCCC
T ss_conf 73898998999999985998997899999999999876079962799986789999999998999999999999996399
Q ss_pred CCCHHHHHCCCCCCC
Q ss_conf 000124320124333
Q gi|254780333|r 154 LGQLSLIISHLACAD 168 (370)
Q Consensus 154 ~~~i~gi~THfa~ad 168 (370)
++++.|+-.|..+.+
T Consensus 166 ~l~~~GlH~HiGs~~ 180 (423)
T cd06842 166 RVRLVGFHFHLDGYS 180 (423)
T ss_pred CCCEEEEEEECCCCC
T ss_conf 983689888648877
No 36
>cd00622 PLPDE_III_ODC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase. This subfamily is composed mainly of eukaryotic ornithine decarboxylases (ODC, EC 4.1.1.17) and ODC-like enzymes from prokaryotes represented by Vibrio vulnificus LysineOrnithine decarboxylase. These are fold type III PLP-dependent enzymes that differ from most bacterial ODCs which are fold type I PLP-dependent enzymes. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. Members of this subfamily contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity. Also members of this su
Probab=99.53 E-value=7.2e-11 Score=90.10 Aligned_cols=307 Identities=14% Similarity=0.105 Sum_probs=172.0
Q ss_pred EEEEEEHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCC
Q ss_conf 09998688999999999862899759999932866579899999999879989998559999999983898526730689
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGI 86 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~ 86 (370)
|--..|++.|++|++.+++.-|+.+++--+|||. ...+.+.+.+.|+ ++-|+|..|-...+++|++..=.+++++
T Consensus 3 P~yvyd~~~i~~~~~~l~~afp~~~i~YA~KaN~----~~~vl~~l~~~G~-g~dv~S~~El~~al~~G~~~~~Iif~gp 77 (362)
T cd00622 3 PFLVVDLGDVVRKYRRWKKALPRVRPFYAVKCNP----DPAVLRTLAALGA-GFDCASKGEIELVLGLGVSPERIIFANP 77 (362)
T ss_pred CEEEEEHHHHHHHHHHHHHHCCCCEEEEEECCCC----CHHHHHHHHHCCC-EEEEECHHHHHHHHHCCCCHHHEEECCC
T ss_conf 8899459999999999998689987999966589----8999999997399-1998299999999984998789584588
Q ss_pred --CHHHHHHHHHHHH-HCCCCCHHHHHHHHHHHHCCCCCCCEEEECC----C---C-CCCCCCHHHHHHHHHHHHHHHCC
Q ss_conf --7469888875421-0134899899998888760887761676126----6---6-76556988999999888863100
Q gi|254780333|r 87 --HPGQEKIIFDTNL-IPVISSVPQLTFYSKLMSCGVSHPYALQVDT----G---F-NRLGLSLQEALDFTHNSFNKKLG 155 (370)
Q Consensus 87 --~~~~~~~~~~~~i-~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDT----G---M-~R~G~~~~e~~~~~~~~~~~~~~ 155 (370)
..+++..++++++ ...+.|.++|+.+.++.+ ..++.|-|+. + | +++|++.+++.++++..... ++
T Consensus 78 ~K~~~el~~a~~~gv~~i~vDS~~EL~~i~~~~~---~~~i~lRv~~~~~~~~~~~~~KFGi~~~~~~~~l~~~~~~-~l 153 (362)
T cd00622 78 CKSISDIRYAAELGVRLFTFDSEDELEKIAKHAP---GAKLLLRIATDDSGALCPLSRKFGADPEEARELLRRAKEL-GL 153 (362)
T ss_pred CCCHHHHHHHHHCCCCEEEECCHHHHHHHHHHCC---CCCEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHC-CC
T ss_conf 7887999999974996677278999999998677---7826999866999873357775799999999999999862-99
Q ss_pred CHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHC--CCCHHHCCCCHHC--CCC--CCCC----HHHCCCCCC-CCCCC
Q ss_conf 01243201243333466788999999999975434--8860111641100--477--3222----020487353-06787
Q gi|254780333|r 156 QLSLIISHLACADDPSSHVNSVQLERFRTLISHYK--GIEASLASSSGIL--LGP--NYHF----QLTRPGISL-YGGTD 224 (370)
Q Consensus 156 ~i~gi~THfa~ad~~~~~~~~~Q~~~F~~~~~~~~--~~~~h~~nS~~~l--~~p--~~~~----d~vR~Gi~l-YG~~~ 224 (370)
++.|+..|..+-- .+...-..-++.-.++.+..+ +.....-|=+|=+ .+. ...+ +.++..+.- ++...
T Consensus 154 ~~~GlH~H~GS~~-~~~~~~~~~i~~~~~~~~~~~~~g~~~~~idiGGG~~~~y~~~~~~~~~~~~~i~~~~~~~~~~~~ 232 (362)
T cd00622 154 NVVGVSFHVGSQC-TDPSAYVDAIADAREVFDEAAELGFKLKLLDIGGGFPGSYDGVVPSFEEIAAVINRALDEYFPDEG 232 (362)
T ss_pred CEEEEEEECCCCC-CCHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCC
T ss_conf 5688998768776-897999999999999999999759997679837983678888999989999999999998648679
Q ss_pred -----CCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCE
Q ss_conf -----767556764100123688632671489834665653467764179712330026010236854334443232886
Q gi|254780333|r 225 -----KINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGK 299 (370)
Q Consensus 225 -----~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~ 299 (370)
+++. .=..++..+-++|+.+|....+... ....+..|-..++.+.... ...+.+.......
T Consensus 233 ~~l~~EPGR-~lva~ag~llt~V~~~K~~~~~~~~------------~~~~vd~G~~~~~~~~~~~-~~~~~~~~~~~~~ 298 (362)
T cd00622 233 VRIIAEPGR-YLVASAFTLAVNVIAKRKRGDDDRE------------RWYYLNDGVYGSFNEILFD-HIRYPPRVLKDGG 298 (362)
T ss_pred CEEEECCHH-HHCCCEEEEEEEEEEEEECCCCCCE------------EEEEECCCCCCHHHHHHHC-CCCCCEEEECCCC
T ss_conf 779985604-5201407999999999860788726------------9999847875115467643-7767168105888
Q ss_pred EEECC--EEEEEEEECCC--CCEEEECCCCC-CCCCCCEEEEECCC
Q ss_conf 99999--99507700425--64799668877-87888789997888
Q gi|254780333|r 300 GFIKG--YMVPILGKITM--DMTMFDITDSL-SIEVGDYIQIFGPD 340 (370)
Q Consensus 300 vli~G--~~~pivGrv~M--D~~~vdvt~~~-~~~~GD~V~l~G~~ 340 (370)
-.+ ..+-|.|.+|+ |.+.-|++ .| ++++||.+.+..-.
T Consensus 299 --~~~~~~~~~v~G~~C~~~D~l~~~~~-lP~~l~~GD~l~i~~~G 341 (362)
T cd00622 299 --RDGELYPSSLWGPTCDSLDVIYEDVL-LPEDLAVGDWLLFENMG 341 (362)
T ss_pred --CCCCCEEEEEECCCCCCCCEEEECCC-CCCCCCCCCEEEECCCC
T ss_conf --78980189998448888869835665-78889999999995987
No 37
>cd06836 PLPDE_III_ODC_DapDC_like_1 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Uncharacterized Proteins with similarity to Ornithine and Diaminopimelate Decarboxylases. This subfamily contains uncharacterized proteins with similarity to ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine. Proteins in this subfamily may function as PLP-dependent decarbo
Probab=99.53 E-value=8.8e-11 Score=89.54 Aligned_cols=303 Identities=16% Similarity=0.153 Sum_probs=168.2
Q ss_pred EEEEEEHHHHHHHHHHHHH-HCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECC
Q ss_conf 0999868899999999986-289975999993286657989999999987998999855999999998389852673068
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNA-LSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYG 85 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~-~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~ 85 (370)
+....|++.|++|++.+++ +.++.+++--+||| -...+.+.|.+.|+ +|-|+|..|-....++|++..=.++++
T Consensus 4 ~~~vyD~~~i~~~~~~~~~afp~~~~~~YAvKaN----~~p~il~~l~~~G~-g~DvaS~~El~~al~~G~~~~~Ii~~g 78 (379)
T cd06836 4 AVGLYDLDGFRALVARLTAAFPAPVLHTFAVKAN----PLVPVLRLLAEAGA-GAEVASPGELELALAAGFPPERIVFDS 78 (379)
T ss_pred CEEEEEHHHHHHHHHHHHHHCCCCCEEEEEEECC----CCHHHHHHHHHCCC-CEEEECHHHHHHHHHCCCCHHHEEECC
T ss_conf 5899629999999999998589986189998338----99999999998499-789739999999998599989989889
Q ss_pred C--CHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHC--CCCCCCEEEECC------------C--CCCCCCCHHHHH-HHH
Q ss_conf 9--74698888754210134899899998888760--887761676126------------6--676556988999-999
Q gi|254780333|r 86 I--HPGQEKIIFDTNLIPVISSVPQLTFYSKLMSC--GVSHPYALQVDT------------G--FNRLGLSLQEAL-DFT 146 (370)
Q Consensus 86 ~--~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~--~~~~~vhlkiDT------------G--M~R~G~~~~e~~-~~~ 146 (370)
+ .++++..++++++...+.|.++|+.+.++.+. .....+.|-++. | .+++|+..++.. +.+
T Consensus 79 p~K~~~~l~~A~~~Gv~i~vDs~~El~~i~~l~~~~~~~~~~i~lRinp~~~~~~~~~~~~~~~~sKFG~~~~~~~~~~~ 158 (379)
T cd06836 79 PAKTRAELREALELGVAINIDNFQELERIDALVAEFKEASSRIGLRVNPQVGAGKIGALSTATATSKFGVALEDGARDEI 158 (379)
T ss_pred CCCCHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHH
T ss_conf 98999999999973992034898999999999986299752589997168776675434468998985888147789999
Q ss_pred HHHHHHHCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHC----CCCHHHCCCCHHCC--C-C-CCC------CHH
Q ss_conf 88886310001243201243333466788999999999975434----88601116411004--7-7-322------202
Q gi|254780333|r 147 HNSFNKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLISHYK----GIEASLASSSGILL--G-P-NYH------FQL 212 (370)
Q Consensus 147 ~~~~~~~~~~i~gi~THfa~ad~~~~~~~~~Q~~~F~~~~~~~~----~~~~h~~nS~~~l~--~-p-~~~------~d~ 212 (370)
.... .....+.|+-.|..+.- .+.......+++..++...++ ..+...-|=+|=+- + + +.. .+.
T Consensus 159 ~~~~-~~~~~l~GlhfHvGSq~-~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ldiGGGf~v~y~~~~~~~~~~~~~~~ 236 (379)
T cd06836 159 IDAF-ARRPWLNGLHVHVGSQG-CELSLLAEGIRRVVDLAEEINRRVGRRQITRIDIGGGLPVNFESEDITPTFADYAAA 236 (379)
T ss_pred HHHH-HCCCCCEEEEEECCCCC-CCHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCHHHHHHH
T ss_conf 9998-26797006898778888-898999999999999999998860877632650378745467888889899999999
Q ss_pred HCCCCCCC-CCCC----CCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCC---------
Q ss_conf 04873530-6787----767556764100123688632671489834665653467764179712330026---------
Q gi|254780333|r 213 TRPGISLY-GGTD----KINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADG--------- 278 (370)
Q Consensus 213 vR~Gi~lY-G~~~----~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG--------- 278 (370)
++.-+.-| .... +++.. =...+..+-++|..+|... |. +++++-.|..+.
T Consensus 237 i~~~l~~~f~~~~~li~EPGR~-lva~ag~ll~~V~~vK~~~-~~--------------~~~i~d~G~~~~~~~~~~~~~ 300 (379)
T cd06836 237 LKAAVPELFDGRYQLVTEFGRS-LLAKCGTIVSRVEYTKSSG-GR--------------RIAITHAGAQVATRTAYAPDD 300 (379)
T ss_pred HHHHHHHHCCCCCEEEECCCCE-EECCCEEEEEEEEEEEECC-CE--------------EEEEEECCCCCCCCCCCCCCC
T ss_conf 9999997516685688605532-3046159999999999739-86--------------899995166555310024333
Q ss_pred EECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEECCCC--CEEEECCCCCCCCCCCEEEEECCC
Q ss_conf 01023685433444323288699999995077004256--479966887787888789997888
Q gi|254780333|r 279 YPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGKITMD--MTMFDITDSLSIEVGDYIQIFGPD 340 (370)
Q Consensus 279 ~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGrv~MD--~~~vdvt~~~~~~~GD~V~l~G~~ 340 (370)
+|......+....+ ..+ ..+.+-|.|..|+. .+.-|+. .|+.++||++.+..-.
T Consensus 301 ~~~~~~~~~~~~~~---~~~----~~~~~~v~Gp~C~~~D~l~~~~~-lP~l~~GD~l~i~~~G 356 (379)
T cd06836 301 WPLRVTVFDANGEP---KTG----PEVVTDVAGPCCFAGDVLAKERA-LPPLEPGDYVAVHDTG 356 (379)
T ss_pred CCEEEEEECCCCCC---CCC----CEEEEEEECCCCCCCCEECCCCC-CCCCCCCCEEEECCCC
T ss_conf 74467840677786---789----83499998668785879863648-8889999999987977
No 38
>cd06824 PLPDE_III_Yggs_like Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins. This subfamily contains mainly uncharacterized proteobacterial proteins with similarity to the hypothetical Escherichia coli protein YggS, a homolog of yeast YBL036c, which is homologous to a Pseudomonas aeruginosa gene that is co-transcribed with a known proline biosynthetic gene. Like yeast YBL036c, Yggs is a single domain monomeric protein with a typical TIM-barrel fold. Its structure, which shows a covalently-bound PLP cofactor, is similar to the N-terminal domain of the fold type III PLP-dependent enzymes, bacterial alanine racemase and eukaryotic ornithine decarboxylase, which are two-domain dimeric proteins. YggS has not been characterized extensively and its biological function is still unkonwn.
Probab=99.39 E-value=3.7e-11 Score=91.98 Aligned_cols=203 Identities=16% Similarity=0.192 Sum_probs=134.3
Q ss_pred EHHHHHHHHHHHHHHC----CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHC---CCCCEEEEC
Q ss_conf 6889999999998628----997599999328665798999999998799899985599999999838---985267306
Q gi|254780333|r 12 DLTALKNNWHSMNALS----GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYT---PQARIFVLY 84 (370)
Q Consensus 12 dl~al~~Ni~~i~~~~----~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g---~~~~Ilvl~ 84 (370)
+++.++.+++...+.+ ...+++||-|. |..+.|.. +.++|++.||=..++|+.+=...- .+...-..|
T Consensus 5 nl~~i~~~I~~a~~~~gR~~~~V~LiaVSK~----~~~e~I~~-a~~~G~~~fGENrvQE~~~K~~~l~~~~~i~wHfIG 79 (224)
T cd06824 5 NLAQVKQRIAQAAKQAGRDPSSVQLLAVSKT----KPADAIRE-AYAAGQRHFGENYVQEALEKIEALRDLQDIEWHFIG 79 (224)
T ss_pred HHHHHHHHHHHHHHHHCCCCCCEEEEEEECC----CCHHHHHH-HHHCCCCCCCCCCHHHHHHHHHHHCCCCCCEEEEEC
T ss_conf 9999999999999983879576599998899----89999999-998699524787099999999985337895599977
Q ss_pred CCCHHHHHHHHHH-HHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCC--CCCCCCCHHHHHHHHHHHHHHHCCCHHHH
Q ss_conf 8974698888754-2101348998999988887-608877616761266--67655698899999988886310001243
Q gi|254780333|r 85 GIHPGQEKIIFDT-NLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTG--FNRLGLSLQEALDFTHNSFNKKLGQLSLI 160 (370)
Q Consensus 85 ~~~~~~~~~~~~~-~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTG--M~R~G~~~~e~~~~~~~~~~~~~~~i~gi 160 (370)
++.....+.++.+ .++.+|.+...++.+++.. +.+++.++.|.|+++ -++.||.++|..+++..+..++++++.|+
T Consensus 80 ~LQsNKvk~i~~~~~~IhSvDs~kla~~l~~~~~~~~~~~~vliQVN~s~E~~K~G~~~~e~~~~~~~i~~~~~l~i~GL 159 (224)
T cd06824 80 PIQSNKTKLIAENFDWVHSVDRLKIAKRLNDQRPAGLPPLNVCIQVNISGEDSKSGVAPEDAAELAEAISQLPNLRLRGL 159 (224)
T ss_pred CCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEE
T ss_conf 55201679999852189764509999999999997299862899985378500269899999999999995699842667
Q ss_pred HCCCCCCCCCCCHHHHHHHHHHHHHHHHHC----CCC-HHHCCCCHHCCCCCCCCHHHCCCCCCCC
Q ss_conf 201243333466788999999999975434----886-0111641100477322202048735306
Q gi|254780333|r 161 ISHLACADDPSSHVNSVQLERFRTLISHYK----GIE-ASLASSSGILLGPNYHFQLTRPGISLYG 221 (370)
Q Consensus 161 ~THfa~ad~~~~~~~~~Q~~~F~~~~~~~~----~~~-~h~~nS~~~l~~p~~~~d~vR~Gi~lYG 221 (370)
||==+..+++.. ....|++..++...++ ++. .++.-|.-...--+..-+|||+|.++||
T Consensus 160 Mti~p~~~d~~~--~r~~F~~l~~l~~~l~~~~~~~~~LSMGMS~Dye~AI~~GsT~VRIGsaIFG 223 (224)
T cd06824 160 MAIPAPTDDEAA--QRAAFKRLRQLFDQLKKQYPDLDTLSMGMSGDLEAAIAAGSTMVRIGTAIFG 223 (224)
T ss_pred EEECCCCCCHHH--HHHHHHHHHHHHHHHHHHCCCCCEECCCCHHHHHHHHHCCCCEEEECCHHHC
T ss_conf 765799988578--9999999999999998517998957770545499999879997981836419
No 39
>cd06829 PLPDE_III_CANSDC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase. Carboxynorspermidine decarboxylase (CANSDC) catalyzes the decarboxylation of carboxynorspermidine, the last step in the biosynthesis of norspermidine. It is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC), which are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. Based on this similarity, CANSDC may require homodimer formation and the presence of the PLP cofactor for its catalytic activity.
Probab=99.39 E-value=3.4e-09 Score=79.25 Aligned_cols=293 Identities=15% Similarity=0.122 Sum_probs=154.0
Q ss_pred EEEEEHHHHHHHHHHHHHHC--CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECC
Q ss_conf 99986889999999998628--9975999993286657989999999987998999855999999998389852673068
Q gi|254780333|r 8 RLKIDLTALKNNWHSMNALS--GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYG 85 (370)
Q Consensus 8 ~leIdl~al~~Ni~~i~~~~--~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~ 85 (370)
--..|++.|++|++.+++.. .+.+++--+|||. ...+.+.+.+.| ..+.+++..|+..-++.+ ..++.++++
T Consensus 3 ~YVyd~~~i~~n~~~~~~~~~~~~~~i~YA~KAN~----~~~il~~l~~~g-~G~d~~S~~E~~la~~~~-~~~~~~~~~ 76 (346)
T cd06829 3 CYVLDEAKLRRNLEILKRVQERSGAKILLALKAFS----MWSVFPLIREYL-DGTTASSLFEARLGREEF-GGEVHTYSP 76 (346)
T ss_pred EEEEEHHHHHHHHHHHHHHHHCCCCEEEEEEHHCC----CHHHHHHHHHHC-CEEEECCHHHHHHHHHHC-CCCCEEECC
T ss_conf 99975999999999999977338987999882428----889999999749-969974999999974106-876467568
Q ss_pred C-CHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCC--------------CCCCCCHHHHHHHHHHHH
Q ss_conf 9-7469888875421013489989999888876088776167612666--------------765569889999998888
Q gi|254780333|r 86 I-HPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGF--------------NRLGLSLQEALDFTHNSF 150 (370)
Q Consensus 86 ~-~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM--------------~R~G~~~~e~~~~~~~~~ 150 (370)
. .++|++.+.++....++.|.++|+.+.+..+ +...+|.|-|+.|. +++|++++++.+.+..
T Consensus 77 ~~~~~el~~~~~~~~~i~~ds~~El~~i~~~~~-~~~~~V~lRINP~~~~~~~~~~~tg~~~sKFGi~~~~~~~~~~~-- 153 (346)
T cd06829 77 AYRDDEIDEILRLADHIIFNSLSQLERFKDRAK-AAGISVGLRINPEYSEVETDLYDPCAPGSRLGVTLDELEEEDLD-- 153 (346)
T ss_pred CCCHHHHHHHHHCCCEEEECCHHHHHHHHHHHC-CCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH--
T ss_conf 799899999997299899889999999998740-58974999985898777676605789844037879998787773--
Q ss_pred HHHCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHH-HCC--CCHHHCCCCHHCC--CCCCCCHH----HCCCCCCCC
Q ss_conf 63100012432012433334667889999999999754-348--8601116411004--77322202----048735306
Q gi|254780333|r 151 NKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLISH-YKG--IEASLASSSGILL--GPNYHFQL----TRPGISLYG 221 (370)
Q Consensus 151 ~~~~~~i~gi~THfa~ad~~~~~~~~~Q~~~F~~~~~~-~~~--~~~h~~nS~~~l~--~p~~~~d~----vR~Gi~lYG 221 (370)
.++|+--|..+ +.+. .+++++.+.+.. +.. .....-|=+|=+. +|+..++. ++.=.--||
T Consensus 154 -----~i~Glh~H~~~--~~~~----~~~~~~~~~i~~~~~~~~~~l~~id~GGG~~i~~~~~d~~~~~~~i~~~~~~~~ 222 (346)
T cd06829 154 -----GIEGLHFHTLC--EQDF----DALERTLEAVEERFGEYLPQLKWLNLGGGHHITRPDYDVDRLIALIKRFKEKYG 222 (346)
T ss_pred -----CCCEEEEEECC--CCCH----HHHHHHHHHHHHHHHHHHHHCCEEECCCCCCCCCCCCCHHHHHHHHHHHHHHCC
T ss_conf -----58614776336--7569----999999999999999752101445513776667888799999999999997639
Q ss_pred CC--CCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCE
Q ss_conf 78--7767556764100123688632671489834665653467764179712330026010236854334443232886
Q gi|254780333|r 222 GT--DKINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGK 299 (370)
Q Consensus 222 ~~--~~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~ 299 (370)
.. -+++..+ ..++..+-++|+.+++ .| .+++++-.|..++.+-.. .. .+.|.......
T Consensus 223 ~~liiEPGR~l-Va~aG~llt~V~~ik~--~g--------------~~~~i~D~g~~~~~~~~~-~~--~~~p~~~~~~~ 282 (346)
T cd06829 223 VEVYLEPGEAV-ALNTGYLVATVLDIVE--NG--------------MPIAILDASATAHMPDVL-EM--PYRPPIRGAGE 282 (346)
T ss_pred CCEEECCCHHH-HHCCEEEEEEEEEEEE--CC--------------EEEEEEECCCCCCCCHHH-CC--CCCHHHHCCCC
T ss_conf 73685363400-4353579999999950--97--------------789998362103761555-14--65423304788
Q ss_pred EEECCEEEEEEEECCCCCEEE-ECCCCCCCCCCCEEEEECCC
Q ss_conf 999999950770042564799-66887787888789997888
Q gi|254780333|r 300 GFIKGYMVPILGKITMDMTMF-DITDSLSIEVGDYIQIFGPD 340 (370)
Q Consensus 300 vli~G~~~pivGrv~MD~~~v-dvt~~~~~~~GD~V~l~G~~ 340 (370)
---....+-|+|.+|+..=++ +....+++++||.+.+..-.
T Consensus 283 ~~~~~~~~~v~Gp~Ces~Dvl~~~~~~~~l~~GD~l~i~~~G 324 (346)
T cd06829 283 PGEGAHTYRLGGNSCLAGDVIGDYSFDEPLQVGDRLVFEDMA 324 (346)
T ss_pred CCCCCCEEEEECCCCCCCCEECCCCCCCCCCCCCEEEECCCC
T ss_conf 878884699987898886788866688899999999991575
No 40
>cd06811 PLPDE_III_yhfX_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX. This subfamily is composed of the uncharacterized protein yhfX from Escherichia coli K-12 and similar bacterial proteins. These proteins are homologous to bacterial alanine racemases (AR), which are fold type III PLP-dependent enzymes containing an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. It catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. Members of this subfamily may act as PLP-dependent enzymes.
Probab=99.37 E-value=5e-10 Score=84.68 Aligned_cols=255 Identities=18% Similarity=0.146 Sum_probs=169.0
Q ss_pred EEEEHHHHHHHHHHHHHHC--CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCC-CEEEECC
Q ss_conf 9986889999999998628--997599999328665798999999998799899985599999999838985-2673068
Q gi|254780333|r 9 LKIDLTALKNNWHSMNALS--GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQA-RIFVLYG 85 (370)
Q Consensus 9 leIdl~al~~Ni~~i~~~~--~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~-~Ilvl~~ 85 (370)
-.||+|.++.|-+.+.+-+ -+.++..+.|-.+ =-..+++.+.++|+..-.+....||..+++.|+.. -+=-|--
T Consensus 31 YViDlD~v~~NAr~l~~~A~~~gi~Ly~MtKQ~G---RNP~l~~~l~~~G~~g~VaVD~kEA~~l~~~gl~vghvGHLVQ 107 (382)
T cd06811 31 YVIDLDQIEENARLLAETAEKYGIELYFMTKQFG---RNPFLARALLEAGIPGAVAVDFKEARALHEAGLPLGHVGHLVQ 107 (382)
T ss_pred EEEEHHHHHHHHHHHHHHHHHCCCEEEEEEECCC---CCHHHHHHHHHCCCCCEEEEEHHHHHHHHHCCCCCCCCCCCCC
T ss_conf 8975899999999999999973968999961058---9989999999739985689609999999985998344157136
Q ss_pred CCHHHHHHHHHHHH-HCCCCCHHHHHHHHHHH-HCCCCCCCEEEE-CCCC-----CCCCCCHHHHHHHHHHHHHHHCCCH
Q ss_conf 97469888875421-01348998999988887-608877616761-2666-----7655698899999988886310001
Q gi|254780333|r 86 IHPGQEKIIFDTNL-IPVISSVPQLTFYSKLM-SCGVSHPYALQV-DTGF-----NRLGLSLQEALDFTHNSFNKKLGQL 157 (370)
Q Consensus 86 ~~~~~~~~~~~~~i-~~~i~s~~~l~~l~~~~-~~~~~~~vhlki-DTGM-----~R~G~~~~e~~~~~~~~~~~~~~~i 157 (370)
++....+.+++++= ..+|+|.+.++.+++.+ +.+...++.||| +.|- .--||..+|....++.+..++++++
T Consensus 108 iP~~~v~~iv~~~PeviTVfS~ekA~eis~aA~~~g~~Q~illrV~~~~D~~Y~GQegGf~l~eL~~v~~~i~~l~gi~i 187 (382)
T cd06811 108 IPRHQVPAVLAMRPEVITVYSLEKAREISDAAVELGRVQDVLLRVYGDEDTLYPGQEGGFPLEELPAVLAAIKALPGIRI 187 (382)
T ss_pred CCHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCEEHHHHHHHHHHHHHCCCCEE
T ss_conf 85768999997499789992099999999999981973326999964898463775377548999999999972899679
Q ss_pred HHHHCCCCCC--CCCCC---HH-HHHHHHHHHHHHHHHCCCCH-----HHCCCCHHCC-CCCCCCHHHCCCCCCCCCCCC
Q ss_conf 2432012433--33466---78-89999999999754348860-----1116411004-773222020487353067877
Q gi|254780333|r 158 SLIISHLACA--DDPSS---HV-NSVQLERFRTLISHYKGIEA-----SLASSSGILL-GPNYHFQLTRPGISLYGGTDK 225 (370)
Q Consensus 158 ~gi~THfa~a--d~~~~---~~-~~~Q~~~F~~~~~~~~~~~~-----h~~nS~~~l~-~p~~~~d~vR~Gi~lYG~~~~ 225 (370)
.|+ |||+|- |+... +. |..-+.+=++++++. ++.. .-++|.+++- -.++.-.-.-||.+|-|-.|.
T Consensus 188 ~Gv-T~FPc~L~d~~~~~~~pT~N~~Tl~~A~~~L~~~-G~~~~qvN~PSaTs~~tlp~La~~G~Th~EPGHaLTGTtP~ 265 (382)
T cd06811 188 AGL-TSFPCFLYDEEQGDIAPTPNLFTLLKAKELLEKR-GIEILQLNAPSATSCATLPLLAEYGVTHGEPGHALTGTTPL 265 (382)
T ss_pred EEE-ECEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHC-CCCEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCC
T ss_conf 664-3200687747779511585299999999999975-98627950685114765999998488667887412478855
Q ss_pred -CCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf -6755676410012368863267148983466565346776417971
Q gi|254780333|r 226 -INKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVA 271 (370)
Q Consensus 226 -~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavi 271 (370)
...+.+=+|+|-.-|.|.+.. .|.+-=||+-|--...++=|.|
T Consensus 266 ha~~d~pE~pA~vYvSEISH~~---~g~sY~yGGG~YrR~hl~~ALV 309 (382)
T cd06811 266 HAVGDQPEKPAMVYVSEVSHTF---GGHSYCYGGGFYRRSHLKNALV 309 (382)
T ss_pred CCCCCCCCCCEEEEEEEEEEEC---CCCEEEECCCCCCCCCCCCEEE
T ss_conf 4567788761399998645742---8955875886654666333255
No 41
>cd00635 PLPDE_III_YBL036c_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins. This family contains mostly uncharacterized proteins, widely distributed among eukaryotes, bacteria and archaea, that bear similarity to the yeast hypothetical protein YBL036c, which is homologous to a Pseudomonas aeruginosa gene that is co-transcribed with a known proline biosynthetic gene. YBL036c is a single domain monomeric protein with a typical TIM barrel fold. It binds the PLP cofactor and has been shown to exhibit amino acid racemase activity. The YBL036c structure is similar to the N-terminal domain of the fold type III PLP-dependent enzymes, bacterial alanine racemase and eukaryotic ornithine decarboxylase, which are two-domain dimeric proteins. The lack of a second domain in YBL036c may explain limited D- to L-alanine racemase or non-specific racemase activity.
Probab=99.33 E-value=1.8e-10 Score=87.50 Aligned_cols=203 Identities=17% Similarity=0.173 Sum_probs=138.6
Q ss_pred EHHHHHHHHHHHHHHC----CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCC--CCCEEEECC
Q ss_conf 6889999999998628----9975999993286657989999999987998999855999999998389--852673068
Q gi|254780333|r 12 DLTALKNNWHSMNALS----GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTP--QARIFVLYG 85 (370)
Q Consensus 12 dl~al~~Ni~~i~~~~----~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~--~~~Ilvl~~ 85 (370)
+++.+..+++...+.+ ...+++||.|. +..+.| ..+.++|++.||=-.++|+.+=...-. +...-..|+
T Consensus 4 nl~~i~~~I~~a~~~~~R~~~~V~LiaVsK~----~~~e~I-~~a~~~G~~~fGENrvQE~~~K~~~l~~~~i~wHfIG~ 78 (222)
T cd00635 4 NLEEVRERIAAAAERAGRDPDEVTLVAVSKT----VPAEAI-REAIEAGQRDFGENRVQEALDKAEELPDPDIEWHFIGH 78 (222)
T ss_pred HHHHHHHHHHHHHHHHCCCCCCEEEEEEECC----CCHHHH-HHHHHCCCCCCCCCHHHHHHHHHHHCCCCCCEEEEECC
T ss_conf 9999999999999982889565189999899----899999-99998599623677089999868754888825999667
Q ss_pred CCHHHHHHHHHH-HHHCCCCCHHHHHHHHHHH-HCCCCCCCEEEECCC--CCCCCCCHHHHHHHHHHHHHHHCCCHHHHH
Q ss_conf 974698888754-2101348998999988887-608877616761266--676556988999999888863100012432
Q gi|254780333|r 86 IHPGQEKIIFDT-NLIPVISSVPQLTFYSKLM-SCGVSHPYALQVDTG--FNRLGLSLQEALDFTHNSFNKKLGQLSLII 161 (370)
Q Consensus 86 ~~~~~~~~~~~~-~i~~~i~s~~~l~~l~~~~-~~~~~~~vhlkiDTG--M~R~G~~~~e~~~~~~~~~~~~~~~i~gi~ 161 (370)
+.....+.++.+ +.+.+|.+...++.+++.. +.+++.++.|.|+++ -++.|+.++|+.+++..+..++++++.|+|
T Consensus 79 LQsNKvk~i~~~~~~IhSvDs~kla~~l~~~~~~~~~~~~vlIQVNis~e~~K~G~~~~e~~~~~~~~~~~~~l~~~GLM 158 (222)
T cd00635 79 LQTNKVKYAVRLFDLIHSVDSLKLAEELNKRAEKEGRVLDVLVQVNIGGEESKSGVAPEELEELLEEIAALPNLRIRGLM 158 (222)
T ss_pred CCHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEE
T ss_conf 62366998750045888778899999999999972999718999815887555688999999999999966899751036
Q ss_pred CCCCCCCCCCCHHHHHHHHH----HHHHHHHHC-CC-CHHHCCCCHHCCCCCCCCHHHCCCCCCCC
Q ss_conf 01243333466788999999----999975434-88-60111641100477322202048735306
Q gi|254780333|r 162 SHLACADDPSSHVNSVQLER----FRTLISHYK-GI-EASLASSSGILLGPNYHFQLTRPGISLYG 221 (370)
Q Consensus 162 THfa~ad~~~~~~~~~Q~~~----F~~~~~~~~-~~-~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG 221 (370)
|==+..+++.. ....|++ |.++.+.+. +. ..++.-|.-...--+..-+|||+|.++||
T Consensus 159 ~i~p~~~d~~~--~~~~F~~l~~l~~~l~~~~~~~~~~LSMGMS~Dy~~AI~~GST~VRIGs~iFG 222 (222)
T cd00635 159 TIAPLTEDPEE--VRPYFRELRELRDELGAKGGVNLKELSMGMSGDFEIAIEEGATLVRIGTAIFG 222 (222)
T ss_pred EECCCCCCHHH--HHHHHHHHHHHHHHHHHHCCCCCCEECCCCHHHHHHHHHCCCCEEEECCHHCC
T ss_conf 53699999799--99999999999999876459993988981414599999879997981632109
No 42
>PRK11165 diaminopimelate decarboxylase; Provisional
Probab=99.30 E-value=2.4e-08 Score=73.77 Aligned_cols=320 Identities=13% Similarity=0.082 Sum_probs=171.5
Q ss_pred EEEEEEHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCC-----CEE
Q ss_conf 099986889999999998628997599999328665798999999998799899985599999999838985-----267
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQA-----RIF 81 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~-----~Il 81 (370)
|--..|++.|++|++.+|+.. .+.--+|||. ...+.+.+.+.|+. |-|+|..|-.....+|+.. +|.
T Consensus 19 P~yVyd~~~i~~~~~~l~~~~---~i~YAvKAN~----~~~il~~l~~~G~g-~DvaS~gEl~~al~aG~~~~~~~~~Ii 90 (412)
T PRK11165 19 PVWVYDADIIRRQIAQLKQFD---VIRFAQKACS----NIHILRLMREQGVK-VDAVSLGEIERALAAGYSPGTEPDDIV 90 (412)
T ss_pred CEEEEEHHHHHHHHHHHHCCC---CEEEEHHHCC----CHHHHHHHHHCCCC-EEEECHHHHHHHHHCCCCCCCCCCCEE
T ss_conf 879986999999999862668---2488626488----89999999984996-688799999999975999899855238
Q ss_pred EECCC-CHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCC--------------CCCCCCHHHHHHHH
Q ss_conf 30689-7469888875421013489989999888876088776167612666--------------76556988999999
Q gi|254780333|r 82 VLYGI-HPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGF--------------NRLGLSLQEALDFT 146 (370)
Q Consensus 82 vl~~~-~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM--------------~R~G~~~~e~~~~~ 146 (370)
.-++. ..+++..+.+.++...+.|.++|+.+.+. .+.++|.|-|+.++ +.+|++.+++.+++
T Consensus 91 f~g~~k~~~~l~~a~~~gv~in~ds~~eL~~i~~~---~~~~~V~lRiNP~~~~~~~~~~~tg~~~sKFGi~~~~~~~~~ 167 (412)
T PRK11165 91 FTADLIDRATLARVSELKIPVNAGSIDMLDQLGQV---SPGHRVWLRINPGFGHGHSQKTNTGGENSKHGIWHEDLPAAL 167 (412)
T ss_pred ECCCCCCHHHHHHHHHCCCEEECCCHHHHHHHHHH---CCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH
T ss_conf 77865799999999984997822878999999864---668846999568868776643346887555678999999999
Q ss_pred HHHHHHHCCCHHHHHCCCCCCCCCCCHHHHHH-HHHHHHHHHHHCCCCHHHCCCCHHCC--C--CCCCCHH---------
Q ss_conf 88886310001243201243333466788999-99999997543488601116411004--7--7322202---------
Q gi|254780333|r 147 HNSFNKKLGQLSLIISHLACADDPSSHVNSVQ-LERFRTLISHYKGIEASLASSSGILL--G--PNYHFQL--------- 212 (370)
Q Consensus 147 ~~~~~~~~~~i~gi~THfa~ad~~~~~~~~~Q-~~~F~~~~~~~~~~~~h~~nS~~~l~--~--p~~~~d~--------- 212 (370)
..+... ++++.|+-.|..+. .+.. ...| .+...+....+ +.....-|=+|=+- | .+..+|+
T Consensus 168 ~~~~~~-~l~~~GlH~HiGS~--i~~~-~~~~~~~~~~~~~~~~-g~~~~~idiGGGfgv~Y~~~~~~~d~~~~~~~~~~ 242 (412)
T PRK11165 168 AVIQRY-GLKLVGIHMHIGSG--VDYG-HLEQVCGAMVRQVIEL-GQDIEAISAGGGLSIPYRSGEEPVDTEHYFGLWNA 242 (412)
T ss_pred HHHHHC-CCCEEEEEEECCCC--CCHH-HHHHHHHHHHHHHHHH-CCCCCEEEECCCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf 999867-99789888953888--7769-9999999999999980-88731576158666478889889899999999999
Q ss_pred HCCCCCC-CCCCC----CCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCC
Q ss_conf 0487353-06787----767556764100123688632671489834665653467764179712330026010236854
Q gi|254780333|r 213 TRPGISL-YGGTD----KINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLD 287 (370)
Q Consensus 213 vR~Gi~l-YG~~~----~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~ 287 (370)
.+--+.- +|... +++.. =..++..+-++|..+|+.. +.+.+++-.|..|=..-.+.+
T Consensus 243 ~~~~i~~~~~~~~~l~iEPGR~-lva~aG~llt~V~~~K~~~---------------~~~~~~vD~Gmn~l~rpalyg-- 304 (412)
T PRK11165 243 ARKQIARHLGHPVKLEIEPGRF-LVAESGVLVTQVRAVKQMG---------------SRHFVLVDAGFNDLMRPAMYG-- 304 (412)
T ss_pred HHHHHHHHCCCCCEEEECCCCE-EECCCCEEEEEEEEEEECC---------------CCCEEEECCCHHCCCCCHHCC--
T ss_conf 9999998529984699825726-7315528999999999728---------------765899725420154302213--
Q ss_pred CCCCCCCC-CCCEEEEC--CEEEEEEEECCCC--CEEEE------CCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCC--
Q ss_conf 33444323-28869999--9995077004256--47996------688778788878999788889989999817946--
Q gi|254780333|r 288 SEHSPSVF-LGGKGFIK--GYMVPILGKITMD--MTMFD------ITDSLSIEVGDYIQIFGPDIKLDDVALASGTTN-- 354 (370)
Q Consensus 288 ~~~~~~~~-~~~~vli~--G~~~pivGrv~MD--~~~vd------vt~~~~~~~GD~V~l~G~~i~~~~~A~~~gti~-- 354 (370)
..|...+. ..+.-.-. -..+-|+|.+|.. .+.-| -...|++++||.+.+..-.-=-..+|...+.-|
T Consensus 305 a~h~i~~~~~~~~~~~~~~~~~~~v~Gp~Ces~D~l~~~~~~~i~~~~LP~l~~GD~l~i~~~GAY~~smss~yN~rp~p 384 (412)
T PRK11165 305 SYHHISVLAADGRSLEHAPLVETVVAGPLCESGDVFTQQEGGVVETRALPQVKVGDYLVLHDTGAYGASMSSNYNSRPLL 384 (412)
T ss_pred CCCEEEEECCCCCCCCCCCCCEEEEECCCCCCCCEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCHHHHHCCCCCCCCC
T ss_conf 45426882566777656875568988679886243343666531444488899989999916881617660212599988
Q ss_pred EEEECC
Q ss_conf 042154
Q gi|254780333|r 355 YDLLVR 360 (370)
Q Consensus 355 yEil~~ 360 (370)
-|+|..
T Consensus 385 aeVlv~ 390 (412)
T PRK11165 385 PEVLFD 390 (412)
T ss_pred CEEEEE
T ss_conf 089999
No 43
>PRK08961 bifunctional aspartate kinase/diaminopimelate decarboxylase protein; Provisional
Probab=99.25 E-value=5.8e-08 Score=71.33 Aligned_cols=310 Identities=15% Similarity=0.105 Sum_probs=181.0
Q ss_pred EEEEEEHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHH--CCCCCEEEEC
Q ss_conf 09998688999999999862899759999932866579899999999879989998559999999983--8985267306
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLY--TPQARIFVLY 84 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~--g~~~~Ilvl~ 84 (370)
|+-.-|++.++.+.+.++++.+=-+++--||||- -..|.++|.++|+ +|-++|..|-.++.++ |++..=.++.
T Consensus 507 ~~yvy~~~~~~~~~~~~~~~~~~d~~fYAVKaN~----~P~IL~~La~lG~-GFDcaS~gEl~~vL~~~~Gv~p~rIifa 581 (865)
T PRK08961 507 PRYVYHLPTVRARARALAALAAIDQRYYAIKANP----HPAILRTLEEEGF-GLECVSIGELRRVFKALPELSPRRVLFT 581 (865)
T ss_pred CEEEECHHHHHHHHHHHHCCCCHHHEEEEEECCC----CHHHHHHHHHHCC-CCEECCHHHHHHHHHHCCCCCCCCEEEC
T ss_conf 7389666999999999863253113589985089----9899999998389-8366699999999960279593318979
Q ss_pred CC--CHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEE------------CCCC--CCCCCCHHHHHHHHHH
Q ss_conf 89--746988887542101348998999988887608877616761------------2666--7655698899999988
Q gi|254780333|r 85 GI--HPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYALQV------------DTGF--NRLGLSLQEALDFTHN 148 (370)
Q Consensus 85 ~~--~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlki------------DTGM--~R~G~~~~e~~~~~~~ 148 (370)
++ ...++..+.+.++..++.|.+.|+.+.++.. ..++.|-| .||. +-+|++++++.++++.
T Consensus 582 ~~~K~~~ei~~A~~~gV~~t~Ds~~EL~ki~~~~~---~a~v~LRInP~~~~g~h~~istGg~~sKFGi~~~~~~~ll~~ 658 (865)
T PRK08961 582 PSFAPRAEYEAAFALGVTVTVDNVEALRNWPEVFR---GREVWLRIDLGHGDGHHEKVRTGGKESKFGLSSTRIDEFVDL 658 (865)
T ss_pred CCCCCHHHHHHHHHCCCEEEECCHHHHHHHHHHCC---CCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf 99999999999997799899838999999998778---985999975899988777513799988889889999999999
Q ss_pred HHHHHCCCHHHHHCCCCCC-CCCCCHHHHHHHHHHHHHHHHHCCCCHHHCCCCHHCC---CC-CCCCHH--H--------
Q ss_conf 8863100012432012433-3346678899999999997543488601116411004---77-322202--0--------
Q gi|254780333|r 149 SFNKKLGQLSLIISHLACA-DDPSSHVNSVQLERFRTLISHYKGIEASLASSSGILL---GP-NYHFQL--T-------- 213 (370)
Q Consensus 149 ~~~~~~~~i~gi~THfa~a-d~~~~~~~~~Q~~~F~~~~~~~~~~~~h~~nS~~~l~---~p-~~~~d~--v-------- 213 (370)
.+..++++.|+-.|..+. .+++ .+. .-.+.+.++.+++..+ .+-|=+|=+- .+ +..+|+ +
T Consensus 659 -Ak~~gL~vvGihfHVGSg~~d~~-~~~-~a~~~~~~la~~~~~l--~~LDiGGGfgv~y~~~~~~~d~~~~~~~l~~~~ 733 (865)
T PRK08961 659 -AKTLGITVTGLHAHLGSGVETGD-HWR-RMYDELAGFARRIGTV--ETIDIGGGLPIPYSPGDEPFDLDAWDAGLAEVK 733 (865)
T ss_pred -HHHCCCCEEEEEEECCCCCCCHH-HHH-HHHHHHHHHHHHCCCC--EEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf -98769967999974277889989-999-9999999999852997--099858998888899988869999999999976
Q ss_pred --CCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCCCCCCCC
Q ss_conf --487353067877675567641001236886326714898346656534677641797123300260102368543344
Q gi|254780333|r 214 --RPGISLYGGTDKINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHS 291 (370)
Q Consensus 214 --R~Gi~lYG~~~~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~~~~~~~ 291 (370)
.+|.-+. -+++..+ ...+..+-++|+.+|.-.. .+-..+-.|-.|.+.-.+-+ ..|.
T Consensus 734 ~~~~~~~li---~EPGRyl-Va~AG~Llt~V~~ik~~~~---------------~~fv~vDaGmn~liRPaLYg--a~H~ 792 (865)
T PRK08961 734 AVHPGYRLW---IEPGRYL-VAEAGVLLARVTQVKEKDG---------------VRRVGLDAGMNSLIRPALYD--AWHE 792 (865)
T ss_pred HCCCCCEEE---EECCCEE-EECCEEEEEEEEEEEECCC---------------CEEEEEECCCCCCCCHHHCC--CCCC
T ss_conf 038996699---9688151-2101189999999975698---------------35999946634555635417--6453
Q ss_pred CCCCCCCEEEECCEEEEEEEECC--CCCEEEECCCCC-CCCCCCEEEEECCCCCHHHHHHHHCC
Q ss_conf 43232886999999950770042--564799668877-87888789997888899899998179
Q gi|254780333|r 292 PSVFLGGKGFIKGYMVPILGKIT--MDMTMFDITDSL-SIEVGDYIQIFGPDIKLDDVALASGT 352 (370)
Q Consensus 292 ~~~~~~~~vli~G~~~pivGrv~--MD~~~vdvt~~~-~~~~GD~V~l~G~~i~~~~~A~~~gt 352 (370)
........ --....+-|+|.+| +|.+.-|.. .| .+++||++.+-.-.-=---+|...++
T Consensus 793 I~~l~~~~-~~~~~~~~VvGPiCES~D~~~~~~~-LP~~~~~GD~L~~~~aGAYg~smaS~yN~ 854 (865)
T PRK08961 793 IENLSRLD-EPPAGTADVVGPICESSDVFGKRRR-LPAATAPGDVILIADTGAYGYSMASTYNL 854 (865)
T ss_pred EEECCCCC-CCCCCEEEEECCCCCCCCEEEECCC-CCCCCCCCCEEEECCCCCCHHHHCCCCCC
T ss_conf 04247778-8887656898378488627411562-88768999999991898451776245668
No 44
>COG0325 Predicted enzyme with a TIM-barrel fold [General function prediction only]
Probab=99.25 E-value=2.5e-10 Score=86.64 Aligned_cols=205 Identities=16% Similarity=0.172 Sum_probs=132.5
Q ss_pred EHHHHHHHHHHHHHHC----CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCC---CEEEEC
Q ss_conf 6889999999998628----997599999328665798999999998799899985599999999838985---267306
Q gi|254780333|r 12 DLTALKNNWHSMNALS----GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQA---RIFVLY 84 (370)
Q Consensus 12 dl~al~~Ni~~i~~~~----~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~---~Ilvl~ 84 (370)
++..++..++.-...+ +..++.||-|- +-. +..+.+.++|++.||=..++|+..=.+.-.+. ..-..|
T Consensus 6 nl~~v~~~I~~a~~~a~R~~~~V~LvAVSK~----~~~-~~I~~~~~aG~r~fGENrvQe~~~K~~~l~~~~~i~WHfIG 80 (228)
T COG0325 6 NLAAVRERIAAAAERAGRNPGSVTLVAVSKT----VPA-EDIREAYEAGQRHFGENRVQEALDKIEALKDLPDIEWHFIG 80 (228)
T ss_pred HHHHHHHHHHHHHHHCCCCCCCEEEEEEECC----CCH-HHHHHHHHCCCCHHCCHHHHHHHHHHHHCCCCCCEEEEEEC
T ss_conf 9999999999999973899884799997677----899-99999998488032331899999999964767881799964
Q ss_pred CCCHHHHHHHHH-HHHHCCCCCHHHHHHHHHHHHC-CCCCCCEEEECCC--CCCCCCCHHHHHHHHHHHHHHHCCCHHHH
Q ss_conf 897469888875-4210134899899998888760-8877616761266--67655698899999988886310001243
Q gi|254780333|r 85 GIHPGQEKIIFD-TNLIPVISSVPQLTFYSKLMSC-GVSHPYALQVDTG--FNRLGLSLQEALDFTHNSFNKKLGQLSLI 160 (370)
Q Consensus 85 ~~~~~~~~~~~~-~~i~~~i~s~~~l~~l~~~~~~-~~~~~vhlkiDTG--M~R~G~~~~e~~~~~~~~~~~~~~~i~gi 160 (370)
++.....+.+++ .....++.+...+..+++.+.. +...++.|.|+++ -++.|+.++|..+++..+..++++++.|+
T Consensus 81 ~LQsNK~k~v~~~~~~ihSlDr~klA~~l~kra~~~~~~l~v~iQVNi~~E~sK~G~~~~e~~~~~~~~~~~~~L~l~GL 160 (228)
T COG0325 81 PLQSNKVKLVAENFDWIHSLDRLKLAKELNKRALELPKPLNVLIQVNISGEESKSGVPPEELDELAQEVQELPNLELRGL 160 (228)
T ss_pred HHHHHHHHHHHHHCCEEEECCHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEE
T ss_conf 11356799998424233330779999999989973798863899994388623379998999999999974899767577
Q ss_pred HCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCC-----CHHHCCCCHHCCCCCCCCHHHCCCCCCCCCC
Q ss_conf 20124333346678899999999997543488-----6011164110047732220204873530678
Q gi|254780333|r 161 ISHLACADDPSSHVNSVQLERFRTLISHYKGI-----EASLASSSGILLGPNYHFQLTRPGISLYGGT 223 (370)
Q Consensus 161 ~THfa~ad~~~~~~~~~Q~~~F~~~~~~~~~~-----~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG~~ 223 (370)
||=-+..++++. ...+|+...++...++.. ..++.-|.-..---...-++||+|.++||..
T Consensus 161 M~ipp~~~d~~~--~~~~F~~l~~l~~~l~~~~~~~~~LSMGMS~D~e~AI~~GaT~VRIGtaiFg~r 226 (228)
T COG0325 161 MTIPPLTDDPEE--IFAVFRKLRKLFDELKAKYPPIDELSMGMSNDYEIAIAEGATMVRIGTAIFGAR 226 (228)
T ss_pred EEECCCCCCHHH--HHHHHHHHHHHHHHHHHHCCCCCEECCCCCCCHHHHHHCCCCEEEECHHHHCCC
T ss_conf 741799899799--999999999999999874589785268676259999985998899707861878
No 45
>cd06822 PLPDE_III_YBL036c_euk Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Eukaryotic YBL036c-like proteins. This subfamily contains mostly uncharacterized eukaryotic proteins with similarity to the yeast hypothetical protein YBL036c, which is homologous to a Pseudomonas aeruginosa gene that is co-transcribed with a known proline biosynthetic gene. YBL036c is a single domain monomeric protein with a typical TIM barrel fold. It binds the PLP cofactor and has been shown to exhibit amino acid racemase activity. The YBL036c structure is similar to the N-terminal domain of the fold type III PLP-dependent enzymes, bacterial alanine racemase and eukaryotic ornithine decarboxylase, which are two-domain dimeric proteins. The lack of a second domain in YBL036c may explain limited D- to L-alanine racemase or non-specific racemase activity. Some members of this subfamily are also referred to as PROSC (Proline synthetase co-transcribed bacterial homolog)
Probab=99.22 E-value=1.2e-09 Score=82.09 Aligned_cols=204 Identities=17% Similarity=0.153 Sum_probs=131.4
Q ss_pred EHHHHHHHHHHHHHHCC--CCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCC-CCCEEEECCCCH
Q ss_conf 68899999999986289--975999993286657989999999987998999855999999998389-852673068974
Q gi|254780333|r 12 DLTALKNNWHSMNALSG--NARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTP-QARIFVLYGIHP 88 (370)
Q Consensus 12 dl~al~~Ni~~i~~~~~--~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~-~~~Ilvl~~~~~ 88 (370)
|+..++.+++...+..+ ..+++||-|. |..+.|- .+.++|++.||=-.++|+.+=-+.-. +...-..|++..
T Consensus 4 Nl~~I~~~I~~a~~~~~~~~v~LiAVsK~----~~~e~I~-~a~~~G~~~fGENrvQE~~~K~~~l~~~i~WHfIG~LQs 78 (227)
T cd06822 4 NLKRIRQAVKRASKKLPASKPRLVAVSKT----KPAELIK-EAYDAGQRHFGENYVQELIEKAPDLPIDIKWHFIGHLQS 78 (227)
T ss_pred HHHHHHHHHHHHHHHCCCCCCEEEEEECC----CCHHHHH-HHHHCCCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCH
T ss_conf 89999999999997679999689999799----8999999-999869960288609999999984532545999645324
Q ss_pred HHHHHHHHH---HHHCCCCCHHHHHHHHHHH-HCC--CCCCCEEEECCC--CCCCCCCHHHHHHHHHHHH-HHHCCCHHH
Q ss_conf 698888754---2101348998999988887-608--877616761266--6765569889999998888-631000124
Q gi|254780333|r 89 GQEKIIFDT---NLIPVISSVPQLTFYSKLM-SCG--VSHPYALQVDTG--FNRLGLSLQEALDFTHNSF-NKKLGQLSL 159 (370)
Q Consensus 89 ~~~~~~~~~---~i~~~i~s~~~l~~l~~~~-~~~--~~~~vhlkiDTG--M~R~G~~~~e~~~~~~~~~-~~~~~~i~g 159 (370)
...+.+... ..+.+|.+...++.+++.. +.+ .+.++.|.|+++ =++.||.++|..+++..+. .++++++.|
T Consensus 79 NKvk~i~~~~~~~~IhSvDs~kla~~l~~~~~~~~~~~~l~vliQVNi~~E~~K~G~~~~e~~~~~~~i~~~~~~l~i~G 158 (227)
T cd06822 79 NKVKKLLKVPNLYMVETVDSEKLADKLNKAWEKLGEREPLKVMVQVNTSGEESKSGLEPSEAVELVKHIIEECPNLKFSG 158 (227)
T ss_pred HHHHHHHCCCCCCEEEECCHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEE
T ss_conf 34899970677446641574999999999999736888706999970278645689899999999999998689976889
Q ss_pred HHCCCCCCCCCCCHHHHHHHHHHH----HHHHHHC-CC---CHHHCCCCHHCCCCCCCCHHHCCCCCCCC
Q ss_conf 320124333346678899999999----9975434-88---60111641100477322202048735306
Q gi|254780333|r 160 IISHLACADDPSSHVNSVQLERFR----TLISHYK-GI---EASLASSSGILLGPNYHFQLTRPGISLYG 221 (370)
Q Consensus 160 i~THfa~ad~~~~~~~~~Q~~~F~----~~~~~~~-~~---~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG 221 (370)
+||=-+..+++... ...-|+++. ++.+.+. +. +.++.-|.-...--+..-+|||+|.++||
T Consensus 159 LMti~p~~~~~~~~-~~~~F~~l~~l~~~l~~~~~~~~~~~eLSMGMS~Dye~AIe~GsT~VRIGs~IFG 227 (227)
T cd06822 159 LMTIGSFGYSLSSG-PNPDFLCLVDCRKKVCEKLGINPDDLELSMGMSADFEHAIEMGSTNVRVGSAIFG 227 (227)
T ss_pred EEEECCCCCCHHHC-HHHHHHHHHHHHHHHHHHCCCCCCCCEECCCHHHHHHHHHHCCCCEEECCCHHCC
T ss_conf 99869899880022-1399999999999999974999997988685365799999879997983713109
No 46
>TIGR01048 lysA diaminopimelate decarboxylase; InterPro: IPR002986 Pyridoxal-dependent decarboxylases that act on ornithine-, lysine-, arginine- and related substrates can be classified into different families on the basis of sequence similarity , . One of these families includes ornithine decarboxylase (ODC), which catalyses the transformation of ornithine into putrescine; prokaryotic diaminopimelic acid decarboxylase (DAPDC), which catalyses the conversion of diaminopimelic acid into lysine, the final step of lysine biosynthesis; Pseudomonas syringae pv. tabaci protein, tabA, which is probably involved in tabtoxin biosynthesis and is similar to DAPDC; and bacterial and plant biosynthetic arginine decarboxylase (ADC), which catalyses the transformation of arginine into agmatine, the first step in putrescine synthesis from arginine. Although these proteins, which are known collectively as group IV decarboxylases , probably share a common evolutionary origin, their levels of sequence similarity are low, being confined to a few short conserved regions. These conserved motifs suggest a common structural arrangement for positioning of substrate and the cofactor pyridoxal 5'-phosphate among bacterial DAP decarboxylases, eukaryotic ornithine decarboxylases and arginine decarboxylases . The structure of bacterial diaminopimelate decarboxylase has been determined . ; GO: 0008836 diaminopimelate decarboxylase activity, 0009089 lysine biosynthetic process via diaminopimelate.
Probab=99.11 E-value=4.8e-08 Score=71.87 Aligned_cols=323 Identities=16% Similarity=0.170 Sum_probs=203.3
Q ss_pred EEEHHHHHHHHHHHHH-HCC---CC-EEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCC----CCE
Q ss_conf 9868899999999986-289---97-59999932866579899999999879989998559999999983898----526
Q gi|254780333|r 10 KIDLTALKNNWHSMNA-LSG---NA-RTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQ----ARI 80 (370)
Q Consensus 10 eIdl~al~~Ni~~i~~-~~~---~~-~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~----~~I 80 (370)
.+|.+.|+.|++.+++ ... .. .++--+|||. -..+.+.+.++|. +|-|.|..|=..-..+|++ ..=
T Consensus 29 Vyd~~~l~~~~~~~~~AF~~~~~~~~~v~YA~KAn~----Nl~~~~~la~~G~-G~D~VS~GEL~~A~~AG~~~~~~~~~ 103 (431)
T TIGR01048 29 VYDEATLRERFEAYKEAFGAAERESALVCYAVKANS----NLALLRLLAELGS-GFDVVSGGELYRALAAGFPLQEIPEK 103 (431)
T ss_pred EECHHHHHHHHHHHHHHHHCCCCCCCCEEEEHHHHC----CHHHHHHHHHCCC-CEEEEEHHHHHHHHHHCCCCCCCCCC
T ss_conf 816789999999999873015877531587431407----6889999996388-46887016999999808885566643
Q ss_pred EEECCC--CHHHHHHHHHHHHH-CCCCCHHHHHHHHHHHH-CCCCCCC------------EEEECCCC--CCCCCCHH--
Q ss_conf 730689--74698888754210-13489989999888876-0887761------------67612666--76556988--
Q gi|254780333|r 81 FVLYGI--HPGQEKIIFDTNLI-PVISSVPQLTFYSKLMS-CGVSHPY------------ALQVDTGF--NRLGLSLQ-- 140 (370)
Q Consensus 81 lvl~~~--~~~~~~~~~~~~i~-~~i~s~~~l~~l~~~~~-~~~~~~v------------hlkiDTGM--~R~G~~~~-- 140 (370)
.+|++. ..+|+..+++.++. ..|.|.++|+.|+++++ .|++.+| |=+|-||+ |-+|++++
T Consensus 104 i~F~Gn~Ks~~El~~Al~~~i~~~nVdS~~El~~l~~~A~e~G~~~~i~~RvNP~VdakTHpyI~TG~~~sKFG~~~~sG 183 (431)
T TIGR01048 104 IVFSGNGKSRAELERALELGIRCINVDSFSELELLNEIAPELGKKARISLRVNPDVDAKTHPYISTGLKDSKFGIDVESG 183 (431)
T ss_pred EEEECCCCCHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCCCCHHHHHCCCCCCCCCCCCC
T ss_conf 68965877889999999637989997688999999973521385589999726887598783122100036547774575
Q ss_pred HHHHHHHHHHHHHCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHC---CCCHHHCCCCHH--CCC-CC----CCC
Q ss_conf 99999988886310001243201243333466788999999999975434---886011164110--047-73----222
Q gi|254780333|r 141 EALDFTHNSFNKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLISHYK---GIEASLASSSGI--LLG-PN----YHF 210 (370)
Q Consensus 141 e~~~~~~~~~~~~~~~i~gi~THfa~ad~~~~~~~~~Q~~~F~~~~~~~~---~~~~h~~nS~~~--l~~-p~----~~~ 210 (370)
++.+......+++++++.||=.|--|.=..-++|.+. .++-.++...++ ++....-|=+|= +.| ++ ...
T Consensus 184 ~a~~~~~~a~~~~~l~~vG~H~HIGSQi~d~~Pf~~A-~~~v~~~~~~l~~~yG~~l~~ld~GGGLGi~Y~~e~~~p~~~ 262 (431)
T TIGR01048 184 EALEAYLYALQLENLEIVGIHCHIGSQILDLSPFVEA-AEKVVKLVEELKAEYGIDLEFLDLGGGLGIPYTPEEEPPDLS 262 (431)
T ss_pred CCHHHHHHHHHCCCCCEEEEEEECCCCCCCCCHHHHH-HHHHHHHHHHHHHHHCCEEEEEECCCCEEEECCCCCCCCCHH
T ss_conf 3178999998378993899864337301023407999-999999999888871600799983872224006888866989
Q ss_pred HHHCC------CCCCCCC-CCCCCCCCC---CCCEEEEEEEEEEEEEECC-CCCCCCCCCCCCCCCCEEEEECCCCCCCE
Q ss_conf 02048------7353067-877675567---6410012368863267148-98346656534677641797123300260
Q gi|254780333|r 211 QLTRP------GISLYGG-TDKINKSHP---MQTVVTAEARIILIRKALA-GELVSYGGQKKLTRDSLIAVAAIGYADGY 279 (370)
Q Consensus 211 d~vR~------Gi~lYG~-~~~~~~~~~---l~pv~~l~s~i~~ir~l~~-G~~VgYg~~~~~~~~~~iavipiGYaDG~ 279 (370)
|+... +.+-||. .|..--..+ .-++-.|-+||..+|+.+- =. -++|-.|..|=+
T Consensus 263 ~yA~~~~~~l~~~~~~g~~~~~li~EPGRslVa~aG~Llt~V~~~K~~~~~r~---------------Fv~VDaGMNDli 327 (431)
T TIGR01048 263 EYAQAILAALEGYARLGLPDPKLILEPGRSLVANAGVLLTRVGFVKEVGSVRN---------------FVIVDAGMNDLI 327 (431)
T ss_pred HHHHHHHHHHHHHHHHCCCCCEEEEECCCCEECCCCEEEEEEEEEEECCCEEE---------------EEEEECCCCCCH
T ss_conf 99999999988677527996379992260002045178998766874685789---------------999807755001
Q ss_pred ECCCCCCCCCCCCCCCCCC-EEEECCEEEEEEEECC--CCCEEEECCCCCCCCCCCEEEEECCC---CCHHHHHHHHCCC
Q ss_conf 1023685433444323288-6999999950770042--56479966887787888789997888---8998999981794
Q gi|254780333|r 280 PLTLSGLDSEHSPSVFLGG-KGFIKGYMVPILGKIT--MDMTMFDITDSLSIEVGDYIQIFGPD---IKLDDVALASGTT 353 (370)
Q Consensus 280 pr~ls~~~~~~~~~~~~~~-~vli~G~~~pivGrv~--MD~~~vdvt~~~~~~~GD~V~l~G~~---i~~~~~A~~~gti 353 (370)
.=.|-+ ..|........ .---.-..|-|+|.+| =|.+.=|.. +|++++||-..++--. .| ||..-++.
T Consensus 328 RPalY~--AyH~i~~~~~Dr~~~~~~~~~~vvGp~CESGD~l~~Dr~-Lp~~e~GD~lav~~aGAYG~S---MSSnYN~r 401 (431)
T TIGR01048 328 RPALYG--AYHHIIVANRDRTNEEPTEVADVVGPICESGDVLAKDRE-LPEVEPGDLLAVFSAGAYGFS---MSSNYNSR 401 (431)
T ss_pred HHHHHC--CCEEEEECCCCCCCCCCCEEEEECCCCCCCCCEEEEECC-CCCCCCCCEEEEECCCCCCCH---HHHCCCCC
T ss_conf 256433--632577526667566772168971783445440014124-544478857997247874314---42301666
Q ss_pred --CEEEEC
Q ss_conf --604215
Q gi|254780333|r 354 --NYDLLV 359 (370)
Q Consensus 354 --~yEil~ 359 (370)
+-|+|+
T Consensus 402 pR~AEVLv 409 (431)
T TIGR01048 402 PRPAEVLV 409 (431)
T ss_pred CCCEEEEE
T ss_conf 76235678
No 47
>pfam02784 Orn_Arg_deC_N Pyridoxal-dependent decarboxylase, pyridoxal binding domain. These pyridoxal-dependent decarboxylases acting on ornithine, lysine, arginine and related substrates This domain has a TIM barrel fold.
Probab=99.07 E-value=2.9e-08 Score=73.22 Aligned_cols=147 Identities=16% Similarity=0.141 Sum_probs=112.4
Q ss_pred EHHHHHHHHHHHHH-HCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCC-EEEECCC-CH
Q ss_conf 68899999999986-289975999993286657989999999987998999855999999998389852-6730689-74
Q gi|254780333|r 12 DLTALKNNWHSMNA-LSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQAR-IFVLYGI-HP 88 (370)
Q Consensus 12 dl~al~~Ni~~i~~-~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~-Ilvl~~~-~~ 88 (370)
|+++++.+++.+++ ..|+.++.--+|||- ...+.+.+.+.|+ +|-|+|..|-....++|++.. |+.-++. .+
T Consensus 1 D~~~i~~~~~~~~~~~~p~~~~~YAvKaN~----~~~il~~l~~~G~-g~dv~S~~El~~al~~g~~~~~I~~~g~~k~~ 75 (245)
T pfam02784 1 DLGRIIERAHALWQAFLPRIQPFYAVKANS----DPAVLRLLAELGL-GFDCASKGELERVLAAGVPPERIIFANPCKSR 75 (245)
T ss_pred CHHHHHHHHHHHHHHHCCCCEEEEEEEECC----CHHHHHHHHHCCC-CEEEECHHHHHHHHHCCCCHHHEEEECCCCCH
T ss_conf 968999999999998489977998850188----8999999998299-29998999999999869895788981443546
Q ss_pred HHHHHHHHHHH-HCCCCCHHHHHHHHHHHHCCCCCCCEEEEC------------CC-CCCCCCCHHHHHHHHHHHHHHHC
Q ss_conf 69888875421-013489989999888876088776167612------------66-67655698899999988886310
Q gi|254780333|r 89 GQEKIIFDTNL-IPVISSVPQLTFYSKLMSCGVSHPYALQVD------------TG-FNRLGLSLQEALDFTHNSFNKKL 154 (370)
Q Consensus 89 ~~~~~~~~~~i-~~~i~s~~~l~~l~~~~~~~~~~~vhlkiD------------TG-M~R~G~~~~e~~~~~~~~~~~~~ 154 (370)
++++.+.++++ ..++.|.++++.+.++.+. .++.+-|+ || -+++|++.+++.++++.+... .
T Consensus 76 ~~i~~a~~~gv~~i~vDs~~el~~i~~~~~~---~~i~lRvnp~~~~~~~~~~~~g~~sKFGi~~~~~~~~~~~~~~~-~ 151 (245)
T pfam02784 76 SELRYALEHGVVCVTVDNVEELEKLARLAPE---ARLLLRVKPDVDAHAHCYLSTGQDSKFGADLEEAEALLKAAKEL-G 151 (245)
T ss_pred HHHHHHHHHCCCCEEECCHHHHHHHHHHCCC---CCEEEEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHC-C
T ss_conf 8999999827761442799999999985753---77899994067766554444688777689999999999999867-9
Q ss_pred CCHHHHHCCCCCC
Q ss_conf 0012432012433
Q gi|254780333|r 155 GQLSLIISHLACA 167 (370)
Q Consensus 155 ~~i~gi~THfa~a 167 (370)
+++.|+-.|..+-
T Consensus 152 ~~~~GlH~H~GSq 164 (245)
T pfam02784 152 LNVVGVHFHVGSG 164 (245)
T ss_pred CCEEEEEEECCCC
T ss_conf 9754755653657
No 48
>cd06830 PLPDE_III_ADC Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase. This subfamily includes plants and biosynthetic prokaryotic arginine decarboxylases (ADC, EC 4.1.1.19). ADC is involved in the biosynthesis of putrescine, which is the precursor of aliphatic polyamines in many organisms. It catalyzes the decarboxylation of L-arginine to agmatine, which is then hydrolyzed to putrescine by agmatinase. ADC is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC), which are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. Homodimer formation and the presence of both PLP and Mg2+ cofactors may be required for catalytic activity. Prokaryotic ADCs (biodegradative), which are fold type I PLP-dependent enzymes, are not included in this family.
Probab=98.68 E-value=7.2e-06 Score=57.77 Aligned_cols=155 Identities=18% Similarity=0.232 Sum_probs=107.8
Q ss_pred EEEEEHHHHHHHHHHHHH-H---------CCCCEEEEEEECCCCCCCHHHHHHHHHHCCCC---EEEECCHHHHHHHHHH
Q ss_conf 999868899999999986-2---------89975999993286657989999999987998---9998559999999983
Q gi|254780333|r 8 RLKIDLTALKNNWHSMNA-L---------SGNARTAAVVKDNAYGLGCEKIAPALYNAGVQ---DFFVTSVEEGVKLRLY 74 (370)
Q Consensus 8 ~leIdl~al~~Ni~~i~~-~---------~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~---~faVa~~~EA~~lR~~ 74 (370)
=...|.+.|++|++.+++ + .++-+++--+|||. ...+.+.+.+.|.. ++-|+|..|-....++
T Consensus 7 LyV~d~~~ir~~~~~~~~aF~~~~~~~~y~~~~~~~YAvKAN~----n~~vl~~l~~~G~~~~~G~DvvS~gEl~~al~a 82 (409)
T cd06830 7 LLLRFPDILRHRIERLNAAFAKAIEEYGYKGKYQGVYPIKVNQ----QREVVEEIVKAGKRYNIGLEAGSKPELLAALAL 82 (409)
T ss_pred EEEECHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECC----HHHHHHHHHHCCCCCCCCEEEECHHHHHHHHHC
T ss_conf 9997099999999999999999999728787628999872068----099999999739755883689689999999976
Q ss_pred CCCC-CEEEECCC-CHHHHHHHHHH-----HHHCCCCCHHHHHHHHHHHH-CCCCCCCEEEEC-----------CC--CC
Q ss_conf 8985-26730689-74698888754-----21013489989999888876-088776167612-----------66--67
Q gi|254780333|r 75 TPQA-RIFVLYGI-HPGQEKIIFDT-----NLIPVISSVPQLTFYSKLMS-CGVSHPYALQVD-----------TG--FN 133 (370)
Q Consensus 75 g~~~-~Ilvl~~~-~~~~~~~~~~~-----~i~~~i~s~~~l~~l~~~~~-~~~~~~vhlkiD-----------TG--M~ 133 (370)
|... +|+..++. ..++++.+... +++.++.|.++|+.+.++++ .+...++.|-|+ || =+
T Consensus 83 g~~p~~ii~~~~~K~~~~i~~a~~~~~~~~~v~iviDs~~El~~i~~~a~~~~~~~~v~lRinp~~~~~~~~~~t~g~~s 162 (409)
T cd06830 83 LKTPDALIICNGYKDDEYIELALLARKLGHNVIIVIEKLSELDLILELAKKLGVKPLLGVRIKLASKGSGKWQESGGDRS 162 (409)
T ss_pred CCCCCCEEEECCCCCHHHHHHHHHHCCCCCCEEEECCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCCCCCCCCC
T ss_conf 99999699949989999999999847567653664599999999999999709995078998536688876411378631
Q ss_pred CCCCCHHHHHHHHHHHHHHHCC-CHHHHHCCCCC
Q ss_conf 6556988999999888863100-01243201243
Q gi|254780333|r 134 RLGLSLQEALDFTHNSFNKKLG-QLSLIISHLAC 166 (370)
Q Consensus 134 R~G~~~~e~~~~~~~~~~~~~~-~i~gi~THfa~ 166 (370)
.+|++.+++.++++.+.....+ ++.|+-.|..+
T Consensus 163 KFGi~~~~~~~~~~~~~~~~~~~~l~glH~HIGS 196 (409)
T cd06830 163 KFGLTASEILEVVEKLKEAGMLDRLKLLHFHIGS 196 (409)
T ss_pred CCCCCHHHHHHHHHHHHHCCCCCCEEEEEEECCC
T ss_conf 3599999999999999857997755689985278
No 49
>TIGR00044 TIGR00044 conserved hypothetical protein TIGR00044; InterPro: IPR011078 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). PLP is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination , , . PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors . Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy . PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalyzed reactions, enzymatic and non-enzymatic . Proteins in this entry occur in archaea, bacteria and eukaryotes. They are encoded by genes which are often co-transcribed with proline biosysnthesis genes , although their function in vivo has not yet been demonstrated. The structure of the yeast protein YBL036C (P38197 from SWISSPROT) has been determined to a resolution of 2.0 A . Similar in structure to the N-terminal domains of alanine racemase and ornithine decarboxylase, it forms a TIM barrel fold which begins with a long N-terminal helix, rather than the classical beta strand found at the beginning of most other TIM barrels. Unlike alanine racemase and ornithine decarboxylase, which are two-domain dimeric proteins, the yeast protein is a single domain monomer. A pyridoxal 5'-phosphate cofactor is covalently bound towards the C-terminal end of the barrel, which is the usual active site in TIM-barrel folds. Some racemase activity was observed for this protein and it was suggested by the authors that it may function as a general racemase ..
Probab=98.40 E-value=5.3e-06 Score=58.62 Aligned_cols=181 Identities=20% Similarity=0.200 Sum_probs=112.2
Q ss_pred CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEE----EECCCCHHHHHHHHHHHHHCCC
Q ss_conf 997599999328665798999999998799899985599999999838985267----3068974698888754210134
Q gi|254780333|r 28 GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIF----VLYGIHPGQEKIIFDTNLIPVI 103 (370)
Q Consensus 28 ~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Il----vl~~~~~~~~~~~~~~~i~~~i 103 (370)
+..+|.||-|.-+ ...| ..++++|++.||=..++|++.=-+...+.+|. .+++.....-..++..++. .+
T Consensus 40 ~~v~LlAVSK~Kp----~saI-~~~Y~aG~R~FGEN~VQE~~~Ki~~l~~~~~~G~~w~~ig~~~~~K~~~v~~~f~-~~ 113 (250)
T TIGR00044 40 SKVKLLAVSKTKP----ASAI-QAAYDAGQRAFGENYVQELVEKIKLLEDLGVKGLEWHFIGPLQSNKARLVVENFD-WV 113 (250)
T ss_pred CCEEEEEEECCCC----HHHH-HHHHHCCCCHHCCHHHHHHHHHHHHHHCCCCCEEHHHCCCCCHHHHHHHHCCCHH-HH
T ss_conf 7047888515676----8899-9997458412000035546899986021675611200013002345665215605-78
Q ss_pred CCHHHHHHHHHH---H-HCCC---CCCCEEEECCC--CCCCCCCHHHHHHHHHH--H-HHHHCCCHHHHHCCCCCCCCCC
Q ss_conf 899899998888---7-6088---77616761266--67655698899999988--8-8631000124320124333346
Q gi|254780333|r 104 SSVPQLTFYSKL---M-SCGV---SHPYALQVDTG--FNRLGLSLQEALDFTHN--S-FNKKLGQLSLIISHLACADDPS 171 (370)
Q Consensus 104 ~s~~~l~~l~~~---~-~~~~---~~~vhlkiDTG--M~R~G~~~~e~~~~~~~--~-~~~~~~~i~gi~THfa~ad~~~ 171 (370)
+|.|.|+...++ + ..+. +..+-|.|++- =+--|+.++|....+.. + ..++++++.|+||=.|..++..
T Consensus 114 ht~D~LkiA~kLn~~r~~~~~DCnpl~~L~QIn~s~Ee~KSG~~~EE~~~~~~~ff~SE~lk~LkL~GLM~I~a~~~~~~ 193 (250)
T TIGR00044 114 HTIDSLKIAKKLNEQREKLQPDCNPLNVLLQINISDEESKSGIQPEELLELASQFFLSEELKHLKLRGLMTIGAPTDSEE 193 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHCHHHHHCCCCCCCCCCCCHH
T ss_conf 87898999877988768747775674102453215434655788899998989888876121223103334798888888
Q ss_pred CHHHHHHHHHHHHHHHHHCCCC----------HHHCCCCHHCCCCC---CCCHHHCCCCCCCCC
Q ss_conf 6788999999999975434886----------01116411004773---222020487353067
Q gi|254780333|r 172 SHVNSVQLERFRTLISHYKGIE----------ASLASSSGILLGPN---YHFQLTRPGISLYGG 222 (370)
Q Consensus 172 ~~~~~~Q~~~F~~~~~~~~~~~----------~h~~nS~~~l~~p~---~~~d~vR~Gi~lYG~ 222 (370)
+ |.+.|..+..-+..+. .++.=|. -||. ..-+|||.|..|||-
T Consensus 194 ~-----~~~~f~~~~~l~~~~K~~~~~~~~d~LSMGMSd---D~~~AIa~G~t~vRIGT~iFGa 249 (250)
T TIGR00044 194 D-----QEESFREMKKLFEQIKQASPFSLIDTLSMGMSD---DFEEAIAAGATMVRIGTAIFGA 249 (250)
T ss_pred H-----HHHHHHHHHHHHHHHHHHCCCCCCHHCCCCCCH---HHHHHHHHHHHHHHHHHHHHCC
T ss_conf 8-----999999999999986553114531010257754---3799998601577787663147
No 50
>KOG0622 consensus
Probab=98.35 E-value=3.8e-05 Score=53.12 Aligned_cols=236 Identities=15% Similarity=0.101 Sum_probs=143.3
Q ss_pred EEEEEEHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCC-CEEEECC
Q ss_conf 099986889999999998628997599999328665798999999998799899985599999999838985-2673068
Q gi|254780333|r 7 LRLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQA-RIFVLYG 85 (370)
Q Consensus 7 ~~leIdl~al~~Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~-~Ilvl~~ 85 (370)
+=-.-|+.++..+++..++..|..+..-.||.|. ...+++.|.+.|+-+++++..++.+.+ ..|+.- +|.--++
T Consensus 57 aFfv~Dl~~I~Rkl~~w~~~LprV~PfYAVKCN~----dp~vl~~La~lG~gfdcaSk~E~~lvl-~~gv~P~riIyanp 131 (448)
T KOG0622 57 AFFVADLGAIERKLEAWKKALPRVRPFYAVKCNS----DPKVLRLLASLGCGFDCASKNELDLVL-SLGVSPERIIYANP 131 (448)
T ss_pred CEEEECHHHHHHHHHHHHHHCCCCCCCEEEEECC----CHHHHHHHHHCCCCCEECCHHHHHHHH-HCCCCHHHEEECCC
T ss_conf 3378418999999999998654678761687379----779999999708660103717999998-66988566686278
Q ss_pred CC-HHHHHHHHHHHHH-CCCCCHHHHHHHHHHHHCCCCCCCEEEECC----CCC----CCCCCHHHHHHHHHHHHHHHCC
Q ss_conf 97-4698888754210-134899899998888760887761676126----667----6556988999999888863100
Q gi|254780333|r 86 IH-PGQEKIIFDTNLI-PVISSVPQLTFYSKLMSCGVSHPYALQVDT----GFN----RLGLSLQEALDFTHNSFNKKLG 155 (370)
Q Consensus 86 ~~-~~~~~~~~~~~i~-~~i~s~~~l~~l~~~~~~~~~~~vhlkiDT----GM~----R~G~~~~e~~~~~~~~~~~~~~ 155 (370)
+- -++++.+.++++. .++.+..++. +..+..+..++.|.|.| +-. .+|++.++...+++....+ .+
T Consensus 132 cK~~s~IkyAa~~gV~~~tfDne~el~---kv~~~hP~a~llLrIatdds~a~~~l~~KFG~~~~~~~~lLd~ak~l-~l 207 (448)
T KOG0622 132 CKQVSQIKYAAKHGVSVMTFDNEEELE---KVAKSHPNANLLLRIATDDSTATCRLNLKFGCSLDNCRHLLDMAKEL-EL 207 (448)
T ss_pred CCCHHHHHHHHHCCCEEEEECCHHHHH---HHHHHCCCCEEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHC-CC
T ss_conf 751999999997597078625899999---99974997338999736887455556675687778999999999871-86
Q ss_pred CHHHHHCCCCCC-CCCCCHHHHHHH--HHHHHHHHHHCCCCHHHCCCCHHCCCCC-------CCCHHHCCCCCCCCCC--
Q ss_conf 012432012433-334667889999--9999997543488601116411004773-------2220204873530678--
Q gi|254780333|r 156 QLSLIISHLACA-DDPSSHVNSVQL--ERFRTLISHYKGIEASLASSSGILLGPN-------YHFQLTRPGISLYGGT-- 223 (370)
Q Consensus 156 ~i~gi~THfa~a-d~~~~~~~~~Q~--~~F~~~~~~~~~~~~h~~nS~~~l~~p~-------~~~d~vR~Gi~lYG~~-- 223 (370)
++.|+.-|+.++ -+++...+..|. ..|+...+ .+...++-+-+|-+...+ .-.+.+|+-+=+|=..
T Consensus 208 nvvGvsfHvGSgc~d~~~y~~Ai~dAr~vfd~g~e--~Gf~m~~LdiGGGf~g~~~~~~~fe~i~~~In~ald~~Fp~~~ 285 (448)
T KOG0622 208 NVVGVSFHVGSGCTDLQAYRDAISDARNVFDMGAE--LGFEMDILDIGGGFPGDEGHAVVFEEIADVINTALDLYFPSGG 285 (448)
T ss_pred EEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHH--CCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf 58889987258878789999999999999999986--1862788613788887523012026389888899997478778
Q ss_pred ----CCCCCCCCCCCEEEEEEEEEEEEEECCCCCC
Q ss_conf ----7767556764100123688632671489834
Q gi|254780333|r 224 ----DKINKSHPMQTVVTAEARIILIRKALAGELV 254 (370)
Q Consensus 224 ----~~~~~~~~l~pv~~l~s~i~~ir~l~~G~~V 254 (370)
.+++. +=.-.+++|-..|+..|.+..-+..
T Consensus 286 v~iiaEpGR-f~VasafTLa~nViakk~v~~~~~~ 319 (448)
T KOG0622 286 VDIIAEPGR-FFVASAFTLAVNVIAKKEVDAKKIT 319 (448)
T ss_pred CEEEECCCH-HEEECHHEEEEEEEEEEECCCCCCC
T ss_conf 238843752-1030200234555542221300147
No 51
>KOG3157 consensus
Probab=98.29 E-value=2.2e-05 Score=54.59 Aligned_cols=206 Identities=16% Similarity=0.182 Sum_probs=129.4
Q ss_pred HHHHHHHHHHHHH-------CCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHH-CCCCCEEEECC
Q ss_conf 8999999999862-------899759999932866579899999999879989998559999999983-89852673068
Q gi|254780333|r 14 TALKNNWHSMNAL-------SGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLY-TPQARIFVLYG 85 (370)
Q Consensus 14 ~al~~Ni~~i~~~-------~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~-g~~~~Ilvl~~ 85 (370)
.+|++=++.+++. .+..++.||-|-- -......++++|.+.||--.++|-++=-.. -.+.+.-..+.
T Consensus 9 ~~L~~v~~rv~qa~~~~~r~~~~~rlvaVSKtK-----Pa~~i~~~Y~~GqR~FGENYVQEl~eKap~lp~DI~WHFIG~ 83 (244)
T KOG3157 9 SALRAVIERVQQAVNQRPRDENAVRLVAVSKTK-----PASLIIEAYDAGQRHFGENYVQELIEKAPLLPDDIKWHFIGH 83 (244)
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCC-----CHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCCEEEEECH
T ss_conf 899999999999998444566644899962578-----689999998717270458899999984624762132656441
Q ss_pred CCHHHHHHHHH-HHH--HCCCCCHHHHHHHHHH-HHCCC--CCCCEEEECCC--CCCCCCCHHHHHHHHHHHHH-HHCCC
Q ss_conf 97469888875-421--0134899899998888-76088--77616761266--67655698899999988886-31000
Q gi|254780333|r 86 IHPGQEKIIFD-TNL--IPVISSVPQLTFYSKL-MSCGV--SHPYALQVDTG--FNRLGLSLQEALDFTHNSFN-KKLGQ 156 (370)
Q Consensus 86 ~~~~~~~~~~~-~~i--~~~i~s~~~l~~l~~~-~~~~~--~~~vhlkiDTG--M~R~G~~~~e~~~~~~~~~~-~~~~~ 156 (370)
+.....+.+.. .|+ ..+|.+...++.+.+. .+.+. +++|.+.|+|. -+..|+.+.+.+++++.+.. +++++
T Consensus 84 lQsnK~kkl~svpnL~~vetVDseK~A~~ld~a~~k~g~~~PL~V~VQvNTSGEd~K~Giepse~~~l~~~i~~~c~nL~ 163 (244)
T KOG3157 84 LQSNKCKKLLSVPNLYSVETVDSEKKARKLDSAWSKLGPDNPLKVLVQVNTSGEDSKSGIEPSEAPELAEHIKSECKNLK 163 (244)
T ss_pred HHHCCCCHHCCCCCEEEEEECCHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHCCCCE
T ss_conf 32311001106786478873126989888889999529999728999961677544579883665999999998687634
Q ss_pred HHHHHCCCCC----CCCCCCHHHHHHHHHHHHHHHHHC----CCCHHHCCCCHHCCCCCCCCHHHCCCCCCCCCCCC
Q ss_conf 1243201243----333466788999999999975434----88601116411004773222020487353067877
Q gi|254780333|r 157 LSLIISHLAC----ADDPSSHVNSVQLERFRTLISHYK----GIEASLASSSGILLGPNYHFQLTRPGISLYGGTDK 225 (370)
Q Consensus 157 i~gi~THfa~----ad~~~~~~~~~Q~~~F~~~~~~~~----~~~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG~~~~ 225 (370)
+.|+||==+. +..++.+|... ++.=.++.+.+- .++.++.-|+-.+..-+..-+-||+|..+||..+.
T Consensus 164 f~GlMTIGs~~~s~ss~eNpDF~~L-~~~r~~ic~~lg~~~dq~eLSMGMS~DF~~AIe~Gst~VRvGStIFG~R~y 239 (244)
T KOG3157 164 FSGLMTIGSFDNSHSSGENPDFQVL-VKLRESICKKLGIPADQVELSMGMSADFLLAIEQGSTNVRVGSTIFGAREY 239 (244)
T ss_pred EEEEEEECCCCCCCCCCCCCCHHHH-HHHHHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCEEEECCCCCCCCCC
T ss_conf 5204775356665568999657999-999999999848986781002356366999998088537732521267888
No 52
>TIGR01047 nspC carboxynorspermidine decarboxylase; InterPro: IPR005730 Carboxynorspermidine synthase, mediates the nicotinamide-nucleotide-linked reduction of the Schiff base H2N(CH2)3N = CHCH2CH(NH2)COOH. This is formed from L-aspartic beta-semialdehyde (ASA) and 1,3-diaminopropane (DAP) and is reduced to carboxynorspermidine [H2N(CH2)3NH(CH2)2CH(NH2)COOH], an intermediate in the novel pathway for norspermidine biosynthesis shown in Vibrio alginolyticus.; GO: 0016830 carbon-carbon lyase activity, 0045312 nor-spermidine biosynthetic process.
Probab=97.95 E-value=0.00021 Score=48.29 Aligned_cols=175 Identities=14% Similarity=0.160 Sum_probs=121.7
Q ss_pred EEEEHHHHHHHHHHHHHH--CCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCC-----CCEE
Q ss_conf 998688999999999862--899759999932866579899999999879989998559999999983898-----5267
Q gi|254780333|r 9 LKIDLTALKNNWHSMNAL--SGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQ-----ARIF 81 (370)
Q Consensus 9 leIdl~al~~Ni~~i~~~--~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~-----~~Il 81 (370)
=.+|-+.|+.|++.++.+ ..++|++--+|+ +-+-.+-+.+.+.|.++=.-+++-||.--.+- .+ ++|-
T Consensus 6 fvLeE~~L~~Nl~i~~~v~q~SG~kv~LALKG----Fa~w~~F~ilr~yGL~G~taSgL~EAkLA~E~-fgGreshkE~H 80 (403)
T TIGR01047 6 FVLEEEKLRKNLEILESVQQQSGAKVLLALKG----FAFWGVFPILREYGLKGATASGLWEAKLAKEE-FGGRESHKEVH 80 (403)
T ss_pred CCCCHHHHHHHHHHHHHHHHHCCCEEEEEHHH----HHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHH-CCCCCCCCCEE
T ss_conf 02157899999999998643087278531100----32321001024204773242676788632231-38602676668
Q ss_pred EECCCC-HHHHHHHHHHHHHCCCCCHHHHHHHHHHH-HCC--------CCCCCEEEECCC--------------CCCCCC
Q ss_conf 306897-46988887542101348998999988887-608--------877616761266--------------676556
Q gi|254780333|r 82 VLYGIH-PGQEKIIFDTNLIPVISSVPQLTFYSKLM-SCG--------VSHPYALQVDTG--------------FNRLGL 137 (370)
Q Consensus 82 vl~~~~-~~~~~~~~~~~i~~~i~s~~~l~~l~~~~-~~~--------~~~~vhlkiDTG--------------M~R~G~ 137 (370)
++.|.. ++|++++++..-..+.+|..|.....+.. +.+ ..+++=|-||-+ .+|||+
T Consensus 81 vYsPay~e~d~~~I~~La~~i~FNS~~Q~~~yr~~~~~K~~qlenlG~~~~k~GLRINPeyS~v~~dLYNPc~~~SRLGv 160 (403)
T TIGR01047 81 VYSPAYKEEDLPEIIPLADHIIFNSLAQWARYREKVEDKNSQLENLGLREVKLGLRINPEYSEVETDLYNPCGKFSRLGV 160 (403)
T ss_pred EECCCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCHHHCCCCCCCCCCCC
T ss_conf 71588886458889877413341037899999999999999888559750224123467446566132087868754664
Q ss_pred CHHHHHHHHHHHHHHHCCCHHHHHCCCCCC-CCCCC-HHHHHHH-HHHHHHHHHHCC
Q ss_conf 988999999888863100012432012433-33466-7889999-999999754348
Q gi|254780333|r 138 SLQEALDFTHNSFNKKLGQLSLIISHLACA-DDPSS-HVNSVQL-ERFRTLISHYKG 191 (370)
Q Consensus 138 ~~~e~~~~~~~~~~~~~~~i~gi~THfa~a-d~~~~-~~~~~Q~-~~F~~~~~~~~~ 191 (370)
+++++.+-+ .....-.|+|++.|--|- .|.+. ..+..|+ ++|-+.+.+++.
T Consensus 161 ~a~~f~~Gv---ke~~l~gI~Gl~FH~~CEn~d~dAL~~~L~~~E~~FG~yL~~m~W 214 (403)
T TIGR01047 161 QAKEFEEGV---KESLLDGIEGLHFHTLCENKDADALERTLEVIEKKFGEYLPQMEW 214 (403)
T ss_pred CHHHHCCCC---CCCCCCCCCCHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCE
T ss_conf 157761652---214677544110001344567478999999998764210003230
No 53
>TIGR02090 LEU1_arch isopropylmalate/citramalate/homocitrate synthases; InterPro: IPR011830 Methanogenic archaea contain three closely related homologs of the 2-isopropylmalate synthases (LeuA) represented by IPR005671 from INTERPRO. Two of these in Methanococcus janaschii (MJ1392 - CimA ; MJ0503 - AksA ) have been characterised as catalyzing alternative reactions leaving the third (MJ1195) as the presumptive LeuA enzyme. CimA is citramalate (2-methylmalate) synthase, which condenses acetyl-CoA with pyruvate. This enzyme is believed to be involved in the biosynthesis of isoleucine in methanogens and possibly other species lacking threonine dehydratase. AksA is a homocitrate synthase which also produces (homo)2-citrate and (homo)3-citrate in the biosynthesis of Coenzyme B which is restricted solely to methanogenic archaea. Methanogens, then should and apparently do contain all three of these enzymes. Unfortunately, phylogenetic trees do not resolve into three unambiguous clades, making assignment of function to particular genes problematic. Other archaea, which lack a threonine dehydratase (mainly Euryarchaeota), should contain both CimA and LeuA genes. This is true for archaeoglobus fulgidis, but not for the Pyrococci which have none in this clade, but one in IPR005671 from INTERPRO and one in IPR005675 from INTERPRO which may fulfil these roles. Proteins from other species, which have only one hit to this entry and lack threonine dehydratase, are very likely to be LeuA enzymes.; GO: 0046912 transferase activity transferring acyl groups acyl groups converted into alkyl on transfer, 0019752 carboxylic acid metabolic process.
Probab=94.97 E-value=0.066 Score=32.14 Aligned_cols=183 Identities=20% Similarity=0.211 Sum_probs=100.5
Q ss_pred HHHHHHHHHCCCC----EEEECCHHHHHHHH---HH-CCCCCEEEECCCCHHHHHHHHHHHHHCC---CCCHHHHHHHHH
Q ss_conf 9999999987998----99985599999999---83-8985267306897469888875421013---489989999888
Q gi|254780333|r 46 EKIAPALYNAGVQ----DFFVTSVEEGVKLR---LY-TPQARIFVLYGIHPGQEKIIFDTNLIPV---ISSVPQLTFYSK 114 (370)
Q Consensus 46 ~~va~~l~~~Gv~----~faVa~~~EA~~lR---~~-g~~~~Ilvl~~~~~~~~~~~~~~~i~~~---i~s~~~l~~l~~ 114 (370)
..||+.|.++|+| +|+++|-.|...++ +. |-++.|+-|.-..+.+++.+++.++.-+ +.|
T Consensus 25 ~~IA~KLDeLGVDvIEAGfpi~S~GE~~aiK~I~~~vGLnAEI~~l~RA~k~DID~AidcgvdsIh~fiaT--------- 95 (371)
T TIGR02090 25 VEIARKLDELGVDVIEAGFPIASEGEFEAIKKIAEEVGLNAEICSLARALKKDIDKAIDCGVDSIHTFIAT--------- 95 (371)
T ss_pred HHHHHHHHHCCCCEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCCCHHHHHHCCCCEEEEEECC---------
T ss_conf 99999997469828854763145145789999998628963551010267310015643698778998048---------
Q ss_pred HHHCCCCCCCEEEECCC-CCCCCCCHHHHHHHHHHHHHHHCCCHHHHHCCCCCCCCCCCHHHHHHH--------------
Q ss_conf 87608877616761266-676556988999999888863100012432012433334667889999--------------
Q gi|254780333|r 115 LMSCGVSHPYALQVDTG-FNRLGLSLQEALDFTHNSFNKKLGQLSLIISHLACADDPSSHVNSVQL-------------- 179 (370)
Q Consensus 115 ~~~~~~~~~vhlkiDTG-M~R~G~~~~e~~~~~~~~~~~~~~~i~gi~THfa~ad~~~~~~~~~Q~-------------- 179 (370)
-|+|+|-=-= |.|-=+ .+-..+.++..... |++--|| |+|.+..--+.=+
T Consensus 96 -------SpiH~KYKl~~K~~dev-le~~veAvEYAKEH------GLiVEfS-AEDATRtd~dfLIk~~k~A~eAGADRi 160 (371)
T TIGR02090 96 -------SPIHLKYKLKNKSRDEV-LEKAVEAVEYAKEH------GLIVEFS-AEDATRTDIDFLIKVFKKAEEAGADRI 160 (371)
T ss_pred -------CHHHHHCCCCCCCHHHH-HHHHHHHHHHHHHC------CCEEEEC-CCCCCCCCHHHHHHHHHHHHHCCCCEE
T ss_conf -------85787234888789999-99999989877525------7355317-788765867899999871332167775
Q ss_pred ---------------HHHHHHHHHHC---CCCHHH--------CCCCHHCCCCCCCCHHH------CCC-----------
Q ss_conf ---------------99999975434---886011--------16411004773222020------487-----------
Q gi|254780333|r 180 ---------------ERFRTLISHYK---GIEASL--------ASSSGILLGPNYHFQLT------RPG----------- 216 (370)
Q Consensus 180 ---------------~~F~~~~~~~~---~~~~h~--------~nS~~~l~~p~~~~d~v------R~G----------- 216 (370)
+.|+++.+..+ ++-.|| +||-+.+..-.-++... |.|
T Consensus 161 ~~~DTVGV~~P~km~~l~k~~k~~~kKd~~~sVHCHNDFGlAtANsi~gv~aGA~~vH~TvNGiGERAGNAaLEEVV~AL 240 (371)
T TIGR02090 161 NVADTVGVLTPQKMEELIKKIKENVKKDLPVSVHCHNDFGLATANSIAGVLAGAEQVHVTVNGIGERAGNAALEEVVMAL 240 (371)
T ss_pred EECCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf 50785563682679999999998635887058862086018899999997228357735555761013458899999998
Q ss_pred CCCCCCCCCCCCCCCCCCEEEEEEEEEEEEEECCCCCC
Q ss_conf 35306787767556764100123688632671489834
Q gi|254780333|r 217 ISLYGGTDKINKSHPMQTVVTAEARIILIRKALAGELV 254 (370)
Q Consensus 217 i~lYG~~~~~~~~~~l~pv~~l~s~i~~ir~l~~G~~V 254 (370)
..|||+.-.. +...|-.+-+|.++...| .+|+-..+
T Consensus 241 ~~LYG~~~~I-K~ekLYE~SrlVs~l~~~-~VPpNKaI 276 (371)
T TIGR02090 241 KVLYGVDTKI-KTEKLYETSRLVSKLSGV-KVPPNKAI 276 (371)
T ss_pred HHHCCCCCCC-CCCCCCHHHHHHHHHCCC-CCCCCCCC
T ss_conf 9871410244-530020177789987178-88896773
No 54
>TIGR00693 thiE thiamine-phosphate pyrophosphorylase; InterPro: IPR003733 Thiamine monophosphate synthase (TMP) (2.5.1.3 from EC) catalyzes the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-hydroxyethyl)thiazole phosphate to yield thiamine phosphate in the thiamine biosynthesis pathway . TENI, a protein from Bacillus subtilis that regulates the production of several extracellular enzymes by reducing alkaline protease production belongs to this group .; GO: 0004789 thiamin-phosphate diphosphorylase activity, 0009228 thiamin biosynthetic process.
Probab=92.60 E-value=0.78 Score=25.25 Aligned_cols=89 Identities=16% Similarity=0.101 Sum_probs=57.4
Q ss_pred HHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHH---HCCCCEEEECCHHH--------------H-HHHHHHCC-CCC
Q ss_conf 99999862899759999932866579899999999---87998999855999--------------9-99998389-852
Q gi|254780333|r 19 NWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALY---NAGVQDFFVTSVEE--------------G-VKLRLYTP-QAR 79 (370)
Q Consensus 19 Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~---~~Gv~~faVa~~~E--------------A-~~lR~~g~-~~~ 79 (370)
++...|++.+...++.+== |..++++++.. +.|+|+||+..+.. . .++++..+ +.|
T Consensus 94 p~~~aR~l~G~~~iiG~S~-----~~~~e~~~a~~C~~~~gaDY~G~Gp~fpT~TK~~~~~~~g~e~l~~~~~~~~h~~P 168 (210)
T TIGR00693 94 PVSEARKLLGPDKIIGVST-----HNLEELAEAAACELKEGADYIGVGPIFPTPTKKDAAPPVGLELLREIAATSIHDIP 168 (210)
T ss_pred CHHHHHHHCCCCCEEEEEE-----CCHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCC
T ss_conf 9899998538995798533-----79899999998764078988886371158878898776488899999986178876
Q ss_pred EEEECCCCHHHHHHHHHHHH--HCCCCCHHHHHHH
Q ss_conf 67306897469888875421--0134899899998
Q gi|254780333|r 80 IFVLYGIHPGQEKIIFDTNL--IPVISSVPQLTFY 112 (370)
Q Consensus 80 Ilvl~~~~~~~~~~~~~~~i--~~~i~s~~~l~~l 112 (370)
+...|++.++....+.+.++ +.+|+-.-+.+..
T Consensus 169 ~VAIGGI~~~n~~~v~~~G~~~vAVvSaI~~A~d~ 203 (210)
T TIGR00693 169 IVAIGGITLENVAEVLAAGADGVAVVSAIMQAADP 203 (210)
T ss_pred EEEECCCCHHHHHHHHHCCCCEEEEEEEECCCHHH
T ss_conf 58875988789999997288738886510157228
No 55
>COG2333 ComEC Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]
Probab=76.45 E-value=5.9 Score=19.53 Aligned_cols=62 Identities=13% Similarity=0.123 Sum_probs=33.7
Q ss_pred CCCCCCCCCCCCCCCCCCC-EEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEE
Q ss_conf 7353067877675567641-0012368863267148983466565346776417971233002601
Q gi|254780333|r 216 GISLYGGTDKINKSHPMQT-VVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYP 280 (370)
Q Consensus 216 Gi~lYG~~~~~~~~~~l~p-v~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~p 280 (370)
=.+|+|.....++ ..+.. --.+++.|..+-+. |+.-|-+..|.-.-.-++|+++.|+..-|.
T Consensus 184 s~LlTGD~e~~~E-~~l~~~~~~l~~dVLkV~HH--GS~tSss~~Fl~~v~Pk~AliS~G~~N~yg 246 (293)
T COG2333 184 SFLLTGDLEEKGE-KLLKKYGPDLRADVLKVGHH--GSKTSSSLAFLEAVKPKVALISSGRNNRYG 246 (293)
T ss_pred EEEEECCCCHHHH-HHHHHHCCCCCCEEEEECCC--CCCCCCCHHHHHHCCCCEEEEEEECCCCCC
T ss_conf 6999657870568-99984378744208981667--766567288997439847999752367789
No 56
>pfam01081 Aldolase KDPG and KHG aldolase. This family includes the following members: 4-hydroxy-2-oxoglutarate aldolase (KHG-aldolase) Phospho-2-dehydro-3-deoxygluconate aldolase (KDPG-aldolase)
Probab=75.27 E-value=6.4 Score=19.33 Aligned_cols=111 Identities=15% Similarity=0.072 Sum_probs=66.6
Q ss_pred HHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECC-HHHHH----HHHHHCCCCCEEE-ECC-CCHHHHHHHHH
Q ss_conf 86289975999993286657989999999987998999855-99999----9998389852673-068-97469888875
Q gi|254780333|r 24 NALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTS-VEEGV----KLRLYTPQARIFV-LYG-IHPGQEKIIFD 96 (370)
Q Consensus 24 ~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~-~~EA~----~lR~~g~~~~Ilv-l~~-~~~~~~~~~~~ 96 (370)
.++....+++||+-.+-.-+ ..++++.|.+.|++.+-++. -++|. ++|+..++ +++ .+. +..++.+.+.+
T Consensus 2 ~~~L~~~~iipV~r~~~~~~-a~~~~~al~~~Gi~~iEiTl~t~~a~~~I~~l~~~~p~--~~iGaGTV~~~e~~~~a~~ 78 (196)
T pfam01081 2 ESILREAKIVPVIVIKDKED-ALPLAEALAAGGIRVLEVTLRTPCALDAIRLLRKNRPD--ALVGAGTVLNAQQLAEAAE 78 (196)
T ss_pred HHHHHHCCEEEEEECCCHHH-HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHCCC--CEEEEEECCCHHHHHHHHH
T ss_conf 67896699799997799999-99999999987998899947982799999999964999--6799983768999999997
Q ss_pred HHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHH
Q ss_conf 421013489989999888876088776167612666765569889999998
Q gi|254780333|r 97 TNLIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTH 147 (370)
Q Consensus 97 ~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~ 147 (370)
.+....++---..+.++...+.+. ++ + =--+++.|.....+
T Consensus 79 aGA~FivSP~~~~~v~~~a~~~~i--~~-i-------PGv~TpsEi~~A~~ 119 (196)
T pfam01081 79 AGAQFVVSPGLTADLLKHAVDVKI--PL-I-------PGVSTPSEIMLGLD 119 (196)
T ss_pred CCCCEEECCCCHHHHHHHHHHCCC--CE-E-------CCCCCHHHHHHHHH
T ss_conf 499999978763999999997399--66-3-------78599999999998
No 57
>TIGR03275 methan_mark_8 putative methanogenesis marker protein 8. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it.
Probab=71.04 E-value=8 Score=18.69 Aligned_cols=139 Identities=18% Similarity=0.218 Sum_probs=68.0
Q ss_pred EEEEHHHHHHHHHH-HHHH---CCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEE----------CCHHHHHHHHHH
Q ss_conf 99868899999999-9862---899759999932866579899999999879989998----------559999999983
Q gi|254780333|r 9 LKIDLTALKNNWHS-MNAL---SGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFV----------TSVEEGVKLRLY 74 (370)
Q Consensus 9 leIdl~al~~Ni~~-i~~~---~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faV----------a~~~EA~~lR~~ 74 (370)
-+|+.++++.|++. |+.+ +++-++. .+..--|+|..++.-.....|.=.-+| .+..+ .+ -
T Consensus 39 ~~it~E~ik~NiefRI~dfGm~T~~R~l~--~~~~fv~FG~SEil~t~l~~g~iDaaVivcDgaGTVI~~~P~--lV--Q 112 (259)
T TIGR03275 39 EEITPEAIRKNIEFRIDDFGMFTKNRRLE--SSDRFVGFGASEILMTALKSGFIDAAVIVCDGAGTVITTNPA--LV--Q 112 (259)
T ss_pred CCCCHHHHHHHHHHHHHHCCCCCCCCEEE--CCCCEECCCHHHHHHHHHHCCCCCEEEEEECCCCEEEECCHH--HH--H
T ss_conf 31699999999997665326777983575--357244154899999887528743589986486728858889--97--4
Q ss_pred CCCCCE--EEECCCCHHHHHHHHHHH---HHCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCC---HHHHHHHH
Q ss_conf 898526--730689746988887542---1013489989999888876088776167612666765569---88999999
Q gi|254780333|r 75 TPQARI--FVLYGIHPGQEKIIFDTN---LIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLGLS---LQEALDFT 146 (370)
Q Consensus 75 g~~~~I--lvl~~~~~~~~~~~~~~~---i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G~~---~~e~~~~~ 146 (370)
|+..++ |+-..+-|+-++.+.+.+ +.+--...+|..-..++ ++-|..|.+++ ++++. .+
T Consensus 113 GigGR~SGLv~TtPIpevi~~Ie~~ggiVLd~~tA~IDq~~Gv~~A------------ie~Gyk~IaVTV~~~~~a~-~i 179 (259)
T TIGR03275 113 GLGGRISGLIETSPIPEVIEKIEDEGGIVLDPDTATIDQIKGVEKA------------IELGYKKIAVTVADAEDAK-AI 179 (259)
T ss_pred HCCCEEEEEEECCCCHHHHHHHHHCCCEEECCCCCCCCHHHHHHHH------------HHCCCCEEEEEECCHHHHH-HH
T ss_conf 3142133014356529999999876988966765513477789999------------9728755899945888899-99
Q ss_pred HHHHHHHCCCHHHHHCCCCC
Q ss_conf 88886310001243201243
Q gi|254780333|r 147 HNSFNKKLGQLSLIISHLAC 166 (370)
Q Consensus 147 ~~~~~~~~~~i~gi~THfa~ 166 (370)
+++.....+++--+-.|...
T Consensus 180 Rele~~~~~~~~if~VHtTG 199 (259)
T TIGR03275 180 RELESESGIDIIIFAVHTTG 199 (259)
T ss_pred HHHCCCCCCCEEEEEEECCC
T ss_conf 97522469848999996689
No 58
>TIGR02049 gshA_ferroox glutamate--cysteine ligase; InterPro: IPR011718 This entry represents a rare family of glutamate--cysteine ligases, demonstrated first in Thiobacillus ferrooxidans and present in a few other Proteobacteria . It is the first of two enzymes for glutathione biosynthesis. It is also called gamma-glutamylcysteine synthetase..
Probab=69.68 E-value=3.7 Score=20.88 Aligned_cols=11 Identities=18% Similarity=0.519 Sum_probs=4.6
Q ss_pred HHHCCCCCCCC
Q ss_conf 02048735306
Q gi|254780333|r 211 QLTRPGISLYG 221 (370)
Q Consensus 211 d~vR~Gi~lYG 221 (370)
=.|..-..-||
T Consensus 266 v~vKAdaGTYG 276 (436)
T TIGR02049 266 VIVKADAGTYG 276 (436)
T ss_pred EEEEECCCCCC
T ss_conf 89970788745
No 59
>PRK09426 methylmalonyl-CoA mutase; Reviewed
Probab=68.13 E-value=9.2 Score=18.30 Aligned_cols=25 Identities=16% Similarity=0.044 Sum_probs=15.0
Q ss_pred CHHHCCCCHHCCCCCCCCHHHCCCC
Q ss_conf 6011164110047732220204873
Q gi|254780333|r 193 EASLASSSGILLGPNYHFQLTRPGI 217 (370)
Q Consensus 193 ~~h~~nS~~~l~~p~~~~d~vR~Gi 217 (370)
..|+..|+-.+...+..-|++|.-+
T Consensus 316 r~h~qts~~~lT~~dp~nNi~Rtt~ 340 (715)
T PRK09426 316 RTHCQTSGWSLTEQDPYNNVVRTTI 340 (715)
T ss_pred CCCEECCCCCCCCCCHHHHHHHHHH
T ss_conf 0024615643530245677999999
No 60
>TIGR00707 argD acetylornithine and succinylornithine aminotransferases; InterPro: IPR004636 This family of proteins, for which ornithine aminotransferases form an outgroup, consists mostly of proteins designated acetylornithine aminotransferase. However, the two very closely related members from Escherichia coli are assigned different enzymatic activities. One is acetylornithine aminotransferase (2.6.1.11 from EC), ArgD, an enzyme of arginine biosynthesis, while another is succinylornithine aminotransferase, an enzyme of the arginine succinyltransferase pathway, an ammonia-generating pathway of arginine catabolism . Members of this family may also act on ornithine, like ornithine aminotransferase (2.6.1.13 from EC) and on succinyldiaminopimelate, like N-succinyldiaminopmelate-aminotransferase (2.6.1.17 from EC, DapC, an enzyme of lysine biosynthesis) . ; GO: 0008483 transaminase activity, 0006525 arginine metabolic process.
Probab=67.11 E-value=5.6 Score=19.68 Aligned_cols=120 Identities=20% Similarity=0.242 Sum_probs=50.7
Q ss_pred EECCCCCCC-HHHHHHHHHH-CCCC-------E-EEECCHHH----HHHH-HHHCC-----CCCEEEECCC-CHHHHHHH
Q ss_conf 932866579-8999999998-7998-------9-99855999----9999-98389-----8526730689-74698888
Q gi|254780333|r 36 VKDNAYGLG-CEKIAPALYN-AGVQ-------D-FFVTSVEE----GVKL-RLYTP-----QARIFVLYGI-HPGQEKII 94 (370)
Q Consensus 36 VKanAYGhG-~~~va~~l~~-~Gv~-------~-faVa~~~E----A~~l-R~~g~-----~~~Ilvl~~~-~~~~~~~~ 94 (370)
-=+|-|=+- -+++|+.|.+ .+.| . |..-|=.| |++| |+.+. +..|.-+..- .-+.+..+
T Consensus 63 H~SNlY~~~~~~~LA~kLv~~~~~dgGqhd~~rvFFCNSGaEAnEAAlKlARk~~~~~g~~k~~ivaf~naFHGRT~g~L 142 (402)
T TIGR00707 63 HVSNLYYTEPQEELAEKLVEHSGADGGQHDASRVFFCNSGAEANEAALKLARKYTGDKGKEKKKIVAFENAFHGRTMGAL 142 (402)
T ss_pred EECCCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCCHHHHH
T ss_conf 60776558089999999999970468830232667514747899999999898640227886538888707763004543
Q ss_pred -------HHHHHHCCCCCH-----HH-HHHHHHHHHCC--CCCCCEEEECCCCCCCCCCH--HHHHHHHHHHHHHHCC
Q ss_conf -------754210134899-----89-99988887608--87761676126667655698--8999999888863100
Q gi|254780333|r 95 -------FDTNLIPVISSV-----PQ-LTFYSKLMSCG--VSHPYALQVDTGFNRLGLSL--QEALDFTHNSFNKKLG 155 (370)
Q Consensus 95 -------~~~~i~~~i~s~-----~~-l~~l~~~~~~~--~~~~vhlkiDTGM~R~G~~~--~e~~~~~~~~~~~~~~ 155 (370)
.+....|.+... .+ .+.++++.... ...-..+-|++=++=-|+.| .|.++.++++.+..++
T Consensus 143 saTgqpKy~~~F~PLvpgf~y~~yNDe~~~l~~~i~~~~eg~rtAAvivEpiQGEgGV~pa~~~fL~a~r~lc~~~~~ 220 (402)
T TIGR00707 143 SATGQPKYQKPFEPLVPGFKYVPYNDEIEALKEAIDDEKEGDRTAAVIVEPIQGEGGVVPADKEFLKALRELCEDKDA 220 (402)
T ss_pred HCCCCCCCCCCCCCCCCCCEEECCCCCHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCCCCCHHHHHHHHHHHHHCCE
T ss_conf 004776456857884238124448897899999850257787188999853217865334877899999999864891
No 61
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=65.90 E-value=10 Score=18.02 Aligned_cols=74 Identities=16% Similarity=0.161 Sum_probs=53.4
Q ss_pred HHHHHHCCCCEE--EEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCCCHHHHHHHH
Q ss_conf 999862899759--999932866579899999999879989998559999999983898526730689746988887
Q gi|254780333|r 21 HSMNALSGNART--AAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGIHPGQEKIIF 95 (370)
Q Consensus 21 ~~i~~~~~~~~i--~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~~~~~~~~~~ 95 (370)
+.++++...-++ +|-+.+|=||....++...+ ..|.+.|..-..+-|+++|+.-++.-...+.|+.-++++.-.
T Consensus 57 ~EF~~~i~~~~fLE~a~~~gnyYGT~~~~ve~~~-~~G~~vildId~qGa~qvk~~~p~~v~IFi~pPs~eeL~~RL 132 (191)
T COG0194 57 EEFEELIERDEFLEWAEYHGNYYGTSREPVEQAL-AEGKDVILDIDVQGALQVKKKMPNAVSIFILPPSLEELERRL 132 (191)
T ss_pred HHHHHHHHCCCCEEEEEECCCCCCCCHHHHHHHH-HCCCEEEEEEEHHHHHHHHHHCCCEEEEEECCCCHHHHHHHH
T ss_conf 9999987568747887771973248688999998-669908999853999999974999699997599999999999
No 62
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=65.06 E-value=11 Score=17.91 Aligned_cols=37 Identities=16% Similarity=0.085 Sum_probs=28.5
Q ss_pred CHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEE
Q ss_conf 989999999987998999855999999998389852673
Q gi|254780333|r 44 GCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFV 82 (370)
Q Consensus 44 G~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilv 82 (370)
++.++|+.|.+.|..-+|...- |..|++.|++...++
T Consensus 1 ~~~~~ak~l~~lGf~l~AT~GT--a~~L~~~Gi~v~~l~ 37 (90)
T smart00851 1 GLVELAKRLAELGFELVATGGT--AKFLREAGLPVKTLH 37 (90)
T ss_pred CHHHHHHHHHHCCCEEEECCHH--HHHHHHCCCCCEEEE
T ss_conf 9689999999889989981258--999997599710430
No 63
>pfam09872 DUF2099 Uncharacterized protein conserved in archaea (DUF2099). This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=64.81 E-value=11 Score=17.88 Aligned_cols=47 Identities=19% Similarity=0.294 Sum_probs=32.4
Q ss_pred EEEEHHHHHHHHHH-HHHH---CCCCEEEEEEECCCCCCCHHHHHHHHHHCCC
Q ss_conf 99868899999999-9862---8997599999328665798999999998799
Q gi|254780333|r 9 LKIDLTALKNNWHS-MNAL---SGNARTAAVVKDNAYGLGCEKIAPALYNAGV 57 (370)
Q Consensus 9 leIdl~al~~Ni~~-i~~~---~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv 57 (370)
-+|+..+++.|++. |+.+ +++-++. .|-+=-|+|..++.-.....|.
T Consensus 39 ~~it~E~ik~NiefRI~dfGM~T~~R~l~--~~~~fv~FG~SEil~t~l~~g~ 89 (257)
T pfam09872 39 KEITKEAIKKNIEFRIDDFGMCTPNRVLE--MDEDFVGFGASEILMTGLRRGL 89 (257)
T ss_pred CCCCHHHHHHHHHHHHHHCCCCCCCCEEE--CCCCEECCCHHHHHHHHHHCCC
T ss_conf 41599999999997665327777882575--3474332538999998875388
No 64
>PRK07455 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=62.35 E-value=12 Score=17.60 Aligned_cols=110 Identities=15% Similarity=0.152 Sum_probs=62.8
Q ss_pred HHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECC----HHHHH-HHHHHCCCCCEEE-ECC-CCHHHHHHHHH
Q ss_conf 86289975999993286657989999999987998999855----99999-9998389852673-068-97469888875
Q gi|254780333|r 24 NALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTS----VEEGV-KLRLYTPQARIFV-LYG-IHPGQEKIIFD 96 (370)
Q Consensus 24 ~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~----~~EA~-~lR~~g~~~~Ilv-l~~-~~~~~~~~~~~ 96 (370)
.++. ..+++||+..+-.-+ ..++++++.+.|++.+-|+. ..|++ ++|+..++ +++ -+. ...++...+.+
T Consensus 8 ~~L~-~~~vi~Vlr~~~~~~-a~~~~~al~~gGi~~iEiTl~t~~a~~~I~~l~~~~p~--~~iGaGTV~~~e~~~~a~~ 83 (210)
T PRK07455 8 AQLQ-QHRAIAVIRAPDLEL-GLQMAEAVAAGGMRLIEITWNSDQPAELISQLREKLPE--CIIGTGTLLTLEDLEEAIA 83 (210)
T ss_pred HHHH-HCCEEEEEECCCHHH-HHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCC--CEEEEEECCCHHHHHHHHH
T ss_conf 9999-799799997599999-99999999987998899968998899999999987899--6898881878999999998
Q ss_pred HHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHH
Q ss_conf 421013489989999888876088776167612666765569889999998
Q gi|254780333|r 97 TNLIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTH 147 (370)
Q Consensus 97 ~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~ 147 (370)
.+-...++-.-..+.++...+.+. ++ + - --+++.|.....+
T Consensus 84 aGA~FiVSP~~~~~vi~~a~~~~i--~~-i---P----Gv~TpsEi~~A~~ 124 (210)
T PRK07455 84 AGAQFCFTPHVDLELIQAAVAADI--PI-I---P----GALTPTEIVTAWQ 124 (210)
T ss_pred CCCCEEECCCCCHHHHHHHHHCCC--CE-E---C----CCCCHHHHHHHHH
T ss_conf 699999868888999999998299--76-5---8----8699999999998
No 65
>PRK02615 thiamine-phosphate pyrophosphorylase; Provisional
Probab=61.61 E-value=12 Score=17.51 Aligned_cols=22 Identities=14% Similarity=0.110 Sum_probs=14.6
Q ss_pred CCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf 983466565346776417971233
Q gi|254780333|r 251 GELVSYGGQKKLTRDSLIAVAAIG 274 (370)
Q Consensus 251 G~~VgYg~~~~~~~~~~iavipiG 274 (370)
-+++|.|..|.++...- .-|+|
T Consensus 259 aDYig~Gpvf~T~TK~~--~~p~G 280 (345)
T PRK02615 259 ADYIGVGPVFPTPTKPG--KAPAG 280 (345)
T ss_pred CCEEEECCEEECCCCCC--CCCCC
T ss_conf 99799887742588888--88789
No 66
>PRK08782 consensus
Probab=61.37 E-value=12 Score=17.49 Aligned_cols=93 Identities=15% Similarity=0.147 Sum_probs=55.9
Q ss_pred HHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEEC-CHHHHH----HHHHHCCCCCEEE-ECC-CCHHHH
Q ss_conf 999998628997599999328665798999999998799899985-599999----9998389852673-068-974698
Q gi|254780333|r 19 NWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVT-SVEEGV----KLRLYTPQARIFV-LYG-IHPGQE 91 (370)
Q Consensus 19 Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa-~~~EA~----~lR~~g~~~~Ilv-l~~-~~~~~~ 91 (370)
--++++++....+++||+-.+-.-+ ..++++++.+.|++.+-++ +.+.|+ .+++..++ +++ .+. ..+++.
T Consensus 6 ~~~~~~~~L~~~~iipVir~~~~~~-a~~~~eal~~gGi~~iEiTlrt~~a~~~i~~l~~~~p~--~~vGaGTV~~~e~~ 82 (219)
T PRK08782 6 TQNTAEQLLRDAGILPVVTVDTLDQ-ARRVADALLEGGLPAIELTLRTPVAIEALAMLKRELPN--IVIGAGTVLSERQL 82 (219)
T ss_pred HHCHHHHHHHHCCEEEEEECCCHHH-HHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCC--CEEEEEEECCHHHH
T ss_conf 2255999998789789997599999-99999999987998799967993399999999986899--47999970589999
Q ss_pred HHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf 88875421013489989999888
Q gi|254780333|r 92 KIIFDTNLIPVISSVPQLTFYSK 114 (370)
Q Consensus 92 ~~~~~~~i~~~i~s~~~l~~l~~ 114 (370)
..+.+.+....++-.-..+.++.
T Consensus 83 ~~a~~aGA~FiVSP~~~~~v~~~ 105 (219)
T PRK08782 83 RQSVDAGADFLVTPGTPAPLARL 105 (219)
T ss_pred HHHHHCCCCEEECCCCCHHHHHH
T ss_conf 99998499899878997999999
No 67
>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase; InterPro: IPR013380 Proteins in this entry are found in a variety of bacteria, and are predicted to be ATPases involved in type III secretion systems. One example is YscN (P40290 from SWISSPROT) from Yersinia enterocolitica, which is thought to energise the YOP (Yersinia outer protein) secretion system .; GO: 0046961 hydrogen ion transporting ATPase activity rotational mechanism, 0030254 protein secretion by the type III secretion system.
Probab=61.23 E-value=12 Score=17.47 Aligned_cols=174 Identities=18% Similarity=0.207 Sum_probs=97.0
Q ss_pred CCC-HHHHHHHHHHCCCCEEEECCHHH-HHHHHHH--------CCCCCEEEECCCCHHHHHHHHHHHHHCCCCCHHHHHH
Q ss_conf 579-89999999987998999855999-9999983--------8985267306897469888875421013489989999
Q gi|254780333|r 42 GLG-CEKIAPALYNAGVQDFFVTSVEE-GVKLRLY--------TPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTF 111 (370)
Q Consensus 42 GhG-~~~va~~l~~~Gv~~faVa~~~E-A~~lR~~--------g~~~~Ilvl~~~~~~~~~~~~~~~i~~~i~s~~~l~~ 111 (370)
|.| ...++..+..+-+|-+=+|-|.| +.++|+- +-+..|+|...-+-...+.+.. .-.+..
T Consensus 163 G~GKSTLL~~i~~g~~ADv~V~ALIGERGREVREFiE~~lg~e~~~RsVlVvsTSDrss~eR~~A---------Ay~ATa 233 (430)
T TIGR02546 163 GVGKSTLLGMIARGASADVNVIALIGERGREVREFIEHLLGEEGRKRSVLVVSTSDRSSLERLKA---------AYTATA 233 (430)
T ss_pred CCCHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHCCCHHHCCCEEEEEECCCCCHHHHHHH---------HHHHHH
T ss_conf 86166899998618988789986027876047888752078305242489960798667999999---------878879
Q ss_pred HHHH-HHCCCCCCCEEEECC---------------C--CCCCCCCHH---HHHHHHHHHHHHHCCCHHHHHCCCCCCCCC
Q ss_conf 8888-760887761676126---------------6--676556988---999999888863100012432012433334
Q gi|254780333|r 112 YSKL-MSCGVSHPYALQVDT---------------G--FNRLGLSLQ---EALDFTHNSFNKKLGQLSLIISHLACADDP 170 (370)
Q Consensus 112 l~~~-~~~~~~~~vhlkiDT---------------G--M~R~G~~~~---e~~~~~~~~~~~~~~~i~gi~THfa~ad~~ 170 (370)
++|+ ..+|+ +|-|..|+ | --|-||+|. ..++++.+.=......|+.+||=|...|+-
T Consensus 234 IAEYFRDQGk--~VlLmmDSlTRfARA~REiGLAaGEP~aR~GyPPSVF~~LPRLLERaG~~e~GSITA~YTVLvEgDd~ 311 (430)
T TIGR02546 234 IAEYFRDQGK--RVLLMMDSLTRFARALREIGLAAGEPPARRGYPPSVFSSLPRLLERAGNSEKGSITALYTVLVEGDDM 311 (430)
T ss_pred HHHHHHHCCC--EEEEEEECHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHCCHHHCCCCCCCCCCEEEEEEEEECCCCC
T ss_conf 9999997399--07988402779999987788753784002577873665075012278611296253456787627779
Q ss_pred CCHHHHHHHHHH-------HHHH--HHHCCCCH--HHC------------CCCHHCC-----CCCCCCHHHCCCCCCCCC
Q ss_conf 667889999999-------9997--54348860--111------------6411004-----773222020487353067
Q gi|254780333|r 171 SSHVNSVQLERF-------RTLI--SHYKGIEA--SLA------------SSSGILL-----GPNYHFQLTRPGISLYGG 222 (370)
Q Consensus 171 ~~~~~~~Q~~~F-------~~~~--~~~~~~~~--h~~------------nS~~~l~-----~p~~~~d~vR~Gi~lYG~ 222 (370)
+++..++=-... .++- .+++-+.+ +++ --|+.++ |.+ ..+++|.|=.-+|-
T Consensus 312 ~dP~ADEvRSILDGHIvLsR~LA~~~HyPAIDVLaS~SRvm~~vv~~eH~~aA~~lR~LLA~Y~e-~e~LI~lGEY~~G~ 390 (430)
T TIGR02546 312 NDPIADEVRSILDGHIVLSRKLAERNHYPAIDVLASLSRVMSQVVSKEHRRAAGKLRRLLAKYKE-VELLIRLGEYQPGS 390 (430)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHH-HHHHHHHCCCCCCC
T ss_conf 98436655445423689989997416886356652366423677887899999999999999999-98898744888998
Q ss_pred CCCCC
Q ss_conf 87767
Q gi|254780333|r 223 TDKIN 227 (370)
Q Consensus 223 ~~~~~ 227 (370)
.+..+
T Consensus 391 D~~~D 395 (430)
T TIGR02546 391 DPETD 395 (430)
T ss_pred CHHHH
T ss_conf 98899
No 68
>PRK08104 consensus
Probab=61.10 E-value=12 Score=17.46 Aligned_cols=80 Identities=19% Similarity=0.150 Sum_probs=50.0
Q ss_pred HHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEEC-CHHHHH----HHHHHCCCCCEEE-ECC-CCHHHHHHHH
Q ss_conf 98628997599999328665798999999998799899985-599999----9998389852673-068-9746988887
Q gi|254780333|r 23 MNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVT-SVEEGV----KLRLYTPQARIFV-LYG-IHPGQEKIIF 95 (370)
Q Consensus 23 i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa-~~~EA~----~lR~~g~~~~Ilv-l~~-~~~~~~~~~~ 95 (370)
.+++....+++||+..+-.-+ ..++++++.+.|++.+-|+ +-++|+ ++++..++ +++ .+. +.+++...+.
T Consensus 8 ~~~ll~~~~iipVir~~~~~~-a~~la~al~~gGi~~iEiTlrt~~a~~~I~~l~~~~p~--~~vGaGTV~~~e~~~~ai 84 (212)
T PRK08104 8 AEDIFTRGPVVPVIVINKLEH-AVPLAKALVAGGVRVLEVTLRTPCALEAIRAIAKEVPE--AIVGAGTVLNPQQLAEVT 84 (212)
T ss_pred HHHHHHHCCEEEEEECCCHHH-HHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCC--CEEEEEECCCHHHHHHHH
T ss_conf 999997498689997799999-99999999987998899968881499999999986898--568542026799999999
Q ss_pred HHHHHCCCCC
Q ss_conf 5421013489
Q gi|254780333|r 96 DTNLIPVISS 105 (370)
Q Consensus 96 ~~~i~~~i~s 105 (370)
+.+....++-
T Consensus 85 ~aGA~FiVSP 94 (212)
T PRK08104 85 EAGAQFAISP 94 (212)
T ss_pred HCCCCEEECC
T ss_conf 8599999848
No 69
>PRK13121 consensus
Probab=60.93 E-value=13 Score=17.44 Aligned_cols=75 Identities=17% Similarity=0.162 Sum_probs=43.9
Q ss_pred HHHHHCCCCEEEEEEECCC-CCCCHHHHHHHHHHCCCCEEEECC--HHHHHHHH----HHCCCCCEEEECCCCH-HHHHH
Q ss_conf 9986289975999993286-657989999999987998999855--99999999----8389852673068974-69888
Q gi|254780333|r 22 SMNALSGNARTAAVVKDNA-YGLGCEKIAPALYNAGVQDFFVTS--VEEGVKLR----LYTPQARIFVLYGIHP-GQEKI 93 (370)
Q Consensus 22 ~i~~~~~~~~i~aVVKanA-YGhG~~~va~~l~~~Gv~~faVa~--~~EA~~lR----~~g~~~~Ilvl~~~~~-~~~~~ 93 (370)
.+|+...+..++.+.=-|- |-.|.+..++.+.++|++++-+.. .+|+..++ +.|++ .|++..|..+ +.++.
T Consensus 87 ~~r~~~~~~PivlM~Y~N~i~~yG~e~F~~~~~~aGvdGlIipDLP~eE~~~~~~~~~~~gl~-~I~lvaPtt~~~Ri~~ 165 (265)
T PRK13121 87 EFRETNQTTPVVLMGYANPIERMGYDAFAAAARAAGVDGVLVVDYPPEECEEFAAKMRAAGID-PIFLLAPTSTDERIAA 165 (265)
T ss_pred HHHCCCCCCCEEEEEHHHHHHHHHHHHHHHHHHHCCCCEEECCCCCHHHHHHHHHHHHHCCCC-EEEEECCCCCHHHHHH
T ss_conf 831037999989862145999971999999998729873434899989999999999865996-6899589998999999
Q ss_pred HHHH
Q ss_conf 8754
Q gi|254780333|r 94 IFDT 97 (370)
Q Consensus 94 ~~~~ 97 (370)
+.+.
T Consensus 166 i~~~ 169 (265)
T PRK13121 166 VARV 169 (265)
T ss_pred HHHH
T ss_conf 9962
No 70
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=60.33 E-value=13 Score=17.37 Aligned_cols=15 Identities=47% Similarity=0.652 Sum_probs=7.6
Q ss_pred CHHHHHHHHHHCCCC
Q ss_conf 989999999987998
Q gi|254780333|r 44 GCEKIAPALYNAGVQ 58 (370)
Q Consensus 44 G~~~va~~l~~~Gv~ 58 (370)
|..-++++|.+.|.+
T Consensus 28 gakvia~~l~d~Gfe 42 (143)
T COG2185 28 GAKVIARALADAGFE 42 (143)
T ss_pred CHHHHHHHHHHCCCE
T ss_conf 319999999857937
No 71
>TIGR01037 pyrD_sub1_fam dihydroorotate dehydrogenase family protein; InterPro: IPR005720 Dihydroorotate dehydrogenase (1.3.3.1 from EC) (DHOdehase) catalyzes the fourth step in the de novo biosynthesis of pyrimidine, the conversion of dihydroorotate into orotate. DHOdehase is a ubiquitous FAD flavoprotein. In bacteria (gene pyrD), DHOdease is located on the inner side of the cytosolic membrane. In some yeasts, such as in Saccharomyces cerevisiae (gene URA1, subfamily 2), it is a cytosolic protein while in other eukaryotes it is found in the mitochondria . This describes dihydroorotate dehydrogenases subfamily 1 that includes a number of uncharacterised proteins and a domain of dihydropyrimidine dehydrogenase.; GO: 0004158 dihydroorotate oxidase activity, 0006207 'de novo' pyrimidine base biosynthetic process, 0005737 cytoplasm.
Probab=60.08 E-value=9.8 Score=18.11 Aligned_cols=22 Identities=32% Similarity=0.594 Sum_probs=14.4
Q ss_pred HCCCCCCCEEEECCCC-CCCCCC
Q ss_conf 6088776167612666-765569
Q gi|254780333|r 117 SCGVSHPYALQVDTGF-NRLGLS 138 (370)
Q Consensus 117 ~~~~~~~vhlkiDTGM-~R~G~~ 138 (370)
..|..-|-.+.+..|| |=.|.+
T Consensus 49 r~Gy~nPtiVE~~~G~lNAiGL~ 71 (308)
T TIGR01037 49 RPGYRNPTIVEVPCGLLNAIGLQ 71 (308)
T ss_pred CCCCCCCEEEECCCCEEEECCCC
T ss_conf 88544380798178557523589
No 72
>PRK11539 hypothetical protein; Provisional
Probab=56.18 E-value=15 Score=16.92 Aligned_cols=40 Identities=13% Similarity=0.106 Sum_probs=22.6
Q ss_pred EEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCE
Q ss_conf 236886326714898346656534677641797123300260
Q gi|254780333|r 238 AEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGY 279 (370)
Q Consensus 238 l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~ 279 (370)
+++.|..+-+. |+.-|-...|...-+-++|++++||..-|
T Consensus 654 L~~dVLkvpHH--GSktSSs~~Fl~~v~P~~aiiS~G~~Nry 693 (754)
T PRK11539 654 LQATLLQVPHH--GSNTSSSLPFIQRVNGEVALASASRYNAW 693 (754)
T ss_pred CCCCEEECCCC--CCCCCCHHHHHHHCCCCEEEECCCCCCCC
T ss_conf 88868988998--97846659999854999999947889989
No 73
>PRK13132 consensus
Probab=55.39 E-value=15 Score=16.84 Aligned_cols=77 Identities=19% Similarity=0.249 Sum_probs=48.4
Q ss_pred HHHHHHHHCCCCEEEEEEECC-CCCCCHHHHHHHHHHCCCCEEEECC--HHHHHHHHH----HCCCCCEEEECCCCHHHH
Q ss_conf 999998628997599999328-6657989999999987998999855--999999998----389852673068974698
Q gi|254780333|r 19 NWHSMNALSGNARTAAVVKDN-AYGLGCEKIAPALYNAGVQDFFVTS--VEEGVKLRL----YTPQARIFVLYGIHPGQE 91 (370)
Q Consensus 19 Ni~~i~~~~~~~~i~aVVKan-AYGhG~~~va~~l~~~Gv~~faVa~--~~EA~~lR~----~g~~~~Ilvl~~~~~~~~ 91 (370)
-++.+++...+..++.+.=.| -|-.|.+..++.+.++|++++-+-. .+|+..+++ .+++ .|.+..|+.++..
T Consensus 75 ~~~~~~~ir~~~pivlM~Y~N~i~~~G~e~F~~~~~~~GvdGlIipDLP~ee~~~~~~~~~~~~i~-~I~lvaPTs~~R~ 153 (246)
T PRK13132 75 VFELLARVKTKKALVFLVYYNLIFAYGLEKFVKKAKELGISGLIVPDLPFEESEELIKECEKYNIA-LIPLISVTSPKRA 153 (246)
T ss_pred HHHHHHHHCCCCCEEEEEECHHHHHCCHHHHHHHHHHCCCCEEECCCCCHHHHHHHHHHHHHCCCC-EEEEECCCCHHHH
T ss_conf 999999753699979996010887729999999998769985775799978989999999985997-0144257978999
Q ss_pred HHHHH
Q ss_conf 88875
Q gi|254780333|r 92 KIIFD 96 (370)
Q Consensus 92 ~~~~~ 96 (370)
+.+.+
T Consensus 154 ~~i~~ 158 (246)
T PRK13132 154 KKILK 158 (246)
T ss_pred HHHHH
T ss_conf 99995
No 74
>TIGR00326 eubact_ribD riboflavin biosynthesis protein RibD; InterPro: IPR004794 This entry describes the riboflavin biosynthesis protein (ribD) as found in Escherichia coli. The N-terminal domain includes the conserved zinc-binding site region that is shared by proteins such as cytosine deaminase, mammalian apolipoprotein B mRNA editing protein, blasticidin-S deaminase, and Bacillus subtilis competence protein comEB. The C-terminal domain is homologous to the full length of yeast HTP reductase, a protein required for riboflavin biosynthesis. A number of archaeal proteins that may be related to the riboflavin biosynthesis protein contain only the C-terminal domain.; GO: 0008703 5-amino-6-(5-phosphoribosylamino)uracil reductase activity, 0008835 diaminohydroxyphosphoribosylaminopyrimidine deaminase activity, 0009231 riboflavin biosynthetic process.
Probab=53.81 E-value=11 Score=17.93 Aligned_cols=40 Identities=18% Similarity=0.177 Sum_probs=30.7
Q ss_pred HHHHHHHHHHCCCCEEEECCHHH--------HHHHHHHCCCCCEEEEC
Q ss_conf 89999999987998999855999--------99999838985267306
Q gi|254780333|r 45 CEKIAPALYNAGVQDFFVTSVEE--------GVKLRLYTPQARIFVLY 84 (370)
Q Consensus 45 ~~~va~~l~~~Gv~~faVa~~~E--------A~~lR~~g~~~~Ilvl~ 84 (370)
.-|||+++.++||....++--|+ +..||++||+....+|.
T Consensus 101 TPPCa~aii~~Gi~kVv~~M~DpNplvaGkG~~~L~~aGIeV~~~~l~ 148 (393)
T TIGR00326 101 TPPCAEAIIEAGIKKVVVSMQDPNPLVAGKGIERLKQAGIEVTFGILK 148 (393)
T ss_pred CHHHHHHHHHCCCEEEEEEEECCCCCCCCHHHHHHHHCCCEEEECHHH
T ss_conf 715689997386148988865087222341479998669725440158
No 75
>PRK13117 consensus
Probab=52.69 E-value=17 Score=16.56 Aligned_cols=76 Identities=17% Similarity=0.178 Sum_probs=48.2
Q ss_pred HHHHHHCCCCEEEEEEECC-CCCCCHHHHHHHHHHCCCCEEEECC--HHHHHHHHHH----CCCCCEEEECCCCH-HHHH
Q ss_conf 9998628997599999328-6657989999999987998999855--9999999983----89852673068974-6988
Q gi|254780333|r 21 HSMNALSGNARTAAVVKDN-AYGLGCEKIAPALYNAGVQDFFVTS--VEEGVKLRLY----TPQARIFVLYGIHP-GQEK 92 (370)
Q Consensus 21 ~~i~~~~~~~~i~aVVKan-AYGhG~~~va~~l~~~Gv~~faVa~--~~EA~~lR~~----g~~~~Ilvl~~~~~-~~~~ 92 (370)
+.+|+..++..++.+-=.| -|-.|.+.-++.+.++|+|++-+.. .+|+..+++. |+. +|++..|..+ +.+.
T Consensus 86 ~~ir~~~~~~pivlM~Y~N~i~~~G~e~F~~~~~~aGvdGvIipDLP~eE~~~~~~~~~~~gl~-~I~lv~Ptt~~~Ri~ 164 (268)
T PRK13117 86 AKIRAKYPTIPIGLLLYANLVFANGIDNFYARCAEAGVDSVLIADVPVEESAPFRQAAKKHGIA-PIFICPPNADDDTLR 164 (268)
T ss_pred HHHHCCCCCCCEEEEECCCHHHHCCHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHCCCC-EEEEECCCCCHHHHH
T ss_conf 8850047898779973262898717999999999769877985799978858999999867983-799847999999999
Q ss_pred HHHHH
Q ss_conf 88754
Q gi|254780333|r 93 IIFDT 97 (370)
Q Consensus 93 ~~~~~ 97 (370)
.+.+.
T Consensus 165 ~i~~~ 169 (268)
T PRK13117 165 QIASL 169 (268)
T ss_pred HHHHH
T ss_conf 99974
No 76
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=51.37 E-value=18 Score=16.43 Aligned_cols=92 Identities=11% Similarity=0.039 Sum_probs=54.8
Q ss_pred HHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECC-H---HHHH-HHHHHCCCCCEEE-ECC-CCHHHHHH
Q ss_conf 99986289975999993286657989999999987998999855-9---9999-9998389852673-068-97469888
Q gi|254780333|r 21 HSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTS-V---EEGV-KLRLYTPQARIFV-LYG-IHPGQEKI 93 (370)
Q Consensus 21 ~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~-~---~EA~-~lR~~g~~~~Ilv-l~~-~~~~~~~~ 93 (370)
+++-++....+++||+..+---+ ..++++++.+.|++.+=++. - -|++ ++++..++. ++ -+. +.+++.+.
T Consensus 6 ~~i~~~l~~~~iipVlr~~~~~~-a~~~~~al~~gGi~~iEITlrt~~a~~~I~~l~~~~p~~--~vGaGTVl~~e~~~~ 82 (212)
T PRK06015 6 EKLLSILKGQPVIPVLLIDDVEH-AVPLARALARGGLPAIEITLRTPAALDAIRAVAAEVEEA--IVGAGTILNAKQFED 82 (212)
T ss_pred HHHHHHHHHCCEEEEEECCCHHH-HHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCCC--EEEEEECCCHHHHHH
T ss_conf 99999998799799997799999-999999999879988999689951999999999869996--795421156999999
Q ss_pred HHHHHHHCCCCCHHHHHHHHHH
Q ss_conf 8754210134899899998888
Q gi|254780333|r 94 IFDTNLIPVISSVPQLTFYSKL 115 (370)
Q Consensus 94 ~~~~~i~~~i~s~~~l~~l~~~ 115 (370)
+.+.+....++-.-..+.++..
T Consensus 83 a~~aGA~FiVSP~~~~~v~~~a 104 (212)
T PRK06015 83 AAKAGSRFIVSPGTTQELLAAA 104 (212)
T ss_pred HHHCCCCEEECCCCCHHHHHHH
T ss_conf 9984998998589999999999
No 77
>pfam08661 Rep_fac-A_3 Replication factor A protein 3. Replication factor A is involved in eukaryotic DNA replication, recombination and repair.
Probab=50.98 E-value=2.1 Score=22.43 Aligned_cols=18 Identities=22% Similarity=0.648 Sum_probs=8.2
Q ss_pred CCCEEEECCCCCCCCCCC
Q ss_conf 946042154888736445
Q gi|254780333|r 352 TTNYDLLVRIGTRYAKFY 369 (370)
Q Consensus 352 ti~yEil~~i~~RvpRiY 369 (370)
.-.|+-+|.+..+.|-+|
T Consensus 94 ~~~yn~lv~l~~~fk~lf 111 (111)
T pfam08661 94 LDLYNELVKLSHKFPELY 111 (111)
T ss_pred HHHHHHHHHHHHHCCCCC
T ss_conf 999999999986672339
No 78
>PRK05718 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=50.63 E-value=18 Score=16.36 Aligned_cols=94 Identities=14% Similarity=0.141 Sum_probs=57.6
Q ss_pred HHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECC-HHHHH----HHHHHCCCCCEEE-ECC-CCHHHHHH
Q ss_conf 99986289975999993286657989999999987998999855-99999----9998389852673-068-97469888
Q gi|254780333|r 21 HSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTS-VEEGV----KLRLYTPQARIFV-LYG-IHPGQEKI 93 (370)
Q Consensus 21 ~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~-~~EA~----~lR~~g~~~~Ilv-l~~-~~~~~~~~ 93 (370)
..++++....+++||+-.+--- -..++++++.+.|++.+-++. -++|. ++++..++ +++ .+. +.+++...
T Consensus 6 ~~i~~ll~~~~ii~Vlr~~~~~-~a~~i~~al~~gGi~~iEiTl~tp~a~~~I~~l~~~~p~--~~vGaGTV~~~e~~~~ 82 (212)
T PRK05718 6 TQIEEILRAGPVVPVIVINKLE-DAVPLAKALVAGGLPVLEVTLRTPAALEAIRAIRKEVPE--ALIGAGTVLNPEQLAQ 82 (212)
T ss_pred HHHHHHHHHCCEEEEEECCCHH-HHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCC--CEEEEEEECCHHHHHH
T ss_conf 3699999769879999748999-999999999987997899957896199999999975898--1796533134889999
Q ss_pred HHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 875421013489989999888876
Q gi|254780333|r 94 IFDTNLIPVISSVPQLTFYSKLMS 117 (370)
Q Consensus 94 ~~~~~i~~~i~s~~~l~~l~~~~~ 117 (370)
+.+.+....++-.-..+.++...+
T Consensus 83 a~~aGA~FiVSP~~~~~v~~~a~~ 106 (212)
T PRK05718 83 AIEAGAQFIVSPGLTPPLLKACQD 106 (212)
T ss_pred HHHCCCCEEECCCCCHHHHHHHHH
T ss_conf 998499899848998999999998
No 79
>pfam02142 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site.
Probab=49.62 E-value=19 Score=16.26 Aligned_cols=36 Identities=17% Similarity=0.148 Sum_probs=27.6
Q ss_pred CHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEE
Q ss_conf 98999999998799899985599999999838985267
Q gi|254780333|r 44 GCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIF 81 (370)
Q Consensus 44 G~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Il 81 (370)
|+.++|+.|.+.|.+-+| |-.-|..|++.|+...+.
T Consensus 1 ~iv~~a~~L~~lGf~i~A--T~GTa~~L~~~Gi~~~~v 36 (92)
T pfam02142 1 GLVELAKALVELGFKLYA--TGGTAKFLKEAGIPTEVV 36 (92)
T ss_pred CHHHHHHHHHHCCCEEEE--CHHHHHHHHHCCCCCEEE
T ss_conf 968999999988999998--838999999559981686
No 80
>PRK03562 glutathione-regulated potassium-efflux system protein KefC; Provisional
Probab=49.30 E-value=19 Score=16.22 Aligned_cols=123 Identities=15% Similarity=0.131 Sum_probs=65.4
Q ss_pred CCCCCHHHHHHHHHHCCCCEEEECC-HHHHHHHHHHCCCCCEEEECCCCHHH-HHHH--HHH-HHHCCCCCHHHHHHHHH
Q ss_conf 6657989999999987998999855-99999999838985267306897469-8888--754-21013489989999888
Q gi|254780333|r 40 AYGLGCEKIAPALYNAGVQDFFVTS-VEEGVKLRLYTPQARIFVLYGIHPGQ-EKII--FDT-NLIPVISSVPQLTFYSK 114 (370)
Q Consensus 40 AYGhG~~~va~~l~~~Gv~~faVa~-~~EA~~lR~~g~~~~Ilvl~~~~~~~-~~~~--~~~-~i~~~i~s~~~l~~l~~ 114 (370)
+||.=-..+++.+.+.|+.+.++-. .+....+|+.|.+ ..++.....+ +..+ .+. -+..++.+.+....+-+
T Consensus 406 G~GRvGq~var~L~~~gi~~vviD~d~~~V~~~r~~G~~---v~yGDat~~~vL~~AGi~~Ar~vViaidd~~~~~~iv~ 482 (615)
T PRK03562 406 GFGRFGQIVGRLLLSSGVKMVVLDHDPDHIETLRKFGMK---VFYGDATRMDLLESAGAAKAEVLINAIDDPQTNLQLTE 482 (615)
T ss_pred ECCCCHHHHHHHHHHCCCCEEEEECCHHHHHHHHHCCCE---EEEECCCCHHHHHHCCCCCCCEEEEEECCHHHHHHHHH
T ss_conf 028046999999997899879997999999999967990---89768999999986791406889999498999999999
Q ss_pred -----------------------HHHCCCCCCCEEEECCC-------CCCCCCCHHHHHHHHHHHHHHHCCCHHHHHCCC
Q ss_conf -----------------------87608877616761266-------676556988999999888863100012432012
Q gi|254780333|r 115 -----------------------LMSCGVSHPYALQVDTG-------FNRLGLSLQEALDFTHNSFNKKLGQLSLIISHL 164 (370)
Q Consensus 115 -----------------------~~~~~~~~~vhlkiDTG-------M~R~G~~~~e~~~~~~~~~~~~~~~i~gi~THf 164 (370)
+.+.|.+.-+.=..+++ +..+|++++|+.+..+..+....--+.-.+-|.
T Consensus 483 ~~r~~~P~l~IiaRard~~~~~~L~~~Ga~~vv~Et~essL~l~~~~L~~lG~~~~~a~~~~~~fr~~d~~~l~~~~~~~ 562 (615)
T PRK03562 483 LVKEHFPHLQIIARARDVDHYIRLRQAGVEKPERETFEGALKSGRLALESLGLGPYEARERADRFRRFNIQMVEEMAPHE 562 (615)
T ss_pred HHHHHCCCCEEEEEECCHHHHHHHHHCCCCEEECCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 99975899869998397788999997899989666589999999999998099999999999999999999999986435
Q ss_pred C
Q ss_conf 4
Q gi|254780333|r 165 A 165 (370)
Q Consensus 165 a 165 (370)
.
T Consensus 563 ~ 563 (615)
T PRK03562 563 N 563 (615)
T ss_pred C
T ss_conf 7
No 81
>TIGR01885 Orn_aminotrans ornithine--oxo-acid transaminase; InterPro: IPR010164 Ornithine aminotransferase catalyses the conversion of L-ornithine and a 2-oxo acid to L-glutamate 5-semialdehyde and an L-amino acid. This enzyme is found in low-GC bacteria, where it is responsible for the fourth step in arginine biosynthesis, and in the mitochondrial matrix of eukaryotes, where it controls L-ornithine levels in tissues. In human hereditary ornithine aminotransferase deficiency, the elevated levels of intraocular concentrations of ornithine are responsible for gyrate atrophy, which affects the CNS and peripheral nervous system ; GO: 0008483 transaminase activity, 0030170 pyridoxal phosphate binding.
Probab=45.12 E-value=15 Score=16.94 Aligned_cols=11 Identities=36% Similarity=0.703 Sum_probs=5.8
Q ss_pred EEECCCCCCCC
Q ss_conf 76126667655
Q gi|254780333|r 126 LQVDTGFNRLG 136 (370)
Q Consensus 126 lkiDTGM~R~G 136 (370)
=+|.|||+|.|
T Consensus 243 DEiQTGlGRTG 253 (426)
T TIGR01885 243 DEIQTGLGRTG 253 (426)
T ss_pred EEECCCCCHHH
T ss_conf 20003840254
No 82
>cd00377 ICL_PEPM Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate lyase (ICL), and 2-methylisocitrate lyase (MICL). Isocitrate lyase (ICL) catalyzes the conversion of isocitrate to succinate and glyoxylate, the first committed step in the glyoxylate pathway. This carbon-conserving pathway is present in most prokaryotes, lower eukaryotes and plants, but has not been observed in vertebrates. PEP mutase (PEPM) turns phosphoenolpyruvate (PEP) into phosphonopyruvate (P-pyr), an important intermediate in the formation of organophosphonates, which function as antibiotics or play a role in pathogenesis or signaling. P-pyr can be hydrolyzed by phosphonopyruvate hydrolase (PPH) to from pyruvate and phosphate. Oxaloacetate acetylhydrolase (OAH) catalyzes the hydrolytic cleavage of oxaloacetate to
Probab=43.92 E-value=23 Score=15.70 Aligned_cols=120 Identities=13% Similarity=0.104 Sum_probs=59.1
Q ss_pred EEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf 99328665798999999998799899985599999999838985267306897469888875421013489989999888
Q gi|254780333|r 35 VVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSK 114 (370)
Q Consensus 35 VVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~~~~~~~~~~~~~i~~~i~s~~~l~~l~~ 114 (370)
++=.|+|- ..-|+.++++|.+.+++++..=+..+ -.+|...+-+ ++ .++.+..
T Consensus 11 l~~p~v~D---~~SAr~~~~~Gf~ai~~ss~~~a~s~--G~pD~~~~~~-----~e-----------------~~~~~~~ 63 (243)
T cd00377 11 LVLPGAWD---ALSARLAERAGFKAIYTSGAGVAASL--GLPDGGLLTL-----DE-----------------VLAAVRR 63 (243)
T ss_pred EEECCCCC---HHHHHHHHHCCCCEEEECHHHHHHHC--CCCCCCCCCH-----HH-----------------HHHHHHH
T ss_conf 89547878---99999999859999982489999975--9998787987-----89-----------------9999999
Q ss_pred HHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHH--CCCHHH-----HHCCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf 876088776167612666765569889999998888631--000124-----3201243333466788999999999975
Q gi|254780333|r 115 LMSCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFNKK--LGQLSL-----IISHLACADDPSSHVNSVQLERFRTLIS 187 (370)
Q Consensus 115 ~~~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~--~~~i~g-----i~THfa~ad~~~~~~~~~Q~~~F~~~~~ 187 (370)
..+ ....|+...+|||.+. +.+..+.++++.... .++||- -+.|+... .---.+.+.+|.+...+
T Consensus 64 I~~-a~~lPv~aD~d~GyG~----~~~v~~tv~~~~~aG~agi~IED~~~~k~~~~~~~~---~l~~~~e~~~ki~aa~~ 135 (243)
T cd00377 64 IAR-AVDLPVIADADTGYGN----ALNVARTVRELEEAGAAGIHIEDQVGPKKCGHHGGK---VLVPIEEFVAKIKAARD 135 (243)
T ss_pred HHH-HCCCCEEEECCCCCCC----HHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCC---CCCCHHHHHHHHHHHHH
T ss_conf 996-1699889987667786----799999999999749967986587887656665763---23069999999999999
Q ss_pred HH
Q ss_conf 43
Q gi|254780333|r 188 HY 189 (370)
Q Consensus 188 ~~ 189 (370)
..
T Consensus 136 a~ 137 (243)
T cd00377 136 AR 137 (243)
T ss_pred HH
T ss_conf 88
No 83
>COG4992 ArgD Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]
Probab=43.92 E-value=23 Score=15.70 Aligned_cols=33 Identities=21% Similarity=0.236 Sum_probs=13.1
Q ss_pred ECCCCCCC-CCCCCCCCCCCEEEEECCCCCCCEEC
Q ss_conf 14898346-65653467764179712330026010
Q gi|254780333|r 248 ALAGELVS-YGGQKKLTRDSLIAVAAIGYADGYPL 281 (370)
Q Consensus 248 l~~G~~Vg-Yg~~~~~~~~~~iavipiGYaDG~pr 281 (370)
..+|+.-| ||+..-+-.- -+|++-+=..++++.
T Consensus 274 ~~~G~HgSTfGGNpLacAv-~~a~l~~l~~e~ll~ 307 (404)
T COG4992 274 FTPGDHGSTFGGNPLACAV-ALAVLEVLLEEGLLE 307 (404)
T ss_pred CCCCCCCCCCCCCHHHHHH-HHHHHHHHHHHHHHH
T ss_conf 7887656777867999999-999999980030899
No 84
>pfam03420 Peptidase_U9 Prohead core protein protease.
Probab=43.71 E-value=8.8 Score=18.42 Aligned_cols=17 Identities=12% Similarity=0.040 Sum_probs=7.8
Q ss_pred EEEECCCCCCCCCCCEEE
Q ss_conf 799668877878887899
Q gi|254780333|r 318 TMFDITDSLSIEVGDYIQ 335 (370)
Q Consensus 318 ~~vdvt~~~~~~~GD~V~ 335 (370)
+.+|+-..|.. ++..|.
T Consensus 166 ~a~DiVadPSa-P~AfV~ 182 (220)
T pfam03420 166 VGVDAVWGPSA-PAAWVK 182 (220)
T ss_pred EEEEEECCCCC-CCCCCC
T ss_conf 46567448998-876458
No 85
>pfam11948 DUF3465 Protein of unknown function (DUF3465). This family of proteins are functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 131 to 151 amino acids in length. This protein has a conserved HWTH sequence motif.
Probab=43.21 E-value=14 Score=17.15 Aligned_cols=16 Identities=19% Similarity=0.293 Sum_probs=8.3
Q ss_pred EEECCCCCCCCCCCCC
Q ss_conf 6714898346656534
Q gi|254780333|r 246 RKALAGELVSYGGQKK 261 (370)
Q Consensus 246 r~l~~G~~VgYg~~~~ 261 (370)
-.+.+|+.|...+.|.
T Consensus 84 ~~l~~GD~v~f~GeYe 99 (131)
T pfam11948 84 PGLQKGDRVEFYGEYE 99 (131)
T ss_pred CCCCCCCEEEEEEEEE
T ss_conf 6777698899978999
No 86
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=42.92 E-value=24 Score=15.60 Aligned_cols=28 Identities=29% Similarity=0.214 Sum_probs=20.0
Q ss_pred EEEEEECCCCCCCHHHHHHHHHHCCCCE
Q ss_conf 9999932866579899999999879989
Q gi|254780333|r 32 TAAVVKDNAYGLGCEKIAPALYNAGVQD 59 (370)
Q Consensus 32 i~aVVKanAYGhG~~~va~~l~~~Gv~~ 59 (370)
+++.++.|+=--|..-++..|.++|.+-
T Consensus 3 liak~g~DgHd~G~~iva~~l~d~GfeV 30 (122)
T cd02071 3 LVAKPGLDGHDRGAKVIARALRDAGFEV 30 (122)
T ss_pred EEEEECCCHHHHHHHHHHHHHHHCCCEE
T ss_conf 9996478622877999999999789769
No 87
>TIGR01993 Pyr-5-nucltdase pyrimidine 5'-nucleotidase; InterPro: IPR010237 This family of proteins includes the SDT1/SSM1 gene from yeast, which has been shown to code for a pyrimidine (UMP/CMP) 5'nucleotidase. The family spans plants, fungi and bacteria. These enzymes are members of the haloacid dehalogenase (HAD) superfamily of hydrolases, specifically the IA subfamily..
Probab=42.78 E-value=16 Score=16.70 Aligned_cols=106 Identities=15% Similarity=0.111 Sum_probs=51.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHHCCCHHHHHCC-CC-CCCCCCC------HHHHHH--HHHHHHHHHHHC-----CCCH---
Q ss_conf 7655698899999988886310001243201-24-3333466------788999--999999975434-----8860---
Q gi|254780333|r 133 NRLGLSLQEALDFTHNSFNKKLGQLSLIISH-LA-CADDPSS------HVNSVQ--LERFRTLISHYK-----GIEA--- 194 (370)
Q Consensus 133 ~R~G~~~~e~~~~~~~~~~~~~~~i~gi~TH-fa-~ad~~~~------~~~~~Q--~~~F~~~~~~~~-----~~~~--- 194 (370)
+|+|++++|+..+-+.....=+..+.|++.| .- .+||-.. ++.... -....+++..++ +-..
T Consensus 32 ~~L~l~~eeA~~L~~~yY~~YG~tl~GL~~~gh~i~~~ey~~~VH~~lpy~~~~kpdp~L~~~L~~LpqsGK~~Rk~iFT 111 (205)
T TIGR01993 32 AKLKLSEEEARKLRKDYYKEYGTTLAGLMILGHEIDADEYLRYVHGRLPYEKLKKPDPELRNLLLRLPQSGKKGRKIIFT 111 (205)
T ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCHHHHHCCCHHHHHHHHHHHHCCCCCCEEEEE
T ss_conf 87089988999999998785758999999857997865564303676762455538988999999734126555567761
Q ss_pred -----HHCCCCHHCCCCCCCCH----HHCCCCCCCCCCCCC-CCCCC--CCCEEEEE
Q ss_conf -----11164110047732220----204873530678776-75567--64100123
Q gi|254780333|r 195 -----SLASSSGILLGPNYHFQ----LTRPGISLYGGTDKI-NKSHP--MQTVVTAE 239 (370)
Q Consensus 195 -----h~~nS~~~l~~p~~~~d----~vR~Gi~lYG~~~~~-~~~~~--l~pv~~l~ 239 (370)
|+.-+...|--. -+|| .+-.+.-+||-.|.- +.... .||...-.
T Consensus 112 N~~~~Ha~r~l~~LGi~-d~FD~i~~~~~~~~~lfGeaP~ssdd~~~~~~KP~~~ay 167 (205)
T TIGR01993 112 NGDRAHARRALNRLGIE-DCFDGIFDIDTANPDLFGEAPYSSDDETLLIPKPSPEAY 167 (205)
T ss_pred CCCHHHHHHHHHHCCHH-HCCCCEEEHHHHCHHHCCCCCCCCCCCCCCCCCCCHHHH
T ss_conf 58789999999864721-204642305120412316888788887631208888999
No 88
>TIGR02317 prpB methylisocitrate lyase; InterPro: IPR012695 Propionate is the second most abundant low molecular mass carbon source found in soil, being generated by the degradation of several amino acids, fementation of crabohydrates and the oxidation of odd-chain fatty acids. Many different organisms are capable of metabolising propionate and several distinct pathways for utilising this compound exist, all of which begin with its activation to propionyl-CoA . Many bacteria metabolise propionate to pyruvate by the 2-methylcitric acid cycle. In the first step, catalysed by methycitrate synthase, oxaloacetate and propionyl-CoA are condensed to form 2-methylcitrate and CoA. The 2-methylcitrate is subsequently converted to 2-methylisocitrate by the combined actions of a dehydratase and an aconitase. In the final step, 2-methylisocitrate lyase cleaves a C-C bond within this compound to form succinate and pyruvate. The succinate is further oxidised to oxaloacetate which re-enters the cycle, while the pyruvate can be used further for either energy generation or biomass synthesis. Proteins in this entry are mostly 2-methylisocitrate lyases. Some of them have been annotated (incorrectly it seems) as the related protein carboxyphosphoenolpyruvate phosphomutase, which is involved in synthesizing the antibiotic bialaphos in Streptomyces hygroscopicus. Structural studies indicate that these enzymes belong to the isocitrate lyase family, binding a Mg(2+) cofactor and forming a TIM barrel fold , . As with other enzymes in this family, substrate-binding induces a conformational change that prevents solvent access to the active site and which is important for catalysis. .
Probab=42.35 E-value=25 Score=15.54 Aligned_cols=76 Identities=14% Similarity=0.080 Sum_probs=44.0
Q ss_pred CCEEEECCHHHHHHHHHHCCCCCEEEECCCCHH-HHHHHHHHHH-HCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCC
Q ss_conf 989998559999999983898526730689746-9888875421-01348998999988887608877616761266676
Q gi|254780333|r 57 VQDFFVTSVEEGVKLRLYTPQARIFVLYGIHPG-QEKIIFDTNL-IPVISSVPQLTFYSKLMSCGVSHPYALQVDTGFNR 134 (370)
Q Consensus 57 v~~faVa~~~EA~~lR~~g~~~~Ilvl~~~~~~-~~~~~~~~~i-~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM~R 134 (370)
+...||-+.-=|+..+++|+++ |++=|+.... .+ ++ .+.+.|++++..-..-...-..+|+-+-+|||+|=
T Consensus 15 lq~pGa~n~~~AL~Ae~aGF~A-~YLSGaa~aa~sL------GlPDLG~~tL~Eva~~~r~Itr~~~LPlLVD~DTGFGe 87 (287)
T TIGR02317 15 LQIPGAINGLVALLAERAGFEA-IYLSGAAVAAGSL------GLPDLGITTLTEVAERARRITRVTDLPLLVDADTGFGE 87 (287)
T ss_pred EEECCHHHHHHHHHHHHCCCCE-EEEHHHHHHHHHH------CCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCCCC
T ss_conf 4871406189999998637556-6101687741320------67767667878999998877753048727863328983
Q ss_pred CCCCHH
Q ss_conf 556988
Q gi|254780333|r 135 LGLSLQ 140 (370)
Q Consensus 135 ~G~~~~ 140 (370)
=|+..
T Consensus 88 -a~nva 92 (287)
T TIGR02317 88 -ALNVA 92 (287)
T ss_pred -HHHHH
T ss_conf -54499
No 89
>PRK13116 consensus
Probab=42.16 E-value=25 Score=15.52 Aligned_cols=83 Identities=11% Similarity=0.163 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHHCCCCEEEEEEECC-CCCCCHHHHHHHHHHCCCCEEEECC--HHHHHHHHH----HCCCCCEEEECCC
Q ss_conf 89999999998628997599999328-6657989999999987998999855--999999998----3898526730689
Q gi|254780333|r 14 TALKNNWHSMNALSGNARTAAVVKDN-AYGLGCEKIAPALYNAGVQDFFVTS--VEEGVKLRL----YTPQARIFVLYGI 86 (370)
Q Consensus 14 ~al~~Ni~~i~~~~~~~~i~aVVKan-AYGhG~~~va~~l~~~Gv~~faVa~--~~EA~~lR~----~g~~~~Ilvl~~~ 86 (370)
+.+-+=++.+|+..++..++.+.=-| -|-.|.+.-++.+.++|+|++=+.. ++|+..+++ .+++ .|++..+.
T Consensus 79 ~~~~~~v~~ir~~~~~~PivlM~Y~N~i~~~G~e~F~~~~~~aGvdGlIipDLP~eE~~~~~~~~~~~~i~-~I~l~~pt 157 (278)
T PRK13116 79 DSALEQIKRVRAAYPEVPIGMLIYGNVPFTRGLDRFYQEFAEAGADSILLPDVPVREGAPFSAAAAAAGID-PIYIAPAN 157 (278)
T ss_pred HHHHHHHHHHCCCCCCCCEEEEECCCHHHHCCHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHCCCC-EEEEECCC
T ss_conf 89999999840358987689980572887727999999997769758994699978889999999865766-69993799
Q ss_pred CHHH-HHHHHHH
Q ss_conf 7469-8888754
Q gi|254780333|r 87 HPGQ-EKIIFDT 97 (370)
Q Consensus 87 ~~~~-~~~~~~~ 97 (370)
.+++ ++.+.+.
T Consensus 158 t~~~ri~~I~~~ 169 (278)
T PRK13116 158 ASEKTLEGVSAA 169 (278)
T ss_pred CCHHHHHHHHHH
T ss_conf 959999999971
No 90
>PRK13113 consensus
Probab=42.07 E-value=25 Score=15.51 Aligned_cols=58 Identities=17% Similarity=0.153 Sum_probs=26.7
Q ss_pred CEEEEEEECCC-CCCCHHHHHHHHHHCCCCEEEECC--HHHHHHHH----HHCCCCCEEEECCCCH
Q ss_conf 75999993286-657989999999987998999855--99999999----8389852673068974
Q gi|254780333|r 30 ARTAAVVKDNA-YGLGCEKIAPALYNAGVQDFFVTS--VEEGVKLR----LYTPQARIFVLYGIHP 88 (370)
Q Consensus 30 ~~i~aVVKanA-YGhG~~~va~~l~~~Gv~~faVa~--~~EA~~lR----~~g~~~~Ilvl~~~~~ 88 (370)
+.+..+-=.|- |-.|.+.-++.+.++|++++-+.. .+|+..++ +.|++ .|.+..|..+
T Consensus 95 ~PivlM~Y~N~i~~~G~e~F~~~~~~~GvdGvIipDLP~eE~~~~~~~~~~~~l~-~I~lvaPtt~ 159 (263)
T PRK13113 95 TPIVMMGYYNPIYSRGVDRFLAEAKEAGIDGLIVVDLPPEEDSELCLPAQAAGLN-FIRLATPTTD 159 (263)
T ss_pred CCEEEEECHHHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHCCCC-EEEEECCCCC
T ss_conf 8889983136898856999999987779436971799978889999999977986-7999479999
No 91
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=42.05 E-value=25 Score=15.51 Aligned_cols=114 Identities=15% Similarity=0.088 Sum_probs=64.8
Q ss_pred HHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECC-----HHHHHHHHHHCCCC-CEEE-ECC-CCHHHHHH
Q ss_conf 9986289975999993286657989999999987998999855-----99999999838985-2673-068-97469888
Q gi|254780333|r 22 SMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTS-----VEEGVKLRLYTPQA-RIFV-LYG-IHPGQEKI 93 (370)
Q Consensus 22 ~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~-----~~EA~~lR~~g~~~-~Ilv-l~~-~~~~~~~~ 93 (370)
.++++. ..+++||+-.+-.-. +.++++.+.+.|++.+-|+. ++--.++|+...+. .+++ -+. +.+++...
T Consensus 6 il~~l~-~~~iiaVlr~~~~~~-a~~~~~al~~gGi~~iEITl~tp~a~~~i~~l~~~~~~~p~~~iGaGTV~~~e~~~~ 83 (209)
T PRK06552 6 ILTKLK-ANGLVAVVRGESKEE-ALKISLAVIKGGIKAIEVTYTNPFASEVIKELVERYKDDPEVLIGAGTVLDAVTARQ 83 (209)
T ss_pred HHHHHH-HCCEEEEEECCCHHH-HHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHH
T ss_conf 999999-799799997289999-999999999879988999678975999999999981779981898872748999999
Q ss_pred HHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHH
Q ss_conf 875421013489989999888876088776167612666765569889999998
Q gi|254780333|r 94 IFDTNLIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTH 147 (370)
Q Consensus 94 ~~~~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~ 147 (370)
+.+.+-...++-.-..+.++...+.+. ++ + =--+++.|.....+
T Consensus 84 a~~aGA~FiVSP~~~~~v~~~a~~~~i--~~-i-------PG~~TpsEi~~A~~ 127 (209)
T PRK06552 84 AILAGAQFIVSPSFNRETAKICNRYQI--PY-L-------PGCMTVTEIVTALE 127 (209)
T ss_pred HHHCCCCEEECCCCCHHHHHHHHHCCC--CE-E-------CCCCCHHHHHHHHH
T ss_conf 998599889769998999999998599--64-1-------79799999999998
No 92
>PRK04017 hypothetical protein; Provisional
Probab=41.02 E-value=22 Score=15.88 Aligned_cols=30 Identities=17% Similarity=0.112 Sum_probs=20.9
Q ss_pred ECCHHHHHHHHHHCCCCCEEEECCCCHHHH
Q ss_conf 855999999998389852673068974698
Q gi|254780333|r 62 VTSVEEGVKLRLYTPQARIFVLYGIHPGQE 91 (370)
Q Consensus 62 Va~~~EA~~lR~~g~~~~Ilvl~~~~~~~~ 91 (370)
|--.-+-.+||..|+++||.+++.....++
T Consensus 28 VEGkRD~~ALr~LG~~G~Ii~l~r~~l~~i 57 (132)
T PRK04017 28 VEGKRDELSLRKLGVRGEIIKLSRLPLFEI 57 (132)
T ss_pred EECCCHHHHHHHCCCCCEEEEECCCCHHHH
T ss_conf 963636999998499831898748409999
No 93
>TIGR02967 guan_deamin guanine deaminase; InterPro: IPR014311 This entry describes guanine deaminase, which hydrolyzes guanine to xanthine and ammonia. Xanthine can then be converted to urate by xanthine dehydrogenase. In some bacteria, the guanine deaminase gene is found near the xdhABC genes for xanthine dehydrogenase. Non-homologous forms of guanine deaminase also exist, as well as more distantly related homologs which are not included in this entry. .
Probab=40.90 E-value=9.7 Score=18.15 Aligned_cols=25 Identities=16% Similarity=0.069 Sum_probs=12.5
Q ss_pred HHHHHHHHHH-HHHCCCHHHHHCCCCCCC
Q ss_conf 9999998888-631000124320124333
Q gi|254780333|r 141 EALDFTHNSF-NKKLGQLSLIISHLACAD 168 (370)
Q Consensus 141 e~~~~~~~~~-~~~~~~i~gi~THfa~ad 168 (370)
|-++.+.++. ..|.+. |=||+|...
T Consensus 198 eQL~~aG~L~~e~Pd~~---~QTHLSEN~ 223 (426)
T TIGR02967 198 EQLAAAGELLKEYPDVY---VQTHLSENK 223 (426)
T ss_pred HHHHHHHHHHHHCCCCE---EECCCCCCH
T ss_conf 89999999997589817---981000485
No 94
>cd00452 KDPG_aldolase KDPG and KHG aldolase. This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best known for its role in the Entner-Doudoroff pathway of bacteria, where it catalyzes the reversible cleavage of KDPG to pyruvate and glyceraldehyde-3-phosphate. 2-keto-4-hydroxyglutarate (KHG) aldolase, which has enzymatic specificity toward glyoxylate, forming KHG in the presence of pyruvate, and is capable of regulating glyoxylate levels in the glyoxylate bypass, an alternate pathway when bacteria are grown on acetate carbon sources.
Probab=40.36 E-value=26 Score=15.35 Aligned_cols=106 Identities=17% Similarity=0.187 Sum_probs=61.6
Q ss_pred CCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEEC-CHHHHH----HHHHHCCCCCEEE-ECCC-CHHHHHHHHHHHHHC
Q ss_conf 97599999328665798999999998799899985-599999----9998389852673-0689-746988887542101
Q gi|254780333|r 29 NARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVT-SVEEGV----KLRLYTPQARIFV-LYGI-HPGQEKIIFDTNLIP 101 (370)
Q Consensus 29 ~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa-~~~EA~----~lR~~g~~~~Ilv-l~~~-~~~~~~~~~~~~i~~ 101 (370)
..+++||+..+-.-. ..++++++.+.|++.+-|+ +-++|+ ++|+...+ +++ .+.+ .+++.+.+.+.+...
T Consensus 3 ~~~iiaVlr~~~~~~-a~~~~~al~~~Gi~~iEitl~t~~a~~~i~~l~~~~~~--~~iGaGTV~~~~~~~~a~~aGa~F 79 (190)
T cd00452 3 AQPLVAVLRGDDAED-ALALAEALIEGGIRAIEITLRTPGALEAIRALRKEFPE--ALIGAGTVLTPEQADAAIAAGAQF 79 (190)
T ss_pred CCCEEEEEECCCHHH-HHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCC--CEEEECCCCCHHHHHHHHHCCCCE
T ss_conf 697799997799999-99999999986998899967880299999999986898--089652347799999999859989
Q ss_pred CCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHH
Q ss_conf 3489989999888876088776167612666765569889999998
Q gi|254780333|r 102 VISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTH 147 (370)
Q Consensus 102 ~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~ 147 (370)
.++---..+.++...+.+ .++ + -| -+++.|.....+
T Consensus 80 ivsP~~~~~v~~~a~~~~--~~~-i---PG----v~TpsEi~~A~~ 115 (190)
T cd00452 80 IVSPGLDPEVVKAANRAG--IPL-L---PG----VATPTEIMQALE 115 (190)
T ss_pred EECCCCCHHHHHHHHHCC--CCE-E---CC----CCCHHHHHHHHH
T ss_conf 973779999999999829--966-5---78----799999999998
No 95
>PRK04180 pyridoxine biosynthesis protein; Provisional
Probab=40.36 E-value=26 Score=15.43 Aligned_cols=41 Identities=20% Similarity=0.152 Sum_probs=21.3
Q ss_pred HHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHH-HHHHHHHC
Q ss_conf 6289975999993286657989999999987998999855999-99999838
Q gi|254780333|r 25 ALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEE-GVKLRLYT 75 (370)
Q Consensus 25 ~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~E-A~~lR~~g 75 (370)
++..+.-||-|+-+ +-|+..+++|+. +|--++- -..+|+.|
T Consensus 14 ~mlkGGVIMDV~n~--------eQA~IAE~AGAv--aVMaLervPadiR~~G 55 (293)
T PRK04180 14 EMLKGGVIMDVVNA--------EQAKIAEEAGAV--AVMALERVPADIRAAG 55 (293)
T ss_pred HHHCCCEEEEECCH--------HHHHHHHHCCCE--EEEEECCCCHHHHHCC
T ss_conf 99639878984789--------999999873764--8987535858787258
No 96
>TIGR02076 pyrH_arch uridylate kinase, putative; InterPro: IPR011818 Uridylate kinases (also known as UMP kinases) are key enzymes in the synthesis of nucleoside triphosphates. They catalyse the reversible transfer of the gamma-phosphoryl group from an ATP donor to UMP, yielding UDP, which is the starting point for the synthesis of all other pyrimidine nucleotides. The eukaryotic enzyme has a dual specificity, phosphorylating both UMP and CMP, while the bacterial enzyme is specific to UMP. The bacterial enzyme shows no sequence similarity to the eukaryotic enzyme or other nucleoside monophosphate kinases, but rather appears to be part of the amino acid kinase family. It is dependent on magnesium for activity and is activated by GTP and repressed by UTP , . In many bacterial genomes, the gene tends to be located immediately downstream of elongation factor T and upstream of ribosome recycling factor. A related protein family, believed to be equivalent in function is found in the archaea and in spirochetes. Structurally, the bacterial and archaeal proteins are homohexamers centred around a hollow nucleus and organised as a trimer of dimers , . Each monomer within the protein forms the amino acid kinase fold and can be divided into an N-terminal region which binds UMP and mediates intersubunit interactions within the dimer, and a C-terminal region which binds ATP and contains a mobile loop covering the active site. Inhibition of enzyme activity by UTP appears to be due to competition for the binding site for UMP, not allosteric inhibition as was previously suspected. This entry represents the archaeal and spirochete proteins.; GO: 0009041 uridylate kinase activity, 0006221 pyrimidine nucleotide biosynthetic process.
Probab=40.02 E-value=18 Score=16.38 Aligned_cols=49 Identities=22% Similarity=0.236 Sum_probs=30.8
Q ss_pred EEHHHHHHHHHHHHHHCCC---CEEEEEEECCCCCCCHHHHHHHHHHCCCCEE--E--ECCHHH
Q ss_conf 8688999999999862899---7599999328665798999999998799899--9--855999
Q gi|254780333|r 11 IDLTALKNNWHSMNALSGN---ARTAAVVKDNAYGLGCEKIAPALYNAGVQDF--F--VTSVEE 67 (370)
Q Consensus 11 Idl~al~~Ni~~i~~~~~~---~~i~aVVKanAYGhG~~~va~~l~~~Gv~~f--a--Va~~~E 67 (370)
+|.+.++.=-+.|+++... .+++-||= =-++||.-++. ++.+ + .+.+||
T Consensus 15 ~d~e~~~~~A~~l~~~~~~Gek~~v~vVvG-------GG~~AR~YI~~-aR~lnPG~~E~~lD~ 70 (232)
T TIGR02076 15 IDAEKIKEYANILRKLSDEGEKHKVGVVVG-------GGKTAREYIGV-ARELNPGASETFLDE 70 (232)
T ss_pred CCHHHHHHHHHHHHHHHHCCCCEEEEEEEC-------CCHHHHHHHHH-HHHHCCCCCCHHHHH
T ss_conf 887899999999999984499468998878-------87658899999-986088888024567
No 97
>pfam03060 NPD 2-nitropropane dioxygenase. Members of this family catalyse the denitrification of a number of nitroalkanes using either FAD or FMN as a cofactor.
Probab=39.77 E-value=27 Score=15.29 Aligned_cols=17 Identities=12% Similarity=0.216 Sum_probs=11.8
Q ss_pred EHHHHHHHHHHHHHHCC
Q ss_conf 68899999999986289
Q gi|254780333|r 12 DLTALKNNWHSMNALSG 28 (370)
Q Consensus 12 dl~al~~Ni~~i~~~~~ 28 (370)
+.+.++..++.+|+++.
T Consensus 46 ~~e~l~~~i~~~~~~t~ 62 (330)
T pfam03060 46 TPDRLEKEIRKVKELTD 62 (330)
T ss_pred CHHHHHHHHHHHHHHHC
T ss_conf 99999999999998648
No 98
>PRK08904 consensus
Probab=39.07 E-value=28 Score=15.22 Aligned_cols=81 Identities=17% Similarity=0.183 Sum_probs=50.1
Q ss_pred HHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEEC-CHHHHH----HHHHHCCCCCEEE-ECC-CCHHHHHHHH
Q ss_conf 98628997599999328665798999999998799899985-599999----9998389852673-068-9746988887
Q gi|254780333|r 23 MNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVT-SVEEGV----KLRLYTPQARIFV-LYG-IHPGQEKIIF 95 (370)
Q Consensus 23 i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa-~~~EA~----~lR~~g~~~~Ilv-l~~-~~~~~~~~~~ 95 (370)
.+++....+++||+..+-.-+ ..++++++.+.|++.+-|+ +.+.|. .+++..++ +++ -+. +.+++...+.
T Consensus 3 ~~~~L~~~~iipVir~~~~~~-a~~~a~al~~~Gi~~iEiTlrtp~a~~~i~~l~~~~p~--~~vGaGTVl~~e~~~~a~ 79 (207)
T PRK08904 3 PREILTAGAVVPVMAIDDLST-AVDLSRALVEGGIPTLEITLRTPVGLDAIRLIAKEVPN--AIVGAGTVTNPEQLKAVE 79 (207)
T ss_pred HHHHHHHCCEEEEEECCCHHH-HHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCC--CEEEEEECCCHHHHHHHH
T ss_conf 799998699799997699999-99999999987998899957991399999999986898--768553136899999999
Q ss_pred HHHHHCCCCCH
Q ss_conf 54210134899
Q gi|254780333|r 96 DTNLIPVISSV 106 (370)
Q Consensus 96 ~~~i~~~i~s~ 106 (370)
+.+....++--
T Consensus 80 ~aGA~FiVSP~ 90 (207)
T PRK08904 80 DAGAVFAISPG 90 (207)
T ss_pred HCCCCEEECCC
T ss_conf 84999998489
No 99
>pfam04481 DUF561 Protein of unknown function (DUF561). Protein of unknown function found in a cyanobacterium, and the chloroplasts of algae.
Probab=38.71 E-value=28 Score=15.18 Aligned_cols=64 Identities=19% Similarity=-0.003 Sum_probs=50.0
Q ss_pred CHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHCC-CCCHHH
Q ss_conf 98999999998799899985599999999838985267306897469888875421013-489989
Q gi|254780333|r 44 GCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPV-ISSVPQ 108 (370)
Q Consensus 44 G~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~~~~~~~~~~~~~i~~~-i~s~~~ 108 (370)
-...++++....|++++-+|.-.|-+++-+.-.+.||-| ..+.|+.+..+++.+-..+ |.++|.
T Consensus 28 ~V~~i~~AA~~ggAt~vDIA~dp~LV~~v~~~~~lPiCV-SaVep~~f~~aV~AGA~lvEIGNfDs 92 (243)
T pfam04481 28 QVLKIARASQIAKATYVDIAADPQLVKVVKSVSNIPICV-SAVEPELLYEAVLAGADLVEIGNFDS 92 (243)
T ss_pred HHHHHHHHHHCCCCCEEEECCCHHHHHHHHHHCCCCEEE-ECCCHHHHHHHHHHCCCEEEECCHHH
T ss_conf 999999998715997687417999999999728998586-04797888999982787898645364
No 100
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=38.68 E-value=28 Score=15.18 Aligned_cols=74 Identities=11% Similarity=0.106 Sum_probs=48.2
Q ss_pred HHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCH-----HHHH----HHHHHCCCCCEEEECCCCHHH-
Q ss_conf 999862899759999932866579899999999879989998559-----9999----999838985267306897469-
Q gi|254780333|r 21 HSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSV-----EEGV----KLRLYTPQARIFVLYGIHPGQ- 90 (370)
Q Consensus 21 ~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~-----~EA~----~lR~~g~~~~Ilvl~~~~~~~- 90 (370)
+.+|+. ++..++.+.=.|-|-.|.++-++.+.++|++++-+..+ +|+. ..|+.|++ .|++..|..+++
T Consensus 70 ~~~r~~-~~~pivlM~Y~N~~~~g~e~F~~~~~~~GvdGvIipDLP~e~~ee~~~~~~~~~~~gl~-~I~lvsPtt~~~r 147 (247)
T PRK13125 70 EEVRKK-VGVPTYIMTYLEDYVGSLDDLLNTAKEVGARGVLFPDLLIDFPDELEKYVELIRRYGLA-PVFFTSPKFPDRL 147 (247)
T ss_pred HHHCCC-CCCCEEEHHHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHHHCCCC-EEEEECCCCCHHH
T ss_conf 985056-89988972988999976999999999859975883388875467899999999976984-6999579981999
Q ss_pred HHHHHH
Q ss_conf 888875
Q gi|254780333|r 91 EKIIFD 96 (370)
Q Consensus 91 ~~~~~~ 96 (370)
++.+.+
T Consensus 148 i~~i~~ 153 (247)
T PRK13125 148 IRRLSK 153 (247)
T ss_pred HHHHHH
T ss_conf 999998
No 101
>PRK06857 consensus
Probab=37.47 E-value=29 Score=15.06 Aligned_cols=87 Identities=15% Similarity=0.092 Sum_probs=52.4
Q ss_pred HHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECC-HH---HHH-HHHHHCCCCCEEE-ECC-CCHHHHHHHHH
Q ss_conf 86289975999993286657989999999987998999855-99---999-9998389852673-068-97469888875
Q gi|254780333|r 24 NALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTS-VE---EGV-KLRLYTPQARIFV-LYG-IHPGQEKIIFD 96 (370)
Q Consensus 24 ~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~-~~---EA~-~lR~~g~~~~Ilv-l~~-~~~~~~~~~~~ 96 (370)
+++. ..+++||+-.+-.- -..++++++.+.|++.+-|+. -+ |++ ++|+..++ +++ .+. +.+++...+.+
T Consensus 7 ~~l~-~~~iipVir~~~~~-~a~~~~~al~~gGi~~iEiTlrt~~a~~~I~~l~~~~p~--~~vGaGTV~~~e~~~~a~~ 82 (209)
T PRK06857 7 EKLR-ALKVVPVIAIDDAE-DILPLAKVLAENGLPVAEITFRSAAAAEAIRLLREAYPD--MLIGAGTVLTPEQVDAAKE 82 (209)
T ss_pred HHHH-HCCEEEEEECCCHH-HHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCC--CEEEEEECCCHHHHHHHHH
T ss_conf 9999-79979999759999-999999999987998899958993299999999975899--4899993767999999998
Q ss_pred HHHHCCCCCHHHHHHHHH
Q ss_conf 421013489989999888
Q gi|254780333|r 97 TNLIPVISSVPQLTFYSK 114 (370)
Q Consensus 97 ~~i~~~i~s~~~l~~l~~ 114 (370)
.+....++-.-..+.++.
T Consensus 83 aGA~FiVSP~~~~~v~~~ 100 (209)
T PRK06857 83 AGADFIVSPGFNPNTVKY 100 (209)
T ss_pred CCCCEEECCCCCHHHHHH
T ss_conf 399999908999999999
No 102
>PRK13112 consensus
Probab=36.79 E-value=30 Score=14.99 Aligned_cols=76 Identities=14% Similarity=0.062 Sum_probs=48.8
Q ss_pred HHHHHHHCCCCEEEEEEECCC-CCCCHHHHHHHHHHCCCCEEEECC--HHHHHHHH----HHCCCCCEEEECCCCHH-HH
Q ss_conf 999986289975999993286-657989999999987998999855--99999999----83898526730689746-98
Q gi|254780333|r 20 WHSMNALSGNARTAAVVKDNA-YGLGCEKIAPALYNAGVQDFFVTS--VEEGVKLR----LYTPQARIFVLYGIHPG-QE 91 (370)
Q Consensus 20 i~~i~~~~~~~~i~aVVKanA-YGhG~~~va~~l~~~Gv~~faVa~--~~EA~~lR----~~g~~~~Ilvl~~~~~~-~~ 91 (370)
++.+|+..+.+.++.+.=.|- |-.|.+.-++.+.++|+|++=+.. .+|+.+++ +.|++ .|.+..|..+. .+
T Consensus 86 ~~~ir~~~~~~PivlM~Y~N~i~~~G~e~F~~~~~~aGvdGvIipDLP~eE~~~~~~~~~~~~i~-~I~lvaPtt~~eRi 164 (279)
T PRK13112 86 AREFRKDDDTTPIVLMGYYNPIYIYGVERFLTDAKAAGVDGLIVVDLPPEMDAELCIPAMKAGIN-FIRLATPTTDDKRL 164 (279)
T ss_pred HHHHHCCCCCCCEEEEEECHHHHHHCHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHCCCC-EEEEECCCCCHHHH
T ss_conf 99851348998879985124998847999999999739987984699978889999999857834-69982589989999
Q ss_pred HHHHH
Q ss_conf 88875
Q gi|254780333|r 92 KIIFD 96 (370)
Q Consensus 92 ~~~~~ 96 (370)
+.+.+
T Consensus 165 ~~i~~ 169 (279)
T PRK13112 165 PKVLA 169 (279)
T ss_pred HHHHH
T ss_conf 99985
No 103
>cd04727 pdxS PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some metazoa. Together with PdxT, PdxS forms the PLP synthase, a heteromeric glutamine amidotransferase (GATase), whereby PdxT produces ammonia from glutamine and PdxS combines ammonia with five- and three-carbon phosphosugars to form PLP. PLP is the biologically active form of vitamin B6, an essential cofactor in many biochemical processes. PdxS subunits form two hexameric rings.
Probab=36.15 E-value=14 Score=17.04 Aligned_cols=15 Identities=7% Similarity=0.007 Sum_probs=9.2
Q ss_pred CCCHHHCCCCCCCCC
Q ss_conf 222020487353067
Q gi|254780333|r 208 YHFQLTRPGISLYGG 222 (370)
Q Consensus 208 ~~~d~vR~Gi~lYG~ 222 (370)
...|-|=+|..+|-.
T Consensus 217 LG~dGVFVGSGIFKS 231 (283)
T cd04727 217 LGADGVFVGSGIFKS 231 (283)
T ss_pred CCCCEEEECCCCCCC
T ss_conf 289878877654578
No 104
>COG0214 SNZ1 Pyridoxine biosynthesis enzyme [Coenzyme metabolism]
Probab=35.64 E-value=14 Score=17.17 Aligned_cols=41 Identities=20% Similarity=0.150 Sum_probs=22.5
Q ss_pred HCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHH-HHHHHHHCC
Q ss_conf 289975999993286657989999999987998999855999-999998389
Q gi|254780333|r 26 LSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEE-GVKLRLYTP 76 (370)
Q Consensus 26 ~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~E-A~~lR~~g~ 76 (370)
+..+.-||-|+-+ +-|+..+++|+ .+|--++- -..+|++|-
T Consensus 18 m~KGGVIMDV~n~--------EQA~IAE~aGA--vAVMaLervPaDiR~aGG 59 (296)
T COG0214 18 MLKGGVIMDVVNA--------EQARIAEEAGA--VAVMALERVPADIRAAGG 59 (296)
T ss_pred HHCCCEEEEECCH--------HHHHHHHHCCC--EEEEEHHHCCHHHHHCCC
T ss_conf 8549768871689--------99999886274--167214217687885369
No 105
>PRK13306 ulaD 3-keto-L-gulonate-6-phosphate decarboxylase; Provisional
Probab=35.54 E-value=31 Score=14.86 Aligned_cols=29 Identities=10% Similarity=0.239 Sum_probs=18.2
Q ss_pred CCCEEEEEEHHHHHHHHHHHHHHCCCCEE
Q ss_conf 88509998688999999999862899759
Q gi|254780333|r 4 NEFLRLKIDLTALKNNWHSMNALSGNART 32 (370)
Q Consensus 4 ~~~~~leIdl~al~~Ni~~i~~~~~~~~i 32 (370)
..++++=+|+..+..=++..++..+...+
T Consensus 3 ~P~LQvALD~~~l~~Al~ia~~~~~~vdi 31 (216)
T PRK13306 3 KPLLQVALDNQDLDSALEDAKKVAEEVDI 31 (216)
T ss_pred CCEEEEEECCCCHHHHHHHHHHHHCCCCE
T ss_conf 97389986789999999999972322899
No 106
>CHL00113 rps4 ribosomal protein S4; Reviewed
Probab=35.00 E-value=32 Score=14.81 Aligned_cols=15 Identities=20% Similarity=0.175 Sum_probs=6.6
Q ss_pred CCCCCCCCHHH--CCCC
Q ss_conf 04773222020--4873
Q gi|254780333|r 203 LLGPNYHFQLT--RPGI 217 (370)
Q Consensus 203 l~~p~~~~d~v--R~Gi 217 (370)
+...+.++|-| |.|.
T Consensus 84 l~lLE~RLDnvVyRlGf 100 (201)
T CHL00113 84 LQLLEMRLDNILFRLGM 100 (201)
T ss_pred HHHHHHHHHHHHHHCCC
T ss_conf 99999999999987054
No 107
>COG0117 RibD Pyrimidine deaminase [Coenzyme metabolism]
Probab=34.84 E-value=23 Score=15.72 Aligned_cols=40 Identities=20% Similarity=0.210 Sum_probs=20.2
Q ss_pred CCHHHHHHHHHHCCCC---CEEE-ECCC-----CHHHHHHHHHHHHHCC
Q ss_conf 5599999999838985---2673-0689-----7469888875421013
Q gi|254780333|r 63 TSVEEGVKLRLYTPQA---RIFV-LYGI-----HPGQEKIIFDTNLIPV 102 (370)
Q Consensus 63 a~~~EA~~lR~~g~~~---~Ilv-l~~~-----~~~~~~~~~~~~i~~~ 102 (370)
..-.|-.+|+++|... ..+| |.|+ .|-..+.+++.++--+
T Consensus 51 ~pHAEv~Al~~ag~~a~Gat~yVTLEPCsH~GrTPPC~~ali~agi~rV 99 (146)
T COG0117 51 GPHAEVCALRMAGEAARGATAYVTLEPCSHYGRTPPCADALIKAGVARV 99 (146)
T ss_pred CCCHHHHHHHHCCCCCCCCEEEEEECCCCCCCCCCCHHHHHHHCCCCEE
T ss_conf 9728999999758555787899972476668999645799997098889
No 108
>pfam02581 TMP-TENI Thiamine monophosphate synthase/TENI. Thiamine monophosphate synthase (TMP) (EC:2.5.1.3) catalyses the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-hydroxyethyl)thiazole phosphate to yield thiamine phosphate. This Pfam family also includes the regulatory protein TENI.
Probab=34.68 E-value=32 Score=14.77 Aligned_cols=16 Identities=13% Similarity=0.104 Sum_probs=7.3
Q ss_pred HHHHHHHHHCCCCEEE
Q ss_conf 9999999987998999
Q gi|254780333|r 46 EKIAPALYNAGVQDFF 61 (370)
Q Consensus 46 ~~va~~l~~~Gv~~fa 61 (370)
.+..+.+.+.|++.+-
T Consensus 15 ~~~~~~~l~~Gv~~vq 30 (180)
T pfam02581 15 LEVVEEALKGGVTIVQ 30 (180)
T ss_pred HHHHHHHHHCCCCEEE
T ss_conf 9999999986999999
No 109
>PRK03659 glutathione-regulated potassium-efflux system protein KefB; Provisional
Probab=33.96 E-value=33 Score=14.70 Aligned_cols=37 Identities=14% Similarity=0.099 Sum_probs=24.7
Q ss_pred CCCCCHHHHHHHHHHCCCCEEEECC-HHHHHHHHHHCC
Q ss_conf 6657989999999987998999855-999999998389
Q gi|254780333|r 40 AYGLGCEKIAPALYNAGVQDFFVTS-VEEGVKLRLYTP 76 (370)
Q Consensus 40 AYGhG~~~va~~l~~~Gv~~faVa~-~~EA~~lR~~g~ 76 (370)
+||.=-..+++.+.+.|+.+..+-. .+....+|+.|.
T Consensus 407 G~GR~Gq~var~L~~~gi~~vviD~d~~~V~~~r~~G~ 444 (602)
T PRK03659 407 GFGRFGQVIGRLLMANKMRITVLERDISAVNLMRKYGY 444 (602)
T ss_pred CCCHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHCCC
T ss_conf 88756899999999789998999786799999997899
No 110
>COG4022 Uncharacterized protein conserved in archaea [Function unknown]
Probab=33.86 E-value=33 Score=14.69 Aligned_cols=51 Identities=22% Similarity=0.278 Sum_probs=28.3
Q ss_pred EEEHHHHHHHHHH-HHH---HCCCCEEEEEEECC-CCCCCHHHHHHHHHHCCCCEEEEC
Q ss_conf 9868899999999-986---28997599999328-665798999999998799899985
Q gi|254780333|r 10 KIDLTALKNNWHS-MNA---LSGNARTAAVVKDN-AYGLGCEKIAPALYNAGVQDFFVT 63 (370)
Q Consensus 10 eIdl~al~~Ni~~-i~~---~~~~~~i~aVVKan-AYGhG~~~va~~l~~~Gv~~faVa 63 (370)
.|-..+++.|++. ++. .+++.++-. .+ =-.+|+.++.-...+.|.-.-+|.
T Consensus 45 kiT~E~ikknie~rI~d~GMfT~kR~l~~---~~~~v~FGaSEimmt~L~~g~lDaaV~ 100 (286)
T COG4022 45 KITSEEIKKNIEFRIKDFGMFTEKRRLES---EDTFVPFGASEIMMTGLKRGLLDAAVT 100 (286)
T ss_pred HCCHHHHHHHHHHHHHHCCCCCCCCEEEE---ECCEECCCHHHHHHHHHHHCCCCEEEE
T ss_conf 41999999878755553134456516640---020523657999999876065214789
No 111
>PRK13138 consensus
Probab=33.02 E-value=34 Score=14.60 Aligned_cols=76 Identities=12% Similarity=0.150 Sum_probs=44.3
Q ss_pred HHHHHHHCCCCEEEEEEECCC-CCCCHHHHHHHHHHCCCCEEEECCHH----HHHHH----HHHCCCCCEEEECCCCH-H
Q ss_conf 999986289975999993286-65798999999998799899985599----99999----98389852673068974-6
Q gi|254780333|r 20 WHSMNALSGNARTAAVVKDNA-YGLGCEKIAPALYNAGVQDFFVTSVE----EGVKL----RLYTPQARIFVLYGIHP-G 89 (370)
Q Consensus 20 i~~i~~~~~~~~i~aVVKanA-YGhG~~~va~~l~~~Gv~~faVa~~~----EA~~l----R~~g~~~~Ilvl~~~~~-~ 89 (370)
++.+|+..++..+..+-=.|= |-.|.+.-++.+.++|+|++-+..+. |+.++ ++.+++ .|.+..|..+ +
T Consensus 81 ~~~ir~~~~~~pivlM~Y~N~i~~~G~e~F~~~~~~~GvdGlIipDLP~e~~E~~~~~~~~~~~~i~-~I~liaPtt~~~ 159 (264)
T PRK13138 81 TAEIHKLHPEIPLVYLTYFNPLFSMGLEAFTERAKNSGIQGLIIPDLPFDTPEAEEFFSQLERKKID-FIHLVTPATTED 159 (264)
T ss_pred HHHHCCCCCCCCEEEEEEHHHHHHHCHHHHHHHHHHCCCCEEECCCCCCCCHHHHHHHHHHHHCCCC-EEEECCCCCCHH
T ss_conf 7760335898888975212389884899999999876977585368986503359999999986998-675217999899
Q ss_pred HHHHHHH
Q ss_conf 9888875
Q gi|254780333|r 90 QEKIIFD 96 (370)
Q Consensus 90 ~~~~~~~ 96 (370)
.++.+.+
T Consensus 160 Ri~~i~~ 166 (264)
T PRK13138 160 RIQSMKS 166 (264)
T ss_pred HHHHHHH
T ss_conf 9999997
No 112
>TIGR01351 adk adenylate kinases; InterPro: IPR006259 Most members of this family are known or believed to be adenylate kinase. Adenylate kinase (ADK) 2.7.4.3 from EC converts ATP + AMP to ADP + ADP, that is, it uses ATP as a phosphate donor for AMP. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). However, some members accept other nucleotide triphosphates as donors, and may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (2.7.4.10 from EC) is Q9UIJ7 from SWISSPROT, a GTP:AMP phosphotransferase that has been identified in bovine heart and human cells and derived from mitrochondrail GTP AMP that is specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate .This family is designated subfamily rather than equivalog for this reason. ADK has also been identified in different bacterial species and in yeast . Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge. ; GO: 0005524 ATP binding, 0016776 phosphotransferase activity phosphate group as acceptor, 0019201 nucleotide kinase activity, 0006139 nucleobase nucleoside nucleotide and nucleic acid metabolic process.
Probab=32.91 E-value=11 Score=17.71 Aligned_cols=59 Identities=19% Similarity=0.240 Sum_probs=25.4
Q ss_pred EEEECCCCH--HHHHHHHHHHH-HCCCCCHHHHHHHHHHHHCCCCCCCEEEECC--CCCCCCCCHHHHH
Q ss_conf 673068974--69888875421-0134899899998888760887761676126--6676556988999
Q gi|254780333|r 80 IFVLYGIHP--GQEKIIFDTNL-IPVISSVPQLTFYSKLMSCGVSHPYALQVDT--GFNRLGLSLQEAL 143 (370)
Q Consensus 80 Ilvl~~~~~--~~~~~~~~~~i-~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDT--GM~R~G~~~~e~~ 143 (370)
+++|||+.. ......+...+ .+=|||=+-|. +..+.+. +.-.++.. =|.+-++=|+|..
T Consensus 2 ~~~lGpPGsGKGTQa~~i~~~~gl~HISTGDllR---~~~~~~T--~LG~~~k~y~y~~~G~LVPD~~v 65 (232)
T TIGR01351 2 LILLGPPGSGKGTQAKRIAEKLGLPHISTGDLLR---AAVKAGT--PLGKKAKEYNYMDKGELVPDEIV 65 (232)
T ss_pred EEEECCCCCCHHHHHHHHHHHCCCCCCCCHHHHH---HHHHHCC--HHHHHHHCCCCCCCCCCCCHHHH
T ss_conf 4675598987667999999860885020258999---9987079--77898732672003775778999
No 113
>cd02811 IDI-2_FMN Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal, FMN and NADPH. IDI-2 catalyzes the interconversion of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP) in the mevalonate pathway.
Probab=32.77 E-value=35 Score=14.58 Aligned_cols=112 Identities=18% Similarity=0.216 Sum_probs=51.1
Q ss_pred HHHHHHHHCCCCEEEECCHHHHHH----------HHHHCCCCCEEE-EC-----CCCHHHHHHHHH---HH-HHCCCCC-
Q ss_conf 999999987998999855999999----------998389852673-06-----897469888875---42-1013489-
Q gi|254780333|r 47 KIAPALYNAGVQDFFVTSVEEGVK----------LRLYTPQARIFV-LY-----GIHPGQEKIIFD---TN-LIPVISS- 105 (370)
Q Consensus 47 ~va~~l~~~Gv~~faVa~~~EA~~----------lR~~g~~~~Ilv-l~-----~~~~~~~~~~~~---~~-i~~~i~s- 105 (370)
..|+...+.|+- ++|.|..-+++ +|+..++.+++. ++ ....+....+++ .+ +..-++.
T Consensus 73 ~LA~aA~~~gi~-m~vGSq~~al~~~~~~~sf~vvR~~~p~~~l~aNiga~~l~~~~~~~~~~ai~~l~AdaL~iHlN~~ 151 (326)
T cd02811 73 NLAEAAEELGIA-MGVGSQRAALEDPELAESFTVVREAPPNGPLIANLGAVQLNGYGVEEARRAVEMIEADALAIHLNPL 151 (326)
T ss_pred HHHHHHHHCCCC-EEECCHHHHHCCCCHHHHHHHHHHHCCCCEEEEECCCHHHCCCCHHHHHHHHHHCCCCEEEEECCHH
T ss_conf 999999981997-7834228875392166567899875887627863580330456899999999855788578644606
Q ss_pred -----------H-HHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHH-HCCCCC
Q ss_conf -----------9-899998888760887761676126667655698899999988886310001243-201243
Q gi|254780333|r 106 -----------V-PQLTFYSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLI-ISHLAC 166 (370)
Q Consensus 106 -----------~-~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~~~~i~gi-~THfa~ 166 (370)
. .+++.++++.+ ..+.||.+| .+| .|++++++..+.+.- -..+.+.|- -|.|+.
T Consensus 152 QE~~~peGDr~f~~~~~~I~~l~~-~~~vPVIvK-eVG---~Gis~eda~~l~~~G--v~~IdVSghGGTnf~~ 218 (326)
T cd02811 152 QEAVQPEGDRDFRGWLERIEELVK-ALSVPVIVK-EVG---FGISRETAKRLADAG--VKAIDVAGAGGTSWAR 218 (326)
T ss_pred HHCCCCCCCCCHHHHHHHHHHHHH-HCCCCEEEE-ECC---CCCCHHHHHHHHHCC--CCEEEECCCCCCCHHH
T ss_conf 540078989877789999999998-479985885-247---899999999999679--9999978999975366
No 114
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=32.63 E-value=35 Score=14.56 Aligned_cols=30 Identities=33% Similarity=0.502 Sum_probs=20.5
Q ss_pred CCCCEEEECCEEEEEEEECCCCCEEEECCCCCCCCCCCEEEEE-CC
Q ss_conf 3288699999995077004256479966887787888789997-88
Q gi|254780333|r 295 FLGGKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIF-GP 339 (370)
Q Consensus 295 ~~~~~vli~G~~~pivGrv~MD~~~vdvt~~~~~~~GD~V~l~-G~ 339 (370)
..+|.|.|||+++ + ...++++||.++|. |.
T Consensus 31 ~~~GrV~vNG~~a----K-----------pS~~VK~GD~l~i~~~~ 61 (100)
T COG1188 31 IEGGRVKVNGQRA----K-----------PSKEVKVGDILTIRFGN 61 (100)
T ss_pred HHCCEEEECCEEC----C-----------CCCCCCCCCEEEEEECC
T ss_conf 8779698999675----6-----------55614779899999578
No 115
>TIGR02669 SpoIID_LytB SpoIID/LytB domain; InterPro: IPR013486 This entry describes a region which is found, typically in two or three proteins per genome, in Cyanobacteria and Firmicutes, and sporadically in other genomes. One example is SpoIID from Bacillus subtilis. Another, also from B. subtilis, is LytB which contains this region at the C-terminus. LytB is encoded immediately upstream of an amidase, the autolysin LytC, and both these proteins show considerable homology in their N-terminal regions. Genes encoding proteins in this entry do not occur in conserved neighbourhoods, and many, such as SpoIID are monocistronic. One modeling study has suggested that SpoIID may bind DNA, but the function of these proteins is so far unknown.; GO: 0030435 sporulation.
Probab=32.62 E-value=18 Score=16.43 Aligned_cols=43 Identities=19% Similarity=0.330 Sum_probs=21.4
Q ss_pred CCEEEEEEEECCCCCEEEECCCCCCCCCCCEEEEECC----CC-----CHHHHHHHH
Q ss_conf 9999507700425647996688778788878999788----88-----998999981
Q gi|254780333|r 303 KGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGP----DI-----KLDDVALAS 350 (370)
Q Consensus 303 ~G~~~pivGrv~MD~~~vdvt~~~~~~~GD~V~l~G~----~i-----~~~~~A~~~ 350 (370)
..+--..+|+..+.....++ ...++..++.|. .+ -+..+|+.-
T Consensus 254 ~~~~r~~~~~L~~~~~~~~~-----~~~~~~~~~~G~G~GHGVGmSQwGA~~lA~~G 305 (323)
T TIGR02669 254 GRKFRELLGTLFLNSTQFSV-----KSRGNAILVTGKGYGHGVGMSQWGANGLAKEG 305 (323)
T ss_pred HHHHHHHHHHCCCCCCCCCC-----CCCCCEEEEEEECCCCCCCHHHHHHHHHHHCC
T ss_conf 23553212110122213310-----01574799985113355420178899999708
No 116
>TIGR01700 PNPH purine nucleoside phosphorylase I, inosine and guanosine-specific; InterPro: IPR011270 This entry represents a family of bacterial and metazoan purine phosphorylases acting primarily on inosine and guanosine and not acting on adenosine. PNP-I refers to the nomenclature from Bacillus stearothermophilus where PHP-II refers to the nucleotidase acting on adenosine as the primary substrate. The bacterial enzymes (PUNA) are typified by the Bacillus PupG protein which is involved in the metabolism of nucleosides as a carbon source. Several metazoan enzymes (PNPH) are well characterised including the human and bovine enzymes which have been crystallised. ; GO: 0004731 purine-nucleoside phosphorylase activity, 0006139 nucleobase nucleoside nucleotide and nucleic acid metabolic process.
Probab=32.58 E-value=26 Score=15.34 Aligned_cols=36 Identities=14% Similarity=0.087 Sum_probs=18.7
Q ss_pred HHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCCC
Q ss_conf 99998799899985599999999838985267306897
Q gi|254780333|r 50 PALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGIH 87 (370)
Q Consensus 50 ~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~~ 87 (370)
+.+.+.|+|.+|-+|..|-+.-|+.|++ +|.++-+.
T Consensus 183 r~~~~~GaDAvGMSTVPEVIVArHcGlr--V~GfS~IT 218 (259)
T TIGR01700 183 RLFRTLGADAVGMSTVPEVIVARHCGLR--VLGFSLIT 218 (259)
T ss_pred HHHHHHCCCEECCCCCCHHHHHCCCCCE--EEEEEEEE
T ss_conf 7676525544216666133431128967--98888550
No 117
>PTZ00328 eukaryotic initiation factor 5a; Provisional
Probab=32.52 E-value=35 Score=14.55 Aligned_cols=102 Identities=12% Similarity=0.136 Sum_probs=50.2
Q ss_pred CCCCHHCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCC
Q ss_conf 16411004773222020487353067877675567641001236886326714898346656534677641797123300
Q gi|254780333|r 197 ASSSGILLGPNYHFQLTRPGISLYGGTDKINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYA 276 (370)
Q Consensus 197 ~nS~~~l~~p~~~~d~vR~Gi~lYG~~~~~~~~~~l~pv~~l~s~i~~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYa 276 (370)
+.|++...+|- ++..+|-|-.+- +.-+| .+|+.+-.=+.|.. |+ .++-+++++-.
T Consensus 13 ~~agAS~T~P~-q~~~lrkgg~vv---------ikgrP-----CkVv~~stSKtGKH-Gh---------AK~~lvgiDIF 67 (166)
T PTZ00328 13 GGDNASKTYPL-PAGALKKGGYVC---------INGRP-----CKVIDLSVSKTGKH-GH---------AKVSIVATDIF 67 (166)
T ss_pred CCCCCCCEEEE-ECCCEEECCEEE---------ECCCC-----EEEEEEEECCCCCC-CC---------CEEEEEEEECC
T ss_conf 77777632546-866133889999---------88854-----18999884679866-63---------04678988614
Q ss_pred CCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEEEECCCCCEEEECCCCCCCCCCCEEEEECC
Q ss_conf 260102368543344432328869999999507700425647996688778788878999788
Q gi|254780333|r 277 DGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGP 339 (370)
Q Consensus 277 DG~pr~ls~~~~~~~~~~~~~~~vli~G~~~pivGrv~MD~~~vdvt~~~~~~~GD~V~l~G~ 339 (370)
+|=-+.... | .-+....|+|-| ++..++|+.+..+...--.+.|+.+
T Consensus 68 tgkk~ed~~------P--------s~hn~~vP~V~r--~~yqli~I~dd~d~~~~G~lsLm~e 114 (166)
T PTZ00328 68 TGNRLEDQA------P--------STHNVEVPFVKT--FTYSVLDIQPNEDPSLPAHLSLMDD 114 (166)
T ss_pred CCCEEEEEE------E--------CCCCCCCCEEEC--CEEEEEEECCCCCCCCCCEEEEECC
T ss_conf 686667886------0--------578622567880--2879986315666555415999968
No 118
>PRK09140 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed
Probab=32.18 E-value=35 Score=14.51 Aligned_cols=167 Identities=10% Similarity=0.081 Sum_probs=84.4
Q ss_pred HHHHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEEC-CHHHHH----HHHHHCCCCCEEE-ECC-CCHHHHHHHH
Q ss_conf 98628997599999328665798999999998799899985-599999----9998389852673-068-9746988887
Q gi|254780333|r 23 MNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVT-SVEEGV----KLRLYTPQARIFV-LYG-IHPGQEKIIF 95 (370)
Q Consensus 23 i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa-~~~EA~----~lR~~g~~~~Ilv-l~~-~~~~~~~~~~ 95 (370)
++.+. +..++||+.++-+-. ..++++.+.+.|++.+=|+ +..+|. +||+...+ .+++ -+. +.+++...++
T Consensus 4 ~~~~~-~~plvaIlR~~~~~~-a~~~~~al~~~Gi~~iEVTl~tp~a~~~I~~l~~~~~~-~~~iGAGTVlt~e~~~~ai 80 (206)
T PRK09140 4 MQPFT-KLPLIAILRGITPDE-ALAHVGALIEAGFRAIEIPLNSPDPFDSIAALVKALGD-DALIGAGTVLSPEQVDRLA 80 (206)
T ss_pred HHHHH-HCCEEEEEECCCHHH-HHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHCCC-CEEEEEEECCCHHHHHHHH
T ss_conf 89998-599799995899999-99999999986998899917997699999999996798-6599862046799999999
Q ss_pred HHHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHCCCCCCCCCCCHHH
Q ss_conf 54210134899899998888760887761676126667655698899999988886310001243201243333466788
Q gi|254780333|r 96 DTNLIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLIISHLACADDPSSHVN 175 (370)
Q Consensus 96 ~~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~~~~i~gi~THfa~ad~~~~~~~ 175 (370)
+.+....++=.-..+.++...+.+.. + + =-.+++.|.....+.-. ..++ =|+. +.....
T Consensus 81 ~aGA~FiVSP~~~~~vi~~a~~~~i~--~-i-------PG~~TPsEi~~A~~~Ga--~~vK------lFPA-~~~Gp~-- 139 (206)
T PRK09140 81 DAGGRLIVTPNIDPEVIRRAVAYGMT--V-M-------PGVATPTEAFAALRAGA--DALK------LFPA-SQLGPA-- 139 (206)
T ss_pred HCCCCEEECCCCCHHHHHHHHHCCCC--C-C-------CCCCCHHHHHHHHHCCC--CEEE------ECCH-HCCCHH--
T ss_conf 85999999999989999999982996--5-2-------78599999999998598--7156------5751-105999--
Q ss_pred HHHHHHHHHHHHHHCCCCHHHCCCCHHCCCCCCCCHHHCCCCCCCC
Q ss_conf 9999999999754348860111641100477322202048735306
Q gi|254780333|r 176 SVQLERFRTLISHYKGIEASLASSSGILLGPNYHFQLTRPGISLYG 221 (370)
Q Consensus 176 ~~Q~~~F~~~~~~~~~~~~h~~nS~~~l~~p~~~~d~vR~Gi~lYG 221 (370)
-++.+..-++ -...+.-|+|+-. +.--+|...|..-.|
T Consensus 140 -----~ikal~~p~P-~~~~~~ptGGV~~--~N~~~~l~aGa~avG 177 (206)
T PRK09140 140 -----GIKALRAVLP-PDVPVFAVGGVTP--ENLAPYLAAGAAGFG 177 (206)
T ss_pred -----HHHHHHCCCC-CCCEEEECCCCCH--HHHHHHHHCCCCEEE
T ss_conf -----9999864389-9998995379888--889999986991999
No 119
>TIGR02832 spo_yunB sporulation protein YunB; InterPro: IPR014197 This entry represents the sporulation protein YunB. In Bacillus subtilis its expression is controlled by sigmaE.The gene yunB seems to code for a protein involved, at least indirectly, in the pathway leading to the activation of sigmaK. Inactivation of yunB delays sigmaK activation and results in reduced sporulation efficiency ..
Probab=30.19 E-value=28 Score=15.18 Aligned_cols=41 Identities=20% Similarity=0.213 Sum_probs=30.0
Q ss_pred EEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCEECCCCC
Q ss_conf 326714898346656534677641797123300260102368
Q gi|254780333|r 244 LIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSG 285 (370)
Q Consensus 244 ~ir~l~~G~~VgYg~~~~~~~~~~iavipiGYaDG~pr~ls~ 285 (370)
.++.+.+++.=|||.+..-+++...+.+|+||.=|-. -|||
T Consensus 101 ~ln~l~~~e~N~~g~sPeG~~~G~~~~iPLG~~~~n~-lL~n 141 (220)
T TIGR02832 101 KLNELGEEELNSIGASPEGKKEGVGVKIPLGQVTGNS-LLSN 141 (220)
T ss_pred HHHHCCCCCCCCCCCCCCCCCCCEEEEEECCHHHHHH-HHHH
T ss_conf 8852035577752337886427658997100354244-5542
No 120
>pfam00278 Orn_DAP_Arg_deC Pyridoxal-dependent decarboxylase, C-terminal sheet domain. These pyridoxal-dependent decarboxylases act on ornithine, lysine, arginine and related substrates.
Probab=30.18 E-value=38 Score=14.30 Aligned_cols=36 Identities=22% Similarity=0.326 Sum_probs=25.1
Q ss_pred CEEEEEEEECCC--CCEEEECCCCC-CCCCCCEEEEECCC
Q ss_conf 999507700425--64799668877-87888789997888
Q gi|254780333|r 304 GYMVPILGKITM--DMTMFDITDSL-SIEVGDYIQIFGPD 340 (370)
Q Consensus 304 G~~~pivGrv~M--D~~~vdvt~~~-~~~~GD~V~l~G~~ 340 (370)
-..+-|.|..|. |.+.-|+. .| ++++||.+.+..-.
T Consensus 51 ~~~~~i~Gp~C~s~D~l~~~~~-lP~~l~~GD~l~~~~~G 89 (110)
T pfam00278 51 LRPYTLAGPTCDSGDVLARDVS-LPLELEVGDWLVFFDAG 89 (110)
T ss_pred CEEEEEECCCCCCCCEEEECCC-CCCCCCCCCEEEECCCC
T ss_conf 3579997415676879822330-77233789999988886
No 121
>TIGR02660 nifV_homocitr homocitrate synthase; InterPro: IPR013477 Most NifV-type homocitrate synthases are encoded within operons for nitrogen fixation. They are homologous to enzymes that include 2-isopropylmalate synthase, (R)-citramalate synthase, and homocitrate synthases associated with other processes. The homocitrate made by these enzymes becomes a part of the iron-molybdenum cofactor of nitrogenase.; GO: 0004410 homocitrate synthase activity, 0051188 cofactor biosynthetic process.
Probab=29.71 E-value=39 Score=14.25 Aligned_cols=156 Identities=19% Similarity=0.166 Sum_probs=81.7
Q ss_pred HHHHHHHHHCCCCEEEECC--H--HH---HHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHCC---CCCHH-HHHHHHH
Q ss_conf 9999999987998999855--9--99---99999838985267306897469888875421013---48998-9999888
Q gi|254780333|r 46 EKIAPALYNAGVQDFFVTS--V--EE---GVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPV---ISSVP-QLTFYSK 114 (370)
Q Consensus 46 ~~va~~l~~~Gv~~faVa~--~--~E---A~~lR~~g~~~~Ilvl~~~~~~~~~~~~~~~i~~~---i~s~~-~l~~l~~ 114 (370)
..||++|.++||+-+=|.. + +| -.++++.+.+..++.|+=....|++...+.++..+ |+.-+ +++ .|
T Consensus 26 ~aIA~aLd~aGV~ElEvGiPAMG~~E~~~iraI~~~~l~a~l~~WcR~~~~Di~aa~~~G~~~V~iS~PvSd~~~~--~K 103 (369)
T TIGR02660 26 LAIARALDEAGVDELEVGIPAMGEEERAVIRAIVALGLKARLMAWCRARDADIEAAARCGVDAVDISIPVSDLQIE--AK 103 (369)
T ss_pred HHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHCCCCCEEEHHHHCCHHHHHHHHHHHHHEEECCCCHHHHHHH--HH
T ss_conf 9999999980962476157768788999999999628993031100104799999987205203100277799999--97
Q ss_pred HHHC-------CCCCCCEEEECCCCC-CCCCC-----HHHH-HHHHHHHHHHHCCCHHHHHCCCCCCCCCC--CHHHHHH
Q ss_conf 8760-------887761676126667-65569-----8899-99998888631000124320124333346--6788999
Q gi|254780333|r 115 LMSC-------GVSHPYALQVDTGFN-RLGLS-----LQEA-LDFTHNSFNKKLGQLSLIISHLACADDPS--SHVNSVQ 178 (370)
Q Consensus 115 ~~~~-------~~~~~vhlkiDTGM~-R~G~~-----~~e~-~~~~~~~~~~~~~~i~gi~THfa~ad~~~--~~~~~~Q 178 (370)
+.+. ....-|..--|-||- =.|+. -.++ .++..-..+.+-.++ =.||... +||+-
T Consensus 104 L~~~Cr~w~~~~~~~~V~~A~~~Gl~VsVG~EDASRAd~~FL~~~~~~A~~aGA~Rf-------RfADTvG~LDPF~~-- 174 (369)
T TIGR02660 104 LRKDCRAWVLERLARLVSFARDRGLEVSVGGEDASRADPEFLVELAEVAQEAGADRF-------RFADTVGILDPFST-- 174 (369)
T ss_pred HCCCHHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCHHHHHHHHHHHHHCCCCCC-------CHHHHCCCCCHHHH--
T ss_conf 488578999999999999987644203105625545888899999999987063110-------14312022572789--
Q ss_pred HHHHHHHHHHHC-CCCHHH--------CCCCHHCCCCCCCCHH
Q ss_conf 999999975434-886011--------1641100477322202
Q gi|254780333|r 179 LERFRTLISHYK-GIEASL--------ASSSGILLGPNYHFQL 212 (370)
Q Consensus 179 ~~~F~~~~~~~~-~~~~h~--------~nS~~~l~~p~~~~d~ 212 (370)
++++..+..... +++.|. |||-+.++---.+-+-
T Consensus 175 ~~~~~~Lr~~~~l~lE~HaHnDlGmATANtLAAv~AGA~~vnt 217 (369)
T TIGR02660 175 YELVRALRQAVDLPLEFHAHNDLGMATANTLAAVRAGATHVNT 217 (369)
T ss_pred HHHHHHHHHCCCCCEEEEEECCHHHHHHHHHHHHHHCCEEEEE
T ss_conf 9999998721799625850476347999999988608577633
No 122
>TIGR01461 greB transcription elongation factor GreB; InterPro: IPR006358 Bacterial GreA IPR006359 from INTERPRO and GreB promote transcription elongation by stimulating an endogenous, endonucleolytic transcript cleavage activity of the RNA polymerase, allowing RNA transcription to continue past template-encoded arresting sites. GreA and GreB are sequence homologues and have homologues in every known bacterial genome. GreA and GreB stimulate transcript cleavage in different ways; GreA induces cleavage of 3'-RNA fragments 23 nt in length and can only prevent the formation of arrested complexes, whereas GreB induces cleavage of fragments up to 18 nt in length and can rescue preexisting arrested complexes . A 15 Å resolution helical reconstruction of the Escherichia coli core RNA polymerase (RNAP)/GreB complex that allows fitting of high-resolution RNAP and GreB structures. The model of the complex reveals a remarkable binding mode for GreB; the globular C-terminal domain binds RNAP at the edge of the active site channel, while the N-terminal coiled-coil domain extends 45 Å into a channel directly to the RNAP active site. The results point to a key role for conserved acidic residues at the tip of the Gre factor coiled coil in modifying the RNAP active site to catalyse the transcript cleavage reaction, and mutational studies confirm that these positions are critical for Gre factor function. Functional differences between GreA and GreB correlate with the distribution of positively charged residues on one face of the N-terminal coiled coil.; GO: 0003677 DNA binding, 0003711 transcription elongation regulator activity, 0006355 regulation of transcription DNA-dependent.
Probab=28.97 E-value=31 Score=14.94 Aligned_cols=36 Identities=22% Similarity=0.221 Sum_probs=18.4
Q ss_pred CEEEEEEEECC----CCCEEEECC---CCCCCCCCCEEEEECC
Q ss_conf 99950770042----564799668---8778788878999788
Q gi|254780333|r 304 GYMVPILGKIT----MDMTMFDIT---DSLSIEVGDYIQIFGP 339 (370)
Q Consensus 304 G~~~pivGrv~----MD~~~vdvt---~~~~~~~GD~V~l~G~ 339 (370)
-++++|||-=- -|++-+|=| -....++||+|++=-+
T Consensus 100 ~~r~rIVG~DEid~r~n~ISidSPlARaL~kke~gdevvvnTP 142 (157)
T TIGR01461 100 EQRYRIVGIDEIDTRKNKISIDSPLARALIKKEVGDEVVVNTP 142 (157)
T ss_pred CCCEEEEECCCCCCCCCCEEEECHHHHHHHCCCCCCEEEEECC
T ss_conf 2026886055212357720142667888630125877787578
No 123
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family; InterPro: IPR006266 This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic. ; GO: 0005524 ATP binding, 0016776 phosphotransferase activity phosphate group as acceptor, 0019201 nucleotide kinase activity, 0006139 nucleobase nucleoside nucleotide and nucleic acid metabolic process.
Probab=28.89 E-value=30 Score=15.00 Aligned_cols=17 Identities=18% Similarity=0.092 Sum_probs=9.3
Q ss_pred HHHHHHHHCCCCEEEEC
Q ss_conf 99999998799899985
Q gi|254780333|r 47 KIAPALYNAGVQDFFVT 63 (370)
Q Consensus 47 ~va~~l~~~Gv~~faVa 63 (370)
+|++...+.+..++--.
T Consensus 15 QCa~Iv~~f~~~HLSAG 31 (189)
T TIGR01359 15 QCAKIVENFGYVHLSAG 31 (189)
T ss_pred HHHHHHHHCCCEEECHH
T ss_conf 89999985394688074
No 124
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=28.59 E-value=41 Score=14.13 Aligned_cols=79 Identities=20% Similarity=0.237 Sum_probs=42.4
Q ss_pred HHHHHHHHHC---CCCEEEEEEECCC-CCCCHHHHHHHHHHCCCCEEEECC--HHHHHHHH----HHCCCCCEEEECCCC
Q ss_conf 9999998628---9975999993286-657989999999987998999855--99999999----838985267306897
Q gi|254780333|r 18 NNWHSMNALS---GNARTAAVVKDNA-YGLGCEKIAPALYNAGVQDFFVTS--VEEGVKLR----LYTPQARIFVLYGIH 87 (370)
Q Consensus 18 ~Ni~~i~~~~---~~~~i~aVVKanA-YGhG~~~va~~l~~~Gv~~faVa~--~~EA~~lR----~~g~~~~Ilvl~~~~ 87 (370)
++++.+++.. .+..+..+.=.|= |--|.+.-.+.+.+.|+|++-|.. ++|+..++ +.|++ +|++-.|..
T Consensus 80 ~~lel~~~~r~~~~~~Pivlm~Y~Npi~~~Gie~F~~~~~~~GvdGlivpDLP~ee~~~~~~~~~~~gi~-~I~lvaPtt 158 (265)
T COG0159 80 DTLELVEEIRAKGVKVPIVLMTYYNPIFNYGIEKFLRRAKEAGVDGLLVPDLPPEESDELLKAAEKHGID-PIFLVAPTT 158 (265)
T ss_pred HHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHCCCC-EEEEECCCC
T ss_conf 9999999998618999889987011887735999999999759987985789866777899999976986-798869999
Q ss_pred H-HHHHHHHHH
Q ss_conf 4-698888754
Q gi|254780333|r 88 P-GQEKIIFDT 97 (370)
Q Consensus 88 ~-~~~~~~~~~ 97 (370)
+ +.++.+.++
T Consensus 159 ~~~rl~~i~~~ 169 (265)
T COG0159 159 PDERLKKIAEA 169 (265)
T ss_pred CHHHHHHHHHH
T ss_conf 98999999974
No 125
>pfam04246 RseC_MucC Positive regulator of sigma(E), RseC/MucC. This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions). In Pseudomonas aeruginosa, de-repression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonisation in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains an ApbE domain pfam02424, w
Probab=28.49 E-value=41 Score=14.11 Aligned_cols=23 Identities=26% Similarity=0.543 Sum_probs=15.6
Q ss_pred EEEECCCCCCCCCCCEEEEECCC
Q ss_conf 79966887787888789997888
Q gi|254780333|r 318 TMFDITDSLSIEVGDYIQIFGPD 340 (370)
Q Consensus 318 ~~vdvt~~~~~~~GD~V~l~G~~ 340 (370)
..+++.+..++++||+|++=-++
T Consensus 42 ~~~~~~~~~~~~vGD~V~v~i~e 64 (135)
T pfam04246 42 ITFRVPNDLGAKVGDRVELGLPE 64 (135)
T ss_pred EEEEECCCCCCCCCCEEEEEECC
T ss_conf 79994588889999999997533
No 126
>PRK13127 consensus
Probab=28.28 E-value=41 Score=14.09 Aligned_cols=81 Identities=21% Similarity=0.231 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHHHCCCCEEEEEEECCC-CCCCHHHHHHHHHHCCCCEEEECC--HHHHHHHHH----HCCCCCEEEECCC
Q ss_conf 899999999986289975999993286-657989999999987998999855--999999998----3898526730689
Q gi|254780333|r 14 TALKNNWHSMNALSGNARTAAVVKDNA-YGLGCEKIAPALYNAGVQDFFVTS--VEEGVKLRL----YTPQARIFVLYGI 86 (370)
Q Consensus 14 ~al~~Ni~~i~~~~~~~~i~aVVKanA-YGhG~~~va~~l~~~Gv~~faVa~--~~EA~~lR~----~g~~~~Ilvl~~~ 86 (370)
+.+-.=++.+|+. ++..+..+.=.|= |-.|.+.-++.+.++|++++=+.. .+|+..+++ .|+. .|.+..|.
T Consensus 73 ~~~~~~~~~~r~~-~~~pivlM~Y~N~i~~~G~e~F~~~~~~~GvdGlIipDLP~eE~~~~~~~~~~~gi~-~I~lvaPt 150 (262)
T PRK13127 73 DKYFELVKELRVD-SSVPLVLMTYYNPVYRYGVEKFVKKAAEAGVSGLIIPDLPVEEATDLREACKKHGLD-LVFLVAPT 150 (262)
T ss_pred HHHHHHHHHHHCC-CCCCEEEEECCHHHHHCCHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHCCCE-EEEEECCC
T ss_conf 9999999997456-998879996613887608999999998759976996699978999999999855832-79985899
Q ss_pred CH-HHHHHHHH
Q ss_conf 74-69888875
Q gi|254780333|r 87 HP-GQEKIIFD 96 (370)
Q Consensus 87 ~~-~~~~~~~~ 96 (370)
.+ +.++.+.+
T Consensus 151 t~~~Ri~~i~~ 161 (262)
T PRK13127 151 TPEERLKRIDE 161 (262)
T ss_pred CCHHHHHHHHH
T ss_conf 98999999984
No 127
>TIGR01182 eda 2-dehydro-3-deoxyphosphogluconate aldolase/4-hydroxy-2-oxoglutarate aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4.1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related . They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process.
Probab=28.24 E-value=41 Score=14.09 Aligned_cols=78 Identities=22% Similarity=0.261 Sum_probs=51.2
Q ss_pred HHCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEEC----CHHHHHH-HHHHCCCCCEEEECCC--CHHHHHHHHHH
Q ss_conf 628997599999328665798999999998799899985----5999999-9983898526730689--74698888754
Q gi|254780333|r 25 ALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVT----SVEEGVK-LRLYTPQARIFVLYGI--HPGQEKIIFDT 97 (370)
Q Consensus 25 ~~~~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa----~~~EA~~-lR~~g~~~~Ilvl~~~--~~~~~~~~~~~ 97 (370)
++....+++|||-.|--=| +.++|++|.+.|+..+=|. ...||++ ||+.-++ .++|=.++ .++++.++.+.
T Consensus 3 ~~L~~~~ivPVi~~~~~~~-A~~lA~aL~egG~~~~EvTlRT~~A~~aI~~l~~~~P~-~~~iGAGTVL~~~Q~~~A~~A 80 (205)
T TIGR01182 3 ELLREAKIVPVIRIDDVED-ALPLAKALIEGGLRVLEVTLRTPVALEAIRALRKEVPK-DALIGAGTVLNPEQLRQAVAA 80 (205)
T ss_pred HHHHHCCEEEEEEECCHHH-HHHHHHHHHHCCCEEEEEEECCCCHHHHHHHHHHHCCC-CCEECCCCCCCHHHHHHHHHC
T ss_conf 3355668017887267877-78999999867980898851472168999999972823-348716764898999999970
Q ss_pred HHHCCCC
Q ss_conf 2101348
Q gi|254780333|r 98 NLIPVIS 104 (370)
Q Consensus 98 ~i~~~i~ 104 (370)
+-..+|+
T Consensus 81 GA~F~vS 87 (205)
T TIGR01182 81 GAQFIVS 87 (205)
T ss_pred CCCEEEC
T ss_conf 8957876
No 128
>KOG0306 consensus
Probab=27.85 E-value=38 Score=14.32 Aligned_cols=22 Identities=27% Similarity=0.579 Sum_probs=10.6
Q ss_pred EECCEEEEEEEECCCCCEEEEC
Q ss_conf 9999995077004256479966
Q gi|254780333|r 301 FIKGYMVPILGKITMDMTMFDI 322 (370)
Q Consensus 301 li~G~~~pivGrv~MD~~~vdv 322 (370)
++.|-+|=++|+=+=..-++|+
T Consensus 420 Fvpgd~~Iv~G~k~Gel~vfdl 441 (888)
T KOG0306 420 FVPGDRYIVLGTKNGELQVFDL 441 (888)
T ss_pred ECCCCCEEEEECCCCCEEEEEE
T ss_conf 3379806999603771689983
No 129
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=27.45 E-value=43 Score=14.00 Aligned_cols=15 Identities=27% Similarity=0.408 Sum_probs=9.4
Q ss_pred EECCCCCCCEECCCC
Q ss_conf 712330026010236
Q gi|254780333|r 270 VAAIGYADGYPLTLS 284 (370)
Q Consensus 270 vipiGYaDG~pr~ls 284 (370)
+-++|+|=|+-|-+.
T Consensus 307 ~pavGFaiGveRl~~ 321 (429)
T COG0124 307 TPAVGFAIGVERLIL 321 (429)
T ss_pred CCCEEEEHHHHHHHH
T ss_conf 871367517999999
No 130
>PRK13534 7-cyano-7-deazaguanine tRNA-ribosyltransferase; Provisional
Probab=27.31 E-value=43 Score=13.98 Aligned_cols=91 Identities=12% Similarity=0.080 Sum_probs=52.3
Q ss_pred CCCEEEEECCCCCCCEECCCCCCCCCCCCCCCCCCEEEECCEEEEEE--EECCCCCEEEECCCCCCCCCCCEEEEECCC-
Q ss_conf 76417971233002601023685433444323288699999995077--004256479966887787888789997888-
Q gi|254780333|r 264 RDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGYMVPIL--GKITMDMTMFDITDSLSIEVGDYIQIFGPD- 340 (370)
Q Consensus 264 ~~~~iavipiGYaDG~pr~ls~~~~~~~~~~~~~~~vli~G~~~piv--Grv~MD~~~vdvt~~~~~~~GD~V~l~G~~- 340 (370)
...++|++-..|+= +.-.+-+-..-|...-+.+-.|.|+.--.|.+ ||--|--.++|. ++++.+||+|.+.+++
T Consensus 522 ~g~~las~r~~dG~-lsLt~~GA~rL~~~~~~P~~RVvV~~e~~pFv~kGksVfa~fV~~a--D~~IRpgdEVlVVne~~ 598 (630)
T PRK13534 522 KGEVLATMRANDGF-LTLGIEGAKRLHEKLPFPKMRVVVDKESEEFARKGKSVFAKFVIDC--DPNIRPYDEVLVVNEDD 598 (630)
T ss_pred CCEEEEEEECCCCE-EECCHHHHHHHHHCCCCCCEEEEECCCCHHHHHCCCEECCCCCCCC--CCCCCCCCEEEEECCCC
T ss_conf 98389998568980-5314879999973488884299985762423206677767720268--99988998689987898
Q ss_pred ---------CCHHHHHHHHCCCCEEE
Q ss_conf ---------89989999817946042
Q gi|254780333|r 341 ---------IKLDDVALASGTTNYDL 357 (370)
Q Consensus 341 ---------i~~~~~A~~~gti~yEi 357 (370)
.+..|+.....-+.-++
T Consensus 599 ~lla~G~a~~sg~Em~~~~~GiAVkV 624 (630)
T PRK13534 599 ELLAYGKALLSGRELMEFQYGVAVKV 624 (630)
T ss_pred CEEEEEECCCCHHHHHHCCCCEEEEE
T ss_conf 08999615468999975048669995
No 131
>PRK13305 sgbH 3-keto-L-gulonate-6-phosphate decarboxylase; Provisional
Probab=27.22 E-value=43 Score=13.97 Aligned_cols=25 Identities=24% Similarity=0.388 Sum_probs=11.0
Q ss_pred CEEEEEEHHHHHHHHHHHHHHCCCC
Q ss_conf 5099986889999999998628997
Q gi|254780333|r 6 FLRLKIDLTALKNNWHSMNALSGNA 30 (370)
Q Consensus 6 ~~~leIdl~al~~Ni~~i~~~~~~~ 30 (370)
++|+=+|+..|..=++..++..+..
T Consensus 5 ~LQvALD~~~l~~A~~~a~~v~~~v 29 (220)
T PRK13305 5 LLQLALDHTSLEAAQRDVALLQDHV 29 (220)
T ss_pred CEEEEECCCCHHHHHHHHHHHHCCC
T ss_conf 1476556799999999999830468
No 132
>KOG3271 consensus
Probab=26.78 E-value=40 Score=14.19 Aligned_cols=14 Identities=36% Similarity=0.458 Sum_probs=5.4
Q ss_pred CCEEEECCEEEEEE
Q ss_conf 88699999995077
Q gi|254780333|r 297 GGKGFIKGYMVPIL 310 (370)
Q Consensus 297 ~~~vli~G~~~piv 310 (370)
+|+|.|+|+.|.||
T Consensus 29 NG~vviK~rpckiv 42 (156)
T KOG3271 29 NGHVVIKGRPCKIV 42 (156)
T ss_pred CCEEEECCCCCEEE
T ss_conf 78899738873699
No 133
>KOG0048 consensus
Probab=26.42 E-value=44 Score=13.88 Aligned_cols=90 Identities=14% Similarity=-0.009 Sum_probs=52.3
Q ss_pred CCCEEEECCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCC--CCEEEECCCCCCCCCCHHHHHHHHHHHHHHHC
Q ss_conf 8526730689746988887542101348998999988887608877--61676126667655698899999988886310
Q gi|254780333|r 77 QARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSH--PYALQVDTGFNRLGLSLQEALDFTHNSFNKKL 154 (370)
Q Consensus 77 ~~~Ilvl~~~~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~~~~~--~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~~ 154 (370)
+.+.++-+++.++|...++++=-...-.....+.....+..+|+.. ..+=.++-+..|-.|..+|...+++.-... +
T Consensus 3 kk~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~-G 81 (238)
T KOG0048 3 RNPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALL-G 81 (238)
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHH-C
T ss_conf 766677899977899999999998589887772765598866428999988638954357989889999999999997-5
Q ss_pred CCHHHHHCCCCCC
Q ss_conf 0012432012433
Q gi|254780333|r 155 GQLSLIISHLACA 167 (370)
Q Consensus 155 ~~i~gi~THfa~a 167 (370)
-+-.-|..||+.-
T Consensus 82 NrWs~IA~~LPGR 94 (238)
T KOG0048 82 NRWSLIAGRLPGR 94 (238)
T ss_pred CHHHHHHHHCCCC
T ss_conf 1899998767885
No 134
>PRK13114 consensus
Probab=26.15 E-value=45 Score=13.85 Aligned_cols=83 Identities=12% Similarity=0.027 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHHHCCCCEEEEEEECCC-CCCCHHHHHHHHHHCCCCEEEEC--CHHHHHHHH----HHCCCCCEEEECCC
Q ss_conf 899999999986289975999993286-65798999999998799899985--599999999----83898526730689
Q gi|254780333|r 14 TALKNNWHSMNALSGNARTAAVVKDNA-YGLGCEKIAPALYNAGVQDFFVT--SVEEGVKLR----LYTPQARIFVLYGI 86 (370)
Q Consensus 14 ~al~~Ni~~i~~~~~~~~i~aVVKanA-YGhG~~~va~~l~~~Gv~~faVa--~~~EA~~lR----~~g~~~~Ilvl~~~ 86 (370)
+.+-.=++.+|+..+++.++.+.=.|- |-.|.+..++.+.++|++++-+. -.+|+..++ +.|++ .|.+..|.
T Consensus 75 ~~~f~~v~~~r~~~~~~PivlM~Y~N~i~~~G~~~F~~~~~~aGvdG~IipDLP~eE~~~~~~~~~~~gi~-~I~liaPt 153 (266)
T PRK13114 75 ADIFRIAAEFRQRHPEVPLVLMGYANPMVRRGPDWFAAECKKAGVDGVICVDIPPEEDAELGPALRAAGID-PIRLATPT 153 (266)
T ss_pred HHHHHHHHHHHHCCCCCCEEEEEEHHHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHCCCC-EEEEECCC
T ss_conf 99999999987418998879986301999864999999999749977984589978889999999974997-26775699
Q ss_pred CH-HHHHHHHHH
Q ss_conf 74-698888754
Q gi|254780333|r 87 HP-GQEKIIFDT 97 (370)
Q Consensus 87 ~~-~~~~~~~~~ 97 (370)
.+ +.++.+.+.
T Consensus 154 t~~~Ri~~i~~~ 165 (266)
T PRK13114 154 TDAARLPAVLEG 165 (266)
T ss_pred CCHHHHHHHHHH
T ss_conf 979999999973
No 135
>LOAD_Ccd1 consensus
Probab=26.03 E-value=45 Score=13.83 Aligned_cols=34 Identities=12% Similarity=0.250 Sum_probs=27.4
Q ss_pred CCCCCCCEEEEECCC-CCHHHHHHHHCCCCEEEEC
Q ss_conf 787888789997888-8998999981794604215
Q gi|254780333|r 326 LSIEVGDYIQIFGPD-IKLDDVALASGTTNYDLLV 359 (370)
Q Consensus 326 ~~~~~GD~V~l~G~~-i~~~~~A~~~gti~yEil~ 359 (370)
.+.+.||.++++..+ .+.+++..|+....|+++.
T Consensus 22 ~~l~~G~~l~v~~dd~~a~~di~~~~~~~g~~~~~ 56 (71)
T LOAD_Ccd1 22 ENMKPGEILEVIADDPGSTEDIPSWAKQMGHELVE 56 (71)
T ss_pred HHCCCCCEEEEEECCCCHHHHHHHHHHHCCCEEEE
T ss_conf 73899999999937965788999999986998999
No 136
>PRK13137 consensus
Probab=25.95 E-value=45 Score=13.83 Aligned_cols=67 Identities=13% Similarity=0.216 Sum_probs=37.9
Q ss_pred CCEEEEEEECCC-CCCCHHHHHHHHHHCCCCEEEEC--CHHHHHHHH----HHCCCCCEEEECCCCH-HHHHHHHH
Q ss_conf 975999993286-65798999999998799899985--599999999----8389852673068974-69888875
Q gi|254780333|r 29 NARTAAVVKDNA-YGLGCEKIAPALYNAGVQDFFVT--SVEEGVKLR----LYTPQARIFVLYGIHP-GQEKIIFD 96 (370)
Q Consensus 29 ~~~i~aVVKanA-YGhG~~~va~~l~~~Gv~~faVa--~~~EA~~lR----~~g~~~~Ilvl~~~~~-~~~~~~~~ 96 (370)
+..++.+.=.|= |--|.+..++.+.++|++++-+. -.+|+..++ +.|++ .|++..|..+ +.++.+.+
T Consensus 100 ~~PivlM~Y~N~i~~yG~e~F~~~a~~aGvdGlIipDLP~eE~~~~~~~~~~~gi~-~I~lvaPtT~~eRi~~i~~ 174 (266)
T PRK13137 100 DTPLVIMTYLNPIYAVGPEEFMRLFQEAGVDGLILPDLPPDQDPEIADLAAEIGLA-VTFLIAPTSTPERVKLVAR 174 (266)
T ss_pred CCCEEEEECHHHHHHHCHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHCCCC-EEEEECCCCCHHHHHHHHH
T ss_conf 98789993458998758999999999769609994799978889999999875997-8999379999999999996
No 137
>PRK13958 N-(5'-phosphoribosyl)anthranilate isomerase; Provisional
Probab=25.92 E-value=45 Score=13.82 Aligned_cols=52 Identities=12% Similarity=0.058 Sum_probs=31.7
Q ss_pred CHHHHHHHHHHCCCCEEEEC---------CHHHHHHHHHHCCC--CCEEEECCCCHHHHHHHH
Q ss_conf 98999999998799899985---------59999999983898--526730689746988887
Q gi|254780333|r 44 GCEKIAPALYNAGVQDFFVT---------SVEEGVKLRLYTPQ--ARIFVLYGIHPGQEKIIF 95 (370)
Q Consensus 44 G~~~va~~l~~~Gv~~faVa---------~~~EA~~lR~~g~~--~~Ilvl~~~~~~~~~~~~ 95 (370)
-..+-+..+.++|+|++|.- ++++|.+|.+.-.. .++.|+-....+++..+.
T Consensus 9 t~~eda~~a~~~gaD~iGfif~~~SpR~i~~~~a~~i~~~~~~~~~~VgVfvn~~~~~i~~~~ 71 (207)
T PRK13958 9 TSIKDVTAASQLPIDAIGFIHYEKSKRHQTITQIKKLASAVPNHIDKVCVMVNPDLTTIEHVL 71 (207)
T ss_pred CCHHHHHHHHHCCCCEEEEECCCCCCCCCCHHHHHHHHHHCCCCCCEEEEEECCCHHHHHHHH
T ss_conf 979999999968999999955789998659999999998655468869999469799999999
No 138
>TIGR02152 D_ribokin_bact ribokinase; InterPro: IPR011877 This entry describes ribokinase, an enzyme catalyzing the first step in ribose catabolism. The rbsK gene encoding ribokinase typically is found with ribose transport genes. Ribokinase belongs to the carbohydrate kinase pfkB family. ; GO: 0004747 ribokinase activity, 0006014 D-ribose metabolic process.
Probab=25.73 E-value=46 Score=13.80 Aligned_cols=56 Identities=23% Similarity=0.349 Sum_probs=36.4
Q ss_pred CCCEEEEEEECCCCCCCHHHHHHHHHHCCCCEEEECCHHHH---HHH--HHHCCCCCEEEECCC
Q ss_conf 99759999932866579899999999879989998559999---999--983898526730689
Q gi|254780333|r 28 GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEG---VKL--RLYTPQARIFVLYGI 86 (370)
Q Consensus 28 ~~~~i~aVVKanAYGhG~~~va~~l~~~Gv~~faVa~~~EA---~~l--R~~g~~~~Ilvl~~~ 86 (370)
.++.++..|=.|+||. .+-+.+.+.||+.=.|-...+. .+. -+..-+-.|+|..+.
T Consensus 53 a~V~mig~VG~D~~G~---~~~~~l~~~Gi~t~~v~~~~~~~TG~A~I~V~~~G~N~I~v~~GA 113 (303)
T TIGR02152 53 AEVSMIGKVGDDAFGD---ELLENLKKEGIDTEYVKTVKDTPTGTAFIFVDDTGENRIVVVAGA 113 (303)
T ss_pred CCEEEEEEECCCHHHH---HHHHHHHHCCCCCCCEEEECCCCCCEEEEEECCCCCCEEEEECCC
T ss_conf 3617898634877899---999999874861021167177776358999837888579880275
No 139
>PRK09627 oorA 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed
Probab=25.63 E-value=46 Score=13.79 Aligned_cols=19 Identities=32% Similarity=0.268 Sum_probs=12.6
Q ss_pred CHHHHHHHHHHCCCCEEEE
Q ss_conf 9899999999879989998
Q gi|254780333|r 44 GCEKIAPALYNAGVQDFFV 62 (370)
Q Consensus 44 G~~~va~~l~~~Gv~~faV 62 (370)
|-+.+|..+..+||+.++-
T Consensus 8 GNeAia~ga~~ag~~~~a~ 26 (375)
T PRK09627 8 GNELVAKAAIECGCRFFGG 26 (375)
T ss_pred HHHHHHHHHHHHCCCEEEE
T ss_conf 8899999999829949999
No 140
>TIGR00858 bioF 8-amino-7-oxononanoate synthase; InterPro: IPR004723 8-amino-7-oxononanoate synthase (2.3.1.47 from EC) is involved in biotin biosynthesis. Synonym(s): AONS, 8-amino-7-ketopelargonate synthase, 7-keto-8-amino-pelargonic acid synthetase, 7-KAP synthetase; GO: 0008710 8-amino-7-oxononanoate synthase activity, 0009102 biotin biosynthetic process.
Probab=25.52 E-value=46 Score=13.77 Aligned_cols=92 Identities=16% Similarity=0.156 Sum_probs=49.1
Q ss_pred EEEECCCCCCCHHHHHHHHHH-----CCCCEEE----ECCHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHH-------
Q ss_conf 999328665798999999998-----7998999----855999999998389852673068974698888754-------
Q gi|254780333|r 34 AVVKDNAYGLGCEKIAPALYN-----AGVQDFF----VTSVEEGVKLRLYTPQARIFVLYGIHPGQEKIIFDT------- 97 (370)
Q Consensus 34 aVVKanAYGhG~~~va~~l~~-----~Gv~~fa----Va~~~EA~~lR~~g~~~~Ilvl~~~~~~~~~~~~~~------- 97 (370)
|+|=+-+|==.+ -|..+|.+ .|--.|. =||+-+|.+| -++..+++...+++.++...+.
T Consensus 87 ALlFsSGY~AN~-Gvi~aL~~~~~l~~~DlilsD~LNHASl~dG~rL----S~A~~~~y~H~D~~~L~~lL~~~~g~~~~ 161 (378)
T TIGR00858 87 ALLFSSGYLANV-GVISALVGKRVLEKGDLILSDALNHASLIDGCRL----SGARVLRYRHNDVEHLERLLEKNRGKERR 161 (378)
T ss_pred EEEEHHHHHHHH-HHHHHHHHCCCCCCCCEEEEHHHHHHHHHHHHHC----CCCCEEECCCCCHHHHHHHHHHCCCCCCC
T ss_conf 342002789999-9999875157656786044202547778986415----98627870689989999999740151377
Q ss_pred H--HHCCCCCHH-HHHHHHHHHHCCCCCCCEEEECC
Q ss_conf 2--101348998-99998888760887761676126
Q gi|254780333|r 98 N--LIPVISSVP-QLTFYSKLMSCGVSHPYALQVDT 130 (370)
Q Consensus 98 ~--i~~~i~s~~-~l~~l~~~~~~~~~~~vhlkiDT 130 (370)
. ++..|.|+| ++.-+.++.+..+.+.-+|.||-
T Consensus 162 ~livTDGVFSMDGD~APL~~L~~la~~~~A~L~VDD 197 (378)
T TIGR00858 162 KLIVTDGVFSMDGDIAPLPQLVALAERYGAWLMVDD 197 (378)
T ss_pred EEEEECCEECCCCCCCCHHHHHHHHHHCCCEEEEEC
T ss_conf 688970013168884897899999987098899986
No 141
>pfam00682 HMGL-like HMGL-like. This family contains a diverse set of enzymes. These include various aldolases and a region of pyruvate carboxylase.
Probab=25.48 E-value=46 Score=13.77 Aligned_cols=18 Identities=44% Similarity=0.412 Sum_probs=12.5
Q ss_pred HHHHHHHHHCCCCEEEEC
Q ss_conf 999999998799899985
Q gi|254780333|r 46 EKIAPALYNAGVQDFFVT 63 (370)
Q Consensus 46 ~~va~~l~~~Gv~~faVa 63 (370)
.++++.|.++|++.+=|.
T Consensus 17 ~~i~~~L~~~Gv~~IEvg 34 (237)
T pfam00682 17 LAIARALDEAGVDEIEVG 34 (237)
T ss_pred HHHHHHHHHCCCCEEEEE
T ss_conf 999999998498989995
No 142
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=25.34 E-value=29 Score=15.11 Aligned_cols=10 Identities=20% Similarity=0.866 Sum_probs=4.7
Q ss_pred EECCCCCCCE
Q ss_conf 7123300260
Q gi|254780333|r 270 VAAIGYADGY 279 (370)
Q Consensus 270 vipiGYaDG~ 279 (370)
++-+||+--+
T Consensus 644 ivtlgyGpDf 653 (715)
T COG1107 644 IVTLGYGPDF 653 (715)
T ss_pred EEEEECCCCE
T ss_conf 2563117861
No 143
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=25.30 E-value=47 Score=13.75 Aligned_cols=76 Identities=20% Similarity=0.247 Sum_probs=49.8
Q ss_pred HHHHHHHCC--CCEEEEEEECCC-CCCCHHHHHHHHHHCCCCEEEECC--HHHHHHHH----HHCCCCCEEEECCCCH-H
Q ss_conf 999986289--975999993286-657989999999987998999855--99999999----8389852673068974-6
Q gi|254780333|r 20 WHSMNALSG--NARTAAVVKDNA-YGLGCEKIAPALYNAGVQDFFVTS--VEEGVKLR----LYTPQARIFVLYGIHP-G 89 (370)
Q Consensus 20 i~~i~~~~~--~~~i~aVVKanA-YGhG~~~va~~l~~~Gv~~faVa~--~~EA~~lR----~~g~~~~Ilvl~~~~~-~ 89 (370)
++.+++... +..++.+.=.|= |..|.+..++.+.++|++++-+.. .+|...++ +.+++ +|++..|..+ +
T Consensus 65 ~~~~~~~r~~~~~pivlM~Y~N~i~~~G~e~F~~~~~~~Gv~GviipDLP~ee~~~~~~~~~~~~i~-~I~lvsPtt~~~ 143 (242)
T cd04724 65 LELVKEIRKKNTIPIVLMGYYNPILQYGLERFLRDAKEAGVDGLIIPDLPPEEAEEFREAAKEYGLD-LIFLVAPTTPDE 143 (242)
T ss_pred HHHHHHHHHCCCCCEEEEEECHHHHHHCHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHCCCE-EEEEECCCCCHH
T ss_conf 9999998734798889998445766528999999999759975870699957846899999865983-889968988789
Q ss_pred HHHHHHH
Q ss_conf 9888875
Q gi|254780333|r 90 QEKIIFD 96 (370)
Q Consensus 90 ~~~~~~~ 96 (370)
.++.+.+
T Consensus 144 ri~~i~~ 150 (242)
T cd04724 144 RIKKIAE 150 (242)
T ss_pred HHHHHHH
T ss_conf 9999997
No 144
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family; InterPro: IPR006515 These eukaryotic proteins recognize the poly-A of mRNA and consist of four tandem RNA recognition domains at the N terminus followed by a PABP-specific domain at the C terminus. The protein is involved in the transport of mRNAs from the nucleus to the cytoplasm . There are four paralogs in Homo sapiens which are expressed in testis , platelets (Q13310 from SWISSPROT ), broadly expressed (P11940 from SWISSPROT ) and of unknown tissue range (Q15097 from SWISSPROT). ; GO: 0003723 RNA binding.
Probab=25.16 E-value=47 Score=13.73 Aligned_cols=65 Identities=20% Similarity=0.225 Sum_probs=39.3
Q ss_pred HHHCCCCCHHHHHHHHHHHHCCCCCCCEEEEC--CCCCC-CCC----CHHHHHHHHHHHHHHHCCCHHHHHCCCC
Q ss_conf 21013489989999888876088776167612--66676-556----9889999998888631000124320124
Q gi|254780333|r 98 NLIPVISSVPQLTFYSKLMSCGVSHPYALQVD--TGFNR-LGL----SLQEALDFTHNSFNKKLGQLSLIISHLA 165 (370)
Q Consensus 98 ~i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiD--TGM~R-~G~----~~~e~~~~~~~~~~~~~~~i~gi~THfa 165 (370)
|+...|.+..-.+.++ ++|....+-+++| +|++| +|| .++|+.+.+.+.--.+-+.-.=+|--+|
T Consensus 446 NlDd~vt~e~Lre~F~---~~G~itS~kVM~dr~~g~SrGFGFVcFs~~eEA~~Av~EmhGs~~~~~KPLyValA 517 (860)
T TIGR01628 446 NLDDTVTDEKLRELFS---EYGEITSAKVMLDREKGVSRGFGFVCFSNPEEANKAVTEMHGSKMLGGKPLYVALA 517 (860)
T ss_pred CCCCCCCCHHHHHHCC---CCCCEEEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCEECCCCCCHHHHH
T ss_conf 6887638589998521---47873788986017888536644011489899999998725553227876034453
No 145
>pfam01136 Peptidase_U32 Peptidase family U32.
Probab=25.06 E-value=47 Score=13.72 Aligned_cols=56 Identities=13% Similarity=0.018 Sum_probs=33.5
Q ss_pred HHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEE---CCCCHHHHHHHHHHHHH
Q ss_conf 899999999879989998559999999983898526730---68974698888754210
Q gi|254780333|r 45 CEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVL---YGIHPGQEKIIFDTNLI 100 (370)
Q Consensus 45 ~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl---~~~~~~~~~~~~~~~i~ 100 (370)
+.+....+.+.|+|.+-|+.+.=...+|+..++.||..= +-.....+..+.+.++.
T Consensus 4 l~~~l~~l~~~gvDaiiv~D~g~~~~~~~~~p~l~ih~s~~~nv~N~~~~~~~~~~G~~ 62 (232)
T pfam01136 4 LREYLEKLAEIGVDAVIVADPGVLRLARERFPDLPIHASTQANVTNSEALRFLAELGAK 62 (232)
T ss_pred HHHHHHHHHHCCCCEEEEECHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 99999999976999999809999999998689987899605557789999999986995
No 146
>TIGR03000 plancto_dom_1 Planctomycetes uncharacterized domain TIGR03000.
Probab=25.01 E-value=42 Score=14.02 Aligned_cols=10 Identities=40% Similarity=0.644 Sum_probs=5.8
Q ss_pred EEEEC-CCCCC
Q ss_conf 79712-33002
Q gi|254780333|r 268 IAVAA-IGYAD 277 (370)
Q Consensus 268 iavip-iGYaD 277 (370)
.-++| .||+|
T Consensus 6 ~v~lP~aGy~d 16 (81)
T TIGR03000 6 TVTLPDAGYAD 16 (81)
T ss_pred EEECCCCCCCC
T ss_conf 99807998653
No 147
>PRK03708 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=24.56 E-value=48 Score=13.66 Aligned_cols=91 Identities=13% Similarity=0.176 Sum_probs=45.8
Q ss_pred HHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCC
Q ss_conf 89999999987998999855999999998389852673068974698888754210134899899998888760887761
Q gi|254780333|r 45 CEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPY 124 (370)
Q Consensus 45 ~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~~~~~~v 124 (370)
+.++++.|.+.|++.+--....+.+- .. ...+.+ +... .+.++..++.-.-.+-....+. ....|+
T Consensus 18 a~~l~~~L~~~g~~v~ld~~~~~~~~--~~-~~~~~~--------~~~~-~~~Dlvi~lGGDGT~L~a~~~~--~~~iPi 83 (278)
T PRK03708 18 AYRVYDFLKVSGYEVVVDSDTYEHLP--QF-SEEDVL--------PLEE-FDVDFILAIGGDGTILRIEHKT--KKEIPI 83 (278)
T ss_pred HHHHHHHHHHCCCEEEEEHHHHHHCC--CC-CCCCCC--------CCCC-CCCCEEEEECCCHHHHHHHHHC--CCCCCE
T ss_conf 99999999988998999747865666--55-556767--------5435-7878999987868999999964--789988
Q ss_pred EEEECCCCCCCCCC----HHHHHHHHHHHHHH
Q ss_conf 67612666765569----88999999888863
Q gi|254780333|r 125 ALQVDTGFNRLGLS----LQEALDFTHNSFNK 152 (370)
Q Consensus 125 hlkiDTGM~R~G~~----~~e~~~~~~~~~~~ 152 (370)
|-|++| |+||- ++|..+.+.++.+.
T Consensus 84 -lGiN~G--~lGFLt~~~~~~~~~~l~~i~~g 112 (278)
T PRK03708 84 -LSINMG--TLGFLTEVEPEDTFFALSRLLEG 112 (278)
T ss_pred -EEEECC--CCCCCCCCCHHHHHHHHHHHHCC
T ss_conf -988358--75303556878999999999728
No 148
>pfam03709 OKR_DC_1_N Orn/Lys/Arg decarboxylase, N-terminal domain. This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure.
Probab=24.55 E-value=48 Score=13.66 Aligned_cols=70 Identities=17% Similarity=0.069 Sum_probs=50.8
Q ss_pred CCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 57989999999987998999855999999998389852673068974698888754210134899899998888760887
Q gi|254780333|r 42 GLGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVS 121 (370)
Q Consensus 42 GhG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~~~~~ 121 (370)
|-....++..+.+.|..-..+.+.+|+..+-+...+.-=+++.. +......+.+..+.+..
T Consensus 3 ~~~~~~l~~~l~~~~~~vv~~~~~~d~~~~~~~~~~i~avil~~-------------------~~~~~~ll~~ir~~n~~ 63 (111)
T pfam03709 3 IAASRELAEALEATGREVVDATSTDDLLSLIETFTDIAAVVLSW-------------------DDEARGLLDEIRRRNFD 63 (111)
T ss_pred CHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCCEEEEEE-------------------CHHHHHHHHHHHHHCCC
T ss_conf 04589999999978988997487899999998387876899984-------------------60689999999974789
Q ss_pred CCCEEEECC
Q ss_conf 761676126
Q gi|254780333|r 122 HPYALQVDT 130 (370)
Q Consensus 122 ~~vhlkiDT 130 (370)
.||++-.++
T Consensus 64 lPvFl~~~~ 72 (111)
T pfam03709 64 LPVFLLAET 72 (111)
T ss_pred CCEEEEECH
T ss_conf 998988441
No 149
>PRK13131 consensus
Probab=24.00 E-value=49 Score=13.59 Aligned_cols=79 Identities=10% Similarity=0.141 Sum_probs=42.9
Q ss_pred HHHHHHHHH---HCCCCEEEEEEECC-CCCCCHHHHHHHHHHCCCCEEEECC--HHHHHHHHH----HCCCCCEEEECCC
Q ss_conf 999999986---28997599999328-6657989999999987998999855--999999998----3898526730689
Q gi|254780333|r 17 KNNWHSMNA---LSGNARTAAVVKDN-AYGLGCEKIAPALYNAGVQDFFVTS--VEEGVKLRL----YTPQARIFVLYGI 86 (370)
Q Consensus 17 ~~Ni~~i~~---~~~~~~i~aVVKan-AYGhG~~~va~~l~~~Gv~~faVa~--~~EA~~lR~----~g~~~~Ilvl~~~ 86 (370)
.+.++.+++ ..++..+..+.=.| -|-.|.+.-++.+.++|++++-+.. ++|+..+++ .+++ .|.+..|.
T Consensus 72 ~~~~~~~~~~r~~~~~~pivlM~Y~N~i~~yG~e~F~~~~~~~GvdGvIipDLP~eE~~~~~~~~~~~~l~-~I~lvaPt 150 (257)
T PRK13131 72 AKNFQLLKKIRDYNHHIPIGLLAYANLIFSYGVDGFYAQAKECGVDSVLIADMPLIEKELVIKSAQKHQIK-QIFIASPN 150 (257)
T ss_pred HHHHHHHHHHHHCCCCCCEEEECCHHHHHHHCHHHHHHHHHHCCCCCEECCCCCHHHHHHHHHHHHHCCCC-EEEEECCC
T ss_conf 99999999987049998889992768999857999999998659985655899967889999999977984-79972899
Q ss_pred CHH-HHHHHHH
Q ss_conf 746-9888875
Q gi|254780333|r 87 HPG-QEKIIFD 96 (370)
Q Consensus 87 ~~~-~~~~~~~ 96 (370)
.+. .++.+.+
T Consensus 151 t~~~Ri~~i~~ 161 (257)
T PRK13131 151 ASVKDLEQVAT 161 (257)
T ss_pred CCHHHHHHHHH
T ss_conf 98899999983
No 150
>PHA00911 21 prohead core scaffolding protein and protease
Probab=23.50 E-value=11 Score=17.77 Aligned_cols=11 Identities=9% Similarity=-0.197 Sum_probs=6.7
Q ss_pred HCCCHHHHHCC
Q ss_conf 10001243201
Q gi|254780333|r 153 KLGQLSLIISH 163 (370)
Q Consensus 153 ~~~~i~gi~TH 163 (370)
+.+-++|+|..
T Consensus 31 k~l~ieGif~q 41 (213)
T PHA00911 31 DGLYIEGIFMQ 41 (213)
T ss_pred CEEEEEEEEEE
T ss_conf 50799985785
No 151
>PRK03372 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=23.22 E-value=51 Score=13.50 Aligned_cols=116 Identities=10% Similarity=0.102 Sum_probs=53.4
Q ss_pred CCEEEEEEECCCCC--CCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHHHHHCCCCCH
Q ss_conf 97599999328665--7989999999987998999855999999998389852673068974698888754210134899
Q gi|254780333|r 29 NARTAAVVKDNAYG--LGCEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSV 106 (370)
Q Consensus 29 ~~~i~aVVKanAYG--hG~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~~~~~~~~~~~~~i~~~i~s~ 106 (370)
..++.-|.|.+-=. --+.++++.|.+.|+..+...................+- ..+.+.....+.++..++.-.
T Consensus 4 ~R~V~IV~k~~~~~a~~~a~~l~~~L~~~g~~v~v~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~Dlvi~lGGD 79 (303)
T PRK03372 4 ERTVLLVAHTGRDEATESARRVVKQLGDAGIGVRVLAAEAADLPDDMRALGVEIE----VVDADPDAADGCELVLVLGGD 79 (303)
T ss_pred CCEEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCC----CCCCCCCCCCCCCEEEEECCC
T ss_conf 8889999708998999999999999997889899970401002444555565422----345322335785589997787
Q ss_pred HHHHHHHHHHHCCCCCCCEEEECCCCCCCCCC----HHHHHHHHHHHHHH
Q ss_conf 89999888876088776167612666765569----88999999888863
Q gi|254780333|r 107 PQLTFYSKLMSCGVSHPYALQVDTGFNRLGLS----LQEALDFTHNSFNK 152 (370)
Q Consensus 107 ~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G~~----~~e~~~~~~~~~~~ 152 (370)
-.+-..+.... ....|+ +-|++ +|+||- +++..+.+.++.+-
T Consensus 80 GT~L~aar~~~-~~~iPi-lGiN~--G~lGFLt~~~~~~~~~~l~~i~~g 125 (303)
T PRK03372 80 GTFLRAAELAR-NADVPV-LGVNL--GHVGFLAEAEREDLDEAVERVVDR 125 (303)
T ss_pred HHHHHHHHHHC-CCCCCE-EEEEC--CCCEEECCCCHHHHHHHHHHHHCC
T ss_conf 89999999844-479988-98725--982131246988999999999808
No 152
>TIGR00959 ffh signal recognition particle protein; InterPro: IPR004780 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes , . SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor . In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. This entry represents various SRP subunits.; GO: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle.
Probab=23.21 E-value=51 Score=13.50 Aligned_cols=170 Identities=18% Similarity=0.198 Sum_probs=104.0
Q ss_pred EEEEEHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHHH-CCCCEEEECCHHH------HHHHHHHCCCCCE
Q ss_conf 99986889999999998628997599999328665798999999998-7998999855999------9999983898526
Q gi|254780333|r 8 RLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYN-AGVQDFFVTSVEE------GVKLRLYTPQARI 80 (370)
Q Consensus 8 ~leIdl~al~~Ni~~i~~~~~~~~i~aVVKanAYGhG~~~va~~l~~-~Gv~~faVa~~~E------A~~lR~~g~~~~I 80 (370)
||.||- .|=.=+..||+.....+++-||=|= -|=-+..+|+++.+ .|++++=++.+|= |+-+|... ..||
T Consensus 201 RL~ID~-~LM~EL~~iK~~~nP~EiLlVvDaM-~GQdAvn~A~~F~e~lgltG~vltK~DGDaRGGAALS~~~~t-g~PI 277 (439)
T TIGR00959 201 RLQIDE-ELMEELAEIKEILNPDEILLVVDAM-TGQDAVNTAKTFNERLGLTGVVLTKLDGDARGGAALSVRSVT-GKPI 277 (439)
T ss_pred CHHHHH-HHHHHHHHHHHHHCCCEEEECCHHC-CHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHH-CCCE
T ss_conf 125559-9999999998886887054122010-216999999863660013547885475660578999999996-8961
Q ss_pred EEECCCCH--HHHHHH----HHHHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCCC-CCHHHHHHHHHHHHHHH
Q ss_conf 73068974--698888----754210134899899998888760887761676126667655-69889999998888631
Q gi|254780333|r 81 FVLYGIHP--GQEKII----FDTNLIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLG-LSLQEALDFTHNSFNKK 153 (370)
Q Consensus 81 lvl~~~~~--~~~~~~----~~~~i~~~i~s~~~l~~l~~~~~~~~~~~vhlkiDTGM~R~G-~~~~e~~~~~~~~~~~~ 153 (370)
...| +.+ ++++.+ .+.+ +.--.+.-.| .+++.+. ....=+-|...=|. .| |+.+|+.+-++++.+..
T Consensus 278 KFiG-~GEK~~dLe~FhP~R~A~R-ILGMGDv~SL--vEKA~~~-~D~~~a~~~~~K~~-~~~FdleDfl~Ql~~~~KMG 351 (439)
T TIGR00959 278 KFIG-VGEKIEDLEPFHPDRMASR-ILGMGDVLSL--VEKAQEV-VDEEEAKKLAEKML-KGQFDLEDFLEQLRQIKKMG 351 (439)
T ss_pred EEEE-CCCCCCCCCCCCHHHHHHH-HCCCCCHHHH--HHHHHHH-CCHHHHHHHHHHHH-CCCCCHHHHHHHHHHHHHCC
T ss_conf 8884-1777233124674789863-2365522369--9999985-18899999999863-05889899999999997227
Q ss_pred CCCHHHHHCCCCCC-----CCCCCHH-HHHHHHHHHHHHHH
Q ss_conf 00012432012433-----3346678-89999999999754
Q gi|254780333|r 154 LGQLSLIISHLACA-----DDPSSHV-NSVQLERFRTLISH 188 (370)
Q Consensus 154 ~~~i~gi~THfa~a-----d~~~~~~-~~~Q~~~F~~~~~~ 188 (370)
. +..+++=+|.. ...+-+. .+.|++|++.++..
T Consensus 352 ~--l~~L~~MiPG~g~~~~~~~~~~~l~e~~~~~~~AiI~S 390 (439)
T TIGR00959 352 P--LSSLLKMIPGMGGMKPSLKDIDLLDEKQLKRIEAIISS 390 (439)
T ss_pred C--HHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 9--03588860220244335776767769999999987725
No 153
>TIGR01416 Rieske_proteo ubiquinol-cytochrome c reductase, iron-sulfur subunit; InterPro: IPR006317 These sequences represent the Proteobacterial and mitochondrial type of the Rieske [2Fe-2S] iron-sulphur subunit as found in ubiquinol-cytochrome c reductase. Not included in this group are the Rieske iron-sulphur protein as found in the cytochrome b6-f complex of the Cyanobacteria and chloroplasts. Most members of this family have a recognizable twin-arginine translocation (tat) signal sequence (DeltaPh-dependent translocation in chloroplast) for transport across the membrane with the 2Fe-2S group already bound. These signal sequences include a motif resembling RRxFLK before the transmembrane helix. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0006118 electron transport.
Probab=23.18 E-value=19 Score=16.24 Aligned_cols=46 Identities=17% Similarity=0.209 Sum_probs=30.2
Q ss_pred HHCCC-CEEEECCHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHHHH
Q ss_conf 98799-899985599999999838985267306897469888875421
Q gi|254780333|r 53 YNAGV-QDFFVTSVEEGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNL 99 (370)
Q Consensus 53 ~~~Gv-~~faVa~~~EA~~lR~~g~~~~Ilvl~~~~~~~~~~~~~~~i 99 (370)
..+|+ ..+-|+.++|+..++=.=-.+||+|++- .+++++.+...+.
T Consensus 37 ~AaGA~~eVDvs~~~~Gq~~tv~WRGKPvfi~~R-t~~~~~~~~~~~~ 83 (192)
T TIGR01416 37 LAAGAPTEVDVSKIQEGQQLTVEWRGKPVFILNR-TKKEIDELKALDG 83 (192)
T ss_pred HHCCCCEEEECCCCCCCCEEEEEECCCEEEEEEC-CHHHHHHHHHHCC
T ss_conf 8578854886257798867888772807999708-9799864442023
No 154
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=23.02 E-value=51 Score=13.47 Aligned_cols=20 Identities=20% Similarity=0.144 Sum_probs=10.7
Q ss_pred HHHHHHHHHHCCCCEEEECC
Q ss_conf 89999999987998999855
Q gi|254780333|r 45 CEKIAPALYNAGVQDFFVTS 64 (370)
Q Consensus 45 ~~~va~~l~~~Gv~~faVa~ 64 (370)
+...++.|+++|++++.+.+
T Consensus 64 L~~~a~~Le~~GAd~i~l~~ 83 (230)
T COG1794 64 LIDAAKKLERAGADFIVLPT 83 (230)
T ss_pred HHHHHHHHHHCCCCEEEEEC
T ss_conf 99999999965999899707
No 155
>PRK03512 thiamine-phosphate pyrophosphorylase; Provisional
Probab=22.86 E-value=52 Score=13.45 Aligned_cols=24 Identities=25% Similarity=0.266 Sum_probs=13.0
Q ss_pred EEEEEEECCCCCCCHHHHHHHHHHCCCCEEE
Q ss_conf 5999993286657989999999987998999
Q gi|254780333|r 31 RTAAVVKDNAYGLGCEKIAPALYNAGVQDFF 61 (370)
Q Consensus 31 ~i~aVVKanAYGhG~~~va~~l~~~Gv~~fa 61 (370)
.+.+|+-. .+..+.+.+.|++.+=
T Consensus 14 g~Y~i~d~-------~~~ve~al~gGv~~vQ 37 (211)
T PRK03512 14 GLYPVVDS-------VQWIERLLDAGVRTLQ 37 (211)
T ss_pred EEEEECCC-------HHHHHHHHHCCCCEEE
T ss_conf 34753596-------9999999987999999
No 156
>COG0027 PurT Formate-dependent phosphoribosylglycinamide formyltransferase (GAR transformylase) [Nucleotide transport and metabolism]
Probab=22.69 E-value=52 Score=13.43 Aligned_cols=91 Identities=13% Similarity=0.159 Sum_probs=53.6
Q ss_pred HHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCCCHHHHHHHHHH-HHHCCCCCHH--HHHHHHHHHHCCCC
Q ss_conf 89999999987998999855999999998389852673068974698888754-2101348998--99998888760887
Q gi|254780333|r 45 CEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGIHPGQEKIIFDT-NLIPVISSVP--QLTFYSKLMSCGVS 121 (370)
Q Consensus 45 ~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~~~~~~~~~~~~-~i~~~i~s~~--~l~~l~~~~~~~~~ 121 (370)
-.+++=.++..|+.-+||-....|=+++-+.. =.|..-...+.+..+++. +=..+|...+ ..+.|.++.+.|..
T Consensus 24 GKEvaIe~QRLG~eVIAVDrY~~APAmqVAhr---s~Vi~MlD~~al~avv~re~Pd~IVpEiEAI~td~L~elE~~G~~ 100 (394)
T COG0027 24 GKEVAIEAQRLGVEVIAVDRYANAPAMQVAHR---SYVIDMLDGDALRAVVEREKPDYIVPEIEAIATDALVELEEEGYT 100 (394)
T ss_pred CHHHHHHHHHCCCEEEEECCCCCCHHHHHHHH---EEEEECCCHHHHHHHHHHHCCCEEEEHHHHHHHHHHHHHHHCCCE
T ss_conf 46999988863877999637689806642111---134545699999999986589813313566647889999867966
Q ss_pred -CCCEEEECCCCCCCCCC
Q ss_conf -76167612666765569
Q gi|254780333|r 122 -HPYALQVDTGFNRLGLS 138 (370)
Q Consensus 122 -~~vhlkiDTGM~R~G~~ 138 (370)
.|-.=-...-|||.|+.
T Consensus 101 VVP~ArAt~ltMnRegiR 118 (394)
T COG0027 101 VVPNARATKLTMNREGIR 118 (394)
T ss_pred ECCCHHHHHHHHCHHHHH
T ss_conf 755327777342689899
No 157
>cd01850 CDC_Septin CDC/Septin. Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=22.40 E-value=53 Score=13.39 Aligned_cols=13 Identities=23% Similarity=0.422 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHH
Q ss_conf 8999999999975
Q gi|254780333|r 175 NSVQLERFRTLIS 187 (370)
Q Consensus 175 ~~~Q~~~F~~~~~ 187 (370)
|...++.|++.+.
T Consensus 157 T~~El~~~K~~I~ 169 (276)
T cd01850 157 TPEELKEFKQRIM 169 (276)
T ss_pred CHHHHHHHHHHHH
T ss_conf 9999999999999
No 158
>TIGR02213 lolE_release lipoprotein releasing system, transmembrane protein LolE; InterPro: IPR011926 This protein is part of an unusual ABC transporter complex that releases lipoproteins from the periplasmic side of the bacterial inner membrane, rather than transport any substrate across the inner membrane. In some species, the permease-like transmembrane protein is represented by two paralogs, LolC and LolE, both in the LolCDE complex. This family consists of LolE, as found in Escherichia coli and related species.; GO: 0006810 transport, 0009276 1-2nm peptidoglycan-based cell wall, 0016021 integral to membrane.
Probab=22.40 E-value=49 Score=13.59 Aligned_cols=41 Identities=20% Similarity=0.229 Sum_probs=16.6
Q ss_pred HHHHCCCCCEEEECCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 99838985267306897469888875421013489989999888876
Q gi|254780333|r 71 LRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMS 117 (370)
Q Consensus 71 lR~~g~~~~Ilvl~~~~~~~~~~~~~~~i~~~i~s~~~l~~l~~~~~ 117 (370)
|-|.|-+-+..=-.++.|+.+..+. ++++.-|-+.|+++.+
T Consensus 104 LVE~G~kLkavqVkGVepq~Eq~vS------~~~~Fvq~qaW~~F~~ 144 (416)
T TIGR02213 104 LVERGAKLKAVQVKGVEPQAEQKVS------ALSSFVQEQAWRKFKK 144 (416)
T ss_pred EEECCCCEEEEEEECCCCCHHHHHH------HHHHHHHHHHHHHHHC
T ss_conf 4421772228997458810235552------0000233564674207
No 159
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator; InterPro: IPR011788 This entry represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system . This protein is a member of the MerR family of transcriptional activators and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix . .
Probab=22.28 E-value=53 Score=13.38 Aligned_cols=45 Identities=24% Similarity=0.370 Sum_probs=25.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHCCCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 65569889999998888631000124320124333346678899999999997543
Q gi|254780333|r 134 RLGLSLQEALDFTHNSFNKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLISHY 189 (370)
Q Consensus 134 R~G~~~~e~~~~~~~~~~~~~~~i~gi~THfa~ad~~~~~~~~~Q~~~F~~~~~~~ 189 (370)
.+||+.+|..+++. +.++ -||.+|+|.. ..++..++.-++-++.+
T Consensus 56 ~lGftLdeI~eLLs-------I~ld--~~~h~CaevK--~ivd~kL~~v~~KI~EL 100 (132)
T TIGR02043 56 ELGFTLDEIKELLS-------IKLD--KDEHACAEVK--AIVDAKLEDVDEKIAEL 100 (132)
T ss_pred HHCCCHHHHHHHHC-------CCCC--CCCCCHHHHH--HHHHHHHHHHHHHHHHH
T ss_conf 74687888787631-------2227--7766415678--89988899899999999
No 160
>TIGR01202 bchC Chlorophyll synthesis pathway, bchC; InterPro: IPR005903 Some prokaryotes, such as the purple and green sulphur bacteria, gain energy from a mode of photosynthesis that does not generate oxygen, and is inhibited by its presence , . These organisms do not include chlorophylls in their photosynthetic pigments, but instead use closely related molecules known as bacteriochlorophylls. Like chlorophylls, bacteriochlorophylls are tetrapyroles with a five-membered ring structure, differing in the side chains and hydration state of the ring structure. These alterations in structure determine what light wavelengths can be harvested by the organism . Bacteriochlorophyll a is a photosynthetic pigment found in many of the purple bacteria. It is synthesised from protoporphyrin IX in a series of reactions including magnesium-chelation, methyl transfer, ring formation, vinyl-group reduction protochlorophyllide reduction, and finally phytol addition . This entry represents 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide a dehydrogenase, the enzyme catalysing the penultimate step in light-independent bacteriochlorophyll a biosynthesis .; GO: 0016491 oxidoreductase activity, 0030494 bacteriochlorophyll biosynthetic process.
Probab=21.64 E-value=55 Score=13.30 Aligned_cols=128 Identities=15% Similarity=0.058 Sum_probs=70.2
Q ss_pred ECCCCCCCHH--HHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEECCCCHHHHHH-HHHHHHHC---CCCCHHHHH
Q ss_conf 3286657989--99999998799899985599999999838985267306897469888-87542101---348998999
Q gi|254780333|r 37 KDNAYGLGCE--KIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGIHPGQEKI-IFDTNLIP---VISSVPQLT 110 (370)
Q Consensus 37 KanAYGhG~~--~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl~~~~~~~~~~-~~~~~i~~---~i~s~~~l~ 110 (370)
|.===|||.. ..|+....+|..--.|..... -|..+-+..+.+ .| ..++... +..++... +-....-++
T Consensus 157 pdLivG~G~lGrLlArLt~~aG~~~p~VwEt~~---~R~~~a~gy~v~-~P-~~ddvsval~rrdy~~i~D~sG~~~~id 231 (325)
T TIGR01202 157 PDLIVGHGTLGRLLARLTVAAGGSPPAVWETNP---RRRDGATGYEVL-DP-EKDDVSVALPRRDYRAIYDASGDPSLID 231 (325)
T ss_pred CCEEEECCHHHHHHHHHHHHCCCCCCEEECCCH---HHHHCCCCCEEE-CC-CCCCEEEEECCCCEEEEEECCCCHHHHH
T ss_conf 712871678999999999971897635547866---873014564033-77-4346357425873017871578678999
Q ss_pred HHHHHH-HCC-------CCCCCEEEECCCCCCCC-C----CHH-HHHHHHHHHHHHHCCCHHHHHCCCCCCCC
Q ss_conf 988887-608-------87761676126667655-6----988-99999988886310001243201243333
Q gi|254780333|r 111 FYSKLM-SCG-------VSHPYALQVDTGFNRLG-L----SLQ-EALDFTHNSFNKKLGQLSLIISHLACADD 169 (370)
Q Consensus 111 ~l~~~~-~~~-------~~~~vhlkiDTGM~R~G-~----~~~-e~~~~~~~~~~~~~~~i~gi~THfa~ad~ 169 (370)
.+-+.. +.| .+.|+++..---++|.= + .|+ +-+...+++.....+.+++++||-.+++|
T Consensus 232 ~lv~rL~kgGe~vl~GfYt~P~~f~f~pAF~kE~~~r~AaeWq~~DL~avr~Lie~G~lsl~~liTH~~~~~d 304 (325)
T TIGR01202 232 TLVRRLAKGGEIVLAGFYTEPVNFDFVPAFMKELRLRIAAEWQKGDLLAVRELIESGKLSLDGLITHQRPASD 304 (325)
T ss_pred HHHHHHHCCCEEEEECCCCCCCEEEECHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHH
T ss_conf 9999873299799803357763010206789999999975138435899999998603305421336688768
No 161
>PRK04165 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional
Probab=20.68 E-value=57 Score=13.17 Aligned_cols=112 Identities=13% Similarity=0.228 Sum_probs=52.4
Q ss_pred EHHHHHHHHHHHHHH----CCCC-EE-EEEEECCCCCCCHH---HHHHHHHH-CCCCEEEEC-C---HHHHHHHHHHCCC
Q ss_conf 688999999999862----8997-59-99993286657989---99999998-799899985-5---9999999983898
Q gi|254780333|r 12 DLTALKNNWHSMNAL----SGNA-RT-AAVVKDNAYGLGCE---KIAPALYN-AGVQDFFVT-S---VEEGVKLRLYTPQ 77 (370)
Q Consensus 12 dl~al~~Ni~~i~~~----~~~~-~i-~aVVKanAYGhG~~---~va~~l~~-~Gv~~faVa-~---~~EA~~lR~~g~~ 77 (370)
|-.++..-++.++++ .+.. ++ +..||..+ | ..+ .+++...+ .+....-.+ . +.+|+++ .+..
T Consensus 103 ~e~ei~~r~~~i~~~~~~rvG~~l~~d~vAvr~~s-~-d~~~fa~~vk~va~~~~~pliL~s~dp~vl~aaL~~--~~~~ 178 (454)
T PRK04165 103 SEEEIDERLKEINNFQFERVGEILKLDAVALRNVS-G-DPEKFAKAVKKVAETTELPLILCSFDPAVLKAALEV--VADR 178 (454)
T ss_pred CHHHHHHHHHHHHHCEEEEECCEEEEEEEEEECCC-C-CHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHH--HCCC
T ss_conf 78999999998651256772341152089999178-9-989999999999721699779983899999999997--4537
Q ss_pred CCEEEECCCCH--HHH-HHHHHHHHHCCCCCHHHHHHHHHH----HHCCCCCCCEEEECCCC
Q ss_conf 52673068974--698-888754210134899899998888----76088776167612666
Q gi|254780333|r 78 ARIFVLYGIHP--GQE-KIIFDTNLIPVISSVPQLTFYSKL----MSCGVSHPYALQVDTGF 132 (370)
Q Consensus 78 ~~Ilvl~~~~~--~~~-~~~~~~~i~~~i~s~~~l~~l~~~----~~~~~~~~vhlkiDTGM 132 (370)
.| |+.+.... +++ +.+.++++-.+++..+ |+.+..+ .+.|.+ -|-+|+|-
T Consensus 179 kP-LlyaAt~~N~~~m~~LA~~~~~Pl~V~a~~-L~~L~~l~~~~~~~Gik---dlVLDpg~ 235 (454)
T PRK04165 179 RP-LLYAATKDNWKEMAELAKEYNCPLVVSAPN-LEELKSLVKKLQAAGIK---DIVLDPGT 235 (454)
T ss_pred CC-EEEECCHHHHHHHHHHHHHCCCCEEEECCC-HHHHHHHHHHHHHCCCC---CEEECCCC
T ss_conf 97-552278988999999998749847997799-89999999999976985---27888997
No 162
>PRK02649 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=20.66 E-value=57 Score=13.17 Aligned_cols=99 Identities=15% Similarity=0.123 Sum_probs=47.2
Q ss_pred HHHHHHHHHHCCCCEEEECCHHHHHHHHHHCCCCCEEEE--CCCCHHHHHHHHHHHHHCCCCCHHHHHH-HHHHHHCCCC
Q ss_conf 899999999879989998559999999983898526730--6897469888875421013489989999-8888760887
Q gi|254780333|r 45 CEKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVL--YGIHPGQEKIIFDTNLIPVISSVPQLTF-YSKLMSCGVS 121 (370)
Q Consensus 45 ~~~va~~l~~~Gv~~faVa~~~EA~~lR~~g~~~~Ilvl--~~~~~~~~~~~~~~~i~~~i~s~~~l~~-l~~~~~~~~~ 121 (370)
+.++++.|.+.|++-+--..... .+--.+.+.+.... ..+.++++ ..+.++..++.-.-.+-. ...+. ...
T Consensus 19 a~~l~~~L~~~gi~v~l~~~~a~--~l~~~~~~~~~~~~~~~~~~~~~~--~~~~Dl~IvlGGDGT~L~aar~~~--~~~ 92 (305)
T PRK02649 19 AEELQDKLEAAGWEVVRASSSGG--MLGYANPDQPVCHTGIDALVPEGF--DSSMKFAIVLGGDGTVLSAARQTA--PCG 92 (305)
T ss_pred HHHHHHHHHHCCCEEEEECCHHH--HCCCCCCCCCCCCCCCCCCCCCCC--CCCCCEEEEECCCHHHHHHHHHHC--CCC
T ss_conf 99999999988999999744123--228787553211244111263335--777339999837699999999853--369
Q ss_pred CCCEEEECCCCCCCCCC----HHHHHHHHHHHHHH
Q ss_conf 76167612666765569----88999999888863
Q gi|254780333|r 122 HPYALQVDTGFNRLGLS----LQEALDFTHNSFNK 152 (370)
Q Consensus 122 ~~vhlkiDTGM~R~G~~----~~e~~~~~~~~~~~ 152 (370)
.|+ |-|+. +|+||- +++..+.+.++.+-
T Consensus 93 iPi-lGIN~--G~LGFLt~i~~~~~~~~l~~il~g 124 (305)
T PRK02649 93 IPL-LTINT--GHLGFLTEAYLNQLDEAIDQLLAG 124 (305)
T ss_pred CCE-EEEEC--CCEEEECCCCHHHHHHHHHHHHCC
T ss_conf 978-98944--862340447988999999999829
No 163
>TIGR02666 moaA molybdenum cofactor biosynthesis protein A; InterPro: IPR013483 The majority of molybdenum-containing enzymes utilise a molybdenum cofactor (MoCF or Moco) consisting of a Mo atom coordinated via a cisdithiolene moiety to molybdopterin (MPT). MoCF is ubiquitous in nature, and the pathway for MoCF biosynthesis is conserved in all three domains of life. MoCF-containing enzymes function as oxidoreductases in carbon, nitrogen, and sulphur metabolism , . In Escherichia coli, biosynthesis of MoCF is a three stage process. It begins with the MoaA and MoaC conversion of GTP to the meta-stable pterin intermediate precursor Z. The second stage involves MPT synthase (MoaD and MoaE), which coverts precursor Z to MPT; MoeB is involved in the recycling of MPT synthase. The final step in MoCF synthesis is the attachment of mononuclear Mo to MPT, a process that requires MoeA and which is enhanced by MogA in an Mg2 ATP-dependent manner . MoCF is the active co-factor in eukaryotic and some prokaryotic molybdoenzymes, but the majority of bacterial enzymes requiring MoCF, need a modification of MTP for it to be active; MobA is involved in the attachment of a nucleotide monophosphate to MPT resulting in the MGD co-factor, the active co-factor for most prokaryotic molybdoenzymes. Bacterial two-hybrid studies have revealed the close interactions between MoeA, MogA, and MobA in the synthesis of MoCF . Moreover the close functional association of MoeA and MogA in the synthesis of MoCF is supported by fact that the known eukaryotic homologues to MoeA and MogA exist as fusion proteins: CNX1 () of Arabidopsis thaliana (Mouse-ear cress), mammalian Gephryin (e.g. Q9NQX3 from SWISSPROT) and Drosophila melanogaster (Fruit fly) Cinnamon (P39205 from SWISSPROT) . This entry represents the bacterial form of MoaA (molybdenum cofactor biosynthesis protein A). The MoaA protein is a member of the wider S-adenosylmethionine(SAM)-dependent enzyme family which catalyze the formation of protein and/or substrate radicals by reductive cleavage of SAM via a [4Fe-4S] cluster. Monomeric and homodimeric forms of MoaA have been observed in vivo, and it is not clear what the physiologically relevant form of the enzyme is . The core of each monomer consists of an incomplete TIM barrel, formed by the N-terminal region of the protein, containing a [4Fe-4S] cluster. The C-terminal region of the protein, which also contains a [4Fe-4S] cluster consists of a beta-sheet covering the lateral opening of the barrel, an extended loop and three alpha helices. The N-terminal [4Fe-4S] cluster is coordinated with 3 cysteines and an exchangeable SAM molecule, while the C-terminal [4Fe-4S], also coordinated with 3 cysteines, is the binding and activation site for GTP .; GO: 0046872 metal ion binding, 0006777 Mo-molybdopterin cofactor biosynthetic process.
Probab=20.66 E-value=57 Score=13.17 Aligned_cols=103 Identities=17% Similarity=0.191 Sum_probs=67.8
Q ss_pred CCHHHHHHHHHH-CC--CCEEEECCHH-----HHHHHHHHCCCCCEEE-ECCCCHHHHHHHHH-H-HHHCCCCCHHHHHH
Q ss_conf 798999999998-79--9899985599-----9999998389852673-06897469888875-4-21013489989999
Q gi|254780333|r 43 LGCEKIAPALYN-AG--VQDFFVTSVE-----EGVKLRLYTPQARIFV-LYGIHPGQEKIIFD-T-NLIPVISSVPQLTF 111 (370)
Q Consensus 43 hG~~~va~~l~~-~G--v~~faVa~~~-----EA~~lR~~g~~~~Ilv-l~~~~~~~~~~~~~-~-~i~~~i~s~~~l~~ 111 (370)
+++..+++.+.+ .| +..++.+|.. .|..|+++|.+. |=| |=.+.|+.+..+.. . ++..| |+-
T Consensus 77 ~~l~~lv~~~~~~~g~~~~di~lTTNG~~L~~~a~~L~eAGL~r-vNvSLDsLd~~~F~~It~~~~~l~~V------l~G 149 (346)
T TIGR02666 77 KDLVELVARLAALPGIEIEDIALTTNGLLLERHAKDLKEAGLKR-VNVSLDSLDPERFAKITRRGGRLEQV------LAG 149 (346)
T ss_pred CCHHHHHHHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHCCCCC-EEEEEECCCHHHHHHHHCCCCCHHHH------HHH
T ss_conf 67589999998427854335541005223588999999718880-36540148889999985789988899------999
Q ss_pred HHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCH
Q ss_conf 8888760887761676126667655698899999988886310001
Q gi|254780333|r 112 YSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFNKKLGQL 157 (370)
Q Consensus 112 l~~~~~~~~~~~vhlkiDTGM~R~G~~~~e~~~~~~~~~~~~~~~i 157 (370)
++++.+.|.+. +||||=+= =|++.+|..++++-..+.+ +.|
T Consensus 150 i~aA~~~Gl~~---vKlN~V~~-~G~Nd~Ei~~l~~~~~~~~-~~l 190 (346)
T TIGR02666 150 IDAALEAGLKP---VKLNTVVL-RGVNDDEIVDLAEFAKERG-VTL 190 (346)
T ss_pred HHHHHHCCCCC---EEEEEEEC-CCCCHHHHHHHHHHHHHCC-CEE
T ss_conf 99999659983---14766762-7889778999999997579-607
No 164
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA; InterPro: IPR014330 This small protein has a single S4 domain (IPR002942 from INTERPRO); it is also found in bacterial S4 ribosomal proteins, some pseudouridine synthases and tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members that are not near recF are found instead near dnaA and/or dnaN, the usual neighbours of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage..
Probab=20.53 E-value=58 Score=13.15 Aligned_cols=29 Identities=24% Similarity=0.316 Sum_probs=20.9
Q ss_pred CCCCEEEECCEEEEEEEECCCCCEEEECCCCCCCCCCCEEEEE
Q ss_conf 3288699999995077004256479966887787888789997
Q gi|254780333|r 295 FLGGKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIF 337 (370)
Q Consensus 295 ~~~~~vli~G~~~pivGrv~MD~~~vdvt~~~~~~~GD~V~l~ 337 (370)
.....|+|||...-=-|| .+.+||.|++-
T Consensus 31 L~e~~V~vNGe~e~RRGk--------------KL~~gD~i~i~ 59 (60)
T TIGR02988 31 LQENEVLVNGELENRRGK--------------KLYPGDVIEIP 59 (60)
T ss_pred HHCCCEEECCEEECCCCC--------------EECCCCEEEEC
T ss_conf 706955547844045887--------------00489668826
No 165
>PRK00230 orotidine 5'-phosphate decarboxylase; Reviewed
Probab=20.21 E-value=59 Score=13.10 Aligned_cols=30 Identities=17% Similarity=0.180 Sum_probs=20.4
Q ss_pred CEEEEEEHHHHHHHHHHHHHHCCCCEEEEEEEC
Q ss_conf 509998688999999999862899759999932
Q gi|254780333|r 6 FLRLKIDLTALKNNWHSMNALSGNARTAAVVKD 38 (370)
Q Consensus 6 ~~~leIdl~al~~Ni~~i~~~~~~~~i~aVVKa 38 (370)
.+-+-.|.+.....++.+.++.+.. +++|=
T Consensus 4 ~livAlD~~~~~~~~~l~~~l~~~i---~~~Ki 33 (231)
T PRK00230 4 RLIVALDFPSKEEALAFLDQLDPAV---LFVKV 33 (231)
T ss_pred CEEEEECCCCHHHHHHHHHHHCCCC---CEEEE
T ss_conf 8899964899999999999717755---29998
No 166
>TIGR00216 ispH_lytB 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants . LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood . Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response .; GO: 0019288 isopentenyl diphosphate biosynthetic process mevalonate-independent pathway.
Probab=20.16 E-value=59 Score=13.10 Aligned_cols=10 Identities=20% Similarity=0.305 Sum_probs=3.8
Q ss_pred CCCEEEECCC
Q ss_conf 8526730689
Q gi|254780333|r 77 QARIFVLYGI 86 (370)
Q Consensus 77 ~~~Ilvl~~~ 86 (370)
..||++++++
T Consensus 31 g~~vyt~g~I 40 (354)
T TIGR00216 31 GKPVYTLGEI 40 (354)
T ss_pred CCCEEEECCC
T ss_conf 8977885760
No 167
>PRK13140 consensus
Probab=20.09 E-value=59 Score=13.09 Aligned_cols=75 Identities=11% Similarity=0.108 Sum_probs=43.6
Q ss_pred HHHHHHHCCCCEEEEEEECCC-CCCCHHHHHHHHHHCCCCEEEECC--HHH-HH----HHHHHCCCCCEEEECCCCH-HH
Q ss_conf 999986289975999993286-657989999999987998999855--999-99----9998389852673068974-69
Q gi|254780333|r 20 WHSMNALSGNARTAAVVKDNA-YGLGCEKIAPALYNAGVQDFFVTS--VEE-GV----KLRLYTPQARIFVLYGIHP-GQ 90 (370)
Q Consensus 20 i~~i~~~~~~~~i~aVVKanA-YGhG~~~va~~l~~~Gv~~faVa~--~~E-A~----~lR~~g~~~~Ilvl~~~~~-~~ 90 (370)
++.+|+. .+..+..+.=.|= |-.|.+.-++.+.++|++++-+.. .+| +. ..++.|++ .|.+..|..+ +.
T Consensus 82 ~~~~r~~-~~~pivlM~Y~N~i~~~G~e~F~~~~~~~GvdGlIipDLP~ee~~~~~~~~~~~~~i~-~I~lvaPtt~~~R 159 (257)
T PRK13140 82 LKDIRKE-VQIPLILMGYLNPIMQYGFEKFCKKCAETGIDGVIIPDLPFDDYQEHYKEIFEKYGLK-NIMLITPQTSEER 159 (257)
T ss_pred HHHHHCC-CCCCEEEEECHHHHHHHCHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHCCCC-EEEEECCCCCHHH
T ss_conf 9997436-8988899905599985179999999998499869835998567589999999986997-7998689998999
Q ss_pred HHHHHH
Q ss_conf 888875
Q gi|254780333|r 91 EKIIFD 96 (370)
Q Consensus 91 ~~~~~~ 96 (370)
++.+.+
T Consensus 160 i~~i~~ 165 (257)
T PRK13140 160 IREIDS 165 (257)
T ss_pred HHHHHH
T ss_conf 999997
Done!