Query 017966
Match_columns 363
No_of_seqs 188 out of 1444
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 04:59:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017966.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017966hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02235 ATP citrate (pro-S)-l 100.0 3E-90 6.6E-95 682.5 38.0 361 1-361 61-421 (423)
2 COG0045 SucC Succinyl-CoA synt 100.0 1.6E-82 3.5E-87 613.0 34.7 326 1-361 49-386 (387)
3 PLN00124 succinyl-CoA ligase [ 100.0 8E-78 1.7E-82 600.7 35.2 325 1-360 78-421 (422)
4 PRK14046 malate--CoA ligase su 100.0 1.9E-72 4.1E-77 560.5 36.7 328 1-362 49-388 (392)
5 TIGR01016 sucCoAbeta succinyl- 100.0 6.8E-66 1.5E-70 513.9 36.2 322 2-359 50-385 (386)
6 KOG1447 GTP-specific succinyl- 100.0 5.4E-66 1.2E-70 474.3 24.9 324 1-358 68-410 (412)
7 PRK00696 sucC succinyl-CoA syn 100.0 3.7E-61 8E-66 480.1 36.7 325 2-360 50-386 (388)
8 KOG2799 Succinyl-CoA synthetas 100.0 1.3E-59 2.8E-64 445.9 12.1 327 1-361 71-423 (434)
9 PF08442 ATP-grasp_2: ATP-gras 100.0 1.6E-33 3.5E-38 256.9 15.3 144 1-144 48-202 (202)
10 PF13549 ATP-grasp_5: ATP-gras 99.9 2.6E-26 5.7E-31 212.5 8.1 150 6-158 61-222 (222)
11 KOG1254 ATP-citrate lyase [Ene 99.9 4.9E-26 1.1E-30 224.0 1.0 354 1-355 88-489 (600)
12 PF00549 Ligase_CoA: CoA-ligas 99.7 1.1E-17 2.4E-22 146.1 9.0 124 215-356 1-151 (153)
13 TIGR02717 AcCoA-syn-alpha acet 99.6 5.5E-15 1.2E-19 150.5 16.4 129 208-360 294-445 (447)
14 COG1042 Acyl-CoA synthetase (N 99.6 1.9E-15 4E-20 157.5 6.2 286 42-360 122-449 (598)
15 COG1042 Acyl-CoA synthetase (N 98.1 7.4E-07 1.6E-11 93.6 1.0 76 8-93 518-595 (598)
16 PLN02522 ATP citrate (pro-S)-l 97.4 0.002 4.4E-08 68.0 13.0 128 208-359 166-314 (608)
17 PF13607 Succ_CoA_lig: Succiny 97.1 0.0052 1.1E-07 53.0 10.6 90 210-319 2-91 (138)
18 PTZ00187 succinyl-CoA syntheta 97.1 0.0079 1.7E-07 58.9 13.0 128 208-359 168-313 (317)
19 PRK06091 membrane protein FdrA 97.1 0.0053 1.1E-07 63.9 11.7 120 208-360 192-317 (555)
20 COG0074 SucD Succinyl-CoA synt 96.9 0.0064 1.4E-07 58.0 10.0 133 200-360 134-290 (293)
21 TIGR02717 AcCoA-syn-alpha acet 96.7 0.022 4.9E-07 58.4 13.0 126 209-359 150-288 (447)
22 TIGR01019 sucCoAalpha succinyl 96.4 0.054 1.2E-06 52.4 12.4 124 209-357 143-284 (286)
23 PLN00125 Succinyl-CoA ligase [ 96.4 0.078 1.7E-06 51.6 13.3 127 208-359 149-294 (300)
24 PRK05678 succinyl-CoA syntheta 96.1 0.078 1.7E-06 51.4 12.0 127 208-359 144-288 (291)
25 KOG1255 Succinyl-CoA synthetas 92.7 0.21 4.6E-06 46.8 5.3 105 204-325 171-278 (329)
26 PRK08654 pyruvate carboxylase 92.6 1.6 3.5E-05 45.4 12.3 59 11-73 167-225 (499)
27 TIGR00640 acid_CoA_mut_C methy 92.5 2.2 4.7E-05 36.5 11.0 105 226-359 23-127 (132)
28 PRK02261 methylaspartate mutas 91.0 3.4 7.3E-05 35.5 10.6 107 226-361 24-136 (137)
29 PRK14569 D-alanyl-alanine synt 90.7 2.5 5.5E-05 40.7 10.7 48 11-70 145-192 (296)
30 TIGR00514 accC acetyl-CoA carb 90.6 6.3 0.00014 40.2 14.0 59 11-73 167-225 (449)
31 PRK07178 pyruvate carboxylase 88.9 5.7 0.00012 41.0 12.3 60 10-73 165-224 (472)
32 PRK09288 purT phosphoribosylgl 88.1 6.7 0.00014 39.0 11.9 56 11-72 164-219 (395)
33 PRK08591 acetyl-CoA carboxylas 87.6 6.7 0.00014 39.9 11.7 60 10-73 166-225 (451)
34 PLN02735 carbamoyl-phosphate s 87.4 7.3 0.00016 44.7 12.9 54 11-72 195-248 (1102)
35 cd02071 MM_CoA_mut_B12_BD meth 87.1 7.1 0.00015 32.5 9.7 103 224-355 18-120 (122)
36 TIGR02712 urea_carbox urea car 86.9 5.8 0.00013 45.8 11.7 59 11-73 165-223 (1201)
37 PRK08462 biotin carboxylase; V 86.7 9.7 0.00021 38.8 12.3 59 11-73 169-227 (445)
38 PF01071 GARS_A: Phosphoribosy 86.0 2.7 5.8E-05 38.4 7.0 51 11-66 53-103 (194)
39 COG0616 SppA Periplasmic serin 85.3 3.4 7.3E-05 40.5 7.8 59 247-320 79-139 (317)
40 PRK10949 protease 4; Provision 85.1 2.9 6.3E-05 44.8 7.7 61 246-320 345-407 (618)
41 cd07014 S49_SppA Signal peptid 84.8 5.8 0.00013 35.1 8.5 73 243-329 17-91 (177)
42 cd00578 L-fuc_L-ara-isomerases 84.6 20 0.00044 36.7 13.5 125 211-357 2-147 (452)
43 PF02601 Exonuc_VII_L: Exonucl 84.2 13 0.00029 36.0 11.5 124 209-360 14-146 (319)
44 PRK12833 acetyl-CoA carboxylas 84.2 14 0.00031 38.0 12.2 53 10-66 169-221 (467)
45 TIGR01142 purT phosphoribosylg 83.8 18 0.00039 35.7 12.4 53 10-68 150-202 (380)
46 TIGR01235 pyruv_carbox pyruvat 83.7 13 0.00029 42.7 12.5 59 11-73 167-225 (1143)
47 PRK06091 membrane protein FdrA 82.8 14 0.00029 39.1 11.2 104 239-360 373-494 (555)
48 PRK14573 bifunctional D-alanyl 82.6 8.1 0.00018 42.7 10.2 48 10-67 624-671 (809)
49 cd02072 Glm_B12_BD B12 binding 82.6 18 0.00039 30.8 10.1 98 228-354 22-125 (128)
50 TIGR01161 purK phosphoribosyla 82.5 35 0.00077 33.4 13.8 51 10-72 148-198 (352)
51 PLN02948 phosphoribosylaminoim 82.2 30 0.00064 36.9 13.8 51 11-71 172-222 (577)
52 PRK01372 ddl D-alanine--D-alan 82.1 32 0.00069 32.8 13.1 56 10-76 147-202 (304)
53 TIGR00705 SppA_67K signal pept 81.9 4.5 9.9E-05 43.0 7.6 63 248-324 329-393 (584)
54 PRK08463 acetyl-CoA carboxylas 81.0 42 0.0009 34.7 14.2 59 11-73 167-225 (478)
55 cd07019 S49_SppA_1 Signal pept 80.6 8.9 0.00019 35.1 8.2 72 245-328 18-89 (211)
56 TIGR02313 HpaI-NOT-DapA 2,4-di 80.3 22 0.00047 34.4 11.2 111 239-362 9-125 (294)
57 PRK12999 pyruvate carboxylase; 80.0 24 0.00051 40.8 12.9 59 11-73 171-229 (1146)
58 PRK05586 biotin carboxylase; V 80.0 51 0.0011 33.6 14.3 60 10-73 166-225 (447)
59 PRK06019 phosphoribosylaminoim 79.7 48 0.001 32.9 13.7 50 11-72 151-200 (372)
60 PRK06524 biotin carboxylase-li 79.1 28 0.00061 36.3 12.0 47 11-69 196-242 (493)
61 TIGR00683 nanA N-acetylneurami 78.2 28 0.00061 33.5 11.2 110 240-362 10-126 (290)
62 PRK04147 N-acetylneuraminate l 77.7 27 0.00059 33.5 11.0 110 239-361 12-128 (293)
63 TIGR01501 MthylAspMutase methy 77.7 40 0.00086 28.9 10.7 95 240-358 31-131 (134)
64 PLN02735 carbamoyl-phosphate s 77.7 30 0.00064 39.8 12.8 53 11-71 752-804 (1102)
65 cd07018 S49_SppA_67K_type Sign 77.6 9.1 0.0002 35.3 7.4 60 245-318 26-87 (222)
66 cd00952 CHBPH_aldolase Trans-o 77.3 27 0.00058 34.0 10.9 105 245-362 23-133 (309)
67 PLN02417 dihydrodipicolinate s 77.1 32 0.0007 32.9 11.2 108 240-360 11-124 (280)
68 COG0329 DapA Dihydrodipicolina 77.1 28 0.00062 33.8 10.9 109 241-362 15-129 (299)
69 COG2185 Sbm Methylmalonyl-CoA 77.0 49 0.0011 28.8 11.2 96 242-361 44-139 (143)
70 PF02786 CPSase_L_D2: Carbamoy 76.4 23 0.0005 32.6 9.6 59 11-73 53-111 (211)
71 PRK06111 acetyl-CoA carboxylas 75.6 71 0.0015 32.4 13.9 59 11-73 167-225 (450)
72 PRK12815 carB carbamoyl phosph 75.3 9.1 0.0002 43.8 7.9 55 11-73 178-232 (1068)
73 PRK03620 5-dehydro-4-deoxygluc 73.6 44 0.00095 32.4 11.2 109 239-361 16-130 (303)
74 TIGR00706 SppA_dom signal pept 73.1 18 0.0004 32.9 8.1 64 248-326 13-78 (207)
75 cd07023 S49_Sppa_N_C Signal pe 72.7 25 0.00054 31.9 8.8 68 246-327 15-84 (208)
76 PRK03170 dihydrodipicolinate s 72.6 47 0.001 31.8 11.2 109 240-361 11-125 (292)
77 TIGR00674 dapA dihydrodipicoli 72.4 53 0.0011 31.4 11.4 110 240-362 8-123 (285)
78 cd00394 Clp_protease_like Case 71.6 30 0.00066 29.7 8.8 64 248-328 11-76 (161)
79 PRK13278 purP 5-formaminoimida 71.1 29 0.00062 34.7 9.5 58 10-73 163-221 (358)
80 cd00408 DHDPS-like Dihydrodipi 71.0 57 0.0012 30.8 11.3 109 240-361 7-121 (281)
81 cd00950 DHDPS Dihydrodipicolin 69.7 60 0.0013 30.8 11.1 109 240-361 10-124 (284)
82 COG0075 Serine-pyruvate aminot 69.3 36 0.00077 34.4 9.7 83 203-302 74-161 (383)
83 cd02067 B12-binding B12 bindin 68.6 57 0.0012 26.5 9.4 100 224-355 18-117 (119)
84 PF02222 ATP-grasp: ATP-grasp 65.7 99 0.0021 27.5 10.9 51 11-73 44-94 (172)
85 COG0458 CarB Carbamoylphosphat 65.5 23 0.00049 35.9 7.3 60 11-78 165-224 (400)
86 cd07022 S49_Sppa_36K_type Sign 65.2 51 0.0011 30.1 9.3 66 245-325 22-89 (214)
87 PRK05294 carB carbamoyl phosph 64.9 22 0.00048 40.7 8.1 54 11-72 178-231 (1066)
88 PF00701 DHDPS: Dihydrodipicol 64.5 74 0.0016 30.3 10.6 110 240-361 11-125 (289)
89 PLN02257 phosphoribosylamine-- 64.1 19 0.00041 36.9 6.7 51 11-66 152-202 (434)
90 cd00954 NAL N-Acetylneuraminic 63.9 90 0.002 29.8 11.1 110 240-362 10-126 (288)
91 TIGR01205 D_ala_D_alaTIGR D-al 63.1 1.4E+02 0.0031 28.4 13.7 49 11-70 161-210 (315)
92 TIGR03249 KdgD 5-dehydro-4-deo 62.7 95 0.0021 29.8 11.0 108 240-361 15-128 (296)
93 PF07478 Dala_Dala_lig_C: D-al 61.9 32 0.00069 31.3 7.2 45 11-66 48-92 (203)
94 TIGR01369 CPSaseII_lrg carbamo 61.6 25 0.00054 40.2 7.7 54 11-72 177-230 (1050)
95 cd00951 KDGDH 5-dehydro-4-deox 61.2 1.1E+02 0.0024 29.2 11.2 108 240-361 10-123 (289)
96 PRK13277 5-formaminoimidazole- 61.2 33 0.00071 34.4 7.6 66 4-73 161-228 (366)
97 TIGR00877 purD phosphoribosyla 60.4 23 0.00051 35.6 6.6 50 11-66 155-204 (423)
98 TIGR00237 xseA exodeoxyribonuc 60.0 58 0.0013 33.4 9.4 121 209-357 129-255 (432)
99 TIGR01369 CPSaseII_lrg carbamo 58.6 92 0.002 35.7 11.6 47 11-65 719-765 (1050)
100 PRK14571 D-alanyl-alanine synt 58.2 26 0.00056 33.5 6.2 46 10-66 139-184 (299)
101 PRK00885 phosphoribosylamine-- 56.2 41 0.00089 33.9 7.6 51 11-66 152-202 (420)
102 TIGR00190 thiC thiamine biosyn 55.2 1.4E+02 0.003 30.4 10.8 128 209-359 174-316 (423)
103 COG1090 Predicted nucleoside-d 53.3 26 0.00057 33.9 5.2 132 210-357 158-295 (297)
104 PRK05294 carB carbamoyl phosph 52.6 1.2E+02 0.0027 34.7 11.4 48 11-66 719-766 (1066)
105 PRK00286 xseA exodeoxyribonucl 51.8 79 0.0017 32.2 8.9 119 209-357 135-260 (438)
106 cd07021 Clp_protease_NfeD_like 51.1 68 0.0015 28.7 7.3 60 251-328 16-77 (178)
107 COG5012 Predicted cobalamin bi 50.9 90 0.002 29.2 8.1 102 226-360 125-226 (227)
108 PRK13352 thiamine biosynthesis 50.7 2E+02 0.0043 29.5 11.1 128 209-359 177-319 (431)
109 PRK12419 riboflavin synthase s 50.3 1.8E+02 0.0039 25.7 13.6 113 224-360 31-149 (158)
110 cd06288 PBP1_sucrose_transcrip 49.6 2E+02 0.0043 25.9 12.5 120 210-360 117-245 (269)
111 COG0439 AccC Biotin carboxylas 48.5 2.6E+02 0.0057 28.9 11.9 59 11-73 167-225 (449)
112 PRK14194 bifunctional 5,10-met 48.5 2.1E+02 0.0046 27.9 10.7 57 292-354 144-202 (301)
113 COG0151 PurD Phosphoribosylami 48.1 40 0.00086 34.5 5.8 52 10-66 152-203 (428)
114 PRK11778 putative inner membra 46.9 42 0.00091 33.2 5.7 41 271-321 124-166 (330)
115 cd07020 Clp_protease_NfeD_1 No 46.2 89 0.0019 27.9 7.3 61 250-328 15-80 (187)
116 PRK13789 phosphoribosylamine-- 45.5 51 0.0011 33.6 6.3 51 11-66 158-208 (426)
117 COG3693 XynA Beta-1,4-xylanase 44.9 1.5E+02 0.0033 29.4 9.0 96 239-341 159-255 (345)
118 PF00885 DMRL_synthase: 6,7-di 43.4 94 0.002 26.9 6.7 110 224-360 24-139 (144)
119 PF13433 Peripla_BP_5: Peripla 42.6 68 0.0015 32.2 6.5 68 222-302 24-92 (363)
120 PRK13790 phosphoribosylamine-- 42.6 63 0.0014 32.3 6.4 47 11-66 117-163 (379)
121 PF13535 ATP-grasp_4: ATP-gras 42.6 59 0.0013 27.8 5.5 52 10-69 53-104 (184)
122 cd07013 S14_ClpP Caseinolytic 42.4 64 0.0014 28.2 5.7 64 248-328 12-77 (162)
123 cd07016 S14_ClpP_1 Caseinolyti 42.4 94 0.002 26.7 6.7 64 248-329 15-78 (160)
124 PF01964 ThiC: ThiC family; I 41.0 92 0.002 31.7 7.0 128 208-360 172-316 (420)
125 cd00953 KDG_aldolase KDG (2-ke 40.0 3.4E+02 0.0073 25.8 11.2 104 241-360 11-120 (279)
126 TIGR00705 SppA_67K signal pept 39.0 1.1E+02 0.0024 32.7 7.7 56 247-317 75-134 (584)
127 cd06300 PBP1_ABC_sugar_binding 38.1 2E+02 0.0044 26.1 8.7 56 245-319 164-219 (272)
128 COG0541 Ffh Signal recognition 37.8 2.3E+02 0.005 29.2 9.4 77 273-362 103-181 (451)
129 PRK13789 phosphoribosylamine-- 37.4 1.3E+02 0.0028 30.6 7.8 118 211-355 6-139 (426)
130 COG0436 Aspartate/tyrosine/aro 37.4 86 0.0019 31.6 6.4 79 210-302 89-196 (393)
131 PRK14568 vanB D-alanine--D-lac 36.3 4.2E+02 0.0091 25.9 13.4 46 10-66 179-224 (343)
132 PRK14188 bifunctional 5,10-met 36.2 2.6E+02 0.0057 27.2 9.3 57 291-353 142-200 (296)
133 PRK00061 ribH 6,7-dimethyl-8-r 35.1 3.1E+02 0.0067 24.0 14.1 115 222-361 31-149 (154)
134 TIGR01101 V_ATP_synt_F vacuola 34.7 2.1E+02 0.0046 23.8 7.2 60 239-318 34-93 (115)
135 PRK01966 ddl D-alanyl-alanine 34.1 78 0.0017 30.9 5.4 44 10-64 176-219 (333)
136 cd02810 DHOD_DHPD_FMN Dihydroo 33.6 2.7E+02 0.0059 26.3 9.0 62 243-320 104-173 (289)
137 PRK10949 protease 4; Provision 33.2 1.1E+02 0.0024 33.0 6.7 53 248-315 95-151 (618)
138 PF00448 SRP54: SRP54-type pro 32.4 3.2E+02 0.007 24.6 8.8 77 273-360 4-80 (196)
139 PF00574 CLP_protease: Clp pro 32.1 1.5E+02 0.0033 26.0 6.5 77 240-329 17-94 (182)
140 COG0299 PurN Folate-dependent 32.0 2.9E+02 0.0062 25.4 8.1 68 273-356 3-75 (200)
141 PLN02444 HMP-P synthase 31.7 4.3E+02 0.0093 28.3 10.3 127 209-358 332-473 (642)
142 cd07015 Clp_protease_NfeD Nodu 31.6 1.4E+02 0.0031 26.6 6.2 48 268-328 28-80 (172)
143 cd06311 PBP1_ABC_sugar_binding 31.5 3.1E+02 0.0068 24.9 8.8 65 246-329 165-229 (274)
144 cd02070 corrinoid_protein_B12- 31.3 3.9E+02 0.0084 24.0 9.2 99 224-355 101-199 (201)
145 cd07017 S14_ClpP_2 Caseinolyti 30.1 2.8E+02 0.0062 24.2 7.9 76 240-329 10-87 (171)
146 COG4981 Enoyl reductase domain 30.0 4.4E+02 0.0095 28.2 10.0 142 207-362 30-174 (717)
147 KOG2862 Alanine-glyoxylate ami 29.9 1.3E+02 0.0028 29.9 5.8 65 203-277 86-150 (385)
148 KOG0781 Signal recognition par 29.9 3.7E+02 0.0079 28.4 9.3 103 244-360 447-555 (587)
149 PRK14570 D-alanyl-alanine synt 29.7 1.2E+02 0.0026 30.3 5.9 45 10-65 185-229 (364)
150 PRK12815 carB carbamoyl phosph 29.5 6.4E+02 0.014 29.1 12.4 45 11-66 720-764 (1068)
151 cd02069 methionine_synthase_B1 29.4 4.5E+02 0.0097 24.1 9.5 104 223-358 106-212 (213)
152 PF13407 Peripla_BP_4: Peripla 29.4 3.8E+02 0.0083 24.0 9.0 121 210-361 123-251 (257)
153 TIGR00877 purD phosphoribosyla 29.3 4.2E+02 0.009 26.5 9.9 28 323-354 107-134 (423)
154 PRK14572 D-alanyl-alanine synt 28.6 1.1E+02 0.0024 30.1 5.4 43 11-64 186-228 (347)
155 PRK07206 hypothetical protein; 28.3 1.6E+02 0.0034 29.4 6.6 49 11-63 161-209 (416)
156 COG2185 Sbm Methylmalonyl-CoA 27.2 1.1E+02 0.0023 26.7 4.3 36 323-358 27-62 (143)
157 PRK05198 2-dehydro-3-deoxyphos 27.0 3.1E+02 0.0067 26.3 7.8 25 316-340 61-85 (264)
158 PF02782 FGGY_C: FGGY family o 26.5 3.8E+02 0.0082 23.3 8.1 86 267-357 104-193 (198)
159 KOG1254 ATP-citrate lyase [Ene 26.4 1.2E+02 0.0025 31.8 5.1 94 208-319 158-252 (600)
160 PF08353 DUF1727: Domain of un 26.1 3.8E+02 0.0082 22.1 7.5 85 250-357 5-96 (113)
161 TIGR01036 pyrD_sub2 dihydrooro 26.1 5.4E+02 0.012 25.3 9.8 62 249-320 152-221 (335)
162 PRK12767 carbamoyl phosphate s 25.9 2E+02 0.0044 27.4 6.7 44 11-69 163-206 (326)
163 COG1992 Uncharacterized conser 25.5 3.4E+02 0.0075 24.5 7.4 20 340-361 160-179 (181)
164 cd01575 PBP1_GntR Ligand-bindi 25.5 4.9E+02 0.011 23.2 9.9 120 209-360 116-244 (268)
165 TIGR01362 KDO8P_synth 3-deoxy- 25.1 3.3E+02 0.0072 26.0 7.6 25 316-340 53-77 (258)
166 PLN02495 oxidoreductase, actin 24.9 4.3E+02 0.0094 26.7 8.9 60 244-318 120-191 (385)
167 PRK04690 murD UDP-N-acetylmura 24.8 5.9E+02 0.013 26.1 10.2 94 241-358 325-418 (468)
168 PF01990 ATP-synt_F: ATP synth 24.4 2.1E+02 0.0045 22.5 5.4 55 248-320 25-79 (95)
169 TIGR01358 DAHP_synth_II 3-deox 24.3 3.6E+02 0.0079 27.8 8.2 95 238-361 278-379 (443)
170 PRK12457 2-dehydro-3-deoxyphos 24.3 3.7E+02 0.0079 26.1 7.8 25 316-340 67-91 (281)
171 PTZ00323 NAD+ synthase; Provis 24.0 3.8E+02 0.0082 26.0 8.1 75 268-357 44-122 (294)
172 PF15609 PRTase_2: Phosphoribo 23.4 1.5E+02 0.0033 27.0 4.9 46 292-341 138-183 (191)
173 cd06283 PBP1_RegR_EndR_KdgR_li 23.3 5.4E+02 0.012 22.9 11.2 121 210-360 117-245 (267)
174 PRK15395 methyl-galactoside AB 22.8 6.8E+02 0.015 23.9 11.5 88 246-360 203-292 (330)
175 cd07109 ALDH_AAS00426 Uncharac 22.8 8E+02 0.017 24.8 10.7 21 208-228 117-137 (454)
176 COG3077 RelB DNA-damage-induci 22.3 1.2E+02 0.0026 24.2 3.4 34 314-360 9-42 (88)
177 KOG3432 Vacuolar H+-ATPase V1 22.3 2.2E+02 0.0049 23.7 5.1 37 238-278 35-71 (121)
178 cd02070 corrinoid_protein_B12- 22.2 4.8E+02 0.01 23.4 8.0 46 312-357 86-131 (201)
179 TIGR00640 acid_CoA_mut_C methy 22.2 2.7E+02 0.0058 23.5 5.9 6 283-288 13-18 (132)
180 PRK02261 methylaspartate mutas 22.1 2.7E+02 0.0058 23.7 6.0 47 312-358 7-53 (137)
181 PF08846 DUF1816: Domain of un 22.0 58 0.0013 24.7 1.6 18 338-355 21-38 (68)
182 cd04741 DHOD_1A_like Dihydroor 21.8 7.1E+02 0.015 23.8 9.5 61 242-318 96-166 (294)
183 COG3962 Acetolactate synthase 21.7 90 0.002 32.6 3.3 32 308-339 229-260 (617)
184 PF00532 Peripla_BP_1: Peripla 21.5 3.1E+02 0.0067 25.8 6.9 63 225-302 141-203 (279)
185 PLN02291 phospho-2-dehydro-3-d 21.4 3.7E+02 0.008 28.0 7.6 95 238-361 298-399 (474)
186 PRK11235 bifunctional antitoxi 21.4 1.4E+02 0.0031 23.2 3.7 11 347-357 26-36 (80)
187 PRK01368 murD UDP-N-acetylmura 21.4 7.2E+02 0.016 25.4 10.0 88 241-361 322-409 (454)
188 TIGR00959 ffh signal recogniti 21.2 6.9E+02 0.015 25.6 9.7 77 274-360 103-179 (428)
189 cd07113 ALDH_PADH_NahF Escheri 21.2 8.8E+02 0.019 24.9 10.6 17 116-132 60-76 (477)
190 PF03610 EIIA-man: PTS system 21.2 4.4E+02 0.0096 21.2 7.8 97 212-330 2-102 (116)
191 COG1181 DdlA D-alanine-D-alani 21.1 4E+02 0.0086 26.1 7.7 45 11-66 157-201 (317)
192 cd07110 ALDH_F10_BADH Arabidop 21.0 8.8E+02 0.019 24.6 11.0 19 115-133 40-58 (456)
193 PF03851 UvdE: UV-endonuclease 20.8 6.3E+02 0.014 24.3 8.8 93 238-340 107-207 (275)
194 PRK00885 phosphoribosylamine-- 20.8 7.5E+02 0.016 24.7 9.9 29 322-354 104-132 (420)
195 TIGR02990 ectoine_eutA ectoine 20.5 3.1E+02 0.0068 25.7 6.6 65 247-339 164-228 (239)
196 KOG0368 Acetyl-CoA carboxylase 20.2 3.4E+02 0.0074 32.6 7.6 60 4-73 249-308 (2196)
197 PLN02591 tryptophan synthase 20.0 7.5E+02 0.016 23.4 10.0 29 244-277 9-37 (250)
No 1
>PLN02235 ATP citrate (pro-S)-lyase
Probab=100.00 E-value=3e-90 Score=682.48 Aligned_cols=361 Identities=91% Similarity=1.438 Sum_probs=338.8
Q ss_pred CCccccCccCeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEeccCCCcc
Q 017966 1 MLFGKRGKSGLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFSECGGIEI 80 (363)
Q Consensus 1 ~~~GgRGKaGGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s~~GGv~v 80 (363)
+|+|||||+|||+++.|++|+++++++|+++.+.+++++++|++|||||++++.+|||+|++.||..+.|++|.+|||||
T Consensus 61 vl~GgRGKaGGVk~~~s~~Ea~~~a~~~Lg~~l~t~g~~G~v~~vLVEe~v~i~~E~Ylsi~~DR~~~~ii~S~~GGvdI 140 (423)
T PLN02235 61 MLFGKRGKSGLVALNLDLAQVATFVKERLGKEVEMGGCKGPITTFIVEPFVPHDQEFYLSIVSDRLGCSISFSECGGIEI 140 (423)
T ss_pred cccCCCcccCceEEeCCHHHHHHHHHHHhCCceEecCCCccEeEEEEEecCCCcceEEEEEEEecCCCEEEEECCCCCcc
Confidence 58999999999999999999999999999999977777779999999999999999999999999988899999999999
Q ss_pred ccccCceEEEecCCccCCCHHhHHhHHhCCChhHHHHHHHHHHHHHHHhhccCcceeeeeeeeecCCceEEeeeeeeecc
Q 017966 81 EENWDKVKTIFLPTEKHMTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDD 160 (363)
Q Consensus 81 E~~~d~~~~~pi~~~~~i~~~~a~~ll~g~~~~d~~~l~~~l~~L~~l~~~~d~~~lEINPL~v~~g~~~alDaki~ldd 160 (363)
|+.|+++++++|+|..+++++++++++.+++....+++.+++.+||++|.++|++++|||||++.||+++|+|+|+.+||
T Consensus 141 Ee~pe~i~k~~Id~~~gl~~~~~~~~~~~l~~~~~~~~~~~l~~Ly~~F~~~D~tllEINPLv~~dg~~~alDaK~~~DD 220 (423)
T PLN02235 141 EENWDKVKTIFLPTEAPLTSEICAPLIATLPLEIRGKIEEFIKGVFAVFQDLDFTFLEMNPFTLVDGEPYPLDMRGELDD 220 (423)
T ss_pred cCChhHeEEEEcCCCCCCCHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHcCCeEEEecceEeeCCCEEEEEeEEcccC
Confidence 99999999999999999999999999998888888999999999999999999999999999997789999999999999
Q ss_pred hhhhcccccccccccCCCCCCCCChhhhcccccchhhhccCCceEecCCCcEEEEecCCcHHHHHHHHHHhcCCCCCCCc
Q 017966 161 TAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGN 240 (363)
Q Consensus 161 ~a~~R~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~i~l~g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN 240 (363)
||+|||++.|..+.+|.||+++.+|+|.++.++|+++.+++++++|+|+||||||+||||++|+|||++..+|.+|+|||
T Consensus 221 nA~fR~~~~~~~~~f~~~fgr~~~~~E~~~~~~d~a~~~~l~y~~v~ldG~Ig~mvnGAGlamaTmD~I~~~G~~g~pAN 300 (423)
T PLN02235 221 TAAFKNFKKWGNIEFPLPFGRVMSPTESFIHGLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGN 300 (423)
T ss_pred CCcccCHhHhhhhcccccccCCCCHHHHhhccchhhhccCCceEEeCCCCeEEEEecCcHHHHHHHHHHHHcCCCCCCce
Confidence 99999999898888999999999999999888887777765555599999999999999999999999999844499999
Q ss_pred eeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 017966 241 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 320 (363)
Q Consensus 241 ~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~ 320 (363)
|+|+||+|+.++++++++++|++|++||+++++||||||||++||+||+||+||++|++++..++++.++|||||++|||
T Consensus 301 FlDvGG~a~~e~v~~a~~iil~~~~~~~~vk~ilvnIfGGI~rcd~VA~tf~GIi~A~~e~~~kl~~~~vpivVRl~GtN 380 (423)
T PLN02235 301 YAEYSGAPNEEEVLQYARVVIDCATANPDGRKRALLIGGGIANFTDVAATFNGIIRALREKESKLKAARMHIFVRRGGPN 380 (423)
T ss_pred eeecCCCCCHHHHHHHHHHHHhhhhcCCCCcEEEEEEecccccchhhhhhhhHHHHHHHHhhhccccCCccEEEECCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999987555556899999999999
Q ss_pred HHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhHh
Q 017966 321 YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 321 ~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
+++|+++|+++++++|+|+++|++.+||++||+++++..-.
T Consensus 381 ~eeG~~il~e~~~~~gl~i~~~~~~~~m~~a~~~av~~~~~ 421 (423)
T PLN02235 381 YQKGLAKMRALGEEIGVPIEVYGPEATMTGICKQAIDYITA 421 (423)
T ss_pred HHHHHHHHHHhHHhcCCcEEEeCCCCCHHHHHHHHHhhhcc
Confidence 99999999988888999999999999999999999975433
No 2
>COG0045 SucC Succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=100.00 E-value=1.6e-82 Score=613.05 Aligned_cols=326 Identities=26% Similarity=0.379 Sum_probs=298.8
Q ss_pred CCccccCccCeEEeeCCHHHHHHHHHHHhcccccccCCce-eeeEEEEeeecCC-CceEEEEEEEeCC--CCeEEEeccC
Q 017966 1 MLFGKRGKSGLVALNLDLAQVAEFVKGRLGTEVEMGGCKG-PITTFIVEPFVPH-NQEYYLSIVSDRL--GCTISFSECG 76 (363)
Q Consensus 1 ~~~GgRGKaGGV~l~~~~eea~~aa~~ll~~~~~~~~~~~-~v~gvLVe~~~~~-~~E~ylgi~~D~~--~p~ii~s~~G 76 (363)
+|+|||||+|||+++.|++|+++++++|+++..+ +.+.+ .|+.||||+++++ .+|||+|+..||+ .|++|+|.+|
T Consensus 49 V~aGGRGKaGGVk~~~s~~ea~~~a~~~lg~~~q-~~~~G~~v~~vlvee~~~~~~~E~Ylsiv~DR~~~~p~~~~S~eG 127 (387)
T COG0045 49 VHAGGRGKAGGVKLAKSPEEAKEAAEEILGKNYQ-TDIKGEPVNKVLVEEAVDIIKKEYYLSIVLDRSSRRPVLMASTEG 127 (387)
T ss_pred eeecCccccCceEEeCCHHHHHHHHHHHhCcccc-cCcCCceeeEEEEEecCCCccceEEEEEEEEcCCCcEEEEEecCC
Confidence 4799999999999999999999999999997754 44555 7999999999995 5599999999998 5889999999
Q ss_pred CCccccc----cCceEEEecCCccCCCHHhHHhHHh--CCChhHHHHHHHHHHHHHHHhhccCcceeeeeeeee-c-CCc
Q 017966 77 GIEIEEN----WDKVKTIFLPTEKHMTLDACAPLIA--TLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-V-NGE 148 (363)
Q Consensus 77 Gv~vE~~----~d~~~~~pi~~~~~i~~~~a~~ll~--g~~~~d~~~l~~~l~~L~~l~~~~d~~~lEINPL~v-~-~g~ 148 (363)
|||||++ |+++++++++|..+++++++|+++. |+++..++++++++.+||++|.++|++++|||||++ . +|+
T Consensus 128 GmDIEeVa~~~PekI~k~~idp~~g~~~~~aR~la~~lgl~~~~~~~~~~ii~~Ly~~f~~~Da~lvEINPLvvt~~~g~ 207 (387)
T COG0045 128 GMDIEEVAEKTPEKIVKVSVDPLTGLRPYQARELAFKLGLEGELVKQVADIIKKLYKLFVEKDATLVEINPLVVTPDGGD 207 (387)
T ss_pred CccHHHhhhhChhheeEEEeCCccCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEeeccEEeCCCCc
Confidence 9999997 4689999999999999999999987 677788899999999999999999999999999999 7 448
Q ss_pred eEEeeeeeeecchhhhcccccccccccCCCCCCCCChhhhcccccchhhhccCCceEecCCCcEEEEecCCcHHHHHHHH
Q 017966 149 PYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADT 228 (363)
Q Consensus 149 ~~alDaki~ldd~a~~R~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~i~l~g~I~ii~NG~G~~~~~~D~ 228 (363)
++|+|||+++||||+||||++ ..+++. .++++.|.+ +..++|+||+|+||||||+||+|++|+|||+
T Consensus 208 v~aLDaKi~~DdnAlfRHp~~-~~~~d~----~~ed~~e~~--------a~~~~l~yV~LdG~IG~ivNGAGLaMaTmDi 274 (387)
T COG0045 208 VLALDAKITLDDNALFRHPDL-AELRDE----SEEDPREAE--------ASGYGLNYVELDGNIGCIVNGAGLAMATMDI 274 (387)
T ss_pred EEEEeeeeeccCcccccCcch-hhhhcc----cccChhHHH--------hhhCCCceEEecCcEEEEecChhHHHHHHHH
Confidence 999999999999999999995 345554 567777654 7788999999999999999999999999999
Q ss_pred HHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcc
Q 017966 229 VGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAA 308 (363)
Q Consensus 229 l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~ 308 (363)
++.+ ||+||||+|+||+|+.|+++++++++++ ||++|+|||||||||++|+.|| +||++|+++.+ .
T Consensus 275 i~~~--Gg~PANFLDvGGgA~~e~v~~a~~~il~----d~~vk~IfVNIfGGI~rcD~vA---~GIi~Al~e~~-----~ 340 (387)
T COG0045 275 VKLY--GGKPANFLDVGGGATAERVKEAFKLILS----DPNVKAIFVNIFGGITRCDEVA---EGIIAALKEVG-----V 340 (387)
T ss_pred HHHc--CCCCcceeecCCCCCHHHHHHHHHHHhc----CCCccEEEEEEccCcCccHHHH---HHHHHHHHhcC-----C
Confidence 9997 9999999999999999999999999998 9999999999999999999999 99999999986 5
Q ss_pred cceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhHh
Q 017966 309 RMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 309 ~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
++|+||||.|||+++|+++|++ +|+++++ +++|++|++.++++++.
T Consensus 341 ~vPlVVRL~GtN~e~Gk~iL~e----sg~~i~~---~~~l~~aa~k~v~~~~~ 386 (387)
T COG0045 341 NVPLVVRLEGTNVEEGKRILAE----SGLNIIA---ADDLDEAAEKAVELAKG 386 (387)
T ss_pred CCCEEEEcCCCCHHHHHHHHHH----cCCceEe---cccHHHHHHHHHHHhhc
Confidence 7999999999999999999997 8977776 67999999999999875
No 3
>PLN00124 succinyl-CoA ligase [GDP-forming] subunit beta; Provisional
Probab=100.00 E-value=8e-78 Score=600.66 Aligned_cols=325 Identities=22% Similarity=0.335 Sum_probs=295.9
Q ss_pred CCccccCcc-------CeEEeeCCHHHHHHHHHHHhcccccc--cCCce-eeeEEEEeeecCCCceEEEEEEEeCC--CC
Q 017966 1 MLFGKRGKS-------GLVALNLDLAQVAEFVKGRLGTEVEM--GGCKG-PITTFIVEPFVPHNQEYYLSIVSDRL--GC 68 (363)
Q Consensus 1 ~~~GgRGKa-------GGV~l~~~~eea~~aa~~ll~~~~~~--~~~~~-~v~gvLVe~~~~~~~E~ylgi~~D~~--~p 68 (363)
+++|||||+ |||+++.+ +|+.+++++|+++++.+ ++|.+ .+++|||+|++.+.+|+|+|+++||. +|
T Consensus 78 v~~GGRGka~hKs~~~GGV~l~~~-eea~~aa~~il~~~lvt~qtg~~G~~v~~vlv~e~~~~~~E~ylgi~~Dr~~~gp 156 (422)
T PLN00124 78 ILAGGRGLGTFKNGLKGGVHIVKK-DKAEELAGKMLGQILVTKQTGPAGKPVNKVYLCEKMSLVNEMYFAILLDRASAGP 156 (422)
T ss_pred eccCCccccccccccCCeEEECCH-HHHHHHHHHHhccchhhcccCCCCceeceEEEEEeecCCceEEEEEEeccccCCc
Confidence 479999977 99999977 99999999999996643 34544 79999999988899999999999995 68
Q ss_pred eEEEeccCCCccc----cccCceEEEecCCccCCCHHhHHhHHhCCC--hhHHHHHHHHHHHHHHHhhccCcceeeeeee
Q 017966 69 TISFSECGGIEIE----ENWDKVKTIFLPTEKHMTLDACAPLIATLP--LEFRGKIGDFIMGVFAVFQDLDFSFIEMNPF 142 (363)
Q Consensus 69 ~ii~s~~GGv~vE----~~~d~~~~~pi~~~~~i~~~~a~~ll~g~~--~~d~~~l~~~l~~L~~l~~~~d~~~lEINPL 142 (363)
++++|++|||+|| ..+|.++++++++..+++++++++++.+++ +.+++++++++.+||++|.++|++++|||||
T Consensus 157 vil~s~~GGv~IEeva~~~pd~i~~~~id~~~~l~~~~a~~~~~~L~~~~~~~~~l~~ii~~L~~lf~~~d~~~lEINPL 236 (422)
T PLN00124 157 LIIACSKGGTSIEDLAEKFPEKIIKVPIDIFKGITDEDAAKVVDGLAPKVADRNDAIEQVKKLYKLFCKCDCTMVEINPL 236 (422)
T ss_pred EEEEECCCCccHHHhhhhCchheeEEecCcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEeece
Confidence 8888999999999 467889999999999999999999999654 5799999999999999999999999999999
Q ss_pred ee-cCCceEEeeeeeeecchhhhcccccccccccCCCCCCCCChhhhcccccchhhhccCCceEecCCCcEEEEecCCcH
Q 017966 143 TL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGA 221 (363)
Q Consensus 143 ~v-~~g~~~alDaki~ldd~a~~R~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~i~l~g~I~ii~NG~G~ 221 (363)
++ ++|+++|+|||+.+||||+||||++|. ++++ ++.+|.|.+ ++..+++||+|+||||||+||||+
T Consensus 237 ~vt~~G~~valDAKi~~DdnA~~R~~~~~~-~~~~----~~~~~~E~~--------a~~~~l~yv~ldG~Ig~~vnGaGl 303 (422)
T PLN00124 237 AETADGQLVAADAKLNFDDNAAFRQKEIFA-LRDT----SQEDPREVA--------AAKADLNYIGLDGEIGCMVNGAGL 303 (422)
T ss_pred EEccCCCEEEEEEEECcCCchhhcChhhhh-ccCc----ccCChhHHH--------HhhCCCceECCCCcEEEEecCchH
Confidence 99 888999999999999999999999875 5554 555666553 678899999999999999999999
Q ss_pred HHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHh
Q 017966 222 SVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREK 301 (363)
Q Consensus 222 ~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~ 301 (363)
+|+|||+|..+ ||+||||+|+||+|+.++++++++++++ ||++|+|||||||||++|+.|| +||++|+++.
T Consensus 304 amaTmD~i~~~--Gg~pANFlD~GG~a~~~~v~~a~~ii~~----d~~vk~iliNIfGGI~~cd~iA---~gii~a~~~~ 374 (422)
T PLN00124 304 AMATMDIIKLH--GGSPANFLDVGGNASEQQVVEAFKILTS----DDKVKAILVNIFGGIMKCDVIA---SGIVNAAKQV 374 (422)
T ss_pred HHHHHHHHHHc--CCCcceeeecCCCCCHHHHHHHHHHHhc----CCCCcEEEEEecCCccchHHHH---HHHHHHHHhc
Confidence 99999999997 9999999999999999999999999998 9999999999999999999999 9999999987
Q ss_pred hhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhH
Q 017966 302 ESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 302 ~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
. .++|||+|+.|||+++|+++|++ +|+++++ +++++||++++++++.
T Consensus 375 ~-----~~~pivvRl~Gtn~~~g~~~l~~----~~~~~~~---~~~l~~A~~~~v~~~~ 421 (422)
T PLN00124 375 G-----LKVPLVVRLEGTNVDQGKRILKE----SGMTLIT---AEDLDDAAEKAVKALA 421 (422)
T ss_pred C-----CCCcEEEEcCCCCHHHHHHHHHh----CCCCeEE---cCCHHHHHHHHHHHhc
Confidence 5 47999999999999999999996 8988876 6899999999999864
No 4
>PRK14046 malate--CoA ligase subunit beta; Provisional
Probab=100.00 E-value=1.9e-72 Score=560.47 Aligned_cols=328 Identities=25% Similarity=0.361 Sum_probs=298.8
Q ss_pred CCccccCccCeEEeeCCHHHHHHHHHHHhcccccc--cCCce-eeeEEEEeeecCCCceEEEEEEEeCC-CCeEEE-ecc
Q 017966 1 MLFGKRGKSGLVALNLDLAQVAEFVKGRLGTEVEM--GGCKG-PITTFIVEPFVPHNQEYYLSIVSDRL-GCTISF-SEC 75 (363)
Q Consensus 1 ~~~GgRGKaGGV~l~~~~eea~~aa~~ll~~~~~~--~~~~~-~v~gvLVe~~~~~~~E~ylgi~~D~~-~p~ii~-s~~ 75 (363)
+++|+|||+|||+++.|++|+.+++++|+++.+.+ ++|.+ ++++||||+|+++++|+|+|+++||. +|++++ |+.
T Consensus 49 v~~g~Rgk~GGV~l~~~~~e~~~a~~~ll~~~~~~~~~~~~g~~v~~vlVe~~~~~~~E~ylgi~~D~~~g~~v~~~s~~ 128 (392)
T PRK14046 49 IHSGARGKAGGIKLCRTYNEVRDAAEDLLGKKLVTHQTGPEGKPVQRVYVETADPIERELYLGFVLDRKSERVRVIASAR 128 (392)
T ss_pred eccCCCCcCCeEEEECCHHHHHHHHHHHhcchhhhhccCCCCCeeeeEEEEEecCCCcEEEEEEEECCCCCcEEEEEeCC
Confidence 36899999999999999999999999999997533 44454 89999999999999999999999999 566555 689
Q ss_pred CCCccccc----cCceEEEecCCccCCCHHhHHhHHh--CCChhHHHHHHHHHHHHHHHhhccCcceeeeeeeee-cCCc
Q 017966 76 GGIEIEEN----WDKVKTIFLPTEKHMTLDACAPLIA--TLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGE 148 (363)
Q Consensus 76 GGv~vE~~----~d~~~~~pi~~~~~i~~~~a~~ll~--g~~~~d~~~l~~~l~~L~~l~~~~d~~~lEINPL~v-~~g~ 148 (363)
||++||++ |+++++++|++..+++++++++++. |++....+++.+++.+||++|.++|++++|||||++ .+|+
T Consensus 129 GGv~iEe~~~~~p~~i~~~~i~~~~~~~~~~~~~~~~~lg~~~~~~~~~~~~~~~l~~~f~~~d~~l~EINPl~~~~~g~ 208 (392)
T PRK14046 129 GGMEIEEIAAKEPEAIIQVVVEPAVGLQQFQAREIAFGLGLDIKQVSRAVKTIMGCYRAFRDLDATMLEINPLVVTKDDR 208 (392)
T ss_pred CCCchHHHhhhChhheEEEEcCCCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcCcEEEEEEcceEcCCCc
Confidence 99999986 7899999999999999999999977 567788899999999999999999999999999999 9999
Q ss_pred eEEeeeeeeecchhhhcccccccccccCCCCCCCCChhhhcccccchhhhccCCceEecCCCcEEEEecCCcHHHHHHHH
Q 017966 149 PYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADT 228 (363)
Q Consensus 149 ~~alDaki~ldd~a~~R~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~i~l~g~I~ii~NG~G~~~~~~D~ 228 (363)
++|+|+|+.+||||+||||++|. ++++ .+.+|+|.+ +++++++||+|+||||||+||+|++|+|||+
T Consensus 209 ~~alD~k~~~Ddna~~r~~~~~~-~~~~----~~~~~~e~~--------a~~~~l~yv~l~G~ig~i~nGaGl~m~t~D~ 275 (392)
T PRK14046 209 VLALDAKMSFDDNALFRRPNIAE-MRDP----SQEDPREAQ--------AAEHGLSYVGLDGDIGCIVNGAGLAMATMDM 275 (392)
T ss_pred EEEEeeeECccCCchhcChhHHh-hcCc----ccCChhHHH--------HHHcCCceEccCCcEEEEeCCccHHHHHHHH
Confidence 99999999999999999999764 6666 566777664 6688999999999999999999999999999
Q ss_pred HHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcc
Q 017966 229 VGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAA 308 (363)
Q Consensus 229 l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~ 308 (363)
|..+ ||+|+||+|+||++++++|.++++++++ ||++++||+|++|++++|+.+| ++|+++.++.. .
T Consensus 276 i~~~--gg~paNPlDlgg~a~~e~~~~aL~~ll~----Dp~VdaVlv~i~ggi~~~~~vA---~~Ii~a~~~~~-----~ 341 (392)
T PRK14046 276 IKLA--GGEPANFLDVGGGASPERVAKAFRLVLS----DRNVKAILVNIFAGINRCDWVA---EGVVQAAREVG-----I 341 (392)
T ss_pred HHhc--CCCCcCCEEecCCCCHHHHHHHHHHHHc----CCCCCEEEEEcCCCCCCHHHHH---HHHHHHHHhcC-----C
Confidence 9997 8999999999999999999999999998 9999999999999999999998 99999987642 3
Q ss_pred cceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhHhc
Q 017966 309 RMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSA 362 (363)
Q Consensus 309 ~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~~~ 362 (363)
++||++|+.|++.++++++|++ +|+|++. +++|++|+++++++++++
T Consensus 342 ~kPvvv~l~G~~~e~~~~iL~~----~Gipvf~---~~~~~~a~~~~v~~~~~~ 388 (392)
T PRK14046 342 DVPLVVRLAGTNVEEGRKILAE----SGLPIIT---ADTLAEAAEKAVEAWKGA 388 (392)
T ss_pred CCcEEEEcCCCCHHHHHHHHHH----cCCCeee---cCCHHHHHHHHHHHHhhh
Confidence 6899999999999999999996 8999975 789999999999999986
No 5
>TIGR01016 sucCoAbeta succinyl-CoA synthetase, beta subunit. This family contains a split seen both in a maximum parsimony tree (which ignores gaps) and in the gap pattern near position 85 of the seed alignment. Eukaryotic and most bacterial sequences are longer and contain a region similar to TXQTXXXG. Sequences from Deinococcus radiodurans, Mycobacterium tuberculosis, Streptomyces coelicolor, and the Archaea are 6 amino acids shorter in that region and contain a motif resembling [KR]G
Probab=100.00 E-value=6.8e-66 Score=513.87 Aligned_cols=322 Identities=25% Similarity=0.349 Sum_probs=287.8
Q ss_pred CccccCccCeEEeeCCHHHHHHHHHHHhcccccccC---CceeeeEEEEeeecCCCceEEEEEEEeCC--CCeEEEeccC
Q 017966 2 LFGKRGKSGLVALNLDLAQVAEFVKGRLGTEVEMGG---CKGPITTFIVEPFVPHNQEYYLSIVSDRL--GCTISFSECG 76 (363)
Q Consensus 2 ~~GgRGKaGGV~l~~~~eea~~aa~~ll~~~~~~~~---~~~~v~gvLVe~~~~~~~E~ylgi~~D~~--~p~ii~s~~G 76 (363)
+.|||||+|||+++.|++|+.+++++++++.+.++. +...+++||||+|+++++|+|+|+++||. +|+|+||.+|
T Consensus 50 ~~ggkg~~GGV~~~~~~~e~~~a~~~l~~~~~~~~~~~~~g~~~~~vlVEe~v~~g~E~~v~i~~d~~~~~pvi~~~~~G 129 (386)
T TIGR01016 50 HAGGRGKAGGVKVAKSKEEARAAAEKLLGKELVTNQTDPLGQPVNKILIEEATDIDKEYYLSIVIDRSARCPVIMASTEG 129 (386)
T ss_pred cCCCCccCceEEEeCCHHHHHHHHHHHhccceeecccCCCCCEeeEEEEEECccCCceEEEEEEEcCCCCceEEEEECCC
Confidence 579999999999999999999999999987665321 24578999999999999999999999996 6899999999
Q ss_pred CCccccccC----ceEEEecCCccCCCHHhHHhHHh--CCChhHHHHHHHHHHHHHHHhhccCcceeeeeeeee-cCCce
Q 017966 77 GIEIEENWD----KVKTIFLPTEKHMTLDACAPLIA--TLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEP 149 (363)
Q Consensus 77 Gv~vE~~~d----~~~~~pi~~~~~i~~~~a~~ll~--g~~~~d~~~l~~~l~~L~~l~~~~d~~~lEINPL~v-~~g~~ 149 (363)
|++||.++| .+.++.++|.+++..++++.+.. +++..+.+++++++.+||++|.++|++++|||||++ ++|++
T Consensus 130 Gv~iE~~~~~~p~~i~~~~i~p~~~~~~~~a~~~~~~l~~~~~~~~~l~~~l~~l~~~~~~~~~~~lEINPl~v~~~g~~ 209 (386)
T TIGR01016 130 GVDIEEVAEKSPEKIIKYAIDPLTGLLPYQAREIAKKLGLEGELVKQVADIIKKLYQIFLEYDASLVEINPLVITKDGNL 209 (386)
T ss_pred CccHHHHhhhCccceEEEEcCCCcCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhCCceEEEeeeeEEcCCCCE
Confidence 999999754 56667799988999999999877 466789999999999999999999999999999999 88889
Q ss_pred EEeeeeeeecchhhhcccccccccccCCCCCCCCChhhhcccccchhhhccCCceEecCCCcEEEEecCCcHHHHHHHHH
Q 017966 150 YPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTV 229 (363)
Q Consensus 150 ~alDaki~ldd~a~~R~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~i~l~g~I~ii~NG~G~~~~~~D~l 229 (363)
+|+|||+++||||.|||+++. .++++ ++.++.|. .+++.+++||+|+||||||+||||++|+|+|++
T Consensus 210 ~a~Daki~~dd~a~~r~~~~~-~~~~~----~~~~~~e~--------~~~~~~l~~v~l~G~i~~i~nG~Gl~~~t~D~~ 276 (386)
T TIGR01016 210 IALDAKLTIDDNALFRHPDLE-EMRDY----SQEDPREV--------LAKQWGLNYVALDGNIGCMVNGAGLAMATMDII 276 (386)
T ss_pred EEEeeeEeeccchhhhcHHHH-HhhcC----CcCChhhh--------HHHHcCCcEEccCCcEEEEECCccHHHHHHHHH
Confidence 999999999999999999954 35544 44555554 377888999999999999999999999999999
Q ss_pred HhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhccc
Q 017966 230 GDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAAR 309 (363)
Q Consensus 230 ~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~ 309 (363)
..+ |++|+||+|+||++++++|.++++++++ ||++++||+|++|++++|+.+| ++|+++++++. .+
T Consensus 277 ~~~--g~~~aNplDlgg~a~~~~~~~al~~l~~----dp~vd~ilv~i~gg~~~~~~va---~~i~~a~~~~~-----~~ 342 (386)
T TIGR01016 277 KLY--GGEPANFLDVGGGASAERVREALKLVLS----DKSVKVVFINIFGGITRCDLVA---KGLVEALKEVG-----VN 342 (386)
T ss_pred HHc--CCCCCCcEEecCCCCHHHHHHHHHHHHc----CCCCCEEEEECCCCCCCHHHHH---HHHHHHHHhcC-----CC
Confidence 997 8999999999999999999999999998 9999999999999999999999 99999988763 35
Q ss_pred ceEEEEeCCCCHHHHHHHHHhhccccC--CceeecCCCCCHHHHHHHHHHHh
Q 017966 310 MHIFVRRGGPNYQTGLAKMRALGEELG--IPLEVYGPEATMTGICKQAIDCI 359 (363)
Q Consensus 310 ~pvvvrl~G~~~~~~~~~l~~~~~~~G--ip~~~~~~~~~~~eav~~~~~~~ 359 (363)
+||++|+.|++.++++++|++ +| ||+ |++|++|++++++++
T Consensus 343 kPvvv~~~g~~~~~~~~~L~~----~G~~ip~-----~~~~~~Av~~~~~~~ 385 (386)
T TIGR01016 343 VPVVVRLEGTNVEEGKKILAE----SGLNIIF-----ATSMEEAAEKAVEAA 385 (386)
T ss_pred CcEEEEeCCccHHHHHHHHHH----cCCCccc-----cCCHHHHHHHHHHhh
Confidence 899999999999999999996 89 665 789999999999875
No 6
>KOG1447 consensus GTP-specific succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=100.00 E-value=5.4e-66 Score=474.28 Aligned_cols=324 Identities=23% Similarity=0.351 Sum_probs=295.8
Q ss_pred CCccccCcc-------CeEEeeCCHHHHHHHHHHHhccccccc-CC-ce-eeeEEEEeeecCCCceEEEEEEEeCC--CC
Q 017966 1 MLFGKRGKS-------GLVALNLDLAQVAEFVKGRLGTEVEMG-GC-KG-PITTFIVEPFVPHNQEYYLSIVSDRL--GC 68 (363)
Q Consensus 1 ~~~GgRGKa-------GGV~l~~~~eea~~aa~~ll~~~~~~~-~~-~~-~v~gvLVe~~~~~~~E~ylgi~~D~~--~p 68 (363)
||+|||||. |||.+-.++..+.+.+++|++..+.|+ -| .+ +|++|+|.+.+++.+|-|+++..||+ +|
T Consensus 68 ILAGGRGKG~F~nG~KGGVhiTk~k~~vl~l~~qMIG~rL~TKQTpkeGv~VnKVMvAe~~dI~RETYLaiLmDRe~NGP 147 (412)
T KOG1447|consen 68 ILAGGRGKGVFNNGLKGGVHITKDKNVVLQLAKQMIGYRLATKQTPKEGVKVNKVMVAEALDISRETYLAILMDRECNGP 147 (412)
T ss_pred eeecCcccceecCCccceeEEecCHhHHHHHHHHHHhhhhhhccCCccceeeeeEEEeeccccchheeeeeeeccccCCC
Confidence 689999997 999999999999999999999887762 22 23 79999999999999999999999998 79
Q ss_pred eEEEeccCCCccccc----cCceEEEecCCccCCCHHhHHhHHhC--CChhHHHHHHHHHHHHHHHhhccCcceeeeeee
Q 017966 69 TISFSECGGIEIEEN----WDKVKTIFLPTEKHMTLDACAPLIAT--LPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPF 142 (363)
Q Consensus 69 ~ii~s~~GGv~vE~~----~d~~~~~pi~~~~~i~~~~a~~ll~g--~~~~d~~~l~~~l~~L~~l~~~~d~~~lEINPL 142 (363)
+++.|+.||||||.+ |+.+++.|++...++++.++.++.+. +.+.-+...++-+.+||.+|..-|++-+|||||
T Consensus 148 VlvaSP~GGmDIEaVAe~tPE~Ifk~piDI~~gi~esq~l~~Ak~L~F~G~l~~~aA~eI~kLY~LF~avDAtQvEiNPl 227 (412)
T KOG1447|consen 148 VLVASPQGGMDIEAVAESTPELIFKEPIDIFEGIKESQALRMAKNLGFVGPLKSQAADEITKLYNLFLAVDATQVEINPL 227 (412)
T ss_pred EEEecCCCCccHHHHhhhChHhhccccchhccCCchHHHHHHHHhccccCcHHHHHHHHHHHHHHHHhhhcceEEEeccc
Confidence 999999999999985 78899999999999999999998874 455667888999999999999999999999999
Q ss_pred ee-cCCceEEeeeeeeecchhhhcccccccccccCCCCCCCCChhhhcccccchhhhccCCceEecCCCcEEEEecCCcH
Q 017966 143 TL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGA 221 (363)
Q Consensus 143 ~v-~~g~~~alDaki~ldd~a~~R~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~i~l~g~I~ii~NG~G~ 221 (363)
.- ++|+++++|||+.+||||.|||+|+|+ +++. .+.+|.|.+ |++++++||-+||||+|++||+|+
T Consensus 228 ~ET~~G~V~cvDAK~NFDDnA~fRQKdIFa-md~~----eE~dPrEve--------AakynLnYigmDGNIaClVNGAGL 294 (412)
T KOG1447|consen 228 GETPEGQVVCVDAKINFDDNAEFRQKDIFA-MDDK----EENDPREVE--------AAKYNLNYIGMDGNIACLVNGAGL 294 (412)
T ss_pred ccCCCceEEEEeeeccCCchHhhhhcceee-cccc----cccCchhhh--------hhhcCcceeeccCceEEEEccchh
Confidence 99 999999999999999999999999986 4443 566777664 889999999999999999999999
Q ss_pred HHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHh
Q 017966 222 SVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREK 301 (363)
Q Consensus 222 ~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~ 301 (363)
+|+|||.+..+ ||+||||+|+||+...+++++|++++.+ ||.|++||||+||||.+|..+| +||+.|.++.
T Consensus 295 AMATmDiIkLn--GGePANFLDvGGgV~EdqV~~Af~ilTa----DPkVk~iLvNiFGGIVNCAtIA---NGiv~A~~kl 365 (412)
T KOG1447|consen 295 AMATMDIIKLN--GGEPANFLDVGGGVKEDQVYQAFKILTA----DPKVKAILVNIFGGIVNCATIA---NGIVKACRKL 365 (412)
T ss_pred hhheeeeEEec--CCCCcceeeccCcccHHHHHHHhhhhcc----CCceeEEEEehhcceehhHhHh---hHHHHHHHhh
Confidence 99999999997 9999999999999999999999999987 9999999999999999999999 9999999987
Q ss_pred hhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHH
Q 017966 302 ESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 358 (363)
Q Consensus 302 ~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~ 358 (363)
. -++|+|||+.|||++++++||+. +|+|+.. ..++++|+.+++..
T Consensus 366 ~-----LnVPlVVRLEGTNV~~A~~Ilk~----SGLpI~t---A~dLddAA~KAVas 410 (412)
T KOG1447|consen 366 E-----LNVPLVVRLEGTNVQEAQKILKK----SGLPITT---AIDLDDAAKKAVAS 410 (412)
T ss_pred c-----CCCcEEEEEcCCCHHHHHHHHHh----cCCceee---ccchHHHHHHHhhc
Confidence 6 47999999999999999999985 9999974 67999999988753
No 7
>PRK00696 sucC succinyl-CoA synthetase subunit beta; Provisional
Probab=100.00 E-value=3.7e-61 Score=480.11 Aligned_cols=325 Identities=26% Similarity=0.389 Sum_probs=284.7
Q ss_pred CccccCccCeEEeeCCHHHHHHHHHHHhcccccc--cC-CceeeeEEEEeeecCCCceEEEEEEEeCC-CCeEE-EeccC
Q 017966 2 LFGKRGKSGLVALNLDLAQVAEFVKGRLGTEVEM--GG-CKGPITTFIVEPFVPHNQEYYLSIVSDRL-GCTIS-FSECG 76 (363)
Q Consensus 2 ~~GgRGKaGGV~l~~~~eea~~aa~~ll~~~~~~--~~-~~~~v~gvLVe~~~~~~~E~ylgi~~D~~-~p~ii-~s~~G 76 (363)
+.|||||+|||+++.|++|+.+++++|+++...+ .+ +...+.+|+||||+++++|+|+|+++||. +|+++ +|++|
T Consensus 50 ~~ggk~~~GGV~l~~~~~e~~~a~~~i~~~~~~~~~~~~~g~~~~gvlVe~~~~~~~E~~vg~~~D~~fgpvv~~~s~~G 129 (388)
T PRK00696 50 HAGGRGKAGGVKLAKSPEEAREFAKQILGMTLVTHQTGPKGQPVNKVLVEEGADIAKEYYLSIVLDRATRRVVFMASTEG 129 (388)
T ss_pred CCCCCcccccEEEcCCHHHHHHHHHHhhccceeeeccCCCCCEEeEEEEEeccCCCceEEEEEEEcCCCCceEEEEeCCC
Confidence 5799999999999999999999999999875422 22 23479999999999999999999999999 57664 67899
Q ss_pred CCccccccC----ceEEEecCCccCCCHHhHHhHHhC--CChhHHHHHHHHHHHHHHHhhccCcceeeeeeeee-cCCce
Q 017966 77 GIEIEENWD----KVKTIFLPTEKHMTLDACAPLIAT--LPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEP 149 (363)
Q Consensus 77 Gv~vE~~~d----~~~~~pi~~~~~i~~~~a~~ll~g--~~~~d~~~l~~~l~~L~~l~~~~d~~~lEINPL~v-~~g~~ 149 (363)
|++||.++| ++.++.++|.++++..++++++.. +++.++++++++|.+||++|.+++++++|||||++ ++|++
T Consensus 130 G~~vE~~~d~~~~~~~~~~l~p~~~~~~~~a~~~~~~~~~~~~~~~~l~~~l~~l~~l~~~~~~~~leiNPl~v~~~g~~ 209 (388)
T PRK00696 130 GMDIEEVAEETPEKIHKVAIDPLTGLQPFQAREIAFKLGLPGEQVKQFAKILMGLYKAFVEKDASLVEINPLVVTKDGDL 209 (388)
T ss_pred CcchhhhcccCcceeEEEEcCCCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhCCccEEEEeceEECCCCcE
Confidence 999999887 666778999888999999999884 77799999999999999999999999999999999 88889
Q ss_pred EEeeeeeeecchhhhcccccccccccCCCCCCCCChhhhcccccchhhhccCCceEecCCCcEEEEecCCcHHHHHHHHH
Q 017966 150 YPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTV 229 (363)
Q Consensus 150 ~alDaki~ldd~a~~R~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~i~l~g~I~ii~NG~G~~~~~~D~l 229 (363)
+|+|||+.+||||.|||++ |.++++. .+.++.|. .++..+++||+++||||||+||||++|+|+|++
T Consensus 210 ~a~Dak~~ld~~a~~r~~~-~~~~~~~----~~~~~~e~--------~~~~~~~~~v~l~~~i~ii~ng~G~~~~~~D~l 276 (388)
T PRK00696 210 IALDAKINFDDNALFRHPD-LAELRDL----SEEDPLEA--------EASKYGLNYVKLDGNIGCMVNGAGLAMATMDII 276 (388)
T ss_pred EEEeeEEeecCCccccCHh-HHhhcCC----CcCChhhh--------HHHhcCCcEEecCCcEEEEECCchHHHHHHHHH
Confidence 9999999999999999998 5445544 23344443 366778999999999999999999999999999
Q ss_pred HhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhccc
Q 017966 230 GDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAAR 309 (363)
Q Consensus 230 ~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~ 309 (363)
..+ |++|+||+|++|+++++.|.++++++++ ||+++++++|+++++++|+.+| ++|+++.++.+ .+
T Consensus 277 ~~~--g~~~~NPvDl~g~~~~e~~~~aL~~l~~----d~~vd~vlv~~~~~~~~~~~va---~~i~~~~~~~~-----~~ 342 (388)
T PRK00696 277 KLY--GGEPANFLDVGGGATAERVAEAFKIILS----DPNVKAILVNIFGGITRCDVIA---EGIIAAVKEVG-----VT 342 (388)
T ss_pred HHc--CCCcCCeEEecCCCCHHHHHHHHHHHhc----CCCCCEEEEEeCCCCCCHHHHH---HHHHHHHHhcC-----CC
Confidence 997 8899999999999999999999999998 9999999999999999998888 99999877632 36
Q ss_pred ceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhH
Q 017966 310 MHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 310 ~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
+||++|+.|++.++++++|++ +|||+.+ |++|++|++++.++++
T Consensus 343 kPvv~~~~g~~~~~~~~~L~~----~Gi~ip~---f~~pe~A~~al~~~~~ 386 (388)
T PRK00696 343 VPLVVRLEGTNVELGKKILAE----SGLNIIA---ADTLDDAAQKAVEAAK 386 (388)
T ss_pred CcEEEEeCCCCHHHHHHHHHH----CCCCcee---cCCHHHHHHHHHHHhc
Confidence 899999988999999999996 8955443 6899999999999874
No 8
>KOG2799 consensus Succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=100.00 E-value=1.3e-59 Score=445.89 Aligned_cols=327 Identities=22% Similarity=0.290 Sum_probs=299.0
Q ss_pred CCccccCcc-------CeEEeeCCHHHHHHHHHHHhcccccc--cCCce-eeeEEEEeeecCCCceEEEEEEEeCC--CC
Q 017966 1 MLFGKRGKS-------GLVALNLDLAQVAEFVKGRLGTEVEM--GGCKG-PITTFIVEPFVPHNQEYYLSIVSDRL--GC 68 (363)
Q Consensus 1 ~~~GgRGKa-------GGV~l~~~~eea~~aa~~ll~~~~~~--~~~~~-~v~gvLVe~~~~~~~E~ylgi~~D~~--~p 68 (363)
.|+|||||. |||+++.+|+|+++.+.+|+++.+.| ++|.+ .++.|+|-+......|+|++++.||. +|
T Consensus 71 ~lAgGRgKGtF~SglkgGV~iVf~p~Eak~va~qmiG~kLiTKQtG~~gk~c~~v~iC~Rk~~~~e~yFsil~dr~~k~p 150 (434)
T KOG2799|consen 71 VLAGGRGKGTFDSGLKGGVKIVFSPQEAKAVASQMIGKKLITKQTGPAGKACSEVYICERKHTRAEYYFSILMDRHTKGP 150 (434)
T ss_pred ecccCcccCCcCcCcCCceEEEeChHHHHHHHHHhhcceeeeeccCCCCCccceEEEeeecchhhHHHHHHHHhcccCCC
Confidence 379999998 99999999999999999999998877 67777 68999999999999999999999997 79
Q ss_pred eEEEeccCCCccccc----cCceEEEecCCccCCCHHhHHhHHhC--CChhHHHHHHHHHHHHHHHhhccCcceeeeeee
Q 017966 69 TISFSECGGIEIEEN----WDKVKTIFLPTEKHMTLDACAPLIAT--LPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPF 142 (363)
Q Consensus 69 ~ii~s~~GGv~vE~~----~d~~~~~pi~~~~~i~~~~a~~ll~g--~~~~d~~~l~~~l~~L~~l~~~~d~~~lEINPL 142 (363)
.++.|..||+.+|.+ ||.+.+.|++-..+|+...+..+... +.+..+..+++.+.+||++|...|++.+|||||
T Consensus 151 liIas~kgg~~ie~vae~~pdai~k~pi~~~~Gls~~~a~~v~~~lgfs~~~~~~a~~~~~kly~vf~~~dat~veinpl 230 (434)
T KOG2799|consen 151 LIIASSKGGVNIEEVAEDTPDAIIKKPIDNNTGLSPEIACLVADKLGFSPDGIRKAAKAVPKLYKVFHKSDATQVEINPL 230 (434)
T ss_pred EEEEeccCCccHHHHhhhCccchhcccccccCCCCHHHHHHHHhhcCCCcccHHHHHHHHHHHHHHHhhccceeEEecch
Confidence 999999999999985 78889999999899999999888774 555888999999999999999999999999999
Q ss_pred ee-cCC-ceEEeeeeeeecchhhhcccccccccccCCCCCCCCChhhhcccccchhhhccCCceEecCCCcEEEEecCCc
Q 017966 143 TL-VNG-EPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGG 220 (363)
Q Consensus 143 ~v-~~g-~~~alDaki~ldd~a~~R~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~i~l~g~I~ii~NG~G 220 (363)
.. .++ .+++.|+|+.+||||.|||..+|. ++++ .|++|+|+ .+++++++||.++|+|+|++||+|
T Consensus 231 ~e~t~d~~v~c~dak~~fd~na~fRq~~iF~-~rd~----~QEd~re~--------~aak~~ln~igldG~igC~vngag 297 (434)
T KOG2799|consen 231 AEITSDHKVTCMDAKLNFDDNAAFRQKKIFL-LRDL----SQEDPREV--------TAAKVDLNYIGLDGNIGCLVNGAG 297 (434)
T ss_pred hhcccCceeeechhhhcccccHHHHhhhhhh-ccch----hhcCchhh--------hHHHhccceeccCCccceeeccch
Confidence 99 655 799999999999999999998774 6665 67777765 488999999999999999999999
Q ss_pred HHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHH
Q 017966 221 ASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALRE 300 (363)
Q Consensus 221 ~~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~ 300 (363)
++|+|||.+..+ ||.||||+|.||+|+.|++.++++++.+ ||.+.++|+|+||||++||-+| .|++.+.|+
T Consensus 298 lamaTmdiiklh--gg~panfldVGg~Atve~v~eaf~lits----d~kv~ailvnifGgi~rCDvia---~Giv~aar~ 368 (434)
T KOG2799|consen 298 LAMATMDIIKLH--GGTPANFLDVGGGATVEQVREAFSLITS----DKKVMAILVNIFGGIMRCDVIA---FGIVLAARE 368 (434)
T ss_pred hhhhheeeeeec--CCCCcceeeeCCCCcHHHHHHHHHHHhc----ChhHHHHHHHHhcCeeecccee---cchhhhhhh
Confidence 999999999998 9999999999999999999999999988 9999999999999999999999 999999999
Q ss_pred hhhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHH------HHHhHh
Q 017966 301 KESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQA------IDCIMS 361 (363)
Q Consensus 301 ~~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~------~~~~~~ 361 (363)
.. .++||++|+.|+++++|+.++.+ +|+.++. +++.++|++++ ++++++
T Consensus 369 l~-----~~ipiv~rlqgt~v~~ak~~i~~----sgmri~~---~deldeaa~~~v~~S~ivela~e 423 (434)
T KOG2799|consen 369 LE-----LNIPIVVRLQGTRVEAAKPIINT----SGMRIRS---FDELDEAAKKAVGGSTIVELASE 423 (434)
T ss_pred hh-----cCCCEEEEecCCchhhhhhhHhh----cCceEEe---chhhhHHhhhhcccchHHHHhhh
Confidence 86 58999999999999999999986 8998876 68999999995 555554
No 9
>PF08442 ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650 The ATP-grasp superfamily currently includes 17 groups of enzymes, catalyzing ATP-dependent ligation of a carboxylate containing molecule to an amino or thiol group-containing molecule []. They contribute predominantly to macromolecular synthesis. ATP-hydrolysis is used to activate a substrate. For example, DD-ligase transfers phosphate from ATP to D-alanine on the first step of catalysis. On the second step the resulting acylphosphate is attacked by a second D-alanine to produce a DD dipeptide following phosphate elimination []. The ATP-grasp domain contains three conserved motifs, corresponding to the phosphate binding loop and the Mg(2+) binding site []. The fold is characterised by two alpha-beta subdomains that grasp the ATP molecule between them. Each subdomain provides a variable loop that forms a part of the active site, completed by region of other domains not conserved between the various ATP-grasp enzymes []. The ATP-grasp domain represented by this entry is found primarily in succinyl-CoA synthetases (6.2.1.5 from EC).; PDB: 3PFF_A 3MWD_A 3MWE_A 1CQI_E 1SCU_B 2NU9_G 2NU6_E 1CQJ_E 2NU7_B 1JLL_E ....
Probab=100.00 E-value=1.6e-33 Score=256.91 Aligned_cols=144 Identities=31% Similarity=0.502 Sum_probs=126.5
Q ss_pred CCccccCccCeEEeeCCHHHHHHHHHHHhcccccc--cCCce-eeeEEEEeeecCCCceEEEEEEEeCC--CCeEEEecc
Q 017966 1 MLFGKRGKSGLVALNLDLAQVAEFVKGRLGTEVEM--GGCKG-PITTFIVEPFVPHNQEYYLSIVSDRL--GCTISFSEC 75 (363)
Q Consensus 1 ~~~GgRGKaGGV~l~~~~eea~~aa~~ll~~~~~~--~~~~~-~v~gvLVe~~~~~~~E~ylgi~~D~~--~p~ii~s~~ 75 (363)
+|+|||||+|||+++.|++|+++++++|+++.+.| +++.+ .|++|||||++++.+|||+|++.||. +|+|++|..
T Consensus 48 vl~GgRGK~GgVk~~~s~~ea~~~a~~mlg~~l~T~Qtg~~G~~v~~vlvee~v~~~~E~Ylsi~~DR~~~~p~ii~S~~ 127 (202)
T PF08442_consen 48 VLAGGRGKAGGVKIAKSPEEAKEAAKEMLGKTLKTKQTGPKGEKVNKVLVEEFVDIKREYYLSITLDRESRGPVIIASKE 127 (202)
T ss_dssp SSSSTTTTTTCEEEESSHHHHHHHHHTTTTSEEE-TTSTTTEEEE--EEEEE---CCEEEEEEEEEETTTTEEEEEEESS
T ss_pred EeecCcccCCceeecCCHHHHHHHHHHHhCCceEeeecCCCCCEeeEEEEEecCccCceEEEEEEeccCCCceEEEEecc
Confidence 68999999999999999999999999999999976 56666 79999999999999999999999997 589999999
Q ss_pred CCCcccc----ccCceEEEecCCccCCCHHhHHhHHh--CCChhHHHHHHHHHHHHHHHhhccCcceeeeeeeee
Q 017966 76 GGIEIEE----NWDKVKTIFLPTEKHMTLDACAPLIA--TLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL 144 (363)
Q Consensus 76 GGv~vE~----~~d~~~~~pi~~~~~i~~~~a~~ll~--g~~~~d~~~l~~~l~~L~~l~~~~d~~~lEINPL~v 144 (363)
|||+||+ .|+.+.++||++..++++++++++.. |++....+++++++.+||++|.++|++++|||||++
T Consensus 128 GGvdIEeva~~~P~~i~~~~id~~~g~~~~~~~~i~~~lg~~~~~~~~~~~~l~~Ly~~F~~~DatllEINPL~~ 202 (202)
T PF08442_consen 128 GGVDIEEVAAENPEKIIKFPIDPTEGLTPYQAREIAKKLGLPGKLAEQLADILKKLYRLFREYDATLLEINPLVE 202 (202)
T ss_dssp TSSTHHHHHHHSGGGEEEEEEBTTTB--HHHHHHHHHHTTS-CHHHHHHHHHHHHHHHHHHHTTEEEEEEEEEEE
T ss_pred CCccHHHHhhhChhhEEEEecCCCCCCCHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHcCCcEEEecCCCC
Confidence 9999999 47899999999999999999999987 566788999999999999999999999999999985
No 10
>PF13549 ATP-grasp_5: ATP-grasp domain; PDB: 1WR2_A.
Probab=99.93 E-value=2.6e-26 Score=212.47 Aligned_cols=150 Identities=20% Similarity=0.243 Sum_probs=109.8
Q ss_pred cCccCeEEee-CCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecC-CCceEEEEEEEeCC-CCeEEEeccCCCcccc
Q 017966 6 RGKSGLVALN-LDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVP-HNQEYYLSIVSDRL-GCTISFSECGGIEIEE 82 (363)
Q Consensus 6 RGKaGGV~l~-~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~-~~~E~ylgi~~D~~-~p~ii~s~~GGv~vE~ 82 (363)
+-.+|||+++ .|++++++++++|..+... +.|...++||+||+|++ .+.|+++|+++||. ||+|+|| .||+.+|.
T Consensus 61 Ksd~GgV~L~l~~~~~v~~a~~~l~~~~~~-~~p~~~~~gvlVq~m~~~~g~El~vG~~~Dp~FGPvv~~G-~GG~~vE~ 138 (222)
T PF13549_consen 61 KSDVGGVRLNLNSPEEVREAFERLRERVAA-HHPGARIDGVLVQEMAPSGGRELIVGVRRDPQFGPVVMFG-LGGIFVEL 138 (222)
T ss_dssp HHHHT-EEEEE-SHHHHHHHHHHHHHHHHH-H-TT----EEEEEE------EEEEEEEEEETTTEEEEEEE-E-STTHHH
T ss_pred CCCCCcEEECCCCHHHHHHHHHHHHHHHHH-hCCCCccceEEEEEcccCCcEEEEEEEEECCCCCCEEEEc-CCCceeee
Confidence 4467999999 6999999999999988764 67888999999999998 89999999999999 6888888 99999999
Q ss_pred ccCceEEE-ecCCcc---CCCHHhHHhHHhCCCh---hHHHHHHHHHHHHHHHhhcc-Ccceeeeeeeee-cCCceEEee
Q 017966 83 NWDKVKTI-FLPTEK---HMTLDACAPLIATLPL---EFRGKIGDFIMGVFAVFQDL-DFSFIEMNPFTL-VNGEPYPLD 153 (363)
Q Consensus 83 ~~d~~~~~-pi~~~~---~i~~~~a~~ll~g~~~---~d~~~l~~~l~~L~~l~~~~-d~~~lEINPL~v-~~g~~~alD 153 (363)
++|.++++ |++..+ ++.+.++++++.|+++ .|+++++++|++||+++.+. ++.++|||||++ ++| ++|+|
T Consensus 139 ~~D~~~~l~Pl~~~~a~~mi~~l~~~~lL~G~RG~p~~d~~al~~~l~~ls~l~~~~p~I~eldiNPl~v~~~g-~~avD 217 (222)
T PF13549_consen 139 LKDVAFRLPPLSEADAREMIRELRAYPLLRGYRGRPPADLDALADLLVRLSQLAADLPEIAELDINPLIVTPDG-AVAVD 217 (222)
T ss_dssp H---EEEESS--HHHHHHHHHTSTTHHHHH-------B-HHHHHHHHHHHHHHHHHTTTEEEEEEEEEEE-BS--EEE--
T ss_pred ecceEEeeCCCCHHHHHHHHHHHHhHHhhcccCCCCCcCHHHHHHHHHHHHHHHHhCCCEEEEEeeceEEcCCc-eEEEE
Confidence 99999997 776543 5667777777887654 79999999999999999886 689999999999 655 99999
Q ss_pred eeeee
Q 017966 154 MRGEL 158 (363)
Q Consensus 154 aki~l 158 (363)
|+|++
T Consensus 218 a~i~l 222 (222)
T PF13549_consen 218 ARIRL 222 (222)
T ss_dssp EEEEE
T ss_pred EEEEC
Confidence 99975
No 11
>KOG1254 consensus ATP-citrate lyase [Energy production and conversion]
Probab=99.91 E-value=4.9e-26 Score=223.97 Aligned_cols=354 Identities=38% Similarity=0.458 Sum_probs=297.7
Q ss_pred CCccccCccCeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCC------CceEEEEEEEeCCCCeEEEec
Q 017966 1 MLFGKRGKSGLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPH------NQEYYLSIVSDRLGCTISFSE 74 (363)
Q Consensus 1 ~~~GgRGKaGGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~------~~E~ylgi~~D~~~p~ii~s~ 74 (363)
|++++|||.|-|.++.+-.+..++-+.+.+...+..+-.++.+-+.|||.+++ -.|+|+.+..+|.+.++.||.
T Consensus 88 m~~~k~~ki~lvAiiAegvpe~~~~kl~~~a~~k~~~iiGPaTvggVePg~fkignt~g~~dnil~~klyR~Gsv~~vS~ 167 (600)
T KOG1254|consen 88 MLALKRGKIGLVAIIAEGVPEADTRKLRAGAEVKGVGIIGPATVGGVEPGVFKIGNTGGMMDNILNSKLYRPGSVIYVSR 167 (600)
T ss_pred HHHhhcCcceEEEEEecCCcHHHHHHHHhccccccceEEeeeeeccccCCccccCCCCcchhhhhhhcccCCccEEEEec
Confidence 78999999999999976666677777777766643233356888999999976 579999999999999999999
Q ss_pred cCCCccccccCceEEEecCCcc---CCCHHhHHhHHhCCChhHHHHHHHHHHHHHHHhhccCcceeeee-------eeee
Q 017966 75 CGGIEIEENWDKVKTIFLPTEK---HMTLDACAPLIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMN-------PFTL 144 (363)
Q Consensus 75 ~GGv~vE~~~d~~~~~pi~~~~---~i~~~~a~~ll~g~~~~d~~~l~~~l~~L~~l~~~~d~~~lEIN-------PL~v 144 (363)
.|||++|+..+.+...-.+..- +=..+-+..++.+++....+.+.++++.|+.++-+.+.+.+|+| ||++
T Consensus 168 sGGmsnE~nn~isrtt~g~~egiaiggd~~pgSTl~dhi~r~q~~~~vk~Iv~Lgevgg~~ey~~~e~~k~g~~tkPlVa 247 (600)
T KOG1254|consen 168 SGGMSNELNNIISRTTDGPYEGIAIGGDRYPGSTLIDHIPREQHDPLVKFIVVLGEVGGDEEYTFLEANKEGKITKPLVA 247 (600)
T ss_pred CCCcchhhhhhhhheeccceeeeeccCCCccCchHhhhhhhhhccChhheEEeehhhcccceeehhhhhhcCCccCCEEE
Confidence 9999999988766654222211 11245666777777776778899999999999999999999999 9998
Q ss_pred -cCCc---eEEeeeeeeecchhhhccccccc--------------------------ccccCCCCCCCCChhhhcccccc
Q 017966 145 -VNGE---PYPLDMRGELDDTAAFKNFKKWA--------------------------NIEFPLPFGRVLSSTESFIHSLD 194 (363)
Q Consensus 145 -~~g~---~~alDaki~ldd~a~~R~~~~~~--------------------------~~~~~~~~~~~~~~~e~~~~~~~ 194 (363)
..|. +.-+|.....|+.+.|..-+.|. .+++|-+|++..+..|.....++
T Consensus 248 w~~gtcA~~F~~evqfghagtaa~~~~eka~akn~al~~ag~~vpesf~~l~~~i~~~~e~lv~~Grvvp~~Ev~pp~lp 327 (600)
T KOG1254|consen 248 WCIGTCADMFPLEVQFGHAGTAAFKNGEKAAAKNQALRDAGATVPESFDALGADIQETYEFLVPFGRVVPKTEVPPPGLP 327 (600)
T ss_pred EecCccccccchhhhccccchhhhcchhhhhhcchhhhhccccCccchhhhhhhhccchhcccccceecCcccCCCCCCC
Confidence 6553 67889999999999999888887 67788889999999999999999
Q ss_pred hhhhccCCceEecCCCcEEEEecCC-cHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhc-cCCCCCe
Q 017966 195 EKTSASLKFTVLNPKGRIWTMVAGG-GASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCAT-ADPDGRK 272 (363)
Q Consensus 195 ~~~~~~~~~~~i~l~g~I~ii~NG~-G~~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~-~~~~v~~ 272 (363)
++.+..++++.++..|+||++..|+ |..+.+.|+....|+-.+.+|+-.+++-+...++.+..+..+++|+ -+++.+.
T Consensus 328 ~d~saalklgllr~p~~i~t~Ia~~rGaeviYA~~p~~~~~a~elG~gg~~Sllw~~~~lp~Ya~kfie~~~m~~aDhgp 407 (600)
T KOG1254|consen 328 EDTSAALKLGLLRKPGRIWTSIAGGRGAEVIYADVPISLGYASELGNGGVYSLLWFQRRLPQYARKFIEICTMLTADHGP 407 (600)
T ss_pred hhhhhHhhhccccCCceEEEEecCCCCceeeecCchhhhhhHhhccccceEccccccccchHHHHHHHHHHhhccCCCCc
Confidence 9999999999999999998876666 9999999999887666678999999999999999988888888877 5677666
Q ss_pred EEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHH
Q 017966 273 RALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGIC 352 (363)
Q Consensus 273 vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav 352 (363)
.+.-+.++|++++..+++|++|+.+|.+.+.++.. .+-+.+|..|++.++++.-++.+++..+.|.++||..-++....
T Consensus 408 ~Vsga~ntI~~~ra~kdl~sslv~gLltigdRfgg-ald~aaR~f~~ayd~GL~~m~fv~~~~k~~~~V~Gighriksi~ 486 (600)
T KOG1254|consen 408 AVSGAGNTIANFRAGKDLFSSLVRGLLTIGDRFGG-ALDIAARRFGPAYDKGLAPMRFVGKMRKVPIEVYGIGHRIKSIN 486 (600)
T ss_pred eeEeccCceEEeccHHHHHHHHHHHHhhhhhhhcc-hhhHHHHhcChhhhccCchHHHhhhhhCCCceecCCcceeeccC
Confidence 66677899999999999999999999998876544 56789999999999999999999999999999999887776554
Q ss_pred HHH
Q 017966 353 KQA 355 (363)
Q Consensus 353 ~~~ 355 (363)
+..
T Consensus 487 n~d 489 (600)
T KOG1254|consen 487 NPD 489 (600)
T ss_pred Ccc
Confidence 433
No 12
>PF00549 Ligase_CoA: CoA-ligase; InterPro: IPR005811 This entry represents a domain found in both the alpha and beta chains of succinyl-CoA synthase (6.2.1.4 from EC (GDP-forming) and 6.2.1.5 from EC (ADP-forming)) [, ]. This domain can also be found in ATP citrate synthase (2.3.3.8 from EC) and malate-CoA ligase (6.2.1.9 from EC). Some members of the domain utilise ATP others use GTP.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3DMY_B 3MWE_B 3PFF_A 3MWD_B 2YV1_A 1EUC_A 2FP4_A 1EUD_A 2FPI_A 2FPG_A ....
Probab=99.73 E-value=1.1e-17 Score=146.13 Aligned_cols=124 Identities=19% Similarity=0.267 Sum_probs=108.4
Q ss_pred EecCCcHHHHHHHHHHhcC------------CCCCCCceeeccCCCC----------HHHHHHHHHHHHhhhccCCCCCe
Q 017966 215 MVAGGGASVIYADTVGDLG------------YASELGNYAEYSGAPN----------EEEVLQYARVVIDCATADPDGRK 272 (363)
Q Consensus 215 i~NG~G~~~~~~D~l~~~g------------~gg~paN~lD~gG~a~----------~e~~~~a~~~ll~~~~~~~~v~~ 272 (363)
|+|||||+|-|+|++..+. +|+.++||+|+||++. ++...++++.+++ ||++++
T Consensus 1 l~~GgtL~~Ea~~~i~~~~~~~~sn~~~~~~~g~~~~~~lDlGgd~~t~GrphPmid~~~~~~~l~~~~~----Dp~v~v 76 (153)
T PF00549_consen 1 LYNGGTLAMEAMDLISDALGDVYSNFKLANPLGGGPANFLDLGGDAFTQGRPHPMIDPSTRNEALEIEAA----DPEVKV 76 (153)
T ss_dssp EESSHHHHHHHHHHHHHTTT------GCCEEETCTEEEEEECTSSSSHTTS--TTT-SSHHHHHHHHHHT----STTESE
T ss_pred CcCcHHHHHHHHHHHHHhhccccccccccccCCCCceeEEEeCCCcccccCcCCCcCHHHHHHHHHHHhc----CCCccE
Confidence 5899999999999999840 0577999999999999 8999999999998 999999
Q ss_pred EEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHH-----HHHHHHHhhccccCCceeecCCCCC
Q 017966 273 RALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ-----TGLAKMRALGEELGIPLEVYGPEAT 347 (363)
Q Consensus 273 vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~-----~~~~~l~~~~~~~Gip~~~~~~~~~ 347 (363)
||+|+++|+.+|+++| .++++++++.+. +..++|||+|+.||+++ +..++|++ +|+++ .++
T Consensus 77 Ilvd~~~G~g~~~~~A---~~l~~a~~~~~~--~~~~~pvVa~v~GT~~dpq~~~~~~~~L~~----~G~~v-----~~s 142 (153)
T PF00549_consen 77 ILVDIVGGIGSCEDPA---AGLIPAIKEAKA--EGRKKPVVARVCGTNADPQGRMGQAGALED----AGVIV-----AES 142 (153)
T ss_dssp EEEEEESSSSSHHHHH---HHHHHHHSHCTH--TTT-SEEEEEEESTTCHTTSCHHHHHHHHC----TTCSC-----HHH
T ss_pred EEEEeccccCchHHHH---HHHHHHHHhccc--cCCCCcEEEEeeeecCCCCCcHHHHHHHHh----CCCcc-----ccc
Confidence 9999999999999999 999999988652 12479999999999999 99999996 89987 578
Q ss_pred HHHHHHHHH
Q 017966 348 MTGICKQAI 356 (363)
Q Consensus 348 ~~eav~~~~ 356 (363)
..+|++.|.
T Consensus 143 ~~~A~~~A~ 151 (153)
T PF00549_consen 143 NAQAARAAG 151 (153)
T ss_dssp HHHHHHHHT
T ss_pred HHHHHHHcC
Confidence 888887764
No 13
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=99.63 E-value=5.5e-15 Score=150.47 Aligned_cols=129 Identities=19% Similarity=0.241 Sum_probs=111.3
Q ss_pred CCCcEEEEecCCcHHHHHHHHHHhcCCCCCC---------------------CceeeccCCCCHHHHHHHHHHHHhhhcc
Q 017966 208 PKGRIWTMVAGGGASVIYADTVGDLGYASEL---------------------GNYAEYSGAPNEEEVLQYARVVIDCATA 266 (363)
Q Consensus 208 l~g~I~ii~NG~G~~~~~~D~l~~~g~gg~p---------------------aN~lD~gG~a~~e~~~~a~~~ll~~~~~ 266 (363)
.+.||++++|+||+++++.|.+..+ |.+. .||+|++++++++.|.++++++++
T Consensus 294 ~g~rvaivs~sGG~g~l~aD~~~~~--Gl~lp~ls~~t~~~L~~~lp~~~~~~NPlDl~~~~~~~~~~~al~~l~~---- 367 (447)
T TIGR02717 294 KGNRVAIITNAGGPGVIATDACEEN--GLELAELSEATKNKLRNILPPEASIKNPVDVLGDATPERYAKALKTVAE---- 367 (447)
T ss_pred CCCeEEEEECCchHHHHHHHHHHHc--CCCcCCCCHHHHHHHHHhCccccccCCCEecCCCCCHHHHHHHHHHHHc----
Confidence 4678999999999999999999997 5563 499999999999999999999998
Q ss_pred CCCCCeEEEEe-cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEE-eCCCCHHHHHHHHHhhccccCCceeecCC
Q 017966 267 DPDGRKRALLI-GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVR-RGGPNYQTGLAKMRALGEELGIPLEVYGP 344 (363)
Q Consensus 267 ~~~v~~vlv~~-~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvr-l~G~~~~~~~~~l~~~~~~~Gip~~~~~~ 344 (363)
||+++++++++ +++.++++.++ +.++++.++.. .+||+++ .+|...++.++.|++ +|||+
T Consensus 368 dp~vd~Vlv~~~~~~~~~~~~~a---~~l~~~~~~~~------~KPvv~~~~gg~~~~~~~~~L~~----~Gip~----- 429 (447)
T TIGR02717 368 DENVDGVVVVLTPTAMTDPEEVA---KGIIEGAKKSN------EKPVVAGFMGGKSVDPAKRILEE----NGIPN----- 429 (447)
T ss_pred CCCCCEEEEEccCCccCCHHHHH---HHHHHHHHhcC------CCcEEEEecCCccHHHHHHHHHh----CCCCc-----
Confidence 99999999888 68888888888 89988776641 4788877 566888889999985 89998
Q ss_pred CCCHHHHHHHHHHHhH
Q 017966 345 EATMTGICKQAIDCIM 360 (363)
Q Consensus 345 ~~~~~eav~~~~~~~~ 360 (363)
|.++++|++.+..+++
T Consensus 430 f~~p~~A~~al~~~~~ 445 (447)
T TIGR02717 430 YTFPERAVKALSALYR 445 (447)
T ss_pred cCCHHHHHHHHHHHHh
Confidence 7899999999887764
No 14
>COG1042 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]
Probab=99.57 E-value=1.9e-15 Score=157.51 Aligned_cols=286 Identities=16% Similarity=0.060 Sum_probs=190.4
Q ss_pred eeEEEEeeecCCCceEEEE--EEEeCCCCeEEEeccCCCccccccCceEEE-ecCCccCC-CHHhHHhHHh---CCChhH
Q 017966 42 ITTFIVEPFVPHNQEYYLS--IVSDRLGCTISFSECGGIEIEENWDKVKTI-FLPTEKHM-TLDACAPLIA---TLPLEF 114 (363)
Q Consensus 42 v~gvLVe~~~~~~~E~ylg--i~~D~~~p~ii~s~~GGv~vE~~~d~~~~~-pi~~~~~i-~~~~a~~ll~---g~~~~d 114 (363)
....++.|+.....+..+| .+.++..+.. +. -|++.++...+..+++ +....+++ ....++.... +.....
T Consensus 122 ~~~rligPn~~G~~~~~~glna~f~p~~~~~-~~-g~~afvsqsgav~~~il~~~~~~~~g~s~~vs~gn~ad~~~~d~~ 199 (598)
T COG1042 122 YGMRIIGPNCLGLINPIIGLNATFDPVFGLG-RG-GGGAFVSQSGAVSFAILDWANEDGMGFSIKVSLGNAADRDESDLL 199 (598)
T ss_pred cCceEeccccccccccccccccccCcccccc-cC-CCeEEEEechHHHHhccchhhhcCCceeEEEeecchhhcCchHhH
Confidence 4678999999888999999 8888875443 44 6668888888877765 55544422 2222221111 111122
Q ss_pred HHHHHHHHHHHHHHhhcc-Ccceeeeeeeee-cCC-ceEEeeeeeeecchhhhccc--ccccc--c---ccCC-CCCCCC
Q 017966 115 RGKIGDFIMGVFAVFQDL-DFSFIEMNPFTL-VNG-EPYPLDMRGELDDTAAFKNF--KKWAN--I---EFPL-PFGRVL 183 (363)
Q Consensus 115 ~~~l~~~l~~L~~l~~~~-d~~~lEINPL~v-~~g-~~~alDaki~ldd~a~~R~~--~~~~~--~---~~~~-~~~~~~ 183 (363)
.....+...+...++.|. +....++||... ..+ .++++|+..+.....++-+- .+.+. . .+.. -.-+..
T Consensus 200 ~~~~~D~~tk~i~Ly~E~~~~~r~fl~~a~~~~~~kpii~lk~gr~~~~akAa~shTgslag~~~~y~Aa~~~agvir~~ 279 (598)
T COG1042 200 EYLADDPRTKAIGLYIEGVKDGRKFLNAARAAERKKPIIALKAGRSEAGAKAAASHTGSLAGSDEAYDAAFKQAGVIRVE 279 (598)
T ss_pred HHHhhCccceEEEEEeccchhHHHHHHHHHHHhcCCCEEEEeccCCHHHHHHHhcccccccccchhhHHHHHhhCceecc
Confidence 334445555555566544 344568899887 544 49999998887755443321 11000 0 0000 001233
Q ss_pred ChhhhcccccchhhhccCCceEec-CCCcEEEEecCCcHHHHHHHHHHhcCCCCC---------------------CCce
Q 017966 184 SSTESFIHSLDEKTSASLKFTVLN-PKGRIWTMVAGGGASVIYADTVGDLGYASE---------------------LGNY 241 (363)
Q Consensus 184 ~~~e~~~~~~~~~~~~~~~~~~i~-l~g~I~ii~NG~G~~~~~~D~l~~~g~gg~---------------------paN~ 241 (363)
+..|... ..+.--.+.. -+.|+++++||||++.++.|.+... |.+ ..||
T Consensus 280 ~~~elf~-------~~k~l~~~~~~~g~~~~ivtn~Gg~gvla~D~l~~~--g~~l~~~~~~~~~~l~~~Lp~~~~~~NP 350 (598)
T COG1042 280 SIEELFD-------AAKALSHQPPPAGDRVAIITNGGGPGVLAADALEER--GLKLAELSEETIEKLRSRLPPHASVKNP 350 (598)
T ss_pred ChHHHHH-------HHHHhccCCCCCCcceeEEecCCCccccchhHHHHc--CCCcCCCCHHHHHHHHhhcCccccccCC
Confidence 4444321 1111111122 3678999999999999999999997 555 2699
Q ss_pred eeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe-cccCCchhHHhhhHHHHHHHHHHhhhhhhcccce-EEEEeCCC
Q 017966 242 AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTDVATTFNGIIRALREKESKLKAARMH-IFVRRGGP 319 (363)
Q Consensus 242 lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~-~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~p-vvvrl~G~ 319 (363)
+|+.|+++.++|.++++.+++ ++++++++++. ++..+...++| +.++.+..+. .++| +++.+||.
T Consensus 351 vD~~~~a~~e~y~~~~~~~~~----~~~~~~llvi~~~~~~~~~~~~a---~~~~~~~~~~------~~k~~v~~~~gg~ 417 (598)
T COG1042 351 VDLTGDADAERYKKTLEILLR----DENVDALLVIVLPPASADPEETA---EAIIRATAKK------RGKPVVVSSMGGE 417 (598)
T ss_pred eeeecCCcHHHHHHHHHHHHh----ccCCceEEEEecCCCCCCchhhh---HHHHHhhhhh------CCCceEEEecCCc
Confidence 999999999999999999998 99999988888 88888777877 8888862221 3567 55569999
Q ss_pred CHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhH
Q 017966 320 NYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 320 ~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
+++.++++|++ .|||+ |.+++.+++....+++
T Consensus 418 ~~~~~~~~l~~----~gip~-----~~~pe~a~~a~~~l~~ 449 (598)
T COG1042 418 SSEKARRLLEE----AGIPT-----YPTPERAVKALSALAR 449 (598)
T ss_pred chHHHHHHhhh----cCCCC-----ccCchHHHHHHHHHHH
Confidence 99999999996 89998 7899999999887765
No 15
>COG1042 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]
Probab=98.12 E-value=7.4e-07 Score=93.58 Aligned_cols=76 Identities=28% Similarity=0.293 Sum_probs=68.4
Q ss_pred ccCeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC-CCeEEEeccCCCccccccCc
Q 017966 8 KSGLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL-GCTISFSECGGIEIEENWDK 86 (363)
Q Consensus 8 KaGGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~-~p~ii~s~~GGv~vE~~~d~ 86 (363)
-+|||.++.+..++++++..++.+ | .++.+++||+|.. .|+++++.+||. +|++++| .||+.+|.++|.
T Consensus 518 ev~gv~l~~~~~~v~~a~~~~~~~------p-a~i~g~lvq~m~~--~E~~vgv~~dp~fgp~i~~G-~Gg~~ve~l~d~ 587 (598)
T COG1042 518 EVGGVMLNRTADAVEKAADDILAR------P-ARIAGVLVQTMAK--LELIVGVKNDPTFGPLILFG-EGGIEVEVLKDV 587 (598)
T ss_pred hccceeecCcHHHHHHHHHhHhcc------c-chhhhhhhHhhhh--ccceeeccCCCcchhHHHhc-CCceEEEeecce
Confidence 469999999999999999999875 6 8899999999998 999999999999 5788888 999999999999
Q ss_pred eEEE-ecC
Q 017966 87 VKTI-FLP 93 (363)
Q Consensus 87 ~~~~-pi~ 93 (363)
++++ |++
T Consensus 588 ~~~~~P~~ 595 (598)
T COG1042 588 VVALPPLN 595 (598)
T ss_pred eeccCCcc
Confidence 9985 443
No 16
>PLN02522 ATP citrate (pro-S)-lyase
Probab=97.41 E-value=0.002 Score=68.01 Aligned_cols=128 Identities=10% Similarity=0.055 Sum_probs=90.8
Q ss_pred CCCcEEEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCC-HHHHHHHHHHHHhhhccCCCCCeEEEEe-cccCCchh
Q 017966 208 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPN-EEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFT 285 (363)
Q Consensus 208 l~g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~-~e~~~~a~~~ll~~~~~~~~v~~vlv~~-~g~i~~~~ 285 (363)
..|+||+++-.|+++...+|.+...|. -..-++-+||++. .-.+.+.++.+.+ ||++++|++.. .|+-. -
T Consensus 166 ~pG~VgiVSqSGtL~~ei~~~~~~~Gl--G~S~~VsiGnd~~~g~~~~D~L~~~~~----Dp~Tk~IvlygEiGg~~-e- 237 (608)
T PLN02522 166 RPGSVGFVSKSGGMSNEMYNVIARVTD--GIYEGIAIGGDVFPGSTLSDHVLRFNN----IPQIKMIVVLGELGGRD-E- 237 (608)
T ss_pred CCCcEEEEeccHHHHHHHHHHHHHcCC--CeEEEEEeCCCCCCCCCHHHHHHHHhc----CCCCCEEEEEEecCchh-H-
Confidence 379999999999999999999999744 3566788999886 3556777777776 99999988888 56543 2
Q ss_pred HHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHH----HHH---------------HHHHhhccccCCceeecCCCC
Q 017966 286 DVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ----TGL---------------AKMRALGEELGIPLEVYGPEA 346 (363)
Q Consensus 286 ~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~----~~~---------------~~l~~~~~~~Gip~~~~~~~~ 346 (363)
+.+++++++.. .+||||+...|.++. .++ +...++.+++|+.. .+
T Consensus 238 ------~~f~ea~~~a~-----~~KPVVa~kaGrsa~~~~~~aa~gHtGAiag~~~~ta~~k~aAlr~aGv~v-----v~ 301 (608)
T PLN02522 238 ------YSLVEALKQGK-----VSKPVVAWVSGTCARLFKSEVQFGHAGAKSGGDMESAQAKNKALKDAGAIV-----PT 301 (608)
T ss_pred ------HHHHHHHHHhc-----CCCCEEEEeccCCCccCccccccccccccccCCCccHHHHHHHHHHCCCeE-----eC
Confidence 44556666543 369999998887661 000 22233333589976 67
Q ss_pred CHHHHHHHHHHHh
Q 017966 347 TMTGICKQAIDCI 359 (363)
Q Consensus 347 ~~~eav~~~~~~~ 359 (363)
+++|....+.+..
T Consensus 302 s~~El~~~~~~~~ 314 (608)
T PLN02522 302 SFEALEAAIKETF 314 (608)
T ss_pred CHHHHHHHHHHHH
Confidence 8888776665543
No 17
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=97.14 E-value=0.0052 Score=53.04 Aligned_cols=90 Identities=19% Similarity=0.282 Sum_probs=55.5
Q ss_pred CcEEEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhh
Q 017966 210 GRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVAT 289 (363)
Q Consensus 210 g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~ 289 (363)
|+|++++..|+++...++.+...| --..-++-+|..++- .+.+.++.+.+ ||++++|++-+= ++-+.
T Consensus 2 G~valisQSG~~~~~~~~~~~~~g--~g~s~~vs~Gn~~dv-~~~d~l~~~~~----D~~t~~I~ly~E-~~~d~----- 68 (138)
T PF13607_consen 2 GGVALISQSGALGTAILDWAQDRG--IGFSYVVSVGNEADV-DFADLLEYLAE----DPDTRVIVLYLE-GIGDG----- 68 (138)
T ss_dssp -SEEEEES-HHHHHHHHHHHHHTT---EESEEEE-TT-SSS--HHHHHHHHCT-----SS--EEEEEES---S-H-----
T ss_pred CCEEEEECCHHHHHHHHHHHHHcC--CCeeEEEEeCccccC-CHHHHHHHHhc----CCCCCEEEEEcc-CCCCH-----
Confidence 789999999999999999999974 335566666666654 46677777776 999998877662 33332
Q ss_pred hHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 017966 290 TFNGIIRALREKESKLKAARMHIFVRRGGP 319 (363)
Q Consensus 290 ~~~giv~a~~~~~~~~~~~~~pvvvrl~G~ 319 (363)
+.+.+++++.. .+||||+...|.
T Consensus 69 --~~f~~~~~~a~-----~~KPVv~lk~Gr 91 (138)
T PF13607_consen 69 --RRFLEAARRAA-----RRKPVVVLKAGR 91 (138)
T ss_dssp --HHHHHHHHHHC-----CCS-EEEEE---
T ss_pred --HHHHHHHHHHh-----cCCCEEEEeCCC
Confidence 56667777665 349999987775
No 18
>PTZ00187 succinyl-CoA synthetase alpha subunit; Provisional
Probab=97.13 E-value=0.0079 Score=58.85 Aligned_cols=128 Identities=16% Similarity=0.236 Sum_probs=89.3
Q ss_pred CCCcEEEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCC-CHHHHHHHHHHHHhhhccCCCCCeEEEEe-cccCCchh
Q 017966 208 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAP-NEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFT 285 (363)
Q Consensus 208 l~g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a-~~e~~~~a~~~ll~~~~~~~~v~~vlv~~-~g~i~~~~ 285 (363)
..|+|++++-.|+++...++.+...|. -...++-+|+++ ..-.+.+.++.+.+ ||+.++|++.. .+|... .
T Consensus 168 ~~G~VgiVSqSGtl~~ei~~~~~~~Gl--G~S~~VsiGnd~~~g~~~~D~L~~~~~----Dp~T~~Ivl~~E~gG~~e-~ 240 (317)
T PTZ00187 168 KKGKIGIVSRSGTLTYEAVAQTTAVGL--GQSTCVGIGGDPFNGTNFIDCLKLFLN----DPETEGIILIGEIGGTAE-E 240 (317)
T ss_pred CCCCEEEEeCCHHHHHHHHHHHHHcCC--CEEEEEEeCCCCCCCCCHHHHHHHHhh----CCCccEEEEEEecCCchh-H
Confidence 479999999999999999999999843 367788999997 33567788888887 99999999888 665432 2
Q ss_pred HHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHH----------------HHHhhccccCCceeecCCCCCHH
Q 017966 286 DVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLA----------------KMRALGEELGIPLEVYGPEATMT 349 (363)
Q Consensus 286 ~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~----------------~l~~~~~~~Gip~~~~~~~~~~~ 349 (363)
+ + ...+++ .. .+|||++...|.++..+++ ...++.+++|+.. .++++
T Consensus 241 ~-a---a~fi~~---~~-----~~KPVVa~~aGrsap~G~r~gHaGAi~~~~~G~~~~k~aal~qaGv~v-----~~~~~ 303 (317)
T PTZ00187 241 E-A---AEWIKN---NP-----IKKPVVSFIAGITAPPGRRMGHAGAIISGGKGTAPGKIEALEAAGVRV-----VKSPA 303 (317)
T ss_pred H-H---HHHHHh---hc-----CCCcEEEEEecCCCCCCCcccchhhhhccCCCCHHHHHHHHHHCCCeE-----eCCHH
Confidence 2 2 233332 21 3699999988866522222 1122333589977 67888
Q ss_pred HHHHHHHHHh
Q 017966 350 GICKQAIDCI 359 (363)
Q Consensus 350 eav~~~~~~~ 359 (363)
|......+..
T Consensus 304 el~~~~~~~~ 313 (317)
T PTZ00187 304 QLGKTMLEVM 313 (317)
T ss_pred HHHHHHHHHH
Confidence 8777665544
No 19
>PRK06091 membrane protein FdrA; Validated
Probab=97.08 E-value=0.0053 Score=63.92 Aligned_cols=120 Identities=14% Similarity=0.086 Sum_probs=89.3
Q ss_pred CCCcEEEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCC-----CCHHHHHHHHHHHHhhhccCCCCCeEEEEe-cccC
Q 017966 208 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGA-----PNEEEVLQYARVVIDCATADPDGRKRALLI-GGGI 281 (363)
Q Consensus 208 l~g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~-----a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~-~g~i 281 (363)
..|+|++++-.|+++...++++... |.-...++-+|+. +..-.+..+++.+.+ ||++++|++.. |.
T Consensus 192 ~~G~IgiVSQSGtl~~~v~~~a~~~--GiG~S~~Vs~Gn~Dls~~~ggi~~~D~L~~L~~----DP~TkvIvly~kpp-- 263 (555)
T PRK06091 192 PEGNIGVIGASGTGIQELCSQIALA--GEGITHAIGLGGRDLSAEVGGISALTALEMLSA----DEKSEVIAFVSKPP-- 263 (555)
T ss_pred CCCCEEEEeCcHHHHHHHHHHHHHc--CCCeEEEEECCCCccccccCCCCHHHHHHHHhh----CCCCcEEEEEEecC--
Confidence 4899999999999999999999997 4446777888877 212347778788777 99999988888 62
Q ss_pred CchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhH
Q 017966 282 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 282 ~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
.+.+. +.++++++.. .||||+...|.+..-+ + +.|+-. .+|++|++..+.-++.
T Consensus 264 --aE~v~---~~fl~aar~~-------~KPVVvlk~Grs~~g~----~----q~GVi~-----a~tleEl~~~A~~la~ 317 (555)
T PRK06091 264 --AEAVR---LKIINAMKAT-------GKPVVALFLGYTPAVA----R----DENVWF-----ASTLDEAARLACLLSR 317 (555)
T ss_pred --chHHH---HHHHHHHhhC-------CCCEEEEEecCCchhh----h----cCCeEE-----eCCHHHHHHHHHHHhc
Confidence 36666 6677766643 5899999777654332 4 478732 6899999998887653
No 20
>COG0074 SucD Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=96.94 E-value=0.0064 Score=58.03 Aligned_cols=133 Identities=14% Similarity=0.206 Sum_probs=94.4
Q ss_pred cCCc--eEecCCCcEEEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCCH-HHHHHHHHHHHhhhccCCCCCeEEEE
Q 017966 200 SLKF--TVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNE-EEVLQYARVVIDCATADPDGRKRALL 276 (363)
Q Consensus 200 ~~~~--~~i~l~g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~~-e~~~~a~~~ll~~~~~~~~v~~vlv~ 276 (363)
+.++ .++...|+||+++-.|.++-=+.-.+...|.| -.-.+=+|||+-. ..+..+++.+.+ ||+.++++++
T Consensus 134 kiGimp~~i~~~G~IGiVSrSGTLTyE~~~qlt~~G~G--qS~~IGiGGDpi~Gt~fid~L~~fe~----Dp~T~~ivmi 207 (293)
T COG0074 134 KIGIMPGNIYKPGNIGIVSRSGTLTYEAVSQLTEAGLG--QSTAIGIGGDPIPGTSFIDALEMFEA----DPETEAIVMI 207 (293)
T ss_pred eeeechhhhccCCceEEEecCcchHHHHHHHHHhcCCc--eEEEEEeCCCCcCCccHHHHHHHHhc----CccccEEEEE
Confidence 4455 66778999999999999998888888887543 3344778888754 778888888877 9999998888
Q ss_pred e-cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH--------------------HHHHhhcccc
Q 017966 277 I-GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL--------------------AKMRALGEEL 335 (363)
Q Consensus 277 ~-~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~--------------------~~l~~~~~~~ 335 (363)
- .||-+ ++.| . +.++++- .+||||.++.|..+.+++ +.|+ ++
T Consensus 208 GEiGG~a--Ee~A---A---~~i~~~~-----~~KPVVa~iaG~tap~gkrmGhaGaiv~~~~gta~~Ki~al~----~a 270 (293)
T COG0074 208 GEIGGPA--EEEA---A---EYIKANA-----TRKPVVAYIAGRTAPEGKRMGHAGAIVSGGKGTAESKIAALE----AA 270 (293)
T ss_pred ecCCCcH--HHHH---H---HHHHHhc-----cCCCEEEEEeccCCCccchhhhhhhhhcCCCccHHHHHHHHH----Hc
Confidence 7 77754 4555 2 3344421 249999998886554443 3444 47
Q ss_pred CCceeecCCCCCHHHHHHHHHHHhH
Q 017966 336 GIPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 336 Gip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
|+++ .++|.+......+..+
T Consensus 271 Gv~v-----~etp~~l~~~l~~vl~ 290 (293)
T COG0074 271 GVKV-----AETPAELGELLLEVLK 290 (293)
T ss_pred CCee-----cCCHHHHHHHHHHHhh
Confidence 8877 6788877766655543
No 21
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=96.73 E-value=0.022 Score=58.36 Aligned_cols=126 Identities=16% Similarity=0.170 Sum_probs=89.2
Q ss_pred CCcEEEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHh
Q 017966 209 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVA 288 (363)
Q Consensus 209 ~g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA 288 (363)
.|+|++++-.|+++...+|.+... |-...-++-+|+.++ -.+...++.+.+ ||++++|++-+= ++.+.
T Consensus 150 ~G~valvsqSG~~~~~~~~~~~~~--g~g~s~~vs~Gn~~d-~~~~d~l~~l~~----D~~t~~I~ly~E-~~~~~---- 217 (447)
T TIGR02717 150 KGGIAFISQSGALLTALLDWAEKN--GVGFSYFVSLGNKAD-IDESDLLEYLAD----DPDTKVILLYLE-GIKDG---- 217 (447)
T ss_pred CCCEEEEechHHHHHHHHHHHHhc--CCCcceEEECCchhh-CCHHHHHHHHhh----CCCCCEEEEEec-CCCCH----
Confidence 689999999999999999999987 445777788888776 356777788877 999998887763 23332
Q ss_pred hhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH-------------HHHHhhccccCCceeecCCCCCHHHHHHHH
Q 017966 289 TTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL-------------AKMRALGEELGIPLEVYGPEATMTGICKQA 355 (363)
Q Consensus 289 ~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~-------------~~l~~~~~~~Gip~~~~~~~~~~~eav~~~ 355 (363)
+.++++++... .+||||+...|.+..-.+ +++..+..++|+.. .++++|....+
T Consensus 218 ---~~f~~aa~~a~-----~~KPVv~~k~Grs~~g~~aa~sHtgalag~~~~~~a~~~~~Gv~~-----~~~~~el~~~~ 284 (447)
T TIGR02717 218 ---RKFLKTAREIS-----KKKPIVVLKSGTSEAGAKAASSHTGALAGSDEAYDAAFKQAGVIR-----ADSIEELFDLA 284 (447)
T ss_pred ---HHHHHHHHHHc-----CCCCEEEEecCCChhhhhhhhhccccccChHHHHHHHHHHCCeEE-----eCCHHHHHHHH
Confidence 45666666553 369999987776643222 23334444689865 57888877765
Q ss_pred HHHh
Q 017966 356 IDCI 359 (363)
Q Consensus 356 ~~~~ 359 (363)
.-++
T Consensus 285 ~~l~ 288 (447)
T TIGR02717 285 RLLS 288 (447)
T ss_pred HHHh
Confidence 5443
No 22
>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit. ATP citrate lyases appear to form an outgroup.
Probab=96.39 E-value=0.054 Score=52.39 Aligned_cols=124 Identities=13% Similarity=0.164 Sum_probs=82.1
Q ss_pred CCcEEEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCC-HHHHHHHHHHHHhhhccCCCCCeEEEEe-cccCCchhH
Q 017966 209 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPN-EEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTD 286 (363)
Q Consensus 209 ~g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~-~e~~~~a~~~ll~~~~~~~~v~~vlv~~-~g~i~~~~~ 286 (363)
.|+|++++-.|+++...+|+....| --..-++-+|..++ --.+.+.++.+.+ ||++++|++-. ..+-.. .+
T Consensus 143 ~G~ValiSQSG~l~~~~~~~a~~~g--iG~S~~Vs~Gn~a~~dv~~~D~l~~l~~----Dp~T~~I~lylE~~~~~~-~~ 215 (286)
T TIGR01019 143 PGNVGIVSRSGTLTYEAVHQLTKAG--FGQSTCVGIGGDPVNGTSFIDVLEAFEK----DPETEAIVMIGEIGGSAE-EE 215 (286)
T ss_pred CCcEEEEeccHHHHHHHHHHHHHcC--CCeEEEEEeCCCcCCCCCHHHHHHHHhh----CCCCcEEEEEEecCCchH-HH
Confidence 7999999999999999999999874 34677888888854 1356677777777 99999988877 333221 12
Q ss_pred HhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHH----------------HHHHHhhccccCCceeecCCCCCHHH
Q 017966 287 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG----------------LAKMRALGEELGIPLEVYGPEATMTG 350 (363)
Q Consensus 287 vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~----------------~~~l~~~~~~~Gip~~~~~~~~~~~e 350 (363)
.+ + .++.. .+|||++.-.|.++..+ .+....++.++|+.. .++++|
T Consensus 216 ~~---~----~~~~~------~~KPVV~lk~Grs~~~g~~~sHTGala~~~~g~~~~~~aa~rqaGvi~-----v~~~~e 277 (286)
T TIGR01019 216 AA---D----FIKQN------MSKPVVGFIAGATAPPGKRMGHAGAIISGGKGTAESKIEALEAAGVTV-----VKSPSD 277 (286)
T ss_pred HH---H----HHHhc------CCCCEEEEEecCCCCccccccchhhhhcCCCCCHHHHHHHHHHCCCeE-----eCCHHH
Confidence 22 1 12111 36999998666554111 122233333588855 578888
Q ss_pred HHHHHHH
Q 017966 351 ICKQAID 357 (363)
Q Consensus 351 av~~~~~ 357 (363)
......+
T Consensus 278 l~d~l~~ 284 (286)
T TIGR01019 278 IGELLAE 284 (286)
T ss_pred HHHHHHH
Confidence 7776654
No 23
>PLN00125 Succinyl-CoA ligase [GDP-forming] subunit alpha
Probab=96.35 E-value=0.078 Score=51.62 Aligned_cols=127 Identities=16% Similarity=0.173 Sum_probs=86.3
Q ss_pred CCCcEEEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCC--CCHHHHHHHHHHHHhhhccCCCCCeEEEEe-cccCCch
Q 017966 208 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGA--PNEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANF 284 (363)
Q Consensus 208 l~g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~--a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~-~g~i~~~ 284 (363)
..|+|++++-.|+++...++++...|. -..-++-+|+. ++- .+.+.++.+.+ ||++++|++-+ .+|..-
T Consensus 149 ~~G~ValiSQSG~l~~~l~~~~~~~gi--G~S~~VS~Gn~~~adv-~~~d~L~yl~~----Dp~T~~I~ly~E~~G~~~- 220 (300)
T PLN00125 149 KPGRIGIVSRSGTLTYEAVFQTTAVGL--GQSTCVGIGGDPFNGT-NFVDCLEKFVK----DPQTEGIILIGEIGGTAE- 220 (300)
T ss_pred CCCcEEEEeCCccHHHHHHHHHHHcCC--CeEEEEEeCCCCCCCC-CHHHHHHHHhh----CCCCcEEEEEeccCCchH-
Confidence 379999999999999999999998743 36677788887 653 36677777777 99999998888 555431
Q ss_pred hHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHH----------------HHHHHhhccccCCceeecCCCCCH
Q 017966 285 TDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG----------------LAKMRALGEELGIPLEVYGPEATM 348 (363)
Q Consensus 285 ~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~----------------~~~l~~~~~~~Gip~~~~~~~~~~ 348 (363)
.+ + +.++++.+ ++||||+.-.|.+...+ -+.+..+..++|+.. .+++
T Consensus 221 ~d-~---~~f~~aa~--------~~KPVV~lk~Grs~~~g~~~sHTGala~~~~G~~~~~~a~~rq~Gvi~-----v~~~ 283 (300)
T PLN00125 221 ED-A---AAFIKESG--------TEKPVVAFIAGLTAPPGRRMGHAGAIVSGGKGTAQDKIKALREAGVTV-----VESP 283 (300)
T ss_pred HH-H---HHHHHHhc--------CCCCEEEEEecCCCCCCCCccchhhhhcCCCCCHHHHHHHHHHCCCeE-----eCCH
Confidence 11 1 44444422 26999998777664111 122344444589865 5788
Q ss_pred HHHHHHHHHHh
Q 017966 349 TGICKQAIDCI 359 (363)
Q Consensus 349 ~eav~~~~~~~ 359 (363)
+|.....-+..
T Consensus 284 ~el~~~~~~~~ 294 (300)
T PLN00125 284 AKIGVAMLEVF 294 (300)
T ss_pred HHHHHHHHHHH
Confidence 88777665543
No 24
>PRK05678 succinyl-CoA synthetase subunit alpha; Validated
Probab=96.13 E-value=0.078 Score=51.42 Aligned_cols=127 Identities=16% Similarity=0.208 Sum_probs=83.6
Q ss_pred CCCcEEEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCCH-HHHHHHHHHHHhhhccCCCCCeEEEEe-cccCCchh
Q 017966 208 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNE-EEVLQYARVVIDCATADPDGRKRALLI-GGGIANFT 285 (363)
Q Consensus 208 l~g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~~-e~~~~a~~~ll~~~~~~~~v~~vlv~~-~g~i~~~~ 285 (363)
..|+|++++-.|+++...+|+.... |--...++-+|..++. -.+...++.+.+ ||++++|++-+ ..+..+ .
T Consensus 144 ~~G~valiSQSGal~~~~~~~~~~~--giG~s~~Vs~Gn~~~~dv~~~D~l~~l~~----Dp~T~~I~lylE~~~~~~-~ 216 (291)
T PRK05678 144 KKGRVGVVSRSGTLTYEAVAQLTDL--GFGQSTCVGIGGDPINGTNFIDVLEAFEE----DPETEAIVMIGEIGGSAE-E 216 (291)
T ss_pred CCCCEEEEeccHHHHHHHHHHHHHc--CCCeEEEEEeCCCcCCCCCHHHHHHHHhh----CCCCcEEEEEEecCCcHH-H
Confidence 3799999999999999999999987 4446788888887541 345666777777 99999988877 333221 1
Q ss_pred HHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH----------------HHHHhhccccCCceeecCCCCCHH
Q 017966 286 DVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL----------------AKMRALGEELGIPLEVYGPEATMT 349 (363)
Q Consensus 286 ~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~----------------~~l~~~~~~~Gip~~~~~~~~~~~ 349 (363)
+.+ +- ++.. .+|||++.-.|.++..++ ++...++.++|+.. .++++
T Consensus 217 ~a~---~~----~~~~------~~KPVV~lk~Grs~~~g~~~sHTGala~~~~g~~~~~~a~~~q~Gvi~-----v~~~~ 278 (291)
T PRK05678 217 EAA---EY----IKAN------VTKPVVGYIAGVTAPPGKRMGHAGAIISGGKGTAEEKKEALEAAGVKV-----ARTPS 278 (291)
T ss_pred HHH---HH----HHHc------CCCCEEEEEecCCCCCCCcccchhhhccCCCCCHHHHHHHHHHCCCeE-----CCCHH
Confidence 222 11 1111 269999986665551111 22233344589865 67888
Q ss_pred HHHHHHHHHh
Q 017966 350 GICKQAIDCI 359 (363)
Q Consensus 350 eav~~~~~~~ 359 (363)
|....+..+.
T Consensus 279 el~~~~~~~~ 288 (291)
T PRK05678 279 EIGELLKEVL 288 (291)
T ss_pred HHHHHHHHHH
Confidence 8877766554
No 25
>KOG1255 consensus Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=92.69 E-value=0.21 Score=46.80 Aligned_cols=105 Identities=18% Similarity=0.232 Sum_probs=68.5
Q ss_pred eEecCCCcEEEEecCCcHHHHHHHHHHhcCC-CCCCCceeeccCCCCH-HHHHHHHHHHHhhhccCCCCCeEEEEe-ccc
Q 017966 204 TVLNPKGRIWTMVAGGGASVIYADTVGDLGY-ASELGNYAEYSGAPNE-EEVLQYARVVIDCATADPDGRKRALLI-GGG 280 (363)
Q Consensus 204 ~~i~l~g~I~ii~NG~G~~~~~~D~l~~~g~-gg~paN~lD~gG~a~~-e~~~~a~~~ll~~~~~~~~v~~vlv~~-~g~ 280 (363)
.+|...|.|||++-.|= +|..++.+--. |---.-++-+||||-+ ..+-.++++.|+ ||..++|+++- .||
T Consensus 171 g~Ihk~G~IGIVSRSGT---LTYEaVhQTT~vglGQslcvGiGGDpFnGT~FID~L~vFl~----D~~t~GIiliGEIGG 243 (329)
T KOG1255|consen 171 GHIHKRGKIGIVSRSGT---LTYEAVHQTTQVGLGQSLCVGIGGDPFNGTNFIDCLEVFLE----DPETEGIILIGEIGG 243 (329)
T ss_pred cccccCCeeEEEecCCc---eeehhhhhhccccccceeEEeecCCCCCCccHHHHHHHHhc----CcccceEEEEeccCC
Confidence 34667899999988764 45666654200 1112456777888754 778889898888 99999998887 777
Q ss_pred CCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH
Q 017966 281 IANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 325 (363)
Q Consensus 281 i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~ 325 (363)
-+. ++ | .+.+++++.. ...+|||.-+.|..+-.+|
T Consensus 244 ~AE-e~-A------A~flk~~nSg--~~~kPVvsFIAG~tAppGr 278 (329)
T KOG1255|consen 244 SAE-EE-A------AEFLKEYNSG--STAKPVVSFIAGVTAPPGR 278 (329)
T ss_pred hhh-HH-H------HHHHHHhccC--CCCCceeEEeecccCCCcc
Confidence 653 22 2 3567776532 2468888766665444443
No 26
>PRK08654 pyruvate carboxylase subunit A; Validated
Probab=92.56 E-value=1.6 Score=45.44 Aligned_cols=59 Identities=12% Similarity=0.218 Sum_probs=44.2
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
||+++.|.+|+.+++++.........+ -..++||+++...+|+-+.+..|..+.++.++
T Consensus 167 Gv~iv~~~~eL~~a~~~~~~~a~~~f~----~~~v~vE~~I~~~r~ieVqvl~d~~G~vv~l~ 225 (499)
T PRK08654 167 GMRVVYSEEELEDAIESTQSIAQSAFG----DSTVFIEKYLEKPRHIEIQILADKHGNVIHLG 225 (499)
T ss_pred eEEEeCCHHHHHHHHHHHHHHHHHhCC----CCeEEEEeCCCCCcEEEEEEEEcCCCCEEEEe
Confidence 888999999999888776432221001 13689999998889999999999888777665
No 27
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=92.49 E-value=2.2 Score=36.47 Aligned_cols=105 Identities=14% Similarity=0.265 Sum_probs=66.2
Q ss_pred HHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhh
Q 017966 226 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKL 305 (363)
Q Consensus 226 ~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~ 305 (363)
..++...|+ --+|+|.+-++|.+.++. .+ .+.+.+.+ .+-.+..-+.. ..+++.+++.+.
T Consensus 23 ~~~l~~~Gf-----eVi~lg~~~s~e~~v~aa---~e-----~~adii~i--Ssl~~~~~~~~---~~~~~~L~~~g~-- 82 (132)
T TIGR00640 23 ATAYADLGF-----DVDVGPLFQTPEEIARQA---VE-----ADVHVVGV--SSLAGGHLTLV---PALRKELDKLGR-- 82 (132)
T ss_pred HHHHHhCCc-----EEEECCCCCCHHHHHHHH---HH-----cCCCEEEE--cCchhhhHHHH---HHHHHHHHhcCC--
Confidence 455555432 347999999999776663 32 34554443 33333333334 888888877642
Q ss_pred hcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHh
Q 017966 306 KAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 359 (363)
Q Consensus 306 ~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~ 359 (363)
...+|+ .||....+-.+.|++ +|+. .+|++-+++.+.+....+..
T Consensus 83 --~~i~vi--vGG~~~~~~~~~l~~----~Gvd-~~~~~gt~~~~i~~~l~~~~ 127 (132)
T TIGR00640 83 --PDILVV--VGGVIPPQDFDELKE----MGVA-EIFGPGTPIPESAIFLLKKL 127 (132)
T ss_pred --CCCEEE--EeCCCChHhHHHHHH----CCCC-EEECCCCCHHHHHHHHHHHH
Confidence 133444 487555555666775 8985 56778899999999888755
No 28
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=91.02 E-value=3.4 Score=35.47 Aligned_cols=107 Identities=15% Similarity=0.150 Sum_probs=69.5
Q ss_pred HHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhh
Q 017966 226 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKL 305 (363)
Q Consensus 226 ~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~ 305 (363)
..++...| -.-+++|-+-+++++.+++ . ..+++.|.+....+ .....+ +.+++.+++.+.
T Consensus 24 ~~~lr~~G-----~eVi~LG~~vp~e~i~~~a---~-----~~~~d~V~lS~~~~--~~~~~~---~~~~~~L~~~~~-- 83 (137)
T PRK02261 24 DRALTEAG-----FEVINLGVMTSQEEFIDAA---I-----ETDADAILVSSLYG--HGEIDC---RGLREKCIEAGL-- 83 (137)
T ss_pred HHHHHHCC-----CEEEECCCCCCHHHHHHHH---H-----HcCCCEEEEcCccc--cCHHHH---HHHHHHHHhcCC--
Confidence 34555543 3568999999999888873 2 34556666654322 333334 777777777642
Q ss_pred hcccceEEEEeCCCC------HHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhHh
Q 017966 306 KAARMHIFVRRGGPN------YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 306 ~~~~~pvvvrl~G~~------~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
.. +.+.+||.- ..+-++.|++ .|+. .+|++-+++++++....+.+++
T Consensus 84 --~~--~~i~vGG~~~~~~~~~~~~~~~l~~----~G~~-~vf~~~~~~~~i~~~l~~~~~~ 136 (137)
T PRK02261 84 --GD--ILLYVGGNLVVGKHDFEEVEKKFKE----MGFD-RVFPPGTDPEEAIDDLKKDLNQ 136 (137)
T ss_pred --CC--CeEEEECCCCCCccChHHHHHHHHH----cCCC-EEECcCCCHHHHHHHHHHHhcc
Confidence 23 345566643 4556667775 8874 6788889999999988887654
No 29
>PRK14569 D-alanyl-alanine synthetase A; Provisional
Probab=90.69 E-value=2.5 Score=40.68 Aligned_cols=48 Identities=13% Similarity=0.159 Sum_probs=35.5
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeE
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTI 70 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~i 70 (363)
||.++.|.+|+.++.++... . ..++||++++ ++|+.+++..|...+.+
T Consensus 145 Gv~~v~~~~eL~~a~~~~~~------~-----~~~lvEefI~-G~E~tv~vl~~~~~~~~ 192 (296)
T PRK14569 145 ATFKVKSIQELKHAYEEASK------Y-----GEVMIEQWVT-GKEITVAIVNDEVYSSV 192 (296)
T ss_pred CeEEcCCHHHHHHHHHHHHh------c-----CCEEEEcccc-cEEEEEEEECCcCcceE
Confidence 57788999999888776421 1 2589999997 69999999876544443
No 30
>TIGR00514 accC acetyl-CoA carboxylase, biotin carboxylase subunit. This model represents the biotin carboxylase subunit found usually as a component of acetyl-CoA carboxylase. Acetyl-CoA carboxylase is designated EC 6.4.1.2 and this component, biotin carboxylase, has its own designation, EC 6.3.4.14. Homologous domains are found in eukaryotic forms of acetyl-CoA carboxylase and in a number of other carboxylases (e.g. pyruvate carboxylase), but seed members and trusted cutoff are selected so as to exclude these. In some systems, the biotin carboxyl carrier protein and this protein (biotin carboxylase) may be shared by different carboxyltransferases. However, this model is not intended to identify the biotin carboxylase domain of propionyl-coA carboxylase. The model should hit the full length of proteins, except for chloroplast transit peptides in plants. If it hits a domain only of a longer protein, there may be a problem with the identification.
Probab=90.57 E-value=6.3 Score=40.24 Aligned_cols=59 Identities=7% Similarity=0.109 Sum_probs=44.2
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
||.+..|.+|+.++++........ ......++||++++..+|+.+++..|..+.++.++
T Consensus 167 Gv~~v~~~~el~~~~~~~~~~~~~----~~~~~~vlvEe~i~g~~e~~v~v~~d~~g~~~~~~ 225 (449)
T TIGR00514 167 GMRVVREPDELVKSISMTRAEAKA----AFGNDGVYIEKYIENPRHVEIQVLADKYGNAIYLG 225 (449)
T ss_pred ccEEECCHHHHHHHHHHHHHHHHH----hCCCCCEEEEECCCCCeEEEEEEEEcCCCCEEEEe
Confidence 788999999999888876542221 01234699999998889999999999877666554
No 31
>PRK07178 pyruvate carboxylase subunit A; Validated
Probab=88.91 E-value=5.7 Score=40.98 Aligned_cols=60 Identities=7% Similarity=0.036 Sum_probs=43.0
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
-||.++.|++|+.+++++......... ....++||+.+...+|+-+++..|..+.++.+.
T Consensus 165 ~Gv~~v~~~~eL~~a~~~~~~~~~~~~----~~~~v~iE~~i~~~~eiev~v~~d~~G~~v~~~ 224 (472)
T PRK07178 165 RGIRRCNSREELEQNFPRVISEATKAF----GSAEVFLEKCIVNPKHIEVQILADSHGNVVHLF 224 (472)
T ss_pred CCceEeCCHHHHHHHHHHHHHHHHHhc----CCCCEEEEEcCCCCeEEEEEEEEECCCCEEEEE
Confidence 378888999999988876644322101 123589999998889988999999877655443
No 32
>PRK09288 purT phosphoribosylglycinamide formyltransferase 2; Validated
Probab=88.14 E-value=6.7 Score=39.02 Aligned_cols=56 Identities=16% Similarity=-0.011 Sum_probs=41.5
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEE
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISF 72 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~ 72 (363)
||.++.|.+|+.++++.+...... .-..++|||+++.+.|+-+.+.+|..+....+
T Consensus 164 Gv~~v~~~~el~~~~~~~~~~~~~------~~~~~lvEefi~~~~E~sv~~~~~~~~~~~~~ 219 (395)
T PRK09288 164 GQSVVRSPEDIEKAWEYAQEGGRG------GAGRVIVEEFIDFDYEITLLTVRAVDGGTHFC 219 (395)
T ss_pred CeEEECCHHHHHHHHHHHHhhccc------cCCCEEEEEecCCCEEEEEEEEEcCCCCEEEe
Confidence 688899999999998887542210 11469999999988999998888876444443
No 33
>PRK08591 acetyl-CoA carboxylase biotin carboxylase subunit; Validated
Probab=87.59 E-value=6.7 Score=39.94 Aligned_cols=60 Identities=8% Similarity=0.046 Sum_probs=43.5
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
-||.+..|.+|+.+++++......... .-..++||++++..+|+-+.+..|..+.++.++
T Consensus 166 ~Gv~iv~~~~el~~~~~~~~~~~~~~~----~~~~vlvEe~i~g~~e~~v~v~~d~~g~~~~~~ 225 (451)
T PRK08591 166 RGMRVVRTEAELEKAFSMARAEAKAAF----GNPGVYMEKYLENPRHIEIQVLADGHGNAIHLG 225 (451)
T ss_pred ceEEEECCHHHHHHHHHHHHHHHHHhc----CCCCEEEEeCCCCCcEEEEEEEEcCCCCEEEEe
Confidence 478888999999988887653221100 123689999998778988999999877665553
No 34
>PLN02735 carbamoyl-phosphate synthase
Probab=87.43 E-value=7.3 Score=44.66 Aligned_cols=54 Identities=15% Similarity=0.164 Sum_probs=41.9
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEE
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISF 72 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~ 72 (363)
||.++.|.+|+.+++++.+... ....+|||+.+...+|+-+.+.+|..+.++.+
T Consensus 195 Gv~iv~n~eEL~~a~~~a~~~s--------~~~~VLVEe~I~G~kE~ev~Vl~D~~g~~i~v 248 (1102)
T PLN02735 195 GGGIAYNKEEFETICKAGLAAS--------ITSQVLVEKSLLGWKEYELEVMRDLADNVVII 248 (1102)
T ss_pred ceEEECCHHHHHHHHHHHHhcC--------CCCeEEEEEecCCCeEEEEEEEEcCCCCEEEE
Confidence 5667899999998887765311 23579999999877999999999987665544
No 35
>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=87.15 E-value=7.1 Score=32.47 Aligned_cols=103 Identities=19% Similarity=0.249 Sum_probs=62.9
Q ss_pred HHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhh
Q 017966 224 IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKES 303 (363)
Q Consensus 224 ~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~ 303 (363)
+....+...| -.-+++|.+.+++.+.+++. + .+.+.|.+ .+........+ +.+++.+++...
T Consensus 18 ~~~~~l~~~G-----~~vi~lG~~vp~e~~~~~a~---~-----~~~d~V~i--S~~~~~~~~~~---~~~~~~L~~~~~ 79 (122)
T cd02071 18 VIARALRDAG-----FEVIYTGLRQTPEEIVEAAI---Q-----EDVDVIGL--SSLSGGHMTLF---PEVIELLRELGA 79 (122)
T ss_pred HHHHHHHHCC-----CEEEECCCCCCHHHHHHHHH---H-----cCCCEEEE--cccchhhHHHH---HHHHHHHHhcCC
Confidence 3456666643 24578999999997776633 2 23343433 33333334444 777777777531
Q ss_pred hhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHH
Q 017966 304 KLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQA 355 (363)
Q Consensus 304 ~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~ 355 (363)
+ .+.+..||....+-.+.|.+ +|+.- +|++-+++++++...
T Consensus 80 -----~-~i~i~~GG~~~~~~~~~~~~----~G~d~-~~~~~~~~~~~~~~~ 120 (122)
T cd02071 80 -----G-DILVVGGGIIPPEDYELLKE----MGVAE-IFGPGTSIEEIIDKI 120 (122)
T ss_pred -----C-CCEEEEECCCCHHHHHHHHH----CCCCE-EECCCCCHHHHHHHH
Confidence 1 35667887666666667775 88864 455678888887653
No 36
>TIGR02712 urea_carbox urea carboxylase. Members of this family are ATP-dependent urea carboxylase, including characterized members from Oleomonas sagaranensis (alpha class Proteobacterium) and yeasts such as Saccharomyces cerevisiae. The allophanate hydrolase domain of the yeast enzyme is not included in this model and is represented by an adjacent gene in Oleomonas sagaranensis. The fusion of urea carboxylase and allophanate hydrolase is designated urea amidolyase. The enzyme from Oleomonas sagaranensis was shown to be highly active on acetamide and formamide as well as urea.
Probab=86.89 E-value=5.8 Score=45.84 Aligned_cols=59 Identities=17% Similarity=0.121 Sum_probs=43.6
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
||.++.|.+|+.+++++.........+ -.+++||++++.++|+-+.+..|..+.++.++
T Consensus 165 GV~iv~~~eEL~~a~~~~~~~~~~~f~----~~~vlVEefI~g~~eveV~v~~Dg~g~vv~lg 223 (1201)
T TIGR02712 165 GMQKCDSAAELAEAFETVKRLGESFFG----DAGVFLERFVENARHVEVQIFGDGKGKVVALG 223 (1201)
T ss_pred CEEEECCHHHHHHHHHHHHHHHHHhcC----CCcEEEEecCCCCEEEEEEEEECCCCeEEEee
Confidence 788899999999888776542221001 23599999998888999999999877666554
No 37
>PRK08462 biotin carboxylase; Validated
Probab=86.74 E-value=9.7 Score=38.77 Aligned_cols=59 Identities=14% Similarity=0.146 Sum_probs=41.0
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
||.+..|.+|+.+++.+....... ... -..++||+.++.++|+-+.+..|..+.++.++
T Consensus 169 Gv~~v~~~~eL~~~~~~~~~~~~~-~~~---~~~vlvEe~i~g~~e~~v~v~~~~~g~~~~~g 227 (445)
T PRK08462 169 GMRVVEDESDLENLYLAAESEALS-AFG---DGTMYMEKFINNPRHIEVQILGDKHGNVIHVG 227 (445)
T ss_pred CeEEECCHHHHHHHHHHHHHHHHh-ccC---CCcEEEeccCCCCeEEEEEEEECCCCCEEEEE
Confidence 788889999998887654332221 001 13589999998788988988888766665554
No 38
>PF01071 GARS_A: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; InterPro: IPR020561 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the A-domain of the enzyme, and is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase.; PDB: 1GSO_A 3LP8_A 2IP4_A 1VKZ_A 2QK4_A 2XD4_A 2XCL_A 3MJF_A 2YRW_A 2YS6_A ....
Probab=86.03 E-value=2.7 Score=38.40 Aligned_cols=51 Identities=18% Similarity=0.176 Sum_probs=39.4
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
||.++.|.+|+.++.++++..... + ..-..|+|||++. +.|+-+....|-.
T Consensus 53 GV~i~~~~~eA~~~l~~~~~~~~f--g--~~~~~vvIEE~l~-G~E~S~~a~~dG~ 103 (194)
T PF01071_consen 53 GVVIADDREEALEALREIFVDRKF--G--DAGSKVVIEEFLE-GEEVSLFALTDGK 103 (194)
T ss_dssp SEEEESSHHHHHHHHHHHHTSSTT--C--CCGSSEEEEE----SEEEEEEEEEESS
T ss_pred EEEEeCCHHHHHHHHHHhcccccc--C--CCCCcEEEEeccC-CeEEEEEEEEcCC
Confidence 799999999999999999974431 1 2347899999996 7899999999965
No 39
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=85.33 E-value=3.4 Score=40.54 Aligned_cols=59 Identities=24% Similarity=0.305 Sum_probs=42.4
Q ss_pred CCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 017966 247 APNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 320 (363)
Q Consensus 247 ~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~ 320 (363)
..+.+.+.+.++.+.. ||++|+|++.+ |||.+-.. +-|.++++.++. .+ ||++.+++.-
T Consensus 79 ~~~~~~~~~~l~~~~~----~~~vk~vvL~inSPGG~v~as------~~i~~~l~~l~~----~~-PV~v~v~~~A 139 (317)
T COG0616 79 FIGGDDIEEILRAARA----DPSVKAVVLRINSPGGSVVAS------ELIARALKRLRA----KK-PVVVSVGGYA 139 (317)
T ss_pred cccHHHHHHHHHHHhc----CCCCceEEEEEECcCCchhHH------HHHHHHHHHHhh----cC-CEEEEECCee
Confidence 4667788888888887 99999977777 88876433 445566666653 23 8999888743
No 40
>PRK10949 protease 4; Provisional
Probab=85.10 E-value=2.9 Score=44.80 Aligned_cols=61 Identities=21% Similarity=0.218 Sum_probs=41.6
Q ss_pred CCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 017966 246 GAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 320 (363)
Q Consensus 246 G~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~ 320 (363)
|....+.+.+.++-..+ |+++|+|++-+ |||-.-.. +-|-++++..+. .++||++.+++.-
T Consensus 345 g~~~~~~~~~~l~~a~~----D~~vkaVvLrInSpGGs~~as------e~i~~~i~~~r~----~gKPVvas~~~~a 407 (618)
T PRK10949 345 GNVGGDTTAAQIRDARL----DPKVKAIVLRVNSPGGSVTAS------EVIRAELAAARA----AGKPVVVSMGGMA 407 (618)
T ss_pred CCcCHHHHHHHHHHHHh----CCCCcEEEEEecCCCCcHHHH------HHHHHHHHHHHh----cCCcEEEEECCCC
Confidence 45667888888888777 99999999888 66643222 334444444332 3689999998753
No 41
>cd07014 S49_SppA Signal peptide peptidase A. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is an intramembrane enzyme found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be ClpP-like serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain, cleaving peptide bonds in the plane of the lipid bilayer. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal p
Probab=84.81 E-value=5.8 Score=35.11 Aligned_cols=73 Identities=19% Similarity=0.196 Sum_probs=48.9
Q ss_pred eccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 017966 243 EYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 320 (363)
Q Consensus 243 D~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~ 320 (363)
+..|..+.+.+.++++.+.+ |+++++|++.+ +|+ +... . +.+-++++.... .++||++...|.-
T Consensus 17 ~~~~~~~~~~l~~~l~~a~~----d~~v~~vvl~~~~~gg--~~~~-~---~~~~~~i~~~~~----~~kpVia~v~G~a 82 (177)
T cd07014 17 DTQGNVSGDTTAAQIRDARL----DPKVKAIVLRVNSPGG--SVTA-S---EVIRAELAAARA----AGKPVVASGGGNA 82 (177)
T ss_pred CCCCCcCHHHHHHHHHHHhc----CCCceEEEEEeeCCCc--CHHH-H---HHHHHHHHHHHh----CCCCEEEEECCch
Confidence 45667788999999888887 99999998888 343 2111 1 333344444432 4799999998876
Q ss_pred HHHHHHHHH
Q 017966 321 YQTGLAKMR 329 (363)
Q Consensus 321 ~~~~~~~l~ 329 (363)
...|-.+.-
T Consensus 83 ~g~g~~la~ 91 (177)
T cd07014 83 ASGGYWIST 91 (177)
T ss_pred hHHHHHHHH
Confidence 666655543
No 42
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=84.64 E-value=20 Score=36.66 Aligned_cols=125 Identities=17% Similarity=0.133 Sum_probs=66.7
Q ss_pred cEEEEecCCcH--------HHHHHHHHHhcCCCCCCCceeeccCCC-CHHHHHHHHHHHHhhhccCCCCCeEEEEecccC
Q 017966 211 RIWTMVAGGGA--------SVIYADTVGDLGYASELGNYAEYSGAP-NEEEVLQYARVVIDCATADPDGRKRALLIGGGI 281 (363)
Q Consensus 211 ~I~ii~NG~G~--------~~~~~D~l~~~g~gg~paN~lD~gG~a-~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i 281 (363)
+||+++.+-++ ..-..+.+... ....+.+.++.+--. +.+...++.+..-. + +++++++.++..-
T Consensus 2 ~ig~v~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~~~~vv~~~~~~~~~~~~~~~~~~~~~----~-~~d~ii~~~~tf~ 75 (452)
T cd00578 2 KIGFVTGSQHLYGEELLEQVEEYAREVADL-LNELPVEVVDKPEVTGTPDEARKAAEEFNE----A-NCDGLIVWMHTFG 75 (452)
T ss_pred EEEEEEecccccChhHHHHHHHHHHHHHHH-HhcCCceEEecCcccCCHHHHHHHHHHHhh----c-CCcEEEEcccccc
Confidence 46777777772 22222333222 122355666666444 77778887766554 4 8998888774332
Q ss_pred CchhHHhhhHHHHHHHHHHhhhhhhcccceEEEE-eCCC----------CHHHHHHHHHhhccccCCce-eecCCCCCHH
Q 017966 282 ANFTDVATTFNGIIRALREKESKLKAARMHIFVR-RGGP----------NYQTGLAKMRALGEELGIPL-EVYGPEATMT 349 (363)
Q Consensus 282 ~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvr-l~G~----------~~~~~~~~l~~~~~~~Gip~-~~~~~~~~~~ 349 (363)
+. ..++.+++.. ++||+++ ...+ +..-|..-+.......|+|. ++||...+ +
T Consensus 76 ~~--------~~~~~~~~~~-------~~Pvll~a~~~~~~~~~~~~~~~s~~g~~~~~~~l~r~gi~~~~v~g~~~d-~ 139 (452)
T cd00578 76 PA--------KMWIAGLSEL-------RKPVLLLATQFNREIPDFMNLNQSACGLREFGNILARLGIPFKVVYGHWKD-E 139 (452)
T ss_pred cH--------HHHHHHHHhc-------CCCEEEEeCCCCCCCCchhhhhcchhhhHHHHHHHHHcCCceeEEECCCCC-H
Confidence 21 3344444443 5888887 5543 33333333333333489995 55664444 4
Q ss_pred HHHHHHHH
Q 017966 350 GICKQAID 357 (363)
Q Consensus 350 eav~~~~~ 357 (363)
++.+...+
T Consensus 140 ~~~~~i~~ 147 (452)
T cd00578 140 DVLRKIES 147 (452)
T ss_pred HHHHHHHH
Confidence 44443333
No 43
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=84.23 E-value=13 Score=36.04 Aligned_cols=124 Identities=16% Similarity=0.115 Sum_probs=73.6
Q ss_pred CCcEEEEecCCcHHHHHHHHHHhcCCCCCC-Cc----eeeccCCCCHHHHHHHHHHHHhhhccCC---CCCeEEEEeccc
Q 017966 209 KGRIWTMVAGGGASVIYADTVGDLGYASEL-GN----YAEYSGAPNEEEVLQYARVVIDCATADP---DGRKRALLIGGG 280 (363)
Q Consensus 209 ~g~I~ii~NG~G~~~~~~D~l~~~g~gg~p-aN----~lD~gG~a~~e~~~~a~~~ll~~~~~~~---~v~~vlv~~~g~ 280 (363)
--+||+||.-.|.++ -|.+..... -.| .+ |.=+=|.-.++.+.+|++.+-+ .+ .+|+|+|.=.||
T Consensus 14 p~~I~vITs~~gAa~--~D~~~~~~~-r~~~~~~~~~p~~vQG~~A~~~I~~al~~~~~----~~~~~~~Dviii~RGGG 86 (319)
T PF02601_consen 14 PKRIAVITSPTGAAI--QDFLRTLKR-RNPIVEIILYPASVQGEGAAASIVSALRKANE----MGQADDFDVIIIIRGGG 86 (319)
T ss_pred CCEEEEEeCCchHHH--HHHHHHHHH-hCCCcEEEEEeccccccchHHHHHHHHHHHHh----ccccccccEEEEecCCC
Confidence 568999999998876 788765411 113 22 2334466678889999888765 33 577554444554
Q ss_pred CCchhHHhh-hHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHh
Q 017966 281 IANFTDVAT-TFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 359 (363)
Q Consensus 281 i~~~~~vA~-~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~ 359 (363)
-. +|.+. +=+.+++++-+ .+.||++-+|-....---.... .. ...||++|++.++...
T Consensus 87 s~--eDL~~FN~e~varai~~-------~~~PvisaIGHe~D~ti~D~vA------d~------ra~TPtaaAe~~~~~~ 145 (319)
T PF02601_consen 87 SI--EDLWAFNDEEVARAIAA-------SPIPVISAIGHETDFTIADFVA------DL------RAPTPTAAAELIVPDR 145 (319)
T ss_pred Ch--HHhcccChHHHHHHHHh-------CCCCEEEecCCCCCchHHHHHH------Hh------hCCCHHHHHHHHhhhH
Confidence 21 22221 01334444433 3699999999865442222222 22 2689999999887654
Q ss_pred H
Q 017966 360 M 360 (363)
Q Consensus 360 ~ 360 (363)
.
T Consensus 146 ~ 146 (319)
T PF02601_consen 146 R 146 (319)
T ss_pred H
Confidence 3
No 44
>PRK12833 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional
Probab=84.18 E-value=14 Score=37.99 Aligned_cols=53 Identities=15% Similarity=0.077 Sum_probs=38.6
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
-||+++.|++|+.++++........ .. .-..++||++++.++|+-+.+..|..
T Consensus 169 ~Gv~~v~~~~eL~~a~~~~~~~~~~--~~--~~~~vlvEefi~~~~ei~v~v~~dg~ 221 (467)
T PRK12833 169 RGIRVAHDAAQLAAELPLAQREAQA--AF--GDGGVYLERFIARARHIEVQILGDGE 221 (467)
T ss_pred CeEEEECCHHHHHHHHHHHHHHHHH--hc--CCCcEEEEecCCCCEEEEEEEEeCCC
Confidence 3888999999999887765432211 00 12458999999888999999988875
No 45
>TIGR01142 purT phosphoribosylglycinamide formyltransferase 2. This enzyme is an alternative to PurN (TIGR00639)
Probab=83.77 E-value=18 Score=35.72 Aligned_cols=53 Identities=17% Similarity=0.057 Sum_probs=38.3
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCC
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGC 68 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p 68 (363)
-||.++.|.+|+.++++....... ..-..++||++++...|+-+.+.++..+.
T Consensus 150 ~gv~~v~~~~el~~~~~~~~~~~~------~~~~~~ivEe~i~~~~E~sv~~~~~~~g~ 202 (380)
T TIGR01142 150 KGQSVVRGPEDIEKAWEYAQEGAR------GGAGRVIVEEFIDFDYEITLLTVRHVDGN 202 (380)
T ss_pred CCeEEECCHHHHHHHHHHHHhhcc------CCCCCEEEEEecCCCEEEEEEEEEcCCCC
Confidence 378899999999998887754221 01235999999987789888777765543
No 46
>TIGR01235 pyruv_carbox pyruvate carboxylase. This enzyme plays a role in gluconeogensis but not glycolysis.
Probab=83.67 E-value=13 Score=42.74 Aligned_cols=59 Identities=14% Similarity=0.135 Sum_probs=43.0
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
|++++.+.+|+.+++++.........+ -..++||+.++..+|+-+.+..|..+.++.+.
T Consensus 167 G~riV~~~eEL~~a~~~a~~ea~~~fg----~~~vlIEefI~g~reIeVqVlgD~~G~vv~l~ 225 (1143)
T TIGR01235 167 GMRVVRSEADVADAFQRAKSEAKAAFG----NDEVYVEKLIERPRHIEVQLLGDKHGNVVHLF 225 (1143)
T ss_pred ccEEeCCHHHHHHHHHHHHHHHHHhcC----CCcEEEEEcCCCCeEEEEEEEEeCCCCEEEEE
Confidence 788899999998887766432221011 24689999998888999999999877665443
No 47
>PRK06091 membrane protein FdrA; Validated
Probab=82.83 E-value=14 Score=39.13 Aligned_cols=104 Identities=14% Similarity=0.084 Sum_probs=67.5
Q ss_pred CceeeccCCCC----------H-HHHHHHHHHHHhhhccCCCCCeEEEEe-cccCCchhHHhhhHHHHHHHHHHhhhhh-
Q 017966 239 GNYAEYSGAPN----------E-EEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTDVATTFNGIIRALREKESKL- 305 (363)
Q Consensus 239 aN~lD~gG~a~----------~-e~~~~a~~~ll~~~~~~~~v~~vlv~~-~g~i~~~~~vA~~~~giv~a~~~~~~~~- 305 (363)
-.++|+|.|.. | -|.....+. .. ||.+.+||+.+ .|--++ .+-| ..++.++++.+...
T Consensus 373 h~~iDlGdD~~T~GrpHPMIDp~~R~~~~~~~-a~----dp~~~VillD~vlGyGah-~dpa---~~l~~ai~~~~~~~~ 443 (555)
T PRK06091 373 HQIIDLGDDFYTVGRPHPMIDPTLRNQLIADL-GA----KPQVRVLLLDVVIGFGAT-ADPA---GSLVSAIQKACAARA 443 (555)
T ss_pred ceEEecCcccccCCCCCCCcChHHHHHHHHHh-cc----CCcceEEEEEeeeccCCC-CChH---HHHHHHHHHHHhhhh
Confidence 37899998753 2 233332222 33 99999999988 333333 3444 45555555543111
Q ss_pred hcccceEEEEeCCCC-----HHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhH
Q 017966 306 KAARMHIFVRRGGPN-----YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 306 ~~~~~pvvvrl~G~~-----~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
..+.+++|+-+.||. .++.++.|++ +|+-+ ++|-.+|++.|.++++
T Consensus 444 ~~r~l~~v~~v~GT~~DpQ~~~~q~~~L~~----aGv~v-----~~sn~~a~~~a~~~~~ 494 (555)
T PRK06091 444 DGQPLYAIATVTGTERDPQCRSQQIATLED----AGIAV-----VDSLPEATLLAAALIR 494 (555)
T ss_pred cCCceEEEEEEeCCCCCCcCHHHHHHHHHh----CCeEE-----EcCcHHHHHHHHHHhh
Confidence 124477777788864 5678889986 89855 7899999999999885
No 48
>PRK14573 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional
Probab=82.61 E-value=8.1 Score=42.68 Aligned_cols=48 Identities=15% Similarity=-0.009 Sum_probs=38.6
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCC
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLG 67 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~ 67 (363)
-||..+.+.+|..++.++.+. +. ..+||||.+..++|+-+++..|..+
T Consensus 624 ~Gv~~v~~~~el~~a~~~a~~-----~~-----~~vlVEe~i~~grEi~v~vl~~~~~ 671 (809)
T PRK14573 624 IGVFEVHNVEELRDKISEAFL-----YD-----TDVFVEESRLGSREIEVSCLGDGSS 671 (809)
T ss_pred CCEEEECCHHHHHHHHHHHHh-----cC-----CcEEEEeccCCCEEEEEEEEeCCCC
Confidence 488889999999988887642 11 3489999988889999999998654
No 49
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=82.59 E-value=18 Score=30.77 Aligned_cols=98 Identities=14% Similarity=0.194 Sum_probs=60.9
Q ss_pred HHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhc
Q 017966 228 TVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKA 307 (363)
Q Consensus 228 ~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~ 307 (363)
++..+| ..-+|+|-+-++|++.++. . ..+.+.|.+.... +..... ++.+++.+++.+.
T Consensus 22 ~L~~~G-----feVidLG~~v~~e~~v~aa---~-----~~~adiVglS~L~--t~~~~~---~~~~~~~l~~~gl---- 79 (128)
T cd02072 22 AFTEAG-----FNVVNLGVLSPQEEFIDAA---I-----ETDADAILVSSLY--GHGEID---CKGLREKCDEAGL---- 79 (128)
T ss_pred HHHHCC-----CEEEECCCCCCHHHHHHHH---H-----HcCCCEEEEeccc--cCCHHH---HHHHHHHHHHCCC----
Confidence 555553 3569999999999888873 2 2456656654422 222222 3777788877642
Q ss_pred ccceEEEEeCCC------CHHHHHHHHHhhccccCCceeecCCCCCHHHHHHH
Q 017966 308 ARMHIFVRRGGP------NYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQ 354 (363)
Q Consensus 308 ~~~pvvvrl~G~------~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~ 354 (363)
...||+ .||. ..++-++.|++ +|+. .+|++-+++++++..
T Consensus 80 ~~v~vi--vGG~~~i~~~d~~~~~~~L~~----~Gv~-~vf~pgt~~~~i~~~ 125 (128)
T cd02072 80 KDILLY--VGGNLVVGKQDFEDVEKRFKE----MGFD-RVFAPGTPPEEAIAD 125 (128)
T ss_pred CCCeEE--EECCCCCChhhhHHHHHHHHH----cCCC-EEECcCCCHHHHHHH
Confidence 234444 4553 22344566775 8984 688888999998864
No 50
>TIGR01161 purK phosphoribosylaminoimidazole carboxylase, PurK protein. Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, N5-carboxyaminoimidazole ribonucleotide synthetase, which hydrolyzes ATP and converts AIR to N5-CAIR. PurE converts N5-CAIR to CAIR. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP.
Probab=82.45 E-value=35 Score=33.44 Aligned_cols=51 Identities=22% Similarity=0.144 Sum_probs=38.8
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEE
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISF 72 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~ 72 (363)
.||.+..|.+|+.++++++.. ..++|||+++.+.|+-+.+.+|..+....+
T Consensus 148 ~Gv~~v~~~~el~~a~~~~~~------------~~~lvEe~I~~~~E~sv~~~~~~~G~~~~~ 198 (352)
T TIGR01161 148 RGQYRIRNEADLPQAAKELGD------------RECIVEEFVPFERELSVIVARSADGETAFY 198 (352)
T ss_pred CCEEEECCHHHHHHHHHhcCC------------CcEEEEecCCCCeEEEEEEEEcCCCCEEEE
Confidence 378889999999888776421 258999999988999888888776654433
No 51
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=82.21 E-value=30 Score=36.90 Aligned_cols=51 Identities=18% Similarity=0.120 Sum_probs=38.9
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEE
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTIS 71 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii 71 (363)
|+.+..|.+|+.++++.+.. +. ..++||++++..+|+.+.+.+|..+.+..
T Consensus 172 Gv~~v~~~~eL~~a~~~~~~-----~~-----~~vlvEefI~~~~EisV~v~r~~~G~i~~ 222 (577)
T PLN02948 172 GNAVAKTEEDLSSAVAALGG-----FE-----RGLYAEKWAPFVKELAVMVARSRDGSTRC 222 (577)
T ss_pred CeEEECCHHHHHHHHHHhhC-----CC-----CcEEEEecCCCCeEEEEEEEECCCCCEEE
Confidence 57788999999888776532 11 25799999998899999999987665443
No 52
>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed
Probab=82.13 E-value=32 Score=32.77 Aligned_cols=56 Identities=11% Similarity=0.095 Sum_probs=40.3
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEeccC
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFSECG 76 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s~~G 76 (363)
-||.+..|.+++.++.++... . -..++||++++ ++|+.+.+..|...|++-....+
T Consensus 147 ~Gv~~v~~~~el~~~~~~~~~-----~-----~~~~lvEe~i~-G~E~~v~vi~~~~~~~~~~~~~~ 202 (304)
T PRK01372 147 VGVSKVKEEDELQAALELAFK-----Y-----DDEVLVEKYIK-GRELTVAVLGGKALPVIEIVPAG 202 (304)
T ss_pred CCEEEeCCHHHHHHHHHHHHh-----c-----CCcEEEEcccC-CEEEEEEEECCCccceEEEEecC
Confidence 367788899999888776631 1 14699999998 78999999877666654443234
No 53
>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type. E. coli SohB, which is most closely homologous to the C-terminal duplication of SppA, is predicted to perform a similar function of small peptide degradation, but in the periplasm. Many prokaryotes have a single SppA/SohB homolog that may perform the function of either or both.
Probab=81.88 E-value=4.5 Score=43.05 Aligned_cols=63 Identities=25% Similarity=0.288 Sum_probs=41.8
Q ss_pred CCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHH
Q 017966 248 PNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG 324 (363)
Q Consensus 248 a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~ 324 (363)
...+.+.+.++-..+ |+++|+|++.+ |||-..+.+ .|-++++..+. .++||++.++|.-...|
T Consensus 329 ~~~~~~~~~l~~a~~----D~~VkaIVLrinSpGGs~~ase------~i~~~i~~~~~----~gKPVva~~~g~aaSgg 393 (584)
T TIGR00705 329 TGGDTVAALLRVARS----DPDIKAVVLRINSPGGSVFASE------IIRRELARAQA----RGKPVIVSMGAMAASGG 393 (584)
T ss_pred cCHHHHHHHHHHHhh----CCCceEEEEEecCCCCCHHHHH------HHHHHHHHHHh----CCCcEEEEECCccccHH
Confidence 345677777777776 99999999888 887554433 33344444432 35899999988544433
No 54
>PRK08463 acetyl-CoA carboxylase subunit A; Validated
Probab=81.02 E-value=42 Score=34.73 Aligned_cols=59 Identities=10% Similarity=0.085 Sum_probs=40.8
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
||.+..|.+|+.+++......... .. .-..++||+++...+|+-+.+..|..+.++.++
T Consensus 167 Gv~iv~~~~eL~~a~~~~~~~a~~-~~---~~~~vlvEefI~~~~~iev~v~~d~~g~v~~~~ 225 (478)
T PRK08463 167 GIRVVHKEEDLENAFESCKREALA-YF---NNDEVFMEKYVVNPRHIEFQILGDNYGNIIHLC 225 (478)
T ss_pred ceEEeCCHHHHHHHHHHHHHHHHH-hc---CCCcEEEEecCCCCeEEEEEEEEcCCCCEEEEe
Confidence 788889999988887754321110 00 113689999998778888888888777666554
No 55
>cd07019 S49_SppA_1 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppAs in this subfamily are found in all three domains of life and are involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members, the E. coli SppA contains an amino-te
Probab=80.60 E-value=8.9 Score=35.08 Aligned_cols=72 Identities=18% Similarity=0.130 Sum_probs=45.6
Q ss_pred cCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHH
Q 017966 245 SGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG 324 (363)
Q Consensus 245 gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~ 324 (363)
.|..+.+.+.++++.+.+ ||++++|++.+++.-.+.... +.+.++++..+. .++||++...|.....+
T Consensus 18 ~~~~~~~~l~~~l~~a~~----d~~v~~ivL~~~s~Gg~~~~~----~~~~~~l~~~~~----~~kpVia~v~g~a~s~g 85 (211)
T cd07019 18 QGNVGGDTTAAQIRDARL----DPKVKAIVLRVNSPGGSVTAS----EVIRAELAAARA----AGKPVVVSAGGAAASGG 85 (211)
T ss_pred CCccCHHHHHHHHHHHhh----CCCceEEEEEEcCCCcCHHHH----HHHHHHHHHHHh----CCCCEEEEECCeehhHH
Confidence 355677888999888887 999999998773222222221 233344444332 46899999988765555
Q ss_pred HHHH
Q 017966 325 LAKM 328 (363)
Q Consensus 325 ~~~l 328 (363)
-.+.
T Consensus 86 y~la 89 (211)
T cd07019 86 YWIS 89 (211)
T ss_pred HHHH
Confidence 4443
No 56
>TIGR02313 HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase. This model represents a subset of the DapA (dihydrodipicolinate synthase) family which has apparently evolved a separate function. The product of DapA, dihydrodipicolinate, results from the non-enzymatic cyclization and dehydration of 6-amino-2,4-dihydroxyhept-2-ene-1,7-dioic acid, which is different from the substrate of this reaction only in the presence of the amino group. In the absence of this amino group, and running the reaction in the opposite direction, the reaction corresponds to the HpaI aldolase component of the 4-hydroxyphenylacetic acid catabolism pathway (see TIGR02311). At present, this variant of DapA is found only in Oceanobacillus iheyensis HTE831 and Thermus thermophilus HB27. In both of these cases, one or more other DapA genes can be found and the one identified by this model is part of an operon for 4-hydroxyphenylacetic acid catabolism.
Probab=80.32 E-value=22 Score=34.35 Aligned_cols=111 Identities=12% Similarity=0.057 Sum_probs=72.9
Q ss_pred CceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 017966 239 GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 318 (363)
Q Consensus 239 aN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G 318 (363)
-.|.|=.|..+.+.+.+-++.++ +.++++++++-..|=...-...+- ..+++...+... .++||++..+.
T Consensus 9 ~TPf~~dg~iD~~~l~~lv~~~~-----~~Gv~gi~v~GstGE~~~Ls~~Er-~~l~~~~~~~~~----g~~pvi~gv~~ 78 (294)
T TIGR02313 9 ITPFKRNGDIDEEALRELIEFQI-----EGGSHAISVGGTSGEPGSLTLEER-KQAIENAIDQIA----GRIPFAPGTGA 78 (294)
T ss_pred eCCcCCCCCcCHHHHHHHHHHHH-----HcCCCEEEECccCcccccCCHHHH-HHHHHHHHHHhC----CCCcEEEECCc
Confidence 35677789999999999999988 478999998874333222222211 234443333221 36899999999
Q ss_pred CCHHHHHHHHHhhccccCC------ceeecCCCCCHHHHHHHHHHHhHhc
Q 017966 319 PNYQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMSA 362 (363)
Q Consensus 319 ~~~~~~~~~l~~~~~~~Gi------p~~~~~~~~~~~eav~~~~~~~~~~ 362 (363)
++..++.+..+.+ ++.|. |-++| ..+.++.++++..++.+.
T Consensus 79 ~~t~~ai~~a~~A-~~~Gad~v~v~pP~y~--~~~~~~l~~~f~~ia~a~ 125 (294)
T TIGR02313 79 LNHDETLELTKFA-EEAGADAAMVIVPYYN--KPNQEALYDHFAEVADAV 125 (294)
T ss_pred chHHHHHHHHHHH-HHcCCCEEEEcCccCC--CCCHHHHHHHHHHHHHhc
Confidence 9988887777653 34563 22233 346788888888877653
No 57
>PRK12999 pyruvate carboxylase; Reviewed
Probab=80.01 E-value=24 Score=40.77 Aligned_cols=59 Identities=12% Similarity=0.130 Sum_probs=42.2
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
||+++.+.+|+.+++++.........+ -..++||++++..+|+-+.+..|..+.++.+.
T Consensus 171 Gv~vV~~~eEL~~a~~~a~~ea~~~fg----~~~vlVEefI~g~~~ieVqvl~D~~G~vv~l~ 229 (1146)
T PRK12999 171 GMRIVRSEEELEEAFERAKREAKAAFG----NDEVYLEKYVENPRHIEVQILGDKHGNVVHLY 229 (1146)
T ss_pred CeEEeCCHHHHHHHHHHHHHHHHhhcC----CCcEEEecCCCCCeEEEEEEEEECCCCEEEEE
Confidence 788889999998888776432221001 24699999998778888888889777666554
No 58
>PRK05586 biotin carboxylase; Validated
Probab=79.96 E-value=51 Score=33.63 Aligned_cols=60 Identities=10% Similarity=0.156 Sum_probs=42.8
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
-||.+..|.+|+.+++++.........+ -..++||++++..+|+-+.+..|..+.++.++
T Consensus 166 ~Gv~~v~~~~el~~a~~~~~~~~~~~~~----~~~vivEe~i~g~~ei~v~v~~d~~G~~~~~~ 225 (447)
T PRK05586 166 RGIRIVRSEEELIKAFNTAKSEAKAAFG----DDSMYIEKFIENPKHIEFQILGDNYGNVVHLG 225 (447)
T ss_pred CeeEEECCHHHHHHHHHHHHHHHHHhcC----CCeEEEEecCCCCeEEEEEEEECCCCCEEEEe
Confidence 3788889999998887765442221001 13589999998778988999999877666554
No 59
>PRK06019 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed
Probab=79.68 E-value=48 Score=32.94 Aligned_cols=50 Identities=16% Similarity=0.090 Sum_probs=39.3
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEE
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISF 72 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~ 72 (363)
||.+..|.+|+.+++..+. -..++||++++.++|+.+.+.+|..+.+..+
T Consensus 151 Gv~~v~~~~el~~a~~~~~------------~~~~ivEe~I~~~~E~sv~~~~~~~G~~~~~ 200 (372)
T PRK06019 151 GQWVIRSAEDLEAAWALLG------------SVPCILEEFVPFEREVSVIVARGRDGEVVFY 200 (372)
T ss_pred CeEEECCHHHHHHHHHhcC------------CCCEEEEecCCCCeEEEEEEEECCCCCEEEe
Confidence 6888899999888877651 1358999999988999998899876655444
No 60
>PRK06524 biotin carboxylase-like protein; Validated
Probab=79.12 E-value=28 Score=36.33 Aligned_cols=47 Identities=15% Similarity=0.137 Sum_probs=36.3
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCT 69 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ 69 (363)
||.++.+.+|+.++++++.+ -..++||+.++ +.|+-+.+.+|..+.+
T Consensus 196 GV~~Vkn~eELe~a~~~~~~-----------~~~viVEe~I~-GrEitVev~vd~dG~V 242 (493)
T PRK06524 196 TTFFVRGQRDWDKYAGGIVG-----------QPEIKVMKRIR-NVEVCIEACVTRHGTV 242 (493)
T ss_pred CEEEeCCHHHHHHHHHHhcC-----------CCCEEEEeccC-cEEEEEEEEEeCCCCE
Confidence 68888999999888776543 13478999996 7999998888876654
No 61
>TIGR00683 nanA N-acetylneuraminate lyase. N-acetylneuraminate lyase is also known as N-acetylneuraminic acid aldolase, sialic acid aldolase, or sialate lyase. It is an intracellular enzyme. The structure of this homotetrameric enzyme related to dihydrodipicolinate synthase is known. In Clostridium tertium, the enzyme appears to be in an operon with a secreted sialidase that releases sialic acid from host sialoglycoconjugates. In several E. coli strains, however, this enzyme is responsible for N-acetyl-D-neuraminic acid synthesis for capsule production by condensing N-acetyl-D-mannosamine and pyruvate.
Probab=78.24 E-value=28 Score=33.51 Aligned_cols=110 Identities=16% Similarity=0.098 Sum_probs=72.7
Q ss_pred ceeeccCCCCHHHHHHHHHHHHhhhccCCC-CCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 017966 240 NYAEYSGAPNEEEVLQYARVVIDCATADPD-GRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 318 (363)
Q Consensus 240 N~lD~gG~a~~e~~~~a~~~ll~~~~~~~~-v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G 318 (363)
.|.|=-|..+.+.+.+-++.+++ .+ +++++++-..|-...-...+ -+.++++..+... .++||++..++
T Consensus 10 TPf~~dg~iD~~~~~~~i~~~i~-----~G~v~gi~~~GstGE~~~Lt~eE-r~~~~~~~~~~~~----~~~pvi~gv~~ 79 (290)
T TIGR00683 10 VSFNEDGTINEKGLRQIIRHNID-----KMKVDGLYVGGSTGENFMLSTEE-KKEIFRIAKDEAK----DQIALIAQVGS 79 (290)
T ss_pred cCCCCCCCcCHHHHHHHHHHHHh-----CCCcCEEEECCcccccccCCHHH-HHHHHHHHHHHhC----CCCcEEEecCC
Confidence 56666789999999999999884 66 99999886333221111111 1445555444432 36899999999
Q ss_pred CCHHHHHHHHHhhccccCC------ceeecCCCCCHHHHHHHHHHHhHhc
Q 017966 319 PNYQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMSA 362 (363)
Q Consensus 319 ~~~~~~~~~l~~~~~~~Gi------p~~~~~~~~~~~eav~~~~~~~~~~ 362 (363)
.+.+++.+..+.+ ++.|. |-++| ..|.++.+.++.+++.+.
T Consensus 80 ~~t~~~i~la~~a-~~~Gad~v~v~~P~y~--~~~~~~i~~yf~~v~~~~ 126 (290)
T TIGR00683 80 VNLKEAVELGKYA-TELGYDCLSAVTPFYY--KFSFPEIKHYYDTIIAET 126 (290)
T ss_pred CCHHHHHHHHHHH-HHhCCCEEEEeCCcCC--CCCHHHHHHHHHHHHhhC
Confidence 8888887777642 35563 33333 457789999988887653
No 62
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=77.74 E-value=27 Score=33.53 Aligned_cols=110 Identities=16% Similarity=0.183 Sum_probs=72.3
Q ss_pred CceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 017966 239 GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 318 (363)
Q Consensus 239 aN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G 318 (363)
-.|+|=-|..+.+.+.+-++.+++ ..++++++++-..|=...-... --..+++...+... .++||++..+.
T Consensus 12 ~TPf~~dg~iD~~~~~~li~~l~~----~~Gv~gi~v~GstGE~~~Ls~e-Er~~~~~~~~~~~~----~~~~viagvg~ 82 (293)
T PRK04147 12 LTPFDEDGQIDEQGLRRLVRFNIE----KQGIDGLYVGGSTGEAFLLSTE-EKKQVLEIVAEEAK----GKVKLIAQVGS 82 (293)
T ss_pred ECcCCCCCCcCHHHHHHHHHHHHh----cCCCCEEEECCCccccccCCHH-HHHHHHHHHHHHhC----CCCCEEecCCC
Confidence 356777799999999999998883 3899999988743322111111 11345554444332 35899999999
Q ss_pred CCHHHHHHHHHhhccccCC-------ceeecCCCCCHHHHHHHHHHHhHh
Q 017966 319 PNYQTGLAKMRALGEELGI-------PLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 319 ~~~~~~~~~l~~~~~~~Gi-------p~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
++.+++.+..+.+ ++.|. |.| | ..+.++.++++.+++.+
T Consensus 83 ~~t~~ai~~a~~a-~~~Gad~v~v~~P~y-~--~~~~~~l~~~f~~va~a 128 (293)
T PRK04147 83 VNTAEAQELAKYA-TELGYDAISAVTPFY-Y--PFSFEEICDYYREIIDS 128 (293)
T ss_pred CCHHHHHHHHHHH-HHcCCCEEEEeCCcC-C--CCCHHHHHHHHHHHHHh
Confidence 8888887776543 34665 543 2 34668888888877765
No 63
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=77.74 E-value=40 Score=28.91 Aligned_cols=95 Identities=14% Similarity=0.120 Sum_probs=58.7
Q ss_pred ceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 017966 240 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 319 (363)
Q Consensus 240 N~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~ 319 (363)
.-+|+|-+-++|++-++. . ..+++.|.+....+ .+... ++.+++.+++.+. ..+ .+-.||.
T Consensus 31 eVi~LG~~v~~e~~v~aa---~-----~~~adiVglS~l~~--~~~~~---~~~~~~~l~~~gl----~~~--~vivGG~ 91 (134)
T TIGR01501 31 NVVNLGVLSPQEEFIKAA---I-----ETKADAILVSSLYG--HGEID---CKGLRQKCDEAGL----EGI--LLYVGGN 91 (134)
T ss_pred EEEECCCCCCHHHHHHHH---H-----HcCCCEEEEecccc--cCHHH---HHHHHHHHHHCCC----CCC--EEEecCC
Confidence 569999999999888873 2 34566666655322 22222 3677777877652 122 3446773
Q ss_pred C----HHH--HHHHHHhhccccCCceeecCCCCCHHHHHHHHHHH
Q 017966 320 N----YQT--GLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 358 (363)
Q Consensus 320 ~----~~~--~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~ 358 (363)
- .+. -++.|++ +|+. .+|++-+++++.+....+.
T Consensus 92 ~vi~~~d~~~~~~~l~~----~Gv~-~vF~pgt~~~~iv~~l~~~ 131 (134)
T TIGR01501 92 LVVGKQDFPDVEKRFKE----MGFD-RVFAPGTPPEVVIADLKKD 131 (134)
T ss_pred cCcChhhhHHHHHHHHH----cCCC-EEECcCCCHHHHHHHHHHH
Confidence 1 121 1345665 8974 6888889999888766543
No 64
>PLN02735 carbamoyl-phosphate synthase
Probab=77.73 E-value=30 Score=39.85 Aligned_cols=53 Identities=8% Similarity=0.205 Sum_probs=40.7
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEE
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTIS 71 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii 71 (363)
|+.++.|.+|+.++.++..... + -..++||++++.++|+=+.+..|..+.+++
T Consensus 752 G~~iV~~~eeL~~al~~a~~~~-----~---~~~vlVEefI~~g~Ei~V~vl~D~~G~vv~ 804 (1102)
T PLN02735 752 AMEIVYSDDKLKTYLETAVEVD-----P---ERPVLVDKYLSDATEIDVDALADSEGNVVI 804 (1102)
T ss_pred cEEEECCHHHHHHHHHHHHHhc-----C---CCCEEEEEecCCcEEEEEEEEECCCCCEEE
Confidence 7888899999988877765321 1 124899999988899999999997765544
No 65
>cd07018 S49_SppA_67K_type Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 67K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily contain an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown that members in this subfamily, mostly bacterial, are serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys
Probab=77.63 E-value=9.1 Score=35.32 Aligned_cols=60 Identities=13% Similarity=0.147 Sum_probs=39.3
Q ss_pred cCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 017966 245 SGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 318 (363)
Q Consensus 245 gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G 318 (363)
+...+.+.+.++++-+.+ ||++++|++.+ ||| ...+ . +.+.++++..+. .++||++...+
T Consensus 26 ~~~~~~~~l~~~l~~a~~----d~~ik~vvL~~~s~gg--~~~~-~---~el~~~i~~~~~----~~kpVia~~~~ 87 (222)
T cd07018 26 SSELSLRDLLEALEKAAE----DDRIKGIVLDLDGLSG--GLAK-L---EELRQALERFRA----SGKPVIAYADG 87 (222)
T ss_pred cCCccHHHHHHHHHHHhc----CCCeEEEEEECCCCCC--CHHH-H---HHHHHHHHHHHH----hCCeEEEEeCC
Confidence 345666777777777766 99999999998 544 2122 1 455566655542 36899888655
No 66
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=77.25 E-value=27 Score=33.98 Aligned_cols=105 Identities=14% Similarity=0.088 Sum_probs=68.6
Q ss_pred cCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHH
Q 017966 245 SGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG 324 (363)
Q Consensus 245 gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~ 324 (363)
.|..+.+.+.+-++.++ +.++++++++-..|=...-... --+.++++..+... .++||++..+.++.+++
T Consensus 23 ~g~iD~~~l~~lv~~li-----~~Gv~Gi~v~GstGE~~~Lt~e-Er~~v~~~~~~~~~----grvpvi~Gv~~~~t~~a 92 (309)
T cd00952 23 TDTVDLDETARLVERLI-----AAGVDGILTMGTFGECATLTWE-EKQAFVATVVETVA----GRVPVFVGATTLNTRDT 92 (309)
T ss_pred CCCcCHHHHHHHHHHHH-----HcCCCEEEECcccccchhCCHH-HHHHHHHHHHHHhC----CCCCEEEEeccCCHHHH
Confidence 37899999999999988 4789999998733322111111 11445555544432 36899999999899999
Q ss_pred HHHHHhhccccCC------ceeecCCCCCHHHHHHHHHHHhHhc
Q 017966 325 LAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMSA 362 (363)
Q Consensus 325 ~~~l~~~~~~~Gi------p~~~~~~~~~~~eav~~~~~~~~~~ 362 (363)
.+..+.+ ++.|. |-++| ..+.++.+.++-.++.+.
T Consensus 93 i~~a~~A-~~~Gad~vlv~~P~y~--~~~~~~l~~yf~~va~a~ 133 (309)
T cd00952 93 IARTRAL-LDLGADGTMLGRPMWL--PLDVDTAVQFYRDVAEAV 133 (309)
T ss_pred HHHHHHH-HHhCCCEEEECCCcCC--CCCHHHHHHHHHHHHHhC
Confidence 8877643 24452 22333 346788888888877653
No 67
>PLN02417 dihydrodipicolinate synthase
Probab=77.06 E-value=32 Score=32.88 Aligned_cols=108 Identities=8% Similarity=-0.014 Sum_probs=72.1
Q ss_pred ceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 017966 240 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 319 (363)
Q Consensus 240 N~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~ 319 (363)
.|.|=-|..+.+.+.+-++.+++ .++++++++-..|=...-...+ -..+++...+... .++||++..+.+
T Consensus 11 TPf~~~g~iD~~~~~~~i~~l~~-----~Gv~Gi~~~GstGE~~~ls~~E-r~~~~~~~~~~~~----~~~pvi~gv~~~ 80 (280)
T PLN02417 11 TPYLPDGRFDLEAYDSLVNMQIE-----NGAEGLIVGGTTGEGQLMSWDE-HIMLIGHTVNCFG----GKIKVIGNTGSN 80 (280)
T ss_pred CCcCCCCCcCHHHHHHHHHHHHH-----cCCCEEEECccCcchhhCCHHH-HHHHHHHHHHHhC----CCCcEEEECCCc
Confidence 56677789999999999999884 7899999887443322222111 1334444444322 368999999999
Q ss_pred CHHHHHHHHHhhccccCC------ceeecCCCCCHHHHHHHHHHHhH
Q 017966 320 NYQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 320 ~~~~~~~~l~~~~~~~Gi------p~~~~~~~~~~~eav~~~~~~~~ 360 (363)
+..++.+..+.+ +++|. |=++| ..+.++.++++-+++.
T Consensus 81 ~t~~~i~~a~~a-~~~Gadav~~~~P~y~--~~~~~~i~~~f~~va~ 124 (280)
T PLN02417 81 STREAIHATEQG-FAVGMHAALHINPYYG--KTSQEGLIKHFETVLD 124 (280)
T ss_pred cHHHHHHHHHHH-HHcCCCEEEEcCCccC--CCCHHHHHHHHHHHHh
Confidence 999998887653 34563 22232 3567888888877765
No 68
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=77.06 E-value=28 Score=33.75 Aligned_cols=109 Identities=14% Similarity=0.168 Sum_probs=72.6
Q ss_pred eeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 017966 241 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 320 (363)
Q Consensus 241 ~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~ 320 (363)
|.+--|..+.+.+.+.++.+++ ..+++++++-.+|-.......+. ..+++...+.-. .++||++-.|+++
T Consensus 15 PF~~dg~vD~~a~~~lv~~li~-----~Gv~gi~~~GttGE~~~Ls~eEr-~~v~~~~v~~~~----grvpviaG~g~~~ 84 (299)
T COG0329 15 PFDEDGSVDEEALRRLVEFLIA-----AGVDGLVVLGTTGESPTLTLEER-KEVLEAVVEAVG----GRVPVIAGVGSNS 84 (299)
T ss_pred CCCCCCCcCHHHHHHHHHHHHH-----cCCCEEEECCCCccchhcCHHHH-HHHHHHHHHHHC----CCCcEEEecCCCc
Confidence 3333366999999999999885 67999999886665544433332 234444444332 3689999999999
Q ss_pred HHHHHHHHHhhccccCC------ceeecCCCCCHHHHHHHHHHHhHhc
Q 017966 321 YQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMSA 362 (363)
Q Consensus 321 ~~~~~~~l~~~~~~~Gi------p~~~~~~~~~~~eav~~~~~~~~~~ 362 (363)
-+++.+.-+.+ ++.|+ |-++| -.+.++....+-.++.++
T Consensus 85 t~eai~lak~a-~~~Gad~il~v~PyY~--k~~~~gl~~hf~~ia~a~ 129 (299)
T COG0329 85 TAEAIELAKHA-EKLGADGILVVPPYYN--KPSQEGLYAHFKAIAEAV 129 (299)
T ss_pred HHHHHHHHHHH-HhcCCCEEEEeCCCCc--CCChHHHHHHHHHHHHhc
Confidence 99998877642 34563 33332 456677777777766653
No 69
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=76.97 E-value=49 Score=28.75 Aligned_cols=96 Identities=17% Similarity=0.261 Sum_probs=65.7
Q ss_pred eeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCH
Q 017966 242 AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY 321 (363)
Q Consensus 242 lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~ 321 (363)
+..|.--+++.+..+ .+ ..++++|.|-...|- ..+.. ..+++++++.+. -.+.+-.||.-.
T Consensus 44 i~~g~~~tp~e~v~a---A~-----~~dv~vIgvSsl~g~--h~~l~---~~lve~lre~G~------~~i~v~~GGvip 104 (143)
T COG2185 44 INLGLFQTPEEAVRA---AV-----EEDVDVIGVSSLDGG--HLTLV---PGLVEALREAGV------EDILVVVGGVIP 104 (143)
T ss_pred EecCCcCCHHHHHHH---HH-----hcCCCEEEEEeccch--HHHHH---HHHHHHHHHhCC------cceEEeecCccC
Confidence 445666667655554 34 356777777663322 23333 789999999863 335677889877
Q ss_pred HHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhHh
Q 017966 322 QTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 322 ~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
.+-.+.|++ .|+. .+|++-+++.+++...+....+
T Consensus 105 ~~d~~~l~~----~G~~-~if~pgt~~~~~~~~v~~~l~~ 139 (143)
T COG2185 105 PGDYQELKE----MGVD-RIFGPGTPIEEALSDLLTRLGA 139 (143)
T ss_pred chhHHHHHH----hCcc-eeeCCCCCHHHHHHHHHHHHHh
Confidence 777888886 7874 6889999999999988776543
No 70
>PF02786 CPSase_L_D2: Carbamoyl-phosphate synthase L chain, ATP binding domain; InterPro: IPR005479 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the ATP-binding domain found in the large subunit of carbamoyl phosphate synthase, as well as in related proteins.; GO: 0003824 catalytic activity, 0005524 ATP binding, 0008152 metabolic process; PDB: 3U9S_A 3U9T_A 2C00_B 2VQD_A 1W96_B 1W93_A 1M6V_C 1CS0_C 1C30_E 1C3O_G ....
Probab=76.37 E-value=23 Score=32.55 Aligned_cols=59 Identities=10% Similarity=0.120 Sum_probs=41.4
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
|.+++.|.+++.+++++........ ..-..++||+.+...+|+=+-+..|..+-++.++
T Consensus 53 gm~iv~~~~eL~~~~~~~~~~s~~~----fg~~~v~iek~i~~~reiEvqvi~D~~gn~~~~~ 111 (211)
T PF02786_consen 53 GMRIVHNEEELEEAFERAQRESPAA----FGDGPVLIEKFIEGAREIEVQVIRDGKGNVVHLG 111 (211)
T ss_dssp SEEEESSHHHHHHHHHHHHHHHHHH----HSTS-EEEEE--SSEEEEEEEEEEETTSEEEEEE
T ss_pred ccccccchhhhhhhhhhccccCccc----cccceEEEeeehhhhhhhhhhhhhccccceeeee
Confidence 5667789999888887765543210 1235799999999889999999999987666555
No 71
>PRK06111 acetyl-CoA carboxylase biotin carboxylase subunit; Validated
Probab=75.63 E-value=71 Score=32.36 Aligned_cols=59 Identities=10% Similarity=0.148 Sum_probs=41.5
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
||.+..|.+|+.+++++.........+ -..++||++++..+|+-+++..|..+.++.+.
T Consensus 167 Gv~iv~~~~el~~a~~~~~~~~~~~~~----~~~~lvEe~i~g~~e~~v~v~~~~~g~~~~~~ 225 (450)
T PRK06111 167 GMQLVETEQELTKAFESNKKRAANFFG----NGEMYIEKYIEDPRHIEIQLLADTHGNTVYLW 225 (450)
T ss_pred eEEEECCHHHHHHHHHHHHHHHHHhcC----CCcEEEEcccCCCcEEEEEEEEcCCCCEEEEE
Confidence 788899999999888875432111001 12589999998778888989988776555443
No 72
>PRK12815 carB carbamoyl phosphate synthase large subunit; Reviewed
Probab=75.30 E-value=9.1 Score=43.77 Aligned_cols=55 Identities=20% Similarity=0.290 Sum_probs=42.5
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
|+.++.|.+|+.+++++.++.. ....++||+++++.+|+.+.+.+|..+.++++.
T Consensus 178 Gv~iv~~~eEL~~a~~~~~~~s--------~~~~vLVEe~I~G~~E~sv~v~rD~~g~~~~~~ 232 (1068)
T PRK12815 178 GGGIAENLEELEQLFKQGLQAS--------PIHQCLLEESIAGWKEIEYEVMRDRNGNCITVC 232 (1068)
T ss_pred ceEEECCHHHHHHHHHHHHhcC--------CCCeEEEEEccCCCeEEEEEEEEcCCCCEEEEE
Confidence 3557789999999888776431 235799999999889999999999876554443
No 73
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=73.60 E-value=44 Score=32.37 Aligned_cols=109 Identities=17% Similarity=0.139 Sum_probs=70.1
Q ss_pred CceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 017966 239 GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 318 (363)
Q Consensus 239 aN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G 318 (363)
--|.|=-|..+.+.+.+-++.++ +.++++++++-..|-...-...+ -..+++...+... .++||++..++
T Consensus 16 vTPf~~dg~iD~~~l~~li~~l~-----~~Gv~Gi~~~GstGE~~~Lt~eE-r~~~~~~~~~~~~----~~~pvi~gv~~ 85 (303)
T PRK03620 16 VTPFDADGSFDEAAYREHLEWLA-----PYGAAALFAAGGTGEFFSLTPDE-YSQVVRAAVETTA----GRVPVIAGAGG 85 (303)
T ss_pred eCCCCCCCCcCHHHHHHHHHHHH-----HcCCCEEEECcCCcCcccCCHHH-HHHHHHHHHHHhC----CCCcEEEecCC
Confidence 35667778999999999999988 46899999887433322222221 1334444443322 36899999876
Q ss_pred CCHHHHHHHHHhhccccCC------ceeecCCCCCHHHHHHHHHHHhHh
Q 017966 319 PNYQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 319 ~~~~~~~~~l~~~~~~~Gi------p~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
+..++.+..+.+ +++|. |-++| ..+.++.+.++..++.+
T Consensus 86 -~t~~~i~~~~~a-~~~Gadav~~~pP~y~--~~~~~~i~~~f~~va~~ 130 (303)
T PRK03620 86 -GTAQAIEYAQAA-ERAGADGILLLPPYLT--EAPQEGLAAHVEAVCKS 130 (303)
T ss_pred -CHHHHHHHHHHH-HHhCCCEEEECCCCCC--CCCHHHHHHHHHHHHHh
Confidence 788888877653 34563 22322 34678888888877765
No 74
>TIGR00706 SppA_dom signal peptide peptidase SppA, 36K type. The member of this family from Bacillus subtilis was shown to have properties consistent with a role in degrading signal peptides after cleavage from precursor proteins, although it was not demonstrated conclusively.
Probab=73.06 E-value=18 Score=32.88 Aligned_cols=64 Identities=20% Similarity=0.239 Sum_probs=43.0
Q ss_pred CCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH
Q 017966 248 PNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 325 (363)
Q Consensus 248 a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~ 325 (363)
.+.+.+.++++.+.+ |+++++|++.+ +||.. .. .+.+.+++++.+ .++||++...|.....|-
T Consensus 13 ~s~~~l~~~l~~a~~----d~~i~~vvl~~~s~Gg~~--~~----~~~l~~~i~~~~-----~~kpvia~v~g~a~s~g~ 77 (207)
T TIGR00706 13 VSPEDFDKKIKRIKD----DKSIKALLLRINSPGGTV--VA----SEEIYEKLKKLK-----AKKPVVASMGGVAASGGY 77 (207)
T ss_pred cCHHHHHHHHHHHhh----CCCccEEEEEecCCCCCH--HH----HHHHHHHHHHhc-----CCCCEEEEECCccchHHH
Confidence 457788888887777 99999998877 44422 11 255666666653 258999998876544443
Q ss_pred H
Q 017966 326 A 326 (363)
Q Consensus 326 ~ 326 (363)
.
T Consensus 78 ~ 78 (207)
T TIGR00706 78 Y 78 (207)
T ss_pred H
Confidence 3
No 75
>cd07023 S49_Sppa_N_C Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. This subfamily contains members with either a single domain (sometimes referred to as 36K type), such as sohB peptidase, protein C and archaeal signal peptide peptidase, or an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad
Probab=72.69 E-value=25 Score=31.91 Aligned_cols=68 Identities=19% Similarity=0.260 Sum_probs=43.6
Q ss_pred CCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHH
Q 017966 246 GAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQT 323 (363)
Q Consensus 246 G~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~ 323 (363)
|......+.++++.+.+ |+++++|++.+ +||-.. . + +.+.++++.... .++||++...|.....
T Consensus 15 ~~~~~~~l~~~l~~a~~----d~~i~~ivl~~~s~Gg~~~--~-~---~~i~~~i~~~~~----~~kpvia~v~g~~~s~ 80 (208)
T cd07023 15 GGIGADSLIEQLRKARE----DDSVKAVVLRINSPGGSVV--A-S---EEIYREIRRLRK----AKKPVVASMGDVAASG 80 (208)
T ss_pred CCCCHHHHHHHHHHHHh----CCCCcEEEEEEECCCCCHH--H-H---HHHHHHHHHHHh----cCCcEEEEECCcchhH
Confidence 35677788888887776 99999988877 444221 1 1 344445554432 3689999988865554
Q ss_pred HHHH
Q 017966 324 GLAK 327 (363)
Q Consensus 324 ~~~~ 327 (363)
+-.+
T Consensus 81 g~~l 84 (208)
T cd07023 81 GYYI 84 (208)
T ss_pred HHHH
Confidence 4443
No 76
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=72.63 E-value=47 Score=31.75 Aligned_cols=109 Identities=12% Similarity=0.099 Sum_probs=71.5
Q ss_pred ceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 017966 240 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 319 (363)
Q Consensus 240 N~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~ 319 (363)
.|.|=.|..+.+.+.+-++.++ +..+++++++-..|-...-...+ -..+++...+... .++||++..++.
T Consensus 11 TPf~~dg~iD~~~l~~~i~~l~-----~~Gv~gi~~~Gs~GE~~~ls~~E-r~~~~~~~~~~~~----~~~~vi~gv~~~ 80 (292)
T PRK03170 11 TPFKEDGSVDFAALRKLVDYLI-----ANGTDGLVVVGTTGESPTLTHEE-HEELIRAVVEAVN----GRVPVIAGTGSN 80 (292)
T ss_pred CCcCCCCCcCHHHHHHHHHHHH-----HcCCCEEEECCcCCccccCCHHH-HHHHHHHHHHHhC----CCCcEEeecCCc
Confidence 5666678999999999999988 47899999887433222222111 1344554444432 358999999998
Q ss_pred CHHHHHHHHHhhccccCC------ceeecCCCCCHHHHHHHHHHHhHh
Q 017966 320 NYQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 320 ~~~~~~~~l~~~~~~~Gi------p~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
+.+++.+..+.+ +++|. |-++| ..+.++.++++-+++.+
T Consensus 81 ~~~~~i~~a~~a-~~~G~d~v~~~pP~~~--~~~~~~i~~~~~~ia~~ 125 (292)
T PRK03170 81 STAEAIELTKFA-EKAGADGALVVTPYYN--KPTQEGLYQHFKAIAEA 125 (292)
T ss_pred hHHHHHHHHHHH-HHcCCCEEEECCCcCC--CCCHHHHHHHHHHHHhc
Confidence 888888877643 34563 22222 34678888888777654
No 77
>TIGR00674 dapA dihydrodipicolinate synthase. Dihydrodipicolinate synthase is a homotetrameric enzyme of lysine biosynthesis. E. coli has several paralogs closely related to dihydrodipicoline synthase (DapA), as well as the more distant N-acetylneuraminate lyase. In Pyrococcus horikoshii, the bidirectional best hit with E. coli is to an uncharacterized paralog of DapA, not DapA itself, and it is omitted from the seed. The putative members from the Chlamydias (pathogens with a parasitic metabolism) are easily the most divergent members of the multiple alignment.
Probab=72.42 E-value=53 Score=31.37 Aligned_cols=110 Identities=9% Similarity=0.081 Sum_probs=71.6
Q ss_pred ceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 017966 240 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 319 (363)
Q Consensus 240 N~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~ 319 (363)
.|.|=-|..+.+.+.+-++.++ +..+++++++-..|-...-...+ -..+++...+... .++||++..+.+
T Consensus 8 TPf~~~g~iD~~~~~~~i~~l~-----~~Gv~Gi~~~GstGE~~~Ls~~E-r~~~~~~~~~~~~----~~~~vi~gv~~~ 77 (285)
T TIGR00674 8 TPFKEDGSVDFAALEKLIDFQI-----ENGTDAIVVVGTTGESPTLSHEE-HKKVIEFVVDLVN----GRVPVIAGTGSN 77 (285)
T ss_pred CCcCCCCCcCHHHHHHHHHHHH-----HcCCCEEEECccCcccccCCHHH-HHHHHHHHHHHhC----CCCeEEEeCCCc
Confidence 4566678999999999999888 47999999886433322222221 1344454444322 368999999998
Q ss_pred CHHHHHHHHHhhccccCC------ceeecCCCCCHHHHHHHHHHHhHhc
Q 017966 320 NYQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMSA 362 (363)
Q Consensus 320 ~~~~~~~~l~~~~~~~Gi------p~~~~~~~~~~~eav~~~~~~~~~~ 362 (363)
+.+++.+..+.+ ++.|. |-++| ..+.++.++++-.++.+.
T Consensus 78 s~~~~i~~a~~a-~~~Gad~v~v~pP~y~--~~~~~~i~~~~~~i~~~~ 123 (285)
T TIGR00674 78 ATEEAISLTKFA-EDVGADGFLVVTPYYN--KPTQEGLYQHFKAIAEEV 123 (285)
T ss_pred cHHHHHHHHHHH-HHcCCCEEEEcCCcCC--CCCHHHHHHHHHHHHhcC
Confidence 888888777643 34552 22333 246788888887777653
No 78
>cd00394 Clp_protease_like Caseinolytic protease (ClpP) is an ATP-dependent protease. Clp protease (caseinolytic protease; ClpP; endopeptidase Clp; Peptidase S14; ATP-dependent protease, ClpAP)-like enzymes are highly conserved serine proteases and belong to the ClpP/Crotonase superfamily. Included in this family are Clp proteases that are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. The functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activity in the presence of ATP. Active site consists of the triad Ser, His and Asp, preferring hydrophobic or non-polar residues at P1 or P1' positions. The protease exists as a tetradec
Probab=71.62 E-value=30 Score=29.72 Aligned_cols=64 Identities=19% Similarity=0.247 Sum_probs=39.9
Q ss_pred CCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH
Q 017966 248 PNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 325 (363)
Q Consensus 248 a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~ 325 (363)
.+.+.+.++++-+-+ |+++++|++.+ +||-. . -. ..|.+++++. ++||++...|.-...+-
T Consensus 11 ~~~~~l~~~l~~a~~----d~~~~~ivl~~~s~Gg~~--~-~~---~~i~~~l~~~-------~kpvva~~~g~~~s~g~ 73 (161)
T cd00394 11 VSADQLAAQIRFAEA----DNSVKAIVLEVNTPGGRV--D-AG---MNIVDALQAS-------RKPVIAYVGGQAASAGY 73 (161)
T ss_pred chHHHHHHHHHHHHh----CCCCceEEEEEECCCcCH--H-HH---HHHHHHHHHh-------CCCEEEEECChhHHHHH
Confidence 344555555555544 89999988766 56522 1 12 5566777654 48899998887665554
Q ss_pred HHH
Q 017966 326 AKM 328 (363)
Q Consensus 326 ~~l 328 (363)
-+.
T Consensus 74 ~la 76 (161)
T cd00394 74 YIA 76 (161)
T ss_pred HHH
Confidence 333
No 79
>PRK13278 purP 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase; Provisional
Probab=71.14 E-value=29 Score=34.73 Aligned_cols=58 Identities=9% Similarity=0.095 Sum_probs=44.0
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC-CCeEEEe
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL-GCTISFS 73 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~-~p~ii~s 73 (363)
-||.++.|.+|+.+++++++.+... .....++|||++. +.|+++-+...|- +.+-++|
T Consensus 163 kGv~i~~s~~El~~~~~~l~~~~~~-----~~~~~~iIEEfI~-G~e~sv~~f~s~~~~~~e~l~ 221 (358)
T PRK13278 163 RGYFIAKSPEEFKEKIDKLIERGLI-----TEVEEAIIQEYVV-GVPYYFHYFYSPIKNRLELLG 221 (358)
T ss_pred CCeEEeCCHHHHHHHHHHHHhcccc-----CCCCeEEEEecCC-CcEEEEEEEEeccCCeEEEEe
Confidence 4888999999999999998764431 1256799999997 6799999888764 5554444
No 80
>cd00408 DHDPS-like Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.
Probab=71.03 E-value=57 Score=30.84 Aligned_cols=109 Identities=16% Similarity=0.141 Sum_probs=71.4
Q ss_pred ceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 017966 240 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 319 (363)
Q Consensus 240 N~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~ 319 (363)
-|.|=.|..+.+.+.+-++.+++ ..+++++++-..|=...-...+ -+.+++...+... .+.||++..+++
T Consensus 7 TPf~~dg~iD~~~~~~~i~~l~~-----~Gv~gi~~~GstGE~~~ls~~E-r~~l~~~~~~~~~----~~~~vi~gv~~~ 76 (281)
T cd00408 7 TPFTADGEVDLDALRRLVEFLIE-----AGVDGLVVLGTTGEAPTLTDEE-RKEVIEAVVEAVA----GRVPVIAGVGAN 76 (281)
T ss_pred CCcCCCCCcCHHHHHHHHHHHHH-----cCCCEEEECCCCcccccCCHHH-HHHHHHHHHHHhC----CCCeEEEecCCc
Confidence 45566788999999999999885 6999999887433222222111 1445555554432 368999999999
Q ss_pred CHHHHHHHHHhhccccCC------ceeecCCCCCHHHHHHHHHHHhHh
Q 017966 320 NYQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 320 ~~~~~~~~l~~~~~~~Gi------p~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
+..++.+..+.+ +++|. |-++| ..+.++.++.+-.++.+
T Consensus 77 ~~~~~i~~a~~a-~~~Gad~v~v~pP~y~--~~~~~~~~~~~~~ia~~ 121 (281)
T cd00408 77 STREAIELARHA-EEAGADGVLVVPPYYN--KPSQEGIVAHFKAVADA 121 (281)
T ss_pred cHHHHHHHHHHH-HHcCCCEEEECCCcCC--CCCHHHHHHHHHHHHhc
Confidence 888888777543 34553 22222 35778888888887764
No 81
>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.
Probab=69.65 E-value=60 Score=30.81 Aligned_cols=109 Identities=11% Similarity=0.091 Sum_probs=71.8
Q ss_pred ceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 017966 240 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 319 (363)
Q Consensus 240 N~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~ 319 (363)
.|.|=-|..+.+.+.+-++.+++ .++++++++-..|-...-...+ -+.+++...+... .+.||++..+++
T Consensus 10 TPf~~dg~iD~~~~~~~i~~l~~-----~Gv~gl~v~GstGE~~~lt~~E-r~~l~~~~~~~~~----~~~~vi~gv~~~ 79 (284)
T cd00950 10 TPFKDDGSVDFDALERLIEFQIE-----NGTDGLVVCGTTGESPTLSDEE-HEAVIEAVVEAVN----GRVPVIAGTGSN 79 (284)
T ss_pred CCcCCCCCcCHHHHHHHHHHHHH-----cCCCEEEECCCCcchhhCCHHH-HHHHHHHHHHHhC----CCCcEEeccCCc
Confidence 45666789999999999998884 7899999986432222222221 2455555555432 368999999999
Q ss_pred CHHHHHHHHHhhccccCCc------eeecCCCCCHHHHHHHHHHHhHh
Q 017966 320 NYQTGLAKMRALGEELGIP------LEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 320 ~~~~~~~~l~~~~~~~Gip------~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
+.+++.+..+.+ +++|.. -++| ..+.++.+.++-+++.+
T Consensus 80 ~~~~~~~~a~~a-~~~G~d~v~~~~P~~~--~~~~~~l~~~~~~ia~~ 124 (284)
T cd00950 80 NTAEAIELTKRA-EKAGADAALVVTPYYN--KPSQEGLYAHFKAIAEA 124 (284)
T ss_pred cHHHHHHHHHHH-HHcCCCEEEEcccccC--CCCHHHHHHHHHHHHhc
Confidence 999998887653 356643 2222 24667777777776654
No 82
>COG0075 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]
Probab=69.33 E-value=36 Score=34.44 Aligned_cols=83 Identities=23% Similarity=0.334 Sum_probs=62.3
Q ss_pred ceEecCCCcEEEEecCCcHHHHHHHHHHhcCCCCCCCcee--eccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe---
Q 017966 203 FTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYA--EYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI--- 277 (363)
Q Consensus 203 ~~~i~l~g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~l--D~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--- 277 (363)
.+++++++++.++.||. .+=--.|++..+ |.+. -.+ +-|-..+++.+.++++ + +|+++.|.+.|
T Consensus 74 ~sl~~pgdkVLv~~nG~-FG~R~~~ia~~~--g~~v-~~~~~~wg~~v~p~~v~~~L~---~----~~~~~~V~~vH~ET 142 (383)
T COG0075 74 ASLVEPGDKVLVVVNGK-FGERFAEIAERY--GAEV-VVLEVEWGEAVDPEEVEEALD---K----DPDIKAVAVVHNET 142 (383)
T ss_pred HhccCCCCeEEEEeCCh-HHHHHHHHHHHh--CCce-EEEeCCCCCCCCHHHHHHHHh---c----CCCccEEEEEeccC
Confidence 34678899999999998 777778999986 5543 222 2457788999999855 3 89999999999
Q ss_pred cccCCchhHHhhhHHHHHHHHHHhh
Q 017966 278 GGGIANFTDVATTFNGIIRALREKE 302 (363)
Q Consensus 278 ~g~i~~~~~vA~~~~giv~a~~~~~ 302 (363)
.+|+.+.. +.|.++.+++.
T Consensus 143 STGvlnpl------~~I~~~~k~~g 161 (383)
T COG0075 143 STGVLNPL------KEIAKAAKEHG 161 (383)
T ss_pred cccccCcH------HHHHHHHHHcC
Confidence 56776632 56778888774
No 83
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=68.58 E-value=57 Score=26.48 Aligned_cols=100 Identities=18% Similarity=0.200 Sum_probs=56.4
Q ss_pred HHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhh
Q 017966 224 IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKES 303 (363)
Q Consensus 224 ~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~ 303 (363)
+..+.+... |= .-+++|.+.+++.+.+++ .+ .+.+.|.+ ....+.....+ ..+++.+++..
T Consensus 18 ~~~~~l~~~--G~---~V~~lg~~~~~~~l~~~~---~~-----~~pdvV~i--S~~~~~~~~~~---~~~i~~l~~~~- 78 (119)
T cd02067 18 IVARALRDA--GF---EVIDLGVDVPPEEIVEAA---KE-----EDADAIGL--SGLLTTHMTLM---KEVIEELKEAG- 78 (119)
T ss_pred HHHHHHHHC--CC---EEEECCCCCCHHHHHHHH---HH-----cCCCEEEE--eccccccHHHH---HHHHHHHHHcC-
Confidence 345666664 32 347889999988776663 32 33343443 22233334444 67777777653
Q ss_pred hhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHH
Q 017966 304 KLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQA 355 (363)
Q Consensus 304 ~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~ 355 (363)
. .-+.+.+||.....--+.+++ .|+-.+ +.+-++++...
T Consensus 79 ----~-~~~~i~vGG~~~~~~~~~~~~----~G~D~~----~~~~~~~~~~~ 117 (119)
T cd02067 79 ----L-DDIPVLVGGAIVTRDFKFLKE----IGVDAY----FGPATEAVEVL 117 (119)
T ss_pred ----C-CCCeEEEECCCCChhHHHHHH----cCCeEE----ECCHHHHHHHH
Confidence 1 125567778665554456664 787543 35666676654
No 84
>PF02222 ATP-grasp: ATP-grasp domain; InterPro: IPR003135 The ATP-grasp domain has an unusual nucleotide-binding fold, also referred to as palmate, and is found in a superfamily of enzymes including D-alanine-D-alanine ligase, glutathione synthetase, biotin carboxylase, and carbamoyl phosphate synthetase, the ribosomal protein S6 modification enzyme (RimK), urea amidolyase, tubulin-tyrosine ligase, and three enzymes of purine biosynthesis. This family does not contain all known ATP-grasp domain members. All the enzymes of this family possess ATP-dependent carboxylate-amine ligase activity, and their catalytic mechanisms are likely to include acylphosphate intermediates.; PDB: 3K5H_C 3K5I_C 3AX6_A 3Q2O_B 3QFF_B 3R5H_A 3ORQ_B 3ORR_B 4E4T_B 2Z04_A ....
Probab=65.71 E-value=99 Score=27.51 Aligned_cols=51 Identities=16% Similarity=0.088 Sum_probs=35.6
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
|..+..+.+++.++++.+- -..+++|++++..+|+-+-+.||..+.+..+-
T Consensus 44 Gq~~i~~~~dl~~a~~~~~------------~~~~ilE~~v~f~~EiSvivaR~~~G~~~~yp 94 (172)
T PF02222_consen 44 GQFVIRSEEDLEKAWQELG------------GGPCILEEFVPFDREISVIVARDQDGEIRFYP 94 (172)
T ss_dssp TEEEESSGGGHHHHHHHTT------------TSCEEEEE---ESEEEEEEEEEETTSEEEEEE
T ss_pred ccEEECCHHHHHHHHHhcC------------CCcEEEEeccCCcEEEEEEEEEcCCCCEEEEc
Confidence 5666677888877777661 12478999999999999999999987554443
No 85
>COG0458 CarB Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]
Probab=65.51 E-value=23 Score=35.94 Aligned_cols=60 Identities=13% Similarity=0.227 Sum_probs=44.2
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEeccCCC
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFSECGGI 78 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s~~GGv 78 (363)
|+.++.|.+|..+.....+.. ..++.+|+|+.+...+|+..-+.+|...-+|+...++=.
T Consensus 165 G~~i~~n~eel~~~~~~~l~~--------s~~~~vl~eesi~G~ke~e~ev~rd~~~n~ivvc~men~ 224 (400)
T COG0458 165 GGGIAYNEEELEEIIEEGLRA--------SPVEEVLIEESIIGWKEFEYEVVRDGKDNCIVVCNMENL 224 (400)
T ss_pred ceeEEeCHHHHHHHHHhcccc--------CccccceeeeeecCceEEEEEEEEeCCCCEEEEEeCCcc
Confidence 444677888888776665442 347899999999999999999999998555444425533
No 86
>cd07022 S49_Sppa_36K_type Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 36K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily are all bacterial and include sohB peptidase and protein C. These are sometimes referred to as 36K type since they contain only one domain, unlike E. coli SppA that also contains an amino-terminal domain. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases.
Probab=65.20 E-value=51 Score=30.10 Aligned_cols=66 Identities=26% Similarity=0.271 Sum_probs=42.9
Q ss_pred cCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHH
Q 017966 245 SGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ 322 (363)
Q Consensus 245 gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~ 322 (363)
.+......+.++++-+.+ |+++++|++.+ +|+- ... + +.+.++++..+ . ++||++.+.|.-..
T Consensus 22 ~~~~~~~~l~~~l~~a~~----d~~i~~Vvl~~~s~gg~--~~~-~---~~l~~~l~~~~----~-~KpViA~v~g~a~s 86 (214)
T cd07022 22 SGLTSYEGIAAAIRAALA----DPDVRAIVLDIDSPGGE--VAG-V---FELADAIRAAR----A-GKPIVAFVNGLAAS 86 (214)
T ss_pred CCcccHHHHHHHHHHHhh----CCCCcEEEEEEeCCCCc--HHH-H---HHHHHHHHHHh----c-CCCEEEEECCchhh
Confidence 344567888888888777 99999999877 4432 111 1 44555665543 1 58999998875444
Q ss_pred HHH
Q 017966 323 TGL 325 (363)
Q Consensus 323 ~~~ 325 (363)
.|-
T Consensus 87 ~gy 89 (214)
T cd07022 87 AAY 89 (214)
T ss_pred HHH
Confidence 443
No 87
>PRK05294 carB carbamoyl phosphate synthase large subunit; Reviewed
Probab=64.87 E-value=22 Score=40.67 Aligned_cols=54 Identities=19% Similarity=0.259 Sum_probs=41.2
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEE
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISF 72 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~ 72 (363)
|+.++.|.+|+.+++++.+... ....++||++++..+|+-+.+.+|..+.++.+
T Consensus 178 Gv~iv~~~eeL~~a~~~~~~~s--------~~~~vlvEe~I~G~~Eisv~v~rd~~g~~~~~ 231 (1066)
T PRK05294 178 GGGIAYNEEELEEIVERGLDLS--------PVTEVLIEESLLGWKEYEYEVMRDKNDNCIIV 231 (1066)
T ss_pred CeEEECCHHHHHHHHHHHHhhC--------CCCeEEEEEcccCceEEEEEEEEcCCCCEEEE
Confidence 5678889999998887654311 23468999999988999999999987655443
No 88
>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants. The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....
Probab=64.51 E-value=74 Score=30.30 Aligned_cols=110 Identities=10% Similarity=0.082 Sum_probs=71.2
Q ss_pred ceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 017966 240 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 319 (363)
Q Consensus 240 N~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~ 319 (363)
-|.+-.|..+.+.+.+-++.+++ .++++++++-..|=..+-...+ -.-+++...+... .+.||++..++.
T Consensus 11 TPf~~dg~id~~~~~~~i~~l~~-----~Gv~gl~~~GstGE~~~Lt~~E-r~~l~~~~~~~~~----~~~~vi~gv~~~ 80 (289)
T PF00701_consen 11 TPFNADGSIDEDALKRLIDFLIE-----AGVDGLVVLGSTGEFYSLTDEE-RKELLEIVVEAAA----GRVPVIAGVGAN 80 (289)
T ss_dssp --BETTSSB-HHHHHHHHHHHHH-----TTSSEEEESSTTTTGGGS-HHH-HHHHHHHHHHHHT----TSSEEEEEEESS
T ss_pred CCCCCCcCcCHHHHHHHHHHHHH-----cCCCEEEECCCCcccccCCHHH-HHHHHHHHHHHcc----CceEEEecCcch
Confidence 46667789999999999999885 5899999876433222222221 1345555444432 368999999999
Q ss_pred CHHHHHHHHHhhccccCCcee-----ecCCCCCHHHHHHHHHHHhHh
Q 017966 320 NYQTGLAKMRALGEELGIPLE-----VYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 320 ~~~~~~~~l~~~~~~~Gip~~-----~~~~~~~~~eav~~~~~~~~~ 361 (363)
+.+++.+..+.+ +++|+... +|. ..|.++.++.+..++.+
T Consensus 81 st~~~i~~a~~a-~~~Gad~v~v~~P~~~-~~s~~~l~~y~~~ia~~ 125 (289)
T PF00701_consen 81 STEEAIELARHA-QDAGADAVLVIPPYYF-KPSQEELIDYFRAIADA 125 (289)
T ss_dssp SHHHHHHHHHHH-HHTT-SEEEEEESTSS-SCCHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHH-hhcCceEEEEeccccc-cchhhHHHHHHHHHHhh
Confidence 999998888754 34564321 121 46888989888888754
No 89
>PLN02257 phosphoribosylamine--glycine ligase
Probab=64.08 E-value=19 Score=36.89 Aligned_cols=51 Identities=22% Similarity=0.191 Sum_probs=38.1
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
||.++.|.+|+.+++++++..... + ..-..++||+++.. .|+-+.+.+|..
T Consensus 152 GV~iv~~~~el~~a~~~~~~~~~f--g--~~~~~vlIEefi~G-~E~Sv~~~~dG~ 202 (434)
T PLN02257 152 GVVVAMTLEEAYEAVDSMLVKGAF--G--SAGSEVVVEEFLDG-EEASFFALVDGE 202 (434)
T ss_pred CEEEECCHHHHHHHHHHHHhhhhc--c--CCCCeEEEEECCCC-CEEEEEEEECCC
Confidence 798999999999999888653221 1 11357999999985 599997778853
No 90
>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid). It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.
Probab=63.90 E-value=90 Score=29.84 Aligned_cols=110 Identities=16% Similarity=0.135 Sum_probs=71.5
Q ss_pred ceeeccCCCCHHHHHHHHHHHHhhhccCC-CCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 017966 240 NYAEYSGAPNEEEVLQYARVVIDCATADP-DGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 318 (363)
Q Consensus 240 N~lD~gG~a~~e~~~~a~~~ll~~~~~~~-~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G 318 (363)
.|.|=-|..+.+.+.+-++.+++ . ++++++++-..|-...-...+ -+.++++..+... .++||++..+.
T Consensus 10 TPf~~dg~iD~~~~~~~i~~l~~-----~~Gv~gi~~~GstGE~~~Lt~~E-r~~~~~~~~~~~~----~~~~viagv~~ 79 (288)
T cd00954 10 TPFDENGEINEDVLRAIVDYLIE-----KQGVDGLYVNGSTGEGFLLSVEE-RKQIAEIVAEAAK----GKVTLIAHVGS 79 (288)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHh-----cCCCCEEEECcCCcCcccCCHHH-HHHHHHHHHHHhC----CCCeEEeccCC
Confidence 56666788999999999999884 6 899999887433332222221 1344444444332 25899999998
Q ss_pred CCHHHHHHHHHhhccccCC------ceeecCCCCCHHHHHHHHHHHhHhc
Q 017966 319 PNYQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMSA 362 (363)
Q Consensus 319 ~~~~~~~~~l~~~~~~~Gi------p~~~~~~~~~~~eav~~~~~~~~~~ 362 (363)
++.+++.+..+.+ ++.|. |-++| ..|.++.++++..++.+.
T Consensus 80 ~~~~~ai~~a~~a-~~~Gad~v~~~~P~y~--~~~~~~i~~~~~~v~~a~ 126 (288)
T cd00954 80 LNLKESQELAKHA-EELGYDAISAITPFYY--KFSFEEIKDYYREIIAAA 126 (288)
T ss_pred CCHHHHHHHHHHH-HHcCCCEEEEeCCCCC--CCCHHHHHHHHHHHHHhc
Confidence 8888887776542 34563 22222 256788888888877653
No 91
>TIGR01205 D_ala_D_alaTIGR D-alanine--D-alanine ligase. but a number of antibiotic resistance proteins score above the trusted cutoff of this model.
Probab=63.13 E-value=1.4e+02 Score=28.40 Aligned_cols=49 Identities=16% Similarity=0.127 Sum_probs=36.4
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC-CCeE
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL-GCTI 70 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~-~p~i 70 (363)
||.+..|.+|+.+++++... .. ..++||++++ ++|+-+++..+.. .+++
T Consensus 161 Gv~~v~~~~el~~~~~~~~~-----~~-----~~~lvEe~i~-G~e~~v~vi~~~~~~~~~ 210 (315)
T TIGR01205 161 GVSKVKSEEELQAALDEAFE-----YD-----EEVLVEQFIK-GRELEVSILGNEEALPII 210 (315)
T ss_pred CEEEECCHHHHHHHHHHHHh-----cC-----CcEEEEcCCC-CEEEEEEEECCCCccceE
Confidence 68888999999988776542 11 3589999997 7899999988543 3443
No 92
>TIGR03249 KdgD 5-dehydro-4-deoxyglucarate dehydratase. 5-dehydro-4-deoxyglucarate dehydratase not only catalyzes the dehydration of the substrate (diol to ketone + water), but causes the decarboxylation of the intermediate product to yield 2-oxoglutarate semialdehyde (2,5-dioxopentanoate). The gene for the enzyme is usually observed in the vicinity of transporters and dehydratases handling D-galactarate and D-gluconate as well as aldehyde dehydrogenases which convert the product to alpha-ketoglutarate.
Probab=62.69 E-value=95 Score=29.83 Aligned_cols=108 Identities=13% Similarity=0.127 Sum_probs=68.0
Q ss_pred ceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 017966 240 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 319 (363)
Q Consensus 240 N~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~ 319 (363)
-|.|=-|..+.+.+.+-++.++ +.++++++++-..|-...-...+ -+.+++...+... .+.||++..+.
T Consensus 15 TPf~~dg~iD~~~l~~li~~l~-----~~Gv~gi~v~GstGE~~~Lt~eE-r~~v~~~~~~~~~----g~~pvi~gv~~- 83 (296)
T TIGR03249 15 TPFDADGSFDEAAYRENIEWLL-----GYGLEALFAAGGTGEFFSLTPAE-YEQVVEIAVSTAK----GKVPVYTGVGG- 83 (296)
T ss_pred CCcCCCCCcCHHHHHHHHHHHH-----hcCCCEEEECCCCcCcccCCHHH-HHHHHHHHHHHhC----CCCcEEEecCc-
Confidence 5666778899999999998888 47899999876333222211111 1445554444332 36899999875
Q ss_pred CHHHHHHHHHhhccccCC------ceeecCCCCCHHHHHHHHHHHhHh
Q 017966 320 NYQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 320 ~~~~~~~~l~~~~~~~Gi------p~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
+.+++.+..+.+ ++.|. |-++| ..+.++.++++-.++.+
T Consensus 84 ~t~~ai~~a~~a-~~~Gadav~~~pP~y~--~~s~~~i~~~f~~v~~a 128 (296)
T TIGR03249 84 NTSDAIEIARLA-EKAGADGYLLLPPYLI--NGEQEGLYAHVEAVCES 128 (296)
T ss_pred cHHHHHHHHHHH-HHhCCCEEEECCCCCC--CCCHHHHHHHHHHHHhc
Confidence 688887777643 34552 32332 24667777777777654
No 93
>PF07478 Dala_Dala_lig_C: D-ala D-ala ligase C-terminus; InterPro: IPR011095 This entry represents the C-terminal, catalytic domain of the D-alanine--D-alanine ligase enzyme 6.3.2.4 from EC. D-Alanine is one of the central molecules of the cross-linking step of peptidoglycan assembly. There are three enzymes involved in the D-alanine branch of peptidoglycan biosynthesis: the pyridoxal phosphate-dependent D-alanine racemase (Alr), the ATP-dependent D-alanine: D-alanine ligase (Ddl), and the ATP-dependent D-alanine:D-alanine-adding enzyme (MurF) [].; GO: 0008716 D-alanine-D-alanine ligase activity; PDB: 3Q1K_D 3I12_C 1IOV_A 1IOW_A 2DLN_A 4EG0_B 3LWB_A 1EHI_B 2FB9_A 3V4Z_A ....
Probab=61.93 E-value=32 Score=31.35 Aligned_cols=45 Identities=11% Similarity=0.226 Sum_probs=34.3
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
||..+.|.++...+..+.+. . -..+|||+.+ .++|+-+|+.-+..
T Consensus 48 Gi~~v~~~~el~~ai~~~~~--~--------~~~vlVEefI-~G~E~tv~vl~~~~ 92 (203)
T PF07478_consen 48 GISKVHNEEELEEAIEKAFK--Y--------DDDVLVEEFI-SGREFTVGVLGNGE 92 (203)
T ss_dssp TEEEESSHHHHHHHHHHHTT--T--------HSEEEEEE---SSEEEEEEEEESSS
T ss_pred EEEEcCCHHHHHHHHHHHhh--h--------cceEEEEeee-cccceEEEEEecCC
Confidence 67788999999988877642 1 1369999999 58999999999665
No 94
>TIGR01369 CPSaseII_lrg carbamoyl-phosphate synthase, large subunit. In several thermophilic species (Methanobacterium thermoautotrophicum, Methanococcus jannaschii, Aquifex aeolicus), the large subunit appears split, at different points, into two separate genes.
Probab=61.62 E-value=25 Score=40.21 Aligned_cols=54 Identities=17% Similarity=0.217 Sum_probs=41.9
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEE
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISF 72 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~ 72 (363)
|+.++.|++|+.+++.+.+... +...++||++++..+|+-+.+.+|..+.++.+
T Consensus 177 Gv~iv~~~eeL~~~~~~~~~~s--------~~~~vlVEe~I~G~~Eiev~v~rd~~g~~~~~ 230 (1050)
T TIGR01369 177 GGGIAYNREELKEIAERALSAS--------PINQVLVEKSLAGWKEIEYEVMRDSNDNCITV 230 (1050)
T ss_pred CeEEECCHHHHHHHHHHHHhcC--------CCCcEEEEEcccCceEEEEEEEEeCCCCEEEE
Confidence 4667889999988877765421 23579999999988999999999987665544
No 95
>cd00951 KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is member of dihydrodipicolinate synthase (DHDPS) family that comprises several pyruvate-dependent class I aldolases. The enzyme is involved in glucarate metabolism, and its mechanism presumbly involves a Schiff-base intermediate similar to members of DHDPS family. While in the case of Pseudomonas sp. 5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to 2,5-dioxopentanoate, in certain species of Enterobacteriaceae it is degraded instead to pyruvate and glycerate.
Probab=61.23 E-value=1.1e+02 Score=29.24 Aligned_cols=108 Identities=18% Similarity=0.159 Sum_probs=65.9
Q ss_pred ceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 017966 240 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 319 (363)
Q Consensus 240 N~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~ 319 (363)
-|.|=-|..+.+.+.+-++.++ +.++++++++-..|=...-...+ -..+++...+... .++||++..+.
T Consensus 10 TPf~~dg~iD~~~l~~l~~~l~-----~~Gv~gi~v~GstGE~~~Ls~eE-r~~l~~~~~~~~~----~~~pvi~gv~~- 78 (289)
T cd00951 10 THFDADGSFDEDAYRAHVEWLL-----SYGAAALFAAGGTGEFFSLTPDE-YAQVVRAAVEETA----GRVPVLAGAGY- 78 (289)
T ss_pred cCCCCCCCcCHHHHHHHHHHHH-----HcCCCEEEECcCCcCcccCCHHH-HHHHHHHHHHHhC----CCCCEEEecCC-
Confidence 4556668899999999988887 47899999887322221111111 1334444333321 36899998876
Q ss_pred CHHHHHHHHHhhccccCC------ceeecCCCCCHHHHHHHHHHHhHh
Q 017966 320 NYQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 320 ~~~~~~~~l~~~~~~~Gi------p~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
+..++.+..+.+ +++|. |-++| ..+.++.++++-.++.+
T Consensus 79 ~t~~~i~~a~~a-~~~Gad~v~~~pP~y~--~~~~~~i~~~f~~v~~~ 123 (289)
T cd00951 79 GTATAIAYAQAA-EKAGADGILLLPPYLT--EAPQEGLYAHVEAVCKS 123 (289)
T ss_pred CHHHHHHHHHHH-HHhCCCEEEECCCCCC--CCCHHHHHHHHHHHHhc
Confidence 778887766543 34553 32322 34667778877777654
No 96
>PRK13277 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase-like protein; Provisional
Probab=61.20 E-value=33 Score=34.44 Aligned_cols=66 Identities=6% Similarity=-0.001 Sum_probs=45.8
Q ss_pred cccCccC-eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC-CCeEEEe
Q 017966 4 GKRGKSG-LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL-GCTISFS 73 (363)
Q Consensus 4 GgRGKaG-GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~-~p~ii~s 73 (363)
+++|+.| |+-++.|++|....+.++...-..+ +..+....|||.+. +.|+++-+..||- +.+-++|
T Consensus 161 ~asG~~srG~f~a~s~eEl~~~a~~l~~~g~I~---~~~~~~~iIQEyI~-G~ey~~d~F~s~l~g~ve~l~ 228 (366)
T PRK13277 161 EAKRRLERGFFTASSYEDFYEKSEELIKAGVID---REDLKNARIEEYVI-GAHFNFNYFYSPIRDRLELLG 228 (366)
T ss_pred CCCCccccCeEeeCCHHHHHHHHHhhhhcCccc---ccccccceeEeccC-CCEEEEEEEEeccCCcEEEEE
Confidence 4445333 7778899999988887776432221 12357888999997 7899999999984 5554444
No 97
>TIGR00877 purD phosphoribosylamine--glycine ligase. This enzyme appears as a monofunctional protein in prokaryotes but as part of a larger, multidomain protein in eukaryotes.
Probab=60.37 E-value=23 Score=35.59 Aligned_cols=50 Identities=18% Similarity=0.154 Sum_probs=39.1
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
||.+..|.+++.+++++++.... + .....++||++++. .|+.+.+..|..
T Consensus 155 Gv~~v~~~~el~~~~~~~~~~~~---g--~~~~~~lvEe~i~G-~E~sv~~~~dg~ 204 (423)
T TIGR00877 155 GVIVAKTNEEAIKAVEEILEQKF---G--DAGERVVIEEFLDG-EEVSLLAFVDGK 204 (423)
T ss_pred CEEEECCHHHHHHHHHHHHHHhc---C--CCCCeEEEEECccC-ceEEEEEEEcCC
Confidence 79999999999999888865432 1 11357999999985 799999998864
No 98
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=60.00 E-value=58 Score=33.36 Aligned_cols=121 Identities=13% Similarity=0.126 Sum_probs=70.8
Q ss_pred CCcEEEEecCCcHHHHHHHHHHhcCCCCCCC-c----eeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCc
Q 017966 209 KGRIWTMVAGGGASVIYADTVGDLGYASELG-N----YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIAN 283 (363)
Q Consensus 209 ~g~I~ii~NG~G~~~~~~D~l~~~g~gg~pa-N----~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~ 283 (363)
--+||+||.-.|.+. -|.+.....- .|. + |.-+=|.-.+..+.+|++.+-. .+++|+|+|.=.||-.
T Consensus 129 p~~i~vits~~~aa~--~D~~~~~~~r-~p~~~~~~~~~~vQG~~a~~~i~~al~~~~~----~~~~dviii~RGGGs~- 200 (432)
T TIGR00237 129 PKRVGVITSQTGAAL--ADILHILKRR-DPSLKVVIYPTLVQGEGAVQSIVESIELANT----KNECDVLIVGRGGGSL- 200 (432)
T ss_pred CCEEEEEeCCccHHH--HHHHHHHHhh-CCCceEEEecccccCccHHHHHHHHHHHhhc----CCCCCEEEEecCCCCH-
Confidence 578999999998776 6887664111 142 2 2334466667888888877654 4557755544444422
Q ss_pred hhHHhh-hHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHH
Q 017966 284 FTDVAT-TFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 357 (363)
Q Consensus 284 ~~~vA~-~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~ 357 (363)
+|.+. +=+.++.++-. .++||++-+|-.... ..-=|. +.. ...||++|++.++.
T Consensus 201 -eDL~~Fn~e~~~rai~~-------~~~Pvis~iGHe~D~-ti~D~v-----Ad~------ra~TPtaaae~~~p 255 (432)
T TIGR00237 201 -EDLWSFNDEKVARAIFL-------SKIPIISAVGHETDF-TISDFV-----ADL------RAPTPSAAAEIVSP 255 (432)
T ss_pred -HHhhhcCcHHHHHHHHc-------CCCCEEEecCcCCCc-cHHHHh-----hhc------cCCCcHHHHHHhCc
Confidence 23221 01344444433 379999999885432 211221 222 25799999988753
No 99
>TIGR01369 CPSaseII_lrg carbamoyl-phosphate synthase, large subunit. In several thermophilic species (Methanobacterium thermoautotrophicum, Methanococcus jannaschii, Aquifex aeolicus), the large subunit appears split, at different points, into two separate genes.
Probab=58.57 E-value=92 Score=35.68 Aligned_cols=47 Identities=9% Similarity=0.218 Sum_probs=37.2
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeC
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDR 65 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~ 65 (363)
||.++.|.+|+.+++++...... -..++||++++.+.|+-+.+..|.
T Consensus 719 gv~iv~~~eeL~~~l~~a~~~s~--------~~~vlVeefI~~G~E~~Vd~l~d~ 765 (1050)
T TIGR01369 719 AMEIVYNEEELRRYLEEAVEVSP--------EHPVLIDKYLEDAVEVDVDAVSDG 765 (1050)
T ss_pred CeEEECCHHHHHHHHHHHHHhCC--------CCCEEEeecCCCCeEEEEEEEEeC
Confidence 57788999999988887654211 134999999988899999999885
No 100
>PRK14571 D-alanyl-alanine synthetase A; Provisional
Probab=58.19 E-value=26 Score=33.53 Aligned_cols=46 Identities=20% Similarity=0.209 Sum_probs=35.7
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
=||.++.|.+++.++.++.+.. -..++|||+++ ++|+.+++..+..
T Consensus 139 ~Gv~~v~~~~el~~~~~~~~~~----------~~~vlVEeyI~-G~E~sv~vl~~~~ 184 (299)
T PRK14571 139 IGVFICESDEEFQHALKEDLPR----------YGSVIVQEYIP-GREMTVSILETEK 184 (299)
T ss_pred CCEEEECCHHHHHHHHHHHHhh----------CCcEEEEcccc-ceEEEEEEEcCCC
Confidence 4677889999998887765421 13699999998 7899999998754
No 101
>PRK00885 phosphoribosylamine--glycine ligase; Provisional
Probab=56.24 E-value=41 Score=33.89 Aligned_cols=51 Identities=18% Similarity=0.184 Sum_probs=38.9
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
||.++.|.+|+.+++++++..... + ..-..+||||+++ +.|+.+.+..|..
T Consensus 152 Gv~~v~~~~el~~~~~~~~~~~~~--~--~~~~~vlvEe~i~-G~E~sv~~~~~g~ 202 (420)
T PRK00885 152 GVVVAMTLEEAKAAVDDMLAGNKF--G--DAGARVVIEEFLD-GEEASFFAFVDGE 202 (420)
T ss_pred cEEEeCCHHHHHHHHHHHhhcccc--c--CCCCeEEEEEccC-CcEEEEEEEECCC
Confidence 688999999999999888753321 1 1124799999998 5899999988754
No 102
>TIGR00190 thiC thiamine biosynthesis protein ThiC. The thiC ortholog is designated thiA in Bacillus subtilis.
Probab=55.20 E-value=1.4e+02 Score=30.44 Aligned_cols=128 Identities=22% Similarity=0.169 Sum_probs=72.1
Q ss_pred CCcE-EEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchh
Q 017966 209 KGRI-WTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFT 285 (363)
Q Consensus 209 ~g~I-~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~ 285 (363)
.+|+ +|++-|| ++++.-++... -.+|-.+.|-+.++++-+ =+|---|=+- ||.+.+.+
T Consensus 174 ~~R~~giVSRGG--s~~~~WM~~~~------------~ENPlye~fD~lLeI~~~-----yDVtlSLGDglRPG~i~DA~ 234 (423)
T TIGR00190 174 SGRITGIVSRGG--AILAAWMLHHH------------KENPLYKNFDYILEIAKE-----YDVTLSLGDGLRPGCIADAT 234 (423)
T ss_pred CCCccCeecCcH--HHHHHHHHHcC------------CcCchHHHHHHHHHHHHH-----hCeeeeccCCcCCCccccCC
Confidence 5676 6666665 55555555441 345668999998888765 1221112222 89999998
Q ss_pred HHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC----CCHHHHHHHHHhhccccCCceeecCC--------CCCHHHHHH
Q 017966 286 DVATTFNGIIRALREKESKLKAARMHIFVRRGG----PNYQTGLAKMRALGEELGIPLEVYGP--------EATMTGICK 353 (363)
Q Consensus 286 ~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G----~~~~~~~~~l~~~~~~~Gip~~~~~~--------~~~~~eav~ 353 (363)
+-|...+=++ +-++-+.-.+..+.+.+-=.| +..+.-.++-++++ .|-|.|+.|+ |++++.|++
T Consensus 235 D~aQi~El~~--lgeL~~rA~e~gVQvMVEGPGHvPl~~I~~nv~lqK~lc--~~APfYvLGPLvTDiApGYDHItsAIG 310 (423)
T TIGR00190 235 DRAQISELIT--LGELVERAREADVQCMVEGPGHVPLDQIEANVRLQKELC--DEAPFYVLGPLVTDIAPGYDHITSAIG 310 (423)
T ss_pred cHHHHHHHHH--HHHHHHHHHHcCCeEEEECCCCCcHHHHHHHHHHHHHhh--CCCCeeecCCcccccCCCchHHHHHHH
Confidence 8773222221 112211111245666665333 12222333334432 4789999886 688999999
Q ss_pred HHHHHh
Q 017966 354 QAIDCI 359 (363)
Q Consensus 354 ~~~~~~ 359 (363)
.|+.-.
T Consensus 311 gAiAa~ 316 (423)
T TIGR00190 311 AAIAGW 316 (423)
T ss_pred HHHHHH
Confidence 987654
No 103
>COG1090 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]
Probab=53.29 E-value=26 Score=33.93 Aligned_cols=132 Identities=14% Similarity=0.120 Sum_probs=80.6
Q ss_pred CcEEEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe-cccCCchhHHh
Q 017966 210 GRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTDVA 288 (363)
Q Consensus 210 g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~-~g~i~~~~~vA 288 (363)
-|+|++-.+.|-++..|=-+-..|.||+.++=-..--=..-|++-+++..+++ +++..+.+=.. |....+ .+.+
T Consensus 158 lRtGvVLs~~GGaL~~m~~~fk~glGG~~GsGrQ~~SWIhieD~v~~I~fll~----~~~lsGp~N~taP~PV~~-~~F~ 232 (297)
T COG1090 158 LRTGVVLSPDGGALGKMLPLFKLGLGGKLGSGRQWFSWIHIEDLVNAILFLLE----NEQLSGPFNLTAPNPVRN-KEFA 232 (297)
T ss_pred EEEEEEecCCCcchhhhcchhhhccCCccCCCCceeeeeeHHHHHHHHHHHHh----CcCCCCcccccCCCcCcH-HHHH
Confidence 47888777666677777777777788886531111111246888899999998 88888776444 666554 5556
Q ss_pred hhHHHHHHHHHHhhhhhhcccce-EEEE-eCCCCHH---HHHHHHHhhccccCCceeecCCCCCHHHHHHHHHH
Q 017966 289 TTFNGIIRALREKESKLKAARMH-IFVR-RGGPNYQ---TGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 357 (363)
Q Consensus 289 ~~~~giv~a~~~~~~~~~~~~~p-vvvr-l~G~~~~---~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~ 357 (363)
+++.+++.. +. ..++| ...| +-|..+. .+++.+=+...++|.... |.++++|....++
T Consensus 233 ---~al~r~l~R--P~--~~~vP~~~~rl~LGe~a~~lL~gQrvlP~kl~~aGF~F~----y~dl~~AL~~il~ 295 (297)
T COG1090 233 ---HALGRALHR--PA--ILPVPSFALRLLLGEMADLLLGGQRVLPKKLEAAGFQFQ----YPDLEEALADILK 295 (297)
T ss_pred ---HHHHHHhCC--Cc--cccCcHHHHHHHhhhhHHHHhccchhhHHHHHHCCCeee----cCCHHHHHHHHHh
Confidence 666666532 11 13455 4555 3332222 234444344445788664 7899999987764
No 104
>PRK05294 carB carbamoyl phosphate synthase large subunit; Reviewed
Probab=52.58 E-value=1.2e+02 Score=34.69 Aligned_cols=48 Identities=8% Similarity=0.196 Sum_probs=36.6
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
||.++.|.+|+.++.++.+.... -..++||++++...|+-+.+..|..
T Consensus 719 Gv~iv~~~eeL~~~~~~a~~~s~--------~~~vlIEefI~G~~E~sV~~v~dg~ 766 (1066)
T PRK05294 719 AMEIVYDEEELERYMREAVKVSP--------DHPVLIDKFLEGAIEVDVDAICDGE 766 (1066)
T ss_pred cEEEECCHHHHHHHHHHHHhhCC--------CCcEEEEecCCCCEEEEEEEEecCC
Confidence 57788999999988877654211 1358999999876799999888864
No 105
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=51.79 E-value=79 Score=32.21 Aligned_cols=119 Identities=16% Similarity=0.141 Sum_probs=68.5
Q ss_pred CCcEEEEecCCcHHHHHHHHHHhcCCCCC-CC-c----eeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCC
Q 017966 209 KGRIWTMVAGGGASVIYADTVGDLGYASE-LG-N----YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 282 (363)
Q Consensus 209 ~g~I~ii~NG~G~~~~~~D~l~~~g~gg~-pa-N----~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~ 282 (363)
--+||+||.-.|.++ -|.+... .-. |. + |.=+=|+-.+..+.+|++.+-. ...|+|+|.=.|| +
T Consensus 135 p~~I~viTs~~gAa~--~D~~~~~--~~r~p~~~~~~~~~~vQG~~A~~~i~~al~~~~~-----~~~Dviii~RGGG-S 204 (438)
T PRK00286 135 PKRIGVITSPTGAAI--RDILTVL--RRRFPLVEVIIYPTLVQGEGAAASIVAAIERANA-----RGEDVLIVARGGG-S 204 (438)
T ss_pred CCEEEEEeCCccHHH--HHHHHHH--HhcCCCCeEEEecCcCcCccHHHHHHHHHHHhcC-----CCCCEEEEecCCC-C
Confidence 578999999998875 7888764 222 42 2 2223456567888888877643 2356444443554 2
Q ss_pred chhHHhh-hHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHH
Q 017966 283 NFTDVAT-TFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 357 (363)
Q Consensus 283 ~~~~vA~-~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~ 357 (363)
.+|.+. +=+.+++++-+ .+.||++-+|-....---..- +.. ...||++|++.++.
T Consensus 205 -~eDL~~Fn~e~v~~ai~~-------~~~Pvis~IGHE~D~tl~D~v------Ad~------ra~TPtaaae~~~~ 260 (438)
T PRK00286 205 -LEDLWAFNDEAVARAIAA-------SRIPVISAVGHETDFTIADFV------ADL------RAPTPTAAAELAVP 260 (438)
T ss_pred -HHHhhccCcHHHHHHHHc-------CCCCEEEeccCCCCccHHHHh------hhc------cCCChHHHHHHhCc
Confidence 233321 01344444433 369999999885432211111 222 25899999987754
No 106
>cd07021 Clp_protease_NfeD_like Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentiall
Probab=51.10 E-value=68 Score=28.66 Aligned_cols=60 Identities=12% Similarity=0.050 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHH
Q 017966 251 EEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKM 328 (363)
Q Consensus 251 e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~l 328 (363)
+.+.++++-..+ ++ .+.+++.+ |||...+. +.|.+.++.. ++|+++.+.|.-...|--+.
T Consensus 16 ~~l~~~l~~a~~----~~-~~~ivl~inspGG~v~~~------~~I~~~l~~~-------~~pvva~V~g~AaSaG~~ia 77 (178)
T cd07021 16 AFVERALKEAKE----EG-ADAVVLDIDTPGGRVDSA------LEIVDLILNS-------PIPTIAYVNDRAASAGALIA 77 (178)
T ss_pred HHHHHHHHHHHh----CC-CCeEEEEEECcCCCHHHH------HHHHHHHHhC-------CCCEEEEECCchHHHHHHHH
Confidence 334555555444 54 66655555 88876432 6677777654 58999999887665554444
No 107
>COG5012 Predicted cobalamin binding protein [General function prediction only]
Probab=50.90 E-value=90 Score=29.20 Aligned_cols=102 Identities=18% Similarity=0.235 Sum_probs=62.0
Q ss_pred HHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhh
Q 017966 226 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKL 305 (363)
Q Consensus 226 ~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~ 305 (363)
..++...| -+-+|+|-|-|.+.+.++.+-. +|+ +| ..++... +++. .++-|++.|++.+
T Consensus 125 ~~ml~~aG-----fevidLG~dvP~e~fve~a~e~------k~d----~v-~~SalMT-ttm~-~~~~viE~L~eeG--- 183 (227)
T COG5012 125 ATMLEAAG-----FEVIDLGRDVPVEEFVEKAKEL------KPD----LV-SMSALMT-TTMI-GMKDVIELLKEEG--- 183 (227)
T ss_pred HHHHHhCC-----cEEEecCCCCCHHHHHHHHHHc------CCc----EE-echHHHH-HHHH-HHHHHHHHHHHcC---
Confidence 45665542 4779999999999998884432 232 22 2233332 2222 2577888888775
Q ss_pred hcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhH
Q 017966 306 KAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 306 ~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
.+-|+.|-.||....+.+ -. +.|-..| ..+.++||..+-.+.+
T Consensus 184 --iRd~v~v~vGGApvtq~~--a~----~iGAD~~----~~dAs~Av~~ak~~l~ 226 (227)
T COG5012 184 --IRDKVIVMVGGAPVTQDW--AD----KIGADAY----AEDASDAVKKAKAILK 226 (227)
T ss_pred --CccCeEEeecCccccHHH--HH----HhCCCcc----CcCHHHHHHHHHHHhc
Confidence 355677777996443221 12 3555554 5789999988876653
No 108
>PRK13352 thiamine biosynthesis protein ThiC; Provisional
Probab=50.72 E-value=2e+02 Score=29.48 Aligned_cols=128 Identities=24% Similarity=0.224 Sum_probs=72.2
Q ss_pred CCcE-EEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchh
Q 017966 209 KGRI-WTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFT 285 (363)
Q Consensus 209 ~g~I-~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~ 285 (363)
++|+ +|++-|| ++++.-++.. + -.+|-.+.|-+.++++-+ -+|---|=+- ||.+.+.+
T Consensus 177 ~~R~~giVSRGG--s~~~~WM~~n---~---------~ENPlye~fD~lLeI~~~-----yDVtlSLGDglRPG~i~Da~ 237 (431)
T PRK13352 177 SGRIMGIVSRGG--SFLAAWMLHN---N---------KENPLYEHFDYLLEILKE-----YDVTLSLGDGLRPGCIADAT 237 (431)
T ss_pred cCCccCeecCCH--HHHHHHHHHc---C---------CcCchHHHHHHHHHHHHH-----hCeeeeccCCcCCCccccCC
Confidence 4776 6666665 4555555543 1 345668899998888765 2221112222 89999988
Q ss_pred HHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC----CCHHHHHHHHHhhccccCCceeecCC--------CCCHHHHHH
Q 017966 286 DVATTFNGIIRALREKESKLKAARMHIFVRRGG----PNYQTGLAKMRALGEELGIPLEVYGP--------EATMTGICK 353 (363)
Q Consensus 286 ~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G----~~~~~~~~~l~~~~~~~Gip~~~~~~--------~~~~~eav~ 353 (363)
+-|...+=++ +-++-+.-.+..+.+.+-=.| +..+.-.++-++++ .|-|.|+.|+ |++++.|++
T Consensus 238 D~aQi~El~~--lgeL~~RA~e~gVQvMVEGPGHvPl~~I~~nv~l~K~lc--~~APfYvLGPLvTDiApGYDHIt~AIG 313 (431)
T PRK13352 238 DRAQIQELIT--LGELVKRAREAGVQVMVEGPGHVPLDQIEANVKLQKRLC--HGAPFYVLGPLVTDIAPGYDHITSAIG 313 (431)
T ss_pred cHHHHHHHHH--HHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHHhh--CCCCceecCccccccCCCchHHHHHHH
Confidence 8773222221 112111111245666665344 12233334444432 5789999886 688999999
Q ss_pred HHHHHh
Q 017966 354 QAIDCI 359 (363)
Q Consensus 354 ~~~~~~ 359 (363)
.++.-.
T Consensus 314 gAiAa~ 319 (431)
T PRK13352 314 GAIAAA 319 (431)
T ss_pred HHHHHh
Confidence 887654
No 109
>PRK12419 riboflavin synthase subunit beta; Provisional
Probab=50.32 E-value=1.8e+02 Score=25.70 Aligned_cols=113 Identities=11% Similarity=0.099 Sum_probs=71.8
Q ss_pred HHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe---cccCCchhHHhhhHHHHHHHHHH
Q 017966 224 IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI---GGGIANFTDVATTFNGIIRALRE 300 (363)
Q Consensus 224 ~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~---~g~i~~~~~vA~~~~giv~a~~~ 300 (363)
-+.|.|..+ |.+..|. |+--=|-.-.+--+++.+++ ..+.|+++..- =|....++-|+ +.+.+.+.+
T Consensus 31 gA~~~l~~~--G~~~~~i-~v~~VPGA~EiP~~a~~l~~----~~~yDaiIaLG~VIrGeT~H~e~V~---~~v~~gl~~ 100 (158)
T PRK12419 31 GFVAEIAAR--GGAASQV-DIFDVPGAFEIPLHAQTLAK----TGRYAAIVAAALVVDGGIYRHEFVA---QAVIDGLMR 100 (158)
T ss_pred HHHHHHHHc--CCCccce-EEEECCcHHHHHHHHHHHHh----cCCCCEEEEEEEEEcCCCchhHHHH---HHHHHHHHH
Confidence 367888886 6555554 44444445556666666665 56789877654 47777777777 777777766
Q ss_pred hhhhhhcccceEEEE-eCCCCHHHHHH--HHHhhccccCCceeecCCCCCHHHHHHHHHHHhH
Q 017966 301 KESKLKAARMHIFVR-RGGPNYQTGLA--KMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 301 ~~~~~~~~~~pvvvr-l~G~~~~~~~~--~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
..-. ..+||... +.-.|.+++.+ -+.. +|.. .-=.||+..+++++.
T Consensus 101 vsl~---~~~PV~fGVLT~~~~eqA~~rqa~~R----a~~~-------nKG~eaA~aalem~~ 149 (158)
T PRK12419 101 VQLD---TEVPVFSVVLTPHHFHESEEHHDFFR----AHFV-------VKGAEAAHACADTLL 149 (158)
T ss_pred HHhc---cCCCEEEEecCCCcHHHHHHHHHHhh----cCcc-------ccHHHHHHHHHHHHH
Confidence 5432 57998887 66677664433 3432 3432 245688888888764
No 110
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=49.57 E-value=2e+02 Score=25.94 Aligned_cols=120 Identities=13% Similarity=0.077 Sum_probs=64.3
Q ss_pred CcEEEEecCCcHHH------HHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCc
Q 017966 210 GRIWTMVAGGGASV------IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIAN 283 (363)
Q Consensus 210 g~I~ii~NG~G~~~------~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~ 283 (363)
++|+++.+..+... -..+.+..+ +.+...+.-+.++.+.+..+++++-+++ +.+++++++. .
T Consensus 117 ~~i~~l~~~~~~~~~~~R~~gf~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~ai~~-------~ 184 (269)
T cd06288 117 RRIAFINGEPWMLAAKDRLKGYRQALAEA--GIPFDPDLVVHGDWSADDGYEAAAALLD---LDDRPTAIFC-------G 184 (269)
T ss_pred ceEEEEeCCccchhHHHHHHHHHHHHHHc--CCCCCHHHeEeCCCChHHHHHHHHHHHh---CCCCCCEEEE-------e
Confidence 57888875544221 123455554 3222211122334444444455555453 3567887763 2
Q ss_pred hhHHhhhHHHHHHHHHHhhhhhhcccce---EEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhH
Q 017966 284 FTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 284 ~~~vA~~~~giv~a~~~~~~~~~~~~~p---vvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
++..| .++++++++++. .+| .++..+++ ..+.+.+. -++.+. .-++++....+++++.
T Consensus 185 ~d~~a---~~~~~~l~~~g~-----~vp~di~v~g~d~~--~~~~~~~~-----~~~~ti----~~~~~~~g~~a~~~l~ 245 (269)
T cd06288 185 NDRMA---MGAYQALLERGL-----RIPQDVSVVGFDNQ--EIIAEHLR-----PPLTTV----ALPHYEMGRWAVELLL 245 (269)
T ss_pred CcHHH---HHHHHHHHHcCC-----CCcccceEEeeCCc--hhhhhccC-----CCceeE----ecCHHHHHHHHHHHHH
Confidence 35666 899999998763 233 34456664 44444553 355543 4566777777776653
No 111
>COG0439 AccC Biotin carboxylase [Lipid metabolism]
Probab=48.51 E-value=2.6e+02 Score=28.91 Aligned_cols=59 Identities=12% Similarity=0.149 Sum_probs=41.9
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
||+++.+.+++.+++....+.....-+ -..|++|+.+...+=+-+.+.-|..+-+|=++
T Consensus 167 G~r~v~~~~el~~a~~~~~~ea~~~fg----~~~v~iEk~i~~~rhievqv~gD~~g~~i~l~ 225 (449)
T COG0439 167 GMRVVRNEEELEAAFEAARGEAEAAFG----NPRVYLEKFIEGPRHIEVQVLGDGHGNVIHLG 225 (449)
T ss_pred cEEEECCHHHHHHHHHHHHHHHHHhcC----CCcEEeeeeccCCceEEEEEEEcCcccEEEEE
Confidence 799999999999999988775542111 13499999997665455666667666666554
No 112
>PRK14194 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=48.50 E-value=2.1e+02 Score=27.94 Aligned_cols=57 Identities=19% Similarity=0.232 Sum_probs=31.9
Q ss_pred HHHHHHHHHhhhhhhcccceEEEE-eCCCCHHHHHHHHHhhccccCCceeecC-CCCCHHHHHHH
Q 017966 292 NGIIRALREKESKLKAARMHIFVR-RGGPNYQTGLAKMRALGEELGIPLEVYG-PEATMTGICKQ 354 (363)
Q Consensus 292 ~giv~a~~~~~~~~~~~~~pvvvr-l~G~~~~~~~~~l~~~~~~~Gip~~~~~-~~~~~~eav~~ 354 (363)
.|+++.++.++-.. ..+.|++- ++|.--..--..|.+ .|..+.+|. ...++.++++.
T Consensus 144 ~aii~lL~~~~i~l--~Gk~V~vIG~s~ivG~PmA~~L~~----~gatVtv~~~~t~~l~e~~~~ 202 (301)
T PRK14194 144 SGCLRLLEDTCGDL--TGKHAVVIGRSNIVGKPMAALLLQ----AHCSVTVVHSRSTDAKALCRQ 202 (301)
T ss_pred HHHHHHHHHhCCCC--CCCEEEEECCCCccHHHHHHHHHH----CCCEEEEECCCCCCHHHHHhc
Confidence 88999888775221 23444443 655433333334443 788888873 23456666554
No 113
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=48.13 E-value=40 Score=34.45 Aligned_cols=52 Identities=19% Similarity=0.253 Sum_probs=41.8
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
-||+++.+.|||.+++++|+..... + .....|+|||+++ +.|+-+-...|-.
T Consensus 152 KGV~V~~~~eeA~~a~~~~l~~~~f--g--~~g~~VVIEEfL~-GeE~S~~a~~DG~ 203 (428)
T COG0151 152 KGVIVAMTLEEAEAAVDEMLEGNAF--G--SAGARVVIEEFLD-GEEFSLQAFVDGK 203 (428)
T ss_pred CCeEEcCCHHHHHHHHHHHHhhccc--c--CCCCcEEEEeccc-ceEEEEEEEEcCC
Confidence 3899999999999999999887553 1 2235699999997 6899998888864
No 114
>PRK11778 putative inner membrane peptidase; Provisional
Probab=46.86 E-value=42 Score=33.24 Aligned_cols=41 Identities=20% Similarity=0.227 Sum_probs=25.4
Q ss_pred CeEEEEe--cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCH
Q 017966 271 RKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY 321 (363)
Q Consensus 271 ~~vlv~~--~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~ 321 (363)
++|++.+ |||.....+.| ...++.+++ .++||++.+++.-.
T Consensus 124 ~aVvLridSpGG~v~~s~~a---~~~l~~lr~-------~~kpVva~v~~~AA 166 (330)
T PRK11778 124 DEVLLRLESPGGVVHGYGLA---ASQLQRLRD-------AGIPLTVAVDKVAA 166 (330)
T ss_pred CeEEEEEeCCCCchhHHHHH---HHHHHHHHh-------cCCCEEEEECCchh
Confidence 5677666 88887655545 222333433 35899998887543
No 115
>cd07020 Clp_protease_NfeD_1 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially c
Probab=46.18 E-value=89 Score=27.87 Aligned_cols=61 Identities=10% Similarity=0.117 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeC---CCCHHHH
Q 017966 250 EEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG---GPNYQTG 324 (363)
Q Consensus 250 ~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~---G~~~~~~ 324 (363)
.+.+.++++.+-+ + +++.|++.+ |||-... + ..+.++++. .++|+++.+. |.-...|
T Consensus 15 ~~~l~~~l~~a~~----~-~~~~vvl~InSpGG~v~~---~---~~i~~~l~~-------~~kPvia~v~~~~G~AasgG 76 (187)
T cd07020 15 ADYLERAIDQAEE----G-GADALIIELDTPGGLLDS---T---REIVQAILA-------SPVPVVVYVYPSGARAASAG 76 (187)
T ss_pred HHHHHHHHHHHHh----C-CCCEEEEEEECCCCCHHH---H---HHHHHHHHh-------CCCCEEEEEecCCCCchhHH
Confidence 4455666555543 4 477765554 8885432 2 455555543 3689998874 7766666
Q ss_pred HHHH
Q 017966 325 LAKM 328 (363)
Q Consensus 325 ~~~l 328 (363)
--+.
T Consensus 77 ~~ia 80 (187)
T cd07020 77 TYIL 80 (187)
T ss_pred HHHH
Confidence 5544
No 116
>PRK13789 phosphoribosylamine--glycine ligase; Provisional
Probab=45.51 E-value=51 Score=33.64 Aligned_cols=51 Identities=18% Similarity=0.121 Sum_probs=38.3
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
||.++.|.+|+.+++++++..... +. .-..++|||++.. .|+-+.+..|..
T Consensus 158 GV~vv~~~eel~~a~~~~~~~~~~--g~--~~~~vlIEEfl~G-~E~Sv~~~~dg~ 208 (426)
T PRK13789 158 GVTVATEKKMAKRALKEIFKDKKF--GQ--SGNQVVIEEFMEG-QEASIFAISDGD 208 (426)
T ss_pred cEEEECCHHHHHHHHHHHHhhccc--cC--CCCeEEEEECcCC-eEEEEEEEECCC
Confidence 688999999999999998743221 11 1247999999985 799998888753
No 117
>COG3693 XynA Beta-1,4-xylanase [Carbohydrate transport and metabolism]
Probab=44.88 E-value=1.5e+02 Score=29.39 Aligned_cols=96 Identities=19% Similarity=0.282 Sum_probs=60.0
Q ss_pred CceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe-cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeC
Q 017966 239 GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG 317 (363)
Q Consensus 239 aN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~-~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~ 317 (363)
.+-..+-+..-+|-+..++++.-+ .||+ ++|++. ++ ++....=...+-.+|+-|++.+-+-......-=.+++
T Consensus 159 R~s~w~~~~~gpd~I~~aF~~Are---adP~--AkL~~NDY~-ie~~~~kr~~~~nlI~~LkekG~pIDgiG~QsH~~~~ 232 (345)
T COG3693 159 RRSAWYDGGTGPDYIKLAFHIARE---ADPD--AKLVINDYS-IEGNPAKRNYVLNLIEELKEKGAPIDGIGIQSHFSGD 232 (345)
T ss_pred hhhhhhccCCccHHHHHHHHHHHh---hCCC--ceEEeeccc-ccCChHHHHHHHHHHHHHHHCCCCccceeeeeeecCC
Confidence 344444555667888888888764 2554 555555 76 6655544434556666666655322122233346788
Q ss_pred CCCHHHHHHHHHhhccccCCceee
Q 017966 318 GPNYQTGLAKMRALGEELGIPLEV 341 (363)
Q Consensus 318 G~~~~~~~~~l~~~~~~~Gip~~~ 341 (363)
++..+..+..|.+..+. |+|+++
T Consensus 233 ~~~~~~~~~a~~~~~k~-Gl~i~V 255 (345)
T COG3693 233 GPSIEKMRAALLKFSKL-GLPIYV 255 (345)
T ss_pred CCCHHHHHHHHHHHhhc-CCCceE
Confidence 89999999988765555 999876
No 118
>PF00885 DMRL_synthase: 6,7-dimethyl-8-ribityllumazine synthase; InterPro: IPR002180 6,7-dimethyl-8-ribityllumazine synthase (riboflavin synthase) catalyses the biosynthesis of riboflavin according to the reaction: 2 6,7-dimethyl-8-(1-D-ribityl)lumazine = riboflavin + 4-(1-D-ribitylamino)-5-amino-2,6-dihydroxypyrimidine. The biosynthesis of one riboflavin molecule requires one molecule of GTP and two molecules of ribulose 5-phosphate as substrates. The final step in the biosynthesis of the vitamin involves the dismutation of 6,7-dimethyl-8-ribityllumazine catalyzed by riboflavin synthase. The second product, 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione, is recycled in the biosynthetic pathway by 6,7-dimethyl-8-ribityllumazine synthase []. N-[2,4-dioxo-6-d-ribitylamino-1,2,3,4-tetrahydropyrimidin-5-yl]oxalamic acid derivatives inhibit riboflavin synthase []. This family includes the beta chain of 6,7-dimethyl-8-ribityllumazine synthase 2.5.1.9 from EC. The family also includes a subfamily of distant archaebacterial proteins that may also have the same function for example O28856 from SWISSPROT.; GO: 0009231 riboflavin biosynthetic process, 0009349 riboflavin synthase complex; PDB: 2O6H_D 1C41_C 2OBX_H 1VSX_H 1VSW_3 3JV8_C 3MK3_r 3NQ4_G 2A58_A 2A57_D ....
Probab=43.40 E-value=94 Score=26.89 Aligned_cols=110 Identities=13% Similarity=0.038 Sum_probs=69.7
Q ss_pred HHHHHHHhcCCCCCCCce--eeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe---cccCCchhHHhhhHHHHHHHH
Q 017966 224 IYADTVGDLGYASELGNY--AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI---GGGIANFTDVATTFNGIIRAL 298 (363)
Q Consensus 224 ~~~D~l~~~g~gg~paN~--lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~---~g~i~~~~~vA~~~~giv~a~ 298 (363)
-+.+.|..+ |..+.|. ....| +-.+--+++.+++ ..+.|+++..- -|....++-|+ +.+.+.+
T Consensus 24 ~a~~~l~~~--g~~~~~i~~~~VPG---a~ElP~a~~~l~~----~~~~Davi~lG~VI~G~T~H~~~v~---~~v~~gl 91 (144)
T PF00885_consen 24 GALEELKRH--GVAEENIEVIRVPG---AFELPLAAKRLAE----SGRYDAVIALGCVIRGETDHFEYVA---NAVSRGL 91 (144)
T ss_dssp HHHHHHHHT--TTTGGCEEEEEESS---GGGHHHHHHHHHH----CSTESEEEEEEEEE--SSTHHHHHH---HHHHHHH
T ss_pred HHHHHHHHc--CCCccceEEEEcCC---HHHHHHHHHHHhc----ccCccEEEEeccccCCCchHHHHHH---HHHHHHH
Confidence 367778775 5443332 23333 3446677777777 67799877765 46777777777 7777777
Q ss_pred HHhhhhhhcccceEEEE-eCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhH
Q 017966 299 REKESKLKAARMHIFVR-RGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 299 ~~~~~~~~~~~~pvvvr-l~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
-+..-. .++||..- +.-.+.+++++... ... ..-=.||+..++++++
T Consensus 92 ~~lsl~---~~~PV~~gvlt~~~~eqa~~R~~-------~~~-----~nkG~eaA~aal~m~~ 139 (144)
T PF00885_consen 92 MDLSLE---YGIPVIFGVLTPDTEEQALERAG-------GKA-----GNKGREAAEAALEMAK 139 (144)
T ss_dssp HHHHHH---HTSEEEEEEEEESSHHHHHHHCE-------ETT-----EEHHHHHHHHHHHHHH
T ss_pred HHHhcc---CCccEEEEecCCCCHHHHHHHhc-------chh-----hhhHHHHHHHHHHHHH
Confidence 665432 47897776 77788887765543 211 2345788888888875
No 119
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=42.63 E-value=68 Score=32.20 Aligned_cols=68 Identities=10% Similarity=0.121 Sum_probs=43.5
Q ss_pred HHHHHHHHHhcCC-CCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHH
Q 017966 222 SVIYADTVGDLGY-ASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALRE 300 (363)
Q Consensus 222 ~~~~~D~l~~~g~-gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~ 300 (363)
++++.|.|+..|. -|++-.|+-.-+..+++.|.+..+-++. +.+|+.| ||..|+.+- +.|...+++
T Consensus 24 ~~lAI~eINa~GGvlG~~le~v~~Dp~Sd~~~ya~~A~~Li~----~d~V~~i----fGc~TSasR-----KaVlPvvE~ 90 (363)
T PF13433_consen 24 ALLAIEEINAAGGVLGRQLEPVIYDPASDPSTYAEKAEKLIR----EDGVRAI----FGCYTSASR-----KAVLPVVER 90 (363)
T ss_dssp HHHHHHHHHCTTTBTTB--EEEEE--TT-HHHHHHHHHHHHH----HS---EE----EE--SHHHH-----HHHHHHHHH
T ss_pred HHHHHHHHHhcCCcCCeEEEEEEECCCCCHHHHHHHHHHHHH----hCCccEE----EecchhhhH-----HHHHHHHHh
Confidence 6789999999841 1577888888899999999999988886 6776544 477776554 667777766
Q ss_pred hh
Q 017966 301 KE 302 (363)
Q Consensus 301 ~~ 302 (363)
++
T Consensus 91 ~~ 92 (363)
T PF13433_consen 91 HN 92 (363)
T ss_dssp CT
T ss_pred cC
Confidence 54
No 120
>PRK13790 phosphoribosylamine--glycine ligase; Provisional
Probab=42.63 E-value=63 Score=32.28 Aligned_cols=47 Identities=17% Similarity=0.162 Sum_probs=36.7
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
||.++.|.+|+.++.+++++... -..++|||++.. .|+-+.+..|..
T Consensus 117 GV~iv~~~~el~~a~~~~~~~~~--------~~~vlvEe~i~G-~E~sv~~~~~g~ 163 (379)
T PRK13790 117 GVIIADTIEAARSAIEIMYGDEE--------EGTVVFETFLEG-EEFSLMTFVNGD 163 (379)
T ss_pred CEEEECCHHHHHHHHHHHHhcCC--------CCeEEEEEcccC-ceEEEEEEeeCC
Confidence 68889999999999988764221 136999999974 899998888744
No 121
>PF13535 ATP-grasp_4: ATP-grasp domain; PDB: 3VMM_A 3LN6_A 3LN7_B 2PN1_A 4DIM_A.
Probab=42.61 E-value=59 Score=27.83 Aligned_cols=52 Identities=17% Similarity=0.114 Sum_probs=35.4
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCe
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCT 69 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ 69 (363)
-||.+..|.+++.++..++..... .....++||+.++ +.|+.+-+..+ .+.+
T Consensus 53 ~gv~~~~~~~~l~~~~~~~~~~~~------~~~~~~ivqe~i~-g~e~~~~~~~~-~G~~ 104 (184)
T PF13535_consen 53 RGVFIVHSPEELEAALAEIREDSP------LGNGPVIVQEYIP-GDEYSVDGVVD-DGEV 104 (184)
T ss_dssp TT-EEESSHHHHHHHHHHHHHHHS-------HSSSEEEEE----SEEEEEEEEEE-TTEE
T ss_pred CCEEEeCCHHHHHHHHHHHHHhcc------cCCccEEEEEeee-eeeEEEEEEEE-cceE
Confidence 578888999999988887754321 1235799999998 68999988888 5544
No 122
>cd07013 S14_ClpP Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease. Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. Additionally, they are implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of proteas
Probab=42.43 E-value=64 Score=28.22 Aligned_cols=64 Identities=11% Similarity=0.022 Sum_probs=36.3
Q ss_pred CCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH
Q 017966 248 PNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 325 (363)
Q Consensus 248 a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~ 325 (363)
.+.+.+...+..+-. +++.+.+.+.+ |||-.. -+ ..|.++++.. +.|+++...|.-...|-
T Consensus 12 ~~~~~~~~~L~~l~~----~~~~~~i~l~InSpGG~v~---~~---~~i~~~i~~~-------~~~v~~~~~g~aaS~~~ 74 (162)
T cd07013 12 ISANQFAAQLLFLGA----VNPEKDIYLYINSPGGDVF---AG---MAIYDTIKFI-------KADVVTIIDGLAASMGS 74 (162)
T ss_pred HHHHHHHHHHHHHhc----CCCCCCEEEEEECCCCcHH---HH---HHHHHHHHhc-------CCCceEEEEeehhhHHH
Confidence 344555555444433 66666655544 888542 22 6788888775 35677776675555553
Q ss_pred HHH
Q 017966 326 AKM 328 (363)
Q Consensus 326 ~~l 328 (363)
=++
T Consensus 75 ~i~ 77 (162)
T cd07013 75 VIA 77 (162)
T ss_pred HHH
Confidence 333
No 123
>cd07016 S14_ClpP_1 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease. Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. This subfamily only contains bacterial sequences. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which a
Probab=42.42 E-value=94 Score=26.73 Aligned_cols=64 Identities=17% Similarity=0.090 Sum_probs=40.9
Q ss_pred CCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHH
Q 017966 248 PNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAK 327 (363)
Q Consensus 248 a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~ 327 (363)
.+++++.+.++.+-+ ++.+ .+.||.|||.... + ..|.+.++.. ++|+++...|.-...|--+
T Consensus 15 ~~~~~~~~~l~~~~~----~~~i-~l~inspGG~~~~---~---~~i~~~i~~~-------~~pvi~~v~g~a~s~g~~i 76 (160)
T cd07016 15 VTAKEFKDALDALGD----DSDI-TVRINSPGGDVFA---G---LAIYNALKRH-------KGKVTVKIDGLAASAASVI 76 (160)
T ss_pred cCHHHHHHHHHhccC----CCCE-EEEEECCCCCHHH---H---HHHHHHHHhc-------CCCEEEEEcchHHhHHHHH
Confidence 567777777665432 4222 3556669986432 2 6677777664 5889999888766666555
Q ss_pred HH
Q 017966 328 MR 329 (363)
Q Consensus 328 l~ 329 (363)
+-
T Consensus 77 a~ 78 (160)
T cd07016 77 AM 78 (160)
T ss_pred Hh
Confidence 54
No 124
>PF01964 ThiC: ThiC family; InterPro: IPR002817 ThiC is found within the thiamin biosynthesis operon. ThiC is involved in thiamin biosynthesis []. The precise catalytic function of ThiC is still not known. ThiC participates in the formation of 4-Amino-5-hydroxymethyl-2-methylpyrimidine from AIR, an intermediate in the de novo pyrimidine biosynthesis.; GO: 0009228 thiamine biosynthetic process; PDB: 3EPO_A 3EPN_B 3EPM_B.
Probab=41.00 E-value=92 Score=31.72 Aligned_cols=128 Identities=24% Similarity=0.257 Sum_probs=60.7
Q ss_pred CCCcE-EEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEE--e--cccCC
Q 017966 208 PKGRI-WTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALL--I--GGGIA 282 (363)
Q Consensus 208 l~g~I-~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~--~--~g~i~ 282 (363)
.++|+ +|++=|| ++++.-++... -.+|-.+.|-+.++++-+ .|+.|-. - ||.+.
T Consensus 172 ~~~R~~giVSRGG--s~l~~WM~~n~------------~ENPly~~fD~lLeI~k~-------yDVtLSLGDglRPG~i~ 230 (420)
T PF01964_consen 172 KSGRIMGIVSRGG--SILAAWMLHNG------------KENPLYEHFDRLLEIAKE-------YDVTLSLGDGLRPGCIA 230 (420)
T ss_dssp --TSSS----HHH--HHHHHHHHHHT------------S--HHHHTHHHHHHHHTT-------TT-EEEE--TT--SSGG
T ss_pred hhccccCccccch--HHHHHHHHhcC------------CcCcHHHhHHHHHHHHHH-------hCeeEecccccCCCCcC
Confidence 35776 7777666 55655666542 234447777787777643 2333332 2 89999
Q ss_pred chhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC----CCHHHHHHHHHhhccccCCceeecCC--------CCCHHH
Q 017966 283 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG----PNYQTGLAKMRALGEELGIPLEVYGP--------EATMTG 350 (363)
Q Consensus 283 ~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G----~~~~~~~~~l~~~~~~~Gip~~~~~~--------~~~~~e 350 (363)
+.++-|...+ ++. +-++-+.-.+..+.+.+-=.| +..+.-.++.++++ .|-|.|++|+ |++++.
T Consensus 231 Da~D~aQi~E-L~~-lgeL~~rA~e~gVQvMVEGPGHVPl~~I~~nv~lqK~lc--~~APfYvLGPLvTDiapGYDHIt~ 306 (420)
T PF01964_consen 231 DATDRAQIQE-LII-LGELVKRAREAGVQVMVEGPGHVPLNQIEANVKLQKRLC--HGAPFYVLGPLVTDIAPGYDHITS 306 (420)
T ss_dssp GTT-HHHHHH-HHH-HHHHHHHHHHTT--EEEEE-SB--GGGHHHHHHHHHHHT--TT--EEEE--BS-SS-TT-HHHHH
T ss_pred CCCcHHHHHH-HHH-HHHHHHHHHHCCCeEEeeCCCCCCHHHHHHHHHHHHHhc--CCCCcccCCccccccCCChhHHHH
Confidence 9888663222 211 112111111245666665444 23334444445443 5889999986 567899
Q ss_pred HHHHHHHHhH
Q 017966 351 ICKQAIDCIM 360 (363)
Q Consensus 351 av~~~~~~~~ 360 (363)
|++.|+--+.
T Consensus 307 AIGgAiaa~~ 316 (420)
T PF01964_consen 307 AIGGAIAAAA 316 (420)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHc
Confidence 9998876544
No 125
>cd00953 KDG_aldolase KDG (2-keto-3-deoxygluconate) aldolases found in archaea. This subfamily of enzymes is adapted for high thermostability and shows specificity for non-phosphorylated substrates. The enzyme catalyses the reversible aldol cleavage of 2-keto-3-dexoygluconate to pyruvate and glyceraldehyde, the third step of a modified non-phosphorylated Entner-Doudoroff pathway of glucose oxidation. KDG aldolase shows no significant sequence similarity to microbial 2-keto-3-deoxyphosphogluconate (KDPG) aldolases, and the enzyme shows no activity with glyceraldehyde 3-phosphate as substrate. The enzyme is a tetramer and a member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=40.04 E-value=3.4e+02 Score=25.83 Aligned_cols=104 Identities=13% Similarity=0.073 Sum_probs=65.2
Q ss_pred eeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 017966 241 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 320 (363)
Q Consensus 241 ~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~ 320 (363)
|.|= |..+.+.+.+-++.++ +.++++++++-..|=...-...+ -+.+++...+.. . +|++..|.++
T Consensus 11 Pf~~-g~iD~~~~~~li~~l~-----~~Gv~Gl~~~GstGE~~~Lt~eE-r~~l~~~~~~~~------~-~vi~gvg~~~ 76 (279)
T cd00953 11 PFTG-NKIDKEKFKKHCENLI-----SKGIDYVFVAGTTGLGPSLSFQE-KLELLKAYSDIT------D-KVIFQVGSLN 76 (279)
T ss_pred CcCC-CCcCHHHHHHHHHHHH-----HcCCcEEEEcccCCCcccCCHHH-HHHHHHHHHHHc------C-CEEEEeCcCC
Confidence 4444 8999999999999988 48999999988433222222221 144555444432 1 3788899999
Q ss_pred HHHHHHHHHhhccccCC------ceeecCCCCCHHHHHHHHHHHhH
Q 017966 321 YQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 321 ~~~~~~~l~~~~~~~Gi------p~~~~~~~~~~~eav~~~~~~~~ 360 (363)
.+++.+..+.+ ++.|. |=++|. ..+.++.++++..++.
T Consensus 77 ~~~ai~~a~~a-~~~Gad~v~v~~P~y~~-~~~~~~i~~yf~~v~~ 120 (279)
T cd00953 77 LEESIELARAA-KSFGIYAIASLPPYYFP-GIPEEWLIKYFTDISS 120 (279)
T ss_pred HHHHHHHHHHH-HHcCCCEEEEeCCcCCC-CCCHHHHHHHHHHHHh
Confidence 99998887653 35562 222221 2356777777776654
No 126
>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type. E. coli SohB, which is most closely homologous to the C-terminal duplication of SppA, is predicted to perform a similar function of small peptide degradation, but in the periplasm. Many prokaryotes have a single SppA/SohB homolog that may perform the function of either or both.
Probab=38.95 E-value=1.1e+02 Score=32.72 Aligned_cols=56 Identities=16% Similarity=0.083 Sum_probs=36.4
Q ss_pred CCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--ccc--CCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeC
Q 017966 247 APNEEEVLQYARVVIDCATADPDGRKRALLI--GGG--IANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG 317 (363)
Q Consensus 247 ~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~--i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~ 317 (363)
..+...+.++++-..+ |+++++|++.+ ++| .+.. +-|-+++++.+. ..|||++...
T Consensus 75 ~~~l~~i~~~i~~A~~----D~~IkgIvL~i~~~~g~~~~~~-------~ei~~ai~~fk~----sgKpVvA~~~ 134 (584)
T TIGR00705 75 AISLFDIVNAIRQAAD----DRRIEGLVFDLSNFSGWDSPHL-------VEIGSALSEFKD----SGKPVYAYGT 134 (584)
T ss_pred CcCHHHHHHHHHHHhc----CCCceEEEEEccCCCCCCHHHH-------HHHHHHHHHHHh----cCCeEEEEEc
Confidence 3456777777777776 99999999987 333 2232 345555555542 3689888643
No 127
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=38.07 E-value=2e+02 Score=26.10 Aligned_cols=56 Identities=13% Similarity=0.065 Sum_probs=35.3
Q ss_pred cCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 017966 245 SGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 319 (363)
Q Consensus 245 gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~ 319 (363)
-++.+.+...++++-+++ ++|++++++.. ++. | .++++++++.+ .+.|.++..+++
T Consensus 164 ~~~~~~~~~~~~~~~~l~---~~~~~~~i~~~-------~d~-A---~g~~~al~~~g-----~~~p~v~g~d~~ 219 (272)
T cd06300 164 YGDWDQAVAQKAVADFLA---SNPDVDGIWTQ-------GGD-A---VGAVQAFEQAG-----RDIPPVTGEDEN 219 (272)
T ss_pred CCCCCHHHHHHHHHHHHH---hCCCcCEEEec-------CCC-c---HHHHHHHHHcC-----CCCcEEEeeCCc
Confidence 345555555555555553 36777766642 244 6 89999998876 356767766665
No 128
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=37.77 E-value=2.3e+02 Score=29.24 Aligned_cols=77 Identities=19% Similarity=0.263 Sum_probs=47.1
Q ss_pred EEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeC--CCCHHHHHHHHHhhccccCCceeecCCCCCHHH
Q 017966 273 RALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG--GPNYQTGLAKMRALGEELGIPLEVYGPEATMTG 350 (363)
Q Consensus 273 vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~--G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~e 350 (363)
|++.-.+|--..|..+ -+...+++.+ .+|.+|+.. -+-+-+-++.| +++.|+|+|--+...+|-+
T Consensus 103 ImmvGLQGsGKTTt~~----KLA~~lkk~~------~kvllVaaD~~RpAA~eQL~~L---a~q~~v~~f~~~~~~~Pv~ 169 (451)
T COG0541 103 ILMVGLQGSGKTTTAG----KLAKYLKKKG------KKVLLVAADTYRPAAIEQLKQL---AEQVGVPFFGSGTEKDPVE 169 (451)
T ss_pred EEEEeccCCChHhHHH----HHHHHHHHcC------CceEEEecccCChHHHHHHHHH---HHHcCCceecCCCCCCHHH
Confidence 3333345544544433 4667777643 466555533 33344444444 4479999866555678999
Q ss_pred HHHHHHHHhHhc
Q 017966 351 ICKQAIDCIMSA 362 (363)
Q Consensus 351 av~~~~~~~~~~ 362 (363)
.++.+++.++..
T Consensus 170 Iak~al~~ak~~ 181 (451)
T COG0541 170 IAKAALEKAKEE 181 (451)
T ss_pred HHHHHHHHHHHc
Confidence 999999998763
No 129
>PRK13789 phosphoribosylamine--glycine ligase; Provisional
Probab=37.45 E-value=1.3e+02 Score=30.65 Aligned_cols=118 Identities=16% Similarity=0.103 Sum_probs=59.8
Q ss_pred cEEEEecCCcHHHHHHHHHHhcCCCCC----CCce--eeccC----CCCHHHHHHHHHHHHhhhccCCCCCeEEEEeccc
Q 017966 211 RIWTMVAGGGASVIYADTVGDLGYASE----LGNY--AEYSG----APNEEEVLQYARVVIDCATADPDGRKRALLIGGG 280 (363)
Q Consensus 211 ~I~ii~NG~G~~~~~~D~l~~~g~gg~----paN~--lD~gG----~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~ 280 (363)
+|.++.+|+----+++- +.+.+...+ |.|+ ...+. ..+.......++++- ..+++.|++ +.
T Consensus 6 kvLviG~g~rehal~~~-~~~~~~~~~~~~~pgn~g~~~~~~~~~~~~~~~d~~~l~~~a~-----~~~iD~Vv~---g~ 76 (426)
T PRK13789 6 KVLLIGSGGRESAIAFA-LRKSNLLSELKVFPGNGGFPDDELLPADSFSILDKSSVQSFLK-----SNPFDLIVV---GP 76 (426)
T ss_pred EEEEECCCHHHHHHHHH-HHhCCCCCEEEEECCchHHhccccccccCcCcCCHHHHHHHHH-----HcCCCEEEE---CC
Confidence 67778777765555444 444321111 5554 21110 122233444444443 456775552 22
Q ss_pred CCchhHHhhhHHHHHHHHHHhhhhhhcccceEE------EEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHH
Q 017966 281 IANFTDVATTFNGIIRALREKESKLKAARMHIF------VRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQ 354 (363)
Q Consensus 281 i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvv------vrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~ 354 (363)
++.. .+++++.+++.+ +|++ .++.+ +-..+++.|+ ++|||+--|..+++.+++...
T Consensus 77 ----E~~l--~~glad~~~~~G-------ip~~Gp~~~aa~le~-dK~~~K~~l~----~~gIpt~~~~~~~~~~ea~~~ 138 (426)
T PRK13789 77 ----EDPL--VAGFADWAAELG-------IPCFGPDSYCAQVEG-SKHFAKSLMK----EAKIPTASYKTFTEYSSSLSY 138 (426)
T ss_pred ----chHH--HHHHHHHHHHcC-------CCcCCCHHHHHHHHc-CHHHHHHHHH----HcCCCCCCeEeeCCHHHHHHH
Confidence 2222 167777766653 4432 11111 2334455565 489998766667888887654
Q ss_pred H
Q 017966 355 A 355 (363)
Q Consensus 355 ~ 355 (363)
+
T Consensus 139 ~ 139 (426)
T PRK13789 139 L 139 (426)
T ss_pred H
Confidence 3
No 130
>COG0436 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]
Probab=37.42 E-value=86 Score=31.59 Aligned_cols=79 Identities=16% Similarity=0.130 Sum_probs=49.0
Q ss_pred CcEEEEecCCcHHHH-HHHHHHhcCCCCC-----C-------------C--ceee-----ccCCCCHHHHHHHHHHHHhh
Q 017966 210 GRIWTMVAGGGASVI-YADTVGDLGYASE-----L-------------G--NYAE-----YSGAPNEEEVLQYARVVIDC 263 (363)
Q Consensus 210 g~I~ii~NG~G~~~~-~~D~l~~~g~gg~-----p-------------a--N~lD-----~gG~a~~e~~~~a~~~ll~~ 263 (363)
.+=-+++||+--++. ++.++... |-+ | + .++. -+-.++.+.+.++ .
T Consensus 89 ~~eiivt~Ga~~al~~~~~a~~~p--GDeVlip~P~Y~~y~~~~~~~gg~~v~v~l~~~~~~f~~d~~~l~~~----i-- 160 (393)
T COG0436 89 EEEIIVTAGAKEALFLAFLALLNP--GDEVLIPDPGYPSYEAAVKLAGGKPVPVPLDEEENGFKPDLEDLEAA----I-- 160 (393)
T ss_pred CCeEEEeCCHHHHHHHHHHHhcCC--CCEEEEeCCCCcCHHHHHHhcCCEEEEEeCCcCccCCcCCHHHHHhh----c--
Confidence 343566888877766 67777664 221 2 1 2333 2556777777776 4
Q ss_pred hccCCCCCeEEEEe---cccCCchhHHhhhHHHHHHHHHHhh
Q 017966 264 ATADPDGRKRALLI---GGGIANFTDVATTFNGIIRALREKE 302 (363)
Q Consensus 264 ~~~~~~v~~vlv~~---~g~i~~~~~vA~~~~giv~a~~~~~ 302 (363)
.+++|+++||. |+|.+=+.+-. +.|++..+++.
T Consensus 161 ---~~ktk~i~ln~P~NPTGav~~~~~l---~~i~~~a~~~~ 196 (393)
T COG0436 161 ---TPKTKAIILNSPNNPTGAVYSKEEL---KAIVELAREHD 196 (393)
T ss_pred ---CccceEEEEeCCCCCcCcCCCHHHH---HHHHHHHHHcC
Confidence 35899999988 45544444444 78888887764
No 131
>PRK14568 vanB D-alanine--D-lactate ligase; Provisional
Probab=36.32 E-value=4.2e+02 Score=25.86 Aligned_cols=46 Identities=9% Similarity=-0.028 Sum_probs=34.9
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
=||..+.|.+|+.++.++... +. ..++||++++ ++|+-+++..|..
T Consensus 179 ~Gv~~v~~~~eL~~a~~~a~~-----~~-----~~vlVEe~I~-G~E~sv~vl~~~~ 224 (343)
T PRK14568 179 FGVSKVNSADELDYAIESARQ-----YD-----SKVLIEEAVV-GSEVGCAVLGNGA 224 (343)
T ss_pred CCEEEeCCHHHHHHHHHHHHh-----cC-----CcEEEECCcC-CEEEEEEEEcCCC
Confidence 378888999999888765531 11 3699999997 6899999887653
No 132
>PRK14188 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=36.23 E-value=2.6e+02 Score=27.17 Aligned_cols=57 Identities=14% Similarity=0.170 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhhhhhhcccceEEEE-eCCCCHHHHHHHHHhhccccCCceeecC-CCCCHHHHHH
Q 017966 291 FNGIIRALREKESKLKAARMHIFVR-RGGPNYQTGLAKMRALGEELGIPLEVYG-PEATMTGICK 353 (363)
Q Consensus 291 ~~giv~a~~~~~~~~~~~~~pvvvr-l~G~~~~~~~~~l~~~~~~~Gip~~~~~-~~~~~~eav~ 353 (363)
.+||++.++.++-.. ..+.|++. ..+..-..--..|.+ .|.++.++. ...++.++++
T Consensus 142 p~ai~~ll~~~~i~~--~Gk~V~viGrs~~mG~PmA~~L~~----~g~tVtv~~~rT~~l~e~~~ 200 (296)
T PRK14188 142 PLGCMMLLRRVHGDL--SGLNAVVIGRSNLVGKPMAQLLLA----ANATVTIAHSRTRDLPAVCR 200 (296)
T ss_pred HHHHHHHHHHhCCCC--CCCEEEEEcCCcchHHHHHHHHHh----CCCEEEEECCCCCCHHHHHh
Confidence 388999888764211 23445554 344333333333332 688888873 3345655554
No 133
>PRK00061 ribH 6,7-dimethyl-8-ribityllumazine synthase; Provisional
Probab=35.12 E-value=3.1e+02 Score=24.01 Aligned_cols=115 Identities=11% Similarity=0.033 Sum_probs=74.4
Q ss_pred HHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe---cccCCchhHHhhhHHHHHHHH
Q 017966 222 SVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI---GGGIANFTDVATTFNGIIRAL 298 (363)
Q Consensus 222 ~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~---~g~i~~~~~vA~~~~giv~a~ 298 (363)
---+.+.|..+ |....|. |+---|-.-.+--+++.+++ ..+.|+++..- =|....++-|+ +.+.+.+
T Consensus 31 ~~ga~~~l~~~--gv~~~~i-~v~~VPGa~EiP~a~~~l~~----~~~~DavIalG~VIrG~T~H~e~V~---~~v~~gl 100 (154)
T PRK00061 31 LEGALDALKRH--GVSEENI-DVVRVPGAFEIPLAAKKLAE----SGKYDAVIALGAVIRGETPHFDYVA---NEVAKGL 100 (154)
T ss_pred HHHHHHHHHHc--CCCccce-EEEECCCHHHHHHHHHHHHH----cCCCCEEEEEeeEEcCCCchHHHHH---HHHHHHH
Confidence 33467778775 5444443 33334556667777777776 56788877665 27777777777 7777777
Q ss_pred HHhhhhhhcccceEEEE-eCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhHh
Q 017966 299 REKESKLKAARMHIFVR-RGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 299 ~~~~~~~~~~~~pvvvr-l~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
.+..-. ..+||... +...|.+++...-. ... ..-=.||++.++++++.
T Consensus 101 ~~v~l~---~~~PV~~GVLt~~~~eQa~~R~~-------~~~-----~nkG~eaa~aal~m~~l 149 (154)
T PRK00061 101 ADVSLE---TGVPVGFGVLTTDTIEQAIERAG-------TKA-----GNKGAEAALAALEMANL 149 (154)
T ss_pred HHHHhc---cCCCEEEEecCCCCHHHHHHHhC-------ccc-----cccHHHHHHHHHHHHHH
Confidence 665432 57998887 88888887765442 111 23457888888887753
No 134
>TIGR01101 V_ATP_synt_F vacuolar ATP synthase F subunit. This model describes the vacuolar ATP synthase F subunit (14 kDa subunit) in eukaryotes. In some archaeal species this protein subunit is referred as G subunit
Probab=34.73 E-value=2.1e+02 Score=23.85 Aligned_cols=60 Identities=10% Similarity=0.035 Sum_probs=43.4
Q ss_pred CceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 017966 239 GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 318 (363)
Q Consensus 239 aN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G 318 (363)
-||+=.....+.+.+.++++-++. ++++-.|+|+ +.+| +-+-+.+++++ ...|.++-+.+
T Consensus 34 ~nf~~v~~~t~~eei~~~~~~~l~----~~digIIlIt--------e~~a---~~i~~~I~~~~-----~~~PaIieIP~ 93 (115)
T TIGR01101 34 PNFLVVDKNTTVSEIEDCFNRFLK----RDDIAIILIN--------QHIA---EMIRHAVDAHT-----RSIPAVLEIPS 93 (115)
T ss_pred cceeeecCCCCHHHHHHHHHHHhh----cCCeEEEEEc--------HHHH---HHhHHHHHhcC-----CcCCEEEEECC
Confidence 589888888899999999999877 7887545542 4556 55555555544 36898888877
No 135
>PRK01966 ddl D-alanyl-alanine synthetase A; Reviewed
Probab=34.06 E-value=78 Score=30.90 Aligned_cols=44 Identities=9% Similarity=0.031 Sum_probs=35.4
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEe
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSD 64 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D 64 (363)
-||.++.+.+|..++.++.+. .. ..++||++++ ++|+-+++..|
T Consensus 176 ~Gv~~v~~~~el~~a~~~~~~-----~~-----~~vlvEefI~-G~E~~v~vl~~ 219 (333)
T PRK01966 176 VGISKVKNEEELAAALDLAFE-----YD-----RKVLVEQGIK-GREIECAVLGN 219 (333)
T ss_pred cCEEEECCHHHHHHHHHHHHh-----cC-----CcEEEEcCcC-CEEEEEEEECC
Confidence 378888999999988877642 11 4699999998 69999999986
No 136
>cd02810 DHOD_DHPD_FMN Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass its homodimeric interface twice. Two of
Probab=33.65 E-value=2.7e+02 Score=26.26 Aligned_cols=62 Identities=11% Similarity=0.188 Sum_probs=39.3
Q ss_pred eccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCC------chhHHhhhHHHHHHHHHHhhhhhhcccceEEE
Q 017966 243 EYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIA------NFTDVATTFNGIIRALREKESKLKAARMHIFV 314 (363)
Q Consensus 243 D~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~------~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvv 314 (363)
.++| .+++.+.++++.+.+ ...+++=+|. |.... +... . ..+++++++. ..+||.+
T Consensus 104 si~g-~~~~~~~~~a~~~~~-----~G~d~ielN~~cP~~~~~~~~~~~~~~-~---~eiv~~vr~~------~~~pv~v 167 (289)
T cd02810 104 SVGG-SSKEDYVELARKIER-----AGAKALELNLSCPNVGGGRQLGQDPEA-V---ANLLKAVKAA------VDIPLLV 167 (289)
T ss_pred Eecc-CCHHHHHHHHHHHHH-----hCCCEEEEEcCCCCCCCCcccccCHHH-H---HHHHHHHHHc------cCCCEEE
Confidence 3555 477889999888764 4788899987 33221 1122 2 3456666553 2689999
Q ss_pred EeCCCC
Q 017966 315 RRGGPN 320 (363)
Q Consensus 315 rl~G~~ 320 (363)
++++..
T Consensus 168 Kl~~~~ 173 (289)
T cd02810 168 KLSPYF 173 (289)
T ss_pred EeCCCC
Confidence 977643
No 137
>PRK10949 protease 4; Provisional
Probab=33.24 E-value=1.1e+02 Score=32.99 Aligned_cols=53 Identities=17% Similarity=0.154 Sum_probs=33.5
Q ss_pred CCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccC--CchhHHhhhHHHHHHHHHHhhhhhhcccceEEEE
Q 017966 248 PNEEEVLQYARVVIDCATADPDGRKRALLI--GGGI--ANFTDVATTFNGIIRALREKESKLKAARMHIFVR 315 (363)
Q Consensus 248 a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i--~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvr 315 (363)
.+-.++.++++-..+ ||++++|++.+ |+|. +.++++ -+++++.+. ..+||++.
T Consensus 95 ~~l~div~~i~~Aa~----D~rIkgivL~i~s~gG~~~a~~~eI-------~~ai~~fk~----sGKpVvA~ 151 (618)
T PRK10949 95 NSLFDIVNTIRQAKD----DRNITGIVLDLKNFAGADQPSMQYI-------GKALREFRD----SGKPVYAV 151 (618)
T ss_pred ccHHHHHHHHHHHhc----CCCceEEEEEeCCCCCccHHHHHHH-------HHHHHHHHH----hCCeEEEE
Confidence 334566677666666 99999999999 5442 233444 445555442 36888875
No 138
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 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. Eukaryotic 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. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=32.36 E-value=3.2e+02 Score=24.57 Aligned_cols=77 Identities=19% Similarity=0.291 Sum_probs=45.9
Q ss_pred EEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHH
Q 017966 273 RALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGIC 352 (363)
Q Consensus 273 vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav 352 (363)
+++.-|+|.-+.+.+| + +...++..+ .+.-+++..... ..|.+-|+.+++..|+|++......++.+.+
T Consensus 4 i~lvGptGvGKTTt~a---K-LAa~~~~~~------~~v~lis~D~~R-~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~ 72 (196)
T PF00448_consen 4 IALVGPTGVGKTTTIA---K-LAARLKLKG------KKVALISADTYR-IGAVEQLKTYAEILGVPFYVARTESDPAEIA 72 (196)
T ss_dssp EEEEESTTSSHHHHHH---H-HHHHHHHTT--------EEEEEESTSS-THHHHHHHHHHHHHTEEEEESSTTSCHHHHH
T ss_pred EEEECCCCCchHhHHH---H-HHHHHhhcc------ccceeecCCCCC-ccHHHHHHHHHHHhccccchhhcchhhHHHH
Confidence 4555588988888777 3 443343332 344455544433 3455555555557999987654455788888
Q ss_pred HHHHHHhH
Q 017966 353 KQAIDCIM 360 (363)
Q Consensus 353 ~~~~~~~~ 360 (363)
..+++..+
T Consensus 73 ~~~l~~~~ 80 (196)
T PF00448_consen 73 REALEKFR 80 (196)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHh
Confidence 87777654
No 139
>PF00574 CLP_protease: Clp protease; InterPro: IPR001907 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to the MEROPS peptidase family S14 (ClpP endopeptidase family, clan SK). ClpP is an ATP-dependent protease that cleaves a number of proteins, such as casein and albumin []. It exists as a heterodimer of ATP-binding regulatory A and catalytic P subunits, both of which are required for effective levels of protease activity in the presence of ATP [], although the P subunit alone does possess some catalytic activity. This family of sequences represent the P subunit. Proteases highly similar to ClpP have been found to be encoded in the genome of bacteria, metazoa, some viruses and in the chloroplast of plants. A number of the proteins in this family are classified as non-peptidase homologues as they have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for catalytic activity. ; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 2ZL3_L 2ZL0_F 2ZL2_M 2ZL4_C 1TG6_D 2F6I_D 3V5I_b 3V5E_M 3QWD_D 2DEO_A ....
Probab=32.07 E-value=1.5e+02 Score=26.03 Aligned_cols=77 Identities=13% Similarity=0.067 Sum_probs=49.2
Q ss_pred ceeeccCCCCHHHHHHHHHHHHhhhccCCCCCe-EEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 017966 240 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRK-RALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 318 (363)
Q Consensus 240 N~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~-vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G 318 (363)
+.+-+.|..+.+.+......++.+-..++.-.. +.||.|||-.. .+ -+|.++++.. +.|+.+...|
T Consensus 17 r~i~l~g~I~~~~~~~~~~~L~~l~~~~~~~~i~i~INSpGG~v~---~g---~~i~~~i~~~-------~~~v~t~~~G 83 (182)
T PF00574_consen 17 RIIFLNGPIDEESANRLISQLLYLENEDKNKPINIYINSPGGDVD---AG---LAIYDAIRSS-------KAPVTTVVLG 83 (182)
T ss_dssp TEEEEESSBSHHHHHHHHHHHHHHHHHTSSSEEEEEEEECEBCHH---HH---HHHHHHHHHS-------SSEEEEEEEE
T ss_pred eEEEECCccCHHHHHHHHHHHHHHhccCCCceEEEEEcCCCCccH---HH---HHHHHHHHhc-------CCCeEEEEeC
Confidence 456778889998888877776543223343332 55666888642 23 6788888775 4678777556
Q ss_pred CCHHHHHHHHH
Q 017966 319 PNYQTGLAKMR 329 (363)
Q Consensus 319 ~~~~~~~~~l~ 329 (363)
.....|--++.
T Consensus 84 ~aaSaa~~i~~ 94 (182)
T PF00574_consen 84 LAASAATLIFL 94 (182)
T ss_dssp EEETHHHHHHH
T ss_pred ccccceehhhh
Confidence 55556655554
No 140
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=31.96 E-value=2.9e+02 Score=25.45 Aligned_cols=68 Identities=21% Similarity=0.237 Sum_probs=40.2
Q ss_pred EEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCC-----
Q 017966 273 RALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEAT----- 347 (363)
Q Consensus 273 vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~----- 347 (363)
+.|.+.|.-+| +|+|+++.+... .+--|.+.+.......+++.-++ +|||++++..-+.
T Consensus 3 i~VlaSG~GSN-------lqaiida~~~~~-----~~a~i~~Visd~~~A~~lerA~~----~gIpt~~~~~k~~~~r~~ 66 (200)
T COG0299 3 IAVLASGNGSN-------LQAIIDAIKGGK-----LDAEIVAVISDKADAYALERAAK----AGIPTVVLDRKEFPSREA 66 (200)
T ss_pred EEEEEeCCccc-------HHHHHHHHhcCC-----CCcEEEEEEeCCCCCHHHHHHHH----cCCCEEEeccccCCCHHH
Confidence 44555555555 378888876321 12335666666655677777775 9999987654333
Q ss_pred HHHHHHHHH
Q 017966 348 MTGICKQAI 356 (363)
Q Consensus 348 ~~eav~~~~ 356 (363)
.+.++-..+
T Consensus 67 ~d~~l~~~l 75 (200)
T COG0299 67 FDRALVEAL 75 (200)
T ss_pred HHHHHHHHH
Confidence 445544444
No 141
>PLN02444 HMP-P synthase
Probab=31.66 E-value=4.3e+02 Score=28.31 Aligned_cols=127 Identities=14% Similarity=0.001 Sum_probs=69.0
Q ss_pred CCcE-EEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccCCchh
Q 017966 209 KGRI-WTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFT 285 (363)
Q Consensus 209 ~g~I-~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i~~~~ 285 (363)
.+|+ +|++-|| ++++-=++... -.++-.+.|-+.++++-+ =+|---|=+- ||.+.+..
T Consensus 332 ~~R~tgIVSRGG--Si~a~Wml~~~------------kENPlYe~FD~ileI~k~-----YDVtlSLGDGLRPG~iaDA~ 392 (642)
T PLN02444 332 AKRMTGIVSRGG--SIHAKWCLAYH------------KENFAYEHWDDILDICNQ-----YDIALSIGDGLRPGSIYDAN 392 (642)
T ss_pred hCcccCceeCCc--HHHHHHHHHcC------------CcCchHHHHHHHHHHHHH-----hCeeeeccCCcCCCccccCC
Confidence 4776 6776666 44444444332 345558999999888765 1221112222 89999988
Q ss_pred HHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC----CCHHHHHHHHHhhccccCCceeecCC--------CCCHHHHHH
Q 017966 286 DVATTFNGIIRALREKESKLKAARMHIFVRRGG----PNYQTGLAKMRALGEELGIPLEVYGP--------EATMTGICK 353 (363)
Q Consensus 286 ~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G----~~~~~~~~~l~~~~~~~Gip~~~~~~--------~~~~~eav~ 353 (363)
|-|...+=++ +-++-+.-.+..+.|.+-=.| ...++-.++-++++ .+-|.|+.|+ |++++.|++
T Consensus 393 D~AQ~~EL~t--LGELtkrA~e~gVQVMIEGPGHVPl~~I~~Nv~lqk~lC--~~APfYvLGPLvTDIAPGYDHItsAIG 468 (642)
T PLN02444 393 DTAQFAELLT--QGELTRRAWEKDVQVMNEGPGHVPLHKIPENMQKQLEWC--NEAPFYTLGPLTTDIAPGYDHITSAIG 468 (642)
T ss_pred cHHHHHHHHH--HHHHHHHHHHcCCeEEEECCCcCcHHHHHHHHHHHHHhh--CCCCceecCCcccccCCCchHHHHHHH
Confidence 8773222111 122211111245666665333 11222233333332 5778898876 678999999
Q ss_pred HHHHH
Q 017966 354 QAIDC 358 (363)
Q Consensus 354 ~~~~~ 358 (363)
.|+--
T Consensus 469 aAiaa 473 (642)
T PLN02444 469 AANIG 473 (642)
T ss_pred HHHHH
Confidence 88754
No 142
>cd07015 Clp_protease_NfeD Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially cle
Probab=31.56 E-value=1.4e+02 Score=26.56 Aligned_cols=48 Identities=10% Similarity=0.189 Sum_probs=28.8
Q ss_pred CCCCeEEE--EecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeC---CCCHHHHHHHH
Q 017966 268 PDGRKRAL--LIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG---GPNYQTGLAKM 328 (363)
Q Consensus 268 ~~v~~vlv--~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~---G~~~~~~~~~l 328 (363)
.+.+.|++ |.|||..... ..|.++++.. ++||++... |.-...|-=++
T Consensus 28 ~~~~~i~l~inSPGG~v~~~------~~I~~~i~~~-------~~pvv~~v~p~g~~AaSag~~I~ 80 (172)
T cd07015 28 DNAEAIIIELDTPGGRADAA------GNIVQRIQQS-------KIPVIIYVYPPGASAASAGTYIA 80 (172)
T ss_pred CCCCeEEEEEECCCCCHHHH------HHHHHHHHhc-------CcCEEEEEecCCCeehhHHHHHH
Confidence 45666544 4499976532 6677777653 578887755 65555444333
No 143
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=31.45 E-value=3.1e+02 Score=24.89 Aligned_cols=65 Identities=12% Similarity=0.176 Sum_probs=37.1
Q ss_pred CCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH
Q 017966 246 GAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 325 (363)
Q Consensus 246 G~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~ 325 (363)
++.+.+...+.++-+|+ ++|++++|+. ..+..| .++++++++.+. .....++...| ..++.
T Consensus 165 ~~~~~~~~~~~~~~~l~---~~~~~~ai~~-------~~d~~a---~g~~~al~~~g~----~~~~~ivg~d~--~~~~~ 225 (274)
T cd06311 165 ANWNRDDAFSVMQDLLT---KFPKIDAVWA-------HDDDMA---VGVLAAIKQAGR----TDIKFVVGGAG--SKDMI 225 (274)
T ss_pred CCCcHHHHHHHHHHHHH---hCCCcCEEEE-------CCCcHH---HHHHHHHHHcCC----CCCceEEEeCC--CHHHH
Confidence 34445544444444443 3677887664 235566 899999998763 12223444444 35567
Q ss_pred HHHH
Q 017966 326 AKMR 329 (363)
Q Consensus 326 ~~l~ 329 (363)
+.++
T Consensus 226 ~~i~ 229 (274)
T cd06311 226 KMIM 229 (274)
T ss_pred HHHH
Confidence 7776
No 144
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=31.33 E-value=3.9e+02 Score=23.99 Aligned_cols=99 Identities=16% Similarity=0.158 Sum_probs=55.1
Q ss_pred HHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhh
Q 017966 224 IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKES 303 (363)
Q Consensus 224 ~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~ 303 (363)
+..+.+...|+ .-+|+|-+.+++.+.++++ ..+.+.|.+-. .++....-+ ..+++.+++..+
T Consensus 101 ~v~~~l~~~G~-----~vi~lG~~~p~~~l~~~~~--------~~~~d~v~lS~--~~~~~~~~~---~~~i~~lr~~~~ 162 (201)
T cd02070 101 LVATMLEANGF-----EVIDLGRDVPPEEFVEAVK--------EHKPDILGLSA--LMTTTMGGM---KEVIEALKEAGL 162 (201)
T ss_pred HHHHHHHHCCC-----EEEECCCCCCHHHHHHHHH--------HcCCCEEEEec--cccccHHHH---HHHHHHHHHCCC
Confidence 34678877632 3388999999998888732 23344344332 222223333 677777877641
Q ss_pred hhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHH
Q 017966 304 KLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQA 355 (363)
Q Consensus 304 ~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~ 355 (363)
...+-+.+||.-..+ + +.+ ..|.-.+ ..+..+|++.+
T Consensus 163 -----~~~~~i~vGG~~~~~--~-~~~---~~GaD~~----~~da~~av~~~ 199 (201)
T cd02070 163 -----RDKVKVMVGGAPVNQ--E-FAD---EIGADGY----AEDAAEAVAIA 199 (201)
T ss_pred -----CcCCeEEEECCcCCH--H-HHH---HcCCcEE----ECCHHHHHHHH
Confidence 112445566654432 2 322 3566543 46777777654
No 145
>cd07017 S14_ClpP_2 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease. Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activ
Probab=30.10 E-value=2.8e+02 Score=24.21 Aligned_cols=76 Identities=9% Similarity=0.016 Sum_probs=44.7
Q ss_pred ceeeccCCCCHHHHHHHHHHHHhhhccCCCCCe--EEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeC
Q 017966 240 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRK--RALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG 317 (363)
Q Consensus 240 N~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~--vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~ 317 (363)
+-+-+.|..+.+........+..+-. ++..+. +.||.|||-. .-+ ..|.+.++.+ +.|+++...
T Consensus 10 r~i~i~g~I~~~~~~~i~~~l~~~~~-~~~~~~i~l~inSpGG~v---~~~---~~i~~~l~~~-------~~~v~t~~~ 75 (171)
T cd07017 10 RIIFLGGPIDDEVANLIIAQLLYLES-EDPKKPIYLYINSPGGSV---TAG---LAIYDTMQYI-------KPPVSTICL 75 (171)
T ss_pred cEEEEcCEEcHHHHHHHHHHHHHHHc-cCCCCceEEEEECCCCCH---HHH---HHHHHHHHhc-------CCCEEEEEE
Confidence 34667777777777666666544322 333344 4455588843 223 6788888765 366777766
Q ss_pred CCCHHHHHHHHH
Q 017966 318 GPNYQTGLAKMR 329 (363)
Q Consensus 318 G~~~~~~~~~l~ 329 (363)
|.-...|-=++.
T Consensus 76 g~aaS~~~~i~~ 87 (171)
T cd07017 76 GLAASMGALLLA 87 (171)
T ss_pred eEehhHHHHHHH
Confidence 655555544443
No 146
>COG4981 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]
Probab=30.03 E-value=4.4e+02 Score=28.20 Aligned_cols=142 Identities=13% Similarity=0.159 Sum_probs=84.3
Q ss_pred cCCCcEEEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCC--eEEEEecccCCch
Q 017966 207 NPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGR--KRALLIGGGIANF 284 (363)
Q Consensus 207 ~l~g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~--~vlv~~~g~i~~~ 284 (363)
+|-||==++..|-=+...-.|.+.....+|-=+ =+--||.-++|-+.++++-+.+++.+-.... .+++|-+- =.
T Consensus 30 rLtGr~PillaGMTPtTVdp~ivAAaAnAGhwa-ELAGGGq~t~e~~~~~i~ql~~~lepG~t~qfN~ifldpyl---w~ 105 (717)
T COG4981 30 RLTGRSPILLAGMTPTTVDPDIVAAAANAGHWA-ELAGGGQVTEEIFTNAIEQLVSLLEPGRTAQFNSIFLDPYL---WK 105 (717)
T ss_pred hhcCCCCeeecCCCCCcCCHHHHHHHhcCCcee-eecCCcccCHHHHHHHHHHHHhccCCCccceeeEEEechHH---hh
Confidence 345665555555555544455554432222111 1223788999999999998877654433322 34443320 00
Q ss_pred hHHhhhHHHHHHHHHHhhhhhhcccce-EEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhHhc
Q 017966 285 TDVATTFNGIIRALREKESKLKAARMH-IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSA 362 (363)
Q Consensus 285 ~~vA~~~~giv~a~~~~~~~~~~~~~p-vvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~~~ 362 (363)
-++- .+.+|+-++..+. .+. |++.-|=+..++|-+++++++.. |+|...| -.---|+|+..+++|++-
T Consensus 106 ~qig--~krLv~kara~G~-----~I~gvvIsAGIP~le~A~ElI~~L~~~-G~~yv~f--KPGtIeqI~svi~IAka~ 174 (717)
T COG4981 106 LQIG--GKRLVQKARASGA-----PIDGVVISAGIPSLEEAVELIEELGDD-GFPYVAF--KPGTIEQIRSVIRIAKAN 174 (717)
T ss_pred hcCC--hHHHHHHHHhcCC-----CcceEEEecCCCcHHHHHHHHHHHhhc-CceeEEe--cCCcHHHHHHHHHHHhcC
Confidence 1111 1567666665542 233 67777889999999999974332 9998876 345567899999998863
No 147
>KOG2862 consensus Alanine-glyoxylate aminotransferase AGT1 [General function prediction only]
Probab=29.89 E-value=1.3e+02 Score=29.88 Aligned_cols=65 Identities=15% Similarity=0.150 Sum_probs=50.8
Q ss_pred ceEecCCCcEEEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe
Q 017966 203 FTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 277 (363)
Q Consensus 203 ~~~i~l~g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~ 277 (363)
.|+++++.++-+..+|- .+--+.|..+..|.--.+- ..|.|+..+-|.+.++ |+ +-..++++|-|
T Consensus 86 ~N~lePgd~vLv~~~G~-wg~ra~D~~~r~ga~V~~v-~~~~G~~~~le~i~~~----ls----qh~p~~vfv~h 150 (385)
T KOG2862|consen 86 VNLLEPGDNVLVVSTGT-WGQRAADCARRYGAEVDVV-EADIGQAVPLEEITEK----LS----QHKPKAVFVTH 150 (385)
T ss_pred HhhcCCCCeEEEEEech-HHHHHHHHHHhhCceeeEE-ecCcccCccHHHHHHH----HH----hcCCceEEEEe
Confidence 35577888999999988 8999999999973322234 7899999999998888 55 45677788877
No 148
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.88 E-value=3.7e+02 Score=28.39 Aligned_cols=103 Identities=11% Similarity=0.077 Sum_probs=62.5
Q ss_pred ccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEE--eCCCCH
Q 017966 244 YSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVR--RGGPNY 321 (363)
Q Consensus 244 ~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvr--l~G~~~ 321 (363)
||+++ +--.++|++-.- +.+-|+|||..-|-+-+..... ..+.+.++..+ +.+-++|- |-|+..
T Consensus 447 Ygkd~-a~vak~AI~~a~-----~~gfDVvLiDTAGR~~~~~~lm---~~l~k~~~~~~-----pd~i~~vgealvg~ds 512 (587)
T KOG0781|consen 447 YGKDA-AGVAKEAIQEAR-----NQGFDVVLIDTAGRMHNNAPLM---TSLAKLIKVNK-----PDLILFVGEALVGNDS 512 (587)
T ss_pred cCCCh-HHHHHHHHHHHH-----hcCCCEEEEeccccccCChhHH---HHHHHHHhcCC-----CceEEEehhhhhCcHH
Confidence 45553 334445544432 6788999999988887765554 55544443332 23445555 778777
Q ss_pred HHHHHHHHhhccccC----CceeecCCCCCHHHHHHHHHHHhH
Q 017966 322 QTGLAKMRALGEELG----IPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 322 ~~~~~~l~~~~~~~G----ip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
-+-.+.|.++.-+.- |.-++.-.++|.++-|+.++.++=
T Consensus 513 v~q~~~fn~al~~~~~~r~id~~~ltk~dtv~d~vg~~~~m~y 555 (587)
T KOG0781|consen 513 VDQLKKFNRALADHSTPRLIDGILLTKFDTVDDKVGAAVSMVY 555 (587)
T ss_pred HHHHHHHHHHHhcCCCccccceEEEEeccchhhHHHHHhhhee
Confidence 666666655433332 333333357999999999988763
No 149
>PRK14570 D-alanyl-alanine synthetase A; Provisional
Probab=29.70 E-value=1.2e+02 Score=30.27 Aligned_cols=45 Identities=13% Similarity=0.239 Sum_probs=35.5
Q ss_pred CeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeC
Q 017966 10 GLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDR 65 (363)
Q Consensus 10 GGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~ 65 (363)
-||.++.|.+|+.++.++.+. +. ..+|||+.+. ++|+-+++.-|.
T Consensus 185 ~Gv~~v~~~~el~~al~~a~~-----~~-----~~vlVEefI~-GrEi~v~Vlg~~ 229 (364)
T PRK14570 185 IGINVAYNENQIEKCIEEAFK-----YD-----LTVVIEKFIE-AREIECSVIGNE 229 (364)
T ss_pred CcEEEeCCHHHHHHHHHHHHh-----CC-----CCEEEECCcC-CEEEEEEEECCC
Confidence 368888999999988887652 11 3589999998 799999998664
No 150
>PRK12815 carB carbamoyl phosphate synthase large subunit; Reviewed
Probab=29.51 E-value=6.4e+02 Score=29.06 Aligned_cols=45 Identities=16% Similarity=0.351 Sum_probs=33.7
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
||.++.|.+|+.++.++. .. .-..++||+.++ +.|+-+.+..|..
T Consensus 720 gv~iv~~~eeL~~~l~~~----~s------~~~~vlIeefI~-G~E~~Vd~i~dg~ 764 (1068)
T PRK12815 720 GMAVVYDEPALEAYLAEN----AS------QLYPILIDQFID-GKEYEVDAISDGE 764 (1068)
T ss_pred CEEEECCHHHHHHHHHHh----hc------CCCCEEEEEeec-CceEEEEEEEcCC
Confidence 577888999998887766 11 123589999995 5799888888854
No 151
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=29.40 E-value=4.5e+02 Score=24.09 Aligned_cols=104 Identities=13% Similarity=0.087 Sum_probs=58.3
Q ss_pred HHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhh
Q 017966 223 VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKE 302 (363)
Q Consensus 223 ~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~ 302 (363)
.+...++...|+ .-+|+|-+.+++.+.++++ ..+.+.|.+-. .++....-+ +.+++.+++.+
T Consensus 106 ~iv~~~l~~~G~-----~Vi~LG~~vp~e~~v~~~~--------~~~~~~V~lS~--~~~~~~~~~---~~~i~~L~~~~ 167 (213)
T cd02069 106 NLVGVILSNNGY-----EVIDLGVMVPIEKILEAAK--------EHKADIIGLSG--LLVPSLDEM---VEVAEEMNRRG 167 (213)
T ss_pred HHHHHHHHhCCC-----EEEECCCCCCHHHHHHHHH--------HcCCCEEEEcc--chhccHHHH---HHHHHHHHhcC
Confidence 345677777643 5589999999998888733 23444444432 222222222 67777777653
Q ss_pred hhhhcccceEEEEeCC--CCHHHHHHH-HHhhccccCCceeecCCCCCHHHHHHHHHHH
Q 017966 303 SKLKAARMHIFVRRGG--PNYQTGLAK-MRALGEELGIPLEVYGPEATMTGICKQAIDC 358 (363)
Q Consensus 303 ~~~~~~~~pvvvrl~G--~~~~~~~~~-l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~ 358 (363)
.+ +-+.+|| .+.+-+.+. +.+ ..|-.. | ..+..+||+.+-++
T Consensus 168 -----~~--~~i~vGG~~~~~~~~~~~~~~~---~~gad~--y--~~da~~~v~~~~~~ 212 (213)
T cd02069 168 -----IK--IPLLIGGAATSRKHTAVKIAPE---YDGPVV--Y--VKDASRALGVANKL 212 (213)
T ss_pred -----CC--CeEEEEChhcCHHHHhhhhccc---cCCCce--E--ecCHHHHHHHHHHh
Confidence 23 4455566 444444332 221 235433 3 57888888876554
No 152
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=29.37 E-value=3.8e+02 Score=24.02 Aligned_cols=121 Identities=16% Similarity=0.171 Sum_probs=68.2
Q ss_pred CcEEEEecCCcHHHH------HHHHHHhcCCCCCCCceee--ccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccC
Q 017966 210 GRIWTMVAGGGASVI------YADTVGDLGYASELGNYAE--YSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 281 (363)
Q Consensus 210 g~I~ii~NG~G~~~~------~~D~l~~~g~gg~paN~lD--~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i 281 (363)
++|+++++..+.... ..+.+..+ + . -+.+. ...+.+++...+.++-++. ++| +++++.
T Consensus 123 ~~v~~~~~~~~~~~~~~r~~g~~~~l~~~--~-~-~~~~~~~~~~~~~~~~a~~~~~~~l~---~~~-~~~i~~------ 188 (257)
T PF13407_consen 123 GKVLILSGSPGNPNTQERLEGFRDALKEY--P-G-VEIVDEYEYTDWDPEDARQAIENLLQ---ANP-VDAIIA------ 188 (257)
T ss_dssp EEEEEEESSTTSHHHHHHHHHHHHHHHHC--T-T-EEEEEEEEECTTSHHHHHHHHHHHHH---HTT-EEEEEE------
T ss_pred ceEEeccCCCCchHHHHHHHHHHHHHhhc--c-e-eeeeeeeeccCCCHHHHHHHHHHhhh---cCC-ceEEEe------
Confidence 788888766664443 12344432 1 1 11121 2346777777776666665 365 554442
Q ss_pred CchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhHh
Q 017966 282 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 282 ~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
.++..+ .++++++++.+. .+.+.++..++ ..+..+.+++ -.+...+ ..++.+....+++.+.+
T Consensus 189 -~~~~~~---~g~~~al~~~g~----~~~~~v~g~d~--~~~~~~~i~~----g~~~a~v---~~~~~~~g~~av~~l~~ 251 (257)
T PF13407_consen 189 -CNDGMA---LGAAQALQQAGR----AGKVIVVGFDG--SPEALEAIKD----GNITATV---GQDPYQQGYKAVEALFD 251 (257)
T ss_dssp -SSHHHH---HHHHHHHHHTTC----TTTSEEEEEEC--HHHHHHHHHT----TSSSEEE---EE-HHHHHHHHHHHHHH
T ss_pred -CCChHH---HHHHHHHHHcCC----cccceeecCCC--CHHHHHHHHC----CCCeEEE---eCCHHHHHHHHHHHHHH
Confidence 235556 899999999764 23455666766 3566677763 3444233 35777777777766543
No 153
>TIGR00877 purD phosphoribosylamine--glycine ligase. This enzyme appears as a monofunctional protein in prokaryotes but as part of a larger, multidomain protein in eukaryotes.
Probab=29.34 E-value=4.2e+02 Score=26.50 Aligned_cols=28 Identities=18% Similarity=0.106 Sum_probs=17.7
Q ss_pred HHHHHHHhhccccCCceeecCCCCCHHHHHHH
Q 017966 323 TGLAKMRALGEELGIPLEVYGPEATMTGICKQ 354 (363)
Q Consensus 323 ~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~ 354 (363)
..++.|++ +|||+-.|-...+.+++.+.
T Consensus 107 ~~k~~l~~----~gIp~p~~~~~~~~~~~~~~ 134 (423)
T TIGR00877 107 FAKDFMKR----YGIPTAEYEVFTDPEEALSY 134 (423)
T ss_pred HHHHHHHH----CCCCCCCeEEECCHHHHHHH
Confidence 34555654 89988655556778776544
No 154
>PRK14572 D-alanyl-alanine synthetase A; Provisional
Probab=28.63 E-value=1.1e+02 Score=30.05 Aligned_cols=43 Identities=7% Similarity=0.093 Sum_probs=34.0
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSD 64 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D 64 (363)
||.++.|.+|+.++.++.+. .. ..+||||+++ ++|+-+++..|
T Consensus 186 GV~~v~~~~el~~a~~~~~~-----~~-----~~vlVEefI~-G~E~sv~vi~~ 228 (347)
T PRK14572 186 STYKITNAEQLMTLLALIFE-----SD-----SKVMSQSFLS-GTEVSCGVLER 228 (347)
T ss_pred CEEEECCHHHHHHHHHHHHh-----cC-----CCEEEEcCcc-cEEEEEEEEeC
Confidence 78888999999988887642 11 2589999997 69999998865
No 155
>PRK07206 hypothetical protein; Provisional
Probab=28.32 E-value=1.6e+02 Score=29.45 Aligned_cols=49 Identities=20% Similarity=0.176 Sum_probs=35.9
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEE
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVS 63 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~ 63 (363)
||.++.|.+|++++++++++..-. .+ ..-..++|||.++ +.|+-+....
T Consensus 161 gv~~v~~~~el~~~~~~~~~~~~~-~~--~~~~~~lvEe~i~-G~E~sv~~~~ 209 (416)
T PRK07206 161 GVFICPAKGDWKHAFNAILGKANK-LG--LVNETVLVQEYLI-GTEYVVNFVS 209 (416)
T ss_pred CEEEeCCHHHHHHHHHHHHhcccc-CC--CCCCeEEEEEccc-cEEEEEEEEE
Confidence 788999999999999888753221 11 1235799999997 5798877665
No 156
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=27.20 E-value=1.1e+02 Score=26.73 Aligned_cols=36 Identities=14% Similarity=0.100 Sum_probs=26.5
Q ss_pred HHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHH
Q 017966 323 TGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 358 (363)
Q Consensus 323 ~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~ 358 (363)
.+-++++.+..++|+.+..-|-+.|++|++++|++.
T Consensus 27 ~gakvia~~l~d~GfeVi~~g~~~tp~e~v~aA~~~ 62 (143)
T COG2185 27 RGAKVIARALADAGFEVINLGLFQTPEEAVRAAVEE 62 (143)
T ss_pred cchHHHHHHHHhCCceEEecCCcCCHHHHHHHHHhc
Confidence 344444444446899888888889999999999763
No 157
>PRK05198 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=26.97 E-value=3.1e+02 Score=26.34 Aligned_cols=25 Identities=28% Similarity=0.626 Sum_probs=22.7
Q ss_pred eCCCCHHHHHHHHHhhccccCCcee
Q 017966 316 RGGPNYQTGLAKMRALGEELGIPLE 340 (363)
Q Consensus 316 l~G~~~~~~~~~l~~~~~~~Gip~~ 340 (363)
..|...++|+++|++++++.|+|+.
T Consensus 61 FqG~G~eeGL~~L~~vk~~~Glpvv 85 (264)
T PRK05198 61 FRGPGLEEGLKILQEVKETFGVPVL 85 (264)
T ss_pred CCCCChHHHHHHHHHHHHHHCCceE
Confidence 6788889999999999999999985
No 158
>PF02782 FGGY_C: FGGY family of carbohydrate kinases, C-terminal domain; InterPro: IPR018485 It has been shown [] that four different type of carbohydrate kinases seem to be evolutionary related. These enzymes include L-fucolokinase (2.7.1.51 from EC) (gene fucK); gluconokinase (2.7.1.12 from EC) (gene gntK); glycerol kinase (2.7.1.30 from EC) (gene glpK); xylulokinase (2.7.1.17 from EC) (gene xylB); and L-xylulose kinase (2.7.1.53 from EC) (gene lyxK). These enzymes are proteins of from 480 to 520 amino acid residues. This entry represents the C-terminal domain of these proteins. It adopts a ribonuclease H-like fold and is structurally related to the N-terminal domain [, ].; GO: 0016773 phosphotransferase activity, alcohol group as acceptor, 0005975 carbohydrate metabolic process; PDB: 4E1J_B 2W40_C 2W41_A 2UYT_A 2CGK_B 2CGL_A 2CGJ_A 3GBT_A 3LL3_B 3HZ6_A ....
Probab=26.54 E-value=3.8e+02 Score=23.33 Aligned_cols=86 Identities=20% Similarity=0.213 Sum_probs=48.5
Q ss_pred CCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhh----cccceEEEEeCCCCHHHHHHHHHhhccccCCceeec
Q 017966 267 DPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLK----AARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVY 342 (363)
Q Consensus 267 ~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~----~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~ 342 (363)
||+.++.++++....++.+.+.+..++++-.++..-.... ....+|++.=|+.+...=.+++.++ .|.|++..
T Consensus 104 ~~~~~g~~~gl~~~~~~~~~~rAv~Egia~~~~~~~~~l~~~~~~~~~~i~~~GG~~~n~~~~q~~Adv---l~~~V~~~ 180 (198)
T PF02782_consen 104 DPDARGSFIGLSSDTTRADLARAVLEGIAFSLRQILEELEELTGIPIRRIRVSGGGAKNPLWMQILADV---LGRPVVRP 180 (198)
T ss_dssp BTTHCEEEEEEETTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCESEEEEESGGGGSHHHHHHHHHH---HTSEEEEE
T ss_pred ccccccccccCCcccCHHHHHHHHHHhHHHHHHHhhhhccccccccceeeEeccccccChHHHHHHHHH---hCCceEeC
Confidence 5667778877755555555544555665555554332221 1223455555556666667888875 78999764
Q ss_pred CCCCCHHHHHHHHHH
Q 017966 343 GPEATMTGICKQAID 357 (363)
Q Consensus 343 ~~~~~~~eav~~~~~ 357 (363)
. ..-..|.+.|+-
T Consensus 181 ~--~~e~~a~GaA~~ 193 (198)
T PF02782_consen 181 E--VEEASALGAALL 193 (198)
T ss_dssp S--SSTHHHHHHHHH
T ss_pred C--CCchHHHHHHHH
Confidence 2 233445555543
No 159
>KOG1254 consensus ATP-citrate lyase [Energy production and conversion]
Probab=26.42 E-value=1.2e+02 Score=31.81 Aligned_cols=94 Identities=15% Similarity=0.119 Sum_probs=61.2
Q ss_pred CCCcEEEEecCCcHHHHHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe-cccCCchhH
Q 017966 208 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTD 286 (363)
Q Consensus 208 l~g~I~ii~NG~G~~~~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~-~g~i~~~~~ 286 (363)
..|..+.+++.||.+.=-.+.+..- ---|.-=+-+||+..+-... +..++. -+.+|.+|-|++.. .||--..
T Consensus 158 R~Gsv~~vS~sGGmsnE~nn~isrt--t~g~~egiaiggd~~pgSTl--~dhi~r-~q~~~~vk~Iv~Lgevgg~~ey-- 230 (600)
T KOG1254|consen 158 RPGSVIYVSRSGGMSNELNNIISRT--TDGPYEGIAIGGDRYPGSTL--IDHIPR-EQHDPLVKFIVVLGEVGGDEEY-- 230 (600)
T ss_pred CCccEEEEecCCCcchhhhhhhhhe--eccceeeeeccCCCccCchH--hhhhhh-hhccChhheEEeehhhccccee--
Confidence 4688999999999988766666553 22255557788888764332 222332 13478888777766 5554332
Q ss_pred HhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 017966 287 VATTFNGIIRALREKESKLKAARMHIFVRRGGP 319 (363)
Q Consensus 287 vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~ 319 (363)
.++++.++-+ .++|+|+|..|+
T Consensus 231 ------~~~e~~k~g~-----~tkPlVaw~~gt 252 (600)
T KOG1254|consen 231 ------TFLEANKEGK-----ITKPLVAWCIGT 252 (600)
T ss_pred ------ehhhhhhcCC-----ccCCEEEEecCc
Confidence 2455555543 679999999987
No 160
>PF08353 DUF1727: Domain of unknown function (DUF1727); InterPro: IPR013564 This domain of unknown function is found at the C terminus of bacterial proteins which include UDP-N-acetylmuramyl tripeptide synthase and the related Mur ligase.
Probab=26.11 E-value=3.8e+02 Score=22.14 Aligned_cols=85 Identities=13% Similarity=0.181 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhh----hHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH
Q 017966 250 EEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVAT----TFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 325 (363)
Q Consensus 250 ~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~----~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~ 325 (363)
|.-+.++++++.. +++-+.+++.+=...++..++.= .|+-+ .+ .++.-+++-|-...+-+.
T Consensus 5 P~G~n~~l~~i~~----~~~~~~~~~~lNd~~aDG~DvSWiWDvdFE~L----~~-------~~i~~viv~G~Ra~Dmal 69 (113)
T PF08353_consen 5 PAGFNEVLDMIAS----DPGPKSVLIALNDNYADGRDVSWIWDVDFEKL----AD-------PNIKQVIVSGTRAEDMAL 69 (113)
T ss_pred cHHHHHHHHHHHh----CCCCceEEEEecCCCCCCccceEEeecCHHHH----hc-------CCCCEEEEEeeeHHHHHh
Confidence 3456677777766 77777766665333343333321 13322 11 123344444444445555
Q ss_pred HHHHhhccccCCc---eeecCCCCCHHHHHHHHHH
Q 017966 326 AKMRALGEELGIP---LEVYGPEATMTGICKQAID 357 (363)
Q Consensus 326 ~~l~~~~~~~Gip---~~~~~~~~~~~eav~~~~~ 357 (363)
|+-- +|+| +.+ .+++++|+..+..
T Consensus 70 RLky-----AGv~~~~i~v---~~d~~~a~~~~~~ 96 (113)
T PF08353_consen 70 RLKY-----AGVDEEKIIV---EEDLEEALDAFLI 96 (113)
T ss_pred Heee-----cCcchHHeEe---cCCHHHHHHHHHH
Confidence 5443 7998 554 6899999998543
No 161
>TIGR01036 pyrD_sub2 dihydroorotate dehydrogenase, subfamily 2. The subfamilies 1 and 2 share extensive homology, particularly toward the C-terminus. This subfamily has a longer N-terminal region.
Probab=26.06 E-value=5.4e+02 Score=25.30 Aligned_cols=62 Identities=11% Similarity=0.203 Sum_probs=34.8
Q ss_pred CHHHHHHHHHHHHhhhccCCCCCeEEEEe--ccc-----CCchhHHhhhHHHHHHHHHHhhhhh-hcccceEEEEeCCCC
Q 017966 249 NEEEVLQYARVVIDCATADPDGRKRALLI--GGG-----IANFTDVATTFNGIIRALREKESKL-KAARMHIFVRRGGPN 320 (363)
Q Consensus 249 ~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~-----i~~~~~vA~~~~giv~a~~~~~~~~-~~~~~pvvvrl~G~~ 320 (363)
..+.|.+.++.+- +..+++-+|+ |.. ..+.+.+ .-+++++++..... +..++||++.+.-.-
T Consensus 152 ~~~dy~~~~~~~~------~~ad~iElNlScPn~~~~~~~~~~~~~----~~i~~~V~~~~~~~~~~~~~Pv~vKLsP~~ 221 (335)
T TIGR01036 152 AKEDYAACLRKLG------PLADYLVVNVSSPNTPGLRDLQYKAEL----RDLLTAVKQEQDGLRRVHRVPVLVKIAPDL 221 (335)
T ss_pred CHHHHHHHHHHHh------hhCCEEEEEccCCCCCCcccccCHHHH----HHHHHHHHHHHHhhhhccCCceEEEeCCCC
Confidence 5678888877753 2478999998 421 1222222 34444444432110 012489999988753
No 162
>PRK12767 carbamoyl phosphate synthase-like protein; Provisional
Probab=25.90 E-value=2e+02 Score=27.43 Aligned_cols=44 Identities=20% Similarity=0.260 Sum_probs=33.6
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCe
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCT 69 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ 69 (363)
||.+..|.+|+.++..+. ..++||+.++ +.|+-+.+..|..+-+
T Consensus 163 gv~~v~~~~el~~~~~~~--------------~~~lvqeyi~-G~e~~v~~~~~~~G~~ 206 (326)
T PRK12767 163 GVFKVNDKEELEFLLEYV--------------PNLIIQEFIE-GQEYTVDVLCDLNGEV 206 (326)
T ss_pred CeEEeCCHHHHHHHHHhC--------------CCeEEEeccC-CceEEEEEEEcCCCCE
Confidence 677888998887765532 2689999994 7899999999865543
No 163
>COG1992 Uncharacterized conserved protein [Function unknown]
Probab=25.50 E-value=3.4e+02 Score=24.52 Aligned_cols=20 Identities=15% Similarity=0.396 Sum_probs=16.4
Q ss_pred eecCCCCCHHHHHHHHHHHhHh
Q 017966 340 EVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 340 ~~~~~~~~~~eav~~~~~~~~~ 361 (363)
++|| .++.|+++++++++..
T Consensus 160 ~v~g--r~a~evv~k~l~ll~k 179 (181)
T COG1992 160 RVLG--RNAVEVVEKALRLLLK 179 (181)
T ss_pred EEeC--CCHHHHHHHHHHHHHh
Confidence 5665 8999999999998764
No 164
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=25.48 E-value=4.9e+02 Score=23.23 Aligned_cols=120 Identities=11% Similarity=0.014 Sum_probs=63.5
Q ss_pred CCcEEEEecCCcH-HH-----HHHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCC
Q 017966 209 KGRIWTMVAGGGA-SV-----IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 282 (363)
Q Consensus 209 ~g~I~ii~NG~G~-~~-----~~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~ 282 (363)
.++|++++..... .. -..+.+..+ |..+-......++.+.+..+++++-+++ ++|++++++.
T Consensus 116 ~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~ai~~------- 183 (268)
T cd01575 116 YRRIGFLGARMDDTRAQQRLEGFRAALRAA--GLDPPLVVTTPEPSSFALGRELLAELLA---RWPDLDAVFC------- 183 (268)
T ss_pred CCcEEEecCCCCcccHHHHHHHHHHHHHHc--CCCCCceeEeccCCCHHHHHHHHHHHHh---CCCCCCEEEE-------
Confidence 3567777544331 11 122445554 3333222333445556666666666554 3677887764
Q ss_pred chhHHhhhHHHHHHHHHHhhhhhhcccce--E-EEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHh
Q 017966 283 NFTDVATTFNGIIRALREKESKLKAARMH--I-FVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 359 (363)
Q Consensus 283 ~~~~vA~~~~giv~a~~~~~~~~~~~~~p--v-vvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~ 359 (363)
.++.+| .++++++++.+. ++| + ++..+++... +.+. -.+.+. .-++.+..+.+++++
T Consensus 184 ~~d~~a---~~~~~~l~~~g~-----~~p~di~vig~d~~~~~---~~~~-----~~itti----~~~~~~~g~~a~~~l 243 (268)
T cd01575 184 SNDDLA---LGALFECQRRGI-----SVPEDIAIAGFGDLEIA---AALP-----PALTTV----RTPRREIGRRAAELL 243 (268)
T ss_pred CCcHHH---HHHHHHHHHhCC-----CCCcceEEEecCCchhh---hccC-----CCceee----eCCHHHHHHHHHHHH
Confidence 235566 899999988752 233 3 5557765321 1111 133322 457777777777665
Q ss_pred H
Q 017966 360 M 360 (363)
Q Consensus 360 ~ 360 (363)
.
T Consensus 244 ~ 244 (268)
T cd01575 244 L 244 (268)
T ss_pred H
Confidence 4
No 165
>TIGR01362 KDO8P_synth 3-deoxy-8-phosphooctulonate synthase. In Gram-negative bacteria, this is the first step in the biosynthesis of 3-deoxy-D-manno-octulosonate, part of the oligosaccharide core of lipopolysaccharide.
Probab=25.09 E-value=3.3e+02 Score=26.04 Aligned_cols=25 Identities=32% Similarity=0.683 Sum_probs=22.5
Q ss_pred eCCCCHHHHHHHHHhhccccCCcee
Q 017966 316 RGGPNYQTGLAKMRALGEELGIPLE 340 (363)
Q Consensus 316 l~G~~~~~~~~~l~~~~~~~Gip~~ 340 (363)
..|...++|+++|++++++.|+|+.
T Consensus 53 FqG~G~eeGL~iL~~vk~~~glpvv 77 (258)
T TIGR01362 53 FRGPGLEEGLKILQKVKEEFGVPIL 77 (258)
T ss_pred CCCCCHHHHHHHHHHHHHHhCCceE
Confidence 6777789999999999999999984
No 166
>PLN02495 oxidoreductase, acting on the CH-CH group of donors
Probab=24.86 E-value=4.3e+02 Score=26.71 Aligned_cols=60 Identities=10% Similarity=0.098 Sum_probs=40.7
Q ss_pred ccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe--cccC----------CchhHHhhhHHHHHHHHHHhhhhhhcccce
Q 017966 244 YSGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGI----------ANFTDVATTFNGIIRALREKESKLKAARMH 311 (363)
Q Consensus 244 ~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~--~g~i----------~~~~~vA~~~~giv~a~~~~~~~~~~~~~p 311 (363)
+.|.-+++.|.+.++.+- +...+++=+|+ |.+. .++ +.. +-|++++++. .++|
T Consensus 120 i~~~~s~~~~~~~a~~~e-----~~GaD~iELNiSCPn~~~~r~~g~~~gq~~-e~~---~~i~~~Vk~~------~~iP 184 (385)
T PLN02495 120 IMEEYNKDAWEEIIERVE-----ETGVDALEINFSCPHGMPERKMGAAVGQDC-DLL---EEVCGWINAK------ATVP 184 (385)
T ss_pred ccCCCCHHHHHHHHHHHH-----hcCCCEEEEECCCCCCCCcCccchhhccCH-HHH---HHHHHHHHHh------hcCc
Confidence 445567899999888764 45689999999 4432 122 222 4566666654 3699
Q ss_pred EEEEeCC
Q 017966 312 IFVRRGG 318 (363)
Q Consensus 312 vvvrl~G 318 (363)
|++.|.-
T Consensus 185 v~vKLsP 191 (385)
T PLN02495 185 VWAKMTP 191 (385)
T ss_pred eEEEeCC
Confidence 9999985
No 167
>PRK04690 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=24.84 E-value=5.9e+02 Score=26.11 Aligned_cols=94 Identities=16% Similarity=0.097 Sum_probs=50.3
Q ss_pred eeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 017966 241 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 320 (363)
Q Consensus 241 ~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~ 320 (363)
++|=....+++.+..+++.+ . +. -++.++|++.+-.+. +.+++.+++.. ...++.. |.+
T Consensus 325 iidDs~ahNp~a~~~al~~~-~----~~----~i~~i~Gg~~k~kd~----~~l~~~l~~~~-------~~~v~~~-g~~ 383 (468)
T PRK04690 325 YVNDSISTTPHASLAALDCF-A----GR----RVALLVGGHDRGLDW----TDFAAHMAQRA-------PLEIVTM-GAN 383 (468)
T ss_pred EEEeCCCCCHHHHHHHHHhc-c----CC----cEEEEEcCCCCCCCH----HHHHHHHHhcc-------CeEEEEe-CCC
Confidence 55554567777777765431 1 11 234567776554343 46666654321 1122223 344
Q ss_pred HHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHH
Q 017966 321 YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 358 (363)
Q Consensus 321 ~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~ 358 (363)
...+.+.|.+...+.+.++.. ++++++|++.+.+.
T Consensus 384 ~~r~~~~l~~~~~~~~~~~~~---~~~~~~Av~~A~~~ 418 (468)
T PRK04690 384 GPRIHALLAPLAAAGRFGLHA---ADDLAHAVRLARTA 418 (468)
T ss_pred HHHHHHHHHhcccccCCceEE---cCCHHHHHHHHHHH
Confidence 445555565422222455544 57899999999873
No 168
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=24.44 E-value=2.1e+02 Score=22.46 Aligned_cols=55 Identities=18% Similarity=0.219 Sum_probs=36.4
Q ss_pred CCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 017966 248 PNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 320 (363)
Q Consensus 248 a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~ 320 (363)
.+++...++++-+++ ++++..|++ . ..++ +.+-+.+++.... ...|+++-+.+.+
T Consensus 25 ~~~ee~~~~l~~l~~----~~~~gIIii-~-------e~~~---~~~~~~l~~~~~~---~~~P~iv~IP~~~ 79 (95)
T PF01990_consen 25 TDPEEAEEALKELLK----DEDVGIIII-T-------EDLA---EKIRDELDEYREE---SSLPLIVEIPSKE 79 (95)
T ss_dssp HSHHHHHHHHHHHHH----HTTEEEEEE-E-------HHHH---TTHHHHHHHHHHT---SSSSEEEEESTTC
T ss_pred CCHHHHHHHHHHHhc----CCCccEEEe-e-------HHHH---HHHHHHHHHHHhc---cCCceEEEcCCCC
Confidence 388999999999987 788754443 2 4556 5555555554321 4689999877654
No 169
>TIGR01358 DAHP_synth_II 3-deoxy-7-phosphoheptulonate synthase, class II. Homologs scoring between trusted and noise cutoff include proteins involved in antibiotic biosynthesis; one example is active as this enzyme, while another acts on an amino analog.
Probab=24.28 E-value=3.6e+02 Score=27.80 Aligned_cols=95 Identities=15% Similarity=0.206 Sum_probs=61.3
Q ss_pred CCcee--eccCCCCHHHHHHHHHHHHhhhccCCC-CCe-EEEEe-cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceE
Q 017966 238 LGNYA--EYSGAPNEEEVLQYARVVIDCATADPD-GRK-RALLI-GGGIANFTDVATTFNGIIRALREKESKLKAARMHI 312 (363)
Q Consensus 238 paN~l--D~gG~a~~e~~~~a~~~ll~~~~~~~~-v~~-vlv~~-~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pv 312 (363)
.+||+ =+|-+.+++.+.+.++.+ ||+ .-+ +-+|. .|. +.|.+..=.+|++.+..+ ...|
T Consensus 278 I~NPIGvKvGP~~~p~~l~~L~~~L------nP~~epGRlTLI~RmGa----~kV~~~LP~li~aV~~~G------~~Vv 341 (443)
T TIGR01358 278 VRNPIGIKVGPSMTPDELLRLIERL------NPENEPGRLTLISRMGA----DKIADKLPPLLRAVKAAG------RRVV 341 (443)
T ss_pred CCCCeeEEECCCCCHHHHHHHHHHh------CCCCCCceEEEEeccCc----hHHHHhHHHHHHHHHHcC------CceE
Confidence 57885 568888999888876665 453 223 33333 664 456655578888888765 2446
Q ss_pred EEE--eCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhHh
Q 017966 313 FVR--RGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 313 vvr--l~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
..| |-|++... .+|+.+.- |+++-+=|+.|.+.-++
T Consensus 342 W~cDPMHGNT~~t----------~~G~KTR~---f~~Il~Ev~~ff~vh~~ 379 (443)
T TIGR01358 342 WVCDPMHGNTEEA----------ASGYKTRR---FDDIRSEVKGFFEVHRA 379 (443)
T ss_pred EeecCCCCCceeC----------CCCccCCc---HHHHHHHHHHHHHHHHH
Confidence 666 88876332 36877753 56777777777776554
No 170
>PRK12457 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=24.28 E-value=3.7e+02 Score=26.09 Aligned_cols=25 Identities=20% Similarity=0.436 Sum_probs=22.5
Q ss_pred eCCCCHHHHHHHHHhhccccCCcee
Q 017966 316 RGGPNYQTGLAKMRALGEELGIPLE 340 (363)
Q Consensus 316 l~G~~~~~~~~~l~~~~~~~Gip~~ 340 (363)
..|...++|+++|++++++.|+|+.
T Consensus 67 FqG~G~eeGL~iL~~vk~~~Glpvv 91 (281)
T PRK12457 67 YRGVGLDEGLRIFEEVKARFGVPVI 91 (281)
T ss_pred CCCCCHHHHHHHHHHHHHHHCCceE
Confidence 5678889999999999999999985
No 171
>PTZ00323 NAD+ synthase; Provisional
Probab=23.97 E-value=3.8e+02 Score=26.03 Aligned_cols=75 Identities=17% Similarity=0.095 Sum_probs=35.8
Q ss_pred CCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCH----HHHHHHHHhhccccCCceeecC
Q 017966 268 PDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY----QTGLAKMRALGEELGIPLEVYG 343 (363)
Q Consensus 268 ~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~----~~~~~~l~~~~~~~Gip~~~~~ 343 (363)
-+.++++|-+.||+ +++-+| .-..+++...+. +..+-+.+.+...+. +.+++.++ ..|++.+..
T Consensus 44 ~g~~~vVVglSGGV-DSav~a---aLa~~alg~~~~---~~~~~~~v~~P~~ss~~~~~~A~~la~----~lGi~~~~i- 111 (294)
T PTZ00323 44 CGLKGCVTSVSGGI-DSAVVL---ALCARAMRMPNS---PIQKNVGLCQPIHSSAWALNRGRENIQ----ACGATEVTV- 111 (294)
T ss_pred cCCCcEEEECCCCH-HHHHHH---HHHHHHhccccC---CceEEEEEECCCCCCHHHHHHHHHHHH----HhCCcEEEE-
Confidence 34566777766666 555555 333344433110 011122333442222 44555555 589987643
Q ss_pred CCCCHHHHHHHHHH
Q 017966 344 PEATMTGICKQAID 357 (363)
Q Consensus 344 ~~~~~~eav~~~~~ 357 (363)
+.++.+..+.+
T Consensus 112 ---di~~l~~~~~~ 122 (294)
T PTZ00323 112 ---DQTEIHTQLSS 122 (294)
T ss_pred ---ECcHHHHHHHH
Confidence 45555544433
No 172
>PF15609 PRTase_2: Phosphoribosyl transferase
Probab=23.40 E-value=1.5e+02 Score=26.98 Aligned_cols=46 Identities=33% Similarity=0.413 Sum_probs=30.5
Q ss_pred HHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceee
Q 017966 292 NGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEV 341 (363)
Q Consensus 292 ~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~ 341 (363)
-.+++++++..+ .+.-+++.+-.-...+.++.+.+..++.|+|+.+
T Consensus 138 lnli~al~~~~p----~~~yvvasL~d~~~~~~~~~~~~~~~~lgi~i~~ 183 (191)
T PF15609_consen 138 LNLIRALHAKYP----RKRYVVASLLDWRSEEDRARFEALAEELGIPIDV 183 (191)
T ss_pred HHHHHHHHHhCC----CceEEEEEEeeCCCHHHHHHHHHHHHHcCCcEEE
Confidence 567777776642 3444666666655566676666666689999864
No 173
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=23.32 E-value=5.4e+02 Score=22.94 Aligned_cols=121 Identities=11% Similarity=0.087 Sum_probs=62.7
Q ss_pred CcEEEEecCCc-HH------HHHHHHHHhcCCCCCC-CceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccC
Q 017966 210 GRIWTMVAGGG-AS------VIYADTVGDLGYASEL-GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 281 (363)
Q Consensus 210 g~I~ii~NG~G-~~------~~~~D~l~~~g~gg~p-aN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i 281 (363)
.+|++++...+ .. .-..+.+..+ |..+ ...+... +.+.+..+++++-+++ +++..++++..
T Consensus 117 ~~i~~l~~~~~~~~~~~~r~~g~~~~~~~~--~~~~~~~~~~~~-~~~~~~~~~~~~~~l~---~~~~~~ai~~~----- 185 (267)
T cd06283 117 ERILFVTEPLDEISPRMERYEGFKEALAEH--GIGVNEELIEID-DEDADELDERLRQLLN---KPKKKTAIFAA----- 185 (267)
T ss_pred CcEEEEecCccccccHHHHHHHHHHHHHHc--CCCCCcceeEec-ccchHHHHHHHHHHHc---CCCCCCEEEEc-----
Confidence 47888864332 11 1234666665 3222 2223332 3334555555555553 35667777642
Q ss_pred CchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhH
Q 017966 282 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 282 ~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
++.+| .++++++++++.. . .+..-++..+++.. + +.+. -++.+. ..++.+....+++++.
T Consensus 186 --~d~~a---~g~~~~l~~~g~~-v-p~di~v~g~d~~~~--~-~~~~-----~~l~tv----~~~~~~~g~~a~~~l~ 245 (267)
T cd06283 186 --NGLIL---LEVLKALKELGIR-I-PEDVGLIGFDDTEW--A-ELIG-----PGITTI----AQPTYEMGKTAAELLL 245 (267)
T ss_pred --CcHHH---HHHHHHHHHcCCC-C-ccceEEEEeCCccH--h-hhcC-----CcceEe----cCCHHHHHHHHHHHHH
Confidence 35667 8999999887621 0 11124556777532 2 2222 234332 4577777777777553
No 174
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=22.77 E-value=6.8e+02 Score=23.93 Aligned_cols=88 Identities=11% Similarity=0.052 Sum_probs=48.0
Q ss_pred CCCCHHHHHHHHHHHHhhhccC--CCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHH
Q 017966 246 GAPNEEEVLQYARVVIDCATAD--PDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQT 323 (363)
Q Consensus 246 G~a~~e~~~~a~~~ll~~~~~~--~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~ 323 (363)
++-+.+.-+++++-+++ ++ +++++++. .++.+| .|+++++++++. .++| |+...+. ..
T Consensus 203 ~~~~~~~a~~~~~~~l~---~~~~~~~~ai~~-------~~d~~A---~gvl~al~~~Gl----~~vp-Vvg~D~~--~~ 262 (330)
T PRK15395 203 AMWDTAQAKDKMDAWLS---GPNANKIEVVIA-------NNDAMA---MGAVEALKAHNK----SSIP-VFGVDAL--PE 262 (330)
T ss_pred CCcCHHHHHHHHHHHHh---hCcCCCeeEEEE-------CCchHH---HHHHHHHHhcCC----CCCe-EEeeCCC--HH
Confidence 44455544455555554 22 45665552 246677 899999998762 1567 5556553 55
Q ss_pred HHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhH
Q 017966 324 GLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 324 ~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
++..+. .|...... .-++.+..+.+++++.
T Consensus 263 ~~~~~~-----~g~~~ttv--~~~~~~~G~~a~~~l~ 292 (330)
T PRK15395 263 ALALVK-----SGAMAGTV--LNDANNQAKATFDLAK 292 (330)
T ss_pred HHHHHH-----hCCceEEE--ecCHHHHHHHHHHHHH
Confidence 555554 23212111 3466666666665543
No 175
>cd07109 ALDH_AAS00426 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like. Uncharacterized aldehyde dehydrogenase of Saccharopolyspora spinosa (AAS00426) and other similar sequences, are present in this CD.
Probab=22.76 E-value=8e+02 Score=24.85 Aligned_cols=21 Identities=14% Similarity=0.108 Sum_probs=12.3
Q ss_pred CCCcEEEEecCCcHHHHHHHH
Q 017966 208 PKGRIWTMVAGGGASVIYADT 228 (363)
Q Consensus 208 l~g~I~ii~NG~G~~~~~~D~ 228 (363)
+-|-+++|+--.-+..+++..
T Consensus 117 P~GVv~~I~P~N~P~~~~~~~ 137 (454)
T cd07109 117 PHGVTGHIIPWNYPLQITGRS 137 (454)
T ss_pred eeeEEEEECCCchHHHHHHHH
Confidence 456777777666564444433
No 176
>COG3077 RelB DNA-damage-inducible protein J [DNA replication, recombination, and repair]
Probab=22.29 E-value=1.2e+02 Score=24.20 Aligned_cols=34 Identities=12% Similarity=0.210 Sum_probs=20.5
Q ss_pred EEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhH
Q 017966 314 VRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 360 (363)
Q Consensus 314 vrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~ 360 (363)
+|+...--++|-.+|.+ .|+ ||++|++.++..+.
T Consensus 9 ~RiD~~vK~eA~~Vl~~----mGl---------t~S~airm~L~~va 42 (88)
T COG3077 9 ARIDDEVKEEATAVLEE----MGL---------TISDAIRMFLTKVA 42 (88)
T ss_pred heecHHHHHHHHHHHHH----hCC---------CHHHHHHHHHHHHH
Confidence 34444455666666664 666 66777777766543
No 177
>KOG3432 consensus Vacuolar H+-ATPase V1 sector, subunit F [Energy production and conversion]
Probab=22.26 E-value=2.2e+02 Score=23.66 Aligned_cols=37 Identities=11% Similarity=-0.088 Sum_probs=30.8
Q ss_pred CCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEec
Q 017966 238 LGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIG 278 (363)
Q Consensus 238 paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~ 278 (363)
--||+-+--..+.+++..+++-.++ -+++..||||.+
T Consensus 35 ~~Nf~vv~~~Tt~~eiedaF~~f~~----RdDIaIiLInq~ 71 (121)
T KOG3432|consen 35 EPNFLVVDSKTTVEEIEDAFKSFTA----RDDIAIILINQF 71 (121)
T ss_pred CCCEEEEeccCCHHHHHHHHHhhcc----ccCeEEEEEhHH
Confidence 3599999999999999999998876 677777777654
No 178
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=22.21 E-value=4.8e+02 Score=23.40 Aligned_cols=46 Identities=11% Similarity=0.096 Sum_probs=36.4
Q ss_pred EEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHH
Q 017966 312 IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 357 (363)
Q Consensus 312 vvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~ 357 (363)
++.+..|..=+-|..++.......|..+...|...++++.++.+.+
T Consensus 86 l~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG~~~p~~~l~~~~~~ 131 (201)
T cd02070 86 VIGTVEGDIHDIGKNLVATMLEANGFEVIDLGRDVPPEEFVEAVKE 131 (201)
T ss_pred EEEecCCccchHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHH
Confidence 5556888777888888888777899998888877788888877655
No 179
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=22.19 E-value=2.7e+02 Score=23.52 Aligned_cols=6 Identities=17% Similarity=-0.003 Sum_probs=2.7
Q ss_pred chhHHh
Q 017966 283 NFTDVA 288 (363)
Q Consensus 283 ~~~~vA 288 (363)
+..++.
T Consensus 13 D~Hd~g 18 (132)
T TIGR00640 13 DGHDRG 18 (132)
T ss_pred CccHHH
Confidence 444444
No 180
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=22.06 E-value=2.7e+02 Score=23.66 Aligned_cols=47 Identities=15% Similarity=0.109 Sum_probs=39.0
Q ss_pred EEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHH
Q 017966 312 IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 358 (363)
Q Consensus 312 vvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~ 358 (363)
|+.+.+|..=+-|..++.-.....|..+.+.|...++++.++.+.+.
T Consensus 7 l~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~~vp~e~i~~~a~~~ 53 (137)
T PRK02261 7 VLGVIGADCHAVGNKILDRALTEAGFEVINLGVMTSQEEFIDAAIET 53 (137)
T ss_pred EEEeCCCChhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHc
Confidence 56668888888888888777778999999999889999999888764
No 181
>PF08846 DUF1816: Domain of unknown function (DUF1816); InterPro: IPR014945 Q4C9H3 from SWISSPROT is associated with the IPR008213 from INTERPRO domain suggesting this protein could have a role in phycobilisomes.
Probab=22.03 E-value=58 Score=24.66 Aligned_cols=18 Identities=11% Similarity=0.006 Sum_probs=14.8
Q ss_pred ceeecCCCCCHHHHHHHH
Q 017966 338 PLEVYGPEATMTGICKQA 355 (363)
Q Consensus 338 p~~~~~~~~~~~eav~~~ 355 (363)
-+|+||+|.+.+||-..-
T Consensus 21 ctYyFGPF~s~~eA~~~~ 38 (68)
T PF08846_consen 21 CTYYFGPFDSREEAEAAL 38 (68)
T ss_pred EEEEeCCcCCHHHHHHHh
Confidence 369999999999987653
No 182
>cd04741 DHOD_1A_like Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively.
Probab=21.82 E-value=7.1e+02 Score=23.85 Aligned_cols=61 Identities=11% Similarity=0.101 Sum_probs=38.3
Q ss_pred eeccCCCCHHHHHHHHHHHHhhhccCC--CCCeEEEEe--ccc-----CC-chhHHhhhHHHHHHHHHHhhhhhhcccce
Q 017966 242 AEYSGAPNEEEVLQYARVVIDCATADP--DGRKRALLI--GGG-----IA-NFTDVATTFNGIIRALREKESKLKAARMH 311 (363)
Q Consensus 242 lD~gG~a~~e~~~~a~~~ll~~~~~~~--~v~~vlv~~--~g~-----i~-~~~~vA~~~~giv~a~~~~~~~~~~~~~p 311 (363)
+.+.|. ++.+.+.++.+.+ .. ..+++=+|+ |.. +. +.+.+ .-|++++++. .++|
T Consensus 96 vsi~g~--~~~~~~~~~~~~~----~~~~~ad~ielN~sCPn~~~~~~~~~~~~~~----~~i~~~v~~~------~~iP 159 (294)
T cd04741 96 ISVTGS--AEDIAAMYKKIAA----HQKQFPLAMELNLSCPNVPGKPPPAYDFDAT----LEYLTAVKAA------YSIP 159 (294)
T ss_pred EECCCC--HHHHHHHHHHHHh----hccccccEEEEECCCCCCCCcccccCCHHHH----HHHHHHHHHh------cCCC
Confidence 455666 7888888777654 22 678999998 431 11 22222 4466666654 3689
Q ss_pred EEEEeCC
Q 017966 312 IFVRRGG 318 (363)
Q Consensus 312 vvvrl~G 318 (363)
|++.+.-
T Consensus 160 v~vKl~p 166 (294)
T cd04741 160 VGVKTPP 166 (294)
T ss_pred EEEEeCC
Confidence 9999654
No 183
>COG3962 Acetolactate synthase [Amino acid transport and metabolism]
Probab=21.72 E-value=90 Score=32.55 Aligned_cols=32 Identities=34% Similarity=0.578 Sum_probs=27.6
Q ss_pred ccceEEEEeCCCCHHHHHHHHHhhccccCCce
Q 017966 308 ARMHIFVRRGGPNYQTGLAKMRALGEELGIPL 339 (363)
Q Consensus 308 ~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~ 339 (363)
.++|+++.=||..+..+++.|+...+.+|||+
T Consensus 229 ak~PlIvaGGGv~YS~A~~~L~af~E~~~iPv 260 (617)
T COG3962 229 AKKPLIVAGGGVLYSGAREALRAFAETHGIPV 260 (617)
T ss_pred cCCCEEEecCceeechHHHHHHHHHHhcCCce
Confidence 46899999999888888888877777899998
No 184
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=21.52 E-value=3.1e+02 Score=25.79 Aligned_cols=63 Identities=25% Similarity=0.306 Sum_probs=0.0
Q ss_pred HHHHHHhcCCCCCCCceeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhh
Q 017966 225 YADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKE 302 (363)
Q Consensus 225 ~~D~l~~~g~gg~paN~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~ 302 (363)
..|++..+ |-......-.-++.+.+.-+++++-+|+ .+|++++++ +.++.+| -|+++++++.+
T Consensus 141 y~~Al~~~--Gl~~~~~~i~~~~~~~~~g~~~~~~ll~---~~p~idai~-------~~nd~~A---~ga~~~l~~~g 203 (279)
T PF00532_consen 141 YRDALKEA--GLPIDEEWIFEGDFDYESGYEAARELLE---SHPDIDAIF-------CANDMMA---IGAIRALRERG 203 (279)
T ss_dssp HHHHHHHT--TSCEEEEEEEESSSSHHHHHHHHHHHHH---TSTT-SEEE-------ESSHHHH---HHHHHHHHHTT
T ss_pred HHHHHHHc--CCCCCcccccccCCCHHHHHHHHHHHHh---hCCCCEEEE-------EeCHHHH---HHHHHHHHHcC
No 185
>PLN02291 phospho-2-dehydro-3-deoxyheptonate aldolase
Probab=21.42 E-value=3.7e+02 Score=27.97 Aligned_cols=95 Identities=15% Similarity=0.261 Sum_probs=61.6
Q ss_pred CCcee--eccCCCCHHHHHHHHHHHHhhhccCCC-CCe-EEEEe-cccCCchhHHhhhHHHHHHHHHHhhhhhhcccceE
Q 017966 238 LGNYA--EYSGAPNEEEVLQYARVVIDCATADPD-GRK-RALLI-GGGIANFTDVATTFNGIIRALREKESKLKAARMHI 312 (363)
Q Consensus 238 paN~l--D~gG~a~~e~~~~a~~~ll~~~~~~~~-v~~-vlv~~-~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pv 312 (363)
.+||+ =+|-+.+++.+.+.++.+ ||+ .-+ +-+|. +|. +.|++..=.+|++.++.+ ...|
T Consensus 298 I~NPIGvKvGPs~~pdel~~L~~~L------nP~~epGRlTLI~RmGa----~kV~~~LP~Li~aV~~~G------~~Vv 361 (474)
T PLN02291 298 VANPLGIKVSDKMDPEELVKLIEIL------NPQNKPGRLTIIVRMGA----EKLRVKLPHLIRAVRRAG------QIVT 361 (474)
T ss_pred CCCCeeEEECCCCCHHHHHHHHHHh------CCCCCCceEEEEeccch----HHHHHHHHHHHHHHHHcC------CceE
Confidence 57885 578889999888876665 443 223 33333 664 556655578888888765 2446
Q ss_pred EEE--eCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhHh
Q 017966 313 FVR--RGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 313 vvr--l~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
..| |-|++... .+|+.+.- |+++-+=|+.|.+.-++
T Consensus 362 W~cDPMHGNT~~t----------~~G~KTR~---f~~Il~Ev~~ff~vh~~ 399 (474)
T PLN02291 362 WVSDPMHGNTIKA----------PSGLKTRP---FDAIRAEVRAFFDVHEQ 399 (474)
T ss_pred EeecCCCCCceeC----------CCCccCCc---HHHHHHHHHHHHHHHHH
Confidence 666 88876332 36877753 56777777777776554
No 186
>PRK11235 bifunctional antitoxin/transcriptional repressor RelB; Provisional
Probab=21.42 E-value=1.4e+02 Score=23.23 Aligned_cols=11 Identities=9% Similarity=0.066 Sum_probs=5.2
Q ss_pred CHHHHHHHHHH
Q 017966 347 TMTGICKQAID 357 (363)
Q Consensus 347 ~~~eav~~~~~ 357 (363)
|+++|++++++
T Consensus 26 s~S~Ai~~fl~ 36 (80)
T PRK11235 26 TPSEALRLLLQ 36 (80)
T ss_pred CHHHHHHHHHH
Confidence 44445554444
No 187
>PRK01368 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=21.38 E-value=7.2e+02 Score=25.44 Aligned_cols=88 Identities=13% Similarity=0.120 Sum_probs=49.2
Q ss_pred eeeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 017966 241 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 320 (363)
Q Consensus 241 ~lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~ 320 (363)
|+|=++..+++.+..+++.+ ++ ++.+.||.....+. +-+...++ ++ ..+.+-|..
T Consensus 322 ~i~DS~atN~~a~~~al~~~------~~-----i~lI~Gg~dk~~~~----~~L~~~~~---------~v-~~v~~~g~~ 376 (454)
T PRK01368 322 FYNDSKATNAISAVQSIKAL------DN-----IYWLAGGIPKEGGI----EEIKPYFS---------KI-KKAYFYGQA 376 (454)
T ss_pred EEECCCCCCHHHHHHHHHhc------CC-----eEEEecccCCCCCH----HHHHHHHH---------hh-cEEEEECcC
Confidence 55555667788777775544 21 45667777543322 33443332 11 233344544
Q ss_pred HHHHHHHHHhhccccCCceeecCCCCCHHHHHHHHHHHhHh
Q 017966 321 YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 361 (363)
Q Consensus 321 ~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~~~~~~~~ 361 (363)
.++=.+.+.. . .|+.. ++++++|++.+.++++.
T Consensus 377 ~~~l~~~~~~----~-~~~~~---~~~l~~Av~~a~~~a~~ 409 (454)
T PRK01368 377 KEIFANTAKN----I-VDFVI---CDNLEQAFDLAYKDAVG 409 (454)
T ss_pred HHHHHHHhhc----C-CCEEE---cCCHHHHHHHHHHHhcC
Confidence 4444444432 2 35554 57899999999887764
No 188
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=21.21 E-value=6.9e+02 Score=25.61 Aligned_cols=77 Identities=16% Similarity=0.293 Sum_probs=40.8
Q ss_pred EEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHhhccccCCceeecCCCCCHHHHHH
Q 017966 274 ALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICK 353 (363)
Q Consensus 274 lv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~ 353 (363)
++.-+.|.-..+. + ..++..++... .....++...- .-..+.+-|...+...|+|++..+...+|.+.+.
T Consensus 103 ~~vG~~GsGKTTt-a---akLA~~l~~~~-----g~kV~lV~~D~-~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~ 172 (428)
T TIGR00959 103 LMVGLQGSGKTTT-C---GKLAYYLKKKQ-----GKKVLLVACDL-YRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIAR 172 (428)
T ss_pred EEECCCCCcHHHH-H---HHHHHHHHHhC-----CCeEEEEeccc-cchHHHHHHHHHHHhcCCceEecCCCCCHHHHHH
Confidence 3333677666444 3 34555554211 12333333322 2222444444444568999877655577888877
Q ss_pred HHHHHhH
Q 017966 354 QAIDCIM 360 (363)
Q Consensus 354 ~~~~~~~ 360 (363)
.+++.+.
T Consensus 173 ~al~~~~ 179 (428)
T TIGR00959 173 RALEYAK 179 (428)
T ss_pred HHHHHHH
Confidence 7777654
No 189
>cd07113 ALDH_PADH_NahF Escherichia coli NAD+-dependent phenylacetaldehyde dehydrogenase PadA-like. NAD+-dependent, homodimeric, phenylacetaldehyde dehydrogenase (PADH, EC=1.2.1.39) PadA of Escherichia coli involved in the catabolism of 2-phenylethylamine, and other related sequences, are present in this CD. Also included is the Pseudomonas fluorescens ST StyD PADH involved in styrene catabolism, the Sphingomonas sp. LB126 FldD protein involved in fluorene degradation, and the Novosphingobium aromaticivorans NahF salicylaldehyde dehydrogenase involved in the NAD+-dependent conversion of salicylaldehyde to salicylate.
Probab=21.18 E-value=8.8e+02 Score=24.85 Aligned_cols=17 Identities=6% Similarity=0.274 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHhhcc
Q 017966 116 GKIGDFIMGVFAVFQDL 132 (363)
Q Consensus 116 ~~l~~~l~~L~~l~~~~ 132 (363)
+.-+++|.++.+++.+.
T Consensus 60 ~~R~~~L~~~a~~l~~~ 76 (477)
T cd07113 60 AERGRILLRLADLIEQH 76 (477)
T ss_pred HHHHHHHHHHHHHHHHC
Confidence 34456666777776655
No 190
>PF03610 EIIA-man: PTS system fructose IIA component; InterPro: IPR004701 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The Man family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for IIA and IIB components.; GO: 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016021 integral to membrane; PDB: 3GDW_B 2JZN_A 1VSQ_A 2JZO_B 1VRC_A 1PDO_A 3GX1_A 3B48_B 3BED_B 3IPR_C ....
Probab=21.17 E-value=4.4e+02 Score=21.18 Aligned_cols=97 Identities=18% Similarity=0.096 Sum_probs=58.4
Q ss_pred EEEEecCCcHHHHHHHHHHhcCCCCC-CCce--eeccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe-cccCCchhHH
Q 017966 212 IWTMVAGGGASVIYADTVGDLGYASE-LGNY--AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTDV 287 (363)
Q Consensus 212 I~ii~NG~G~~~~~~D~l~~~g~gg~-paN~--lD~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~-~g~i~~~~~v 287 (363)
|-+++-| .++--..+.+... -|+ +.|+ +++--+-+.+.+.+.++-.++. -+..+.++|.. .+|.++|...
T Consensus 2 iii~sHG-~~A~g~~~~~~~i--~G~~~~~i~~~~~~~~~~~~~~~~~l~~~i~~---~~~~~~vlil~Dl~ggsp~n~a 75 (116)
T PF03610_consen 2 IIIASHG-SLAEGLLESAEMI--LGEDQDNIEAVDLYPDESIEDFEEKLEEAIEE---LDEGDGVLILTDLGGGSPFNEA 75 (116)
T ss_dssp EEEEEET-THHHHHHHHHHHH--HTSTCSSEEEEEETTTSCHHHHHHHHHHHHHH---CCTTSEEEEEESSTTSHHHHHH
T ss_pred EEEEECc-HHHHHHHHHHHHH--cCCCcccEEEEECcCCCCHHHHHHHHHHHHHh---ccCCCcEEEEeeCCCCccchHH
Confidence 4566777 7888888998886 455 5554 5555556777777777766651 34467788887 4455555443
Q ss_pred hhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHh
Q 017966 288 ATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRA 330 (363)
Q Consensus 288 A~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~~l~~ 330 (363)
+ +... +.|.+-.+.|-|.---.+.+..
T Consensus 76 ~----------~~~~------~~~~~~vi~G~Nlpmlle~~~~ 102 (116)
T PF03610_consen 76 A----------RLLL------DKPNIRVISGVNLPMLLEALMA 102 (116)
T ss_dssp H----------HHHC------TSTTEEEEES--HHHHHHHHHH
T ss_pred H----------HHhc------cCCCEEEEecccHHHHHHHHHH
Confidence 3 1211 1222445778887777777753
No 191
>COG1181 DdlA D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]
Probab=21.10 E-value=4e+02 Score=26.13 Aligned_cols=45 Identities=4% Similarity=-0.077 Sum_probs=29.8
Q ss_pred eEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCC
Q 017966 11 LVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL 66 (363)
Q Consensus 11 GV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~ 66 (363)
|+..+.+.++.+.+.+..... =+.+++|+.+. ++|+=+++..+..
T Consensus 157 g~~~v~~~~d~~~~~e~a~~~----------d~~vl~e~~~~-~rei~v~vl~~~~ 201 (317)
T COG1181 157 GRSPVNVEGDLQSALELAFKY----------DRDVLREQGIT-GREIEVGVLGNDY 201 (317)
T ss_pred eEEEeeeccchHHHHHHHHHh----------CCceeeccCCC-cceEEEEecCCcc
Confidence 444555666666544433321 14688999998 8999999998854
No 192
>cd07110 ALDH_F10_BADH Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like. Present in this CD are the Arabidopsis betaine aldehyde dehydrogenase (BADH) 1 (chloroplast) and 2 (mitochondria), also known as, aldehyde dehydrogenase family 10 member A8 and aldehyde dehydrogenase family 10 member A9, respectively, and are putative dehydration- and salt-inducible BADHs (EC 1.2.1.8) that catalyze the oxidation of betaine aldehyde to the compatible solute glycine betaine.
Probab=20.98 E-value=8.8e+02 Score=24.57 Aligned_cols=19 Identities=0% Similarity=0.095 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHhhccC
Q 017966 115 RGKIGDFIMGVFAVFQDLD 133 (363)
Q Consensus 115 ~~~l~~~l~~L~~l~~~~d 133 (363)
.+.=.++|.++.+++.+..
T Consensus 40 ~~~R~~~L~~~a~~l~~~~ 58 (456)
T cd07110 40 GAERAKYLRAIAEGVRERR 58 (456)
T ss_pred HHHHHHHHHHHHHHHHHhH
Confidence 3445667777777776553
No 193
>PF03851 UvdE: UV-endonuclease UvdE; InterPro: IPR004601 Schizosaccharomyces pombe ultraviolet damage endonuclease (UVDE or Uve1p) performs the initial step in an alternative excision repair pathway for UV-induced DNA damage. This DNA repair pathway was originally thought to be specific for UV damage, however Uve1p also recognises UV-induced bipyrimidine photoadducts and other non-UV-induced DNA adducts []. The Deinococcus radiodurans UVSE protein has also shown to be a UV DNA damage endonuclease that catalyzes repair of UV-induced DNA damage by a similar mechanism [].; GO: 0004519 endonuclease activity, 0006289 nucleotide-excision repair, 0009411 response to UV; PDB: 3BZG_A 3BZJ_A 3C0L_A 3C0S_A 3C0Q_A.
Probab=20.79 E-value=6.3e+02 Score=24.35 Aligned_cols=93 Identities=17% Similarity=0.246 Sum_probs=42.3
Q ss_pred CCceeeccCCCCHHHHHHHHHHH------HhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccce
Q 017966 238 LGNYAEYSGAPNEEEVLQYARVV------IDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMH 311 (363)
Q Consensus 238 paN~lD~gG~a~~e~~~~a~~~l------l~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~p 311 (363)
|.-|. +-+.+.++.+.++++.+ |+.+.-++....++++|.||.-..-+- +.+.+++.++..... .+.-
T Consensus 107 P~qf~-vLnSp~~~Vv~~si~~L~yH~~~Ld~mg~~~~~~~~i~IH~GG~YgdK~~--al~RF~~~~~~L~~~---ir~r 180 (275)
T PF03851_consen 107 PDQFT-VLNSPREEVVENSIRDLEYHARLLDLMGLDDSPDHKINIHVGGVYGDKEA--ALERFIENFKRLPES---IRKR 180 (275)
T ss_dssp --TT---TT-SSHHHHHHHHHHHHHHHHHHHHTT-TT----EEEEE----SS-HHH--HHHHHHHHHHT--HH---HHTT
T ss_pred CCcce-eCCCCCHHHHHHHHHHHHHHHHHHHHcCCCcccccEEEEeeCCCCCChHH--HHHHHHHHHhhCCHh---hhhc
Confidence 77776 45678899999998875 555655555457888887776543332 236666666554322 1222
Q ss_pred EEEEe--CCCCHHHHHHHHHhhccccCCcee
Q 017966 312 IFVRR--GGPNYQTGLAKMRALGEELGIPLE 340 (363)
Q Consensus 312 vvvrl--~G~~~~~~~~~l~~~~~~~Gip~~ 340 (363)
+++== -..+.++-+.+-+ +.|||+.
T Consensus 181 L~lENDd~~yt~~d~L~ic~----~~giP~V 207 (275)
T PF03851_consen 181 LTLENDDKTYTVEDVLPICE----KLGIPMV 207 (275)
T ss_dssp EEEE--SSS--HHHHHHHHH----HHT--EE
T ss_pred EEEecCCCccCHHHHHHHHH----HhCCCEE
Confidence 44421 1234555555555 5899974
No 194
>PRK00885 phosphoribosylamine--glycine ligase; Provisional
Probab=20.78 E-value=7.5e+02 Score=24.71 Aligned_cols=29 Identities=17% Similarity=0.120 Sum_probs=18.7
Q ss_pred HHHHHHHHhhccccCCceeecCCCCCHHHHHHH
Q 017966 322 QTGLAKMRALGEELGIPLEVYGPEATMTGICKQ 354 (363)
Q Consensus 322 ~~~~~~l~~~~~~~Gip~~~~~~~~~~~eav~~ 354 (363)
...++.|++ +|||+-.|...++++++...
T Consensus 104 ~~~k~~l~~----~gip~p~~~~~~~~~~~~~~ 132 (420)
T PRK00885 104 AFAKDFMAR----YGIPTAAYETFTDAEEALAY 132 (420)
T ss_pred HHHHHHHHH----cCCCCCCeEEeCCHHHHHHH
Confidence 334556664 89998666556788776543
No 195
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=20.54 E-value=3.1e+02 Score=25.66 Aligned_cols=65 Identities=15% Similarity=0.125 Sum_probs=42.2
Q ss_pred CCCHHHHHHHHHHHHhhhccCCCCCeEEEEecccCCchhHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHH
Q 017966 247 APNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLA 326 (363)
Q Consensus 247 ~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~~g~i~~~~~vA~~~~giv~a~~~~~~~~~~~~~pvvvrl~G~~~~~~~~ 326 (363)
..+++.+.++++-+ . +++.++||+-+. .+ ++ -.+++.+++. ..+||+. .|..-.+.
T Consensus 164 ~i~p~~i~~~~~~~-~----~~~aDAifisCT-nL-rt-------~~vi~~lE~~------lGkPVls----SNqat~W~ 219 (239)
T TIGR02990 164 RISPDCIVEAALAA-F----DPDADALFLSCT-AL-RA-------ATCAQRIEQA------IGKPVVT----SNQATAWR 219 (239)
T ss_pred ecCHHHHHHHHHHh-c----CCCCCEEEEeCC-Cc-hh-------HHHHHHHHHH------HCCCEEE----HHHHHHHH
Confidence 46788888877665 3 788999987532 22 11 2244445443 3689886 57778899
Q ss_pred HHHhhccccCCce
Q 017966 327 KMRALGEELGIPL 339 (363)
Q Consensus 327 ~l~~~~~~~Gip~ 339 (363)
.|+. +|++.
T Consensus 220 ~Lr~----~G~~~ 228 (239)
T TIGR02990 220 CLRL----CGDPD 228 (239)
T ss_pred HHHH----cCCCC
Confidence 9986 56654
No 196
>KOG0368 consensus Acetyl-CoA carboxylase [Lipid transport and metabolism]
Probab=20.21 E-value=3.4e+02 Score=32.63 Aligned_cols=60 Identities=15% Similarity=0.195 Sum_probs=43.8
Q ss_pred cccCccCeEEeeCCHHHHHHHHHHHhcccccccCCceeeeEEEEeeecCCCceEEEEEEEeCCCCeEEEe
Q 017966 4 GKRGKSGLVALNLDLAQVAEFVKGRLGTEVEMGGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 73 (363)
Q Consensus 4 GgRGKaGGV~l~~~~eea~~aa~~ll~~~~~~~~~~~~v~gvLVe~~~~~~~E~ylgi~~D~~~p~ii~s 73 (363)
||-|| |++-+.+.|+....+++..+.. |..+ +.|-+-....+-+=+.+.-|..+-+|.+.
T Consensus 249 GGGGK--GIRkv~n~ddF~~lf~qv~~Ev-----PGSP---IFlMK~a~~ARHlEVQlLaDqYGn~IsLf 308 (2196)
T KOG0368|consen 249 GGGGK--GIRKVENEDDFKALFKQVQNEV-----PGSP---IFLMKLADQARHLEVQLLADQYGNVISLF 308 (2196)
T ss_pred CCCCc--ceeeccchHHHHHHHHHHHhhC-----CCCc---eeeeecccCcceeeeehhhhhcCCEeEee
Confidence 55555 8999999999999988886533 3333 45666667777777888999988887655
No 197
>PLN02591 tryptophan synthase
Probab=20.03 E-value=7.5e+02 Score=23.36 Aligned_cols=29 Identities=14% Similarity=0.142 Sum_probs=19.3
Q ss_pred ccCCCCHHHHHHHHHHHHhhhccCCCCCeEEEEe
Q 017966 244 YSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 277 (363)
Q Consensus 244 ~gG~a~~e~~~~a~~~ll~~~~~~~~v~~vlv~~ 277 (363)
..|+|+.+...+.++.+.+ ..+|.+=+=+
T Consensus 9 ~aG~P~~e~~~~~~~~l~~-----~Gad~iElGi 37 (250)
T PLN02591 9 TAGDPDLDTTAEALRLLDA-----CGADVIELGV 37 (250)
T ss_pred eCCCCCHHHHHHHHHHHHH-----CCCCEEEECC
Confidence 4578888888887777653 5666554444
Done!