Query 020234
Match_columns 329
No_of_seqs 166 out of 1254
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 08:06:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020234.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020234hhsearch_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 4.4E-88 9.4E-93 661.0 33.4 324 2-325 96-419 (423)
2 COG0045 SucC Succinyl-CoA synt 100.0 6.4E-81 1.4E-85 597.3 31.1 291 3-327 85-386 (387)
3 PLN00124 succinyl-CoA ligase [ 100.0 1E-73 2.3E-78 564.9 31.9 287 6-326 126-421 (422)
4 PRK14046 malate--CoA ligase su 100.0 4.1E-69 8.9E-74 530.1 32.3 290 5-328 90-388 (392)
5 KOG1447 GTP-specific succinyl- 100.0 3.2E-68 7E-73 486.7 22.9 286 5-324 116-410 (412)
6 TIGR01016 sucCoAbeta succinyl- 100.0 2.3E-62 4.9E-67 481.9 31.5 285 5-325 90-385 (386)
7 KOG2799 Succinyl-CoA synthetas 100.0 1.1E-61 2.5E-66 457.1 8.5 289 2-324 116-414 (434)
8 PRK00696 sucC succinyl-CoA syn 100.0 4.8E-55 1E-59 430.2 32.7 287 6-326 91-386 (388)
9 PF08442 ATP-grasp_2: ATP-gras 99.9 7E-28 1.5E-32 217.7 11.2 110 1-110 85-202 (202)
10 KOG1254 ATP-citrate lyase [Ene 99.9 6E-25 1.3E-29 214.9 -0.8 317 2-320 123-488 (600)
11 PF00549 Ligase_CoA: CoA-ligas 99.8 7.9E-19 1.7E-23 152.0 9.0 123 181-323 1-152 (153)
12 TIGR02717 AcCoA-syn-alpha acet 99.6 4.4E-15 9.6E-20 149.2 16.3 128 175-326 295-445 (447)
13 PF13549 ATP-grasp_5: ATP-gras 99.4 2.6E-12 5.7E-17 117.9 10.3 113 6-124 95-222 (222)
14 COG1042 Acyl-CoA synthetase (N 99.2 1.3E-10 2.9E-15 120.1 12.9 128 175-326 299-449 (598)
15 PLN02522 ATP citrate (pro-S)-l 97.5 0.0011 2.4E-08 69.2 13.1 126 175-324 167-313 (608)
16 PTZ00187 succinyl-CoA syntheta 97.4 0.0027 5.8E-08 61.5 12.9 128 175-326 169-314 (317)
17 PF13607 Succ_CoA_lig: Succiny 97.3 0.0032 6.8E-08 53.9 10.6 90 176-285 2-91 (138)
18 COG0074 SucD Succinyl-CoA synt 97.3 0.0031 6.6E-08 59.8 11.0 134 166-327 134-291 (293)
19 PRK06091 membrane protein FdrA 97.2 0.0036 7.7E-08 64.6 11.5 120 174-326 192-317 (555)
20 TIGR02717 AcCoA-syn-alpha acet 96.8 0.018 3.9E-07 58.3 13.0 126 175-325 150-288 (447)
21 PLN00125 Succinyl-CoA ligase [ 96.8 0.029 6.4E-07 54.0 13.3 128 175-327 150-296 (300)
22 TIGR01019 sucCoAalpha succinyl 96.6 0.034 7.3E-07 53.2 12.2 124 175-323 143-284 (286)
23 PRK05678 succinyl-CoA syntheta 96.1 0.1 2.2E-06 50.0 12.7 127 175-326 145-289 (291)
24 TIGR00640 acid_CoA_mut_C methy 94.0 0.5 1.1E-05 40.0 9.3 95 208-326 34-128 (132)
25 KOG1255 Succinyl-CoA synthetas 93.4 0.16 3.5E-06 47.3 5.7 100 170-286 171-273 (329)
26 PRK02261 methylaspartate mutas 93.3 1.2 2.6E-05 37.9 10.5 99 206-328 33-137 (137)
27 PF02601 Exonuc_VII_L: Exonucl 90.2 4.4 9.5E-05 38.9 11.8 122 175-324 14-144 (319)
28 cd02071 MM_CoA_mut_B12_BD meth 90.0 4.7 0.0001 33.2 10.3 102 191-321 19-120 (122)
29 PRK06091 membrane protein FdrA 89.5 3 6.4E-05 43.5 10.4 102 205-326 373-494 (555)
30 cd02072 Glm_B12_BD B12 binding 88.3 8 0.00017 32.7 10.6 92 206-321 29-126 (128)
31 COG0616 SppA Periplasmic serin 86.7 2.8 6E-05 40.7 7.9 59 213-286 79-139 (317)
32 PRK10949 protease 4; Provision 85.6 2.6 5.7E-05 44.6 7.6 62 212-287 345-408 (618)
33 COG1042 Acyl-CoA synthetase (N 85.6 0.17 3.7E-06 53.2 -1.2 52 6-62 543-595 (598)
34 cd07014 S49_SppA Signal peptid 85.4 5.6 0.00012 34.8 8.5 73 209-295 17-91 (177)
35 cd00578 L-fuc_L-ara-isomerases 85.3 18 0.00038 36.6 13.2 116 177-313 2-138 (452)
36 TIGR01501 MthylAspMutase methy 84.4 17 0.00036 30.9 10.6 95 206-324 31-131 (134)
37 COG2185 Sbm Methylmalonyl-CoA 83.2 22 0.00048 30.7 10.9 94 208-326 44-138 (143)
38 COG0075 Serine-pyruvate aminot 82.7 8.5 0.00018 38.5 9.4 98 169-288 74-178 (383)
39 TIGR00705 SppA_67K signal pept 82.1 4.5 9.7E-05 42.6 7.5 64 213-290 328-393 (584)
40 cd07019 S49_SppA_1 Signal pept 81.6 8 0.00017 35.0 8.2 72 211-294 18-89 (211)
41 cd07018 S49_SppA_67K_type Sign 80.6 7.2 0.00016 35.6 7.6 60 211-284 26-87 (222)
42 COG0329 DapA Dihydrodipicolina 78.0 27 0.00059 33.5 10.9 103 212-327 20-128 (299)
43 cd00952 CHBPH_aldolase Trans-o 76.5 32 0.00068 33.1 11.0 103 211-327 23-132 (309)
44 PLN02417 dihydrodipicolinate s 76.1 36 0.00077 32.2 11.1 107 206-326 11-124 (280)
45 TIGR02313 HpaI-NOT-DapA 2,4-di 75.0 38 0.00083 32.2 11.0 108 206-327 10-124 (294)
46 TIGR00683 nanA N-acetylneurami 74.0 45 0.00097 31.7 11.2 109 206-327 10-125 (290)
47 cd00394 Clp_protease_like Case 73.4 26 0.00055 29.8 8.6 61 214-291 11-73 (161)
48 cd07023 S49_Sppa_N_C Signal pe 73.4 24 0.00052 31.6 8.8 68 212-293 15-84 (208)
49 cd00950 DHDPS Dihydrodipicolin 73.3 46 0.001 31.2 11.1 108 206-326 10-123 (284)
50 PRK04147 N-acetylneuraminate l 73.2 44 0.00096 31.7 11.0 109 206-327 13-128 (293)
51 TIGR00706 SppA_dom signal pept 73.1 20 0.00044 32.2 8.2 63 214-291 13-77 (207)
52 PRK12815 carB carbamoyl phosph 70.2 12 0.00027 42.2 7.3 32 7-38 200-231 (1068)
53 PRK03170 dihydrodipicolinate s 70.1 58 0.0013 30.7 11.0 109 206-327 11-125 (292)
54 cd00408 DHDPS-like Dihydrodipi 70.1 62 0.0013 30.2 11.1 109 207-327 8-121 (281)
55 PF00701 DHDPS: Dihydrodipicol 69.3 87 0.0019 29.4 12.0 109 206-326 11-124 (289)
56 COG1992 Uncharacterized conser 68.7 21 0.00046 32.0 7.0 21 305-327 159-179 (181)
57 TIGR00674 dapA dihydrodipicoli 68.6 72 0.0016 30.0 11.3 109 206-327 8-122 (285)
58 PRK03620 5-dehydro-4-deoxygluc 68.3 66 0.0014 30.7 11.0 108 206-327 17-130 (303)
59 TIGR00514 accC acetyl-CoA carb 67.8 37 0.0008 34.1 9.6 30 9-38 195-224 (449)
60 PRK00286 xseA exodeoxyribonucl 66.9 40 0.00088 33.9 9.7 120 175-323 135-260 (438)
61 TIGR00237 xseA exodeoxyribonuc 66.3 45 0.00098 33.7 9.8 120 175-322 129-254 (432)
62 PRK08591 acetyl-CoA carboxylas 65.2 23 0.00051 35.4 7.6 30 9-38 195-224 (451)
63 COG1090 Predicted nucleoside-d 63.2 12 0.00027 35.8 4.8 143 161-323 145-295 (297)
64 cd07022 S49_Sppa_36K_type Sign 62.4 68 0.0015 28.9 9.4 65 211-290 22-88 (214)
65 cd00954 NAL N-Acetylneuraminic 61.5 1.4E+02 0.0031 28.1 11.8 110 206-327 10-125 (288)
66 TIGR03249 KdgD 5-dehydro-4-deo 59.3 1.2E+02 0.0027 28.7 11.0 108 206-327 15-128 (296)
67 PRK06019 phosphoribosylaminoim 57.2 40 0.00088 33.0 7.5 30 9-38 171-200 (372)
68 cd00951 KDGDH 5-dehydro-4-deox 55.8 1.6E+02 0.0034 27.9 11.0 108 206-327 10-123 (289)
69 cd06288 PBP1_sucrose_transcrip 55.6 1.4E+02 0.0031 26.5 10.4 119 176-325 117-244 (269)
70 PRK14188 bifunctional 5,10-met 54.9 1.5E+02 0.0032 28.6 10.7 102 208-319 67-200 (296)
71 cd07021 Clp_protease_NfeD_like 54.0 55 0.0012 29.0 7.1 58 218-293 17-76 (178)
72 PRK14194 bifunctional 5,10-met 52.0 1.9E+02 0.0041 28.0 10.9 103 208-320 68-202 (301)
73 PF13433 Peripla_BP_5: Peripla 51.6 37 0.00081 33.7 6.1 68 187-268 23-92 (363)
74 KOG2862 Alanine-glyoxylate ami 50.8 68 0.0015 31.5 7.5 63 169-243 86-150 (385)
75 PRK14569 D-alanyl-alanine synt 50.3 88 0.0019 29.6 8.4 23 9-32 166-188 (296)
76 PRK08462 biotin carboxylase; V 50.3 57 0.0012 32.7 7.4 29 10-38 198-226 (445)
77 PRK14571 D-alanyl-alanine synt 49.3 35 0.00076 32.2 5.4 25 9-34 162-186 (299)
78 cd02067 B12-binding B12 bindin 47.4 1.5E+02 0.0031 23.7 10.1 99 191-321 19-117 (119)
79 cd06270 PBP1_GalS_like Ligand 46.6 2.1E+02 0.0047 25.5 10.3 125 175-328 116-246 (268)
80 cd07013 S14_ClpP Caseinolytic 45.0 65 0.0014 27.8 6.1 66 214-297 12-79 (162)
81 cd07020 Clp_protease_NfeD_1 No 45.0 91 0.002 27.5 7.1 61 216-294 15-80 (187)
82 TIGR00705 SppA_67K signal pept 44.8 82 0.0018 33.2 7.8 54 214-282 76-133 (584)
83 PRK10949 protease 4; Provision 44.2 48 0.001 35.3 6.0 51 216-281 97-151 (618)
84 cd06300 PBP1_ABC_sugar_binding 44.0 1.3E+02 0.0029 26.9 8.3 57 210-285 163-219 (272)
85 COG4981 Enoyl reductase domain 43.5 2.2E+02 0.0047 30.1 10.2 142 173-328 30-174 (717)
86 cd02810 DHOD_DHPD_FMN Dihydroo 43.2 1.6E+02 0.0035 27.5 8.9 62 209-286 104-173 (289)
87 COG2185 Sbm Methylmalonyl-CoA 42.3 50 0.0011 28.5 4.7 46 278-323 15-61 (143)
88 PF03709 OKR_DC_1_N: Orn/Lys/A 42.2 60 0.0013 26.4 5.1 88 219-327 26-114 (115)
89 PRK14573 bifunctional D-alanyl 42.1 1.2E+02 0.0026 33.2 8.8 25 9-33 647-671 (809)
90 PRK05586 biotin carboxylase; V 42.0 1.8E+02 0.004 29.1 9.6 30 9-38 195-224 (447)
91 TIGR01161 purK phosphoribosyla 41.9 1.6E+02 0.0035 28.3 9.0 29 10-38 170-198 (352)
92 PF00885 DMRL_synthase: 6,7-di 41.4 1.3E+02 0.0027 25.9 7.1 110 190-326 24-139 (144)
93 COG3693 XynA Beta-1,4-xylanase 40.3 1.8E+02 0.0038 28.7 8.6 98 203-307 157-255 (345)
94 COG0299 PurN Folate-dependent 40.0 1.8E+02 0.0039 26.5 8.1 48 257-313 14-61 (200)
95 COG5012 Predicted cobalamin bi 39.5 1.7E+02 0.0036 27.2 8.0 94 205-326 133-226 (227)
96 KOG3019 Predicted nucleoside-d 38.4 51 0.0011 31.1 4.5 126 177-322 178-314 (315)
97 cd00953 KDG_aldolase KDG (2-ke 38.3 3.4E+02 0.0074 25.5 11.3 102 207-326 11-120 (279)
98 cd06302 PBP1_LsrB_Quorum_Sensi 37.9 3.1E+02 0.0066 25.3 9.9 123 176-326 124-253 (298)
99 cd07016 S14_ClpP_1 Caseinolyti 37.6 1.4E+02 0.0031 25.2 7.0 64 214-295 15-78 (160)
100 cd01575 PBP1_GntR Ligand-bindi 37.3 2.7E+02 0.0058 24.6 9.1 107 193-328 140-246 (268)
101 PF07478 Dala_Dala_lig_C: D-al 37.1 1.7E+02 0.0038 26.2 7.8 23 9-32 70-92 (203)
102 PRK07178 pyruvate carboxylase 36.6 2.7E+02 0.0058 28.3 9.9 29 10-38 195-223 (472)
103 PRK08463 acetyl-CoA carboxylas 35.2 2.9E+02 0.0062 28.2 9.9 31 9-39 195-225 (478)
104 PRK11778 putative inner membra 34.9 71 0.0015 31.3 5.1 42 237-288 124-167 (330)
105 PF03851 UvdE: UV-endonuclease 34.8 2.5E+02 0.0053 26.9 8.6 93 204-306 107-207 (275)
106 PF02782 FGGY_C: FGGY family o 34.7 2E+02 0.0044 24.7 7.7 85 233-322 104-192 (198)
107 PRK15395 methyl-galactoside AB 34.7 4E+02 0.0087 25.2 10.7 86 212-326 203-292 (330)
108 PF00448 SRP54: SRP54-type pro 34.5 3.2E+02 0.007 24.3 9.0 78 238-326 3-80 (196)
109 PF13407 Peripla_BP_4: Peripla 33.5 3.2E+02 0.0069 24.2 9.0 119 176-325 123-249 (257)
110 TIGR00640 acid_CoA_mut_C methy 33.5 1.4E+02 0.003 25.1 6.1 6 249-254 13-18 (132)
111 COG4231 Indolepyruvate ferredo 33.4 6.4E+02 0.014 27.1 12.2 34 164-198 234-269 (640)
112 cd06311 PBP1_ABC_sugar_binding 33.0 2.7E+02 0.0059 24.9 8.5 66 212-296 165-230 (274)
113 cd07110 ALDH_F10_BADH Arabidop 32.7 4.9E+02 0.011 26.1 11.1 24 82-105 41-64 (456)
114 PLN02948 phosphoribosylaminoim 32.7 3.5E+02 0.0075 28.5 10.2 30 9-38 194-223 (577)
115 TIGR01101 V_ATP_synt_F vacuola 32.5 2.5E+02 0.0055 23.2 7.3 60 205-284 34-93 (115)
116 PRK01372 ddl D-alanine--D-alan 32.4 3.7E+02 0.0081 25.0 9.6 33 9-42 170-202 (304)
117 PRK00061 ribH 6,7-dimethyl-8-r 32.4 3.4E+02 0.0073 23.6 13.1 115 187-326 30-148 (154)
118 cd04741 DHOD_1A_like Dihydroor 31.5 3.9E+02 0.0084 25.4 9.6 61 208-284 96-166 (294)
119 PRK12999 pyruvate carboxylase; 30.7 2.7E+02 0.0059 32.0 9.5 31 9-39 199-229 (1146)
120 COG0552 FtsY Signal recognitio 30.2 4.3E+02 0.0092 26.1 9.5 80 238-328 141-220 (340)
121 PRK08654 pyruvate carboxylase 30.1 6E+02 0.013 26.2 11.2 31 9-39 195-225 (499)
122 COG0541 Ffh Signal recognition 29.9 4E+02 0.0086 27.4 9.5 64 258-328 118-181 (451)
123 cd07015 Clp_protease_NfeD Nodu 29.7 1.6E+02 0.0035 26.0 6.1 44 234-290 28-76 (172)
124 COG0151 PurD Phosphoribosylami 29.1 56 0.0012 33.1 3.4 54 258-323 77-136 (428)
125 PF15609 PRTase_2: Phosphoribo 28.8 1.1E+02 0.0025 27.6 5.0 48 256-307 136-183 (191)
126 cd07113 ALDH_PADH_NahF Escheri 28.7 6.1E+02 0.013 25.7 11.0 43 224-286 213-255 (477)
127 cd06283 PBP1_RegR_EndR_KdgR_li 28.5 4.1E+02 0.0089 23.4 11.0 120 176-325 117-244 (267)
128 COG0436 Aspartate/tyrosine/aro 28.3 2.2E+02 0.0048 28.3 7.5 78 177-268 90-196 (393)
129 cd02070 corrinoid_protein_B12- 28.1 4.3E+02 0.0092 23.4 8.8 102 186-321 98-199 (201)
130 cd06319 PBP1_ABC_sugar_binding 27.9 4.3E+02 0.0094 23.5 12.5 122 175-325 125-252 (277)
131 PRK00366 ispG 4-hydroxy-3-meth 27.8 2.5E+02 0.0054 27.9 7.5 67 234-325 100-166 (360)
132 PRK04690 murD UDP-N-acetylmura 27.6 5.9E+02 0.013 25.8 10.7 93 207-323 325-417 (468)
133 PRK10727 DNA-binding transcrip 27.5 5.2E+02 0.011 24.2 10.4 118 176-325 177-303 (343)
134 cd06317 PBP1_ABC_sugar_binding 27.4 4.4E+02 0.0095 23.3 9.0 122 175-326 125-255 (275)
135 cd01304 FMDH_A Formylmethanofu 26.7 6.8E+02 0.015 26.4 10.9 98 215-328 156-294 (541)
136 cd02940 DHPD_FMN Dihydropyrimi 26.4 5.5E+02 0.012 24.3 9.7 63 208-284 104-177 (299)
137 cd02069 methionine_synthase_B1 26.3 4.9E+02 0.011 23.6 9.9 103 190-324 107-212 (213)
138 cd06291 PBP1_Qymf_like Ligand 26.3 4.6E+02 0.0099 23.2 9.1 34 277-315 175-212 (265)
139 TIGR03175 AllD ureidoglycolate 26.2 94 0.002 30.7 4.4 76 236-323 261-337 (349)
140 cd06303 PBP1_LuxPQ_Quorum_Sens 26.0 4.3E+02 0.0093 23.9 8.6 90 210-326 168-258 (280)
141 cd06319 PBP1_ABC_sugar_binding 26.0 4.7E+02 0.01 23.2 10.4 37 278-319 188-226 (277)
142 COG3933 Transcriptional antite 25.9 5.8E+02 0.013 26.3 9.8 89 205-311 110-198 (470)
143 cd07144 ALDH_ALD2-YMR170C Sacc 25.9 6.7E+02 0.015 25.4 10.7 24 82-105 68-91 (484)
144 COG0646 MetH Methionine syntha 25.8 5.6E+02 0.012 24.9 9.3 67 218-297 144-219 (311)
145 PF00532 Peripla_BP_1: Peripla 25.8 2.1E+02 0.0046 26.6 6.6 63 191-268 141-203 (279)
146 PLN02467 betaine aldehyde dehy 25.5 7.1E+02 0.015 25.6 10.9 38 233-286 228-265 (503)
147 PF00763 THF_DHG_CYH: Tetrahyd 25.2 1.2E+02 0.0027 24.7 4.3 66 177-247 31-101 (117)
148 PRK03369 murD UDP-N-acetylmura 25.1 4.7E+02 0.01 26.6 9.5 95 207-327 330-453 (488)
149 TIGR01037 pyrD_sub1_fam dihydr 24.9 5.3E+02 0.012 24.2 9.2 63 209-285 96-167 (300)
150 cd06301 PBP1_rhizopine_binding 24.7 5E+02 0.011 23.0 9.3 120 176-325 124-251 (272)
151 PRK05294 carB carbamoyl phosph 24.6 1.5E+02 0.0032 33.6 6.1 31 8-38 201-231 (1066)
152 KOG0237 Glycinamide ribonucleo 24.6 2.8E+02 0.0061 29.7 7.5 29 293-321 111-139 (788)
153 PRK07534 methionine synthase I 24.2 6E+02 0.013 24.8 9.6 82 219-325 133-227 (336)
154 PRK06524 biotin carboxylase-li 24.2 2.2E+02 0.0048 29.5 6.8 26 9-35 217-242 (493)
155 TIGR01036 pyrD_sub2 dihydrooro 24.1 6.7E+02 0.014 24.4 9.9 69 208-286 139-221 (335)
156 TIGR00877 purD phosphoribosyla 24.1 5.1E+02 0.011 25.5 9.3 20 177-197 2-21 (423)
157 PRK12419 riboflavin synthase s 24.1 4.9E+02 0.011 22.8 13.5 116 187-326 28-149 (158)
158 PRK05198 2-dehydro-3-deoxyphos 23.9 3.2E+02 0.0069 26.0 7.2 25 282-306 61-85 (264)
159 TIGR02712 urea_carbox urea car 23.8 3.4E+02 0.0073 31.4 8.7 30 9-38 193-222 (1201)
160 cd02070 corrinoid_protein_B12- 23.6 4.9E+02 0.011 23.1 8.2 46 278-323 86-131 (201)
161 COG0673 MviM Predicted dehydro 23.6 6.1E+02 0.013 23.7 10.7 122 177-326 5-141 (342)
162 PLN02331 phosphoribosylglycina 23.6 2.9E+02 0.0063 25.1 6.8 44 257-309 13-56 (207)
163 TIGR01362 KDO8P_synth 3-deoxy- 23.5 3.2E+02 0.0069 25.9 7.1 25 282-306 53-77 (258)
164 cd07131 ALDH_AldH-CAJ73105 Unc 23.3 7.8E+02 0.017 24.8 11.1 20 85-104 62-81 (478)
165 TIGR00114 lumazine-synth 6,7-d 23.3 4.7E+02 0.01 22.3 10.3 110 190-326 21-136 (138)
166 PLN02495 oxidoreductase, actin 23.0 6E+02 0.013 25.4 9.4 62 209-285 119-192 (385)
167 PRK11241 gabD succinate-semial 23.0 8.2E+02 0.018 25.0 11.2 43 224-286 218-260 (482)
168 PRK02261 methylaspartate mutas 22.9 2.7E+02 0.006 23.4 6.1 47 278-324 7-53 (137)
169 cd06281 PBP1_LacI_like_5 Ligan 22.7 4.7E+02 0.01 23.3 8.1 118 176-326 117-243 (269)
170 TIGR02990 ectoine_eutA ectoine 22.5 2.8E+02 0.006 25.8 6.6 65 213-305 164-228 (239)
171 PRK14568 vanB D-alanine--D-lac 22.5 4.7E+02 0.01 25.2 8.5 23 9-32 202-224 (343)
172 cd06289 PBP1_MalI_like Ligand- 22.4 5.3E+02 0.012 22.6 8.5 108 192-328 140-247 (268)
173 COG3816 Uncharacterized protei 22.3 1.3E+02 0.0027 26.7 3.9 48 21-68 98-150 (205)
174 cd07088 ALDH_LactADH-AldA Esch 22.3 8E+02 0.017 24.6 11.0 16 85-100 60-75 (468)
175 KOG3040 Predicted sugar phosph 22.0 1.5E+02 0.0032 27.7 4.4 63 234-305 5-67 (262)
176 cd02067 B12-binding B12 bindin 22.0 2.7E+02 0.0058 22.2 5.7 9 317-325 66-74 (119)
177 PRK12833 acetyl-CoA carboxylas 21.9 5.6E+02 0.012 25.9 9.2 25 9-33 198-222 (467)
178 COG3473 Maleate cis-trans isom 21.6 3.5E+02 0.0075 25.2 6.7 69 208-305 158-226 (238)
179 PF07287 DUF1446: Protein of u 21.6 2E+02 0.0044 28.5 5.7 30 275-304 71-100 (362)
180 TIGR01235 pyruv_carbox pyruvat 21.5 5.9E+02 0.013 29.4 10.0 30 9-38 195-224 (1143)
181 PRK13789 phosphoribosylamine-- 21.3 3.5E+02 0.0075 27.2 7.5 68 233-321 66-139 (426)
182 PF08799 PRP4: pre-mRNA proces 21.1 1.7E+02 0.0036 18.5 3.2 24 292-321 3-26 (30)
183 PF01990 ATP-synt_F: ATP synth 20.9 2.8E+02 0.0061 21.5 5.4 55 214-286 25-79 (95)
184 COG1171 IlvA Threonine dehydra 20.9 4.2E+02 0.0091 26.2 7.7 60 256-328 85-144 (347)
185 cd06298 PBP1_CcpA_like Ligand- 20.7 5.8E+02 0.013 22.4 11.0 78 175-268 116-200 (268)
186 TIGR00730 conserved hypothetic 20.5 5.9E+02 0.013 22.4 10.8 70 239-321 99-175 (178)
187 PF01740 STAS: STAS domain; I 20.3 3.2E+02 0.0069 21.4 5.8 65 236-317 48-117 (117)
188 smart00500 SFM Splicing Factor 20.2 3E+02 0.0065 18.9 4.9 31 287-323 3-33 (44)
189 cd07097 ALDH_KGSADH-YcbD Bacil 20.1 9E+02 0.02 24.4 10.9 43 224-286 207-249 (473)
190 PRK08573 phosphomethylpyrimidi 20.1 5E+02 0.011 26.2 8.4 20 305-326 429-448 (448)
191 TIGR01804 BADH glycine betaine 20.0 9E+02 0.019 24.3 10.9 43 224-286 205-247 (467)
192 TIGR02299 HpaE 5-carboxymethyl 20.0 9.2E+02 0.02 24.4 10.8 22 84-105 62-83 (488)
No 1
>PLN02235 ATP citrate (pro-S)-lyase
Probab=100.00 E-value=4.4e-88 Score=660.99 Aligned_cols=324 Identities=92% Similarity=1.465 Sum_probs=301.1
Q ss_pred CCcceeecEEEEeecCCCCceEEEEEEEeCCCCeEEEeccCCCccccccccceeeecCCCcCCCHHHHHHHHhcCChhHH
Q 020234 2 GGCKGPITTFIVEPFVPHNQEYYLSIVSDRLGCTISFSECGGIEIEENWDKVKTIFLPTEKHMTLDACAPLIATLPLEFR 81 (329)
Q Consensus 2 ~~~~~~v~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~S~~GGvdIE~~~d~i~k~~i~p~~gl~~~~~~~l~~~l~~~~~ 81 (329)
++.+|+|++|||||+++|.+||||||++||+++.|++|++||||||+.|+++.|++|||..++++++++.++.+++.+..
T Consensus 96 ~g~~G~v~~vLVEe~v~i~~E~Ylsi~~DR~~~~ii~S~~GGvdIEe~pe~i~k~~Id~~~gl~~~~~~~~~~~l~~~~~ 175 (423)
T PLN02235 96 GGCKGPITTFIVEPFVPHDQEFYLSIVSDRLGCSISFSECGGIEIEENWDKVKTIFLPTEAPLTSEICAPLIATLPLEIR 175 (423)
T ss_pred cCCCccEeEEEEEecCCCcceEEEEEEEecCCCEEEEECCCCCcccCChhHeEEEEcCCCCCCCHHHHHHHHHhCCHHHH
Confidence 35677999999999999999999999999998889999999999999999999999999999999999999999998889
Q ss_pred HHHHHHHHHHHHHhhhcCcceeeeeceeccCCceEEeeceeecCccccccccccccccccCCCCCCCCCcccccccccch
Q 020234 82 GKIGDFIMGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDE 161 (329)
Q Consensus 82 ~~~~~il~~L~~~f~e~d~~llEINPL~~~~g~~~alDaki~iDdnA~fR~~~~~~~~~~~~~~~~~~~~~e~~~~~~~e 161 (329)
+++.+++.+||++|.++||+++|||||++.+|+++|||+|++|||||+|||++.|..++||.||+|+.+|+|.++.++|+
T Consensus 176 ~~~~~~l~~Ly~~F~~~D~tllEINPLv~~dg~~~alDaK~~~DDnA~fR~~~~~~~~~f~~~fgr~~~~~E~~~~~~d~ 255 (423)
T PLN02235 176 GKIEEFIKGVFAVFQDLDFTFLEMNPFTLVDGEPYPLDMRGELDDTAAFKNFKKWGNIEFPLPFGRVMSPTESFIHGLDE 255 (423)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEecceEeeCCCEEEEEeEEcccCCCcccCHhHhhhhcccccccCCCCHHHHhhccchh
Confidence 99999999999999999999999999999889999999999999999999999898899999999999999998887776
Q ss_pred hhhccCCceEecCCCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEE
Q 020234 162 KTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRAL 241 (329)
Q Consensus 162 ~~a~~~~l~yv~l~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv 241 (329)
.+..++.+++|+|+||||||+||||++|+|||+|+++|.+|+||||+|+||+|+.++++++++++|++|++||+++++||
T Consensus 256 a~~~~l~y~~v~ldG~Ig~mvnGAGlamaTmD~I~~~G~~g~pANFlDvGG~a~~e~v~~a~~iil~~~~~~~~vk~ilv 335 (423)
T PLN02235 256 KTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATANPDGRKRAL 335 (423)
T ss_pred hhccCCceEEeCCCCeEEEEecCcHHHHHHHHHHHHcCCCCCCceeeecCCCCCHHHHHHHHHHHHhhhhcCCCCcEEEE
Confidence 55555333339999999999999999999999999974339999999999999999999999999999999999999999
Q ss_pred EeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHH
Q 020234 242 LIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQA 321 (329)
Q Consensus 242 ~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~ 321 (329)
||||||+|||+||+||+||++|++++..++++.++||||||+|||+++|+++|+++++++|+|+++|++..||++||+++
T Consensus 336 nIfGGI~rcd~VA~tf~GIi~A~~e~~~kl~~~~vpivVRl~GtN~eeG~~il~e~~~~~gl~i~~~~~~~~m~~a~~~a 415 (423)
T PLN02235 336 LIGGGIANFTDVAATFNGIIRALREKESKLKAARMHIFVRRGGPNYQKGLAKMRALGEEIGVPIEVYGPEATMTGICKQA 415 (423)
T ss_pred EEecccccchhhhhhhhHHHHHHHHhhhccccCCccEEEECCCCCHHHHHHHHHHhHHhcCCcEEEeCCCCCHHHHHHHH
Confidence 99999999999999999999999998644444679999999999999999999987777899999999899999999999
Q ss_pred HHHh
Q 020234 322 IDCI 325 (329)
Q Consensus 322 v~~~ 325 (329)
|+..
T Consensus 416 v~~~ 419 (423)
T PLN02235 416 IDYI 419 (423)
T ss_pred Hhhh
Confidence 9754
No 2
>COG0045 SucC Succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=100.00 E-value=6.4e-81 Score=597.25 Aligned_cols=291 Identities=25% Similarity=0.375 Sum_probs=265.6
Q ss_pred CcceeecEEEEeecCC-CCceEEEEEEEeCC--CCeEEEeccCCCccccc----cccceeeecCCCcCCCHHHHHHHHhc
Q 020234 3 GCKGPITTFIVEPFVP-HNQEYYLSIVSDRL--GCTISFSECGGIEIEEN----WDKVKTIFLPTEKHMTLDACAPLIAT 75 (329)
Q Consensus 3 ~~~~~v~~vlVee~~~-~~~E~Ylsi~~Dr~--~~~ii~S~~GGvdIE~~----~d~i~k~~i~p~~gl~~~~~~~l~~~ 75 (329)
-...+|++|||||+++ +.+|||+||++||+ .|++|+|++||||||++ |++|+|+.|||..|+++|++|+++..
T Consensus 85 ~~G~~v~~vlvee~~~~~~~E~Ylsiv~DR~~~~p~~~~S~eGGmDIEeVa~~~PekI~k~~idp~~g~~~~~aR~la~~ 164 (387)
T COG0045 85 IKGEPVNKVLVEEAVDIIKKEYYLSIVLDRSSRRPVLMASTEGGMDIEEVAEKTPEKIVKVSVDPLTGLRPYQARELAFK 164 (387)
T ss_pred cCCceeeEEEEEecCCCccceEEEEEEEEcCCCcEEEEEecCCCccHHHhhhhChhheeEEEeCCccCCCHHHHHHHHHH
Confidence 3445699999999999 55699999999998 47899999999999997 78999999999999999999999996
Q ss_pred CCh--hHHHHHHHHHHHHHHHhhhcCcceeeeeceec-c-CCceEEeeceeecCccccccccccccccccCCCCCCCCCc
Q 020234 76 LPL--EFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-V-NGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSS 151 (329)
Q Consensus 76 l~~--~~~~~~~~il~~L~~~f~e~d~~llEINPL~~-~-~g~~~alDaki~iDdnA~fR~~~~~~~~~~~~~~~~~~~~ 151 (329)
++. +.++++.+++.+||++|.++|++++|||||++ . +|+++|||+|++|||||+||||++ .++++. .+.+|
T Consensus 165 lgl~~~~~~~~~~ii~~Ly~~f~~~Da~lvEINPLvvt~~~g~v~aLDaKi~~DdnAlfRHp~~-~~~~d~----~~ed~ 239 (387)
T COG0045 165 LGLEGELVKQVADIIKKLYKLFVEKDATLVEINPLVVTPDGGDVLALDAKITLDDNALFRHPDL-AELRDE----SEEDP 239 (387)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEeeccEEeCCCCcEEEEeeeeeccCcccccCcch-hhhhcc----cccCh
Confidence 554 68899999999999999999999999999999 6 559999999999999999999994 345332 33444
Q ss_pred ccccccccchhhhccCCceEecCCCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccc
Q 020234 152 TESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCAT 231 (329)
Q Consensus 152 ~e~~~~~~~e~~a~~~~l~yv~l~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~ 231 (329)
. |..|++++|+||+|+||||||+||+|++|+|||++..+ ||+||||||+||+|+.+++++|++++++
T Consensus 240 ~--------e~~a~~~~l~yV~LdG~IG~ivNGAGLaMaTmDii~~~--Gg~PANFLDvGGgA~~e~v~~a~~~il~--- 306 (387)
T COG0045 240 R--------EAEASGYGLNYVELDGNIGCIVNGAGLAMATMDIVKLY--GGKPANFLDVGGGATAERVKEAFKLILS--- 306 (387)
T ss_pred h--------HHHhhhCCCceEEecCcEEEEecChhHHHHHHHHHHHc--CCCCcceeecCCCCCHHHHHHHHHHHhc---
Confidence 4 45688999999999999999999999999999999996 9999999999999999999999999999
Q ss_pred cCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCC
Q 020234 232 ADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPE 311 (329)
Q Consensus 232 ~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~ 311 (329)
||++++|||||||||++||.|| +||++|+++.+ .++|+||||.|||+++||++|+++ |+++.+ +
T Consensus 307 -d~~vk~IfVNIfGGI~rcD~vA---~GIi~Al~e~~-----~~vPlVVRL~GtN~e~Gk~iL~es----g~~i~~---~ 370 (387)
T COG0045 307 -DPNVKAIFVNIFGGITRCDEVA---EGIIAALKEVG-----VNVPLVVRLEGTNVEEGKRILAES----GLNIIA---A 370 (387)
T ss_pred -CCCccEEEEEEccCcCccHHHH---HHHHHHHHhcC-----CCCCEEEEcCCCCHHHHHHHHHHc----CCceEe---c
Confidence 9999999999999999999999 99999999986 589999999999999999999998 877765 6
Q ss_pred CCHHHHHHHHHHHhhh
Q 020234 312 ATMTGICKQAIDCIMS 327 (329)
Q Consensus 312 ~~~~~av~~~v~~~~~ 327 (329)
++|++|++++|++++.
T Consensus 371 ~~l~~aa~k~v~~~~~ 386 (387)
T COG0045 371 DDLDEAAEKAVELAKG 386 (387)
T ss_pred ccHHHHHHHHHHHhhc
Confidence 8999999999999864
No 3
>PLN00124 succinyl-CoA ligase [GDP-forming] subunit beta; Provisional
Probab=100.00 E-value=1e-73 Score=564.93 Aligned_cols=287 Identities=21% Similarity=0.329 Sum_probs=264.2
Q ss_pred eeecEEEEeecCCCCceEEEEEEEeCC--CCeEEEeccCCCcccc----ccccceeeecCCCcCCCHHHHHHHHhcCCh-
Q 020234 6 GPITTFIVEPFVPHNQEYYLSIVSDRL--GCTISFSECGGIEIEE----NWDKVKTIFLPTEKHMTLDACAPLIATLPL- 78 (329)
Q Consensus 6 ~~v~~vlVee~~~~~~E~Ylsi~~Dr~--~~~ii~S~~GGvdIE~----~~d~i~k~~i~p~~gl~~~~~~~l~~~l~~- 78 (329)
..|++|+|+|+..+.+|||+|+++||. +|++++|.+|||+||+ .|+.+.++++||..+++++++++++.+++.
T Consensus 126 ~~v~~vlv~e~~~~~~E~ylgi~~Dr~~~gpvil~s~~GGv~IEeva~~~pd~i~~~~id~~~~l~~~~a~~~~~~L~~~ 205 (422)
T PLN00124 126 KPVNKVYLCEKMSLVNEMYFAILLDRASAGPLIIACSKGGTSIEDLAEKFPEKIIKVPIDIFKGITDEDAAKVVDGLAPK 205 (422)
T ss_pred ceeceEEEEEeecCCceEEEEEEeccccCCcEEEEECCCCccHHHhhhhCchheeEEecCcCCCCCHHHHHHHHHHcCCC
Confidence 469999999999999999999999995 7999999999999995 588999999999999999999999997654
Q ss_pred -hHHHHHHHHHHHHHHHhhhcCcceeeeeceec-cCCceEEeeceeecCccccccccccccccccCCCCCCCCCcccccc
Q 020234 79 -EFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFI 156 (329)
Q Consensus 79 -~~~~~~~~il~~L~~~f~e~d~~llEINPL~~-~~g~~~alDaki~iDdnA~fR~~~~~~~~~~~~~~~~~~~~~e~~~ 156 (329)
.+.+++.+++.+||++|.++|++++|||||++ .+|+++|+|||++|||||+||||++|. ++++ ++.+|.|
T Consensus 206 ~~~~~~l~~ii~~L~~lf~~~d~~~lEINPL~vt~~G~~valDAKi~~DdnA~~R~~~~~~-~~~~----~~~~~~E--- 277 (422)
T PLN00124 206 VADRNDAIEQVKKLYKLFCKCDCTMVEINPLAETADGQLVAADAKLNFDDNAAFRQKEIFA-LRDT----SQEDPRE--- 277 (422)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCeEEEeeceEEccCCCEEEEEEEECcCCchhhcChhhhh-ccCc----ccCChhH---
Confidence 68899999999999999999999999999999 888999999999999999999999773 5333 3334443
Q ss_pred cccchhhhccCCceEecCCCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCC
Q 020234 157 HSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDG 236 (329)
Q Consensus 157 ~~~~e~~a~~~~l~yv~l~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v 236 (329)
.+|++++++||+|+||||||+||||++|+|||+|..+ ||+||||+|+||+|+.++++++++++++ ||++
T Consensus 278 -----~~a~~~~l~yv~ldG~Ig~~vnGaGlamaTmD~i~~~--Gg~pANFlD~GG~a~~~~v~~a~~ii~~----d~~v 346 (422)
T PLN00124 278 -----VAAAKADLNYIGLDGEIGCMVNGAGLAMATMDIIKLH--GGSPANFLDVGGNASEQQVVEAFKILTS----DDKV 346 (422)
T ss_pred -----HHHhhCCCceECCCCcEEEEecCchHHHHHHHHHHHc--CCCcceeeecCCCCCHHHHHHHHHHHhc----CCCC
Confidence 4588999999999999999999999999999999996 9999999999999999999999999998 9999
Q ss_pred CEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHH
Q 020234 237 RKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTG 316 (329)
Q Consensus 237 ~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~ 316 (329)
|+|||||||||++|+.|| +||++|+++.. .++||||||.|||+++|+++|+++ |+++++ ++++++
T Consensus 347 k~iliNIfGGI~~cd~iA---~gii~a~~~~~-----~~~pivvRl~Gtn~~~g~~~l~~~----~~~~~~---~~~l~~ 411 (422)
T PLN00124 347 KAILVNIFGGIMKCDVIA---SGIVNAAKQVG-----LKVPLVVRLEGTNVDQGKRILKES----GMTLIT---AEDLDD 411 (422)
T ss_pred cEEEEEecCCccchHHHH---HHHHHHHHhcC-----CCCcEEEEcCCCCHHHHHHHHHhC----CCCeEE---cCCHHH
Confidence 999999999999999999 99999999875 579999999999999999999998 988775 789999
Q ss_pred HHHHHHHHhh
Q 020234 317 ICKQAIDCIM 326 (329)
Q Consensus 317 av~~~v~~~~ 326 (329)
|++++|+++.
T Consensus 412 A~~~~v~~~~ 421 (422)
T PLN00124 412 AAEKAVKALA 421 (422)
T ss_pred HHHHHHHHhc
Confidence 9999999864
No 4
>PRK14046 malate--CoA ligase subunit beta; Provisional
Probab=100.00 E-value=4.1e-69 Score=530.12 Aligned_cols=290 Identities=24% Similarity=0.353 Sum_probs=265.8
Q ss_pred ceeecEEEEeecCCCCceEEEEEEEeCC-CCe-EEEeccCCCccccc----cccceeeecCCCcCCCHHHHHHHHhcCC-
Q 020234 5 KGPITTFIVEPFVPHNQEYYLSIVSDRL-GCT-ISFSECGGIEIEEN----WDKVKTIFLPTEKHMTLDACAPLIATLP- 77 (329)
Q Consensus 5 ~~~v~~vlVee~~~~~~E~Ylsi~~Dr~-~~~-ii~S~~GGvdIE~~----~d~i~k~~i~p~~gl~~~~~~~l~~~l~- 77 (329)
..+|++|+||+++++.+|||+|+++||. +|+ +++|.+||++||++ |++++|++|||..+++++++++++..++
T Consensus 90 g~~v~~vlVe~~~~~~~E~ylgi~~D~~~g~~v~~~s~~GGv~iEe~~~~~p~~i~~~~i~~~~~~~~~~~~~~~~~lg~ 169 (392)
T PRK14046 90 GKPVQRVYVETADPIERELYLGFVLDRKSERVRVIASARGGMEIEEIAAKEPEAIIQVVVEPAVGLQQFQAREIAFGLGL 169 (392)
T ss_pred CCeeeeEEEEEecCCCcEEEEEEEECCCCCcEEEEEeCCCCCchHHHhhhChhheEEEEcCCCCCCCHHHHHHHHHHcCC
Confidence 3579999999999999999999999998 665 66689999999986 8999999999999999999999999664
Q ss_pred -hhHHHHHHHHHHHHHHHhhhcCcceeeeeceec-cCCceEEeeceeecCccccccccccccccccCCCCCCCCCccccc
Q 020234 78 -LEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESF 155 (329)
Q Consensus 78 -~~~~~~~~~il~~L~~~f~e~d~~llEINPL~~-~~g~~~alDaki~iDdnA~fR~~~~~~~~~~~~~~~~~~~~~e~~ 155 (329)
.+..+++.+++.+||++|.++||+++|||||++ .+|+++|||+|++|||||+||||++| .++++ .+.+|+|.
T Consensus 170 ~~~~~~~~~~~~~~l~~~f~~~d~~l~EINPl~~~~~g~~~alD~k~~~Ddna~~r~~~~~-~~~~~----~~~~~~e~- 243 (392)
T PRK14046 170 DIKQVSRAVKTIMGCYRAFRDLDATMLEINPLVVTKDDRVLALDAKMSFDDNALFRRPNIA-EMRDP----SQEDPREA- 243 (392)
T ss_pred CHHHHHHHHHHHHHHHHHHHhcCcEEEEEEcceEcCCCcEEEEeeeECccCCchhcChhHH-hhcCc----ccCChhHH-
Confidence 478999999999999999999999999999999 99999999999999999999999965 46554 44566654
Q ss_pred ccccchhhhccCCceEecCCCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCC
Q 020234 156 IHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPD 235 (329)
Q Consensus 156 ~~~~~e~~a~~~~l~yv~l~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~ 235 (329)
+|++++++||+|+||||||+||+|++|+|||+|..+ ||+|+||+|+||+++++.|.++++++++ ||+
T Consensus 244 -------~a~~~~l~yv~l~G~ig~i~nGaGl~m~t~D~i~~~--gg~paNPlDlgg~a~~e~~~~aL~~ll~----Dp~ 310 (392)
T PRK14046 244 -------QAAEHGLSYVGLDGDIGCIVNGAGLAMATMDMIKLA--GGEPANFLDVGGGASPERVAKAFRLVLS----DRN 310 (392)
T ss_pred -------HHHHcCCceEccCCcEEEEeCCccHHHHHHHHHHhc--CCCCcCCEEecCCCCHHHHHHHHHHHHc----CCC
Confidence 577899999999999999999999999999999996 8999999999999999999999999999 999
Q ss_pred CCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHH
Q 020234 236 GRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMT 315 (329)
Q Consensus 236 v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~ 315 (329)
+++||+|++||+++|+++| ++|++++++.. .++||++|+.|++.++++++|+++ |+|++. +++|+
T Consensus 311 VdaVlv~i~ggi~~~~~vA---~~Ii~a~~~~~-----~~kPvvv~l~G~~~e~~~~iL~~~----Gipvf~---~~~~~ 375 (392)
T PRK14046 311 VKAILVNIFAGINRCDWVA---EGVVQAAREVG-----IDVPLVVRLAGTNVEEGRKILAES----GLPIIT---ADTLA 375 (392)
T ss_pred CCEEEEEcCCCCCCHHHHH---HHHHHHHHhcC-----CCCcEEEEcCCCCHHHHHHHHHHc----CCCeee---cCCHH
Confidence 9999999999999999999 99999988753 368999999999999999999998 999874 78999
Q ss_pred HHHHHHHHHhhhc
Q 020234 316 GICKQAIDCIMSA 328 (329)
Q Consensus 316 ~av~~~v~~~~~~ 328 (329)
+||+++|++++++
T Consensus 376 ~a~~~~v~~~~~~ 388 (392)
T PRK14046 376 EAAEKAVEAWKGA 388 (392)
T ss_pred HHHHHHHHHHhhh
Confidence 9999999999765
No 5
>KOG1447 consensus GTP-specific succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=100.00 E-value=3.2e-68 Score=486.73 Aligned_cols=286 Identities=23% Similarity=0.348 Sum_probs=265.2
Q ss_pred ceeecEEEEeecCCCCceEEEEEEEeCC--CCeEEEeccCCCccccc----cccceeeecCCCcCCCHHHHHHHHhcCCh
Q 020234 5 KGPITTFIVEPFVPHNQEYYLSIVSDRL--GCTISFSECGGIEIEEN----WDKVKTIFLPTEKHMTLDACAPLIATLPL 78 (329)
Q Consensus 5 ~~~v~~vlVee~~~~~~E~Ylsi~~Dr~--~~~ii~S~~GGvdIE~~----~d~i~k~~i~p~~gl~~~~~~~l~~~l~~ 78 (329)
.-+|++|+|.|.++|.+|-||+|.+||+ +|+++.|+.||||||.+ |++|+|.|+|...++...++.++++.+++
T Consensus 116 Gv~VnKVMvAe~~dI~RETYLaiLmDRe~NGPVlvaSP~GGmDIEaVAe~tPE~Ifk~piDI~~gi~esq~l~~Ak~L~F 195 (412)
T KOG1447|consen 116 GVKVNKVMVAEALDISRETYLAILMDRECNGPVLVASPQGGMDIEAVAESTPELIFKEPIDIFEGIKESQALRMAKNLGF 195 (412)
T ss_pred ceeeeeEEEeeccccchheeeeeeeccccCCCEEEecCCCCccHHHHhhhChHhhccccchhccCCchHHHHHHHHhccc
Confidence 3469999999999999999999999997 79999999999999975 89999999999999999999999997765
Q ss_pred --hHHHHHHHHHHHHHHHhhhcCcceeeeeceec-cCCceEEeeceeecCccccccccccccccccCCCCCCCCCccccc
Q 020234 79 --EFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESF 155 (329)
Q Consensus 79 --~~~~~~~~il~~L~~~f~e~d~~llEINPL~~-~~g~~~alDaki~iDdnA~fR~~~~~~~~~~~~~~~~~~~~~e~~ 155 (329)
....+.++-+++||.+|..-|++.+|||||+. .+|+++|+|||++|||||.|||+|+|+ ++.. .+.+|.
T Consensus 196 ~G~l~~~aA~eI~kLY~LF~avDAtQvEiNPl~ET~~G~V~cvDAK~NFDDnA~fRQKdIFa-md~~----eE~dPr--- 267 (412)
T KOG1447|consen 196 VGPLKSQAADEITKLYNLFLAVDATQVEINPLGETPEGQVVCVDAKINFDDNAEFRQKDIFA-MDDK----EENDPR--- 267 (412)
T ss_pred cCcHHHHHHHHHHHHHHHHhhhcceEEEecccccCCCceEEEEeeeccCCchHhhhhcceee-cccc----cccCch---
Confidence 68889999999999999999999999999999 999999999999999999999999874 5432 344555
Q ss_pred ccccchhhhccCCceEecCCCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCC
Q 020234 156 IHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPD 235 (329)
Q Consensus 156 ~~~~~e~~a~~~~l~yv~l~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~ 235 (329)
|.+|+++.++||-+||||+|++||+|++|+|||+|... ||+||||+|+||+...+++++|++++.+ ||.
T Consensus 268 -----EveAakynLnYigmDGNIaClVNGAGLAMATmDiIkLn--GGePANFLDvGGgV~EdqV~~Af~ilTa----DPk 336 (412)
T KOG1447|consen 268 -----EVEAAKYNLNYIGMDGNIACLVNGAGLAMATMDIIKLN--GGEPANFLDVGGGVKEDQVYQAFKILTA----DPK 336 (412)
T ss_pred -----hhhhhhcCcceeeccCceEEEEccchhhhheeeeEEec--CCCCcceeeccCcccHHHHHHHhhhhcc----CCc
Confidence 45699999999999999999999999999999999995 9999999999999999999999999998 999
Q ss_pred CCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHH
Q 020234 236 GRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMT 315 (329)
Q Consensus 236 v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~ 315 (329)
|++||||+||||.||..+| .||+.|.++.. .++|+||||.|||++++++||+.+ |+|+. +..+++
T Consensus 337 Vk~iLvNiFGGIVNCAtIA---NGiv~A~~kl~-----LnVPlVVRLEGTNV~~A~~Ilk~S----GLpI~---tA~dLd 401 (412)
T KOG1447|consen 337 VKAILVNIFGGIVNCATIA---NGIVKACRKLE-----LNVPLVVRLEGTNVQEAQKILKKS----GLPIT---TAIDLD 401 (412)
T ss_pred eeEEEEehhcceehhHhHh---hHHHHHHHhhc-----CCCcEEEEEcCCCHHHHHHHHHhc----CCcee---eccchH
Confidence 9999999999999999999 99999999986 689999999999999999999987 99987 478999
Q ss_pred HHHHHHHHH
Q 020234 316 GICKQAIDC 324 (329)
Q Consensus 316 ~av~~~v~~ 324 (329)
+|+.++|..
T Consensus 402 dAA~KAVas 410 (412)
T KOG1447|consen 402 DAAKKAVAS 410 (412)
T ss_pred HHHHHHhhc
Confidence 999998863
No 6
>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=2.3e-62 Score=481.89 Aligned_cols=285 Identities=25% Similarity=0.365 Sum_probs=258.2
Q ss_pred ceeecEEEEeecCCCCceEEEEEEEeCC--CCeEEEeccCCCccccc----cccceeeecCCCcCCCHHHHHHHHhcC--
Q 020234 5 KGPITTFIVEPFVPHNQEYYLSIVSDRL--GCTISFSECGGIEIEEN----WDKVKTIFLPTEKHMTLDACAPLIATL-- 76 (329)
Q Consensus 5 ~~~v~~vlVee~~~~~~E~Ylsi~~Dr~--~~~ii~S~~GGvdIE~~----~d~i~k~~i~p~~gl~~~~~~~l~~~l-- 76 (329)
..+|++|+||+++++.+|+|+|++.||. +|+|+||++||++||++ |+++.++.++|.+++.+++++.+...+
T Consensus 90 g~~~~~vlVEe~v~~g~E~~v~i~~d~~~~~pvi~~~~~GGv~iE~~~~~~p~~i~~~~i~p~~~~~~~~a~~~~~~l~~ 169 (386)
T TIGR01016 90 GQPVNKILIEEATDIDKEYYLSIVIDRSARCPVIMASTEGGVDIEEVAEKSPEKIIKYAIDPLTGLLPYQAREIAKKLGL 169 (386)
T ss_pred CCEeeEEEEEECccCCceEEEEEEEcCCCCceEEEEECCCCccHHHHhhhCccceEEEEcCCCcCCCHHHHHHHHHHcCC
Confidence 3568899999999999999999999985 69999999999999986 778999999999999999999988854
Q ss_pred ChhHHHHHHHHHHHHHHHhhhcCcceeeeeceec-cCCceEEeeceeecCccccccccccccccccCCCCCCCCCccccc
Q 020234 77 PLEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESF 155 (329)
Q Consensus 77 ~~~~~~~~~~il~~L~~~f~e~d~~llEINPL~~-~~g~~~alDaki~iDdnA~fR~~~~~~~~~~~~~~~~~~~~~e~~ 155 (329)
+....+++.+++.+||++|.++|++++|||||++ .+|+++|+|+|++|||||.|||+++ ..++++ ++.++.
T Consensus 170 ~~~~~~~l~~~l~~l~~~~~~~~~~~lEINPl~v~~~g~~~a~Daki~~dd~a~~r~~~~-~~~~~~----~~~~~~--- 241 (386)
T TIGR01016 170 EGELVKQVADIIKKLYQIFLEYDASLVEINPLVITKDGNLIALDAKLTIDDNALFRHPDL-EEMRDY----SQEDPR--- 241 (386)
T ss_pred CHHHHHHHHHHHHHHHHHHHhCCceEEEeeeeEEcCCCCEEEEeeeEeeccchhhhcHHH-HHhhcC----CcCChh---
Confidence 4578999999999999999999999999999999 8889999999999999999999984 344322 223333
Q ss_pred ccccchhhhccCCceEecCCCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCC
Q 020234 156 IHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPD 235 (329)
Q Consensus 156 ~~~~~e~~a~~~~l~yv~l~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~ 235 (329)
|.+|+++|++||+|+||||||+||||++|+|||++..+ |++|+||+|+||+++++.++++++++++ ||+
T Consensus 242 -----e~~~~~~~l~~v~l~G~i~~i~nG~Gl~~~t~D~~~~~--g~~~aNplDlgg~a~~~~~~~al~~l~~----dp~ 310 (386)
T TIGR01016 242 -----EVLAKQWGLNYVALDGNIGCMVNGAGLAMATMDIIKLY--GGEPANFLDVGGGASAERVREALKLVLS----DKS 310 (386)
T ss_pred -----hhHHHHcCCcEEccCCcEEEEECCccHHHHHHHHHHHc--CCCCCCcEEecCCCCHHHHHHHHHHHHc----CCC
Confidence 44688999999999999999999999999999999996 8999999999999999999999999999 999
Q ss_pred CCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccC--CceeecCCCCC
Q 020234 236 GRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELG--IPLEVYGPEAT 313 (329)
Q Consensus 236 v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~g--ip~~~~g~~~~ 313 (329)
+++||+|++||+++|+.+| ++|++++++.. .++||++|+.|++.++++++|+++ | +|+ +++
T Consensus 311 vd~ilv~i~gg~~~~~~va---~~i~~a~~~~~-----~~kPvvv~~~g~~~~~~~~~L~~~----G~~ip~-----~~~ 373 (386)
T TIGR01016 311 VKVVFINIFGGITRCDLVA---KGLVEALKEVG-----VNVPVVVRLEGTNVEEGKKILAES----GLNIIF-----ATS 373 (386)
T ss_pred CCEEEEECCCCCCCHHHHH---HHHHHHHHhcC-----CCCcEEEEeCCccHHHHHHHHHHc----CCCccc-----cCC
Confidence 9999999999999999998 99999998863 358999999899999999999998 9 776 789
Q ss_pred HHHHHHHHHHHh
Q 020234 314 MTGICKQAIDCI 325 (329)
Q Consensus 314 ~~~av~~~v~~~ 325 (329)
|++||+++|+++
T Consensus 374 ~~~Av~~~~~~~ 385 (386)
T TIGR01016 374 MEEAAEKAVEAA 385 (386)
T ss_pred HHHHHHHHHHhh
Confidence 999999999876
No 7
>KOG2799 consensus Succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=100.00 E-value=1.1e-61 Score=457.11 Aligned_cols=289 Identities=23% Similarity=0.303 Sum_probs=263.6
Q ss_pred CCcceeecEEEEeecCCCCceEEEEEEEeCC--CCeEEEeccCCCccccc----cccceeeecCCCcCCCHHHHHHHHhc
Q 020234 2 GGCKGPITTFIVEPFVPHNQEYYLSIVSDRL--GCTISFSECGGIEIEEN----WDKVKTIFLPTEKHMTLDACAPLIAT 75 (329)
Q Consensus 2 ~~~~~~v~~vlVee~~~~~~E~Ylsi~~Dr~--~~~ii~S~~GGvdIE~~----~d~i~k~~i~p~~gl~~~~~~~l~~~ 75 (329)
|...-.|+.|+|+++....+|+|+|+++||. +|.+++|.+||++||++ |+++.|.|++...||++.++..++..
T Consensus 116 G~~gk~c~~v~iC~Rk~~~~e~yFsil~dr~~k~pliIas~kgg~~ie~vae~~pdai~k~pi~~~~Gls~~~a~~v~~~ 195 (434)
T KOG2799|consen 116 GPAGKACSEVYICERKHTRAEYYFSILMDRHTKGPLIIASSKGGVNIEEVAEDTPDAIIKKPIDNNTGLSPEIACLVADK 195 (434)
T ss_pred CCCCCccceEEEeeecchhhHHHHHHHHhcccCCCEEEEeccCCccHHHHhhhCccchhcccccccCCCCHHHHHHHHhh
Confidence 4444559999999999999999999999997 69999999999999986 89999999999999999999998887
Q ss_pred CCh--hHHHHHHHHHHHHHHHhhhcCcceeeeeceec-cCC-ceEEeeceeecCccccccccccccccccCCCCCCCCCc
Q 020234 76 LPL--EFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNG-EPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSS 151 (329)
Q Consensus 76 l~~--~~~~~~~~il~~L~~~f~e~d~~llEINPL~~-~~g-~~~alDaki~iDdnA~fR~~~~~~~~~~~~~~~~~~~~ 151 (329)
|++ ....+..+.+.+||++|.+.|+|++|||||+. .++ .++|.|+|++|||||.|||..+| .+ |+.++
T Consensus 196 lgfs~~~~~~a~~~~~kly~vf~~~dat~veinpl~e~t~d~~v~c~dak~~fd~na~fRq~~iF-~~-------rd~~Q 267 (434)
T KOG2799|consen 196 LGFSPDGIRKAAKAVPKLYKVFHKSDATQVEINPLAEITSDHKVTCMDAKLNFDDNAAFRQKKIF-LL-------RDLSQ 267 (434)
T ss_pred cCCCcccHHHHHHHHHHHHHHHhhccceeEEecchhhcccCceeeechhhhcccccHHHHhhhhh-hc-------cchhh
Confidence 665 68899999999999999999999999999999 655 99999999999999999999765 34 34343
Q ss_pred ccccccccchhhhccCCceEecCCCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccc
Q 020234 152 TESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCAT 231 (329)
Q Consensus 152 ~e~~~~~~~e~~a~~~~l~yv~l~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~ 231 (329)
++. +|+.|+++++||+.|+|+|||++||+|++|+|||++..+ ||.||||+|+||+|+.|.+.++++++.+
T Consensus 268 Ed~-----re~~aak~~ln~igldG~igC~vngaglamaTmdiiklh--gg~panfldVGg~Atve~v~eaf~lits--- 337 (434)
T KOG2799|consen 268 EDP-----REVTAAKVDLNYIGLDGNIGCLVNGAGLAMATMDIIKLH--GGTPANFLDVGGGATVEQVREAFSLITS--- 337 (434)
T ss_pred cCc-----hhhhHHHhccceeccCCccceeeccchhhhhheeeeeec--CCCCcceeeeCCCCcHHHHHHHHHHHhc---
Confidence 333 566899999999999999999999999999999999996 9999999999999999999999999999
Q ss_pred cCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCC
Q 020234 232 ADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPE 311 (329)
Q Consensus 232 ~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~ 311 (329)
||.+.++|+||||||.+||-+| .|++.+.|+.. .++||++|+.||++++|+.++.++ |+.+.. +
T Consensus 338 -d~kv~ailvnifGgi~rCDvia---~Giv~aar~l~-----~~ipiv~rlqgt~v~~ak~~i~~s----gmri~~---~ 401 (434)
T KOG2799|consen 338 -DKKVMAILVNIFGGIMRCDVIA---FGIVLAARELE-----LNIPIVVRLQGTRVEAAKPIINTS----GMRIRS---F 401 (434)
T ss_pred -ChhHHHHHHHHhcCeeecccee---cchhhhhhhhh-----cCCCEEEEecCCchhhhhhhHhhc----CceEEe---c
Confidence 9999999999999999999999 99999999986 689999999999999999999998 998874 7
Q ss_pred CCHHHHHHHHHHH
Q 020234 312 ATMTGICKQAIDC 324 (329)
Q Consensus 312 ~~~~~av~~~v~~ 324 (329)
+++++|++++|+.
T Consensus 402 deldeaa~~~v~~ 414 (434)
T KOG2799|consen 402 DELDEAAKKAVGG 414 (434)
T ss_pred hhhhHHhhhhccc
Confidence 8999999996543
No 8
>PRK00696 sucC succinyl-CoA synthetase subunit beta; Provisional
Probab=100.00 E-value=4.8e-55 Score=430.22 Aligned_cols=287 Identities=25% Similarity=0.389 Sum_probs=254.7
Q ss_pred eeecEEEEeecCCCCceEEEEEEEeCC-CCeE-EEeccCCCccccccc----cceeeecCCCcCCCHHHHHHHHhc--CC
Q 020234 6 GPITTFIVEPFVPHNQEYYLSIVSDRL-GCTI-SFSECGGIEIEENWD----KVKTIFLPTEKHMTLDACAPLIAT--LP 77 (329)
Q Consensus 6 ~~v~~vlVee~~~~~~E~Ylsi~~Dr~-~~~i-i~S~~GGvdIE~~~d----~i~k~~i~p~~gl~~~~~~~l~~~--l~ 77 (329)
..+++|+||||+++.+|+|++++.|+. +|++ ++|.+||++||.+.| ++.++.++|.++++++++++++.. ++
T Consensus 91 ~~~~gvlVe~~~~~~~E~~vg~~~D~~fgpvv~~~s~~GG~~vE~~~d~~~~~~~~~~l~p~~~~~~~~a~~~~~~~~~~ 170 (388)
T PRK00696 91 QPVNKVLVEEGADIAKEYYLSIVLDRATRRVVFMASTEGGMDIEEVAEETPEKIHKVAIDPLTGLQPFQAREIAFKLGLP 170 (388)
T ss_pred CEEeEEEEEeccCCCceEEEEEEEcCCCCceEEEEeCCCCcchhhhcccCcceeEEEEcCCCCCCCHHHHHHHHHHcCCC
Confidence 468899999999999999999999998 7875 588999999998755 888999999999999999999886 55
Q ss_pred hhHHHHHHHHHHHHHHHhhhcCcceeeeeceec-cCCceEEeeceeecCccccccccccccccccCCCCCCCCCcccccc
Q 020234 78 LEFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFI 156 (329)
Q Consensus 78 ~~~~~~~~~il~~L~~~f~e~d~~llEINPL~~-~~g~~~alDaki~iDdnA~fR~~~~~~~~~~~~~~~~~~~~~e~~~ 156 (329)
..+.++++++|.+||++|.++|++++|||||.+ .+|+++|+|+|+.|||||.|||++ |..+... .+.++.
T Consensus 171 ~~~~~~l~~~l~~l~~l~~~~~~~~leiNPl~v~~~g~~~a~Dak~~ld~~a~~r~~~-~~~~~~~----~~~~~~---- 241 (388)
T PRK00696 171 GEQVKQFAKILMGLYKAFVEKDASLVEINPLVVTKDGDLIALDAKINFDDNALFRHPD-LAELRDL----SEEDPL---- 241 (388)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCccEEEEeceEECCCCcEEEEeeEEeecCCccccCHh-HHhhcCC----CcCChh----
Confidence 678999999999999999999999999999999 788899999999999999999998 5555332 222333
Q ss_pred cccchhhhccCCceEecCCCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCC
Q 020234 157 HSLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDG 236 (329)
Q Consensus 157 ~~~~e~~a~~~~l~yv~l~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v 236 (329)
|..++.++++||+|+||||||+||||++|+|+|++..+ |++|+||+|++|+++++.|+++++++++ ||++
T Consensus 242 ----e~~~~~~~~~~v~l~~~i~ii~ng~G~~~~~~D~l~~~--g~~~~NPvDl~g~~~~e~~~~aL~~l~~----d~~v 311 (388)
T PRK00696 242 ----EAEASKYGLNYVKLDGNIGCMVNGAGLAMATMDIIKLY--GGEPANFLDVGGGATAERVAEAFKIILS----DPNV 311 (388)
T ss_pred ----hhHHHhcCCcEEecCCcEEEEECCchHHHHHHHHHHHc--CCCcCCeEEecCCCCHHHHHHHHHHHhc----CCCC
Confidence 44577889999999999999999999999999999996 8999999999999999999999999998 9999
Q ss_pred CEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHH
Q 020234 237 RKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTG 316 (329)
Q Consensus 237 ~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~ 316 (329)
+++++|+++++++|+.+| ++|+++.++.. .++||++|+.|++.++++++|+++ |||+.+ |++|++
T Consensus 312 d~vlv~~~~~~~~~~~va---~~i~~~~~~~~-----~~kPvv~~~~g~~~~~~~~~L~~~----Gi~ip~---f~~pe~ 376 (388)
T PRK00696 312 KAILVNIFGGITRCDVIA---EGIIAAVKEVG-----VTVPLVVRLEGTNVELGKKILAES----GLNIIA---ADTLDD 376 (388)
T ss_pred CEEEEEeCCCCCCHHHHH---HHHHHHHHhcC-----CCCcEEEEeCCCCHHHHHHHHHHC----CCCcee---cCCHHH
Confidence 999999999999998888 99999877642 368999998889999999999998 955433 789999
Q ss_pred HHHHHHHHhh
Q 020234 317 ICKQAIDCIM 326 (329)
Q Consensus 317 av~~~v~~~~ 326 (329)
|++++.++++
T Consensus 377 A~~al~~~~~ 386 (388)
T PRK00696 377 AAQKAVEAAK 386 (388)
T ss_pred HHHHHHHHhc
Confidence 9999999874
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=99.95 E-value=7e-28 Score=217.67 Aligned_cols=110 Identities=28% Similarity=0.466 Sum_probs=95.4
Q ss_pred CCCcceeecEEEEeecCCCCceEEEEEEEeCC--CCeEEEeccCCCccccc----cccceeeecCCCcCCCHHHHHHHHh
Q 020234 1 MGGCKGPITTFIVEPFVPHNQEYYLSIVSDRL--GCTISFSECGGIEIEEN----WDKVKTIFLPTEKHMTLDACAPLIA 74 (329)
Q Consensus 1 ~~~~~~~v~~vlVee~~~~~~E~Ylsi~~Dr~--~~~ii~S~~GGvdIE~~----~d~i~k~~i~p~~gl~~~~~~~l~~ 74 (329)
||....+|++|||||++++++|||+||++||+ +|+|++|++||||||++ |+++.|++|||..|++++++++++.
T Consensus 85 tg~~G~~v~~vlvee~v~~~~E~Ylsi~~DR~~~~p~ii~S~~GGvdIEeva~~~P~~i~~~~id~~~g~~~~~~~~i~~ 164 (202)
T PF08442_consen 85 TGPKGEKVNKVLVEEFVDIKREYYLSITLDRESRGPVIIASKEGGVDIEEVAAENPEKIIKFPIDPTEGLTPYQAREIAK 164 (202)
T ss_dssp STTTEEEE--EEEEE---CCEEEEEEEEEETTTTEEEEEEESSTSSTHHHHHHHSGGGEEEEEEBTTTB--HHHHHHHHH
T ss_pred cCCCCCEeeEEEEEecCccCceEEEEEEeccCCCceEEEEeccCCccHHHHhhhChhhEEEEecCCCCCCCHHHHHHHHH
Confidence 45667789999999999999999999999998 48999999999999995 8999999999999999999999999
Q ss_pred cCCh--hHHHHHHHHHHHHHHHhhhcCcceeeeeceec
Q 020234 75 TLPL--EFRGKIGDFIMGVFAVFQDLDFSFIEMNPFTL 110 (329)
Q Consensus 75 ~l~~--~~~~~~~~il~~L~~~f~e~d~~llEINPL~~ 110 (329)
.++. +..+++.+++.+||++|.++||+++|||||++
T Consensus 165 ~lg~~~~~~~~~~~~l~~Ly~~F~~~DatllEINPL~~ 202 (202)
T PF08442_consen 165 KLGLPGKLAEQLADILKKLYRLFREYDATLLEINPLVE 202 (202)
T ss_dssp HTTS-CHHHHHHHHHHHHHHHHHHHTTEEEEEEEEEEE
T ss_pred hccccHHHHHHHHHHHHHHHHHHHHcCCcEEEecCCCC
Confidence 7654 68899999999999999999999999999984
No 10
>KOG1254 consensus ATP-citrate lyase [Energy production and conversion]
Probab=99.89 E-value=6e-25 Score=214.89 Aligned_cols=317 Identities=37% Similarity=0.464 Sum_probs=273.5
Q ss_pred CCcceeecEEEEeecCCC------CceEEEEEEEeCCCCeEEEeccCCCccccccccceeeecCCCcCC----CHHHHHH
Q 020234 2 GGCKGPITTFIVEPFVPH------NQEYYLSIVSDRLGCTISFSECGGIEIEENWDKVKTIFLPTEKHM----TLDACAP 71 (329)
Q Consensus 2 ~~~~~~v~~vlVee~~~~------~~E~Ylsi~~Dr~~~~ii~S~~GGvdIE~~~d~i~k~~i~p~~gl----~~~~~~~ 71 (329)
..+.|+.+-..|||.+++ ..|+||++.++|.+.++.||.+|||++|...++..+.-. |.+++ .++-...
T Consensus 123 ~~iiGPaTvggVePg~fkignt~g~~dnil~~klyR~Gsv~~vS~sGGmsnE~nn~isrtt~g-~~egiaiggd~~pgST 201 (600)
T KOG1254|consen 123 VGIIGPATVGGVEPGVFKIGNTGGMMDNILNSKLYRPGSVIYVSRSGGMSNELNNIISRTTDG-PYEGIAIGGDRYPGST 201 (600)
T ss_pred ceEEeeeeeccccCCccccCCCCcchhhhhhhcccCCccEEEEecCCCcchhhhhhhhheecc-ceeeeeccCCCccCch
Confidence 467899999999999996 699999999999999999999999999998766554433 23322 2355667
Q ss_pred HHhcCChhHHHHHHHHHHHHHHHhhhcCcceeeee-------ceec-cCC---ceEEeeceeecCcccccccccccc---
Q 020234 72 LIATLPLEFRGKIGDFIMGVFAVFQDLDFSFIEMN-------PFTL-VNG---EPYPLDMRGELDDTAAFKNFKKWA--- 137 (329)
Q Consensus 72 l~~~l~~~~~~~~~~il~~L~~~f~e~d~~llEIN-------PL~~-~~g---~~~alDaki~iDdnA~fR~~~~~~--- 137 (329)
++.+++..+...+.++++.|+.++.+.|.+++|+| ||+. ..| ++.-+|.....|+.+.|..-+.|.
T Consensus 202 l~dhi~r~q~~~~vk~Iv~Lgevgg~~ey~~~e~~k~g~~tkPlVaw~~gtcA~~F~~evqfghagtaa~~~~eka~akn 281 (600)
T KOG1254|consen 202 LIDHIPREQHDPLVKFIVVLGEVGGDEEYTFLEANKEGKITKPLVAWCIGTCADMFPLEVQFGHAGTAAFKNGEKAAAKN 281 (600)
T ss_pred HhhhhhhhhccChhheEEeehhhcccceeehhhhhhcCCccCCEEEEecCccccccchhhhccccchhhhcchhhhhhcc
Confidence 77778777788899999999999999999999999 9998 544 368899999999999999999898
Q ss_pred -----------------------ccccCCCCCCCCCcccccccccchhhhccCCceEecCCCcEEEEEcCC-cHHHHHHH
Q 020234 138 -----------------------NIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGG-GASVIYAD 193 (329)
Q Consensus 138 -----------------------~~~~~~~~~~~~~~~e~~~~~~~e~~a~~~~l~yv~l~g~I~ii~NG~-Glam~t~D 193 (329)
.++++-+|+|..+..|.....++++.+...+++.++..|+||++..|+ |..+.+.|
T Consensus 282 ~al~~ag~~vpesf~~l~~~i~~~~e~lv~~Grvvp~~Ev~pp~lp~d~saalklgllr~p~~i~t~Ia~~rGaeviYA~ 361 (600)
T KOG1254|consen 282 QALRDAGATVPESFDALGADIQETYEFLVPFGRVVPKTEVPPPGLPEDTSAALKLGLLRKPGRIWTSIAGGRGAEVIYAD 361 (600)
T ss_pred hhhhhccccCccchhhhhhhhccchhcccccceecCcccCCCCCCChhhhhHhhhccccCCceEEEEecCCCCceeeecC
Confidence 677777899999999999999999999999999999999999887777 99999999
Q ss_pred HHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccc-cCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhh
Q 020234 194 TVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCAT-ADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLK 272 (329)
Q Consensus 194 ~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~-~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~ 272 (329)
+....|+--+.+|+-.+++-+...++.+..+..+++|+ -.|+-+..+.-+.++|++++..++++.+|+.+|.+.+.++.
T Consensus 362 ~p~~~~~a~elG~gg~~Sllw~~~~lp~Ya~kfie~~~m~~aDhgp~Vsga~ntI~~~ra~kdl~sslv~gLltigdRfg 441 (600)
T KOG1254|consen 362 VPISLGYASELGNGGVYSLLWFQRRLPQYARKFIEICTMLTADHGPAVSGAGNTIANFRAGKDLFSSLVRGLLTIGDRFG 441 (600)
T ss_pred chhhhhhHhhccccceEccccccccchHHHHHHHHHHhhccCCCCceeEeccCceEEeccHHHHHHHHHHHHhhhhhhhc
Confidence 99887655568999999999999999999888888877 46777777777789999999999999999999999987655
Q ss_pred cccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHH
Q 020234 273 AARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQ 320 (329)
Q Consensus 273 ~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~ 320 (329)
. .+-+.+|..|+++++++.-++...+..+.|.++||..-++....+.
T Consensus 442 g-ald~aaR~f~~ayd~GL~~m~fv~~~~k~~~~V~Gighriksi~n~ 488 (600)
T KOG1254|consen 442 G-ALDIAARRFGPAYDKGLAPMRFVGKMRKVPIEVYGIGHRIKSINNP 488 (600)
T ss_pred c-hhhHHHHhcChhhhccCchHHHhhhhhCCCceecCCcceeeccCCc
Confidence 4 5778899999999999999998888889999999988887765443
No 11
>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=99.77 E-value=7.9e-19 Score=152.04 Aligned_cols=123 Identities=19% Similarity=0.277 Sum_probs=110.0
Q ss_pred EEcCCcHHHHHHHHHhccCC--------------CCCCCceeeccCCCC----------HHHHHHHHHHHhcccccCCCC
Q 020234 181 MVAGGGASVIYADTVGDLGY--------------ASELGNYAEYSGAPN----------EEEVLQYARVVIDCATADPDG 236 (329)
Q Consensus 181 i~NG~Glam~t~D~l~~~g~--------------gg~paN~lDlgG~a~----------~e~~~~a~~ill~~~~~~~~v 236 (329)
|.|||||+|-|+|++.. + |+.++||+|+||++. ++...++++.+++ ||++
T Consensus 1 l~~GgtL~~Ea~~~i~~--~~~~~~sn~~~~~~~g~~~~~~lDlGgd~~t~GrphPmid~~~~~~~l~~~~~----Dp~v 74 (153)
T PF00549_consen 1 LYNGGTLAMEAMDLISD--ALGDVYSNFKLANPLGGGPANFLDLGGDAFTQGRPHPMIDPSTRNEALEIEAA----DPEV 74 (153)
T ss_dssp EESSHHHHHHHHHHHHH--TTT------GCCEEETCTEEEEEECTSSSSHTTS--TTT-SSHHHHHHHHHHT----STTE
T ss_pred CcCcHHHHHHHHHHHHH--hhccccccccccccCCCCceeEEEeCCCcccccCcCCCcCHHHHHHHHHHHhc----CCCc
Confidence 58999999999999999 5 678999999999999 7999999999999 9999
Q ss_pred CEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHH-----HHHHHHHHhccccCCceeecCCC
Q 020234 237 RKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ-----TGLAKMRALGEELGIPLEVYGPE 311 (329)
Q Consensus 237 ~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~-----~ar~~l~~~~~~~gip~~~~g~~ 311 (329)
++||+|+++|+.+|++.| .++++++++... ..+++|||+|+.||+++ +..++|+++ |+.+ .
T Consensus 75 ~vIlvd~~~G~g~~~~~A---~~l~~a~~~~~~--~~~~~pvVa~v~GT~~dpq~~~~~~~~L~~~----G~~v-----~ 140 (153)
T PF00549_consen 75 KVILVDIVGGIGSCEDPA---AGLIPAIKEAKA--EGRKKPVVARVCGTNADPQGRMGQAGALEDA----GVIV-----A 140 (153)
T ss_dssp SEEEEEEESSSSSHHHHH---HHHHHHHSHCTH--TTT-SEEEEEEESTTCHTTSCHHHHHHHHCT----TCSC-----H
T ss_pred cEEEEEeccccCchHHHH---HHHHHHHHhccc--cCCCCcEEEEeeeecCCCCCcHHHHHHHHhC----CCcc-----c
Confidence 999999999999999999 999999888742 12579999999999999 999999998 9987 6
Q ss_pred CCHHHHHHHHHH
Q 020234 312 ATMTGICKQAID 323 (329)
Q Consensus 312 ~~~~~av~~~v~ 323 (329)
++..+|++.+..
T Consensus 141 ~s~~~A~~~A~a 152 (153)
T PF00549_consen 141 ESNAQAARAAGA 152 (153)
T ss_dssp HHHHHHHHHHTH
T ss_pred ccHHHHHHHcCC
Confidence 788888887653
No 12
>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=99.64 E-value=4.4e-15 Score=149.22 Aligned_cols=128 Identities=19% Similarity=0.244 Sum_probs=112.0
Q ss_pred CCcEEEEEcCCcHHHHHHHHHhccCCCCCC---------------------CceeeccCCCCHHHHHHHHHHHhcccccC
Q 020234 175 KGRIWTMVAGGGASVIYADTVGDLGYASEL---------------------GNYAEYSGAPNEEEVLQYARVVIDCATAD 233 (329)
Q Consensus 175 ~g~I~ii~NG~Glam~t~D~l~~~g~gg~p---------------------aN~lDlgG~a~~e~~~~a~~ill~~~~~~ 233 (329)
+.||++++|+||+++++.|.+... |.+. .||+|+++.++++.|.++++++++ |
T Consensus 295 g~rvaivs~sGG~g~l~aD~~~~~--Gl~lp~ls~~t~~~L~~~lp~~~~~~NPlDl~~~~~~~~~~~al~~l~~----d 368 (447)
T TIGR02717 295 GNRVAIITNAGGPGVIATDACEEN--GLELAELSEATKNKLRNILPPEASIKNPVDVLGDATPERYAKALKTVAE----D 368 (447)
T ss_pred CCeEEEEECCchHHHHHHHHHHHc--CCCcCCCCHHHHHHHHHhCccccccCCCEecCCCCCHHHHHHHHHHHHc----C
Confidence 678999999999999999999986 7773 499999999999999999999999 9
Q ss_pred CCCCEEEEEe-ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEE-eCCCCHHHHHHHHHHhccccCCceeecCCC
Q 020234 234 PDGRKRALLI-GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVR-RGGPNYQTGLAKMRALGEELGIPLEVYGPE 311 (329)
Q Consensus 234 ~~v~~vlv~i-~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvr-l~G~~~~~ar~~l~~~~~~~gip~~~~g~~ 311 (329)
|+++++++++ +++.++++.++ ++++++.++.. .+|++++ +||...++.++.|++. |||+ |
T Consensus 369 p~vd~Vlv~~~~~~~~~~~~~a---~~l~~~~~~~~------~KPvv~~~~gg~~~~~~~~~L~~~----Gip~-----f 430 (447)
T TIGR02717 369 ENVDGVVVVLTPTAMTDPEEVA---KGIIEGAKKSN------EKPVVAGFMGGKSVDPAKRILEEN----GIPN-----Y 430 (447)
T ss_pred CCCCEEEEEccCCccCCHHHHH---HHHHHHHHhcC------CCcEEEEecCCccHHHHHHHHHhC----CCCc-----c
Confidence 9999999988 67888888887 99998776641 4788877 6678888999999987 9998 8
Q ss_pred CCHHHHHHHHHHHhh
Q 020234 312 ATMTGICKQAIDCIM 326 (329)
Q Consensus 312 ~~~~~av~~~v~~~~ 326 (329)
.++++|++++..+.+
T Consensus 431 ~~p~~A~~al~~~~~ 445 (447)
T TIGR02717 431 TFPERAVKALSALYR 445 (447)
T ss_pred CCHHHHHHHHHHHHh
Confidence 899999999887765
No 13
>PF13549 ATP-grasp_5: ATP-grasp domain; PDB: 1WR2_A.
Probab=99.37 E-value=2.6e-12 Score=117.95 Aligned_cols=113 Identities=21% Similarity=0.309 Sum_probs=79.0
Q ss_pred eeecEEEEeecCC-CCceEEEEEEEeCC-CCeEEEeccCCCccccccccceeeecCCCcCCCHHHHHHHHhc--------
Q 020234 6 GPITTFIVEPFVP-HNQEYYLSIVSDRL-GCTISFSECGGIEIEENWDKVKTIFLPTEKHMTLDACAPLIAT-------- 75 (329)
Q Consensus 6 ~~v~~vlVee~~~-~~~E~Ylsi~~Dr~-~~~ii~S~~GGvdIE~~~d~i~k~~i~p~~gl~~~~~~~l~~~-------- 75 (329)
..+++|+||+|.+ ...|+.+++..|+. +|+|+|+ .||+.+|-..|..+ .++| ++...+++++..
T Consensus 95 ~~~~gvlVq~m~~~~g~El~vG~~~Dp~FGPvv~~G-~GG~~vE~~~D~~~--~l~P---l~~~~a~~mi~~l~~~~lL~ 168 (222)
T PF13549_consen 95 ARIDGVLVQEMAPSGGRELIVGVRRDPQFGPVVMFG-LGGIFVELLKDVAF--RLPP---LSEADAREMIRELRAYPLLR 168 (222)
T ss_dssp ----EEEEEE------EEEEEEEEEETTTEEEEEEE-E-STTHHHH---EE--EESS-----HHHHHHHHHTSTTHHHHH
T ss_pred CccceEEEEEcccCCcEEEEEEEEECCCCCCEEEEc-CCCceeeeecceEE--eeCC---CCHHHHHHHHHHHHhHHhhc
Confidence 4688999999999 89999999999998 8999999 99999999888766 6778 455565555543
Q ss_pred ----CChhHHHHHHHHHHHHHHHhhhcCc-ceeeeeceeccCCceEEeeceeec
Q 020234 76 ----LPLEFRGKIGDFIMGVFAVFQDLDF-SFIEMNPFTLVNGEPYPLDMRGEL 124 (329)
Q Consensus 76 ----l~~~~~~~~~~il~~L~~~f~e~d~-~llEINPL~~~~g~~~alDaki~i 124 (329)
.+..+.+.+.++|.+++++..+.+. ..+|||||.+..++++|+|++|.+
T Consensus 169 G~RG~p~~d~~al~~~l~~ls~l~~~~p~I~eldiNPl~v~~~g~~avDa~i~l 222 (222)
T PF13549_consen 169 GYRGRPPADLDALADLLVRLSQLAADLPEIAELDINPLIVTPDGAVAVDARIRL 222 (222)
T ss_dssp -------B-HHHHHHHHHHHHHHHHHTTTEEEEEEEEEEE-BS-EEE--EEEEE
T ss_pred ccCCCCCcCHHHHHHHHHHHHHHHHhCCCEEEEEeeceEEcCCceEEEEEEEEC
Confidence 2345889999999999999999876 999999999944559999999875
No 14
>COG1042 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]
Probab=99.20 E-value=1.3e-10 Score=120.08 Aligned_cols=128 Identities=20% Similarity=0.268 Sum_probs=110.1
Q ss_pred CCcEEEEEcCCcHHHHHHHHHhccCCCCC---------------------CCceeeccCCCCHHHHHHHHHHHhcccccC
Q 020234 175 KGRIWTMVAGGGASVIYADTVGDLGYASE---------------------LGNYAEYSGAPNEEEVLQYARVVIDCATAD 233 (329)
Q Consensus 175 ~g~I~ii~NG~Glam~t~D~l~~~g~gg~---------------------paN~lDlgG~a~~e~~~~a~~ill~~~~~~ 233 (329)
+.|+++++||||.+.++.|.+... |.+ ..||+|+.|+++.++|.++++.+++ +
T Consensus 299 g~~~~ivtn~Gg~gvla~D~l~~~--g~~l~~~~~~~~~~l~~~Lp~~~~~~NPvD~~~~a~~e~y~~~~~~~~~----~ 372 (598)
T COG1042 299 GDRVAIITNGGGPGVLAADALEER--GLKLAELSEETIEKLRSRLPPHASVKNPVDLTGDADAERYKKTLEILLR----D 372 (598)
T ss_pred CcceeEEecCCCccccchhHHHHc--CCCcCCCCHHHHHHHHhhcCccccccCCeeeecCCcHHHHHHHHHHHHh----c
Confidence 577999999999999999999997 665 2699999999999999999999999 9
Q ss_pred CCCCEEEEEe-ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEE-EEeCCCCHHHHHHHHHHhccccCCceeecCCC
Q 020234 234 PDGRKRALLI-GGGIANFTDVATTFNGIIRALREKESKLKAARMHIF-VRRGGPNYQTGLAKMRALGEELGIPLEVYGPE 311 (329)
Q Consensus 234 ~~v~~vlv~i-~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvv-vrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~ 311 (329)
+++++++++. ++..+...++| ++++.+.... .++|++ +.+||.+.+.++++|++. |||+ |
T Consensus 373 ~~~~~llvi~~~~~~~~~~~~a---~~~~~~~~~~------~~k~~v~~~~gg~~~~~~~~~l~~~----gip~-----~ 434 (598)
T COG1042 373 ENVDALLVIVLPPASADPEETA---EAIIRATAKK------RGKPVVVSSMGGESSEKARRLLEEA----GIPT-----Y 434 (598)
T ss_pred cCCceEEEEecCCCCCCchhhh---HHHHHhhhhh------CCCceEEEecCCcchHHHHHHhhhc----CCCC-----c
Confidence 9999999998 77777777777 8888862222 356655 669999999999999998 9998 8
Q ss_pred CCHHHHHHHHHHHhh
Q 020234 312 ATMTGICKQAIDCIM 326 (329)
Q Consensus 312 ~~~~~av~~~v~~~~ 326 (329)
.+++.|+++...+++
T Consensus 435 ~~pe~a~~a~~~l~~ 449 (598)
T COG1042 435 PTPERAVKALSALAR 449 (598)
T ss_pred cCchHHHHHHHHHHH
Confidence 899999999987764
No 15
>PLN02522 ATP citrate (pro-S)-lyase
Probab=97.55 E-value=0.0011 Score=69.22 Aligned_cols=126 Identities=10% Similarity=0.075 Sum_probs=89.9
Q ss_pred CCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCC-HHHHHHHHHHHhcccccCCCCCEEEEEe-ccccCchHH
Q 020234 175 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPN-EEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTD 252 (329)
Q Consensus 175 ~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~-~e~~~~a~~ill~~~~~~~~v~~vlv~i-~ggi~~~~~ 252 (329)
.|+||+++-.|+++...+|.+... |---.-++-+||++. .-.+.+.++.+.+ ||++++|++.. .|+- +.
T Consensus 167 pG~VgiVSqSGtL~~ei~~~~~~~--GlG~S~~VsiGnd~~~g~~~~D~L~~~~~----Dp~Tk~IvlygEiGg~-~e-- 237 (608)
T PLN02522 167 PGSVGFVSKSGGMSNEMYNVIARV--TDGIYEGIAIGGDVFPGSTLSDHVLRFNN----IPQIKMIVVLGELGGR-DE-- 237 (608)
T ss_pred CCcEEEEeccHHHHHHHHHHHHHc--CCCeEEEEEeCCCCCCCCCHHHHHHHHhc----CCCCCEEEEEEecCch-hH--
Confidence 799999999999999999999986 444567788999886 3457888888888 99999999888 5753 22
Q ss_pred HhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHH----HHH---------------HHHHHhccccCCceeecCCCCC
Q 020234 253 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ----TGL---------------AKMRALGEELGIPLEVYGPEAT 313 (329)
Q Consensus 253 vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~----~ar---------------~~l~~~~~~~gip~~~~g~~~~ 313 (329)
+.+++++++.. .++|||+...|.++. .++ +...+++++.|+.+ .++
T Consensus 238 -----~~f~ea~~~a~-----~~KPVVa~kaGrsa~~~~~~aa~gHtGAiag~~~~ta~~k~aAlr~aGv~v-----v~s 302 (608)
T PLN02522 238 -----YSLVEALKQGK-----VSKPVVAWVSGTCARLFKSEVQFGHAGAKSGGDMESAQAKNKALKDAGAIV-----PTS 302 (608)
T ss_pred -----HHHHHHHHHhc-----CCCCEEEEeccCCCccCccccccccccccccCCCccHHHHHHHHHHCCCeE-----eCC
Confidence 44455666643 469999987777651 000 22333334449976 578
Q ss_pred HHHHHHHHHHH
Q 020234 314 MTGICKQAIDC 324 (329)
Q Consensus 314 ~~~av~~~v~~ 324 (329)
++|....+.+.
T Consensus 303 ~~El~~~~~~~ 313 (608)
T PLN02522 303 FEALEAAIKET 313 (608)
T ss_pred HHHHHHHHHHH
Confidence 88866555543
No 16
>PTZ00187 succinyl-CoA synthetase alpha subunit; Provisional
Probab=97.41 E-value=0.0027 Score=61.52 Aligned_cols=128 Identities=16% Similarity=0.205 Sum_probs=91.0
Q ss_pred CCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCC-CHHHHHHHHHHHhcccccCCCCCEEEEEe-ccccCchHH
Q 020234 175 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAP-NEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTD 252 (329)
Q Consensus 175 ~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a-~~e~~~~a~~ill~~~~~~~~v~~vlv~i-~ggi~~~~~ 252 (329)
.|+||+++-.|+++...++.+... |---.-++-+||++ ..-.+.+.++.+.+ ||+.++|++.. .+|.. ++
T Consensus 169 ~G~VgiVSqSGtl~~ei~~~~~~~--GlG~S~~VsiGnd~~~g~~~~D~L~~~~~----Dp~T~~Ivl~~E~gG~~--e~ 240 (317)
T PTZ00187 169 KGKIGIVSRSGTLTYEAVAQTTAV--GLGQSTCVGIGGDPFNGTNFIDCLKLFLN----DPETEGIILIGEIGGTA--EE 240 (317)
T ss_pred CCCEEEEeCCHHHHHHHHHHHHHc--CCCEEEEEEeCCCCCCCCCHHHHHHHHhh----CCCccEEEEEEecCCch--hH
Confidence 799999999999999999999996 55567888999998 33458899999888 99999999988 66543 22
Q ss_pred HhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHH----------------HHHHhccccCCceeecCCCCCHHH
Q 020234 253 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLA----------------KMRALGEELGIPLEVYGPEATMTG 316 (329)
Q Consensus 253 vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~----------------~l~~~~~~~gip~~~~g~~~~~~~ 316 (329)
-+ ...+++ .. .++|||+...|.++..+++ ...+++++.|+.+ .++++|
T Consensus 241 ~a---a~fi~~---~~-----~~KPVVa~~aGrsap~G~r~gHaGAi~~~~~G~~~~k~aal~qaGv~v-----~~~~~e 304 (317)
T PTZ00187 241 EA---AEWIKN---NP-----IKKPVVSFIAGITAPPGRRMGHAGAIISGGKGTAPGKIEALEAAGVRV-----VKSPAQ 304 (317)
T ss_pred HH---HHHHHh---hc-----CCCcEEEEEecCCCCCCCcccchhhhhccCCCCHHHHHHHHHHCCCeE-----eCCHHH
Confidence 22 233332 21 3699998877766522222 1122333349987 679999
Q ss_pred HHHHHHHHhh
Q 020234 317 ICKQAIDCIM 326 (329)
Q Consensus 317 av~~~v~~~~ 326 (329)
..+...+..+
T Consensus 305 l~~~~~~~~~ 314 (317)
T PTZ00187 305 LGKTMLEVMK 314 (317)
T ss_pred HHHHHHHHHH
Confidence 8877766554
No 17
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=97.29 E-value=0.0032 Score=53.88 Aligned_cols=90 Identities=18% Similarity=0.259 Sum_probs=57.8
Q ss_pred CcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhh
Q 020234 176 GRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVAT 255 (329)
Q Consensus 176 g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~ 255 (329)
|+|++++..|+++...++.+... |--..-++-+|..++- .+.+.++.+.+ ||++++|++-+= ++-+.
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 GGVALISQSGALGTAILDWAQDR--GIGFSYVVSVGNEADV-DFADLLEYLAE----DPDTRVIVLYLE-GIGDG----- 68 (138)
T ss_dssp -SEEEEES-HHHHHHHHHHHHHT--T-EESEEEE-TT-SSS--HHHHHHHHCT-----SS--EEEEEES---S-H-----
T ss_pred CCEEEEECCHHHHHHHHHHHHHc--CCCeeEEEEeCccccC-CHHHHHHHHhc----CCCCCEEEEEcc-CCCCH-----
Confidence 89999999999999999999986 4445666777776654 47888888888 999999887773 24342
Q ss_pred hHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 256 TFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 256 ~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
+.+.+++++.. .++|||+...|.
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 66677777765 359999886664
No 18
>COG0074 SucD Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=97.25 E-value=0.0031 Score=59.76 Aligned_cols=134 Identities=14% Similarity=0.201 Sum_probs=97.9
Q ss_pred cCCc--eEecCCCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCC-HHHHHHHHHHHhcccccCCCCCEEEEE
Q 020234 166 SLKF--TVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPN-EEEVLQYARVVIDCATADPDGRKRALL 242 (329)
Q Consensus 166 ~~~l--~yv~l~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~-~e~~~~a~~ill~~~~~~~~v~~vlv~ 242 (329)
+.|+ .++-..|+||+++--|.++-=+.-.+...| .--.-.+-+|||+- ...+.++++.+.+ ||+.++++++
T Consensus 134 kiGimp~~i~~~G~IGiVSrSGTLTyE~~~qlt~~G--~GqS~~IGiGGDpi~Gt~fid~L~~fe~----Dp~T~~ivmi 207 (293)
T COG0074 134 KIGIMPGNIYKPGNIGIVSRSGTLTYEAVSQLTEAG--LGQSTAIGIGGDPIPGTSFIDALEMFEA----DPETEAIVMI 207 (293)
T ss_pred eeeechhhhccCCceEEEecCcchHHHHHHHHHhcC--CceEEEEEeCCCCcCCccHHHHHHHHhc----CccccEEEEE
Confidence 4556 667779999999999999998889998874 33455577888874 3568899999988 9999999888
Q ss_pred e-ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH--------------------HHHHHhcccc
Q 020234 243 I-GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL--------------------AKMRALGEEL 301 (329)
Q Consensus 243 i-~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar--------------------~~l~~~~~~~ 301 (329)
- .||-+ ++.| ++.++++- .++|||....|..+.+++ +.|+++
T Consensus 208 GEiGG~a--Ee~A------A~~i~~~~-----~~KPVVa~iaG~tap~gkrmGhaGaiv~~~~gta~~Ki~al~~a---- 270 (293)
T COG0074 208 GEIGGPA--EEEA------AEYIKANA-----TRKPVVAYIAGRTAPEGKRMGHAGAIVSGGKGTAESKIAALEAA---- 270 (293)
T ss_pred ecCCCcH--HHHH------HHHHHHhc-----cCCCEEEEEeccCCCccchhhhhhhhhcCCCccHHHHHHHHHHc----
Confidence 7 78754 5555 23444422 348999887766554443 345555
Q ss_pred CCceeecCCCCCHHHHHHHHHHHhhh
Q 020234 302 GIPLEVYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 302 gip~~~~g~~~~~~~av~~~v~~~~~ 327 (329)
|+++ .++|.+..+...+..+.
T Consensus 271 Gv~v-----~etp~~l~~~l~~vl~~ 291 (293)
T COG0074 271 GVKV-----AETPAELGELLLEVLKG 291 (293)
T ss_pred CCee-----cCCHHHHHHHHHHHhhc
Confidence 9887 78999888877776554
No 19
>PRK06091 membrane protein FdrA; Validated
Probab=97.17 E-value=0.0036 Score=64.57 Aligned_cols=120 Identities=14% Similarity=0.064 Sum_probs=90.3
Q ss_pred CCCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCC-----CCHHHHHHHHHHHhcccccCCCCCEEEEEe-cccc
Q 020234 174 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGA-----PNEEEVLQYARVVIDCATADPDGRKRALLI-GGGI 247 (329)
Q Consensus 174 l~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~-----a~~e~~~~a~~ill~~~~~~~~v~~vlv~i-~ggi 247 (329)
..|+||+++-.|+++...++++... |.-...++-+|+. +..-.+.++++.+.+ ||++++|++.+ |.
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 3899999999999999999999987 5557788888877 212347788888888 99999999888 63
Q ss_pred CchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhh
Q 020234 248 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 248 ~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~ 326 (329)
.+.+. +.++++++.. ++|||+...|.+.. ++ ++. |+-. .+|++|+++.++.++.
T Consensus 264 --aE~v~---~~fl~aar~~-------~KPVVvlk~Grs~~-g~---~q~----GVi~-----a~tleEl~~~A~~la~ 317 (555)
T PRK06091 264 --AEAVR---LKIINAMKAT-------GKPVVALFLGYTPA-VA---RDE----NVWF-----ASTLDEAARLACLLSR 317 (555)
T ss_pred --chHHH---HHHHHHHhhC-------CCCEEEEEecCCch-hh---hcC----CeEE-----eCCHHHHHHHHHHHhc
Confidence 25666 6677766653 58999885555433 22 554 8733 5799999999987763
No 20
>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=96.84 E-value=0.018 Score=58.33 Aligned_cols=126 Identities=16% Similarity=0.170 Sum_probs=90.7
Q ss_pred CCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHh
Q 020234 175 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVA 254 (329)
Q Consensus 175 ~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA 254 (329)
.|+|++++-.|+++...+|..... |-...-++-+|+.++- .+.+.++.+.+ ||++++|++-+=+ +.+.
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--GVGFSYFVSLGNKADI-DESDLLEYLAD----DPDTKVILLYLEG-IKDG---- 217 (447)
T ss_pred CCCEEEEechHHHHHHHHHHHHhc--CCCcceEEECCchhhC-CHHHHHHHHhh----CCCCCEEEEEecC-CCCH----
Confidence 689999999999999999999886 5557788888888763 57788888888 9999999877633 4442
Q ss_pred hhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH-------------HHHHHhccccCCceeecCCCCCHHHHHHHH
Q 020234 255 TTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL-------------AKMRALGEELGIPLEVYGPEATMTGICKQA 321 (329)
Q Consensus 255 ~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar-------------~~l~~~~~~~gip~~~~g~~~~~~~av~~~ 321 (329)
+.++++++... .++|||+.-.|.+..-.+ +.+..++++.|+.. .++++|-...+
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 55666666653 369999887776643222 23444445559865 57888877766
Q ss_pred HHHh
Q 020234 322 IDCI 325 (329)
Q Consensus 322 v~~~ 325 (329)
.-++
T Consensus 285 ~~l~ 288 (447)
T TIGR02717 285 RLLS 288 (447)
T ss_pred HHHh
Confidence 5444
No 21
>PLN00125 Succinyl-CoA ligase [GDP-forming] subunit alpha
Probab=96.77 E-value=0.029 Score=53.98 Aligned_cols=128 Identities=14% Similarity=0.136 Sum_probs=87.9
Q ss_pred CCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCC--CCHHHHHHHHHHHhcccccCCCCCEEEEEe-ccccCchH
Q 020234 175 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGA--PNEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFT 251 (329)
Q Consensus 175 ~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~--a~~e~~~~a~~ill~~~~~~~~v~~vlv~i-~ggi~~~~ 251 (329)
.|+|++++-.|+++...++++... |--..-++-+|+. ++-+ +.+.++.+.+ ||++++|++-+ .+|..-
T Consensus 150 ~G~ValiSQSG~l~~~l~~~~~~~--giG~S~~VS~Gn~~~adv~-~~d~L~yl~~----Dp~T~~I~ly~E~~G~~~-- 220 (300)
T PLN00125 150 PGRIGIVSRSGTLTYEAVFQTTAV--GLGQSTCVGIGGDPFNGTN-FVDCLEKFVK----DPQTEGIILIGEIGGTAE-- 220 (300)
T ss_pred CCcEEEEeCCccHHHHHHHHHHHc--CCCeEEEEEeCCCCCCCCC-HHHHHHHHhh----CCCCcEEEEEeccCCchH--
Confidence 799999999999999999999886 4456777888888 5543 7788888888 99999999888 555431
Q ss_pred HHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHH----------------HHHHHHhccccCCceeecCCCCCHH
Q 020234 252 DVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG----------------LAKMRALGEELGIPLEVYGPEATMT 315 (329)
Q Consensus 252 ~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~a----------------r~~l~~~~~~~gip~~~~g~~~~~~ 315 (329)
.-+ +.++++.+ +++|||+.-.|.+...+ -+.+..++++.|+.. .++++
T Consensus 221 ~d~---~~f~~aa~--------~~KPVV~lk~Grs~~~g~~~sHTGala~~~~G~~~~~~a~~rq~Gvi~-----v~~~~ 284 (300)
T PLN00125 221 EDA---AAFIKESG--------TEKPVVAFIAGLTAPPGRRMGHAGAIVSGGKGTAQDKIKALREAGVTV-----VESPA 284 (300)
T ss_pred HHH---HHHHHHhc--------CCCCEEEEEecCCCCCCCCccchhhhhcCCCCCHHHHHHHHHHCCCeE-----eCCHH
Confidence 111 44444432 26899988666554100 022334444449876 57888
Q ss_pred HHHHHHHHHhhh
Q 020234 316 GICKQAIDCIMS 327 (329)
Q Consensus 316 ~av~~~v~~~~~ 327 (329)
|.....-+..+.
T Consensus 285 el~~~~~~~~~~ 296 (300)
T PLN00125 285 KIGVAMLEVFKE 296 (300)
T ss_pred HHHHHHHHHHHh
Confidence 877776665543
No 22
>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit. ATP citrate lyases appear to form an outgroup.
Probab=96.58 E-value=0.034 Score=53.22 Aligned_cols=124 Identities=11% Similarity=0.125 Sum_probs=82.6
Q ss_pred CCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCH-HHHHHHHHHHhcccccCCCCCEEEEEe-ccccCchHH
Q 020234 175 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNE-EEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTD 252 (329)
Q Consensus 175 ~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~-e~~~~a~~ill~~~~~~~~v~~vlv~i-~ggi~~~~~ 252 (329)
.|+|++++-.|+++...+|..... |--..-++-+|..+.. -.+.+.++.+.+ ||++++|++-+ ..+-.. .+
T Consensus 143 ~G~ValiSQSG~l~~~~~~~a~~~--giG~S~~Vs~Gn~a~~dv~~~D~l~~l~~----Dp~T~~I~lylE~~~~~~-~~ 215 (286)
T TIGR01019 143 PGNVGIVSRSGTLTYEAVHQLTKA--GFGQSTCVGIGGDPVNGTSFIDVLEAFEK----DPETEAIVMIGEIGGSAE-EE 215 (286)
T ss_pred CCcEEEEeccHHHHHHHHHHHHHc--CCCeEEEEEeCCCcCCCCCHHHHHHHHhh----CCCCcEEEEEEecCCchH-HH
Confidence 799999999999999999999886 4456788889988642 347788888888 99999998887 433221 12
Q ss_pred HhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHH----------------HHHHHHHhccccCCceeecCCCCCHHH
Q 020234 253 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQT----------------GLAKMRALGEELGIPLEVYGPEATMTG 316 (329)
Q Consensus 253 vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~----------------ar~~l~~~~~~~gip~~~~g~~~~~~~ 316 (329)
.+ +.++.. .++||++.-.|.++.. ..+.+..++++.|+.. .++++|
T Consensus 216 ~~-------~~~~~~------~~KPVV~lk~Grs~~~g~~~sHTGala~~~~g~~~~~~aa~rqaGvi~-----v~~~~e 277 (286)
T TIGR01019 216 AA-------DFIKQN------MSKPVVGFIAGATAPPGKRMGHAGAIISGGKGTAESKIEALEAAGVTV-----VKSPSD 277 (286)
T ss_pred HH-------HHHHhc------CCCCEEEEEecCCCCccccccchhhhhcCCCCCHHHHHHHHHHCCCeE-----eCCHHH
Confidence 11 112221 3699998755555310 0122333334449865 578888
Q ss_pred HHHHHHH
Q 020234 317 ICKQAID 323 (329)
Q Consensus 317 av~~~v~ 323 (329)
....+.+
T Consensus 278 l~d~l~~ 284 (286)
T TIGR01019 278 IGELLAE 284 (286)
T ss_pred HHHHHHH
Confidence 7776654
No 23
>PRK05678 succinyl-CoA synthetase subunit alpha; Validated
Probab=96.12 E-value=0.1 Score=50.02 Aligned_cols=127 Identities=16% Similarity=0.211 Sum_probs=84.3
Q ss_pred CCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCH-HHHHHHHHHHhcccccCCCCCEEEEEe-ccccCchHH
Q 020234 175 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNE-EEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTD 252 (329)
Q Consensus 175 ~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~-e~~~~a~~ill~~~~~~~~v~~vlv~i-~ggi~~~~~ 252 (329)
.|+|++++-.|+++...+|..... |--...++-+|..++. -...+.++.+.+ ||++++|++-+ ..+..+ .+
T Consensus 145 ~G~valiSQSGal~~~~~~~~~~~--giG~s~~Vs~Gn~~~~dv~~~D~l~~l~~----Dp~T~~I~lylE~~~~~~-~~ 217 (291)
T PRK05678 145 KGRVGVVSRSGTLTYEAVAQLTDL--GFGQSTCVGIGGDPINGTNFIDVLEAFEE----DPETEAIVMIGEIGGSAE-EE 217 (291)
T ss_pred CCCEEEEeccHHHHHHHHHHHHHc--CCCeEEEEEeCCCcCCCCCHHHHHHHHhh----CCCCcEEEEEEecCCcHH-HH
Confidence 799999999999999999999886 4556788889988542 246778888888 99999998877 433221 12
Q ss_pred HhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH----------------HHHHHhccccCCceeecCCCCCHHH
Q 020234 253 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL----------------AKMRALGEELGIPLEVYGPEATMTG 316 (329)
Q Consensus 253 vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar----------------~~l~~~~~~~gip~~~~g~~~~~~~ 316 (329)
.+ + .++.. .++||++.-.|.++..++ +++..+++..|+.. .++++|
T Consensus 218 a~---~----~~~~~------~~KPVV~lk~Grs~~~g~~~sHTGala~~~~g~~~~~~a~~~q~Gvi~-----v~~~~e 279 (291)
T PRK05678 218 AA---E----YIKAN------VTKPVVGYIAGVTAPPGKRMGHAGAIISGGKGTAEEKKEALEAAGVKV-----ARTPSE 279 (291)
T ss_pred HH---H----HHHHc------CCCCEEEEEecCCCCCCCcccchhhhccCCCCCHHHHHHHHHHCCCeE-----CCCHHH
Confidence 12 1 11111 269999775555541111 22334444459865 678888
Q ss_pred HHHHHHHHhh
Q 020234 317 ICKQAIDCIM 326 (329)
Q Consensus 317 av~~~v~~~~ 326 (329)
....+.++.+
T Consensus 280 l~~~~~~~~~ 289 (291)
T PRK05678 280 IGELLKEVLK 289 (291)
T ss_pred HHHHHHHHHc
Confidence 7777666543
No 24
>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=94.01 E-value=0.5 Score=39.99 Aligned_cols=95 Identities=13% Similarity=0.222 Sum_probs=62.7
Q ss_pred eeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCH
Q 020234 208 AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY 287 (329)
Q Consensus 208 lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~ 287 (329)
+|+|++.+++.+.++. .+ .+.+.|.+ .+-.+..-+.. ..+++++++.+. ...+|++ ||...
T Consensus 34 i~lg~~~s~e~~v~aa---~e-----~~adii~i--Ssl~~~~~~~~---~~~~~~L~~~g~----~~i~viv--GG~~~ 94 (132)
T TIGR00640 34 DVGPLFQTPEEIARQA---VE-----ADVHVVGV--SSLAGGHLTLV---PALRKELDKLGR----PDILVVV--GGVIP 94 (132)
T ss_pred EECCCCCCHHHHHHHH---HH-----cCCCEEEE--cCchhhhHHHH---HHHHHHHHhcCC----CCCEEEE--eCCCC
Confidence 6899999999776663 22 34444443 33222333444 888888888642 2344444 77666
Q ss_pred HHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhh
Q 020234 288 QTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 288 ~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~ 326 (329)
.+-.+.|+++ |+. .+|++-+++.+.+..+.+...
T Consensus 95 ~~~~~~l~~~----Gvd-~~~~~gt~~~~i~~~l~~~~~ 128 (132)
T TIGR00640 95 PQDFDELKEM----GVA-EIFGPGTPIPESAIFLLKKLR 128 (132)
T ss_pred hHhHHHHHHC----CCC-EEECCCCCHHHHHHHHHHHHH
Confidence 6666678877 995 577789999999999887653
No 25
>KOG1255 consensus Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=93.44 E-value=0.16 Score=47.32 Aligned_cols=100 Identities=18% Similarity=0.224 Sum_probs=64.7
Q ss_pred eEecCCCcEEEEEcCCcHHHHHHHHHhccC-CCCCCCceeeccCCCC-HHHHHHHHHHHhcccccCCCCCEEEEEe-ccc
Q 020234 170 TVLNPKGRIWTMVAGGGASVIYADTVGDLG-YASELGNYAEYSGAPN-EEEVLQYARVVIDCATADPDGRKRALLI-GGG 246 (329)
Q Consensus 170 ~yv~l~g~I~ii~NG~Glam~t~D~l~~~g-~gg~paN~lDlgG~a~-~e~~~~a~~ill~~~~~~~~v~~vlv~i-~gg 246 (329)
-+|.-.|.|||++-.|=|. ..++.+-- -|---.-++-+||||- ...+.+++++.|+ ||..++|+++- .||
T Consensus 171 g~Ihk~G~IGIVSRSGTLT---YEaVhQTT~vglGQslcvGiGGDpFnGT~FID~L~vFl~----D~~t~GIiliGEIGG 243 (329)
T KOG1255|consen 171 GHIHKRGKIGIVSRSGTLT---YEAVHQTTQVGLGQSLCVGIGGDPFNGTNFIDCLEVFLE----DPETEGIILIGEIGG 243 (329)
T ss_pred cccccCCeeEEEecCCcee---ehhhhhhccccccceeEEeecCCCCCCccHHHHHHHHhc----CcccceEEEEeccCC
Confidence 4566689999998876544 44443310 0222345567888874 4568899999999 99999998887 787
Q ss_pred cCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 020234 247 IANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 286 (329)
Q Consensus 247 i~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~ 286 (329)
-+. +-| ++.++++.+. ...+|||--+.|..
T Consensus 244 ~AE--e~A------A~flk~~nSg--~~~kPVvsFIAG~t 273 (329)
T KOG1255|consen 244 SAE--EEA------AEFLKEYNSG--STAKPVVSFIAGVT 273 (329)
T ss_pred hhh--HHH------HHHHHHhccC--CCCCceeEEeeccc
Confidence 653 333 3457776432 25688875444433
No 26
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=93.31 E-value=1.2 Score=37.88 Aligned_cols=99 Identities=14% Similarity=0.143 Sum_probs=66.3
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
.-+++|-+.+++.+.++. . .-+.+.|.+....+ .....+ +.+++.+++.+. ..+ .+.+||.
T Consensus 33 eVi~LG~~vp~e~i~~~a---~-----~~~~d~V~lS~~~~--~~~~~~---~~~~~~L~~~~~----~~~--~i~vGG~ 93 (137)
T PRK02261 33 EVINLGVMTSQEEFIDAA---I-----ETDADAILVSSLYG--HGEIDC---RGLREKCIEAGL----GDI--LLYVGGN 93 (137)
T ss_pred EEEECCCCCCHHHHHHHH---H-----HcCCCEEEEcCccc--cCHHHH---HHHHHHHHhcCC----CCC--eEEEECC
Confidence 458999999999888773 2 34555666655332 223344 777788877642 233 4555665
Q ss_pred C------HHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhhhc
Q 020234 286 N------YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSA 328 (329)
Q Consensus 286 ~------~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~~~ 328 (329)
- .++-++.+++. |+. .+|++-+++++++..+.+..+++
T Consensus 94 ~~~~~~~~~~~~~~l~~~----G~~-~vf~~~~~~~~i~~~l~~~~~~~ 137 (137)
T PRK02261 94 LVVGKHDFEEVEKKFKEM----GFD-RVFPPGTDPEEAIDDLKKDLNQR 137 (137)
T ss_pred CCCCccChHHHHHHHHHc----CCC-EEECcCCCHHHHHHHHHHHhccC
Confidence 3 45556677776 974 67888899999999998877653
No 27
>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=90.17 E-value=4.4 Score=38.92 Aligned_cols=122 Identities=16% Similarity=0.128 Sum_probs=75.3
Q ss_pred CCcEEEEEcCCcHHHHHHHHHhccCCCCCC-Ccee----eccCCCCHHHHHHHHHHHhcccccCC---CCCEEEEEeccc
Q 020234 175 KGRIWTMVAGGGASVIYADTVGDLGYASEL-GNYA----EYSGAPNEEEVLQYARVVIDCATADP---DGRKRALLIGGG 246 (329)
Q Consensus 175 ~g~I~ii~NG~Glam~t~D~l~~~g~gg~p-aN~l----DlgG~a~~e~~~~a~~ill~~~~~~~---~v~~vlv~i~gg 246 (329)
--+||+|+.-.|+++ -|.+.... ---| .++. =+=|.-.++.+.+|++.+-+ .+ .+|+|+|.=+||
T Consensus 14 p~~I~vITs~~gAa~--~D~~~~~~-~r~~~~~~~~~p~~vQG~~A~~~I~~al~~~~~----~~~~~~~Dviii~RGGG 86 (319)
T PF02601_consen 14 PKRIAVITSPTGAAI--QDFLRTLK-RRNPIVEIILYPASVQGEGAAASIVSALRKANE----MGQADDFDVIIIIRGGG 86 (319)
T ss_pred CCEEEEEeCCchHHH--HHHHHHHH-HhCCCcEEEEEeccccccchHHHHHHHHHHHHh----ccccccccEEEEecCCC
Confidence 568999999888776 68876652 1123 3333 33456677889999999875 43 577665544555
Q ss_pred cCchHHHhh-hHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHH
Q 020234 247 IANFTDVAT-TFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 324 (329)
Q Consensus 247 i~~~~~vA~-~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~ 324 (329)
-. +|.+. +=+.+++|+-+. ++||++-+|-..-.---....+. ...||+.|++.++.-
T Consensus 87 s~--eDL~~FN~e~varai~~~-------~~PvisaIGHe~D~ti~D~vAd~------------ra~TPtaaAe~~~~~ 144 (319)
T PF02601_consen 87 SI--EDLWAFNDEEVARAIAAS-------PIPVISAIGHETDFTIADFVADL------------RAPTPTAAAELIVPD 144 (319)
T ss_pred Ch--HHhcccChHHHHHHHHhC-------CCCEEEecCCCCCchHHHHHHHh------------hCCCHHHHHHHHhhh
Confidence 21 23221 113444444443 69999999997644322222332 267999999988754
No 28
>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=89.97 E-value=4.7 Score=33.21 Aligned_cols=102 Identities=20% Similarity=0.252 Sum_probs=62.5
Q ss_pred HHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhh
Q 020234 191 YADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESK 270 (329)
Q Consensus 191 t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~ 270 (329)
....+... |- .-+++|.+.+++.+.++.+ + .+|+ .|.+ .+......+.+ +.+++.+++..+
T Consensus 19 ~~~~l~~~--G~---~vi~lG~~vp~e~~~~~a~---~---~~~d--~V~i--S~~~~~~~~~~---~~~~~~L~~~~~- 79 (122)
T cd02071 19 IARALRDA--GF---EVIYTGLRQTPEEIVEAAI---Q---EDVD--VIGL--SSLSGGHMTLF---PEVIELLRELGA- 79 (122)
T ss_pred HHHHHHHC--CC---EEEECCCCCCHHHHHHHHH---H---cCCC--EEEE--cccchhhHHHH---HHHHHHHHhcCC-
Confidence 44556554 22 3478999999997766633 2 1344 4443 33333334444 778887877642
Q ss_pred hhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHH
Q 020234 271 LKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQA 321 (329)
Q Consensus 271 ~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~ 321 (329)
+ .+.+..||....+-.+.|.++ |+.- +|+.-+++++.+...
T Consensus 80 ----~-~i~i~~GG~~~~~~~~~~~~~----G~d~-~~~~~~~~~~~~~~~ 120 (122)
T cd02071 80 ----G-DILVVGGGIIPPEDYELLKEM----GVAE-IFGPGTSIEEIIDKI 120 (122)
T ss_pred ----C-CCEEEEECCCCHHHHHHHHHC----CCCE-EECCCCCHHHHHHHH
Confidence 1 355667877666666777777 9864 566688888887653
No 29
>PRK06091 membrane protein FdrA; Validated
Probab=89.46 E-value=3 Score=43.49 Aligned_cols=102 Identities=15% Similarity=0.112 Sum_probs=66.3
Q ss_pred CceeeccCCCCH-----------HHHHHHHHHHhcccccCCCCCEEEEEe---ccccCchHHHhhhHHHHHHHHHHhhhh
Q 020234 205 GNYAEYSGAPNE-----------EEVLQYARVVIDCATADPDGRKRALLI---GGGIANFTDVATTFNGIIRALREKESK 270 (329)
Q Consensus 205 aN~lDlgG~a~~-----------e~~~~a~~ill~~~~~~~~v~~vlv~i---~ggi~~~~~vA~~~~gii~al~~~~~~ 270 (329)
-.++|+|-|... -|..+..+. .. ||.+.+||+-+ +|+-. +-| ..++.++++....
T Consensus 373 h~~iDlGdD~~T~GrpHPMIDp~~R~~~~~~~-a~----dp~~~VillD~vlGyGah~---dpa---~~l~~ai~~~~~~ 441 (555)
T PRK06091 373 HQIIDLGDDFYTVGRPHPMIDPTLRNQLIADL-GA----KPQVRVLLLDVVIGFGATA---DPA---GSLVSAIQKACAA 441 (555)
T ss_pred ceEEecCcccccCCCCCCCcChHHHHHHHHHh-cc----CCcceEEEEEeeeccCCCC---ChH---HHHHHHHHHHHhh
Confidence 378999988632 233332222 33 99999999887 44433 333 4444444443211
Q ss_pred h-hcccceEEEEeCCCC-----HHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhh
Q 020234 271 L-KAARMHIFVRRGGPN-----YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 271 ~-~~~~~pvvvrl~G~~-----~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~ 326 (329)
. ..+.+++|+-+.||. .++.++.|+++ |+-+ ++|-.+|++.+.++++
T Consensus 442 ~~~~r~l~~v~~v~GT~~DpQ~~~~q~~~L~~a----Gv~v-----~~sn~~a~~~a~~~~~ 494 (555)
T PRK06091 442 RADGQPLYAIATVTGTERDPQCRSQQIATLEDA----GIAV-----VDSLPEATLLAAALIR 494 (555)
T ss_pred hhcCCceEEEEEEeCCCCCCcCHHHHHHHHHhC----CeEE-----EcCcHHHHHHHHHHhh
Confidence 1 124577777788874 45778899988 9866 7899999999999875
No 30
>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=88.29 E-value=8 Score=32.67 Aligned_cols=92 Identities=15% Similarity=0.223 Sum_probs=58.3
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
.-+|+|-+-+++.+.++. . ..+.+.|.+....+.+ ... ++.+++.+++.+. +..||+ .||.
T Consensus 29 eVidLG~~v~~e~~v~aa---~-----~~~adiVglS~L~t~~--~~~---~~~~~~~l~~~gl----~~v~vi--vGG~ 89 (128)
T cd02072 29 NVVNLGVLSPQEEFIDAA---I-----ETDADAILVSSLYGHG--EID---CKGLREKCDEAGL----KDILLY--VGGN 89 (128)
T ss_pred EEEECCCCCCHHHHHHHH---H-----HcCCCEEEEeccccCC--HHH---HHHHHHHHHHCCC----CCCeEE--EECC
Confidence 458999999999888773 2 2355666665532221 222 3777888887642 244444 4444
Q ss_pred ------CHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHH
Q 020234 286 ------NYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQA 321 (329)
Q Consensus 286 ------~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~ 321 (329)
..++-.+.|++. |+. .+|++-+++++++...
T Consensus 90 ~~i~~~d~~~~~~~L~~~----Gv~-~vf~pgt~~~~i~~~l 126 (128)
T cd02072 90 LVVGKQDFEDVEKRFKEM----GFD-RVFAPGTPPEEAIADL 126 (128)
T ss_pred CCCChhhhHHHHHHHHHc----CCC-EEECcCCCHHHHHHHH
Confidence 223345667776 995 6899889999888653
No 31
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=86.70 E-value=2.8 Score=40.69 Aligned_cols=59 Identities=24% Similarity=0.305 Sum_probs=43.4
Q ss_pred CCCHHHHHHHHHHHhcccccCCCCCEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 020234 213 APNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 286 (329)
Q Consensus 213 ~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~ 286 (329)
..+.+.+.+.++.+.. ||++++|++.+ |||.+-.. +-|.++++++.. .+ ||+|-+++-.
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 5677888888888888 99999999888 88865433 445566666653 23 8988887754
No 32
>PRK10949 protease 4; Provisional
Probab=85.62 E-value=2.6 Score=44.64 Aligned_cols=62 Identities=21% Similarity=0.202 Sum_probs=42.1
Q ss_pred CCCCHHHHHHHHHHHhcccccCCCCCEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCH
Q 020234 212 GAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY 287 (329)
Q Consensus 212 G~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~ 287 (329)
|....+.+.+.++-..+ ||++++|++-+ |||-.-.. +-|.++++..+. .++|||+.+++..+
T Consensus 345 g~~~~~~~~~~l~~a~~----D~~vkaVvLrInSpGGs~~as------e~i~~~i~~~r~----~gKPVvas~~~~aA 408 (618)
T PRK10949 345 GNVGGDTTAAQIRDARL----DPKVKAIVLRVNSPGGSVTAS------EVIRAELAAARA----AGKPVVVSMGGMAA 408 (618)
T ss_pred CCcCHHHHHHHHHHHHh----CCCCcEEEEEecCCCCcHHHH------HHHHHHHHHHHh----cCCcEEEEECCCCc
Confidence 45667888888888787 99999999998 66533221 334444444321 35899999987643
No 33
>COG1042 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]
Probab=85.58 E-value=0.17 Score=53.18 Aligned_cols=52 Identities=31% Similarity=0.388 Sum_probs=45.3
Q ss_pred eeecEEEEeecCCCCceEEEEEEEeCC-CCeEEEeccCCCccccccccceeeecCCCc
Q 020234 6 GPITTFIVEPFVPHNQEYYLSIVSDRL-GCTISFSECGGIEIEENWDKVKTIFLPTEK 62 (329)
Q Consensus 6 ~~v~~vlVee~~~~~~E~Ylsi~~Dr~-~~~ii~S~~GGvdIE~~~d~i~k~~i~p~~ 62 (329)
+++.+++||+|.. .|.++++..|.. +|+++++ +||+.+|.+.|... .++|.+
T Consensus 543 a~i~g~lvq~m~~--~E~~vgv~~dp~fgp~i~~G-~Gg~~ve~l~d~~~--~~~P~~ 595 (598)
T COG1042 543 ARIAGVLVQTMAK--LELIVGVKNDPTFGPLILFG-EGGIEVEVLKDVVV--ALPPLN 595 (598)
T ss_pred chhhhhhhHhhhh--ccceeeccCCCcchhHHHhc-CCceEEEeecceee--ccCCcc
Confidence 4678999999999 999999999998 8999999 99999999877655 666654
No 34
>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=85.36 E-value=5.6 Score=34.82 Aligned_cols=73 Identities=19% Similarity=0.183 Sum_probs=49.0
Q ss_pred eccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 020234 209 EYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 286 (329)
Q Consensus 209 DlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~ 286 (329)
+..|..+.+.+.++++-+.+ ||++++|++.+ +||-. .. . +.+.++++.... .++||++.+.|.-
T Consensus 17 ~~~~~~~~~~l~~~l~~a~~----d~~v~~vvl~~~~~gg~~--~~-~---~~~~~~i~~~~~----~~kpVia~v~G~a 82 (177)
T cd07014 17 DTQGNVSGDTTAAQIRDARL----DPKVKAIVLRVNSPGGSV--TA-S---EVIRAELAAARA----AGKPVVASGGGNA 82 (177)
T ss_pred CCCCCcCHHHHHHHHHHHhc----CCCceEEEEEeeCCCcCH--HH-H---HHHHHHHHHHHh----CCCCEEEEECCch
Confidence 55667788899999988888 99999999988 34321 11 1 333344444431 4689999998876
Q ss_pred HHHHHHHHH
Q 020234 287 YQTGLAKMR 295 (329)
Q Consensus 287 ~~~ar~~l~ 295 (329)
...|-.+.-
T Consensus 83 ~g~g~~la~ 91 (177)
T cd07014 83 ASGGYWIST 91 (177)
T ss_pred hHHHHHHHH
Confidence 666654444
No 35
>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=85.32 E-value=18 Score=36.59 Aligned_cols=116 Identities=18% Similarity=0.123 Sum_probs=64.7
Q ss_pred cEEEEEcCCcH--------HHHHHHHHhccCCCCCCCceeeccCCC-CHHHHHHHHHHHhcccccCCCCCEEEEEecccc
Q 020234 177 RIWTMVAGGGA--------SVIYADTVGDLGYASELGNYAEYSGAP-NEEEVLQYARVVIDCATADPDGRKRALLIGGGI 247 (329)
Q Consensus 177 ~I~ii~NG~Gl--------am~t~D~l~~~g~gg~paN~lDlgG~a-~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi 247 (329)
+||+++.+-++ ..-....+... -...+.+.++.+--. +.+...++.+..-. + +++++++.+++.-
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 22222322221 022355666666555 77888888777665 4 8999988874432
Q ss_pred CchHHHhhhHHHHHHHHHHhhhhhhcccceEEEE-eCCC----------CHHHHHHHHHHhccccCCc-eeecCCCCC
Q 020234 248 ANFTDVATTFNGIIRALREKESKLKAARMHIFVR-RGGP----------NYQTGLAKMRALGEELGIP-LEVYGPEAT 313 (329)
Q Consensus 248 ~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvr-l~G~----------~~~~ar~~l~~~~~~~gip-~~~~g~~~~ 313 (329)
.. ..++.+++.. ++||+++ ...+ +..-|..-+...+.+.|+| ..++|...+
T Consensus 76 ~~--------~~~~~~~~~~-------~~Pvll~a~~~~~~~~~~~~~~~s~~g~~~~~~~l~r~gi~~~~v~g~~~d 138 (452)
T cd00578 76 PA--------KMWIAGLSEL-------RKPVLLLATQFNREIPDFMNLNQSACGLREFGNILARLGIPFKVVYGHWKD 138 (452)
T ss_pred cH--------HHHHHHHHhc-------CCCEEEEeCCCCCCCCchhhhhcchhhhHHHHHHHHHcCCceeEEECCCCC
Confidence 21 3344445443 5898887 5553 3333444444444455998 456774443
No 36
>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=84.41 E-value=17 Score=30.95 Aligned_cols=95 Identities=14% Similarity=0.116 Sum_probs=59.1
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
.-+|+|-+-+++++.++. . ..+.+.|.+....+.+ .+. ++.+++.+++.+. ..++ +-.||.
T Consensus 31 eVi~LG~~v~~e~~v~aa---~-----~~~adiVglS~l~~~~--~~~---~~~~~~~l~~~gl----~~~~--vivGG~ 91 (134)
T TIGR01501 31 NVVNLGVLSPQEEFIKAA---I-----ETKADAILVSSLYGHG--EID---CKGLRQKCDEAGL----EGIL--LYVGGN 91 (134)
T ss_pred EEEECCCCCCHHHHHHHH---H-----HcCCCEEEEecccccC--HHH---HHHHHHHHHHCCC----CCCE--EEecCC
Confidence 458999999999888773 2 3456667766533221 222 2677788887652 2222 346663
Q ss_pred C--HH-H---HHHHHHHhccccCCceeecCCCCCHHHHHHHHHHH
Q 020234 286 N--YQ-T---GLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 324 (329)
Q Consensus 286 ~--~~-~---ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~ 324 (329)
- .+ . -++.|++. |+. .+||+-+++++.+....+.
T Consensus 92 ~vi~~~d~~~~~~~l~~~----Gv~-~vF~pgt~~~~iv~~l~~~ 131 (134)
T TIGR01501 92 LVVGKQDFPDVEKRFKEM----GFD-RVFAPGTPPEVVIADLKKD 131 (134)
T ss_pred cCcChhhhHHHHHHHHHc----CCC-EEECcCCCHHHHHHHHHHH
Confidence 1 11 1 13456665 984 6888888999888876654
No 37
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=83.19 E-value=22 Score=30.67 Aligned_cols=94 Identities=18% Similarity=0.310 Sum_probs=66.4
Q ss_pred eeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe-ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 020234 208 AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 286 (329)
Q Consensus 208 lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i-~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~ 286 (329)
+..|.-.+++.+..+ .+ +.++++|.|-. -|+- .+.. ..+++++++.+. -.+.+-.||.-
T Consensus 44 i~~g~~~tp~e~v~a---A~-----~~dv~vIgvSsl~g~h---~~l~---~~lve~lre~G~------~~i~v~~GGvi 103 (143)
T COG2185 44 INLGLFQTPEEAVRA---AV-----EEDVDVIGVSSLDGGH---LTLV---PGLVEALREAGV------EDILVVVGGVI 103 (143)
T ss_pred EecCCcCCHHHHHHH---HH-----hcCCCEEEEEeccchH---HHHH---HHHHHHHHHhCC------cceEEeecCcc
Confidence 345566677655554 34 45777888777 3332 3334 789999999863 33556788887
Q ss_pred HHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhh
Q 020234 287 YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 287 ~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~ 326 (329)
..+-.+.|++. |+. .+|++-+.+.+++...++...
T Consensus 104 p~~d~~~l~~~----G~~-~if~pgt~~~~~~~~v~~~l~ 138 (143)
T COG2185 104 PPGDYQELKEM----GVD-RIFGPGTPIEEALSDLLTRLG 138 (143)
T ss_pred CchhHHHHHHh----Ccc-eeeCCCCCHHHHHHHHHHHHH
Confidence 77778888887 875 678889999999988887654
No 38
>COG0075 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]
Probab=82.69 E-value=8.5 Score=38.45 Aligned_cols=98 Identities=23% Similarity=0.343 Sum_probs=69.9
Q ss_pred ceEecCCCcEEEEEcCCcHHHHHHHHHhccCCCCCCCce-eeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe---c
Q 020234 169 FTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNY-AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI---G 244 (329)
Q Consensus 169 l~yv~l~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~-lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i---~ 244 (329)
.|.++.++++-++.||. .+=--.|++..+ |.+.-.. .+-|-..+++.+.++++ + +|+++.|.+.| .
T Consensus 74 ~sl~~pgdkVLv~~nG~-FG~R~~~ia~~~--g~~v~~~~~~wg~~v~p~~v~~~L~---~----~~~~~~V~~vH~ETS 143 (383)
T COG0075 74 ASLVEPGDKVLVVVNGK-FGERFAEIAERY--GAEVVVLEVEWGEAVDPEEVEEALD---K----DPDIKAVAVVHNETS 143 (383)
T ss_pred HhccCCCCeEEEEeCCh-HHHHHHHHHHHh--CCceEEEeCCCCCCCCHHHHHHHHh---c----CCCccEEEEEeccCc
Confidence 35678899999999998 666677888885 5553221 13457778999999865 4 89999999999 5
Q ss_pred cccCchHHHhhhHHHHHHHHHHhhhhhhcccceEE--E-EeCCCCHH
Q 020234 245 GGIANFTDVATTFNGIIRALREKESKLKAARMHIF--V-RRGGPNYQ 288 (329)
Q Consensus 245 ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvv--v-rl~G~~~~ 288 (329)
+|+.+.. ++|.+++++++ .+-|| | .+||....
T Consensus 144 TGvlnpl------~~I~~~~k~~g------~l~iVDaVsS~Gg~~~~ 178 (383)
T COG0075 144 TGVLNPL------KEIAKAAKEHG------ALLIVDAVSSLGGEPLK 178 (383)
T ss_pred ccccCcH------HHHHHHHHHcC------CEEEEEecccCCCcccc
Confidence 7777632 67888888885 34444 3 37876543
No 39
>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=82.06 E-value=4.5 Score=42.58 Aligned_cols=64 Identities=25% Similarity=0.273 Sum_probs=42.5
Q ss_pred CCCHHHHHHHHHHHhcccccCCCCCEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHH
Q 020234 213 APNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG 290 (329)
Q Consensus 213 ~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~a 290 (329)
....+.+.+.++-..+ ||++++|++-+ |||-+-+. +.|.++++..+. .++||++.++|.-..-|
T Consensus 328 ~~~~~~~~~~l~~a~~----D~~VkaIVLrinSpGGs~~as------e~i~~~i~~~~~----~gKPVva~~~g~aaSgg 393 (584)
T TIGR00705 328 NTGGDTVAALLRVARS----DPDIKAVVLRINSPGGSVFAS------EIIRRELARAQA----RGKPVIVSMGAMAASGG 393 (584)
T ss_pred ccCHHHHHHHHHHHhh----CCCceEEEEEecCCCCCHHHH------HHHHHHHHHHHh----CCCcEEEEECCccccHH
Confidence 3445677788777777 99999999998 78744333 333344444432 35899999988654443
No 40
>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=81.59 E-value=8 Score=34.97 Aligned_cols=72 Identities=18% Similarity=0.130 Sum_probs=45.6
Q ss_pred cCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHH
Q 020234 211 SGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG 290 (329)
Q Consensus 211 gG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~a 290 (329)
.|..+.+.+.++++-+.+ ||++++|++.+++.-.+.... +.+.++++.... .++||++.+.|.....+
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 355677889999888888 999999999873222222211 233344443321 36899999888765555
Q ss_pred HHHH
Q 020234 291 LAKM 294 (329)
Q Consensus 291 r~~l 294 (329)
-.+.
T Consensus 86 y~la 89 (211)
T cd07019 86 YWIS 89 (211)
T ss_pred HHHH
Confidence 4443
No 41
>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=80.64 E-value=7.2 Score=35.58 Aligned_cols=60 Identities=13% Similarity=0.164 Sum_probs=39.7
Q ss_pred cCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 020234 211 SGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 284 (329)
Q Consensus 211 gG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G 284 (329)
+...+.+.+.++++-+.+ ||++++|++.+ +|| .... .+.+.++++.... .++||++...+
T Consensus 26 ~~~~~~~~l~~~l~~a~~----d~~ik~vvL~~~s~gg--~~~~----~~el~~~i~~~~~----~~kpVia~~~~ 87 (222)
T cd07018 26 SSELSLRDLLEALEKAAE----DDRIKGIVLDLDGLSG--GLAK----LEELRQALERFRA----SGKPVIAYADG 87 (222)
T ss_pred cCCccHHHHHHHHHHHhc----CCCeEEEEEECCCCCC--CHHH----HHHHHHHHHHHHH----hCCeEEEEeCC
Confidence 345666778888777777 99999999998 444 1111 1455556655532 35899887655
No 42
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=77.98 E-value=27 Score=33.47 Aligned_cols=103 Identities=16% Similarity=0.224 Sum_probs=69.0
Q ss_pred CCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH
Q 020234 212 GAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 291 (329)
Q Consensus 212 G~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar 291 (329)
|..+.+.+.+.++.+++ .++++++++-.+|-......... +.+++...+... .++||++-.|+++-+++.
T Consensus 20 g~vD~~a~~~lv~~li~-----~Gv~gi~~~GttGE~~~Ls~eEr-~~v~~~~v~~~~----grvpviaG~g~~~t~eai 89 (299)
T COG0329 20 GSVDEEALRRLVEFLIA-----AGVDGLVVLGTTGESPTLTLEER-KEVLEAVVEAVG----GRVPVIAGVGSNSTAEAI 89 (299)
T ss_pred CCcCHHHHHHHHHHHHH-----cCCCEEEECCCCccchhcCHHHH-HHHHHHHHHHHC----CCCcEEEecCCCcHHHHH
Confidence 66999999999999885 67999999886654433322211 344555555432 469999999999999999
Q ss_pred HHHHHhccccCC------ceeecCCCCCHHHHHHHHHHHhhh
Q 020234 292 AKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 292 ~~l~~~~~~~gi------p~~~~g~~~~~~~av~~~v~~~~~ 327 (329)
++-+.+ +++|+ |-. | +..+.++..+.+..++.+
T Consensus 90 ~lak~a-~~~Gad~il~v~Py-Y-~k~~~~gl~~hf~~ia~a 128 (299)
T COG0329 90 ELAKHA-EKLGADGILVVPPY-Y-NKPSQEGLYAHFKAIAEA 128 (299)
T ss_pred HHHHHH-HhcCCCEEEEeCCC-C-cCCChHHHHHHHHHHHHh
Confidence 888765 44563 211 1 245566666666666544
No 43
>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=76.46 E-value=32 Score=33.10 Aligned_cols=103 Identities=17% Similarity=0.130 Sum_probs=67.2
Q ss_pred cCCCCHHHHHHHHHHHhcccccCCCCCEEEEEec-cccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHH
Q 020234 211 SGAPNEEEVLQYARVVIDCATADPDGRKRALLIG-GGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQT 289 (329)
Q Consensus 211 gG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~-ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ 289 (329)
.|..+.+.+.+-++.++ +.++++++++-. |-....+. . --+.++++..+... .++||++..+.++.++
T Consensus 23 ~g~iD~~~l~~lv~~li-----~~Gv~Gi~v~GstGE~~~Lt~-e-Er~~v~~~~~~~~~----grvpvi~Gv~~~~t~~ 91 (309)
T cd00952 23 TDTVDLDETARLVERLI-----AAGVDGILTMGTFGECATLTW-E-EKQAFVATVVETVA----GRVPVFVGATTLNTRD 91 (309)
T ss_pred CCCcCHHHHHHHHHHHH-----HcCCCEEEECcccccchhCCH-H-HHHHHHHHHHHHhC----CCCCEEEEeccCCHHH
Confidence 37788999999999888 479999999873 32222111 1 01455555544432 4699999999999999
Q ss_pred HHHHHHHhccccCCc------eeecCCCCCHHHHHHHHHHHhhh
Q 020234 290 GLAKMRALGEELGIP------LEVYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 290 ar~~l~~~~~~~gip------~~~~g~~~~~~~av~~~v~~~~~ 327 (329)
+.+..+.+. +.|.. -..| ..+.++.++.+-.++.+
T Consensus 92 ai~~a~~A~-~~Gad~vlv~~P~y~--~~~~~~l~~yf~~va~a 132 (309)
T cd00952 92 TIARTRALL-DLGADGTMLGRPMWL--PLDVDTAVQFYRDVAEA 132 (309)
T ss_pred HHHHHHHHH-HhCCCEEEECCCcCC--CCCHHHHHHHHHHHHHh
Confidence 988887653 33532 1122 34667888888777654
No 44
>PLN02417 dihydrodipicolinate synthase
Probab=76.14 E-value=36 Score=32.19 Aligned_cols=107 Identities=11% Similarity=0.088 Sum_probs=70.8
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
.|+|=-|..+.+.+.+-++.++ +.++++++++-..|=...-.... -..+++...+... .++||++..+.+
T Consensus 11 TPf~~~g~iD~~~~~~~i~~l~-----~~Gv~Gi~~~GstGE~~~ls~~E-r~~~~~~~~~~~~----~~~pvi~gv~~~ 80 (280)
T PLN02417 11 TPYLPDGRFDLEAYDSLVNMQI-----ENGAEGLIVGGTTGEGQLMSWDE-HIMLIGHTVNCFG----GKIKVIGNTGSN 80 (280)
T ss_pred CCcCCCCCcCHHHHHHHHHHHH-----HcCCCEEEECccCcchhhCCHHH-HHHHHHHHHHHhC----CCCcEEEECCCc
Confidence 4566678899999999999988 47999999887443222111110 1334444343322 368999999999
Q ss_pred CHHHHHHHHHHhccccCC-------ceeecCCCCCHHHHHHHHHHHhh
Q 020234 286 NYQTGLAKMRALGEELGI-------PLEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 286 ~~~~ar~~l~~~~~~~gi-------p~~~~g~~~~~~~av~~~v~~~~ 326 (329)
+..++.+..+.+ ++.|. |. |. ..+.++.++.+-.++.
T Consensus 81 ~t~~~i~~a~~a-~~~Gadav~~~~P~--y~-~~~~~~i~~~f~~va~ 124 (280)
T PLN02417 81 STREAIHATEQG-FAVGMHAALHINPY--YG-KTSQEGLIKHFETVLD 124 (280)
T ss_pred cHHHHHHHHHHH-HHcCCCEEEEcCCc--cC-CCCHHHHHHHHHHHHh
Confidence 999999988766 33463 32 21 3466778887777664
No 45
>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=74.98 E-value=38 Score=32.24 Aligned_cols=108 Identities=13% Similarity=0.102 Sum_probs=70.7
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
-|.|=-|..+.+.+.+-++.++ +.++++++++-.+|=...-.... =..+++...+... .++||++..+.+
T Consensus 10 TPf~~dg~iD~~~l~~lv~~~~-----~~Gv~gi~v~GstGE~~~Ls~~E-r~~l~~~~~~~~~----g~~pvi~gv~~~ 79 (294)
T TIGR02313 10 TPFKRNGDIDEEALRELIEFQI-----EGGSHAISVGGTSGEPGSLTLEE-RKQAIENAIDQIA----GRIPFAPGTGAL 79 (294)
T ss_pred CCcCCCCCcCHHHHHHHHHHHH-----HcCCCEEEECccCcccccCCHHH-HHHHHHHHHHHhC----CCCcEEEECCcc
Confidence 4667778999999999999988 47999999887433222211111 0234443333321 368999999999
Q ss_pred CHHHHHHHHHHhccccCC-------ceeecCCCCCHHHHHHHHHHHhhh
Q 020234 286 NYQTGLAKMRALGEELGI-------PLEVYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 286 ~~~~ar~~l~~~~~~~gi-------p~~~~g~~~~~~~av~~~v~~~~~ 327 (329)
+.+++.+..+.+ ++.|. |.+ | ..+.++.++.+-.++..
T Consensus 80 ~t~~ai~~a~~A-~~~Gad~v~v~pP~y-~--~~~~~~l~~~f~~ia~a 124 (294)
T TIGR02313 80 NHDETLELTKFA-EEAGADAAMVIVPYY-N--KPNQEALYDHFAEVADA 124 (294)
T ss_pred hHHHHHHHHHHH-HHcCCCEEEEcCccC-C--CCCHHHHHHHHHHHHHh
Confidence 999988877765 34463 332 2 34667788888777653
No 46
>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=74.05 E-value=45 Score=31.72 Aligned_cols=109 Identities=17% Similarity=0.097 Sum_probs=70.8
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCC-CCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPD-GRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 284 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~-v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G 284 (329)
-|+|=-|..+.+.+.+-++.+++ .+ +++++++-.+|-...-... --+.+++...+... .++||++..++
T Consensus 10 TPf~~dg~iD~~~~~~~i~~~i~-----~G~v~gi~~~GstGE~~~Lt~e-Er~~~~~~~~~~~~----~~~pvi~gv~~ 79 (290)
T TIGR00683 10 VSFNEDGTINEKGLRQIIRHNID-----KMKVDGLYVGGSTGENFMLSTE-EKKEIFRIAKDEAK----DQIALIAQVGS 79 (290)
T ss_pred cCCCCCCCcCHHHHHHHHHHHHh-----CCCcCEEEECCcccccccCCHH-HHHHHHHHHHHHhC----CCCcEEEecCC
Confidence 45666678999999999999884 56 9999988633321111111 01445555444432 36899999999
Q ss_pred CCHHHHHHHHHHhccccCC------ceeecCCCCCHHHHHHHHHHHhhh
Q 020234 285 PNYQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 285 ~~~~~ar~~l~~~~~~~gi------p~~~~g~~~~~~~av~~~v~~~~~ 327 (329)
.+.+++.+..+.+ ++.|. |-..| ..|.++.+..+-+++.+
T Consensus 80 ~~t~~~i~la~~a-~~~Gad~v~v~~P~y~--~~~~~~i~~yf~~v~~~ 125 (290)
T TIGR00683 80 VNLKEAVELGKYA-TELGYDCLSAVTPFYY--KFSFPEIKHYYDTIIAE 125 (290)
T ss_pred CCHHHHHHHHHHH-HHhCCCEEEEeCCcCC--CCCHHHHHHHHHHHHhh
Confidence 9989888877765 34463 22222 45678888888877653
No 47
>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=73.38 E-value=26 Score=29.80 Aligned_cols=61 Identities=21% Similarity=0.311 Sum_probs=39.6
Q ss_pred CCHHHHHHHHHHHhcccccCCCCCEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH
Q 020234 214 PNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 291 (329)
Q Consensus 214 a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar 291 (329)
.+.+.+.++++-+-+ |+++++|++.+ +||-. ... ..|.+++++. ++||++...|.-...+-
T Consensus 11 ~~~~~l~~~l~~a~~----d~~~~~ivl~~~s~Gg~~---~~~---~~i~~~l~~~-------~kpvva~~~g~~~s~g~ 73 (161)
T cd00394 11 VSADQLAAQIRFAEA----DNSVKAIVLEVNTPGGRV---DAG---MNIVDALQAS-------RKPVIAYVGGQAASAGY 73 (161)
T ss_pred chHHHHHHHHHHHHh----CCCCceEEEEEECCCcCH---HHH---HHHHHHHHHh-------CCCEEEEECChhHHHHH
Confidence 344556666665555 89999998876 56522 112 5677777665 48999998876555443
No 48
>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=73.38 E-value=24 Score=31.60 Aligned_cols=68 Identities=19% Similarity=0.260 Sum_probs=43.8
Q ss_pred CCCCHHHHHHHHHHHhcccccCCCCCEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHH
Q 020234 212 GAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQT 289 (329)
Q Consensus 212 G~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ 289 (329)
|......+.++++.+.+ ||++++|++.+ +||-.. . + +.+.++++.... .++||++...|.....
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 45677778888888777 99999999987 444211 1 1 444455554432 3689998887765544
Q ss_pred HHHH
Q 020234 290 GLAK 293 (329)
Q Consensus 290 ar~~ 293 (329)
|-.+
T Consensus 81 g~~l 84 (208)
T cd07023 81 GYYI 84 (208)
T ss_pred HHHH
Confidence 4433
No 49
>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=73.26 E-value=46 Score=31.17 Aligned_cols=108 Identities=11% Similarity=0.092 Sum_probs=70.0
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
-|+|=-|..+.+.+.+-++.++ +.++++++++-..|-...-... --+-+++...+... .++||++..+++
T Consensus 10 TPf~~dg~iD~~~~~~~i~~l~-----~~Gv~gl~v~GstGE~~~lt~~-Er~~l~~~~~~~~~----~~~~vi~gv~~~ 79 (284)
T cd00950 10 TPFKDDGSVDFDALERLIEFQI-----ENGTDGLVVCGTTGESPTLSDE-EHEAVIEAVVEAVN----GRVPVIAGTGSN 79 (284)
T ss_pred CCcCCCCCcCHHHHHHHHHHHH-----HcCCCEEEECCCCcchhhCCHH-HHHHHHHHHHHHhC----CCCcEEeccCCc
Confidence 4555668889999999999888 4789999998643322221111 11455555555432 368999999999
Q ss_pred CHHHHHHHHHHhccccCCce------eecCCCCCHHHHHHHHHHHhh
Q 020234 286 NYQTGLAKMRALGEELGIPL------EVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 286 ~~~~ar~~l~~~~~~~gip~------~~~g~~~~~~~av~~~v~~~~ 326 (329)
+.+++.+..+.+ ++.|... ..| ..+.++.++.+-+++.
T Consensus 80 ~~~~~~~~a~~a-~~~G~d~v~~~~P~~~--~~~~~~l~~~~~~ia~ 123 (284)
T cd00950 80 NTAEAIELTKRA-EKAGADAALVVTPYYN--KPSQEGLYAHFKAIAE 123 (284)
T ss_pred cHHHHHHHHHHH-HHcCCCEEEEcccccC--CCCHHHHHHHHHHHHh
Confidence 999998888776 3446431 111 2355777777766654
No 50
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=73.23 E-value=44 Score=31.66 Aligned_cols=109 Identities=17% Similarity=0.199 Sum_probs=70.6
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
-|+|=-|..+.+.+.+-++.+++ ..++++++++-.+|=...-... --..+++...+... .++||++-.|.+
T Consensus 13 TPf~~dg~iD~~~~~~li~~l~~----~~Gv~gi~v~GstGE~~~Ls~e-Er~~~~~~~~~~~~----~~~~viagvg~~ 83 (293)
T PRK04147 13 TPFDEDGQIDEQGLRRLVRFNIE----KQGIDGLYVGGSTGEAFLLSTE-EKKQVLEIVAEEAK----GKVKLIAQVGSV 83 (293)
T ss_pred CcCCCCCCcCHHHHHHHHHHHHh----cCCCCEEEECCCccccccCCHH-HHHHHHHHHHHHhC----CCCCEEecCCCC
Confidence 56666788999999999998883 3899999988743321111111 01345555444432 368999999999
Q ss_pred CHHHHHHHHHHhccccCC-------ceeecCCCCCHHHHHHHHHHHhhh
Q 020234 286 NYQTGLAKMRALGEELGI-------PLEVYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 286 ~~~~ar~~l~~~~~~~gi-------p~~~~g~~~~~~~av~~~v~~~~~ 327 (329)
+.+++.+..+.+ ++.|. |.+ | ..+.++.++.+.+++.+
T Consensus 84 ~t~~ai~~a~~a-~~~Gad~v~v~~P~y-~--~~~~~~l~~~f~~va~a 128 (293)
T PRK04147 84 NTAEAQELAKYA-TELGYDAISAVTPFY-Y--PFSFEEICDYYREIIDS 128 (293)
T ss_pred CHHHHHHHHHHH-HHcCCCEEEEeCCcC-C--CCCHHHHHHHHHHHHHh
Confidence 989988877665 33464 432 1 34567777777776653
No 51
>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=73.14 E-value=20 Score=32.24 Aligned_cols=63 Identities=21% Similarity=0.248 Sum_probs=42.8
Q ss_pred CCHHHHHHHHHHHhcccccCCCCCEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH
Q 020234 214 PNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 291 (329)
Q Consensus 214 a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar 291 (329)
.+.+.+.++++-+.+ |+++++|++.+ +||-.. ..+.+.+++++.+ .++||++.+.|.....|-
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----DKSIKALLLRINSPGGTVV------ASEEIYEKLKKLK-----AKKPVVASMGGVAASGGY 77 (207)
T ss_pred cCHHHHHHHHHHHhh----CCCccEEEEEecCCCCCHH------HHHHHHHHHHHhc-----CCCCEEEEECCccchHHH
Confidence 456778888888777 99999999987 444221 1255666676653 258999988776544443
No 52
>PRK12815 carB carbamoyl phosphate synthase large subunit; Reviewed
Probab=70.16 E-value=12 Score=42.17 Aligned_cols=32 Identities=25% Similarity=0.381 Sum_probs=26.7
Q ss_pred eecEEEEeecCCCCceEEEEEEEeCCCCeEEE
Q 020234 7 PITTFIVEPFVPHNQEYYLSIVSDRLGCTISF 38 (329)
Q Consensus 7 ~v~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~ 38 (329)
+...++||++++..+|+++.+..|+.+.++++
T Consensus 200 ~~~~vLVEe~I~G~~E~sv~v~rD~~g~~~~~ 231 (1068)
T PRK12815 200 PIHQCLLEESIAGWKEIEYEVMRDRNGNCITV 231 (1068)
T ss_pred CCCeEEEEEccCCCeEEEEEEEEcCCCCEEEE
Confidence 35689999999999999999999988765443
No 53
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=70.12 E-value=58 Score=30.72 Aligned_cols=109 Identities=12% Similarity=0.097 Sum_probs=69.9
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
-|+|=.|..+.+.+.+-++.++ +.++++++++-..|-...-.... -..+++...+... .++||++..++.
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 4566678899999999999988 47999999887433222111110 0344554444432 368999999998
Q ss_pred CHHHHHHHHHHhccccCCc------eeecCCCCCHHHHHHHHHHHhhh
Q 020234 286 NYQTGLAKMRALGEELGIP------LEVYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 286 ~~~~ar~~l~~~~~~~gip------~~~~g~~~~~~~av~~~v~~~~~ 327 (329)
+.+++.+..+.+ ++.|.. -..| ..+.++.++.+-.++.+
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 889988888765 344632 1112 33567777777776643
No 54
>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=70.08 E-value=62 Score=30.19 Aligned_cols=109 Identities=16% Similarity=0.135 Sum_probs=69.9
Q ss_pred eeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 020234 207 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 286 (329)
Q Consensus 207 ~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~ 286 (329)
|.|=-|..+.+.+.+-++.+++ .++++++++-..|=...-.... -+.+++...+... .+.||++..++++
T Consensus 8 Pf~~dg~iD~~~~~~~i~~l~~-----~Gv~gi~~~GstGE~~~ls~~E-r~~l~~~~~~~~~----~~~~vi~gv~~~~ 77 (281)
T cd00408 8 PFTADGEVDLDALRRLVEFLIE-----AGVDGLVVLGTTGEAPTLTDEE-RKEVIEAVVEAVA----GRVPVIAGVGANS 77 (281)
T ss_pred CcCCCCCcCHHHHHHHHHHHHH-----cCCCEEEECCCCcccccCCHHH-HHHHHHHHHHHhC----CCCeEEEecCCcc
Confidence 4555678899999999999885 6999999887433222111110 1455555555432 3689999999999
Q ss_pred HHHHHHHHHHhccccCCcee-----ecCCCCCHHHHHHHHHHHhhh
Q 020234 287 YQTGLAKMRALGEELGIPLE-----VYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 287 ~~~ar~~l~~~~~~~gip~~-----~~g~~~~~~~av~~~v~~~~~ 327 (329)
.+++.+..+.+ ++.|.... .| ...+.++.++.+-.++.+
T Consensus 78 ~~~~i~~a~~a-~~~Gad~v~v~pP~y-~~~~~~~~~~~~~~ia~~ 121 (281)
T cd00408 78 TREAIELARHA-EEAGADGVLVVPPYY-NKPSQEGIVAHFKAVADA 121 (281)
T ss_pred HHHHHHHHHHH-HHcCCCEEEECCCcC-CCCCHHHHHHHHHHHHhc
Confidence 88888877665 33463211 11 134678888887777653
No 55
>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=69.32 E-value=87 Score=29.44 Aligned_cols=109 Identities=10% Similarity=0.084 Sum_probs=70.3
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
-|++-.|..+.+.+.+-++.+++ .++++++++-.+|=..+-... --+-+++...+... .++||++..++.
T Consensus 11 TPf~~dg~id~~~~~~~i~~l~~-----~Gv~gl~~~GstGE~~~Lt~~-Er~~l~~~~~~~~~----~~~~vi~gv~~~ 80 (289)
T PF00701_consen 11 TPFNADGSIDEDALKRLIDFLIE-----AGVDGLVVLGSTGEFYSLTDE-ERKELLEIVVEAAA----GRVPVIAGVGAN 80 (289)
T ss_dssp --BETTSSB-HHHHHHHHHHHHH-----TTSSEEEESSTTTTGGGS-HH-HHHHHHHHHHHHHT----TSSEEEEEEESS
T ss_pred CCCCCCcCcCHHHHHHHHHHHHH-----cCCCEEEECCCCcccccCCHH-HHHHHHHHHHHHcc----CceEEEecCcch
Confidence 35666788899999999999885 589999987643322211111 11345555544432 469999999999
Q ss_pred CHHHHHHHHHHhccccCCcee-----ecCCCCCHHHHHHHHHHHhh
Q 020234 286 NYQTGLAKMRALGEELGIPLE-----VYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 286 ~~~~ar~~l~~~~~~~gip~~-----~~g~~~~~~~av~~~v~~~~ 326 (329)
+.+++.+..+.+ ++.|+... .| ...|.++.++.+-.++.
T Consensus 81 st~~~i~~a~~a-~~~Gad~v~v~~P~~-~~~s~~~l~~y~~~ia~ 124 (289)
T PF00701_consen 81 STEEAIELARHA-QDAGADAVLVIPPYY-FKPSQEELIDYFRAIAD 124 (289)
T ss_dssp SHHHHHHHHHHH-HHTT-SEEEEEESTS-SSCCHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHH-hhcCceEEEEecccc-ccchhhHHHHHHHHHHh
Confidence 999999988876 34564311 12 14688888888877774
No 56
>COG1992 Uncharacterized conserved protein [Function unknown]
Probab=68.69 E-value=21 Score=31.95 Aligned_cols=21 Identities=14% Similarity=0.422 Sum_probs=17.2
Q ss_pred eeecCCCCCHHHHHHHHHHHhhh
Q 020234 305 LEVYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 305 ~~~~g~~~~~~~av~~~v~~~~~ 327 (329)
+++|| .++.|+++++++++.+
T Consensus 159 i~v~g--r~a~evv~k~l~ll~k 179 (181)
T COG1992 159 IRVLG--RNAVEVVEKALRLLLK 179 (181)
T ss_pred EEEeC--CCHHHHHHHHHHHHHh
Confidence 46665 7999999999998865
No 57
>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=68.65 E-value=72 Score=30.05 Aligned_cols=109 Identities=9% Similarity=0.081 Sum_probs=69.6
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
-|+|=-|..+.+.+.+-++.++ +.++++++++-..|-...-... --+.+++...+... .++||++..+.+
T Consensus 8 TPf~~~g~iD~~~~~~~i~~l~-----~~Gv~Gi~~~GstGE~~~Ls~~-Er~~~~~~~~~~~~----~~~~vi~gv~~~ 77 (285)
T TIGR00674 8 TPFKEDGSVDFAALEKLIDFQI-----ENGTDAIVVVGTTGESPTLSHE-EHKKVIEFVVDLVN----GRVPVIAGTGSN 77 (285)
T ss_pred CCcCCCCCcCHHHHHHHHHHHH-----HcCCCEEEECccCcccccCCHH-HHHHHHHHHHHHhC----CCCeEEEeCCCc
Confidence 3555668899999999988888 4799999988643322222211 11345554444321 368999999999
Q ss_pred CHHHHHHHHHHhccccCC------ceeecCCCCCHHHHHHHHHHHhhh
Q 020234 286 NYQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 286 ~~~~ar~~l~~~~~~~gi------p~~~~g~~~~~~~av~~~v~~~~~ 327 (329)
+.+++.++.+.+ ++.|. |-..| ..+.++.++.+-.++.+
T Consensus 78 s~~~~i~~a~~a-~~~Gad~v~v~pP~y~--~~~~~~i~~~~~~i~~~ 122 (285)
T TIGR00674 78 ATEEAISLTKFA-EDVGADGFLVVTPYYN--KPTQEGLYQHFKAIAEE 122 (285)
T ss_pred cHHHHHHHHHHH-HHcCCCEEEEcCCcCC--CCCHHHHHHHHHHHHhc
Confidence 999988887765 33463 21222 34667777777776643
No 58
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=68.32 E-value=66 Score=30.73 Aligned_cols=108 Identities=16% Similarity=0.125 Sum_probs=68.3
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
-|+|=-|..+.+.+.+-++.++ +.++++++++-.+|-...-.... -..+++...+... .++||++..++
T Consensus 17 TPf~~dg~iD~~~l~~li~~l~-----~~Gv~Gi~~~GstGE~~~Lt~eE-r~~~~~~~~~~~~----~~~pvi~gv~~- 85 (303)
T PRK03620 17 TPFDADGSFDEAAYREHLEWLA-----PYGAAALFAAGGTGEFFSLTPDE-YSQVVRAAVETTA----GRVPVIAGAGG- 85 (303)
T ss_pred CCCCCCCCcCHHHHHHHHHHHH-----HcCCCEEEECcCCcCcccCCHHH-HHHHHHHHHHHhC----CCCcEEEecCC-
Confidence 4566668899999999999888 46899999887433222211110 1344554444322 36899998876
Q ss_pred CHHHHHHHHHHhccccCCc------eeecCCCCCHHHHHHHHHHHhhh
Q 020234 286 NYQTGLAKMRALGEELGIP------LEVYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 286 ~~~~ar~~l~~~~~~~gip------~~~~g~~~~~~~av~~~v~~~~~ 327 (329)
+..++.+..+.+ ++.|.. -..| ..+.++.++.+..++.+
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 788888887765 334632 1111 34667777777777654
No 59
>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=67.77 E-value=37 Score=34.15 Aligned_cols=30 Identities=13% Similarity=0.405 Sum_probs=25.2
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCCCeEEE
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLGCTISF 38 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~ 38 (329)
..++|||+++..+|+.+++..|..+.++.+
T Consensus 195 ~~vlvEe~i~g~~e~~v~v~~d~~g~~~~~ 224 (449)
T TIGR00514 195 DGVYIEKYIENPRHVEIQVLADKYGNAIYL 224 (449)
T ss_pred CCEEEEECCCCCeEEEEEEEEcCCCCEEEE
Confidence 469999999988999999999987766554
No 60
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=66.92 E-value=40 Score=33.88 Aligned_cols=120 Identities=16% Similarity=0.127 Sum_probs=70.8
Q ss_pred CCcEEEEEcCCcHHHHHHHHHhccCCCCCCC-cee----eccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCc
Q 020234 175 KGRIWTMVAGGGASVIYADTVGDLGYASELG-NYA----EYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIAN 249 (329)
Q Consensus 175 ~g~I~ii~NG~Glam~t~D~l~~~g~gg~pa-N~l----DlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~ 249 (329)
.-+||+|+.-.|+++ -|.+.... -=.|. ++. =+=|.-.+..+.+|++.+-. ...|+|+|.=.|| .
T Consensus 135 p~~I~viTs~~gAa~--~D~~~~~~-~r~p~~~~~~~~~~vQG~~A~~~i~~al~~~~~-----~~~Dviii~RGGG-S- 204 (438)
T PRK00286 135 PKRIGVITSPTGAAI--RDILTVLR-RRFPLVEVIIYPTLVQGEGAAASIVAAIERANA-----RGEDVLIVARGGG-S- 204 (438)
T ss_pred CCEEEEEeCCccHHH--HHHHHHHH-hcCCCCeEEEecCcCcCccHHHHHHHHHHHhcC-----CCCCEEEEecCCC-C-
Confidence 578999999998774 68776651 11242 322 23456567778899888654 2366665444555 2
Q ss_pred hHHHhh-hHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHH
Q 020234 250 FTDVAT-TFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 323 (329)
Q Consensus 250 ~~~vA~-~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~ 323 (329)
.+|.++ +=+.+++|+-+ .+.||++-+|-....-=-..-.+ . ...||++|++.++.
T Consensus 205 ~eDL~~Fn~e~v~~ai~~-------~~~Pvis~IGHE~D~tl~D~vAd------~------ra~TPtaaae~~~~ 260 (438)
T PRK00286 205 LEDLWAFNDEAVARAIAA-------SRIPVISAVGHETDFTIADFVAD------L------RAPTPTAAAELAVP 260 (438)
T ss_pred HHHhhccCcHHHHHHHHc-------CCCCEEEeccCCCCccHHHHhhh------c------cCCChHHHHHHhCc
Confidence 233331 11345555444 36999999998653321111122 1 26799999998764
No 61
>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=66.30 E-value=45 Score=33.74 Aligned_cols=120 Identities=14% Similarity=0.096 Sum_probs=73.0
Q ss_pred CCcEEEEEcCCcHHHHHHHHHhccCCCCCC-Ccee----eccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCc
Q 020234 175 KGRIWTMVAGGGASVIYADTVGDLGYASEL-GNYA----EYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIAN 249 (329)
Q Consensus 175 ~g~I~ii~NG~Glam~t~D~l~~~g~gg~p-aN~l----DlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~ 249 (329)
.-+||+||.-.|++. -|.+.....- -| .++. -+=|.-.+..+.+|++.+-. .+++|+|+|.=.||-.
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 578999999888765 5777664111 24 2333 34466677889999888765 5567766555455422
Q ss_pred hHHHhh-hHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHH
Q 020234 250 FTDVAT-TFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAI 322 (329)
Q Consensus 250 ~~~vA~-~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v 322 (329)
+|.+. +=+.+++|+-. .++|||+-+|-..-..=-..-.+ . ...||++|++.++
T Consensus 201 -eDL~~Fn~e~~~rai~~-------~~~Pvis~iGHe~D~ti~D~vAd------~------ra~TPtaaae~~~ 254 (432)
T TIGR00237 201 -EDLWSFNDEKVARAIFL-------SKIPIISAVGHETDFTISDFVAD------L------RAPTPSAAAEIVS 254 (432)
T ss_pred -HHhhhcCcHHHHHHHHc-------CCCCEEEecCcCCCccHHHHhhh------c------cCCCcHHHHHHhC
Confidence 33331 11345555433 37999999998653321112222 2 2679999998876
No 62
>PRK08591 acetyl-CoA carboxylase biotin carboxylase subunit; Validated
Probab=65.21 E-value=23 Score=35.44 Aligned_cols=30 Identities=13% Similarity=0.337 Sum_probs=24.3
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCCCeEEE
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLGCTISF 38 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~ 38 (329)
..++||++++..+|+.+.+..|+.+.++.+
T Consensus 195 ~~vlvEe~i~g~~e~~v~v~~d~~g~~~~~ 224 (451)
T PRK08591 195 PGVYMEKYLENPRHIEIQVLADGHGNAIHL 224 (451)
T ss_pred CCEEEEeCCCCCcEEEEEEEEcCCCCEEEE
Confidence 368999999888898889999987766544
No 63
>COG1090 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]
Probab=63.18 E-value=12 Score=35.82 Aligned_cols=143 Identities=13% Similarity=0.124 Sum_probs=84.6
Q ss_pred hhhhccCCceEecCCCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEE
Q 020234 161 EKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRA 240 (329)
Q Consensus 161 e~~a~~~~l~yv~l~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vl 240 (329)
...|+..|.-.+ =-|+|++-.+.|-++..|=-+-..|-||+.++=-..=-=..-|++.+++..+++ ++++.+.+
T Consensus 145 a~~a~~~gtRvv--llRtGvVLs~~GGaL~~m~~~fk~glGG~~GsGrQ~~SWIhieD~v~~I~fll~----~~~lsGp~ 218 (297)
T COG1090 145 ALQAQQLGTRVV--LLRTGVVLSPDGGALGKMLPLFKLGLGGKLGSGRQWFSWIHIEDLVNAILFLLE----NEQLSGPF 218 (297)
T ss_pred HhhhhhcCceEE--EEEEEEEecCCCcchhhhcchhhhccCCccCCCCceeeeeeHHHHHHHHHHHHh----CcCCCCcc
Confidence 334555555444 247888877666677777777776667765321100011245788899999998 99999885
Q ss_pred EEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccce-EEEE--eCCCCHH---HHHHHHHHhccccCCceeecCCCC
Q 020234 241 LLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMH-IFVR--RGGPNYQ---TGLAKMRALGEELGIPLEVYGPEA 312 (329)
Q Consensus 241 v~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~p-vvvr--l~G~~~~---~ar~~l~~~~~~~gip~~~~g~~~ 312 (329)
|. |.-+.+ .+.+ +++.+++++-. ..++| ...| ||. .+. .+.+.+=+.+.+.|.... |+
T Consensus 219 -N~taP~PV~~-~~F~---~al~r~l~RP~----~~~vP~~~~rl~LGe-~a~~lL~gQrvlP~kl~~aGF~F~----y~ 284 (297)
T COG1090 219 -NLTAPNPVRN-KEFA---HALGRALHRPA----ILPVPSFALRLLLGE-MADLLLGGQRVLPKKLEAAGFQFQ----YP 284 (297)
T ss_pred -cccCCCcCcH-HHHH---HHHHHHhCCCc----cccCcHHHHHHHhhh-hHHHHhccchhhHHHHHHCCCeee----cC
Confidence 65 665543 5666 77777665311 24566 3355 442 211 222333233344588764 88
Q ss_pred CHHHHHHHHHH
Q 020234 313 TMTGICKQAID 323 (329)
Q Consensus 313 ~~~~av~~~v~ 323 (329)
++++|....++
T Consensus 285 dl~~AL~~il~ 295 (297)
T COG1090 285 DLEEALADILK 295 (297)
T ss_pred CHHHHHHHHHh
Confidence 99999987764
No 64
>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=62.42 E-value=68 Score=28.91 Aligned_cols=65 Identities=26% Similarity=0.254 Sum_probs=42.7
Q ss_pred cCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHH
Q 020234 211 SGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ 288 (329)
Q Consensus 211 gG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~ 288 (329)
.+....+.+.++++-+.+ ||++++|++.+ +||- . .-. +.+.++++... . ++||++.+.|.-..
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--V-AGV---FELADAIRAAR----A-GKPIVAFVNGLAAS 86 (214)
T ss_pred CCcccHHHHHHHHHHHhh----CCCCcEEEEEEeCCCCc--H-HHH---HHHHHHHHHHh----c-CCCEEEEECCchhh
Confidence 344567788888888777 99999999977 4432 1 111 44556666553 1 58999888775444
Q ss_pred HH
Q 020234 289 TG 290 (329)
Q Consensus 289 ~a 290 (329)
.|
T Consensus 87 ~g 88 (214)
T cd07022 87 AA 88 (214)
T ss_pred HH
Confidence 44
No 65
>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=61.51 E-value=1.4e+02 Score=28.09 Aligned_cols=110 Identities=15% Similarity=0.124 Sum_probs=69.6
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCC-CCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADP-DGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 284 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~-~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G 284 (329)
-|+|=-|..+.+.+.+-++.+++ . ++++++++-.+|=...-.... -+.++++..+... .++||++..+.
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 45556688899999999999884 6 899999887433222222111 1344554444432 36899999998
Q ss_pred CCHHHHHHHHHHhccccCCceee-----cCCCCCHHHHHHHHHHHhhh
Q 020234 285 PNYQTGLAKMRALGEELGIPLEV-----YGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 285 ~~~~~ar~~l~~~~~~~gip~~~-----~g~~~~~~~av~~~v~~~~~ 327 (329)
++.+++.+..+.+ ++.|..... | ...|.++.++.+-.++.+
T Consensus 80 ~~~~~ai~~a~~a-~~~Gad~v~~~~P~y-~~~~~~~i~~~~~~v~~a 125 (288)
T cd00954 80 LNLKESQELAKHA-EELGYDAISAITPFY-YKFSFEEIKDYYREIIAA 125 (288)
T ss_pred CCHHHHHHHHHHH-HHcCCCEEEEeCCCC-CCCCHHHHHHHHHHHHHh
Confidence 8888888877665 334632211 2 134667788877777653
No 66
>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=59.33 E-value=1.2e+02 Score=28.68 Aligned_cols=108 Identities=13% Similarity=0.127 Sum_probs=66.5
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
-|+|=-|..+.+.+.+-++.++ +.++++++++-.+|-...-.... -+.+++...+... .++||++..|.
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 4566668889999999988888 47899999886332221111110 1445554444432 36899999875
Q ss_pred CHHHHHHHHHHhccccCC------ceeecCCCCCHHHHHHHHHHHhhh
Q 020234 286 NYQTGLAKMRALGEELGI------PLEVYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 286 ~~~~ar~~l~~~~~~~gi------p~~~~g~~~~~~~av~~~v~~~~~ 327 (329)
+.+++.+..+.+ ++.|. |-..| ..+.++.++.+-+++.+
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 688888877765 33463 21111 23567777777766643
No 67
>PRK06019 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed
Probab=57.22 E-value=40 Score=33.03 Aligned_cols=30 Identities=27% Similarity=0.466 Sum_probs=24.5
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCCCeEEE
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLGCTISF 38 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~ 38 (329)
..++||++++..+|+.+.+..|.++.+..+
T Consensus 171 ~~~ivEe~I~~~~E~sv~~~~~~~G~~~~~ 200 (372)
T PRK06019 171 VPCILEEFVPFEREVSVIVARGRDGEVVFY 200 (372)
T ss_pred CCEEEEecCCCCeEEEEEEEECCCCCEEEe
Confidence 368999999999999998888877765544
No 68
>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=55.78 E-value=1.6e+02 Score=27.92 Aligned_cols=108 Identities=17% Similarity=0.134 Sum_probs=63.8
Q ss_pred ceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 206 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 206 N~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
-|.|=-|..+.+.+.+-++.++ +.++++++++-..|=...-.... -..+++...+... .++||++-.+.
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 3455567888899999888887 47899999886322211111110 0344444333321 36899988876
Q ss_pred CHHHHHHHHHHhccccCCc------eeecCCCCCHHHHHHHHHHHhhh
Q 020234 286 NYQTGLAKMRALGEELGIP------LEVYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 286 ~~~~ar~~l~~~~~~~gip------~~~~g~~~~~~~av~~~v~~~~~ 327 (329)
+..++.+..+.+ ++.|.. -..| ..+.++.++.+-.++..
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 778887776654 344532 1111 34566677777666543
No 69
>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=55.55 E-value=1.4e+02 Score=26.47 Aligned_cols=119 Identities=13% Similarity=0.079 Sum_probs=63.8
Q ss_pred CcEEEEEcCCcHHH------HHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCc
Q 020234 176 GRIWTMVAGGGASV------IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIAN 249 (329)
Q Consensus 176 g~I~ii~NG~Glam------~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~ 249 (329)
++|+++.+..+... -..+.+..+ |.+..-+.-+.++.+.+..+++++-+++ +.|++++++. .
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 47888875544221 112455553 3332211122334444445555555554 2577888863 2
Q ss_pred hHHHhhhHHHHHHHHHHhhhhhhcccce---EEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHh
Q 020234 250 FTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 325 (329)
Q Consensus 250 ~~~vA~~~~gii~al~~~~~~~~~~~~p---vvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~ 325 (329)
++..| .++++++++.+ .++| .++..+++ ..+++.+.. ++.+. ..++++..+.+++++
T Consensus 185 ~d~~a---~~~~~~l~~~g-----~~vp~di~v~g~d~~--~~~~~~~~~-----~~~ti----~~~~~~~g~~a~~~l 244 (269)
T cd06288 185 NDRMA---MGAYQALLERG-----LRIPQDVSVVGFDNQ--EIIAEHLRP-----PLTTV----ALPHYEMGRWAVELL 244 (269)
T ss_pred CcHHH---HHHHHHHHHcC-----CCCcccceEEeeCCc--hhhhhccCC-----CceeE----ecCHHHHHHHHHHHH
Confidence 36666 89999999886 2333 34556664 333333332 55542 456677777777655
No 70
>PRK14188 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=54.95 E-value=1.5e+02 Score=28.65 Aligned_cols=102 Identities=14% Similarity=0.157 Sum_probs=60.0
Q ss_pred eeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEec--cccCchH-----------------H-----------HhhhH
Q 020234 208 AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIG--GGIANFT-----------------D-----------VATTF 257 (329)
Q Consensus 208 lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~--ggi~~~~-----------------~-----------vA~~~ 257 (329)
..+..+.+.+.+.+.++-+-+ |+++++++|-.| .++.... . +-.|.
T Consensus 67 ~~l~~~~~~~el~~~i~~lN~----d~~V~GIlvq~Plp~~~~~~~i~~~I~p~KDVDGl~~~n~g~l~~~~~~~~PcTp 142 (296)
T PRK14188 67 HKLPADTSQAELLALIARLNA----DPAIHGILVQLPLPKHLDSEAVIQAIDPEKDVDGLHVVNAGRLATGETALVPCTP 142 (296)
T ss_pred EECCCCCCHHHHHHHHHHHhC----CCCCcEEEEeCCCCCCCCHHHHHhccCcccccccCChhhHHHHhCCCCCCcCCCH
Confidence 466778888888888777777 888888888873 4332100 0 11234
Q ss_pred HHHHHHHHHhhhhhhcccceEEEE-eCCCCHHHHHHHHHHhccccCCceeecC-CCCCHHHHHH
Q 020234 258 NGIIRALREKESKLKAARMHIFVR-RGGPNYQTGLAKMRALGEELGIPLEVYG-PEATMTGICK 319 (329)
Q Consensus 258 ~gii~al~~~~~~~~~~~~pvvvr-l~G~~~~~ar~~l~~~~~~~gip~~~~g-~~~~~~~av~ 319 (329)
+|+++-++.++-.. ..+.|++. ..+..-..--..|.+. |.++.++- ...++.++++
T Consensus 143 ~ai~~ll~~~~i~~--~Gk~V~viGrs~~mG~PmA~~L~~~----g~tVtv~~~rT~~l~e~~~ 200 (296)
T PRK14188 143 LGCMMLLRRVHGDL--SGLNAVVIGRSNLVGKPMAQLLLAA----NATVTIAHSRTRDLPAVCR 200 (296)
T ss_pred HHHHHHHHHhCCCC--CCCEEEEEcCCcchHHHHHHHHHhC----CCEEEEECCCCCCHHHHHh
Confidence 89999888764211 23455544 5555444433444444 88888862 1224555554
No 71
>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=54.00 E-value=55 Score=28.99 Aligned_cols=58 Identities=14% Similarity=0.066 Sum_probs=37.3
Q ss_pred HHHHHHHHHhcccccCCCCCEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHH
Q 020234 218 EVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAK 293 (329)
Q Consensus 218 ~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~ 293 (329)
.+.++++-..+ ++ .+.+++.+ |||...+ + +.|.+.++.. ++|+++.+.|.-...|--+
T Consensus 17 ~l~~~l~~a~~----~~-~~~ivl~inspGG~v~~---~---~~I~~~l~~~-------~~pvva~V~g~AaSaG~~i 76 (178)
T cd07021 17 FVERALKEAKE----EG-ADAVVLDIDTPGGRVDS---A---LEIVDLILNS-------PIPTIAYVNDRAASAGALI 76 (178)
T ss_pred HHHHHHHHHHh----CC-CCeEEEEEECcCCCHHH---H---HHHHHHHHhC-------CCCEEEEECCchHHHHHHH
Confidence 35555555454 55 67777766 8887542 2 6677777664 5899999988665544333
No 72
>PRK14194 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=52.04 E-value=1.9e+02 Score=28.01 Aligned_cols=103 Identities=16% Similarity=0.165 Sum_probs=61.5
Q ss_pred eeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEec--cccCchH----------------------------HHhhhH
Q 020234 208 AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIG--GGIANFT----------------------------DVATTF 257 (329)
Q Consensus 208 lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~--ggi~~~~----------------------------~vA~~~ 257 (329)
..+..+.+.+.+.+.++-+-+ ||++++++|-.| .++.... -+-.|.
T Consensus 68 ~~l~~~~t~~~l~~~I~~lN~----D~~V~GIlvqlPLP~~i~~~~i~~~I~p~KDVDGl~~~N~g~l~~~~~~~~PcTp 143 (301)
T PRK14194 68 HRLPADTSQARLLALIAELNA----DPSVNGILLQLPLPAHIDEARVLQAINPLKDVDGFHSENVGGLSQGRDVLTPCTP 143 (301)
T ss_pred EECCCCCCHHHHHHHHHHHcC----CCCCCeEEEeCCCCCCCCHHHHHhccCchhccCccChhhhhHHhcCCCCCCCCcH
Confidence 467778888888888887777 888888888874 4332110 011233
Q ss_pred HHHHHHHHHhhhhhhcccceEE-EEeCCCCHHHHHHHHHHhccccCCceeecCC-CCCHHHHHHH
Q 020234 258 NGIIRALREKESKLKAARMHIF-VRRGGPNYQTGLAKMRALGEELGIPLEVYGP-EATMTGICKQ 320 (329)
Q Consensus 258 ~gii~al~~~~~~~~~~~~pvv-vrl~G~~~~~ar~~l~~~~~~~gip~~~~g~-~~~~~~av~~ 320 (329)
.|+++-++.++-.. ..+.|+ +-+||.--..=-..|.+. |..+.++.. ..++.++++.
T Consensus 144 ~aii~lL~~~~i~l--~Gk~V~vIG~s~ivG~PmA~~L~~~----gatVtv~~~~t~~l~e~~~~ 202 (301)
T PRK14194 144 SGCLRLLEDTCGDL--TGKHAVVIGRSNIVGKPMAALLLQA----HCSVTVVHSRSTDAKALCRQ 202 (301)
T ss_pred HHHHHHHHHhCCCC--CCCEEEEECCCCccHHHHHHHHHHC----CCEEEEECCCCCCHHHHHhc
Confidence 78898888774221 234444 447665444434445544 888887732 2356665543
No 73
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=51.61 E-value=37 Score=33.70 Aligned_cols=68 Identities=10% Similarity=0.151 Sum_probs=44.8
Q ss_pred HHHHHHHHHhccCCC--CCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHH
Q 020234 187 ASVIYADTVGDLGYA--SELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRAL 264 (329)
Q Consensus 187 lam~t~D~l~~~g~g--g~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al 264 (329)
.++++.|-|+..| | |++-.++-.=+..+++.|.+..+-|+. +.+|+.| ||..|+..- ++|...+
T Consensus 23 ~~~lAI~eINa~G-GvlG~~le~v~~Dp~Sd~~~ya~~A~~Li~----~d~V~~i----fGc~TSasR-----KaVlPvv 88 (363)
T PF13433_consen 23 GALLAIEEINAAG-GVLGRQLEPVIYDPASDPSTYAEKAEKLIR----EDGVRAI----FGCYTSASR-----KAVLPVV 88 (363)
T ss_dssp HHHHHHHHHHCTT-TBTTB--EEEEE--TT-HHHHHHHHHHHHH----HS---EE----EE--SHHHH-----HHHHHHH
T ss_pred HHHHHHHHHHhcC-CcCCeEEEEEEECCCCCHHHHHHHHHHHHH----hCCccEE----EecchhhhH-----HHHHHHH
Confidence 4678899999975 4 578899999999999999999988886 6776544 577777554 6777777
Q ss_pred HHhh
Q 020234 265 REKE 268 (329)
Q Consensus 265 ~~~~ 268 (329)
++++
T Consensus 89 E~~~ 92 (363)
T PF13433_consen 89 ERHN 92 (363)
T ss_dssp HHCT
T ss_pred HhcC
Confidence 7664
No 74
>KOG2862 consensus Alanine-glyoxylate aminotransferase AGT1 [General function prediction only]
Probab=50.76 E-value=68 Score=31.52 Aligned_cols=63 Identities=16% Similarity=0.150 Sum_probs=51.5
Q ss_pred ceEecCCCcEEEEEcCCcHHHHHHHHHhccCCCCC--CCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe
Q 020234 169 FTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASE--LGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI 243 (329)
Q Consensus 169 l~yv~l~g~I~ii~NG~Glam~t~D~l~~~g~gg~--paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i 243 (329)
.|.++++.++-+..+|- -+--+.|....+ |-+ +- ..|.|+..+-|.+.++ ++ +-..++++|-|
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-WGQRAADCARRY--GAEVDVV-EADIGQAVPLEEITEK----LS----QHKPKAVFVTH 150 (385)
T ss_pred HhhcCCCCeEEEEEech-HHHHHHHHHHhh--CceeeEE-ecCcccCccHHHHHHH----HH----hcCCceEEEEe
Confidence 46677888888888988 788999999996 444 33 7899999999999888 65 66778899888
No 75
>PRK14569 D-alanyl-alanine synthetase A; Provisional
Probab=50.31 E-value=88 Score=29.60 Aligned_cols=23 Identities=26% Similarity=0.522 Sum_probs=18.5
Q ss_pred cEEEEeecCCCCceEEEEEEEeCC
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRL 32 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~ 32 (329)
..++|||+++ .+||.+++.-|..
T Consensus 166 ~~~lvEefI~-G~E~tv~vl~~~~ 188 (296)
T PRK14569 166 GEVMIEQWVT-GKEITVAIVNDEV 188 (296)
T ss_pred CCEEEEcccc-cEEEEEEEECCcC
Confidence 4689999997 6899999975543
No 76
>PRK08462 biotin carboxylase; Validated
Probab=50.26 E-value=57 Score=32.70 Aligned_cols=29 Identities=24% Similarity=0.442 Sum_probs=23.0
Q ss_pred EEEEeecCCCCceEEEEEEEeCCCCeEEE
Q 020234 10 TFIVEPFVPHNQEYYLSIVSDRLGCTISF 38 (329)
Q Consensus 10 ~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~ 38 (329)
.++||++++..+|+-+++..|..+.++.+
T Consensus 198 ~vlvEe~i~g~~e~~v~v~~~~~g~~~~~ 226 (445)
T PRK08462 198 TMYMEKFINNPRHIEVQILGDKHGNVIHV 226 (445)
T ss_pred cEEEeccCCCCeEEEEEEEECCCCCEEEE
Confidence 58999999878898898888876655444
No 77
>PRK14571 D-alanyl-alanine synthetase A; Provisional
Probab=49.26 E-value=35 Score=32.19 Aligned_cols=25 Identities=28% Similarity=0.566 Sum_probs=20.5
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCCC
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLGC 34 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~~ 34 (329)
..++|||+++ .+|+.+++..+..++
T Consensus 162 ~~vlVEeyI~-G~E~sv~vl~~~~~~ 186 (299)
T PRK14571 162 GSVIVQEYIP-GREMTVSILETEKGF 186 (299)
T ss_pred CcEEEEcccc-ceEEEEEEEcCCCCe
Confidence 4699999998 689999999875443
No 78
>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=47.41 E-value=1.5e+02 Score=23.74 Aligned_cols=99 Identities=18% Similarity=0.179 Sum_probs=55.1
Q ss_pred HHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhh
Q 020234 191 YADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESK 270 (329)
Q Consensus 191 t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~ 270 (329)
..+.+... |-+. +++|.+.+++.+.+++ .+ .+|+ .|.+.. ..+.....+ ..+++.+|+..
T Consensus 19 ~~~~l~~~--G~~V---~~lg~~~~~~~l~~~~---~~---~~pd--vV~iS~--~~~~~~~~~---~~~i~~l~~~~-- 78 (119)
T cd02067 19 VARALRDA--GFEV---IDLGVDVPPEEIVEAA---KE---EDAD--AIGLSG--LLTTHMTLM---KEVIEELKEAG-- 78 (119)
T ss_pred HHHHHHHC--CCEE---EECCCCCCHHHHHHHH---HH---cCCC--EEEEec--cccccHHHH---HHHHHHHHHcC--
Confidence 44556554 4333 7889999988776663 32 1455 344322 223333444 77777777763
Q ss_pred hhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHH
Q 020234 271 LKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQA 321 (329)
Q Consensus 271 ~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~ 321 (329)
. --+.+.+||....+--+.+++. |.-.. +.+-++++...
T Consensus 79 ---~-~~~~i~vGG~~~~~~~~~~~~~----G~D~~----~~~~~~~~~~~ 117 (119)
T cd02067 79 ---L-DDIPVLVGGAIVTRDFKFLKEI----GVDAY----FGPATEAVEVL 117 (119)
T ss_pred ---C-CCCeEEEECCCCChhHHHHHHc----CCeEE----ECCHHHHHHHH
Confidence 2 1245667776655434566766 87543 44566666543
No 79
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=46.55 E-value=2.1e+02 Score=25.46 Aligned_cols=125 Identities=13% Similarity=0.020 Sum_probs=0.0
Q ss_pred CCcEEEEEcCCcHHHHHH------HHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccC
Q 020234 175 KGRIWTMVAGGGASVIYA------DTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 248 (329)
Q Consensus 175 ~g~I~ii~NG~Glam~t~------D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~ 248 (329)
.++|+++....+...... +.+..+ |.+.....-+.++.+.+.-+++++-+++ ++|+.++|+ +
T Consensus 116 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~ai~-------~ 183 (268)
T cd06270 116 HRKIACITGPLTKEDARLRLQGYRDALAEA--GIALDESLIIEGDFTEEGGYAAMQELLA---RGAPFTAVF-------C 183 (268)
T ss_pred CceEEEEeCCcccccHHHHHHHHHHHHHHc--CCCCCcceEEECCCCHHHHHHHHHHHHh---CCCCCCEEE-------E
Q ss_pred chHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhhhc
Q 020234 249 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSA 328 (329)
Q Consensus 249 ~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~~~ 328 (329)
.++.+| .++++++++.+ .++|==+.+-|-...+-.+.+.. .+.+. ..++.+..+.+++++.++
T Consensus 184 ~~d~~a---~g~~~~l~~~g-----~~ip~di~v~g~d~~~~~~~~~~-----~~~ti----~~~~~~~g~~a~~~l~~~ 246 (268)
T cd06270 184 ANDEMA---AGAISALREHG-----ISVPQDVSIIGFDDVLLARYLYP-----KLTTV----HYPIEEMAQMAAKLALQL 246 (268)
T ss_pred cCcHHH---HHHHHHHHHcC-----CCCCCceeEEEecCchHhhhcCC-----CceEe----ecCHHHHHHHHHHHHHHH
No 80
>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=45.05 E-value=65 Score=27.85 Aligned_cols=66 Identities=11% Similarity=0.043 Sum_probs=38.4
Q ss_pred CCHHHHHHHHHHHhcccccCCCCCEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH
Q 020234 214 PNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 291 (329)
Q Consensus 214 a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar 291 (329)
.+.+.+.+.+..+-+ ++..+.+.+.+ |||-.. -+ .+|.++++.. +.|+++...|.-...|
T Consensus 12 ~~~~~~~~~L~~l~~----~~~~~~i~l~InSpGG~v~---~~---~~i~~~i~~~-------~~~v~~~~~g~aaS~~- 73 (162)
T cd07013 12 ISANQFAAQLLFLGA----VNPEKDIYLYINSPGGDVF---AG---MAIYDTIKFI-------KADVVTIIDGLAASMG- 73 (162)
T ss_pred HHHHHHHHHHHHHhc----CCCCCCEEEEEECCCCcHH---HH---HHHHHHHHhc-------CCCceEEEEeehhhHH-
Confidence 344556666655554 66667776666 888532 22 6788888876 3567766556444333
Q ss_pred HHHHHh
Q 020234 292 AKMRAL 297 (329)
Q Consensus 292 ~~l~~~ 297 (329)
-++--+
T Consensus 74 ~~i~~a 79 (162)
T cd07013 74 SVIAMA 79 (162)
T ss_pred HHHHHc
Confidence 344333
No 81
>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=44.98 E-value=91 Score=27.46 Aligned_cols=61 Identities=10% Similarity=0.118 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHhcccccCCCCCEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeC---CCCHHHH
Q 020234 216 EEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG---GPNYQTG 290 (329)
Q Consensus 216 ~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~---G~~~~~a 290 (329)
.+.+.++++.+-+ ++ ++.|++-+ |||-.. -+ ..+.++++. .++|+++.+. |.-..-|
T Consensus 15 ~~~l~~~l~~a~~----~~-~~~vvl~InSpGG~v~---~~---~~i~~~l~~-------~~kPvia~v~~~~G~AasgG 76 (187)
T cd07020 15 ADYLERAIDQAEE----GG-ADALIIELDTPGGLLD---ST---REIVQAILA-------SPVPVVVYVYPSGARAASAG 76 (187)
T ss_pred HHHHHHHHHHHHh----CC-CCEEEEEEECCCCCHH---HH---HHHHHHHHh-------CCCCEEEEEecCCCCchhHH
Confidence 3456666666554 44 77777665 888532 12 555566654 3689998864 7665555
Q ss_pred HHHH
Q 020234 291 LAKM 294 (329)
Q Consensus 291 r~~l 294 (329)
--+.
T Consensus 77 ~~ia 80 (187)
T cd07020 77 TYIL 80 (187)
T ss_pred HHHH
Confidence 4444
No 82
>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=44.78 E-value=82 Score=33.24 Aligned_cols=54 Identities=15% Similarity=0.078 Sum_probs=35.1
Q ss_pred CCHHHHHHHHHHHhcccccCCCCCEEEEEe--ccc--cCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEe
Q 020234 214 PNEEEVLQYARVVIDCATADPDGRKRALLI--GGG--IANFTDVATTFNGIIRALREKESKLKAARMHIFVRR 282 (329)
Q Consensus 214 a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~gg--i~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl 282 (329)
.+.+.+.++++-..+ ||+|++|++.+ ++| .+.. +.|.+++++.+. ..+||++..
T Consensus 76 ~~l~~i~~~i~~A~~----D~~IkgIvL~i~~~~g~~~~~~-------~ei~~ai~~fk~----sgKpVvA~~ 133 (584)
T TIGR00705 76 ISLFDIVNAIRQAAD----DRRIEGLVFDLSNFSGWDSPHL-------VEIGSALSEFKD----SGKPVYAYG 133 (584)
T ss_pred cCHHHHHHHHHHHhc----CCCceEEEEEccCCCCCCHHHH-------HHHHHHHHHHHh----cCCeEEEEE
Confidence 455667777777777 99999999987 333 2333 344455555532 368888763
No 83
>PRK10949 protease 4; Provisional
Probab=44.22 E-value=48 Score=35.30 Aligned_cols=51 Identities=18% Similarity=0.192 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhcccccCCCCCEEEEEe--cccc--CchHHHhhhHHHHHHHHHHhhhhhhcccceEEEE
Q 020234 216 EEEVLQYARVVIDCATADPDGRKRALLI--GGGI--ANFTDVATTFNGIIRALREKESKLKAARMHIFVR 281 (329)
Q Consensus 216 ~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi--~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvr 281 (329)
-..+.++++-..+ ||+|++|++.+ +||. +.++++. +++++.+. ..+||++.
T Consensus 97 l~div~~i~~Aa~----D~rIkgivL~i~s~gG~~~a~~~eI~-------~ai~~fk~----sGKpVvA~ 151 (618)
T PRK10949 97 LFDIVNTIRQAKD----DRNITGIVLDLKNFAGADQPSMQYIG-------KALREFRD----SGKPVYAV 151 (618)
T ss_pred HHHHHHHHHHHhc----CCCceEEEEEeCCCCCccHHHHHHHH-------HHHHHHHH----hCCeEEEE
Confidence 3456666666666 99999999999 5442 3334444 44554432 35788875
No 84
>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=43.98 E-value=1.3e+02 Score=26.94 Aligned_cols=57 Identities=12% Similarity=0.057 Sum_probs=36.3
Q ss_pred ccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 210 YSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 210 lgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
.-++.+.+..+++++-+++ ++|++++++.. ++. | .++++++++.+ .+.|.++..+++
T Consensus 163 ~~~~~~~~~~~~~~~~~l~---~~~~~~~i~~~-------~d~-A---~g~~~al~~~g-----~~~p~v~g~d~~ 219 (272)
T cd06300 163 VYGDWDQAVAQKAVADFLA---SNPDVDGIWTQ-------GGD-A---VGAVQAFEQAG-----RDIPPVTGEDEN 219 (272)
T ss_pred cCCCCCHHHHHHHHHHHHH---hCCCcCEEEec-------CCC-c---HHHHHHHHHcC-----CCCcEEEeeCCc
Confidence 3445565655666555554 26778777642 244 6 89999999876 456766766654
No 85
>COG4981 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]
Probab=43.49 E-value=2.2e+02 Score=30.14 Aligned_cols=142 Identities=14% Similarity=0.168 Sum_probs=84.6
Q ss_pred cCCCcEEEEEcCCcHHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhccccc--CCCCCEEEEEeccccCch
Q 020234 173 NPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATA--DPDGRKRALLIGGGIANF 250 (329)
Q Consensus 173 ~l~g~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~--~~~v~~vlv~i~ggi~~~ 250 (329)
+|-|+==++..|-=+.-+-.|.+.....+|-=+- |--||--+++-+.++.+-+.++... .-++.++++|-+. =+
T Consensus 30 rLtGr~PillaGMTPtTVdp~ivAAaAnAGhwaE-LAGGGq~t~e~~~~~i~ql~~~lepG~t~qfN~ifldpyl--w~- 105 (717)
T COG4981 30 RLTGRSPILLAGMTPTTVDPDIVAAAANAGHWAE-LAGGGQVTEEIFTNAIEQLVSLLEPGRTAQFNSIFLDPYL--WK- 105 (717)
T ss_pred hhcCCCCeeecCCCCCcCCHHHHHHHhcCCceee-ecCCcccCHHHHHHHHHHHHhccCCCccceeeEEEechHH--hh-
Confidence 4556655555555444444455544322221111 2246778999999998887765322 2334555555321 00
Q ss_pred HHHhhhHHHHHHHHHHhhhhhhcccce-EEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhhhc
Q 020234 251 TDVATTFNGIIRALREKESKLKAARMH-IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSA 328 (329)
Q Consensus 251 ~~vA~~~~gii~al~~~~~~~~~~~~p-vvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~~~ 328 (329)
-.|- .+-+++-+|..+ -.+. |++.-|=+..++|-+++++..+. |+|..+| ..---|+|+..+++++.+
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--GKRLVQKARASG-----APIDGVVISAGIPSLEEAVELIEELGDD-GFPYVAF--KPGTIEQIRSVIRIAKAN 174 (717)
T ss_pred hcCC--hHHHHHHHHhcC-----CCcceEEEecCCCcHHHHHHHHHHHhhc-CceeEEe--cCCcHHHHHHHHHHHhcC
Confidence 0110 145666666554 2233 66778889999999999886443 9999887 455667899999988764
No 86
>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=43.19 E-value=1.6e+02 Score=27.49 Aligned_cols=62 Identities=11% Similarity=0.209 Sum_probs=39.6
Q ss_pred eccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe--ccccC------chHHHhhhHHHHHHHHHHhhhhhhcccceEEE
Q 020234 209 EYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIA------NFTDVATTFNGIIRALREKESKLKAARMHIFV 280 (329)
Q Consensus 209 DlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~------~~~~vA~~~~gii~al~~~~~~~~~~~~pvvv 280 (329)
.++|. +++.+.++.+.+.+ ...+++=+|+ |.... +. +.. ..+++++++. .++||.+
T Consensus 104 si~g~-~~~~~~~~a~~~~~-----~G~d~ielN~~cP~~~~~~~~~~~~-~~~---~eiv~~vr~~------~~~pv~v 167 (289)
T cd02810 104 SVGGS-SKEDYVELARKIER-----AGAKALELNLSCPNVGGGRQLGQDP-EAV---ANLLKAVKAA------VDIPLLV 167 (289)
T ss_pred EeccC-CHHHHHHHHHHHHH-----hCCCEEEEEcCCCCCCCCcccccCH-HHH---HHHHHHHHHc------cCCCEEE
Confidence 35454 77888899888764 4788999997 32211 11 222 4566666654 3689999
Q ss_pred EeCCCC
Q 020234 281 RRGGPN 286 (329)
Q Consensus 281 rl~G~~ 286 (329)
++++..
T Consensus 168 Kl~~~~ 173 (289)
T cd02810 168 KLSPYF 173 (289)
T ss_pred EeCCCC
Confidence 977643
No 87
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=42.33 E-value=50 Score=28.51 Aligned_cols=46 Identities=13% Similarity=0.146 Sum_probs=31.7
Q ss_pred EE-EEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHH
Q 020234 278 IF-VRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 323 (329)
Q Consensus 278 vv-vrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~ 323 (329)
|+ ..+|=..=..+-+.+..++...|+.+..-|.+.|++|++++|++
T Consensus 15 vlvak~GlDgHd~gakvia~~l~d~GfeVi~~g~~~tp~e~v~aA~~ 61 (143)
T COG2185 15 VLVAKLGLDGHDRGAKVIARALADAGFEVINLGLFQTPEEAVRAAVE 61 (143)
T ss_pred EEEeccCccccccchHHHHHHHHhCCceEEecCCcCCHHHHHHHHHh
Confidence 44 34653333445555555555569988888889999999999975
No 88
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=42.17 E-value=60 Score=26.39 Aligned_cols=88 Identities=11% Similarity=0.071 Sum_probs=55.3
Q ss_pred HHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCH-HHHHHHHHHh
Q 020234 219 VLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY-QTGLAKMRAL 297 (329)
Q Consensus 219 ~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~-~~ar~~l~~~ 297 (329)
+.+++.++-+ ++++.+|++..= ....+.+ .++++.+++.+ .++||++=..-... .--.+.|.+.
T Consensus 26 ~dd~~~~i~~----~~~i~avvi~~d---~~~~~~~---~~ll~~i~~~~-----~~iPVFl~~~~~~~~~l~~~~l~~v 90 (115)
T PF03709_consen 26 TDDALAIIES----FTDIAAVVISWD---GEEEDEA---QELLDKIRERN-----FGIPVFLLAERDTTEDLPAEVLGEV 90 (115)
T ss_dssp HHHHHHHHHC----TTTEEEEEEECH---HHHHHHH---HHHHHHHHHHS-----TT-EEEEEESCCHHHCCCHHHHCCE
T ss_pred hHHHHHHHHh----CCCeeEEEEEcc---cccchhH---HHHHHHHHHhC-----CCCCEEEEecCCCcccCCHHHHhhc
Confidence 4577777777 999999998763 1123555 89999999886 57999976553211 1113444432
Q ss_pred ccccCCceeecCCCCCHHHHHHHHHHHhhh
Q 020234 298 GEELGIPLEVYGPEATMTGICKQAIDCIMS 327 (329)
Q Consensus 298 ~~~~gip~~~~g~~~~~~~av~~~v~~~~~ 327 (329)
.|+ ++-..+|++-.+++....+.+
T Consensus 91 ---~~~---i~l~~~t~~fia~rI~~Aa~~ 114 (115)
T PF03709_consen 91 ---DGF---IWLFEDTAEFIARRIEAAARR 114 (115)
T ss_dssp ---SEE---EETTTTTHHHHHHHHHHHHHH
T ss_pred ---cEE---EEecCCCHHHHHHHHHHHHHh
Confidence 122 222478999888888776653
No 89
>PRK14573 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional
Probab=42.15 E-value=1.2e+02 Score=33.19 Aligned_cols=25 Identities=24% Similarity=0.153 Sum_probs=21.2
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCC
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLG 33 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~ 33 (329)
..++|||++...+|+-+++.-|..+
T Consensus 647 ~~vlVEe~i~~grEi~v~vl~~~~~ 671 (809)
T PRK14573 647 TDVFVEESRLGSREIEVSCLGDGSS 671 (809)
T ss_pred CcEEEEeccCCCEEEEEEEEeCCCC
Confidence 4689999988889999999987654
No 90
>PRK05586 biotin carboxylase; Validated
Probab=41.98 E-value=1.8e+02 Score=29.14 Aligned_cols=30 Identities=17% Similarity=0.445 Sum_probs=24.2
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCCCeEEE
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLGCTISF 38 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~ 38 (329)
..++||++++..+|+-+.+..|..+.++.+
T Consensus 195 ~~vivEe~i~g~~ei~v~v~~d~~G~~~~~ 224 (447)
T PRK05586 195 DSMYIEKFIENPKHIEFQILGDNYGNVVHL 224 (447)
T ss_pred CeEEEEecCCCCeEEEEEEEECCCCCEEEE
Confidence 368999999988898888888887766554
No 91
>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=41.93 E-value=1.6e+02 Score=28.30 Aligned_cols=29 Identities=31% Similarity=0.439 Sum_probs=23.0
Q ss_pred EEEEeecCCCCceEEEEEEEeCCCCeEEE
Q 020234 10 TFIVEPFVPHNQEYYLSIVSDRLGCTISF 38 (329)
Q Consensus 10 ~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~ 38 (329)
.++|||+++..+|+.+.+..+.++...++
T Consensus 170 ~~lvEe~I~~~~E~sv~~~~~~~G~~~~~ 198 (352)
T TIGR01161 170 ECIVEEFVPFERELSVIVARSADGETAFY 198 (352)
T ss_pred cEEEEecCCCCeEEEEEEEEcCCCCEEEE
Confidence 68999999988999888887776654443
No 92
>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=41.36 E-value=1.3e+02 Score=25.86 Aligned_cols=110 Identities=13% Similarity=0.040 Sum_probs=67.4
Q ss_pred HHHHHHhccCCCCCCCcee--eccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe---ccccCchHHHhhhHHHHHHHH
Q 020234 190 IYADTVGDLGYASELGNYA--EYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI---GGGIANFTDVATTFNGIIRAL 264 (329)
Q Consensus 190 ~t~D~l~~~g~gg~paN~l--DlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i---~ggi~~~~~vA~~~~gii~al 264 (329)
-+.+.|..+ |.++.|.- .+.|.-. +--+++.+++ ..+.|+|+..- -|....++-|+ +++.+.+
T Consensus 24 ~a~~~l~~~--g~~~~~i~~~~VPGa~E---lP~a~~~l~~----~~~~Davi~lG~VI~G~T~H~~~v~---~~v~~gl 91 (144)
T PF00885_consen 24 GALEELKRH--GVAEENIEVIRVPGAFE---LPLAAKRLAE----SGRYDAVIALGCVIRGETDHFEYVA---NAVSRGL 91 (144)
T ss_dssp HHHHHHHHT--TTTGGCEEEEEESSGGG---HHHHHHHHHH----CSTESEEEEEEEEE--SSTHHHHHH---HHHHHHH
T ss_pred HHHHHHHHc--CCCccceEEEEcCCHHH---HHHHHHHHhc----ccCccEEEEeccccCCCchHHHHHH---HHHHHHH
Confidence 356777775 55555443 3334332 4456666676 67799988765 46666666666 7777776
Q ss_pred HHhhhhhhcccceEEEE-eCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhh
Q 020234 265 REKESKLKAARMHIFVR-RGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 265 ~~~~~~~~~~~~pvvvr-l~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~ 326 (329)
.+..-+ ..+||..- +.-.+.+++++... ... .+-=.||++.++++++
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 665422 47998866 77788887754443 211 2345678888888774
No 93
>COG3693 XynA Beta-1,4-xylanase [Carbohydrate transport and metabolism]
Probab=40.26 E-value=1.8e+02 Score=28.71 Aligned_cols=98 Identities=19% Similarity=0.290 Sum_probs=63.2
Q ss_pred CCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe-ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEE
Q 020234 203 ELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVR 281 (329)
Q Consensus 203 ~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i-~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvr 281 (329)
...+-..+-+..-+|-+..++++--+ .||+ ++|+.. ++ ++....=.+.+.-+|+-|++.+-+-.......=.+
T Consensus 157 ~~R~s~w~~~~~gpd~I~~aF~~Are---adP~--AkL~~NDY~-ie~~~~kr~~~~nlI~~LkekG~pIDgiG~QsH~~ 230 (345)
T COG3693 157 SLRRSAWYDGGTGPDYIKLAFHIARE---ADPD--AKLVINDYS-IEGNPAKRNYVLNLIEELKEKGAPIDGIGIQSHFS 230 (345)
T ss_pred hhhhhhhhccCCccHHHHHHHHHHHh---hCCC--ceEEeeccc-ccCChHHHHHHHHHHHHHHHCCCCccceeeeeeec
Confidence 34455556666778888888888765 2565 556555 76 55544433335667777777653211222333477
Q ss_pred eCCCCHHHHHHHHHHhccccCCceee
Q 020234 282 RGGPNYQTGLAKMRALGEELGIPLEV 307 (329)
Q Consensus 282 l~G~~~~~ar~~l~~~~~~~gip~~~ 307 (329)
++++..+..+..|.+..+. |+|++|
T Consensus 231 ~~~~~~~~~~~a~~~~~k~-Gl~i~V 255 (345)
T COG3693 231 GDGPSIEKMRAALLKFSKL-GLPIYV 255 (345)
T ss_pred CCCCCHHHHHHHHHHHhhc-CCCceE
Confidence 8999999999999876555 998776
No 94
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=40.03 E-value=1.8e+02 Score=26.50 Aligned_cols=48 Identities=19% Similarity=0.222 Sum_probs=31.7
Q ss_pred HHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCC
Q 020234 257 FNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEAT 313 (329)
Q Consensus 257 ~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~ 313 (329)
+|+|+++++... .+..|...+.-.....+++.-++. |||+.++...+.
T Consensus 14 lqaiida~~~~~-----~~a~i~~Visd~~~A~~lerA~~~----gIpt~~~~~k~~ 61 (200)
T COG0299 14 LQAIIDAIKGGK-----LDAEIVAVISDKADAYALERAAKA----GIPTVVLDRKEF 61 (200)
T ss_pred HHHHHHHHhcCC-----CCcEEEEEEeCCCCCHHHHHHHHc----CCCEEEeccccC
Confidence 488999887432 233455556666556777777877 999887654443
No 95
>COG5012 Predicted cobalamin binding protein [General function prediction only]
Probab=39.55 E-value=1.7e+02 Score=27.25 Aligned_cols=94 Identities=17% Similarity=0.232 Sum_probs=59.9
Q ss_pred CceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 020234 205 GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 284 (329)
Q Consensus 205 aN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G 284 (329)
-+-+|+|-+.+.+.+.++.+-. .|. +|-. ++... +.+. .++-|++.|++.+ .+-|+.|-.||
T Consensus 133 fevidLG~dvP~e~fve~a~e~------k~d----~v~~-SalMT-ttm~-~~~~viE~L~eeG-----iRd~v~v~vGG 194 (227)
T COG5012 133 FEVIDLGRDVPVEEFVEKAKEL------KPD----LVSM-SALMT-TTMI-GMKDVIELLKEEG-----IRDKVIVMVGG 194 (227)
T ss_pred cEEEecCCCCCHHHHHHHHHHc------CCc----EEec-hHHHH-HHHH-HHHHHHHHHHHcC-----CccCeEEeecC
Confidence 3669999999999988874432 233 3322 22222 2222 3678888888876 56777787899
Q ss_pred CCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhh
Q 020234 285 PNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 285 ~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~ 326 (329)
....+. .-.+ .|--.+ ..+..+||+.+-.+.+
T Consensus 195 Apvtq~--~a~~----iGAD~~----~~dAs~Av~~ak~~l~ 226 (227)
T COG5012 195 APVTQD--WADK----IGADAY----AEDASDAVKKAKAILK 226 (227)
T ss_pred ccccHH--HHHH----hCCCcc----CcCHHHHHHHHHHHhc
Confidence 754432 1233 366553 6789999988876653
No 96
>KOG3019 consensus Predicted nucleoside-diphosphate sugar epimerase [Nucleotide transport and metabolism]
Probab=38.43 E-value=51 Score=31.08 Aligned_cols=126 Identities=13% Similarity=0.136 Sum_probs=61.0
Q ss_pred cEEEEEcCCcHHHHHHHHHhccCCCCCCCc----eeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe-ccccCchH
Q 020234 177 RIWTMVAGGGASVIYADTVGDLGYASELGN----YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFT 251 (329)
Q Consensus 177 ~I~ii~NG~Glam~t~D~l~~~g~gg~paN----~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i-~ggi~~~~ 251 (329)
|+|++..=+|-+|..|=+--..|.||-.+| |-.+--+ .+...+.-.|+ .|.+++|+=-. |. +++..
T Consensus 178 R~GvVlG~gGGa~~~M~lpF~~g~GGPlGsG~Q~fpWIHv~----DL~~li~~ale----~~~v~GViNgvAP~-~~~n~ 248 (315)
T KOG3019|consen 178 RIGVVLGKGGGALAMMILPFQMGAGGPLGSGQQWFPWIHVD----DLVNLIYEALE----NPSVKGVINGVAPN-PVRNG 248 (315)
T ss_pred EEeEEEecCCcchhhhhhhhhhccCCcCCCCCeeeeeeehH----HHHHHHHHHHh----cCCCCceecccCCC-ccchH
Confidence 465554434434544444445555665432 2233222 23333333366 89999985333 54 44556
Q ss_pred HHhhhHHHHHHHHHHhhhhhhcccceEE-EE-eCC----CCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHH
Q 020234 252 DVATTFNGIIRALREKESKLKAARMHIF-VR-RGG----PNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAI 322 (329)
Q Consensus 252 ~vA~~~~gii~al~~~~~~~~~~~~pvv-vr-l~G----~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v 322 (329)
|.+ |.+-.+|..-. =.++|=+ +. +=| +-.-+|.+.+-+-...+|.... |....+|+++.+
T Consensus 249 Ef~---q~lg~aL~Rp~----~~pvP~fvvqA~fG~erA~~vLeGqKV~Pqral~~Gf~f~----yp~vk~Al~~i~ 314 (315)
T KOG3019|consen 249 EFC---QQLGSALSRPS----WLPVPDFVVQALFGPERATVVLEGQKVLPQRALELGFEFK----YPYVKDALRAIM 314 (315)
T ss_pred HHH---HHHHHHhCCCc----ccCCcHHHHHHHhCccceeEEeeCCcccchhHhhcCceee----chHHHHHHHHHh
Confidence 777 77777665421 0123311 11 111 1111333334333334587653 778888887764
No 97
>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=38.32 E-value=3.4e+02 Score=25.45 Aligned_cols=102 Identities=13% Similarity=0.096 Sum_probs=63.9
Q ss_pred eeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccc-cCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCC
Q 020234 207 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGG-IANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 285 (329)
Q Consensus 207 ~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~gg-i~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~ 285 (329)
|+|= |..+.+.+.+-++.++ +.++++++++-.+| ....+ .. --+.+++...+.. . +|++-.|.+
T Consensus 11 Pf~~-g~iD~~~~~~li~~l~-----~~Gv~Gl~~~GstGE~~~Lt-~e-Er~~l~~~~~~~~------~-~vi~gvg~~ 75 (279)
T cd00953 11 PFTG-NKIDKEKFKKHCENLI-----SKGIDYVFVAGTTGLGPSLS-FQ-EKLELLKAYSDIT------D-KVIFQVGSL 75 (279)
T ss_pred CcCC-CCcCHHHHHHHHHHHH-----HcCCcEEEEcccCCCcccCC-HH-HHHHHHHHHHHHc------C-CEEEEeCcC
Confidence 3443 8999999999999988 57999999987433 22222 11 0145555554432 1 377889999
Q ss_pred CHHHHHHHHHHhccccCC-------ceeecCCCCCHHHHHHHHHHHhh
Q 020234 286 NYQTGLAKMRALGEELGI-------PLEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 286 ~~~~ar~~l~~~~~~~gi-------p~~~~g~~~~~~~av~~~v~~~~ 326 (329)
+.+++.+..+.+ ++.|. |. .|. ..+.++.++.+..++.
T Consensus 76 ~~~~ai~~a~~a-~~~Gad~v~v~~P~-y~~-~~~~~~i~~yf~~v~~ 120 (279)
T cd00953 76 NLEESIELARAA-KSFGIYAIASLPPY-YFP-GIPEEWLIKYFTDISS 120 (279)
T ss_pred CHHHHHHHHHHH-HHcCCCEEEEeCCc-CCC-CCCHHHHHHHHHHHHh
Confidence 999998888776 34463 32 111 1245666677766553
No 98
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=37.86 E-value=3.1e+02 Score=25.30 Aligned_cols=123 Identities=13% Similarity=0.002 Sum_probs=63.8
Q ss_pred CcEEEEEcCCcHH------HHHHHHHhccCCCCCCCceee-ccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccC
Q 020234 176 GRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAE-YSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 248 (329)
Q Consensus 176 g~I~ii~NG~Gla------m~t~D~l~~~g~gg~paN~lD-lgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~ 248 (329)
++|++++...... .-..+.+..+ |..+-+.+. +-++.+.+.-+++++-+++ ++|++++++..
T Consensus 124 ~~I~~l~g~~~~~~~~~R~~Gf~~~l~~~--g~~~~~~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~ai~~~------ 192 (298)
T cd06302 124 GEYAIFVGSLTATNQNAWIDAAKAYQKEK--YYPMLELVDRQYGDDDADKSYQTAQELLK---AYPDLKGIIGP------ 192 (298)
T ss_pred CEEEEEeCCCCCcchHHHHHHHHHHHhhc--CCCCeEEeCcccCCCCHHHHHHHHHHHHH---hCCCceEEEEC------
Confidence 5788886433211 1123555554 422233322 2444555555555555553 26777777641
Q ss_pred chHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhh
Q 020234 249 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 249 ~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~ 326 (329)
++..| .++++++++.+.. .++ -++..+. .....+.+..- .+...+ ..++.+..+.+++++.
T Consensus 193 -~D~~A---~g~~~al~~~g~~---~dv-~vvG~D~--~~~~~~~~~~g----~i~~tv---~~~~~~~g~~a~~~l~ 253 (298)
T cd06302 193 -TSVGI---PGAARAVEEAGLK---GKV-AVTGLGL--PNQMAPYVKSG----AVKEFA---LWNPADLGYAAVYVAK 253 (298)
T ss_pred -CCcch---hHHHHHHHhcCCC---CCE-EEEEeCC--CHHHHHHHhCC----eeEEEE---ecCHHHHHHHHHHHHH
Confidence 25666 8999999987621 122 2344444 34444555541 243332 4577777777776653
No 99
>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=37.57 E-value=1.4e+02 Score=25.23 Aligned_cols=64 Identities=17% Similarity=0.103 Sum_probs=39.9
Q ss_pred CCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHH
Q 020234 214 PNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAK 293 (329)
Q Consensus 214 a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~ 293 (329)
.+++.+.+.++-+-+ +..+ .+.||-|||-.. -+ ..|.+.++.. ++|+++...|.-...|--+
T Consensus 15 ~~~~~~~~~l~~~~~----~~~i-~l~inspGG~~~---~~---~~i~~~i~~~-------~~pvi~~v~g~a~s~g~~i 76 (160)
T cd07016 15 VTAKEFKDALDALGD----DSDI-TVRINSPGGDVF---AG---LAIYNALKRH-------KGKVTVKIDGLAASAASVI 76 (160)
T ss_pred cCHHHHHHHHHhccC----CCCE-EEEEECCCCCHH---HH---HHHHHHHHhc-------CCCEEEEEcchHHhHHHHH
Confidence 567777777665443 4222 344555998642 22 6777777664 5889998888766555555
Q ss_pred HH
Q 020234 294 MR 295 (329)
Q Consensus 294 l~ 295 (329)
+-
T Consensus 77 a~ 78 (160)
T cd07016 77 AM 78 (160)
T ss_pred Hh
Confidence 44
No 100
>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=37.34 E-value=2.7e+02 Score=24.62 Aligned_cols=107 Identities=8% Similarity=-0.028 Sum_probs=0.0
Q ss_pred HHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhh
Q 020234 193 DTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLK 272 (329)
Q Consensus 193 D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~ 272 (329)
+.+..+ |..+-.+....++.+.+..+++++-+++ +.|++++++... +.+| .++++++++.+
T Consensus 140 ~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~ai~~~~-------d~~a---~~~~~~l~~~g---- 200 (268)
T cd01575 140 AALRAA--GLDPPLVVTTPEPSSFALGRELLAELLA---RWPDLDAVFCSN-------DDLA---LGALFECQRRG---- 200 (268)
T ss_pred HHHHHc--CCCCCceeEeccCCCHHHHHHHHHHHHh---CCCCCCEEEECC-------cHHH---HHHHHHHHHhC----
Q ss_pred cccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhhhc
Q 020234 273 AARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSA 328 (329)
Q Consensus 273 ~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~~~ 328 (329)
.++|==+.+.|-....-.+.+.- ++.+. ..++.+..+.+++++...
T Consensus 201 -~~~p~di~vig~d~~~~~~~~~~-----~itti----~~~~~~~g~~a~~~l~~~ 246 (268)
T cd01575 201 -ISVPEDIAIAGFGDLEIAAALPP-----ALTTV----RTPRREIGRRAAELLLAR 246 (268)
T ss_pred -CCCCcceEEEecCCchhhhccCC-----Cceee----eCCHHHHHHHHHHHHHHH
No 101
>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=37.05 E-value=1.7e+02 Score=26.15 Aligned_cols=23 Identities=17% Similarity=0.492 Sum_probs=17.8
Q ss_pred cEEEEeecCCCCceEEEEEEEeCC
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRL 32 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~ 32 (329)
..+||||++ ..+|+.+++.-+..
T Consensus 70 ~~vlVEefI-~G~E~tv~vl~~~~ 92 (203)
T PF07478_consen 70 DDVLVEEFI-SGREFTVGVLGNGE 92 (203)
T ss_dssp SEEEEEE---SSEEEEEEEEESSS
T ss_pred ceEEEEeee-cccceEEEEEecCC
Confidence 479999999 58999999998655
No 102
>PRK07178 pyruvate carboxylase subunit A; Validated
Probab=36.60 E-value=2.7e+02 Score=28.32 Aligned_cols=29 Identities=14% Similarity=0.304 Sum_probs=23.6
Q ss_pred EEEEeecCCCCceEEEEEEEeCCCCeEEE
Q 020234 10 TFIVEPFVPHNQEYYLSIVSDRLGCTISF 38 (329)
Q Consensus 10 ~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~ 38 (329)
.++||+++...+|+-+++..|..+.++.+
T Consensus 195 ~v~iE~~i~~~~eiev~v~~d~~G~~v~~ 223 (472)
T PRK07178 195 EVFLEKCIVNPKHIEVQILADSHGNVVHL 223 (472)
T ss_pred CEEEEEcCCCCeEEEEEEEEECCCCEEEE
Confidence 58999999888998899999987765443
No 103
>PRK08463 acetyl-CoA carboxylase subunit A; Validated
Probab=35.22 E-value=2.9e+02 Score=28.16 Aligned_cols=31 Identities=19% Similarity=0.373 Sum_probs=24.2
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCCCeEEEe
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 39 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~S 39 (329)
..++||+++...+|+-+.+..|..+.++.+.
T Consensus 195 ~~vlvEefI~~~~~iev~v~~d~~g~v~~~~ 225 (478)
T PRK08463 195 DEVFMEKYVVNPRHIEFQILGDNYGNIIHLC 225 (478)
T ss_pred CcEEEEecCCCCeEEEEEEEEcCCCCEEEEe
Confidence 3689999998888888888888777665444
No 104
>PRK11778 putative inner membrane peptidase; Provisional
Probab=34.93 E-value=71 Score=31.32 Aligned_cols=42 Identities=19% Similarity=0.241 Sum_probs=25.9
Q ss_pred CEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHH
Q 020234 237 RKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ 288 (329)
Q Consensus 237 ~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~ 288 (329)
++|++.+ |||.+...+.|+ .. ++.+++ .++||++.+++....
T Consensus 124 ~aVvLridSpGG~v~~s~~a~--~~-l~~lr~-------~~kpVva~v~~~AAS 167 (330)
T PRK11778 124 DEVLLRLESPGGVVHGYGLAA--SQ-LQRLRD-------AGIPLTVAVDKVAAS 167 (330)
T ss_pred CeEEEEEeCCCCchhHHHHHH--HH-HHHHHh-------cCCCEEEEECCchhh
Confidence 6777777 888765544441 22 333443 258999988876543
No 105
>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=34.83 E-value=2.5e+02 Score=26.87 Aligned_cols=93 Identities=18% Similarity=0.245 Sum_probs=41.9
Q ss_pred CCceeeccCCCCHHHHHHHHHHH------hcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccce
Q 020234 204 LGNYAEYSGAPNEEEVLQYARVV------IDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMH 277 (329)
Q Consensus 204 paN~lDlgG~a~~e~~~~a~~il------l~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~p 277 (329)
|.-|+ +-+.+.++.+.++++-| |+.|.-++....++++|.||.-...+-| .+-+++.++..... .+.-
T Consensus 107 P~qf~-vLnSp~~~Vv~~si~~L~yH~~~Ld~mg~~~~~~~~i~IH~GG~YgdK~~a--l~RF~~~~~~L~~~---ir~r 180 (275)
T PF03851_consen 107 PDQFT-VLNSPREEVVENSIRDLEYHARLLDLMGLDDSPDHKINIHVGGVYGDKEAA--LERFIENFKRLPES---IRKR 180 (275)
T ss_dssp --TT---TT-SSHHHHHHHHHHHHHHHHHHHHTT-TT----EEEEE----SS-HHHH--HHHHHHHHHT--HH---HHTT
T ss_pred CCcce-eCCCCCHHHHHHHHHHHHHHHHHHHHcCCCcccccEEEEeeCCCCCChHHH--HHHHHHHHhhCCHh---hhhc
Confidence 78887 66788899888887766 4445545555678888888776533322 25555555544321 2222
Q ss_pred EEEE--eCCCCHHHHHHHHHHhccccCCcee
Q 020234 278 IFVR--RGGPNYQTGLAKMRALGEELGIPLE 306 (329)
Q Consensus 278 vvvr--l~G~~~~~ar~~l~~~~~~~gip~~ 306 (329)
+++= =-.-+.++-+.+-++. |||+.
T Consensus 181 L~lENDd~~yt~~d~L~ic~~~----giP~V 207 (275)
T PF03851_consen 181 LTLENDDKTYTVEDVLPICEKL----GIPMV 207 (275)
T ss_dssp EEEE--SSS--HHHHHHHHHHH----T--EE
T ss_pred EEEecCCCccCHHHHHHHHHHh----CCCEE
Confidence 3432 1123456666666665 99984
No 106
>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=34.73 E-value=2e+02 Score=24.74 Aligned_cols=85 Identities=20% Similarity=0.231 Sum_probs=47.3
Q ss_pred CCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhh----cccceEEEEeCCCCHHHHHHHHHHhccccCCceeec
Q 020234 233 DPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLK----AARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVY 308 (329)
Q Consensus 233 ~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~----~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~ 308 (329)
+|+.++.|+++....++.+-..+..++++-.++..-.... ....+|++.=|+.+-.-=++++.+. +|.|+++.
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 6777888888855555544444445555554444433221 1223455555555555667788877 49998874
Q ss_pred CCCCCHHHHHHHHH
Q 020234 309 GPEATMTGICKQAI 322 (329)
Q Consensus 309 g~~~~~~~av~~~v 322 (329)
. ..-..|..+++
T Consensus 181 ~--~~e~~a~GaA~ 192 (198)
T PF02782_consen 181 E--VEEASALGAAL 192 (198)
T ss_dssp S--SSTHHHHHHHH
T ss_pred C--CCchHHHHHHH
Confidence 2 22333444444
No 107
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=34.66 E-value=4e+02 Score=25.18 Aligned_cols=86 Identities=13% Similarity=0.076 Sum_probs=50.0
Q ss_pred CCCCHHHHHHHHHHHhcccccC--CCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcc-cceEEEEeCCCCHH
Q 020234 212 GAPNEEEVLQYARVVIDCATAD--PDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAA-RMHIFVRRGGPNYQ 288 (329)
Q Consensus 212 G~a~~e~~~~a~~ill~~~~~~--~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~-~~pvvvrl~G~~~~ 288 (329)
+..+.+.-+++++-+++ +. |++++|+. .++..| .|+++++++.+ . ++| |+...+ ..
T Consensus 203 ~~~~~~~a~~~~~~~l~---~~~~~~~~ai~~-------~~d~~A---~gvl~al~~~G-----l~~vp-Vvg~D~--~~ 261 (330)
T PRK15395 203 AMWDTAQAKDKMDAWLS---GPNANKIEVVIA-------NNDAMA---MGAVEALKAHN-----KSSIP-VFGVDA--LP 261 (330)
T ss_pred CCcCHHHHHHHHHHHHh---hCcCCCeeEEEE-------CCchHH---HHHHHHHHhcC-----CCCCe-EEeeCC--CH
Confidence 44455555566655554 12 45666652 236777 89999999886 4 567 555555 35
Q ss_pred HHHHHHHHhccccCCc-eeecCCCCCHHHHHHHHHHHhh
Q 020234 289 TGLAKMRALGEELGIP-LEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 289 ~ar~~l~~~~~~~gip-~~~~g~~~~~~~av~~~v~~~~ 326 (329)
.++..+.+ |.. +.+ ..++.+..+.+++++.
T Consensus 262 ~~~~~~~~-----g~~~ttv---~~~~~~~G~~a~~~l~ 292 (330)
T PRK15395 262 EALALVKS-----GAMAGTV---LNDANNQAKATFDLAK 292 (330)
T ss_pred HHHHHHHh-----CCceEEE---ecCHHHHHHHHHHHHH
Confidence 55555553 321 122 4567777766666553
No 108
>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=34.46 E-value=3.2e+02 Score=24.28 Aligned_cols=78 Identities=19% Similarity=0.280 Sum_probs=45.8
Q ss_pred EEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHH
Q 020234 238 KRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGI 317 (329)
Q Consensus 238 ~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~a 317 (329)
.+++.-|+|.-..+.+| + ++..++..+ ++..++...... -.|.+-|+...+.+|+|++......++.+.
T Consensus 3 vi~lvGptGvGKTTt~a---K-LAa~~~~~~------~~v~lis~D~~R-~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~ 71 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIA---K-LAARLKLKG------KKVALISADTYR-IGAVEQLKTYAEILGVPFYVARTESDPAEI 71 (196)
T ss_dssp EEEEEESTTSSHHHHHH---H-HHHHHHHTT--------EEEEEESTSS-THHHHHHHHHHHHHTEEEEESSTTSCHHHH
T ss_pred EEEEECCCCCchHhHHH---H-HHHHHhhcc------ccceeecCCCCC-ccHHHHHHHHHHHhccccchhhcchhhHHH
Confidence 34555588888877776 3 433344332 344445544433 445666666666679997654445567788
Q ss_pred HHHHHHHhh
Q 020234 318 CKQAIDCIM 326 (329)
Q Consensus 318 v~~~v~~~~ 326 (329)
++.+++..+
T Consensus 72 ~~~~l~~~~ 80 (196)
T PF00448_consen 72 AREALEKFR 80 (196)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHh
Confidence 877777553
No 109
>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=33.54 E-value=3.2e+02 Score=24.19 Aligned_cols=119 Identities=16% Similarity=0.159 Sum_probs=67.7
Q ss_pred CcEEEEEcCCcHHHHH------HHHHhccCCCCCCCceee--ccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEecccc
Q 020234 176 GRIWTMVAGGGASVIY------ADTVGDLGYASELGNYAE--YSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 247 (329)
Q Consensus 176 g~I~ii~NG~Glam~t------~D~l~~~g~gg~paN~lD--lgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi 247 (329)
++|++++...+..... .+.+..+ ++ -+.+. ...+.+.+...+.++-++. ++| +++++.
T Consensus 123 ~~v~~~~~~~~~~~~~~r~~g~~~~l~~~--~~--~~~~~~~~~~~~~~~~a~~~~~~~l~---~~~-~~~i~~------ 188 (257)
T PF13407_consen 123 GKVLILSGSPGNPNTQERLEGFRDALKEY--PG--VEIVDEYEYTDWDPEDARQAIENLLQ---ANP-VDAIIA------ 188 (257)
T ss_dssp EEEEEEESSTTSHHHHHHHHHHHHHHHHC--TT--EEEEEEEEECTTSHHHHHHHHHHHHH---HTT-EEEEEE------
T ss_pred ceEEeccCCCCchHHHHHHHHHHHHHhhc--ce--eeeeeeeeccCCCHHHHHHHHHHhhh---cCC-ceEEEe------
Confidence 7888886666644432 1344432 21 11121 2346777777766666665 355 665542
Q ss_pred CchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHh
Q 020234 248 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 325 (329)
Q Consensus 248 ~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~ 325 (329)
..+..+ .|+++++++.+. .+.+.++..+++ .+..+.+++- .+...+ ..++......+++++
T Consensus 189 -~~~~~~---~g~~~al~~~g~----~~~~~v~g~d~~--~~~~~~i~~g----~~~a~v---~~~~~~~g~~av~~l 249 (257)
T PF13407_consen 189 -CNDGMA---LGAAQALQQAGR----AGKVIVVGFDGS--PEALEAIKDG----NITATV---GQDPYQQGYKAVEAL 249 (257)
T ss_dssp -SSHHHH---HHHHHHHHHTTC----TTTSEEEEEECH--HHHHHHHHTT----SSSEEE---EE-HHHHHHHHHHHH
T ss_pred -CCChHH---HHHHHHHHHcCC----cccceeecCCCC--HHHHHHHHCC----CCeEEE---eCCHHHHHHHHHHHH
Confidence 125555 899999999863 234556666663 5566677663 555333 457777666666655
No 110
>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=33.47 E-value=1.4e+02 Score=25.07 Aligned_cols=6 Identities=17% Similarity=-0.003 Sum_probs=2.8
Q ss_pred chHHHh
Q 020234 249 NFTDVA 254 (329)
Q Consensus 249 ~~~~vA 254 (329)
+..++.
T Consensus 13 D~Hd~g 18 (132)
T TIGR00640 13 DGHDRG 18 (132)
T ss_pred CccHHH
Confidence 344554
No 111
>COG4231 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]
Probab=33.40 E-value=6.4e+02 Score=27.10 Aligned_cols=34 Identities=9% Similarity=0.115 Sum_probs=25.9
Q ss_pred hccCCceEecCC--CcEEEEEcCCcHHHHHHHHHhcc
Q 020234 164 SASLKFTVLNPK--GRIWTMVAGGGASVIYADTVGDL 198 (329)
Q Consensus 164 a~~~~l~yv~l~--g~I~ii~NG~Glam~t~D~l~~~ 198 (329)
..+..+|.+..+ ++||||+.|.. ..-.-++|...
T Consensus 234 ~~~~~~n~v~~~~~~~lGII~~G~a-y~yVkeAl~~l 269 (640)
T COG4231 234 INANPLNRVEGSDDAKLGIIASGIA-YNYVKEALEDL 269 (640)
T ss_pred HhhCcccccccCCCCceEEEecCcc-HHHHHHHHHHc
Confidence 445678888888 99999998874 44456888876
No 112
>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=33.01 E-value=2.7e+02 Score=24.94 Aligned_cols=66 Identities=12% Similarity=0.156 Sum_probs=37.6
Q ss_pred CCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHH
Q 020234 212 GAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 291 (329)
Q Consensus 212 G~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar 291 (329)
++.+.+..++.++-+|+ ++|++++|+.. .+..| .++++++++.+. .....++.-.| ..++.
T Consensus 165 ~~~~~~~~~~~~~~~l~---~~~~~~ai~~~-------~d~~a---~g~~~al~~~g~----~~~~~ivg~d~--~~~~~ 225 (274)
T cd06311 165 ANWNRDDAFSVMQDLLT---KFPKIDAVWAH-------DDDMA---VGVLAAIKQAGR----TDIKFVVGGAG--SKDMI 225 (274)
T ss_pred CCCcHHHHHHHHHHHHH---hCCCcCEEEEC-------CCcHH---HHHHHHHHHcCC----CCCceEEEeCC--CHHHH
Confidence 34455554555554443 26788887642 25666 899999998762 11223333333 35566
Q ss_pred HHHHH
Q 020234 292 AKMRA 296 (329)
Q Consensus 292 ~~l~~ 296 (329)
+.+++
T Consensus 226 ~~i~~ 230 (274)
T cd06311 226 KMIMD 230 (274)
T ss_pred HHHHC
Confidence 77765
No 113
>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=32.73 E-value=4.9e+02 Score=26.09 Aligned_cols=24 Identities=4% Similarity=0.144 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHhhhcCcceeee
Q 020234 82 GKIGDFIMGVFAVFQDLDFSFIEM 105 (329)
Q Consensus 82 ~~~~~il~~L~~~f~e~d~~llEI 105 (329)
++=.++|.++.+++.++-..+.++
T Consensus 41 ~~R~~~L~~~a~~l~~~~~~la~~ 64 (456)
T cd07110 41 AERAKYLRAIAEGVRERREELAEL 64 (456)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHH
Confidence 344566777777777665544443
No 114
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=32.70 E-value=3.5e+02 Score=28.55 Aligned_cols=30 Identities=20% Similarity=0.352 Sum_probs=24.0
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCCCeEEE
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLGCTISF 38 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~ 38 (329)
..++||++++..+|+.+.+..|.++.+..+
T Consensus 194 ~~vlvEefI~~~~EisV~v~r~~~G~i~~~ 223 (577)
T PLN02948 194 RGLYAEKWAPFVKELAVMVARSRDGSTRCY 223 (577)
T ss_pred CcEEEEecCCCCeEEEEEEEECCCCCEEEe
Confidence 368999999999999999998776654443
No 115
>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=32.46 E-value=2.5e+02 Score=23.21 Aligned_cols=60 Identities=10% Similarity=0.035 Sum_probs=43.4
Q ss_pred CceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 020234 205 GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 284 (329)
Q Consensus 205 aN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G 284 (329)
-||+-+....+.+.+.++++-++. ++++-.|+|+ +.+| +-+-..++++. ...|.++=+.+
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 689988888899999999999887 7887555542 4555 55545555543 36898888877
No 116
>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed
Probab=32.43 E-value=3.7e+02 Score=24.97 Aligned_cols=33 Identities=15% Similarity=0.340 Sum_probs=23.8
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCCCeEEEeccC
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLGCTISFSECG 42 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~S~~G 42 (329)
..++|||+++ .+|+.+.+.-|+..+.+-....+
T Consensus 170 ~~~lvEe~i~-G~E~~v~vi~~~~~~~~~~~~~~ 202 (304)
T PRK01372 170 DEVLVEKYIK-GRELTVAVLGGKALPVIEIVPAG 202 (304)
T ss_pred CcEEEEcccC-CEEEEEEEECCCccceEEEEecC
Confidence 5699999998 78999998877655554433333
No 117
>PRK00061 ribH 6,7-dimethyl-8-ribityllumazine synthase; Provisional
Probab=32.38 E-value=3.4e+02 Score=23.58 Aligned_cols=115 Identities=11% Similarity=0.022 Sum_probs=72.2
Q ss_pred HHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe-c--cccCchHHHhhhHHHHHHH
Q 020234 187 ASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI-G--GGIANFTDVATTFNGIIRA 263 (329)
Q Consensus 187 lam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i-~--ggi~~~~~vA~~~~gii~a 263 (329)
+---+.+.|... |....|.--+ -=|-.-.+=-+++.+++ ..+.|+++..- . |+...++-|+ +++.+.
T Consensus 30 l~~ga~~~l~~~--gv~~~~i~v~-~VPGa~EiP~a~~~l~~----~~~~DavIalG~VIrG~T~H~e~V~---~~v~~g 99 (154)
T PRK00061 30 LLEGALDALKRH--GVSEENIDVV-RVPGAFEIPLAAKKLAE----SGKYDAVIALGAVIRGETPHFDYVA---NEVAKG 99 (154)
T ss_pred HHHHHHHHHHHc--CCCccceEEE-ECCCHHHHHHHHHHHHH----cCCCCEEEEEeeEEcCCCchHHHHH---HHHHHH
Confidence 344466777775 5555554433 23444445566666665 56788888765 2 7666667777 777777
Q ss_pred HHHhhhhhhcccceEEEE-eCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhh
Q 020234 264 LREKESKLKAARMHIFVR-RGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 264 l~~~~~~~~~~~~pvvvr-l~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~ 326 (329)
+.+..-+ ..+||... |...|.++++..-.. .. ..-=.||++.+++++.
T Consensus 100 l~~v~l~---~~~PV~~GVLt~~~~eQa~~R~~~-------~~-----~nkG~eaa~aal~m~~ 148 (154)
T PRK00061 100 LADVSLE---TGVPVGFGVLTTDTIEQAIERAGT-------KA-----GNKGAEAALAALEMAN 148 (154)
T ss_pred HHHHHhc---cCCCEEEEecCCCCHHHHHHHhCc-------cc-----cccHHHHHHHHHHHHH
Confidence 6666421 47999877 888888887554431 11 2345678888888764
No 118
>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=31.55 E-value=3.9e+02 Score=25.36 Aligned_cols=61 Identities=11% Similarity=0.107 Sum_probs=38.9
Q ss_pred eeccCCCCHHHHHHHHHHHhcccccC--CCCCEEEEEe--ccc-----cC-chHHHhhhHHHHHHHHHHhhhhhhcccce
Q 020234 208 AEYSGAPNEEEVLQYARVVIDCATAD--PDGRKRALLI--GGG-----IA-NFTDVATTFNGIIRALREKESKLKAARMH 277 (329)
Q Consensus 208 lDlgG~a~~e~~~~a~~ill~~~~~~--~~v~~vlv~i--~gg-----i~-~~~~vA~~~~gii~al~~~~~~~~~~~~p 277 (329)
+.+.|. ++.+.+.++.+.+ . +..+++=+|+ |.. .. +.+ .. .-|++++++. .++|
T Consensus 96 vsi~g~--~~~~~~~~~~~~~----~~~~~ad~ielN~sCPn~~~~~~~~~~~~-~~---~~i~~~v~~~------~~iP 159 (294)
T cd04741 96 ISVTGS--AEDIAAMYKKIAA----HQKQFPLAMELNLSCPNVPGKPPPAYDFD-AT---LEYLTAVKAA------YSIP 159 (294)
T ss_pred EECCCC--HHHHHHHHHHHHh----hccccccEEEEECCCCCCCCcccccCCHH-HH---HHHHHHHHHh------cCCC
Confidence 455666 7888888777654 2 2688999998 331 11 222 22 4566766665 3699
Q ss_pred EEEEeCC
Q 020234 278 IFVRRGG 284 (329)
Q Consensus 278 vvvrl~G 284 (329)
|++.+.-
T Consensus 160 v~vKl~p 166 (294)
T cd04741 160 VGVKTPP 166 (294)
T ss_pred EEEEeCC
Confidence 9999654
No 119
>PRK12999 pyruvate carboxylase; Reviewed
Probab=30.69 E-value=2.7e+02 Score=32.02 Aligned_cols=31 Identities=16% Similarity=0.350 Sum_probs=24.5
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCCCeEEEe
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 39 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~S 39 (329)
..++||++++..+|+-+.+..|..+.++.+.
T Consensus 199 ~~vlVEefI~g~~~ieVqvl~D~~G~vv~l~ 229 (1146)
T PRK12999 199 DEVYLEKYVENPRHIEVQILGDKHGNVVHLY 229 (1146)
T ss_pred CcEEEecCCCCCeEEEEEEEEECCCCEEEEE
Confidence 3589999999888888888888877665543
No 120
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=30.15 E-value=4.3e+02 Score=26.14 Aligned_cols=80 Identities=16% Similarity=0.276 Sum_probs=57.6
Q ss_pred EEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHH
Q 020234 238 KRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGI 317 (329)
Q Consensus 238 ~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~a 317 (329)
.+|+.-..|.-..|.+| + ++..+++. .+.|++--|.|--..|.+-|+.-.+++|+++.--..-.+|...
T Consensus 141 Vil~vGVNG~GKTTTIa---K-LA~~l~~~-------g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaV 209 (340)
T COG0552 141 VILFVGVNGVGKTTTIA---K-LAKYLKQQ-------GKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAV 209 (340)
T ss_pred EEEEEecCCCchHhHHH---H-HHHHHHHC-------CCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHH
Confidence 44444477777777777 3 44445543 4678888888887888999988888899997652123788888
Q ss_pred HHHHHHHhhhc
Q 020234 318 CKQAIDCIMSA 328 (329)
Q Consensus 318 v~~~v~~~~~~ 328 (329)
+-.+++.++++
T Consensus 210 afDAi~~Akar 220 (340)
T COG0552 210 AFDAIQAAKAR 220 (340)
T ss_pred HHHHHHHHHHc
Confidence 88888888765
No 121
>PRK08654 pyruvate carboxylase subunit A; Validated
Probab=30.07 E-value=6e+02 Score=26.18 Aligned_cols=31 Identities=19% Similarity=0.455 Sum_probs=25.7
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCCCeEEEe
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLGCTISFS 39 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~S 39 (329)
..++||++++..+|+-+.+..|+.+.++.++
T Consensus 195 ~~v~vE~~I~~~r~ieVqvl~d~~G~vv~l~ 225 (499)
T PRK08654 195 STVFIEKYLEKPRHIEIQILADKHGNVIHLG 225 (499)
T ss_pred CeEEEEeCCCCCcEEEEEEEEcCCCCEEEEe
Confidence 3699999999889999999999887765544
No 122
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=29.89 E-value=4e+02 Score=27.37 Aligned_cols=64 Identities=19% Similarity=0.336 Sum_probs=40.2
Q ss_pred HHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhhhc
Q 020234 258 NGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSA 328 (329)
Q Consensus 258 ~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~~~ 328 (329)
--++..+++++ .+|.+|..---. -.|.+-|+...+..|+|++--+...+|-+.++.+++.++..
T Consensus 118 ~KLA~~lkk~~------~kvllVaaD~~R-pAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~ak~~ 181 (451)
T COG0541 118 GKLAKYLKKKG------KKVLLVAADTYR-PAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEKAKEE 181 (451)
T ss_pred HHHHHHHHHcC------CceEEEecccCC-hHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHHHHHc
Confidence 34667777743 466665533322 34455555555556888744334568999999999988764
No 123
>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=29.65 E-value=1.6e+02 Score=25.99 Aligned_cols=44 Identities=11% Similarity=0.289 Sum_probs=27.1
Q ss_pred CCCCEEEEEe--ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeC---CCCHHHH
Q 020234 234 PDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG---GPNYQTG 290 (329)
Q Consensus 234 ~~v~~vlv~i--~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~---G~~~~~a 290 (329)
.+.+.+++-+ |||..... ..|.++++.. ++||++... |.....|
T Consensus 28 ~~~~~i~l~inSPGG~v~~~------~~I~~~i~~~-------~~pvv~~v~p~g~~AaSag 76 (172)
T cd07015 28 DNAEAIIIELDTPGGRADAA------GNIVQRIQQS-------KIPVIIYVYPPGASAASAG 76 (172)
T ss_pred CCCCeEEEEEECCCCCHHHH------HHHHHHHHhc-------CcCEEEEEecCCCeehhHH
Confidence 3566666555 99876432 6777777653 578887654 5444433
No 124
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=29.05 E-value=56 Score=33.10 Aligned_cols=54 Identities=20% Similarity=0.262 Sum_probs=36.4
Q ss_pred HHHHHHHHHhhhhhhcccceEE------EEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHH
Q 020234 258 NGIIRALREKESKLKAARMHIF------VRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 323 (329)
Q Consensus 258 ~gii~al~~~~~~~~~~~~pvv------vrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~ 323 (329)
.||++++++.+ +|+| .||.|. -.-+|+.+ +++|||+--|..++++++|-...-+
T Consensus 77 ~GvvD~l~~~G-------i~vFGPsk~AA~lE~S-K~faK~fm----~k~~IPta~y~~f~~~e~a~ayi~~ 136 (428)
T COG0151 77 AGVVDALRAAG-------IPVFGPTKAAAQLEGS-KAFAKDFM----KKYGIPTAEYEVFTDPEEAKAYIDE 136 (428)
T ss_pred hhhHHHHHHCC-------CceeCcCHHHHHHHhh-HHHHHHHH----HHcCCCcccccccCCHHHHHHHHHH
Confidence 89999998864 6666 122221 12334444 4559999999999999988776544
No 125
>PF15609 PRTase_2: Phosphoribosyl transferase
Probab=28.85 E-value=1.1e+02 Score=27.59 Aligned_cols=48 Identities=35% Similarity=0.461 Sum_probs=31.4
Q ss_pred hHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceee
Q 020234 256 TFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEV 307 (329)
Q Consensus 256 ~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~ 307 (329)
|+-.+++++++..+ .+.-+++.+-.-..++.++.+.+..+++|+|+.+
T Consensus 136 T~lnli~al~~~~p----~~~yvvasL~d~~~~~~~~~~~~~~~~lgi~i~~ 183 (191)
T PF15609_consen 136 TFLNLIRALHAKYP----RKRYVVASLLDWRSEEDRARFEALAEELGIPIDV 183 (191)
T ss_pred HHHHHHHHHHHhCC----CceEEEEEEeeCCCHHHHHHHHHHHHHcCCcEEE
Confidence 34677888887753 3444555554444466677777776778999864
No 126
>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=28.68 E-value=6.1e+02 Score=25.67 Aligned_cols=43 Identities=23% Similarity=0.240 Sum_probs=24.5
Q ss_pred HHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 020234 224 RVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 286 (329)
Q Consensus 224 ~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~ 286 (329)
+.+++ +|+++.|. |+| +..+. +.|.++..+. -+|++.-+||.|
T Consensus 213 ~~L~~----~~~v~~V~---fTG---S~~~G---~~i~~~aa~~-------~~~~~lElGGkn 255 (477)
T cd07113 213 AQLIS----HPDVAKVS---FTG---SVATG---KKIGRQAASD-------LTRVTLELGGKN 255 (477)
T ss_pred HHHhc----CCCCCEEE---EEC---cHHHH---HHHHHHHHhh-------cCceEeecCCCC
Confidence 34565 88888543 333 24444 6666655443 356777777754
No 127
>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=28.52 E-value=4.1e+02 Score=23.36 Aligned_cols=120 Identities=11% Similarity=0.104 Sum_probs=62.6
Q ss_pred CcEEEEEcCCc-HH------HHHHHHHhccCCCCCC-CceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEecccc
Q 020234 176 GRIWTMVAGGG-AS------VIYADTVGDLGYASEL-GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 247 (329)
Q Consensus 176 g~I~ii~NG~G-la------m~t~D~l~~~g~gg~p-aN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi 247 (329)
.+|++++...+ .. ....+.+..+ |..+ ...+... +.+.+..+++++-+++ +.|..++++..
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 47888864432 11 1224666664 4322 2233333 3334555666666664 25667777642
Q ss_pred CchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHh
Q 020234 248 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 325 (329)
Q Consensus 248 ~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~ 325 (329)
++.+| .|+++++++++.. . ++...|+..+++.. + +.+.. ++.+ + ..++.+..+.+++++
T Consensus 186 --~d~~a---~g~~~~l~~~g~~-v-p~di~v~g~d~~~~--~-~~~~~-----~l~t-v---~~~~~~~g~~a~~~l 244 (267)
T cd06283 186 --NGLIL---LEVLKALKELGIR-I-PEDVGLIGFDDTEW--A-ELIGP-----GITT-I---AQPTYEMGKTAAELL 244 (267)
T ss_pred --CcHHH---HHHHHHHHHcCCC-C-ccceEEEEeCCccH--h-hhcCC-----cceE-e---cCCHHHHHHHHHHHH
Confidence 36667 8999999987621 0 11113456776532 1 22211 3433 1 557777777776654
No 128
>COG0436 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]
Probab=28.27 E-value=2.2e+02 Score=28.28 Aligned_cols=78 Identities=17% Similarity=0.135 Sum_probs=49.4
Q ss_pred cEEEEEcCCcHHHH-HHHHHhccCCCCC-----C-------------C--ceee-----ccCCCCHHHHHHHHHHHhccc
Q 020234 177 RIWTMVAGGGASVI-YADTVGDLGYASE-----L-------------G--NYAE-----YSGAPNEEEVLQYARVVIDCA 230 (329)
Q Consensus 177 ~I~ii~NG~Glam~-t~D~l~~~g~gg~-----p-------------a--N~lD-----lgG~a~~e~~~~a~~ill~~~ 230 (329)
+=-++++|+--++. ++.++..- |-+ | + .++. -+-.++.+.+.++ +
T Consensus 90 ~eiivt~Ga~~al~~~~~a~~~p--GDeVlip~P~Y~~y~~~~~~~gg~~v~v~l~~~~~~f~~d~~~l~~~----i--- 160 (393)
T COG0436 90 EEIIVTAGAKEALFLAFLALLNP--GDEVLIPDPGYPSYEAAVKLAGGKPVPVPLDEEENGFKPDLEDLEAA----I--- 160 (393)
T ss_pred CeEEEeCCHHHHHHHHHHHhcCC--CCEEEEeCCCCcCHHHHHHhcCCEEEEEeCCcCccCCcCCHHHHHhh----c---
Confidence 43567888876665 66777663 332 2 1 2333 2556677777666 4
Q ss_pred ccCCCCCEEEEEe---ccccCchHHHhhhHHHHHHHHHHhh
Q 020234 231 TADPDGRKRALLI---GGGIANFTDVATTFNGIIRALREKE 268 (329)
Q Consensus 231 ~~~~~v~~vlv~i---~ggi~~~~~vA~~~~gii~al~~~~ 268 (329)
.+++|+++||. |+|.+=+.+-. ++|++.++++.
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 35899999997 55555445544 78888888864
No 129
>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=28.13 E-value=4.3e+02 Score=23.44 Aligned_cols=102 Identities=18% Similarity=0.149 Sum_probs=54.8
Q ss_pred cHHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHH
Q 020234 186 GASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALR 265 (329)
Q Consensus 186 Glam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~ 265 (329)
|+-| ..+.+... |-+. +|+|-+.+++.+.++++-. +|+ .|.+.. ..+..-..+ +.+++.++
T Consensus 98 G~~~-v~~~l~~~--G~~v---i~lG~~~p~~~l~~~~~~~------~~d--~v~lS~--~~~~~~~~~---~~~i~~lr 158 (201)
T cd02070 98 GKNL-VATMLEAN--GFEV---IDLGRDVPPEEFVEAVKEH------KPD--ILGLSA--LMTTTMGGM---KEVIEALK 158 (201)
T ss_pred HHHH-HHHHHHHC--CCEE---EECCCCCCHHHHHHHHHHc------CCC--EEEEec--cccccHHHH---HHHHHHHH
Confidence 4434 45677775 4333 8899999999888773321 444 444333 122223333 77778888
Q ss_pred HhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHH
Q 020234 266 EKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQA 321 (329)
Q Consensus 266 ~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~ 321 (329)
+.. ....+-+.+||.-..+ +.-++. |--.+ .++..+|++.+
T Consensus 159 ~~~-----~~~~~~i~vGG~~~~~--~~~~~~----GaD~~----~~da~~av~~~ 199 (201)
T cd02070 159 EAG-----LRDKVKVMVGGAPVNQ--EFADEI----GADGY----AEDAAEAVAIA 199 (201)
T ss_pred HCC-----CCcCCeEEEECCcCCH--HHHHHc----CCcEE----ECCHHHHHHHH
Confidence 764 2112344555654332 223333 65542 46777777654
No 130
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=27.88 E-value=4.3e+02 Score=23.45 Aligned_cols=122 Identities=10% Similarity=0.086 Sum_probs=63.3
Q ss_pred CCcEEEEEcCCcH--H----HHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccC
Q 020234 175 KGRIWTMVAGGGA--S----VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 248 (329)
Q Consensus 175 ~g~I~ii~NG~Gl--a----m~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~ 248 (329)
.++|++++...+. + ....|.+... |- +-..+...++.+.+.-+++++-+++ +.|+.++++..
T Consensus 125 ~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~--~~-~~~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~ai~~~------ 192 (277)
T cd06319 125 DGKVGMVAIPQKRKNGQKRTKGFKEAMKEA--GC-DLAGIRQQKDFSYQETFDYTNDLLT---ANPDIRAIWLQ------ 192 (277)
T ss_pred CCcEEEEeccCCCccHHHHHHHHHHHHHhc--CC-ceEeeccCCCCCHHHHHHHHHHHHH---hCCCCCEEEEC------
Confidence 3678888632221 1 2234666663 32 2222334456666665566555554 26777776532
Q ss_pred chHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHh
Q 020234 249 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 325 (329)
Q Consensus 249 ~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~ 325 (329)
++.+| .|+++++++.+.. .++ .++...++ ..+...+.+. -+...+ ..++.+..+.+++++
T Consensus 193 -~d~~a---~g~~~al~~~g~~---~di-~vvg~d~~--~~~~~~~~~~----~~~~tv---~~~~~~~g~~a~~~l 252 (277)
T cd06319 193 -GSDRY---QGALDAIATAGKT---GKV-LLICFDAE--PEFIELLKSG----ALVGAG---MQQPFLMGERAVETV 252 (277)
T ss_pred -CCccc---hHHHHHHHHcCCC---CCE-EEEEcCCC--HHHHHHhhcC----ceEEEE---ecCHHHHHHHHHHHH
Confidence 25556 8999999987621 122 24455553 4455555441 222222 345666666666544
No 131
>PRK00366 ispG 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed
Probab=27.79 E-value=2.5e+02 Score=27.91 Aligned_cols=67 Identities=13% Similarity=0.161 Sum_probs=41.0
Q ss_pred CCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCC
Q 020234 234 PDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEAT 313 (329)
Q Consensus 234 ~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~ 313 (329)
..++++=|| ||-|-+..+-. +.++++.++++ + -+|.|-+.-.-.++++++. | ..+
T Consensus 100 ~G~~~iRIN-PGNig~~~~~v---~~vv~~ak~~~-------i--pIRIGvN~GSL~~~~~~~y----g--------~~t 154 (360)
T PRK00366 100 AGADALRIN-PGNIGKRDERV---REVVEAAKDYG-------I--PIRIGVNAGSLEKDLLEKY----G--------EPT 154 (360)
T ss_pred hCCCEEEEC-CCCCCchHHHH---HHHHHHHHHCC-------C--CEEEecCCccChHHHHHHc----C--------CCC
Confidence 356666433 77776533333 78889888864 3 4576666545456677765 4 336
Q ss_pred HHHHHHHHHHHh
Q 020234 314 MTGICKQAIDCI 325 (329)
Q Consensus 314 ~~~av~~~v~~~ 325 (329)
++.-|+.|++.+
T Consensus 155 ~eamveSAl~~~ 166 (360)
T PRK00366 155 PEALVESALRHA 166 (360)
T ss_pred HHHHHHHHHHHH
Confidence 666666666654
No 132
>PRK04690 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=27.65 E-value=5.9e+02 Score=25.78 Aligned_cols=93 Identities=16% Similarity=0.097 Sum_probs=50.6
Q ss_pred eeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 020234 207 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 286 (329)
Q Consensus 207 ~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~ 286 (329)
++|=....+++.+..+++.+ . +. -++.++||..+-.+. +.+++.+.+.. ...++.. |.+
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 55555577788777765442 1 21 234567776543343 45666554321 1122223 334
Q ss_pred HHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHH
Q 020234 287 YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 323 (329)
Q Consensus 287 ~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~ 323 (329)
.+.+.+.|.+...+.+.++.+ ++++++|++.+.+
T Consensus 384 ~~r~~~~l~~~~~~~~~~~~~---~~~~~~Av~~A~~ 417 (468)
T PRK04690 384 GPRIHALLAPLAAAGRFGLHA---ADDLAHAVRLART 417 (468)
T ss_pred HHHHHHHHHhcccccCCceEE---cCCHHHHHHHHHH
Confidence 444555565533233445554 6799999999987
No 133
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=27.47 E-value=5.2e+02 Score=24.21 Aligned_cols=118 Identities=14% Similarity=0.101 Sum_probs=62.7
Q ss_pred CcEEEEEcCCcHH------HHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCc
Q 020234 176 GRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIAN 249 (329)
Q Consensus 176 g~I~ii~NG~Gla------m~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~ 249 (329)
++|++++...+.. --..+.+..+ |..+...+-.-++.+.+.-+++++-+++ ..+..++++. .
T Consensus 177 ~~I~~i~~~~~~~~~~~R~~Gf~~al~~~--gi~~~~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~ai~~-------~ 244 (343)
T PRK10727 177 TRIGYLCSNHSISDAEDRLQGYYDALAES--GIPANDRLVTFGEPDESGGEQAMTELLG---RGRNFTAVAC-------Y 244 (343)
T ss_pred ccEEEEeCCccccchHHHHHHHHHHHHHC--CCCCChhhEEeCCCChhHHHHHHHHHHh---CCCCCCEEEE-------c
Confidence 5799885332211 1123666664 4443221222355565555566666664 2456677753 2
Q ss_pred hHHHhhhHHHHHHHHHHhhhhhhcccce---EEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHh
Q 020234 250 FTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 325 (329)
Q Consensus 250 ~~~vA~~~~gii~al~~~~~~~~~~~~p---vvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~ 325 (329)
++.+| .|+++++++++ .++| -|+...+.. .+ +.+. -.+.+ + ..++.+..+.+++++
T Consensus 245 nD~~A---~g~~~al~~~G-----~~vP~disVigfD~~~--~~-~~~~-----p~ltt-v---~~~~~~~g~~A~~~l 303 (343)
T PRK10727 245 NDSMA---AGAMGVLNDNG-----IDVPGEISLIGFDDVL--VS-RYVR-----PRLTT-V---RYPIVTMATQAAELA 303 (343)
T ss_pred CcHHH---HHHHHHHHHcC-----CCCCcceeEEeecCcH--HH-HhcC-----CCCee-e---eCCHHHHHHHHHHHH
Confidence 37778 99999999986 3444 344455542 11 1111 03332 1 456677666666654
No 134
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic 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=27.35 E-value=4.4e+02 Score=23.34 Aligned_cols=122 Identities=16% Similarity=0.171 Sum_probs=61.5
Q ss_pred CCcEEEEEc--CCcHHHH----HHHHHhccCCCCCCCceeec-cCCCCHHHHHHHHHHHhcccccC-CCCCEEEEEeccc
Q 020234 175 KGRIWTMVA--GGGASVI----YADTVGDLGYASELGNYAEY-SGAPNEEEVLQYARVVIDCATAD-PDGRKRALLIGGG 246 (329)
Q Consensus 175 ~g~I~ii~N--G~Glam~----t~D~l~~~g~gg~paN~lDl-gG~a~~e~~~~a~~ill~~~~~~-~~v~~vlv~i~gg 246 (329)
.++|++++. .-+.+.. ..+.+..+ | ..-+..+. .++-+.+.-++.++-+++ ++ |++++|++
T Consensus 125 ~~~i~~l~~~~~~~~~~~r~~g~~~~~~~~--~-~~~~~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~~ai~~----- 193 (275)
T cd06317 125 KGQIVVIAGQPGNGTAIERQKGFEDELAEV--C-PGVEVLDTQPADWDREKAQVAMEALIT---KFGDDIDGVYA----- 193 (275)
T ss_pred CceEEEEecCCCCchHHHHHHHHHHHHHhh--C-CCCEEEeccCCCCCHHHHHHHHHHHHH---hCCCCccEEEE-----
Confidence 367888853 2222221 23555554 2 11222222 233444554555555554 24 77888874
Q ss_pred cCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCc-eeecCCCCCHHHHHHHHHHHh
Q 020234 247 IANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIP-LEVYGPEATMTGICKQAIDCI 325 (329)
Q Consensus 247 i~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip-~~~~g~~~~~~~av~~~v~~~ 325 (329)
..+..| .++++++++++.. .++. ++..++. ..+...+++ |.+ +.+ ..++.+..+.+++++
T Consensus 194 --~~d~~a---~g~~~~l~~~g~~---~dv~-v~g~d~~--~~~~~~i~~-----~~~~ttv---~~~~~~~g~~a~~~l 254 (275)
T cd06317 194 --GDDNMA---RGALNAAKEAGLA---GGIV-IVGANNF--AVGYEAIRA-----GKYYGTI---YQSPVDDGEAALQTA 254 (275)
T ss_pred --CCCcHH---HHHHHHHHhcCCc---CCcE-EEEeCCC--HHHHHHHHc-----CCceEEE---ecCHHHHHHHHHHHH
Confidence 225666 8999999988631 1333 3444443 334444443 222 222 456667666666655
Q ss_pred h
Q 020234 326 M 326 (329)
Q Consensus 326 ~ 326 (329)
.
T Consensus 255 ~ 255 (275)
T cd06317 255 M 255 (275)
T ss_pred H
Confidence 3
No 135
>cd01304 FMDH_A Formylmethanofuran dehydrogenase (FMDH) subunit A; Methanogenic bacteria and archea derive the energy for autotrophic growth from methanogenesis, the reduction of CO2 with molecular hydrogen as the electron donor. FMDH catalyzes the first step in methanogenesis, the formyl-methanofuran synthesis. In this step, CO2 is bound to methanofuran and subsequently reduced to the formyl state with electrons derived from hydrogen.
Probab=26.74 E-value=6.8e+02 Score=26.38 Aligned_cols=98 Identities=22% Similarity=0.365 Sum_probs=60.6
Q ss_pred CHHHHHHHHHHHhcccccCCCCCEEEEEeccc---------------------cCchHHHhhhHHHHHHHHHHhhhhhhc
Q 020234 215 NEEEVLQYARVVIDCATADPDGRKRALLIGGG---------------------IANFTDVATTFNGIIRALREKESKLKA 273 (329)
Q Consensus 215 ~~e~~~~a~~ill~~~~~~~~v~~vlv~i~gg---------------------i~~~~~vA~~~~gii~al~~~~~~~~~ 273 (329)
+.++....+.++|+. .+..-..+|| ||| +++ .+|. ++++++..+.+
T Consensus 156 ~~~~~~~~vaw~l~~---tk~~giK~vn-pgG~~a~~~~~~~~~~d~~~~~~~vtp-~~ii---~~l~~~~~~lg----- 222 (541)
T cd01304 156 DMEKLAAYVAWTLKA---SKGYGIKVVN-PGGTEAWGWGQNVLSLDDPVPYFDITP-REIL---KGLAEANEELG----- 222 (541)
T ss_pred CHHHHHHHHHHHHHh---ccceEEEEEC-CCchhhhccCCccccccCCCCCCCCCH-HHHH---HHHHHHHHhcC-----
Confidence 667777777787761 2333333444 554 332 4666 77777777764
Q ss_pred ccceEEEE---eCCC-CHHHHHHHHHHhccccCCc--------------eeecCCCC--CHHHHHHHHHHHhhhc
Q 020234 274 ARMHIFVR---RGGP-NYQTGLAKMRALGEELGIP--------------LEVYGPEA--TMTGICKQAIDCIMSA 328 (329)
Q Consensus 274 ~~~pvvvr---l~G~-~~~~ar~~l~~~~~~~gip--------------~~~~g~~~--~~~~av~~~v~~~~~~ 328 (329)
.+.||=++ ||.+ |.+..++.++-+. |++ .+.||... +++.+++...+..+++
T Consensus 223 ~ph~iH~h~nnlg~pgn~~~t~~t~~~~~---~~~~~~~~~~~h~tH~qfhsyg~~~~~~~~s~a~~i~~~~n~~ 294 (541)
T cd01304 223 LPHSIHVHCNNLGVPGNYETTLETMKAAE---GVKPDPRRQVLHLTHVQFHSYGGTSWRDFESGAERIADYVNAN 294 (541)
T ss_pred CceEEEEccccCCCCCcHHHHHHHHHHhh---cCCCccccceeEeeeeeEEeeccCCcccHhHHHHHHHHHHHcC
Confidence 45667777 8776 6665555554321 333 34688664 8899988888877654
No 136
>cd02940 DHPD_FMN Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. 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 the dimer interface twice. Two of the Fe-S clusters show a hitherto unobserved coordination involving a glutamine residue.
Probab=26.44 E-value=5.5e+02 Score=24.26 Aligned_cols=63 Identities=17% Similarity=0.225 Sum_probs=41.2
Q ss_pred eeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe--ccccC---------chHHHhhhHHHHHHHHHHhhhhhhcccc
Q 020234 208 AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIA---------NFTDVATTFNGIIRALREKESKLKAARM 276 (329)
Q Consensus 208 lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi~---------~~~~vA~~~~gii~al~~~~~~~~~~~~ 276 (329)
.-+.|..+++.+.++++.+- +...+++=+|+ |.... ...+.. ..|++++++. .++
T Consensus 104 ~si~G~~~~~~~~~~a~~~~-----~~gad~ielN~sCP~~~~~~~~G~~l~~~~~~~---~~iv~~v~~~------~~~ 169 (299)
T cd02940 104 ASIMCEYNKEDWTELAKLVE-----EAGADALELNFSCPHGMPERGMGAAVGQDPELV---EEICRWVREA------VKI 169 (299)
T ss_pred EEecCCCCHHHHHHHHHHHH-----hcCCCEEEEECCCCCCCCCCCCchhhccCHHHH---HHHHHHHHHh------cCC
Confidence 44555557788999988874 45788999998 43211 111222 5577777665 368
Q ss_pred eEEEEeCC
Q 020234 277 HIFVRRGG 284 (329)
Q Consensus 277 pvvvrl~G 284 (329)
||++.+.-
T Consensus 170 Pv~vKl~~ 177 (299)
T cd02940 170 PVIAKLTP 177 (299)
T ss_pred CeEEECCC
Confidence 99999764
No 137
>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=26.31 E-value=4.9e+02 Score=23.55 Aligned_cols=103 Identities=14% Similarity=0.090 Sum_probs=56.1
Q ss_pred HHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhh
Q 020234 190 IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKES 269 (329)
Q Consensus 190 ~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~ 269 (329)
+...++...|+ .-+|+|-+.+++.+.++.+- .+.+.|.+-.. .+....-+ +.+++.+++.+
T Consensus 107 iv~~~l~~~G~-----~Vi~LG~~vp~e~~v~~~~~--------~~~~~V~lS~~--~~~~~~~~---~~~i~~L~~~~- 167 (213)
T cd02069 107 LVGVILSNNGY-----EVIDLGVMVPIEKILEAAKE--------HKADIIGLSGL--LVPSLDEM---VEVAEEMNRRG- 167 (213)
T ss_pred HHHHHHHhCCC-----EEEECCCCCCHHHHHHHHHH--------cCCCEEEEccc--hhccHHHH---HHHHHHHHhcC-
Confidence 34567777532 44899999999988887332 33444444332 22222223 77777777763
Q ss_pred hhhcccceEEEEeCCC--CHHHHHHH-HHHhccccCCceeecCCCCCHHHHHHHHHHH
Q 020234 270 KLKAARMHIFVRRGGP--NYQTGLAK-MRALGEELGIPLEVYGPEATMTGICKQAIDC 324 (329)
Q Consensus 270 ~~~~~~~pvvvrl~G~--~~~~ar~~-l~~~~~~~gip~~~~g~~~~~~~av~~~v~~ 324 (329)
.+.+ +.+||. +.+-+.+. +.+ ..|-. .| ..+..+||+.+-++
T Consensus 168 ----~~~~--i~vGG~~~~~~~~~~~~~~~---~~gad--~y--~~da~~~v~~~~~~ 212 (213)
T cd02069 168 ----IKIP--LLIGGAATSRKHTAVKIAPE---YDGPV--VY--VKDASRALGVANKL 212 (213)
T ss_pred ----CCCe--EEEEChhcCHHHHhhhhccc---cCCCc--eE--ecCHHHHHHHHHHh
Confidence 3444 445553 44433321 111 12543 33 57888888776553
No 138
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=26.26 E-value=4.6e+02 Score=23.17 Aligned_cols=34 Identities=18% Similarity=0.175 Sum_probs=18.1
Q ss_pred eEEEEeCCCCHHHHHHHHHHhccccCC--c--eeecCCCCCHH
Q 020234 277 HIFVRRGGPNYQTGLAKMRALGEELGI--P--LEVYGPEATMT 315 (329)
Q Consensus 277 pvvvrl~G~~~~~ar~~l~~~~~~~gi--p--~~~~g~~~~~~ 315 (329)
..+++..........+.+++. |+ | +.++| ++...
T Consensus 175 ~ai~~~~d~~a~~~~~al~~~----g~~vp~di~v~g-~d~~~ 212 (265)
T cd06291 175 DGIFASNDLTAILVLKEAQQR----GIRVPEDLQIIG-YDGTK 212 (265)
T ss_pred CEEEECChHHHHHHHHHHHHc----CCCCCcceEEec-cCChH
Confidence 345554444445556666665 54 2 56666 44433
No 139
>TIGR03175 AllD ureidoglycolate dehydrogenase. This enzyme converts ureidoglycolate to oxalureate in the non-urea-forming catabolism of allantoin (GenProp0687). The pathway has been characterized in E. coli and is observed in the genomes of Entercoccus faecalis and Bacillus licheniformis.
Probab=26.23 E-value=94 Score=30.70 Aligned_cols=76 Identities=12% Similarity=0.081 Sum_probs=39.7
Q ss_pred CCEEEEEe-ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCH
Q 020234 236 GRKRALLI-GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATM 314 (329)
Q Consensus 236 v~~vlv~i-~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~ 314 (329)
+--.++-| |.-+.+.++..+....+++.+|...+. +..-| ||+.|..+.+.++.-.+- |||+ ..++.
T Consensus 261 ~G~~~iaIDP~~F~~~~~f~~~~~~~~~~~r~~~~a--~g~~~--V~~PGe~e~~~~~~~~~~----GI~l----~~~~~ 328 (349)
T TIGR03175 261 LGQLHLVINPAFFTDCELFKKHISQMMQELNSVPPA--EGFKQ--VYYPGEDGDLKQKKADME----GIEI----VDDIY 328 (349)
T ss_pred cceEEEEEChHHcCCHHHHHHHHHHHHHHHhcCCCC--CCCCc--eECCCcHHHHHHHHHHcc----CCcc----CHHHH
Confidence 33444555 766666555553345666666665321 00112 689997666554433333 9998 24444
Q ss_pred HHHHHHHHH
Q 020234 315 TGICKQAID 323 (329)
Q Consensus 315 ~~av~~~v~ 323 (329)
++-.+.+|.
T Consensus 329 ~~L~~la~~ 337 (349)
T TIGR03175 329 QYLVSDAVH 337 (349)
T ss_pred HHHHHHHHH
Confidence 444444443
No 140
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=25.99 E-value=4.3e+02 Score=23.91 Aligned_cols=90 Identities=18% Similarity=0.164 Sum_probs=52.4
Q ss_pred ccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHH
Q 020234 210 YSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQT 289 (329)
Q Consensus 210 lgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ 289 (329)
+.++.+.+.-+++++-+++ ..|++++++. ..+.+| -|+++++++++. .+--.++..++. .+
T Consensus 168 ~~~~~~~~~~~~~~~~~l~---~~~~~~ai~~-------~nd~~A---~g~l~al~~~G~----~~dv~vvg~d~~--~~ 228 (280)
T cd06303 168 FYTDATRQKAYQATSDILS---NNPDVDFIYA-------CSTDIA---LGASDALKELGR----EDDILINGWGGG--SA 228 (280)
T ss_pred ecCCCCHHHHHHHHHHHHH---hCCCCcEEEE-------CCcHHH---HHHHHHHHHcCC----CCCcEEEecCCC--HH
Confidence 3455666655556655554 2577887763 236777 899999999862 111233445554 45
Q ss_pred HHHHHHHhccccCCc-eeecCCCCCHHHHHHHHHHHhh
Q 020234 290 GLAKMRALGEELGIP-LEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 290 ar~~l~~~~~~~gip-~~~~g~~~~~~~av~~~v~~~~ 326 (329)
+...+.+ |-+ ..+ ..++.+..+.+++++.
T Consensus 229 ~~~~~~~-----g~~~~tv---~~~~~~~g~~~~~~~~ 258 (280)
T cd06303 229 ELDAIQQ-----GELDVTV---MRMNDDTGVAMAEAIK 258 (280)
T ss_pred HHHHHHc-----CCceEEE---ecCchHhHHHHHHHHH
Confidence 5556665 433 333 4466777666666553
No 141
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=25.99 E-value=4.7e+02 Score=23.22 Aligned_cols=37 Identities=14% Similarity=0.142 Sum_probs=22.6
Q ss_pred EEEEeCCCCHHHHHHHHHHhccccCCc--eeecCCCCCHHHHHH
Q 020234 278 IFVRRGGPNYQTGLAKMRALGEELGIP--LEVYGPEATMTGICK 319 (329)
Q Consensus 278 vvvrl~G~~~~~ar~~l~~~~~~~gip--~~~~g~~~~~~~av~ 319 (329)
.+++.++..+....+.|++. |++ +.++| ++....+..
T Consensus 188 ai~~~~d~~a~g~~~al~~~----g~~~di~vvg-~d~~~~~~~ 226 (277)
T cd06319 188 AIWLQGSDRYQGALDAIATA----GKTGKVLLIC-FDAEPEFIE 226 (277)
T ss_pred EEEECCCccchHHHHHHHHc----CCCCCEEEEE-cCCCHHHHH
Confidence 55667776666677777776 664 45556 444444443
No 142
>COG3933 Transcriptional antiterminator [Transcription]
Probab=25.88 E-value=5.8e+02 Score=26.30 Aligned_cols=89 Identities=16% Similarity=0.186 Sum_probs=51.7
Q ss_pred CceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCC
Q 020234 205 GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 284 (329)
Q Consensus 205 aN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G 284 (329)
.=-+---|.+|+.++.+...-+|. ..- ..-++.|--.+ +.+|. +.+.+.+++.... ..+-++|=||-
T Consensus 110 ~vIiiAHG~sTASSmaevanrLL~----~~~--~~aiDMPLdvs-p~~vl---e~l~e~~k~~~~~---~GlllLVDMGS 176 (470)
T COG3933 110 KVIIIAHGYSTASSMAEVANRLLG----EEI--FIAIDMPLDVS-PSDVL---EKLKEYLKERDYR---SGLLLLVDMGS 176 (470)
T ss_pred eEEEEecCcchHHHHHHHHHHHhh----ccc--eeeecCCCcCC-HHHHH---HHHHHHHHhcCcc---CceEEEEecch
Confidence 334455677888888888888876 222 22234454333 35666 7777777766531 23445566776
Q ss_pred CCHHHHHHHHHHhccccCCceeecCCC
Q 020234 285 PNYQTGLAKMRALGEELGIPLEVYGPE 311 (329)
Q Consensus 285 ~~~~~ar~~l~~~~~~~gip~~~~g~~ 311 (329)
.. .-|..+-++. |||+.++...
T Consensus 177 L~-~f~~~i~~~~----~ipv~~i~nV 198 (470)
T COG3933 177 LT-SFGSIISEEF----GIPVKVIPNV 198 (470)
T ss_pred HH-HHHHHHHHHh----CCceEEEecc
Confidence 54 3344444554 8888877533
No 143
>cd07144 ALDH_ALD2-YMR170C Saccharomyces cerevisiae aldehyde dehydrogenase 2 (YMR170c)-like. NAD(P)+-dependent Saccharomyces cerevisiae aldehyde dehydrogenase 2 (YMR170c, ALD5, EC=1.2.1.5) and other similar sequences, are present in this CD.
Probab=25.85 E-value=6.7e+02 Score=25.39 Aligned_cols=24 Identities=4% Similarity=0.073 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHhhhcCcceeee
Q 020234 82 GKIGDFIMGVFAVFQDLDFSFIEM 105 (329)
Q Consensus 82 ~~~~~il~~L~~~f~e~d~~llEI 105 (329)
++=.++|.++.+++.++-..++++
T Consensus 68 ~~R~~iL~~~a~~l~~~~~~l~~~ 91 (484)
T cd07144 68 EERGELLDKLADLVEKNRDLLAAI 91 (484)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHH
Confidence 334566777777777765544443
No 144
>COG0646 MetH Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]
Probab=25.83 E-value=5.6e+02 Score=24.95 Aligned_cols=67 Identities=16% Similarity=0.090 Sum_probs=41.5
Q ss_pred HHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEE--------E-eCCCCHH
Q 020234 218 EVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFV--------R-RGGPNYQ 288 (329)
Q Consensus 218 ~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvv--------r-l~G~~~~ 288 (329)
.|++.++.++ +-.+|.+|+=...-+ .-+ ++.+.+.++.... +..++||++ | +.|...+
T Consensus 144 ay~eq~~~Li-----~gG~D~iLiET~~D~----l~~---KaA~~a~~~~~~~-~~~~LPv~~s~Ti~~sG~tl~Gq~~~ 210 (311)
T COG0646 144 AYREQVEGLI-----DGGADLILIETIFDT----LNA---KAAVFAAREVFEE-LGVRLPVMISGTITDSGRTLSGQTIE 210 (311)
T ss_pred HHHHHHHHHH-----hCCCcEEEEehhccH----HHH---HHHHHHHHHHHHh-cCCcccEEEEEEEecCceecCCCcHH
Confidence 4666666666 578998887664322 222 5555555554321 125688875 3 6788888
Q ss_pred HHHHHHHHh
Q 020234 289 TGLAKMRAL 297 (329)
Q Consensus 289 ~ar~~l~~~ 297 (329)
+.+..|+..
T Consensus 211 a~~~~l~~~ 219 (311)
T COG0646 211 AFLNSLEHL 219 (311)
T ss_pred HHHHHhhcc
Confidence 888877765
No 145
>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=25.78 E-value=2.1e+02 Score=26.56 Aligned_cols=63 Identities=25% Similarity=0.306 Sum_probs=0.0
Q ss_pred HHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhh
Q 020234 191 YADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKE 268 (329)
Q Consensus 191 t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~ 268 (329)
..|++..+ |-......-.-|+.+.+.-+++++-+++ ..|++++++ +.++.+| -|+++++++.+
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 146
>PLN02467 betaine aldehyde dehydrogenase
Probab=25.55 E-value=7.1e+02 Score=25.56 Aligned_cols=38 Identities=24% Similarity=0.209 Sum_probs=21.5
Q ss_pred CCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 020234 233 DPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 286 (329)
Q Consensus 233 ~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~ 286 (329)
+|.++.|. |+| +..+. +.|.++..+. -+|++.-+||.|
T Consensus 228 ~~~v~~v~---fTG---s~~~g---~~v~~~aa~~-------~~~~~lElGG~~ 265 (503)
T PLN02467 228 HPGVDKIA---FTG---STATG---RKIMTAAAQM-------VKPVSLELGGKS 265 (503)
T ss_pred CCCCCEEE---EEC---CHHHH---HHHHHHHhcc-------CCcEEEECCCCC
Confidence 78877554 333 24444 6665554432 356777777765
No 147
>PF00763 THF_DHG_CYH: Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; InterPro: IPR020630 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the N-terminal catalytic domain of these enzymes. ; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 2C2X_B 2C2Y_A 1EDZ_A 1EE9_A 4A26_B 3NGL_C 3NGX_A 1B0A_A 1DIA_A 1A4I_B ....
Probab=25.18 E-value=1.2e+02 Score=24.73 Aligned_cols=66 Identities=18% Similarity=0.209 Sum_probs=40.9
Q ss_pred cEEEEEcCC-cHHHHHHHHHhccC--CCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe--cccc
Q 020234 177 RIWTMVAGG-GASVIYADTVGDLG--YASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGI 247 (329)
Q Consensus 177 ~I~ii~NG~-Glam~t~D~l~~~g--~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi 247 (329)
.++++--|- -.+.++........ .|. ..--..+..+.+.+.+.+.++-+-+ ||+|+||+|-. |.++
T Consensus 31 ~Laii~vg~d~~S~~Y~~~k~k~~~~~Gi-~~~~~~l~~~~~~~el~~~i~~lN~----D~~V~GIlvq~PLP~~i 101 (117)
T PF00763_consen 31 KLAIILVGDDPASISYVRSKQKAAEKLGI-EFELIELPEDISEEELLELIEKLNE----DPSVHGILVQLPLPKHI 101 (117)
T ss_dssp EEEEEEES--HHHHHHHHHHHHHHHHHT--EEEEEEE-TTSSHHHHHHHHHHHHH-----TT-SEEEEESSSSTTS
T ss_pred EEEEEecCCChhHHHHHHHHHHHHHHcCC-ceEEEECCCCcCHHHHHHHHHHHhC----CCCCCEEEEcCCCCCCc
Confidence 455555553 34566665543320 021 2334578889999999999999988 99999999998 4444
No 148
>PRK03369 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=25.06 E-value=4.7e+02 Score=26.63 Aligned_cols=95 Identities=15% Similarity=0.186 Sum_probs=54.0
Q ss_pred eeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 020234 207 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 286 (329)
Q Consensus 207 ~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~ 286 (329)
|+|=.++.+++.+..+++-. ++ ++.|+||..+..+. +.+++.+++.. +-+++ +|.+.
T Consensus 330 iIDDS~AhNp~s~~aal~~~-------~~----iilI~GG~~k~~d~----~~l~~~l~~~~-------~~vi~-iG~~~ 386 (488)
T PRK03369 330 YVDDSKATNPHAARASILAY-------PR----VVWIAGGLLKGASV----DALVAEMASRL-------VGAVL-IGRDR 386 (488)
T ss_pred EEECCCCCCHHHHHHHHHhC-------CC----eEEEecCcCCCCCH----HHHHHHHhhhe-------eEEEE-EcCCH
Confidence 55655788888888886521 22 45668888875554 45666655432 22333 65543
Q ss_pred HHHHHHHHHHhccccCCceeecCC-----------------------------CCCHHHHHHHHHHHhhh
Q 020234 287 YQTGLAKMRALGEELGIPLEVYGP-----------------------------EATMTGICKQAIDCIMS 327 (329)
Q Consensus 287 ~~~ar~~l~~~~~~~gip~~~~g~-----------------------------~~~~~~av~~~v~~~~~ 327 (329)
..-.+.|.+.. .++|+..+.. +++|++||+.+.++++.
T Consensus 387 -~~i~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~av~~a~~~a~~ 453 (488)
T PRK03369 387 -AVVAEALSRHA--PDVPVVQVVTGEDAGMPATPEVPVACVTDVADDDGETLGDAVMAAAVAAARRLARP 453 (488)
T ss_pred -HHHHHHHHhcC--CCCCEEEeccccccccccccccccccccccccccccccchhhHHHHHHHHHHhCCC
Confidence 33334444310 1456544310 11699999999987753
No 149
>TIGR01037 pyrD_sub1_fam dihydroorotate dehydrogenase (subfamily 1) family protein. This family includes subfamily 1 dihydroorotate dehydrogenases while excluding the closely related subfamily 2 (TIGR01036). This family also includes a number of uncharacterized proteins and a domain of dihydropyrimidine dehydrogenase. The uncharacterized proteins might all be dihydroorotate dehydrogenase.
Probab=24.92 E-value=5.3e+02 Score=24.18 Aligned_cols=63 Identities=14% Similarity=0.217 Sum_probs=39.5
Q ss_pred eccCCCCHHHHHHHHHHHhcccccC-CCCCEEEEEeccccC--------chHHHhhhHHHHHHHHHHhhhhhhcccceEE
Q 020234 209 EYSGAPNEEEVLQYARVVIDCATAD-PDGRKRALLIGGGIA--------NFTDVATTFNGIIRALREKESKLKAARMHIF 279 (329)
Q Consensus 209 DlgG~a~~e~~~~a~~ill~~~~~~-~~v~~vlv~i~ggi~--------~~~~vA~~~~gii~al~~~~~~~~~~~~pvv 279 (329)
.+.| .+++.+.++.+.+-+ - +..+++-+|+..-.+ ...+.. .-|++++++. .++||.
T Consensus 96 qi~g-~~~~~~~~~a~~~~~----~~~~~d~ielN~~cP~~~~~g~~l~~~~~~~---~eiv~~vr~~------~~~pv~ 161 (300)
T TIGR01037 96 SVYG-SSVEEFAEVAEKLEK----APPYVDAYELNLSCPHVKGGGIAIGQDPELS---ADVVKAVKDK------TDVPVF 161 (300)
T ss_pred Eeec-CCHHHHHHHHHHHHh----ccCccCEEEEECCCCCCCCCccccccCHHHH---HHHHHHHHHh------cCCCEE
Confidence 4433 457788888888754 2 458999999731111 112333 5567777665 368999
Q ss_pred EEeCCC
Q 020234 280 VRRGGP 285 (329)
Q Consensus 280 vrl~G~ 285 (329)
+++..+
T Consensus 162 vKi~~~ 167 (300)
T TIGR01037 162 AKLSPN 167 (300)
T ss_pred EECCCC
Confidence 998754
No 150
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=24.69 E-value=5e+02 Score=23.04 Aligned_cols=120 Identities=16% Similarity=0.165 Sum_probs=60.9
Q ss_pred CcEEEEEcCCcHH------HHHHHHHhccCCCCCCCceee-ccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccC
Q 020234 176 GRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAE-YSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 248 (329)
Q Consensus 176 g~I~ii~NG~Gla------m~t~D~l~~~g~gg~paN~lD-lgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~ 248 (329)
++|++++..-+.. -...+.+..+ | .. ...+ ..++.+.+..+++++-+++ +.+++++++.
T Consensus 124 ~~i~~i~~~~~~~~~~~R~~gf~~~l~~~--~-~~-~~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~ai~~------- 189 (272)
T cd06301 124 GNVAILMGPLGQSAQIDRTKGVEEVLAKY--P-DI-KVVEEQTANWSRAEAMDLMENWLS---SGGKIDAVVA------- 189 (272)
T ss_pred ccEEEEECCCCCccHHHHHHHHHHHHHHC--C-Cc-EEEecCCCCccHHHHHHHHHHHHH---hCCCCCEEEE-------
Confidence 4788885433211 1223556553 3 11 2222 2345566655566665554 2567787753
Q ss_pred chHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCc-eeecCCCCCHHHHHHHHHHHh
Q 020234 249 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIP-LEVYGPEATMTGICKQAIDCI 325 (329)
Q Consensus 249 ~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip-~~~~g~~~~~~~av~~~v~~~ 325 (329)
..+.+| .++++++++++.. +.++ -++...+. ..+...+++ |.+ +.+ ..++.+..+.+++++
T Consensus 190 ~~d~~a---~~~~~~l~~~g~~--~~di-~ivg~d~~--~~~~~~~~~-----~~~~ttv---~~~~~~~g~~a~~~l 251 (272)
T cd06301 190 NNDEMA---LGAIMALKAAGKS--DKDV-PVAGIDGT--PDALAAVKK-----GDLDVTV---FQDAKGQGAGALDAA 251 (272)
T ss_pred CCCchH---HHHHHHHHHcCCC--CCCc-EEEeeCCC--HHHHHHHHh-----CCceEEE---ecCHHHHHHHHHHHH
Confidence 236677 8999999988631 1111 33444443 444444443 322 122 445666555555544
No 151
>PRK05294 carB carbamoyl phosphate synthase large subunit; Reviewed
Probab=24.62 E-value=1.5e+02 Score=33.62 Aligned_cols=31 Identities=19% Similarity=0.278 Sum_probs=25.6
Q ss_pred ecEEEEeecCCCCceEEEEEEEeCCCCeEEE
Q 020234 8 ITTFIVEPFVPHNQEYYLSIVSDRLGCTISF 38 (329)
Q Consensus 8 v~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~ 38 (329)
...++||++++..+|+-+.+..|..+.++.+
T Consensus 201 ~~~vlvEe~I~G~~Eisv~v~rd~~g~~~~~ 231 (1066)
T PRK05294 201 VTEVLIEESLLGWKEYEYEVMRDKNDNCIIV 231 (1066)
T ss_pred CCeEEEEEcccCceEEEEEEEEcCCCCEEEE
Confidence 4579999999999999999999987665443
No 152
>KOG0237 consensus Glycinamide ribonucleotide synthetase (GARS)/Aminoimidazole ribonucleotide synthetase (AIRS) [Nucleotide transport and metabolism]
Probab=24.56 E-value=2.8e+02 Score=29.66 Aligned_cols=29 Identities=10% Similarity=-0.027 Sum_probs=20.7
Q ss_pred HHHHhccccCCceeecCCCCCHHHHHHHH
Q 020234 293 KMRALGEELGIPLEVYGPEATMTGICKQA 321 (329)
Q Consensus 293 ~l~~~~~~~gip~~~~g~~~~~~~av~~~ 321 (329)
--++...++|||+-.|-+++++++|-..+
T Consensus 111 fsK~fm~r~~IPTA~y~~ft~~e~a~sfi 139 (788)
T KOG0237|consen 111 FSKDFMHRHNIPTAKYKTFTDPEEAKSFI 139 (788)
T ss_pred HHHHHHHhcCCCcceeeeeCCHHHHHHHH
Confidence 33455567799999888888887765443
No 153
>PRK07534 methionine synthase I; Validated
Probab=24.21 E-value=6e+02 Score=24.78 Aligned_cols=82 Identities=9% Similarity=-0.054 Sum_probs=49.2
Q ss_pred HHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEE---------eCCCCHHH
Q 020234 219 VLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVR---------RGGPNYQT 289 (329)
Q Consensus 219 ~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvr---------l~G~~~~~ 289 (329)
|...++.++ +.++|.+++=.+ .+-.+ + +++++++++. .+|+++. +.|+..++
T Consensus 133 ~~~qi~~l~-----~~gvD~l~~ET~---p~l~E-~---~a~~~~~~~~-------~~Pv~vSft~~~~g~l~~G~~~~~ 193 (336)
T PRK07534 133 FHEQAEGLK-----AGGADVLWVETI---SAPEE-I---RAAAEAAKLA-------GMPWCGTMSFDTAGRTMMGLTPAD 193 (336)
T ss_pred HHHHHHHHH-----hCCCCEEEEecc---CCHHH-H---HHHHHHHHHc-------CCeEEEEEEECCCCeeCCCCcHHH
Confidence 444445544 578887765443 33333 3 7888888764 4787753 46788888
Q ss_pred HHHHHHHhc---cccCCceeecCCCCC-HHHHHHHHHHHh
Q 020234 290 GLAKMRALG---EELGIPLEVYGPEAT-MTGICKQAIDCI 325 (329)
Q Consensus 290 ar~~l~~~~---~~~gip~~~~g~~~~-~~~av~~~v~~~ 325 (329)
+.+.+.+.. +..|++ +.+ |+...+.++++.
T Consensus 194 ~~~~~~~~~~~~~avGvN------C~~gp~~~~~~l~~~~ 227 (336)
T PRK07534 194 LADLVEKLGEPPLAFGAN------CGVGASDLLRTVLGFT 227 (336)
T ss_pred HHHHHHhcCCCceEEEec------CCCCHHHHHHHHHHHH
Confidence 888887531 223443 454 777666666654
No 154
>PRK06524 biotin carboxylase-like protein; Validated
Probab=24.19 E-value=2.2e+02 Score=29.52 Aligned_cols=26 Identities=19% Similarity=0.170 Sum_probs=20.8
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCCCe
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLGCT 35 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~~~ 35 (329)
..++||++++ .+|+-+.+.+|..+.+
T Consensus 217 ~~viVEe~I~-GrEitVev~vd~dG~V 242 (493)
T PRK06524 217 PEIKVMKRIR-NVEVCIEACVTRHGTV 242 (493)
T ss_pred CCEEEEeccC-cEEEEEEEEEeCCCCE
Confidence 3588999986 6899998888877654
No 155
>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=24.12 E-value=6.7e+02 Score=24.38 Aligned_cols=69 Identities=10% Similarity=0.172 Sum_probs=38.1
Q ss_pred eeccCCC------CHHHHHHHHHHHhcccccCCCCCEEEEEe--ccc-----cCchHHHhhhHHHHHHHHHHhhhhh-hc
Q 020234 208 AEYSGAP------NEEEVLQYARVVIDCATADPDGRKRALLI--GGG-----IANFTDVATTFNGIIRALREKESKL-KA 273 (329)
Q Consensus 208 lDlgG~a------~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~gg-----i~~~~~vA~~~~gii~al~~~~~~~-~~ 273 (329)
+.+|++. ..+.|.+.++.+- +..+++-+|+ |.. ..+.+.+ .-+++++++..... +.
T Consensus 139 vsi~~~~~~~~~~~~~dy~~~~~~~~------~~ad~iElNlScPn~~~~~~~~~~~~~----~~i~~~V~~~~~~~~~~ 208 (335)
T TIGR01036 139 INIGKNKDTPSEDAKEDYAACLRKLG------PLADYLVVNVSSPNTPGLRDLQYKAEL----RDLLTAVKQEQDGLRRV 208 (335)
T ss_pred EEEeCCCCCCcccCHHHHHHHHHHHh------hhCCEEEEEccCCCCCCcccccCHHHH----HHHHHHHHHHHHhhhhc
Confidence 3455553 4677888777653 2478999998 321 1222222 34444444432100 01
Q ss_pred ccceEEEEeCCCC
Q 020234 274 ARMHIFVRRGGPN 286 (329)
Q Consensus 274 ~~~pvvvrl~G~~ 286 (329)
.++||+++|+-.-
T Consensus 209 ~~~Pv~vKLsP~~ 221 (335)
T TIGR01036 209 HRVPVLVKIAPDL 221 (335)
T ss_pred cCCceEEEeCCCC
Confidence 2499999998764
No 156
>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=24.11 E-value=5.1e+02 Score=25.50 Aligned_cols=20 Identities=15% Similarity=0.278 Sum_probs=12.7
Q ss_pred cEEEEEcCCcHHHHHHHHHhc
Q 020234 177 RIWTMVAGGGASVIYADTVGD 197 (329)
Q Consensus 177 ~I~ii~NG~Glam~t~D~l~~ 197 (329)
+|+|+++|+..-| ....+..
T Consensus 2 kiliiG~G~~~~~-l~~~~~~ 21 (423)
T TIGR00877 2 KVLVIGNGGREHA-LAWKLAQ 21 (423)
T ss_pred EEEEECCChHHHH-HHHHHHh
Confidence 5788888886444 4445544
No 157
>PRK12419 riboflavin synthase subunit beta; Provisional
Probab=24.07 E-value=4.9e+02 Score=22.78 Aligned_cols=116 Identities=11% Similarity=0.098 Sum_probs=70.2
Q ss_pred HHHHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe---ccccCchHHHhhhHHHHHHH
Q 020234 187 ASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI---GGGIANFTDVATTFNGIIRA 263 (329)
Q Consensus 187 lam~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i---~ggi~~~~~vA~~~~gii~a 263 (329)
|---+.|.|..+ |.+..|. |+--=|-+-.+--+++.+++ ..+.|+++..- =|....++-|+ +++.+.
T Consensus 28 Ll~gA~~~l~~~--G~~~~~i-~v~~VPGA~EiP~~a~~l~~----~~~yDaiIaLG~VIrGeT~H~e~V~---~~v~~g 97 (158)
T PRK12419 28 ARKGFVAEIAAR--GGAASQV-DIFDVPGAFEIPLHAQTLAK----TGRYAAIVAAALVVDGGIYRHEFVA---QAVIDG 97 (158)
T ss_pred HHHHHHHHHHHc--CCCccce-EEEECCcHHHHHHHHHHHHh----cCCCCEEEEEEEEEcCCCchhHHHH---HHHHHH
Confidence 333467888875 6665655 33333333334455555555 56788888764 46666667777 777777
Q ss_pred HHHhhhhhhcccceEEEE-eCCCCHHHHHH--HHHHhccccCCceeecCCCCCHHHHHHHHHHHhh
Q 020234 264 LREKESKLKAARMHIFVR-RGGPNYQTGLA--KMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 264 l~~~~~~~~~~~~pvvvr-l~G~~~~~ar~--~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~ 326 (329)
+.+..-+ ..+||... |.-.+.+++.+ -+..+ |. ..-=.||+..+++++.
T Consensus 98 l~~vsl~---~~~PV~fGVLT~~~~eqA~~rqa~~Ra----~~-------~nKG~eaA~aalem~~ 149 (158)
T PRK12419 98 LMRVQLD---TEVPVFSVVLTPHHFHESEEHHDFFRA----HF-------VVKGAEAAHACADTLL 149 (158)
T ss_pred HHHHHhc---cCCCEEEEecCCCcHHHHHHHHHHhhc----Cc-------cccHHHHHHHHHHHHH
Confidence 6666432 47998877 77777775433 23332 32 1244678888887763
No 158
>PRK05198 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=23.93 E-value=3.2e+02 Score=26.05 Aligned_cols=25 Identities=28% Similarity=0.626 Sum_probs=21.9
Q ss_pred eCCCCHHHHHHHHHHhccccCCcee
Q 020234 282 RGGPNYQTGLAKMRALGEELGIPLE 306 (329)
Q Consensus 282 l~G~~~~~ar~~l~~~~~~~gip~~ 306 (329)
..|...++|+++|+++.+++|+|+.
T Consensus 61 FqG~G~eeGL~~L~~vk~~~Glpvv 85 (264)
T PRK05198 61 FRGPGLEEGLKILQEVKETFGVPVL 85 (264)
T ss_pred CCCCChHHHHHHHHHHHHHHCCceE
Confidence 5677778999999999999999975
No 159
>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=23.78 E-value=3.4e+02 Score=31.42 Aligned_cols=30 Identities=20% Similarity=0.358 Sum_probs=24.4
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCCCeEEE
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLGCTISF 38 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~ 38 (329)
..++|||+++..+|+-+.+..|..+.++.+
T Consensus 193 ~~vlVEefI~g~~eveV~v~~Dg~g~vv~l 222 (1201)
T TIGR02712 193 AGVFLERFVENARHVEVQIFGDGKGKVVAL 222 (1201)
T ss_pred CcEEEEecCCCCEEEEEEEEECCCCeEEEe
Confidence 359999999978899999999887766554
No 160
>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=23.65 E-value=4.9e+02 Score=23.07 Aligned_cols=46 Identities=11% Similarity=0.096 Sum_probs=36.1
Q ss_pred EEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHH
Q 020234 278 IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 323 (329)
Q Consensus 278 vvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~ 323 (329)
++.+.+|..=+-|..++...++..|..+...|...++++.++.+.+
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 3456888877888888888888889988777877777887777654
No 161
>COG0673 MviM Predicted dehydrogenases and related proteins [General function prediction only]
Probab=23.56 E-value=6.1e+02 Score=23.70 Aligned_cols=122 Identities=14% Similarity=0.092 Sum_probs=61.7
Q ss_pred cEEEEEcCCcHHHHHHHHHhccCCCCCCCceeecc-CCCCHHH------------HHHHHHHHhcccccCCCCCEEEEEe
Q 020234 177 RIWTMVAGGGASVIYADTVGDLGYASELGNYAEYS-GAPNEEE------------VLQYARVVIDCATADPDGRKRALLI 243 (329)
Q Consensus 177 ~I~ii~NG~Glam~t~D~l~~~g~gg~paN~lDlg-G~a~~e~------------~~~a~~ill~~~~~~~~v~~vlv~i 243 (329)
++|+++-|+-.+-.-+-.+... ++. +.-++ .+.++++ .+.-++-+|+ ++++|+|.|-.
T Consensus 5 rvgiiG~G~~~~~~~~~~~~~~--~~~---~~~vav~d~~~~~a~~~a~~~~~~~~~~~~~~ll~----~~~iD~V~Iat 75 (342)
T COG0673 5 RVGIIGAGGIAGKAHLPALAAL--GGG---LELVAVVDRDPERAEAFAEEFGIAKAYTDLEELLA----DPDIDAVYIAT 75 (342)
T ss_pred EEEEEcccHHHHHHhHHHHHhC--CCc---eEEEEEecCCHHHHHHHHHHcCCCcccCCHHHHhc----CCCCCEEEEcC
Confidence 5788876644444445555553 211 11111 1344443 2222444455 89999998877
Q ss_pred ccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEE--eCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHH
Q 020234 244 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVR--RGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQA 321 (329)
Q Consensus 244 ~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvr--l~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~ 321 (329)
|...- ++-+.+|++. .++|++= +.- +.+++.++.+.+.+. |+.+.+. .-.-...+++++
T Consensus 76 p~~~H--------~e~~~~AL~a--------GkhVl~EKPla~-t~~ea~~l~~~a~~~-~~~l~v~-~~~Rf~p~~~~~ 136 (342)
T COG0673 76 PNALH--------AELALAALEA--------GKHVLCEKPLAL-TLEEAEELVELARKA-GVKLMVG-FNRRFDPAVQAL 136 (342)
T ss_pred CChhh--------HHHHHHHHhc--------CCEEEEcCCCCC-CHHHHHHHHHHHHHc-CCceeee-hhhhcCHHHHHH
Confidence 65321 1222444433 3566655 444 578888777666444 6654331 112223455555
Q ss_pred HHHhh
Q 020234 322 IDCIM 326 (329)
Q Consensus 322 v~~~~ 326 (329)
.++..
T Consensus 137 k~li~ 141 (342)
T COG0673 137 KELID 141 (342)
T ss_pred HHHHh
Confidence 55543
No 162
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=23.55 E-value=2.9e+02 Score=25.07 Aligned_cols=44 Identities=25% Similarity=0.239 Sum_probs=26.5
Q ss_pred HHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecC
Q 020234 257 FNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYG 309 (329)
Q Consensus 257 ~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g 309 (329)
+++|++++++.. .+.-+++-++-.....+++..++. |||++.|.
T Consensus 13 ~~al~~~~~~~~-----l~~~i~~visn~~~~~~~~~A~~~----gIp~~~~~ 56 (207)
T PLN02331 13 FRAIHDACLDGR-----VNGDVVVVVTNKPGCGGAEYAREN----GIPVLVYP 56 (207)
T ss_pred HHHHHHHHHcCC-----CCeEEEEEEEeCCCChHHHHHHHh----CCCEEEec
Confidence 488888877653 222333334443344556666666 99998764
No 163
>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=23.49 E-value=3.2e+02 Score=25.93 Aligned_cols=25 Identities=32% Similarity=0.683 Sum_probs=21.7
Q ss_pred eCCCCHHHHHHHHHHhccccCCcee
Q 020234 282 RGGPNYQTGLAKMRALGEELGIPLE 306 (329)
Q Consensus 282 l~G~~~~~ar~~l~~~~~~~gip~~ 306 (329)
..|...++|+++|+++.+++|+|+.
T Consensus 53 FqG~G~eeGL~iL~~vk~~~glpvv 77 (258)
T TIGR01362 53 FRGPGLEEGLKILQKVKEEFGVPIL 77 (258)
T ss_pred CCCCCHHHHHHHHHHHHHHhCCceE
Confidence 4676678999999999999999975
No 164
>cd07131 ALDH_AldH-CAJ73105 Uncharacterized Candidatus kuenenia aldehyde dehydrogenase AldH (CAJ73105)-like. Uncharacterized aldehyde dehydrogenase of Candidatus kuenenia AldH (locus CAJ73105) and similar sequences with similarity to alpha-aminoadipic semialdehyde dehydrogenase (AASADH, human ALDH7A1, EC=1.2.1.31), Arabidopsis ALDH7B4, and Streptomyces clavuligerus delta-1-piperideine-6-carboxylate dehydrogenase (P6CDH) are included in this CD.
Probab=23.35 E-value=7.8e+02 Score=24.82 Aligned_cols=20 Identities=0% Similarity=0.193 Sum_probs=10.8
Q ss_pred HHHHHHHHHHhhhcCcceee
Q 020234 85 GDFIMGVFAVFQDLDFSFIE 104 (329)
Q Consensus 85 ~~il~~L~~~f~e~d~~llE 104 (329)
.++|.++.+++.+.-..+.+
T Consensus 62 ~~~l~~~a~~l~~~~~ela~ 81 (478)
T cd07131 62 AEYLFRAAELLKKRKEELAR 81 (478)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45566666666655444444
No 165
>TIGR00114 lumazine-synth 6,7-dimethyl-8-ribityllumazine synthase. Archaeal members of this family are considered putative, although included in the seed and scoring above the trusted cutoff.
Probab=23.29 E-value=4.7e+02 Score=22.26 Aligned_cols=110 Identities=14% Similarity=0.082 Sum_probs=66.1
Q ss_pred HHHHHHhccCCCCCCCce--eeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe---ccccCchHHHhhhHHHHHHHH
Q 020234 190 IYADTVGDLGYASELGNY--AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI---GGGIANFTDVATTFNGIIRAL 264 (329)
Q Consensus 190 ~t~D~l~~~g~gg~paN~--lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i---~ggi~~~~~vA~~~~gii~al 264 (329)
-+.+.|..+ |-..-|. ..+.|. -.+--+++.+++ ..+.|+++..- =|....++-|+ +++.+.+
T Consensus 21 ga~~~l~~~--g~~~~~i~v~~VPGa---~EiP~a~~~l~~----~~~~DavI~LG~VIrG~T~H~e~v~---~~v~~gl 88 (138)
T TIGR00114 21 GAIDALKRL--GAEVDNIDVIWVPGA---FELPLAVKKLAE----TGKYDAVIALGCVIRGGTPHFEYVA---DEAAKGI 88 (138)
T ss_pred HHHHHHHHc--CCCccceEEEECCcH---HHHHHHHHHHHh----cCCCCEEEEEeeEEeCCCchhHHHH---HHHHHHH
Confidence 356777775 4444432 233333 224445555555 56788888764 37777777777 7777777
Q ss_pred HHhhhhhhcccceEEEE-eCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhh
Q 020234 265 REKESKLKAARMHIFVR-RGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 265 ~~~~~~~~~~~~pvvvr-l~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~ 326 (329)
.+..-+ ..+||... |.-.+.+++.. .+ |... ..-=.||+..++++++
T Consensus 89 ~~~sl~---~~~PV~~GvLt~~~~eQa~~---R~----~~~~-----~nkG~eaA~aal~m~~ 136 (138)
T TIGR00114 89 ADLALD---YDKPVIFGILTTGTIEQAIE---RA----GDKA-----GNKGVEAAVAALEMAK 136 (138)
T ss_pred HHHHhh---hCCCEEEEecCCCCHHHHHH---Hc----cccc-----cccHHHHHHHHHHHHh
Confidence 666432 47999977 77777776643 22 3211 2355678888887764
No 166
>PLN02495 oxidoreductase, acting on the CH-CH group of donors
Probab=23.03 E-value=6e+02 Score=25.44 Aligned_cols=62 Identities=10% Similarity=0.092 Sum_probs=42.2
Q ss_pred eccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEe--cccc----------CchHHHhhhHHHHHHHHHHhhhhhhcccc
Q 020234 209 EYSGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGI----------ANFTDVATTFNGIIRALREKESKLKAARM 276 (329)
Q Consensus 209 DlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i--~ggi----------~~~~~vA~~~~gii~al~~~~~~~~~~~~ 276 (329)
-+.|.-+.+.+.+.++.+- +...+++=+|+ |.+. .++ +.. +-|++++++. .++
T Consensus 119 Si~~~~s~~~~~~~a~~~e-----~~GaD~iELNiSCPn~~~~r~~g~~~gq~~-e~~---~~i~~~Vk~~------~~i 183 (385)
T PLN02495 119 SIMEEYNKDAWEEIIERVE-----ETGVDALEINFSCPHGMPERKMGAAVGQDC-DLL---EEVCGWINAK------ATV 183 (385)
T ss_pred EccCCCCHHHHHHHHHHHH-----hcCCCEEEEECCCCCCCCcCccchhhccCH-HHH---HHHHHHHHHh------hcC
Confidence 3555677888999888764 45689999999 3331 122 223 5566666665 369
Q ss_pred eEEEEeCCC
Q 020234 277 HIFVRRGGP 285 (329)
Q Consensus 277 pvvvrl~G~ 285 (329)
||++.|+-+
T Consensus 184 Pv~vKLsPn 192 (385)
T PLN02495 184 PVWAKMTPN 192 (385)
T ss_pred ceEEEeCCC
Confidence 999999953
No 167
>PRK11241 gabD succinate-semialdehyde dehydrogenase I; Provisional
Probab=23.02 E-value=8.2e+02 Score=24.96 Aligned_cols=43 Identities=16% Similarity=0.218 Sum_probs=23.1
Q ss_pred HHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 020234 224 RVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 286 (329)
Q Consensus 224 ~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~ 286 (329)
+.+++ +|+++.|. |+| +..+. +.|.+...++ -+|++.-+||.|
T Consensus 218 ~~l~~----~~~v~~v~---FTG---S~~~G---~~i~~~aa~~-------l~~~~lElGGkn 260 (482)
T PRK11241 218 GELTS----NPLVRKLS---FTG---STEIG---RQLMEQCAKD-------IKKVSLELGGNA 260 (482)
T ss_pred HHHhc----CCCCCEEE---EEC---cHHHH---HHHHHHHHhc-------CCcEEEECCCCC
Confidence 34555 77777554 333 24444 5555543332 256666677765
No 168
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=22.93 E-value=2.7e+02 Score=23.37 Aligned_cols=47 Identities=15% Similarity=0.109 Sum_probs=38.4
Q ss_pred EEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHH
Q 020234 278 IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 324 (329)
Q Consensus 278 vvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~ 324 (329)
++.+.+|..=+-|..++.-.+...|..+...|...++++.++.+.+.
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 44668888888888888887777899999999888889888888764
No 169
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=22.70 E-value=4.7e+02 Score=23.26 Aligned_cols=118 Identities=16% Similarity=0.159 Sum_probs=61.4
Q ss_pred CcEEEEEcCCcH--H----HHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCc
Q 020234 176 GRIWTMVAGGGA--S----VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIAN 249 (329)
Q Consensus 176 g~I~ii~NG~Gl--a----m~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~ 249 (329)
++|++++...+. . .-..+.+..+ |-++.+..-...+. .+..+++++-+++ +.+..++++. .
T Consensus 117 ~~i~~l~~~~~~~~~~~R~~Gf~~~~~~~--~~~~~~~~~~~~~~-~~~~~~~~~~~l~---~~~~~~ai~~-------~ 183 (269)
T cd06281 117 RRIALVGGGSNTRPGRERLEGYKAAFAAA--GLPPDPALVRLSTP-AASGFDATRALLA---LPDRPTAIIA-------G 183 (269)
T ss_pred cEEEEecCccccccHHHHHHHHHHHHHHc--CCCCCHHHeecCcH-HHHHHHHHHHHHc---CCCCCcEEEE-------c
Confidence 567777543221 1 1123556554 43332222222222 4444455555453 2567787753 2
Q ss_pred hHHHhhhHHHHHHHHHHhhhhhhcccce---EEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhh
Q 020234 250 FTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 250 ~~~vA~~~~gii~al~~~~~~~~~~~~p---vvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~ 326 (329)
++.+| .++++++++++. ++| -++..+++.. + ..+.. .+.+. ..++.+..+.+++++.
T Consensus 184 ~d~~a---~g~~~~l~~~g~-----~ip~dv~iig~d~~~~--~-~~~~~-----~l~ti----~~~~~~~g~~a~~~l~ 243 (269)
T cd06281 184 GTQVL---VGVLRALREAGL-----RIPRDLSVISIGDSDL--A-ELMDP-----PITAL----RRDREAVGRTAAELML 243 (269)
T ss_pred CcHHH---HHHHHHHHHcCC-----CCCcceeEEEecCchH--H-HhcCC-----ceeEE----ecCHHHHHHHHHHHHH
Confidence 36777 899999998862 333 3455665432 1 22221 34332 5678888888887663
No 170
>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=22.51 E-value=2.8e+02 Score=25.75 Aligned_cols=65 Identities=17% Similarity=0.141 Sum_probs=43.6
Q ss_pred CCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHH
Q 020234 213 APNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLA 292 (329)
Q Consensus 213 ~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~ 292 (329)
..+++.++++++-+ . +|+.++||+-. +..-. -.+++.+++. ..+||+.. |..-.+.
T Consensus 164 ~i~p~~i~~~~~~~-~----~~~aDAifisC-------TnLrt--~~vi~~lE~~------lGkPVlsS----Nqat~W~ 219 (239)
T TIGR02990 164 RISPDCIVEAALAA-F----DPDADALFLSC-------TALRA--ATCAQRIEQA------IGKPVVTS----NQATAWR 219 (239)
T ss_pred ecCHHHHHHHHHHh-c----CCCCCEEEEeC-------CCchh--HHHHHHHHHH------HCCCEEEH----HHHHHHH
Confidence 46788888887765 3 78999998752 22221 3345556554 36898863 6677888
Q ss_pred HHHHhccccCCce
Q 020234 293 KMRALGEELGIPL 305 (329)
Q Consensus 293 ~l~~~~~~~gip~ 305 (329)
.|+.+ |++.
T Consensus 220 ~Lr~~----G~~~ 228 (239)
T TIGR02990 220 CLRLC----GDPD 228 (239)
T ss_pred HHHHc----CCCC
Confidence 99887 7664
No 171
>PRK14568 vanB D-alanine--D-lactate ligase; Provisional
Probab=22.48 E-value=4.7e+02 Score=25.18 Aligned_cols=23 Identities=13% Similarity=0.205 Sum_probs=18.8
Q ss_pred cEEEEeecCCCCceEEEEEEEeCC
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRL 32 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~ 32 (329)
..++|||+++ .+|+-+++.-|+.
T Consensus 202 ~~vlVEe~I~-G~E~sv~vl~~~~ 224 (343)
T PRK14568 202 SKVLIEEAVV-GSEVGCAVLGNGA 224 (343)
T ss_pred CcEEEECCcC-CEEEEEEEEcCCC
Confidence 3699999998 5899999887654
No 172
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=22.44 E-value=5.3e+02 Score=22.61 Aligned_cols=108 Identities=12% Similarity=0.072 Sum_probs=0.0
Q ss_pred HHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhh
Q 020234 192 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKL 271 (329)
Q Consensus 192 ~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~ 271 (329)
.+.+..+ |.+.....-+.++.+.+..+++++-+|. +.|++++++ +.++..| .|+++++++.+
T Consensus 140 ~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~---~~~~~~~i~-------~~~~~~a---~~~~~al~~~g--- 201 (268)
T cd06289 140 RAALAEA--GLPFDSELVVEGPPSRQGGAEAVAQLLD---LPPRPTAIV-------CFNDLVA---FGAMSGLRRAG--- 201 (268)
T ss_pred HHHHHHc--CCCCCchhEEecCcchhhHHHHHHHHHc---CCCCCCEEE-------EcCcHHH---HHHHHHHHHcC---
Q ss_pred hcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhhhc
Q 020234 272 KAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSA 328 (329)
Q Consensus 272 ~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~~~ 328 (329)
.++|==+.+-|......-+.+.. .+.+. ..++.+.++.+++++...
T Consensus 202 --~~~p~di~iig~d~~~~~~~~~~-----~l~ti----~~~~~~~g~~a~~~l~~~ 247 (268)
T cd06289 202 --LTPGRDIAVVGFDDVAEAALATP-----ALTTV----STDPREIGRRAAELLLRR 247 (268)
T ss_pred --CCCCcceEEEeecCchHHHhcCC-----Cceee----eCCHHHHHHHHHHHHHHH
No 173
>COG3816 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.33 E-value=1.3e+02 Score=26.74 Aligned_cols=48 Identities=10% Similarity=0.105 Sum_probs=39.3
Q ss_pred ceEEEEEEEeCC----CCeEEEeccCCCccccccccceeeecCCCc-CCCHHH
Q 020234 21 QEYYLSIVSDRL----GCTISFSECGGIEIEENWDKVKTIFLPTEK-HMTLDA 68 (329)
Q Consensus 21 ~E~Ylsi~~Dr~----~~~ii~S~~GGvdIE~~~d~i~k~~i~p~~-gl~~~~ 68 (329)
.-=|+++.+|.+ .+++.|-+.=|-.+|.-|++-.|+.++|.+ ++.+|.
T Consensus 98 DAPFiAVem~v~~e~~~qvltfrTNVgDvVeAg~~hPlRf~i~~e~~elkPYv 150 (205)
T COG3816 98 DAPFIAVEMDVSGEGGEQVLTFRTNVGDVVEAGAEHPLRFEIDPETGELKPYV 150 (205)
T ss_pred cCceEEEEEEeccCCCceeEEEEccccceeecCCCCceEEEEcCcCCCCceeE
Confidence 445889999987 368999878887788889999999999988 677775
No 174
>cd07088 ALDH_LactADH-AldA Escherichia coli lactaldehyde dehydrogenase AldA-like. Lactaldehyde dehydrogenase from Escherichia coli (AldA, LactADH, EC=1.2.1.22), an NAD(+)-dependent enzyme involved in the metabolism of L-fucose and L-rhamnose, and other similar sequences are present in this CD.
Probab=22.29 E-value=8e+02 Score=24.60 Aligned_cols=16 Identities=0% Similarity=0.079 Sum_probs=9.2
Q ss_pred HHHHHHHHHHhhhcCc
Q 020234 85 GDFIMGVFAVFQDLDF 100 (329)
Q Consensus 85 ~~il~~L~~~f~e~d~ 100 (329)
.++|.++.+++.+.-.
T Consensus 60 ~~~L~~~a~~l~~~~~ 75 (468)
T cd07088 60 AAYLRKLADLIRENAD 75 (468)
T ss_pred HHHHHHHHHHHHHhHH
Confidence 4556666666665544
No 175
>KOG3040 consensus Predicted sugar phosphatase (HAD superfamily) [General function prediction only]
Probab=22.03 E-value=1.5e+02 Score=27.67 Aligned_cols=63 Identities=16% Similarity=0.157 Sum_probs=38.5
Q ss_pred CCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCce
Q 020234 234 PDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPL 305 (329)
Q Consensus 234 ~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~ 305 (329)
..++++|+-+.|-+-..+. | + -+-++|++.... --+.||.--+.-.++++.|.+.+.++|+.+
T Consensus 5 ~~v~gvLlDlSGtLh~e~~-a-v-pga~eAl~rLr~------~~~kVkFvTNttk~Sk~~l~~rL~rlgf~v 67 (262)
T KOG3040|consen 5 RAVKGVLLDLSGTLHIEDA-A-V-PGAVEALKRLRD------QHVKVKFVTNTTKESKRNLHERLQRLGFDV 67 (262)
T ss_pred cccceEEEeccceEecccc-c-C-CCHHHHHHHHHh------cCceEEEEecCcchhHHHHHHHHHHhCCCc
Confidence 4688999988776554332 2 1 344566665542 225566333444667777877777789876
No 176
>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=22.01 E-value=2.7e+02 Score=22.16 Aligned_cols=9 Identities=22% Similarity=0.497 Sum_probs=3.6
Q ss_pred HHHHHHHHh
Q 020234 317 ICKQAIDCI 325 (329)
Q Consensus 317 av~~~v~~~ 325 (329)
.+...++..
T Consensus 66 ~~~~~i~~l 74 (119)
T cd02067 66 LMKEVIEEL 74 (119)
T ss_pred HHHHHHHHH
Confidence 334444433
No 177
>PRK12833 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional
Probab=21.89 E-value=5.6e+02 Score=25.93 Aligned_cols=25 Identities=16% Similarity=0.255 Sum_probs=20.8
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCC
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLG 33 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~ 33 (329)
..++||++++..+|+-+.+..|...
T Consensus 198 ~~vlvEefi~~~~ei~v~v~~dg~~ 222 (467)
T PRK12833 198 GGVYLERFIARARHIEVQILGDGER 222 (467)
T ss_pred CcEEEEecCCCCEEEEEEEEeCCCc
Confidence 4689999998789999998887653
No 178
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=21.58 E-value=3.5e+02 Score=25.17 Aligned_cols=69 Identities=22% Similarity=0.242 Sum_probs=43.7
Q ss_pred eeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCH
Q 020234 208 AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY 287 (329)
Q Consensus 208 lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~ 287 (329)
+++|- -+|..+|+..+-+. .|+.|++|+. |+.+- | -.+++.+.+. ..+|||.. |.
T Consensus 158 ~eigr-~~P~~~y~lAk~~~-----~~~~DaiFiS-------CTnlR-t-~eii~~lE~~------~G~PVvsS----N~ 212 (238)
T COG3473 158 LEIGR-QEPWAVYRLAKEVF-----TPDADAIFIS-------CTNLR-T-FEIIEKLERD------TGVPVVSS----NQ 212 (238)
T ss_pred chhcc-cChHHHHHHHHHhc-----CCCCCeEEEE-------eeccc-c-HHHHHHHHHH------hCCceeec----cH
Confidence 44444 45555666666655 6999999975 33332 2 2344555554 47999874 67
Q ss_pred HHHHHHHHHhccccCCce
Q 020234 288 QTGLAKMRALGEELGIPL 305 (329)
Q Consensus 288 ~~ar~~l~~~~~~~gip~ 305 (329)
.-.+..|+.. |+..
T Consensus 213 AT~W~~Lr~~----g~~~ 226 (238)
T COG3473 213 ATLWMALRLI----GLRE 226 (238)
T ss_pred HHHHHHHHHc----CCcc
Confidence 7788888887 6544
No 179
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=21.58 E-value=2e+02 Score=28.55 Aligned_cols=30 Identities=23% Similarity=0.423 Sum_probs=17.2
Q ss_pred cceEEEEeCCCCHHHHHHHHHHhccccCCc
Q 020234 275 RMHIFVRRGGPNYQTGLAKMRALGEELGIP 304 (329)
Q Consensus 275 ~~pvvvrl~G~~~~~ar~~l~~~~~~~gip 304 (329)
++||++..||.|.....++.++..++.|++
T Consensus 71 gIkvI~NaGg~np~~~a~~v~eia~e~Gl~ 100 (362)
T PF07287_consen 71 GIKVITNAGGLNPAGCADIVREIARELGLS 100 (362)
T ss_pred CCCEEEeCCCCCHHHHHHHHHHHHHhcCCC
Confidence 456666666666655555555555555554
No 180
>TIGR01235 pyruv_carbox pyruvate carboxylase. This enzyme plays a role in gluconeogensis but not glycolysis.
Probab=21.51 E-value=5.9e+02 Score=29.39 Aligned_cols=30 Identities=13% Similarity=0.342 Sum_probs=24.4
Q ss_pred cEEEEeecCCCCceEEEEEEEeCCCCeEEE
Q 020234 9 TTFIVEPFVPHNQEYYLSIVSDRLGCTISF 38 (329)
Q Consensus 9 ~~vlVee~~~~~~E~Ylsi~~Dr~~~~ii~ 38 (329)
..++||++++-.+|+-+.+.-|..+.++.+
T Consensus 195 ~~vlIEefI~g~reIeVqVlgD~~G~vv~l 224 (1143)
T TIGR01235 195 DEVYVEKLIERPRHIEVQLLGDKHGNVVHL 224 (1143)
T ss_pred CcEEEEEcCCCCeEEEEEEEEeCCCCEEEE
Confidence 368999999888899999999987765543
No 181
>PRK13789 phosphoribosylamine--glycine ligase; Provisional
Probab=21.27 E-value=3.5e+02 Score=27.23 Aligned_cols=68 Identities=15% Similarity=0.099 Sum_probs=37.1
Q ss_pred CCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEE------EEeCCCCHHHHHHHHHHhccccCCcee
Q 020234 233 DPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIF------VRRGGPNYQTGLAKMRALGEELGIPLE 306 (329)
Q Consensus 233 ~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvv------vrl~G~~~~~ar~~l~~~~~~~gip~~ 306 (329)
..+++.|++ |. ++... +++++.+++.+ +|++ .++.+ +-..+++.|++. |||+-
T Consensus 66 ~~~iD~Vv~---g~----E~~l~--~glad~~~~~G-------ip~~Gp~~~aa~le~-dK~~~K~~l~~~----gIpt~ 124 (426)
T PRK13789 66 SNPFDLIVV---GP----EDPLV--AGFADWAAELG-------IPCFGPDSYCAQVEG-SKHFAKSLMKEA----KIPTA 124 (426)
T ss_pred HcCCCEEEE---CC----chHHH--HHHHHHHHHcC-------CCcCCCHHHHHHHHc-CHHHHHHHHHHc----CCCCC
Confidence 456776663 21 23221 67777776653 4543 11222 223344455554 99986
Q ss_pred ecCCCCCHHHHHHHH
Q 020234 307 VYGPEATMTGICKQA 321 (329)
Q Consensus 307 ~~g~~~~~~~av~~~ 321 (329)
-|..+++.+++.+.+
T Consensus 125 ~~~~~~~~~ea~~~~ 139 (426)
T PRK13789 125 SYKTFTEYSSSLSYL 139 (426)
T ss_pred CeEeeCCHHHHHHHH
Confidence 666678888876543
No 182
>PF08799 PRP4: pre-mRNA processing factor 4 (PRP4) like; InterPro: IPR014906 This small protein is found on PRP4 ribonuleoproteins. PRP4 is a U4/U6 small nuclear ribonucleoprotein that is involved in pre-mRNA processing. ; PDB: 1MZW_B 2DK4_A.
Probab=21.08 E-value=1.7e+02 Score=18.48 Aligned_cols=24 Identities=25% Similarity=0.534 Sum_probs=12.7
Q ss_pred HHHHHhccccCCceeecCCCCCHHHHHHHH
Q 020234 292 AKMRALGEELGIPLEVYGPEATMTGICKQA 321 (329)
Q Consensus 292 ~~l~~~~~~~gip~~~~g~~~~~~~av~~~ 321 (329)
+.|++. |=|+..|| ++..+--+..
T Consensus 3 ~~LR~l----gePi~lFG--E~~~~R~~RL 26 (30)
T PF08799_consen 3 RRLREL----GEPITLFG--ETDADRRERL 26 (30)
T ss_dssp HHHHHC----T--SCETT----HHHHHHHH
T ss_pred HHHHhc----CCChhhhC--CChHHHHHHH
Confidence 456665 88999998 4555544443
No 183
>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=20.90 E-value=2.8e+02 Score=21.47 Aligned_cols=55 Identities=18% Similarity=0.202 Sum_probs=36.7
Q ss_pred CCHHHHHHHHHHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 020234 214 PNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 286 (329)
Q Consensus 214 a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~ 286 (329)
.+++...++++-+++ ++++..|++ .++++ +.+-+.+++... ....|+++-+.+.+
T Consensus 25 ~~~ee~~~~l~~l~~----~~~~gIIii--------~e~~~---~~~~~~l~~~~~---~~~~P~iv~IP~~~ 79 (95)
T PF01990_consen 25 TDPEEAEEALKELLK----DEDVGIIII--------TEDLA---EKIRDELDEYRE---ESSLPLIVEIPSKE 79 (95)
T ss_dssp HSHHHHHHHHHHHHH----HTTEEEEEE--------EHHHH---TTHHHHHHHHHH---TSSSSEEEEESTTC
T ss_pred CCHHHHHHHHHHHhc----CCCccEEEe--------eHHHH---HHHHHHHHHHHh---ccCCceEEEcCCCC
Confidence 388999999999997 788754443 14566 555555555522 14689998876654
No 184
>COG1171 IlvA Threonine dehydratase [Amino acid transport and metabolism]
Probab=20.89 E-value=4.2e+02 Score=26.23 Aligned_cols=60 Identities=10% Similarity=0.089 Sum_probs=41.6
Q ss_pred hHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHHHhhhc
Q 020234 256 TFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSA 328 (329)
Q Consensus 256 ~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~~~~~~ 328 (329)
|+||++-+.+..+ +|-++.|.-+....=.+..+.. |=.+.++| ++.+++.+++.+++...
T Consensus 85 HaQGvA~aa~~lG-------i~a~IvMP~~tp~~Kv~a~r~~----GaeVil~g--~~~dda~~~a~~~a~~~ 144 (347)
T COG1171 85 HAQGVAYAAKRLG-------IKATIVMPETTPKIKVDATRGY----GAEVILHG--DNFDDAYAAAEELAEEE 144 (347)
T ss_pred HHHHHHHHHHHhC-------CCEEEEecCCCcHHHHHHHHhc----CCEEEEEC--CCHHHHHHHHHHHHHHc
Confidence 3488888877764 6777777777666544444444 76777765 67888888888887653
No 185
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=20.73 E-value=5.8e+02 Score=22.40 Aligned_cols=78 Identities=13% Similarity=0.141 Sum_probs=42.1
Q ss_pred CCcEEEEEcCCc-HH------HHHHHHHhccCCCCCCCceeeccCCCCHHHHHHHHHHHhcccccCCCCCEEEEEecccc
Q 020234 175 KGRIWTMVAGGG-AS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 247 (329)
Q Consensus 175 ~g~I~ii~NG~G-la------m~t~D~l~~~g~gg~paN~lDlgG~a~~e~~~~a~~ill~~~~~~~~v~~vlv~i~ggi 247 (329)
.++|++++..-+ .. --..+.+..+ |.+..-..-+.++-+.+..+++++-+++ +.| .++++..
T Consensus 116 ~~~i~~l~~~~~~~~~~~~r~~gf~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~---~~~-~~ai~~~----- 184 (268)
T cd06298 116 HKKIAFISGPLEDSINGDERLAGYKEALSEA--NIEFDESLIFEGDYTYESGYELAEELLE---DGK-PTAAFVT----- 184 (268)
T ss_pred CceEEEEeCCcccccchhHHHHHHHHHHHHc--CCCCCHHHeEeCCCChhHHHHHHHHHhc---CCC-CCEEEEc-----
Confidence 367888864332 11 1123556553 4332211112234455556666666665 244 7887742
Q ss_pred CchHHHhhhHHHHHHHHHHhh
Q 020234 248 ANFTDVATTFNGIIRALREKE 268 (329)
Q Consensus 248 ~~~~~vA~~~~gii~al~~~~ 268 (329)
++..| .++++++++.+
T Consensus 185 --~d~~a---~~~~~~l~~~g 200 (268)
T cd06298 185 --DDELA---IGILNAAQDAG 200 (268)
T ss_pred --CcHHH---HHHHHHHHHcC
Confidence 25556 89999999876
No 186
>TIGR00730 conserved hypothetical protein, DprA/Smf-related, family 2. This model represents one branch of a subfamily of proteins of unknown function. Both PSI-BLAST and weak hits by this model show a low level of similarity to and suggest an evolutionary relationship of the subfamily to the DprA/Smf family of DNA-processing proteins involved in chromosomal transformation with foreign DNA. Both Aquifex aeolicus and Mycobacterium leprae have one member in each of two branches of this subfamily, suggesting that the branches may have distinct functions.
Probab=20.51 E-value=5.9e+02 Score=22.40 Aligned_cols=70 Identities=10% Similarity=0.119 Sum_probs=37.9
Q ss_pred EEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEE-eCCCCHHHHHHHHHHhccccC------CceeecCCC
Q 020234 239 RALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVR-RGGPNYQTGLAKMRALGEELG------IPLEVYGPE 311 (329)
Q Consensus 239 vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvr-l~G~~~~~ar~~l~~~~~~~g------ip~~~~g~~ 311 (329)
.+|..|||+-.-+|+. +.+. +.+.+. .++|+++- ..| -.+.=.+.|+...+ .| ..... ..
T Consensus 99 a~I~lPGG~GTL~El~---e~~~--~~qlg~----~~kPiil~n~~g-~~~~l~~~l~~~~~-~gfi~~~~~~~~~--~~ 165 (178)
T TIGR00730 99 AFIAMPGGFGTLEELF---EVLT--WAQLGI----HQKPIILFNVNG-HFDGLVEWLKYSIQ-EGFISESHLKLIH--VV 165 (178)
T ss_pred EEEEcCCCcchHHHHH---HHHH--HHHcCC----CCCCEEEECCcc-hHHHHHHHHHHHHH-CCCCCHHHcCcEE--Ec
Confidence 4567799999888887 5542 333332 46777654 333 23433333332111 12 11111 27
Q ss_pred CCHHHHHHHH
Q 020234 312 ATMTGICKQA 321 (329)
Q Consensus 312 ~~~~~av~~~ 321 (329)
+|++|+++..
T Consensus 166 d~~~e~~~~i 175 (178)
T TIGR00730 166 SRPDELIEQV 175 (178)
T ss_pred CCHHHHHHHH
Confidence 8999998865
No 187
>PF01740 STAS: STAS domain; InterPro: IPR002645 The STAS (Sulphate Transporter and AntiSigma factor antagonist) domain is found in the C-terminal region of sulphate transporters and bacterial anti-sigma factor antagonists. It has been suggested that this domain may have a general NTP binding function. The establishment of differential gene expression in sporulating Bacillus subtilis involves four protein components one of which is SpoIIAA (P10727 from SWISSPROT). The four components regulate the sporulation sigma factor F. Early in sporulation, SpoIIAA is in the phosphorylated state (SpoIIAA-P), as a result of the activity of the ATP-dependent protein kinase SpoIIAB (P10728 from SWISSPROT). The site at which this protein is a conserved serine. SpoIIAB is an anti-sigma factor that in its free form inhibits F by binding to it. Competition by SpoIIAA (the anti-anti-sigma factor) for binding to SpoIIAB releases Sigma F activity []. The STAS domain is found in the anti-sigma factor antagonist SpoIIAA.; PDB: 3T6O_B 3LKL_B 1H4Z_A 1H4Y_B 1H4X_B 3NY7_A 3OIZ_A 1T6R_A 1VC1_B 1SBO_A ....
Probab=20.33 E-value=3.2e+02 Score=21.39 Aligned_cols=65 Identities=9% Similarity=0.168 Sum_probs=35.3
Q ss_pred CCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCCHHHHHHHHHHhccccCCc--e---eecCC
Q 020234 236 GRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIP--L---EVYGP 310 (329)
Q Consensus 236 v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~~~~ar~~l~~~~~~~gip--~---~~~g~ 310 (329)
.+.++++. +++...+..+. +++.+..++... ....++ +.|.+ ..-++.|..+ |+. + .+
T Consensus 48 ~~~vIlD~-s~v~~iDssgi--~~L~~~~~~~~~----~g~~~~--l~~~~-~~v~~~l~~~----~~~~~~~~~~~--- 110 (117)
T PF01740_consen 48 IKNVILDM-SGVSFIDSSGI--QALVDIIKELRR----RGVQLV--LVGLN-PDVRRILERS----GLIDFIPEDQI--- 110 (117)
T ss_dssp SSEEEEEE-TTESEESHHHH--HHHHHHHHHHHH----TTCEEE--EESHH-HHHHHHHHHT----TGHHHSCGGEE---
T ss_pred ceEEEEEE-EeCCcCCHHHH--HHHHHHHHHHHH----CCCEEE--EEECC-HHHHHHHHHc----CCChhcCCCCc---
Confidence 56666665 44555454442 667776666542 344444 33432 4556667776 643 1 22
Q ss_pred CCCHHHH
Q 020234 311 EATMTGI 317 (329)
Q Consensus 311 ~~~~~~a 317 (329)
|.|.++|
T Consensus 111 ~~s~~~A 117 (117)
T PF01740_consen 111 FPSVDDA 117 (117)
T ss_dssp ESSHHHH
T ss_pred cCCHHHC
Confidence 5677776
No 188
>smart00500 SFM Splicing Factor Motif, present in Prp18 and Pr04.
Probab=20.21 E-value=3e+02 Score=18.86 Aligned_cols=31 Identities=16% Similarity=0.324 Sum_probs=19.0
Q ss_pred HHHHHHHHHHhccccCCceeecCCCCCHHHHHHHHHH
Q 020234 287 YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 323 (329)
Q Consensus 287 ~~~ar~~l~~~~~~~gip~~~~g~~~~~~~av~~~v~ 323 (329)
..+.++.|++. |=|+..|| ++..+--++.-+
T Consensus 3 d~eV~~~LR~l----gePi~lFG--E~~~~Rr~RL~~ 33 (44)
T smart00500 3 DSEVIRRLREL----GEPITLFG--EDDQERRQRLRQ 33 (44)
T ss_pred HHHHHHHHHHc----CCCeeecC--CChHHHHHHHHH
Confidence 34566667776 88888887 444444444443
No 189
>cd07097 ALDH_KGSADH-YcbD Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like. Kinetic studies of the Bacillus subtilis ALDH-like ycbD protein, which is involved in d-glucarate/d-galactarate utilization, reveal that it is a NADP+-dependent, alpha-ketoglutaric semialdehyde dehydrogenase (KGSADH). KGSADHs (EC 1.2.1.26) catalyze the NAD(P)+-dependent conversion of KGSA to alpha-ketoglutarate. Interestingly, the NADP+-dependent, tetrameric, 2,5-dioxopentanoate dehydrogenase (EC=1.2.1.26), an enzyme involved in the catabolic pathway for D-arabinose in Sulfolobus solfataricus, also clusters in this group. This CD shows a distant phylogenetic relationship to the Azospirillum brasilense KGSADH-II (-III) group.
Probab=20.14 E-value=9e+02 Score=24.37 Aligned_cols=43 Identities=23% Similarity=0.328 Sum_probs=24.4
Q ss_pred HHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 020234 224 RVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 286 (329)
Q Consensus 224 ~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~ 286 (329)
+.+++ +|+++.|. |+| ++.++ +.|.++..++ -+|++.-+||.+
T Consensus 207 ~~l~~----~~~v~~v~---fTG---s~~~g---~~i~~~aa~~-------~~~~~lElGGk~ 249 (473)
T cd07097 207 QALVE----HPDVDAVS---FTG---STAVG---RRIAAAAAAR-------GARVQLEMGGKN 249 (473)
T ss_pred HHHhc----CCCCCEEE---EEC---cHHHH---HHHHHHHhcc-------CCcEEEECCCCC
Confidence 34555 78887543 333 24555 6666554433 356777777754
No 190
>PRK08573 phosphomethylpyrimidine kinase; Provisional
Probab=20.14 E-value=5e+02 Score=26.21 Aligned_cols=20 Identities=15% Similarity=0.326 Sum_probs=15.9
Q ss_pred eeecCCCCCHHHHHHHHHHHhh
Q 020234 305 LEVYGPEATMTGICKQAIDCIM 326 (329)
Q Consensus 305 ~~~~g~~~~~~~av~~~v~~~~ 326 (329)
+++|| .++.|++++..++++
T Consensus 429 i~v~g--~~~~~v~~~~~~l~~ 448 (448)
T PRK08573 429 IRILG--RTPVEVVEKLLRLIR 448 (448)
T ss_pred EEEEC--CCHHHHHHHHHHHhC
Confidence 45776 799999999988763
No 191
>TIGR01804 BADH glycine betaine aldehyde dehydrogenase. Betaine aldehyde dehydrogenase is a member of the aldehyde dehydrogenase family (pfam00171).
Probab=20.02 E-value=9e+02 Score=24.30 Aligned_cols=43 Identities=19% Similarity=0.231 Sum_probs=24.6
Q ss_pred HHHhcccccCCCCCEEEEEeccccCchHHHhhhHHHHHHHHHHhhhhhhcccceEEEEeCCCC
Q 020234 224 RVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 286 (329)
Q Consensus 224 ~ill~~~~~~~~v~~vlv~i~ggi~~~~~vA~~~~gii~al~~~~~~~~~~~~pvvvrl~G~~ 286 (329)
+.++. +|.++.|. |.| +..+. +.|.++..++ -+|++.-+||.|
T Consensus 205 ~~L~~----~~~v~~V~---fTG---s~~~g---~~v~~~a~~~-------l~~~~lElGG~~ 247 (467)
T TIGR01804 205 EPLVN----HKDVAKVS---FTG---GVPTG---KKIMAAAADH-------LKHVTMELGGKS 247 (467)
T ss_pred HHHhc----CCCCCEEE---EEC---cHHHH---HHHHHHHHhc-------CCcEEEecCCCC
Confidence 44565 88888554 333 24444 6665544332 256777788865
No 192
>TIGR02299 HpaE 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase. This model represents the dehydrogenase responsible for the conversion of 5-carboxymethyl-2-hydroxymuconate semialdehyde to 5-carboxymethyl-2-hydroxymuconate (a tricarboxylic acid). This is the step in the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate following the oxidative opening of the aromatic ring.
Probab=20.02 E-value=9.2e+02 Score=24.42 Aligned_cols=22 Identities=0% Similarity=0.036 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHhhhcCcceeee
Q 020234 84 IGDFIMGVFAVFQDLDFSFIEM 105 (329)
Q Consensus 84 ~~~il~~L~~~f~e~d~~llEI 105 (329)
=.++|.++.+++.+.-..++++
T Consensus 62 R~~iL~~~a~~l~~~~~~l~~~ 83 (488)
T TIGR02299 62 RKRYLHKIADLIEQHADEIAVL 83 (488)
T ss_pred HHHHHHHHHHHHHHhHHHHHHH
Confidence 3566666666666665544443
Done!