Query 024004
Match_columns 274
No_of_seqs 202 out of 1500
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 08:13:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024004.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024004hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02384 ribose-5-phosphate is 100.0 6.9E-70 1.5E-74 495.5 27.0 236 39-274 28-264 (264)
2 PRK13978 ribose-5-phosphate is 100.0 8.2E-70 1.8E-74 487.3 25.9 226 41-274 2-228 (228)
3 COG0120 RpiA Ribose 5-phosphat 100.0 2.7E-69 5.9E-74 480.8 24.1 225 41-274 1-227 (227)
4 PRK00702 ribose-5-phosphate is 100.0 2.5E-65 5.3E-70 457.6 25.0 220 41-272 1-220 (220)
5 TIGR00021 rpiA ribose 5-phosph 100.0 1.3E-64 2.9E-69 452.3 24.4 216 47-269 2-217 (218)
6 cd01398 RPI_A RPI_A: Ribose 5- 100.0 4.9E-61 1.1E-65 427.9 24.5 212 46-265 1-213 (213)
7 KOG3075 Ribose 5-phosphate iso 100.0 1.6E-56 3.4E-61 401.9 21.3 232 41-274 22-258 (261)
8 PF06026 Rib_5-P_isom_A: Ribos 100.0 2.8E-56 6E-61 385.7 15.7 173 91-270 1-173 (173)
9 PF00455 DeoRC: DeoR C termina 99.9 8.8E-24 1.9E-28 180.6 12.5 120 43-169 2-142 (161)
10 PRK10906 DNA-binding transcrip 99.9 6E-22 1.3E-26 180.6 13.7 120 43-169 74-214 (252)
11 PRK10681 DNA-binding transcrip 99.9 4.4E-22 9.5E-27 181.2 12.6 120 43-169 75-215 (252)
12 PRK09802 DNA-binding transcrip 99.9 1.1E-21 2.4E-26 180.4 13.8 120 43-169 89-229 (269)
13 PRK10434 srlR DNA-bindng trans 99.9 1.9E-21 4E-26 177.6 14.5 119 44-169 75-214 (256)
14 PRK10411 DNA-binding transcrip 99.9 3E-21 6.6E-26 174.8 13.6 119 43-169 76-215 (240)
15 PRK13509 transcriptional repre 99.8 1.1E-20 2.4E-25 172.0 13.8 117 44-169 77-213 (251)
16 COG1349 GlpR Transcriptional r 99.8 1.4E-20 3E-25 171.8 14.3 120 43-169 74-214 (253)
17 PRK08335 translation initiatio 98.1 4.7E-05 1E-09 70.9 12.9 134 44-183 93-238 (275)
18 TIGR00524 eIF-2B_rel eIF-2B al 98.1 5.7E-05 1.2E-09 71.2 12.8 133 46-183 104-259 (303)
19 TIGR00511 ribulose_e2b2 ribose 98.1 5.9E-05 1.3E-09 70.9 12.8 135 44-183 99-245 (301)
20 PRK08535 translation initiatio 98.1 5.4E-05 1.2E-09 71.4 12.3 134 45-183 105-250 (310)
21 TIGR00512 salvage_mtnA S-methy 98.0 8.1E-05 1.8E-09 71.0 12.9 132 45-183 127-287 (331)
22 COG1184 GCD2 Translation initi 98.0 9.7E-05 2.1E-09 69.5 13.1 121 43-169 102-236 (301)
23 PRK05720 mtnA methylthioribose 97.7 0.00061 1.3E-08 65.4 12.9 131 46-183 132-287 (344)
24 PF01008 IF-2B: Initiation fac 97.5 0.0004 8.7E-09 63.9 8.9 123 44-170 91-226 (282)
25 COG2057 AtoA Acyl CoA:acetate/ 97.5 0.00029 6.4E-09 63.6 7.5 116 45-167 6-152 (225)
26 PRK05772 translation initiatio 97.5 0.0017 3.8E-08 62.7 12.7 130 45-182 151-306 (363)
27 KOG1466 Translation initiation 97.5 0.0012 2.7E-08 61.0 10.7 135 46-186 116-264 (313)
28 PRK06036 translation initiatio 97.4 0.0031 6.8E-08 60.4 13.0 128 46-182 133-285 (339)
29 PRK06372 translation initiatio 97.3 0.0023 5E-08 59.0 11.1 116 47-169 74-200 (253)
30 PRK06371 translation initiatio 97.3 0.0045 9.8E-08 59.1 13.2 129 47-182 123-276 (329)
31 PRK08334 translation initiatio 97.1 0.0088 1.9E-07 57.7 12.8 132 45-183 145-300 (356)
32 cd00458 SugarP_isomerase Sugar 96.2 0.013 2.7E-07 50.4 6.1 89 59-170 19-142 (169)
33 PRK09920 acetyl-CoA:acetoacety 95.9 0.032 7E-07 50.4 7.8 47 47-97 4-53 (219)
34 TIGR02428 pcaJ_scoB_fam 3-oxoa 95.9 0.02 4.3E-07 51.2 6.3 108 47-165 3-145 (207)
35 TIGR02429 pcaI_scoA_fam 3-oxoa 95.7 0.04 8.6E-07 49.9 7.6 49 118-169 150-198 (222)
36 PF04198 Sugar-bind: Putative 95.7 0.013 2.8E-07 53.8 4.4 48 44-95 32-83 (255)
37 KOG1465 Translation initiation 95.4 0.097 2.1E-06 49.6 8.9 134 47-186 149-301 (353)
38 COG2390 DeoR Transcriptional r 95.3 0.034 7.4E-07 53.0 5.9 51 41-95 91-145 (321)
39 COG1788 AtoD Acyl CoA:acetate/ 95.2 0.096 2.1E-06 47.4 8.0 117 46-169 3-195 (220)
40 TIGR01584 citF citrate lyase, 94.7 0.52 1.1E-05 47.4 12.5 102 58-163 40-188 (492)
41 TIGR03458 YgfH_subfam succinat 94.6 0.27 5.8E-06 49.5 10.3 112 51-164 5-159 (485)
42 PF04223 CitF: Citrate lyase, 92.9 0.59 1.3E-05 46.2 8.9 106 57-168 16-168 (466)
43 PRK15418 transcriptional regul 92.5 0.18 3.9E-06 47.8 4.8 49 45-96 96-148 (318)
44 PF02550 AcetylCoA_hydro: Acet 92.3 1.1 2.4E-05 39.3 9.2 122 47-171 8-173 (198)
45 PF04223 CitF: Citrate lyase, 92.1 0.54 1.2E-05 46.5 7.4 120 38-163 200-371 (466)
46 KOG1467 Translation initiation 91.2 1.4 3E-05 44.4 9.3 118 48-170 347-477 (556)
47 COG3051 CitF Citrate lyase, al 89.6 0.91 2E-05 44.4 6.4 102 58-163 62-210 (513)
48 COG0427 ACH1 Acetyl-CoA hydrol 89.1 0.7 1.5E-05 46.4 5.4 112 50-163 18-171 (501)
49 TIGR01584 citF citrate lyase, 88.8 1.7 3.7E-05 43.8 7.8 43 42-84 227-275 (492)
50 COG0182 Predicted translation 88.3 6.1 0.00013 38.0 10.8 129 47-183 136-290 (346)
51 PF03927 NapD: NapD protein; 88.2 1 2.2E-05 34.2 4.7 67 177-256 8-74 (79)
52 PF01037 AsnC_trans_reg: AsnC 84.8 1.7 3.6E-05 31.1 4.1 61 179-251 3-66 (74)
53 PRK10553 assembly protein for 79.0 6.2 0.00013 30.7 5.6 69 176-257 9-78 (87)
54 PRK00443 nagB glucosamine-6-ph 78.3 3.6 7.8E-05 37.1 4.8 53 45-97 11-72 (261)
55 PF01144 CoA_trans: Coenzyme A 77.5 4.5 9.7E-05 35.7 5.0 31 51-82 5-39 (217)
56 PRK11179 DNA-binding transcrip 77.0 5.1 0.00011 33.6 5.0 81 157-252 56-138 (153)
57 COG0373 HemA Glutamyl-tRNA red 76.7 38 0.00083 33.6 11.7 85 45-133 163-252 (414)
58 COG2230 Cfa Cyclopropane fatty 73.2 12 0.00027 35.1 7.0 70 28-105 38-112 (283)
59 TIGR01110 mdcA malonate decarb 73.0 30 0.00064 35.5 9.9 111 50-163 30-183 (543)
60 TIGR01110 mdcA malonate decarb 72.6 32 0.00068 35.3 10.0 43 40-82 218-263 (543)
61 PF02254 TrkA_N: TrkA-N domain 72.2 13 0.00028 28.8 6.0 47 63-114 1-47 (116)
62 cd01399 GlcN6P_deaminase GlcN6 72.0 5.2 0.00011 35.2 4.0 35 48-82 5-41 (232)
63 COG1102 Cmk Cytidylate kinase 68.8 0.97 2.1E-05 39.6 -1.3 53 67-127 10-66 (179)
64 PRK11169 leucine-responsive tr 66.5 15 0.00033 31.1 5.6 84 156-254 60-147 (164)
65 PF01488 Shikimate_DH: Shikima 66.2 16 0.00034 29.9 5.5 75 50-128 2-84 (135)
66 COG3051 CitF Citrate lyase, al 61.9 19 0.0004 35.6 5.7 98 40-140 247-389 (513)
67 cd00423 Pterin_binding Pterin 59.0 32 0.00069 31.4 6.6 60 48-111 24-99 (258)
68 PF08679 DsrD: Dissimilatory s 55.6 1.4 3.1E-05 32.7 -2.3 28 47-74 33-61 (67)
69 smart00798 AICARFT_IMPCHas AIC 52.8 20 0.00043 34.2 4.3 46 35-80 254-307 (311)
70 PF13291 ACT_4: ACT domain; PD 51.8 26 0.00057 25.5 4.0 71 174-251 4-78 (80)
71 PLN02891 IMP cyclohydrolase 49.8 53 0.0011 33.7 6.9 46 35-80 423-476 (547)
72 COG4670 Acyl CoA:acetate/3-ket 49.5 22 0.00048 36.0 4.1 50 47-96 4-57 (527)
73 KOG2836 Protein tyrosine phosp 47.7 70 0.0015 27.4 6.3 60 175-238 6-80 (173)
74 TIGR00355 purH phosphoribosyla 46.0 29 0.00063 35.4 4.4 46 35-80 386-439 (511)
75 PRK07106 5-aminoimidazole-4-ca 45.4 31 0.00068 33.9 4.4 43 38-80 206-256 (390)
76 PRK13940 glutamyl-tRNA reducta 43.9 1.4E+02 0.003 29.5 8.8 68 58-129 179-252 (414)
77 PRK04148 hypothetical protein; 43.6 94 0.002 26.0 6.5 42 63-112 22-63 (134)
78 KOG2828 Acetyl-CoA hydrolase [ 43.1 49 0.0011 32.8 5.3 115 47-163 25-173 (454)
79 PF01808 AICARFT_IMPCHas: AICA 40.5 26 0.00056 33.5 3.0 45 35-79 258-310 (315)
80 PF07021 MetW: Methionine bios 39.7 1.3E+02 0.0027 27.0 7.0 137 55-207 8-165 (193)
81 PRK07239 bifunctional uroporph 39.4 51 0.0011 31.5 4.9 57 56-112 195-258 (381)
82 PRK09189 uroporphyrinogen-III 39.0 66 0.0014 28.5 5.3 48 62-109 172-219 (240)
83 cd05213 NAD_bind_Glutamyl_tRNA 38.4 2.9E+02 0.0064 25.7 9.8 66 59-128 177-247 (311)
84 COG0138 PurH AICAR transformyl 38.0 48 0.001 33.7 4.5 45 36-80 391-443 (515)
85 PRK11613 folP dihydropteroate 38.0 1.1E+02 0.0023 28.8 6.7 60 49-112 39-114 (282)
86 PRK05928 hemD uroporphyrinogen 37.7 54 0.0012 28.5 4.5 55 59-113 176-230 (249)
87 cd00739 DHPS DHPS subgroup of 36.5 1.2E+02 0.0026 27.8 6.7 60 48-111 24-99 (257)
88 PF02353 CMAS: Mycolic acid cy 36.0 1.4E+02 0.003 27.7 7.0 62 40-109 40-110 (273)
89 COG2242 CobL Precorrin-6B meth 35.7 2.2E+02 0.0048 25.3 7.9 78 41-127 17-110 (187)
90 PF02602 HEM4: Uroporphyrinoge 34.4 48 0.001 28.8 3.5 52 59-112 167-218 (231)
91 PRK08811 uroporphyrinogen-III 34.3 45 0.00098 30.6 3.5 54 59-113 189-242 (266)
92 TIGR00284 dihydropteroate synt 34.2 1.2E+02 0.0026 30.9 6.8 62 48-113 165-233 (499)
93 cd04888 ACT_PheB-BS C-terminal 34.2 1.4E+02 0.0031 20.9 5.6 61 183-253 11-74 (76)
94 cd08177 MAR Maleylacetate redu 34.0 1.4E+02 0.0031 28.1 6.9 41 59-105 77-117 (337)
95 PRK05752 uroporphyrinogen-III 33.5 75 0.0016 28.5 4.8 51 61-113 183-233 (255)
96 PF08241 Methyltransf_11: Meth 33.4 43 0.00093 24.0 2.7 35 64-106 3-37 (95)
97 cd06578 HemD Uroporphyrinogen- 32.7 89 0.0019 26.7 5.0 52 62-114 175-226 (239)
98 PF05991 NYN_YacP: YacP-like N 32.2 1.1E+02 0.0024 26.2 5.3 53 62-115 69-121 (166)
99 COG0802 Predicted ATPase or ki 31.6 1.2E+02 0.0025 26.0 5.3 72 43-126 7-82 (149)
100 PRK10669 putative cation:proto 31.4 1.5E+02 0.0032 30.1 6.9 50 60-114 417-466 (558)
101 COG0378 HypB Ni2+-binding GTPa 30.8 79 0.0017 28.5 4.3 44 66-115 22-71 (202)
102 TIGR03458 YgfH_subfam succinat 30.0 84 0.0018 31.8 4.9 40 43-82 221-270 (485)
103 COG3062 NapD Uncharacterized p 29.9 1.6E+02 0.0035 23.4 5.3 67 177-257 11-78 (94)
104 TIGR03587 Pse_Me-ase pseudamin 29.4 2.4E+02 0.0051 24.7 7.1 96 54-163 37-143 (204)
105 COG1587 HemD Uroporphyrinogen- 28.5 1E+02 0.0022 27.7 4.7 56 58-114 173-228 (248)
106 TIGR00460 fmt methionyl-tRNA f 28.1 2.1E+02 0.0046 26.9 7.0 59 63-125 3-84 (313)
107 COG0329 DapA Dihydrodipicolina 27.4 1.1E+02 0.0025 28.6 5.0 123 41-163 53-191 (299)
108 TIGR00090 iojap_ybeB iojap-lik 27.1 1.1E+02 0.0023 24.1 4.1 51 188-239 45-96 (99)
109 cd05565 PTS_IIB_lactose PTS_II 26.0 2.1E+02 0.0046 22.6 5.6 50 64-115 5-54 (99)
110 PF01269 Fibrillarin: Fibrilla 25.7 1.4E+02 0.0031 27.3 5.1 78 46-129 56-153 (229)
111 PF05729 NACHT: NACHT domain 25.4 1.3E+02 0.0028 23.9 4.4 77 121-198 84-164 (166)
112 PF14903 WG_beta_rep: WG conta 25.1 57 0.0012 19.7 1.8 16 215-230 3-18 (35)
113 PRK04998 hypothetical protein; 24.8 3.2E+02 0.0069 20.8 6.7 70 174-249 11-85 (88)
114 PF04560 RNA_pol_Rpb2_7: RNA p 24.7 1.2E+02 0.0026 23.1 3.8 59 142-206 19-79 (81)
115 cd04901 ACT_3PGDH C-terminal A 24.6 1.2E+02 0.0026 20.8 3.7 30 220-251 37-66 (69)
116 COG0421 SpeE Spermidine syntha 24.6 70 0.0015 30.0 3.0 37 63-106 82-118 (282)
117 COG2242 CobL Precorrin-6B meth 24.5 1.8E+02 0.0038 25.9 5.3 53 59-113 101-158 (187)
118 COG0371 GldA Glycerol dehydrog 24.3 1.7E+02 0.0036 28.6 5.6 50 45-100 71-120 (360)
119 TIGR00273 iron-sulfur cluster- 24.3 1.6E+02 0.0036 29.2 5.7 50 118-171 180-232 (432)
120 PRK03562 glutathione-regulated 24.2 3.3E+02 0.0073 28.2 8.1 49 60-113 400-448 (621)
121 TIGR02469 CbiT precorrin-6Y C5 24.2 3.1E+02 0.0066 20.6 6.2 41 58-105 17-60 (124)
122 PF00070 Pyr_redox: Pyridine n 24.1 1.1E+02 0.0024 22.1 3.5 46 63-113 2-59 (80)
123 PF02824 TGS: TGS domain; Int 23.8 55 0.0012 23.1 1.7 27 58-84 5-31 (60)
124 TIGR01470 cysG_Nterm siroheme 23.5 5.1E+02 0.011 22.7 8.2 36 59-99 8-43 (205)
125 PRK00045 hemA glutamyl-tRNA re 23.2 3.3E+02 0.0071 26.6 7.5 65 59-127 181-250 (423)
126 PF08553 VID27: VID27 cytoplas 23.1 1.2E+02 0.0025 32.8 4.6 112 153-272 636-767 (794)
127 PRK00907 hypothetical protein; 23.1 2E+02 0.0043 22.5 4.8 66 174-248 13-88 (92)
128 cd00408 DHDPS-like Dihydrodipi 23.0 1.4E+02 0.0031 27.0 4.7 54 43-97 48-102 (281)
129 cd00403 Ribosomal_L1 Ribosomal 22.4 1.6E+02 0.0035 25.6 4.7 75 154-243 94-175 (208)
130 TIGR00715 precor6x_red precorr 22.1 91 0.002 28.7 3.2 44 61-110 129-173 (256)
131 TIGR01496 DHPS dihydropteroate 22.0 3.1E+02 0.0068 25.1 6.7 60 49-112 24-99 (257)
132 PRK04457 spermidine synthase; 21.9 93 0.002 28.5 3.2 37 63-106 72-108 (262)
133 cd04879 ACT_3PGDH-like ACT_3PG 21.9 1.8E+02 0.0038 19.4 4.0 32 219-252 38-69 (71)
134 COG2921 Uncharacterized conser 21.8 1.5E+02 0.0032 23.4 3.8 76 163-248 3-86 (90)
135 PF08407 Chitin_synth_1N: Chit 21.7 49 0.0011 25.3 1.1 40 219-267 13-52 (79)
136 PRK00881 purH bifunctional pho 21.3 4.2E+02 0.0091 27.2 7.9 28 46-73 399-434 (513)
137 cd04877 ACT_TyrR N-terminal AC 21.3 3.1E+02 0.0068 19.5 5.4 20 232-251 48-67 (74)
138 TIGR00640 acid_CoA_mut_C methy 21.2 4.7E+02 0.01 21.4 7.1 9 60-68 53-61 (132)
139 TIGR03169 Nterm_to_SelD pyridi 21.1 3.2E+02 0.0069 25.4 6.8 53 61-113 146-210 (364)
140 TIGR01012 Sa_S2_E_A ribosomal 20.7 6E+02 0.013 22.6 9.4 86 43-128 44-155 (196)
141 TIGR00853 pts-lac PTS system, 20.7 3.7E+02 0.008 20.7 6.0 37 63-100 7-43 (95)
142 PRK03659 glutathione-regulated 20.6 2.9E+02 0.0062 28.5 6.8 49 60-113 400-448 (601)
143 PRK04020 rps2P 30S ribosomal p 20.5 6.2E+02 0.014 22.6 9.0 84 45-128 52-161 (204)
144 cd01425 RPS2 Ribosomal protein 20.4 5.7E+02 0.012 22.2 8.1 24 59-82 55-78 (193)
145 cd00950 DHDPS Dihydrodipicolin 20.2 1.8E+02 0.004 26.4 4.8 54 43-97 51-105 (284)
146 PF02558 ApbA: Ketopantoate re 20.1 2.9E+02 0.0062 22.1 5.5 47 63-115 1-47 (151)
No 1
>PLN02384 ribose-5-phosphate isomerase
Probab=100.00 E-value=6.9e-70 Score=495.54 Aligned_cols=236 Identities=67% Similarity=1.040 Sum_probs=221.2
Q ss_pred cCCChHHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEcCCCC
Q 024004 39 PALTQDDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTLDDHP 118 (274)
Q Consensus 39 ~~~~~~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l~~~~ 118 (274)
-+|+++++|+++|++|++||++||+||||||||+.+++++|++++++|++.++++||+|.+|+.+|+++||+++.++++.
T Consensus 28 ~~m~~~~~K~~aA~~A~~~V~~gmvVGLGTGSTv~~~I~~La~r~~~~~l~~I~~VpTS~~T~~~a~~~GIpl~~l~~v~ 107 (264)
T PLN02384 28 VILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLKNIIGIPTSKKTHEQAVSLGIPLSDLDSHP 107 (264)
T ss_pred CCCCHHHHHHHHHHHHHHhccCCCEEEecchHHHHHHHHHHHHhhhhccccceEEEcCcHHHHHHHHHcCCcEeccccCC
Confidence 34677888999999999999999999999999999999999999887777789999999999999999999999999999
Q ss_pred cccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEEEecccHHHHHHHHHHhHh
Q 024004 119 SLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVEVVQFCWKFNLVRLQDLFR 198 (274)
Q Consensus 119 ~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvEV~p~a~~~v~~~l~~l~~ 198 (274)
++|+||||||+||+++++|||||||++|||+++++|+++|+|+|+||++++||..++||||||+|++|.+|.++|+++|.
T Consensus 108 ~iDiaiDGADEId~~lnlIKGGGgallrEKivA~~A~~~IiI~DesK~V~~Lg~~~~plPVEV~p~a~~~v~~~L~~l~~ 187 (264)
T PLN02384 108 VVDLAIDGADEVDPNLNLVKGRGGSLLREKMIEGACKKFVVIVDESKLVKHIGGSGLAMPVEVVPFCWKFTAEKLQSLFE 187 (264)
T ss_pred cccEEEECCceeCCCCCEEEeCcHHHHHHHHHHHhcCeEEEEEeCcceecccCCCCCCEEEEECccHHHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999997435899999999999999999999877
Q ss_pred hcCCeeEEeecCCC-CceEeCCCCEEEEeeCCCCCCChHHHHHHhcCCCcEEeeecccccccEEEEEcCCCeEEecC
Q 024004 199 ELGCEAKLREGENG-KPYITDNFNYIIDLYFETPIKDGVSAGTEIGKLEGVVEHGLFLDMATAVIIAGKTGVEVKSK 274 (274)
Q Consensus 199 ~~g~~~~lR~~~~~-gp~vTdnGN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe~GlF~~~a~~viv~~~~gv~~~~~ 274 (274)
+.|+.+++|++.++ +|++|||||||+||+|+.++.||++++++|++||||||||||.++++.+++|+++|+++..|
T Consensus 188 ~~g~~~~lR~~~~g~~p~vTDnGN~IlD~~f~~~i~dp~~l~~~L~~ipGVVE~GLF~~~a~~vivg~~~Gv~~~~~ 264 (264)
T PLN02384 188 YAGCVAKLRTKNNGEEPFVTDNGNYIVDLYFKRDIGDLKVASDAILRLAGVVEHGMFLDMATTVIVAGELGVTIKDK 264 (264)
T ss_pred ccCCceEEeccCCCCCcEECCCCCEEEEecCCCCCCCHHHHHHHHhCCCcEeccCcccCcCCEEEEEcCCceEEeCC
Confidence 76889999987656 89999999999999997449999999999999999999999999999999999999887654
No 2
>PRK13978 ribose-5-phosphate isomerase A; Provisional
Probab=100.00 E-value=8.2e-70 Score=487.25 Aligned_cols=226 Identities=39% Similarity=0.614 Sum_probs=214.0
Q ss_pred CChHHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEcCCCCcc
Q 024004 41 LTQDDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTLDDHPSL 120 (274)
Q Consensus 41 ~~~~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l~~~~~i 120 (274)
|++++.|+++|++|++||++||+||||||||+.+++++|+++++++++ ++++||+|.+|+.+|+++||++++++++.++
T Consensus 2 m~~~~~K~~aa~~A~~~V~~gmvvGLGTGSTv~~~i~~L~~~~~~~~l-~i~~VptS~~t~~~a~~~Gipl~~l~~~~~i 80 (228)
T PRK13978 2 KDVKALKLMTLNDVLSQINGDMTLGIGTGSTMELLLPQMAQLIKERGY-NITGVCTSNKIAFLAKELGIKICEINDVDHI 80 (228)
T ss_pred CCHHHHHHHHHHHHHHhCCCCCEEEeCchHHHHHHHHHHHHHhhccCc-cEEEEeCcHHHHHHHHHcCCcEechhhCCce
Confidence 677889999999999999999999999999999999999999887776 6999999999999999999999999999999
Q ss_pred cEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEEEecccHHHHHHHHHHhHhhc
Q 024004 121 DLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVEVVQFCWKFNLVRLQDLFREL 200 (274)
Q Consensus 121 D~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvEV~p~a~~~v~~~l~~l~~~~ 200 (274)
|+||||||+||+++++|||||||++|||+++++|+++|+|+|+||++++||+ ++||||||+||+|++|+++|+++
T Consensus 81 DiaiDGADevd~~lnlIKGgGgal~rEKiva~~A~~~iii~D~sK~v~~Lg~-~~plPVEV~p~~~~~v~~~l~~l---- 155 (228)
T PRK13978 81 DLAIDGADEVDPSLNIIKGGGGALFREKVIDEMASRFVVVVDETKIVQYLGE-TFKLPVEVDKFNWYHILRKIESY---- 155 (228)
T ss_pred eEEEecCceecCCccEEecCcHHHHHHHHHHHhcCcEEEEEeCcceecccCC-CCCeEEEEcccHHHHHHHHHHHc----
Confidence 9999999999999999999999999999999999999999999999999963 68999999999999999999986
Q ss_pred C-CeeEEeecCCCCceEeCCCCEEEEeeCCCCCCChHHHHHHhcCCCcEEeeecccccccEEEEEcCCCeEEecC
Q 024004 201 G-CEAKLREGENGKPYITDNFNYIIDLYFETPIKDGVSAGTEIGKLEGVVEHGLFLDMATAVIIAGKTGVEVKSK 274 (274)
Q Consensus 201 g-~~~~lR~~~~~gp~vTdnGN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe~GlF~~~a~~viv~~~~gv~~~~~ 274 (274)
| .++++|++. ++|++|||||||+||+|+. +.||++++++|++||||||||||.++++.+++|+++|+++++|
T Consensus 156 g~~~~~~R~~~-~~p~vTDnGN~IlD~~f~~-i~dp~~l~~~L~~ipGVVe~GlF~~~~~~viv~~~~G~~~~~~ 228 (228)
T PRK13978 156 ADIKVERRVNE-DVAFITDNGNYILDCKLPK-GIDPYKFHEYLIHLTGVFETGYFLDMADQVIVGTQEGVKILEK 228 (228)
T ss_pred CCCCcEEEecC-CCceECCCCcEEEEecCCC-cCCHHHHHHHHhcCCcEeeeCCccCcCCEEEEEcCCceEEeCC
Confidence 5 488888753 3899999999999999986 8899999999999999999999999999999999999998876
No 3
>COG0120 RpiA Ribose 5-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=100.00 E-value=2.7e-69 Score=480.78 Aligned_cols=225 Identities=54% Similarity=0.836 Sum_probs=209.7
Q ss_pred CChHHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEcCCCCcc
Q 024004 41 LTQDDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTLDDHPSL 120 (274)
Q Consensus 41 ~~~~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l~~~~~i 120 (274)
|++++.|+.+|++|+++|++||+||||||||+.+|+++|+++.+.+ .++++||+|.+++.+|+++||++.+++.+.++
T Consensus 1 ~~~~~~K~~aa~~A~~~v~~gmviGlGTGST~~~fI~~Lg~~~~~e--~~i~~V~TS~~t~~l~~~~GI~v~~l~~~~~l 78 (227)
T COG0120 1 MDQDELKKAAAKAALEYVKDGMVIGLGTGSTAAYFIEALGRRVKGE--LDIGGVPTSFQTEELARELGIPVSSLNEVDSL 78 (227)
T ss_pred CchHHHHHHHHHHHHHHhcCCCEEEEcCcHHHHHHHHHHHHhhccC--ccEEEEeCCHHHHHHHHHcCCeecCccccCcc
Confidence 5678899999999999999999999999999999999999854444 47999999999999999999999999999999
Q ss_pred cEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEEEecccHHHHHHHHHHhHhhc
Q 024004 121 DLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVEVVQFCWKFNLVRLQDLFREL 200 (274)
Q Consensus 121 D~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvEV~p~a~~~v~~~l~~l~~~~ 200 (274)
|+|||||||||+++++|||||||++|||+++++|+++|+|+|+||++++|| +|||||||+||+|.+|.++++++
T Consensus 79 Dl~iDGADEvd~~~~lIKGGGgAl~rEKIva~~ak~~IvIvDesKlV~~LG--~fplPVEVip~a~~~v~r~l~~~---- 152 (227)
T COG0120 79 DLAIDGADEVDPNLNLIKGGGGALLREKIVASAAKRFIVIVDESKLVEVLG--KFPLPVEVIPFARSAVLRKLEKL---- 152 (227)
T ss_pred ceEeecccccCCCCCEEccChHHHHHHHHHHHhcCeEEEEEeCccchhhcC--CCCcCEEEchhHHHHHHHHHHHh----
Confidence 999999999999999999999999999999999999999999999999997 89999999999999999999887
Q ss_pred CCeeEEeecCCC-CceEeCCCCEEEEeeCCCCCCChHHHHHHhcCCCcEEeeecccccccEEEEEcCCC-eEEecC
Q 024004 201 GCEAKLREGENG-KPYITDNFNYIIDLYFETPIKDGVSAGTEIGKLEGVVEHGLFLDMATAVIIAGKTG-VEVKSK 274 (274)
Q Consensus 201 g~~~~lR~~~~~-gp~vTdnGN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe~GlF~~~a~~viv~~~~g-v~~~~~ 274 (274)
|+++.+|+...+ ||+||||||||+||+|+. +.||++++++|++||||||||||.++++.+++++.+| ++++.+
T Consensus 153 g~~~~lR~~~~k~GpviTDnGN~IlDv~~~~-i~dp~~le~~l~~IpGVVE~GlF~~~~~~~ii~g~~~~v~~~~~ 227 (227)
T COG0120 153 GGKPTLREGEGKDGPVITDNGNYILDVHFGR-IEDPEELEKELNAIPGVVENGLFAGRAADVIIAGTDGGVKILEK 227 (227)
T ss_pred CCCccccccccCCCCEEeeCCCEEEEecCCC-cCCHHHHHHHHhCCCCEEEecccccccccEEEEeCCCCEEEecC
Confidence 999999986555 899999999999999986 9999999999999999999999999887677666664 888764
No 4
>PRK00702 ribose-5-phosphate isomerase A; Provisional
Probab=100.00 E-value=2.5e-65 Score=457.59 Aligned_cols=220 Identities=50% Similarity=0.782 Sum_probs=206.7
Q ss_pred CChHHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEcCCCCcc
Q 024004 41 LTQDDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTLDDHPSL 120 (274)
Q Consensus 41 ~~~~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l~~~~~i 120 (274)
|+++++|++||++|+++|++||+||||+|||+.+++++|+++.+.| + ++|+||||..++.+|.+.|++++.+++..++
T Consensus 1 ~~~~~~K~~IA~~Aa~lI~dg~~IgLgsGST~~~l~~~L~~~~~~~-~-~itvVt~S~~~a~~l~~~gi~v~~l~~~~~i 78 (220)
T PRK00702 1 MTQDELKKAAAEAAAEYVEDGMIVGLGTGSTAAYFIDALGERVKEG-L-IIGGVPTSEASTELAKELGIPLFDLNEVDSL 78 (220)
T ss_pred CCHHHHHHHHHHHHHHhCCCCCEEEECCcHHHHHHHHHHHhhhccC-C-CEEEECCcHHHHHHHHhCCCeEEcHHHCCcc
Confidence 4567899999999999999999999999999999999998764444 3 7999999999999998889999999988899
Q ss_pred cEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEEEecccHHHHHHHHHHhHhhc
Q 024004 121 DLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVEVVQFCWKFNLVRLQDLFREL 200 (274)
Q Consensus 121 D~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvEV~p~a~~~v~~~l~~l~~~~ 200 (274)
|+||||||+||++++++||+|||++|||+++++|+++|+|+|+|||+++|| ++|+||||+||+|++|+++|+++
T Consensus 79 D~afdGaD~vd~~~~~ikg~g~a~~~ekiva~~A~~~vil~D~sK~v~~lg--~~~lPvEV~p~~~~~v~~~l~~~---- 152 (220)
T PRK00702 79 DLYVDGADEIDPHLNLIKGGGAALTREKIVAAAAKRFICIVDESKLVDVLG--KFPLPVEVIPFARSAVARELEKL---- 152 (220)
T ss_pred CEEEECCCeECCCCCcEECcHHHHHHHHHHHHhcCcEEEEEEcchhhhhcC--CCCccEEECccHHHHHHHHHHHh----
Confidence 999999999999999999999999999999999999999999999999997 68999999999999999999987
Q ss_pred CCeeEEeecCCCCceEeCCCCEEEEeeCCCCCCChHHHHHHhcCCCcEEeeecccccccEEEEEcCCCeEEe
Q 024004 201 GCEAKLREGENGKPYITDNFNYIIDLYFETPIKDGVSAGTEIGKLEGVVEHGLFLDMATAVIIAGKTGVEVK 272 (274)
Q Consensus 201 g~~~~lR~~~~~gp~vTdnGN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe~GlF~~~a~~viv~~~~gv~~~ 272 (274)
|+.+.+|++ +|++|||||||+||+|+. +.||.+++++|++||||||||||.++++.+++|+++|++++
T Consensus 153 g~~~~~R~~---~p~vTd~Gn~IiD~~~~~-i~~p~~l~~~l~~i~GVve~GlF~~~~~~v~~~~~~g~~~~ 220 (220)
T PRK00702 153 GGQPELRMD---EPVVTDNGNYILDVHFGR-IPDPEALEKELNNIPGVVEHGLFANRADVVLVGTPDGVKTL 220 (220)
T ss_pred CCcceEeCC---CCEECCCCCEEEEecCCC-cCCHHHHHHHhcCCCcEeeeccCccCCCEEEEEcCCcEEeC
Confidence 889999975 799999999999999985 99999999999999999999999999999999999997653
No 5
>TIGR00021 rpiA ribose 5-phosphate isomerase. This model describes ribose 5-phosphate isomerase, an enzyme of the non-oxidative branch of the pentose phosphate pathway.
Probab=100.00 E-value=1.3e-64 Score=452.26 Aligned_cols=216 Identities=56% Similarity=0.901 Sum_probs=204.0
Q ss_pred HHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEcCCCCcccEEEEc
Q 024004 47 KKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTLDDHPSLDLAIDG 126 (274)
Q Consensus 47 K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l~~~~~iD~afdG 126 (274)
|++||++|+++|++||+||||+|||+.+++++|+++.+++++ ++|+||||.+++.+|.+.|++++.+....++|+||||
T Consensus 2 K~~IA~~A~~~I~~g~~I~ldsGST~~~~~~~L~~~~~~~~l-~itvVt~S~~~a~~l~~~gi~v~~l~~~~~iDiafdG 80 (218)
T TIGR00021 2 KRAAAEAAAEYVEDGMVVGLGTGSTVAYFIEALGERVKQEGL-DIVGVPTSKQTAELARELGIPLSSLDEVPELDLAIDG 80 (218)
T ss_pred HHHHHHHHHHhCCCCCEEEECCcHHHHHHHHHHHHhhhccCC-CEEEEeCCHHHHHHHHHCCCCEEcHhHCCccCEEEEC
Confidence 889999999999999999999999999999999987655666 7999999999999998889999999888899999999
Q ss_pred cCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEEEecccHHHHHHHHHHhHhhcCCeeEE
Q 024004 127 ADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVEVVQFCWKFNLVRLQDLFRELGCEAKL 206 (274)
Q Consensus 127 aD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvEV~p~a~~~v~~~l~~l~~~~g~~~~l 206 (274)
||+||++++++||+|+|++|||+++++|+++|+|+|+|||+++|| ++||||||+|++|.+|+++|+++ |+++++
T Consensus 81 aD~id~~~~~ikg~g~a~~~eKiia~~A~~~i~l~D~sK~~~~lg--~~plPvEV~p~~~~~v~~~l~~~----g~~~~~ 154 (218)
T TIGR00021 81 ADEVDPNLQLIKGGGGALLREKIVASASKRFIVIADESKLVDKLG--KFPLPVEVVPFAWKAVARKLEKL----GGEPTL 154 (218)
T ss_pred CCeECCCCCEecccHHHHHHHHHHHHhhCcEEEEEEchhhhcccC--CCCccEEECccHHHHHHHHHHHc----CCCcEE
Confidence 999999999999999999999999999999999999999999996 68999999999999999999986 889999
Q ss_pred eecCCCCceEeCCCCEEEEeeCCCCCCChHHHHHHhcCCCcEEeeecccccccEEEEEcCCCe
Q 024004 207 REGENGKPYITDNFNYIIDLYFETPIKDGVSAGTEIGKLEGVVEHGLFLDMATAVIIAGKTGV 269 (274)
Q Consensus 207 R~~~~~gp~vTdnGN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe~GlF~~~a~~viv~~~~gv 269 (274)
|++.+++|++|||||||+||+|+.++.||.+++++|++||||||||||.++++.+++|+++|+
T Consensus 155 R~~~~~~p~vTdnGN~IiD~~~~~~~~d~~~l~~~l~~i~GVve~GlF~~~~~~v~~~~~~g~ 217 (218)
T TIGR00021 155 RQGNKGGPVVTDNGNYILDCHFGKIIPDPEALEEELKSIPGVVETGLFIDMADTVIVGTKDGV 217 (218)
T ss_pred eecCCCCcEECCCCCEEEEeeCCCCCCCHHHHHHHHhcCCCEEEeeeecCCCCEEEEEeCCCc
Confidence 986445899999999999999985589999999999999999999999999999999999984
No 6
>cd01398 RPI_A RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the conversion of phosphosugars into glycolysis intermediates, which are precursors for the synthesis of amino acids, vitamins, nucleotides, and cell wall components. In plants, RPI is part of the Calvin cycle as ribulose 5-phosphate is the carbon dioxide receptor in the first dark reaction of photosynthesis. There are two unrelated types of RPIs (A and B), which catalyze the same reaction, at least one type of RPI is present in an organism. RPI_A is more widely distributed than RPI_B in bacteria, eukaryotes, and archaea.
Probab=100.00 E-value=4.9e-61 Score=427.87 Aligned_cols=212 Identities=56% Similarity=0.900 Sum_probs=198.1
Q ss_pred HHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEcCCCCcccEEEE
Q 024004 46 LKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTLDDHPSLDLAID 125 (274)
Q Consensus 46 ~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l~~~~~iD~afd 125 (274)
.|++||++|+++|++||+||||+|||+.+++++|+++.+.+. .++|+||||..++.++.+.|++++.++...++|+|||
T Consensus 1 ~K~~IA~~A~~~I~~g~~I~ldsGST~~~l~~~L~~~~~~~~-~~itvVTnS~~~a~~l~~~~i~vi~lg~~~~~D~af~ 79 (213)
T cd01398 1 LKRAAARAAVDYVEDGMVIGLGTGSTVAYFIEALGERVREEG-LNIVGVPTSFQTEELARELGIPLTDLDEVPRLDLAID 79 (213)
T ss_pred CHHHHHHHHHHhCCCCCEEEECchHHHHHHHHHHHHhhhccC-CCEEEEeCcHHHHHHHHhCCCeEEeCCCccccCEEEE
Confidence 389999999999999999999999999999999987644332 4799999999999988878999999998889999999
Q ss_pred ccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEEEecccHHHHHHHHHHhHhhcCCeeE
Q 024004 126 GADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVEVVQFCWKFNLVRLQDLFRELGCEAK 205 (274)
Q Consensus 126 GaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvEV~p~a~~~v~~~l~~l~~~~g~~~~ 205 (274)
|||+||+++++++++++|+++||+++++|+++|+|+|+|||+++|| ++||||||+|++|.+|+++|+++ |+.++
T Consensus 80 Gad~id~~~~~~~~~~~a~~kek~i~~~a~~~illaD~sK~~~~l~--~~~lPvEV~p~~~~~v~~~l~~~----g~~~~ 153 (213)
T cd01398 80 GADEVDPDLNLIKGGGGALLREKIVASAAKKFIVIADESKLVERLG--EFPLPVEVVPFAWSYVARELEKL----GGKPV 153 (213)
T ss_pred CCCcCCCCcCcccChHHHHHHHHHHHHhcCeEEEEEecchhcccCC--CCCeeEEEChhhHHHHHHHHHHc----CCCcE
Confidence 9999999988899999999999999999999999999999999996 59999999999999999999997 99999
Q ss_pred EeecCCC-CceEeCCCCEEEEeeCCCCCCChHHHHHHhcCCCcEEeeecccccccEEEEEc
Q 024004 206 LREGENG-KPYITDNFNYIIDLYFETPIKDGVSAGTEIGKLEGVVEHGLFLDMATAVIIAG 265 (274)
Q Consensus 206 lR~~~~~-gp~vTdnGN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe~GlF~~~a~~viv~~ 265 (274)
+|++.++ +|++|||||||+||+|+. +.||.+++++|++||||||||||.++++.|++|+
T Consensus 154 ~R~~~~~~~p~~Td~gn~i~D~~~~~-~~~~~~l~~~l~~i~GVve~GlF~~~~~~v~~~~ 213 (213)
T cd01398 154 LREGSGKGGPVVTDNGNYILDVHFGT-IEDPEALEKELKSIPGVVEHGLFLNMADEVIVGT 213 (213)
T ss_pred EcccCCCCCcEECCCCCEEEEecCCC-CCCHHHHHHHHhcCCCeeeeCCCcCCCCEEEEeC
Confidence 9997655 899999999999999986 8999999999999999999999999999999984
No 7
>KOG3075 consensus Ribose 5-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=100.00 E-value=1.6e-56 Score=401.89 Aligned_cols=232 Identities=57% Similarity=0.890 Sum_probs=215.1
Q ss_pred CChHHHHHHHHHHHH-hcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEcCCCCc
Q 024004 41 LTQDDLKKLAADKAV-DYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTLDDHPS 119 (274)
Q Consensus 41 ~~~~~~K~~iA~~A~-~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l~~~~~ 119 (274)
..+++.|+++|++|. +++++||+||||||||+.+.+++|++.+.++.+.++++||+|..+++++.++||++-+++.++.
T Consensus 22 ~~~e~~kr~Aa~~avd~~~k~g~ViGiGsGstv~~~v~~i~q~l~~~~l~~vvgVPts~~s~q~~~~~gi~l~~~d~hp~ 101 (261)
T KOG3075|consen 22 SPQEEAKRLAAYKAVDNYVKNGMVIGIGSGSTVVYAVDRIGQLLFDGDLGNVVGVPTSFRSAQLALEYGIPLSDLDSHPV 101 (261)
T ss_pred CchHHHHHHHHhhhhhhhccCCeEEEecCccHHHHHHHHHHHHhcCCCcCceEecccchhhHHHHHhcCCccccCCCCce
Confidence 467899999999999 6677799999999999999999999998888888999999999999999999999999999999
Q ss_pred ccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcc-cccEEEecccHHHHHHHHHHhHh
Q 024004 120 LDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKL-AMPVEVVQFCWKFNLVRLQDLFR 198 (274)
Q Consensus 120 iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~-plPvEV~p~a~~~v~~~l~~l~~ 198 (274)
+|++||||||+|++++++||+||++++||++.-+|+++|+++|++|+.+.||++.. .+||||+|++|..+.++|.+ |
T Consensus 102 iDlaidgADEvd~nln~ikggGg~l~qEk~v~~~akkfiviad~~k~~~~lg~~~~~gvPvEvvpl~~~~l~~~l~~-~- 179 (261)
T KOG3075|consen 102 IDLAIDGADEVDENLNLIKGGGGCLLQEKDVEGAAKKFIVIADSRKGSKGLGGSGKQGVPVEVVPLAWLKLLENLSE-F- 179 (261)
T ss_pred eEEEecCchhhCcCcceEEeccchhhHHHHHHHhhhceEEEeeccccchhhcccccCceeeeehhhHHHHHHHhhhh-h-
Confidence 99999999999999999999999999999999999999999999999999886544 59999999999999999999 2
Q ss_pred hcCCeeEEee-cCCC-CceEeCCCCEEEEeeCCCCCCChHHHHHHhcCCCcEEeeecccccccEEEEEcCCC-eEEecC
Q 024004 199 ELGCEAKLRE-GENG-KPYITDNFNYIIDLYFETPIKDGVSAGTEIGKLEGVVEHGLFLDMATAVIIAGKTG-VEVKSK 274 (274)
Q Consensus 199 ~~g~~~~lR~-~~~~-gp~vTdnGN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe~GlF~~~a~~viv~~~~g-v~~~~~ 274 (274)
..|+++.+|+ +.++ +||+|||||||+||+|+.++.|+.+++.+++.+|||||||||++|++.+|++.++| +.+..|
T Consensus 180 ~~g~~~~lR~g~~~k~~P~VTDngN~IiDv~fe~~i~~~~~~~~~i~~~pGVVe~GLfi~~~~~v~ia~~~gsv~v~~~ 258 (261)
T KOG3075|consen 180 SFGCEAKLRMGAEGKAGPYVTDNGNFIIDVQFETPIRDLNAASTSIKKIPGVVEHGLFIGMADTVIIAESDGSVSVTKK 258 (261)
T ss_pred hccchheecccccccCCCeEeeCCCeEEEEEeecccCCHHHHHHHHhhcCCccccceEeecccEEEEEecCCccceeec
Confidence 2499999995 5555 99999999999999998789999999999999999999999999999999999998 666543
No 8
>PF06026 Rib_5-P_isom_A: Ribose 5-phosphate isomerase A (phosphoriboisomerase A); InterPro: IPR004788 Ribose 5-phosphate isomerase, also known as phosphoriboisomerase, catalyses the reversible conversion of D-ribose 5-phosphate to D-ribulose 5-phosphate, the first step in the non-oxidative branch of the pentose phosphate pathway []. This reaction enables ribose to be synthesized from sugars, as well as the recycling of sugars during the degradation of nucleotides. There are two unrelated types of ribose 5-phosphate isomerases: type A (RpiA) is the most common and is found in most organisms, while type B (RpiB) is restricted to specific eukaryotic and prokaryotic species. Escherichia coli produces both RpiA and RpiB (also known as AlsB), although RpiA accounts for 99% of total RPI enzymes []. This entry represents type A (RpiA) enzymes found in eukaryotes (plants, Metazoa and fungi), bacteria and archaea.; GO: 0004751 ribose-5-phosphate isomerase activity, 0009052 pentose-phosphate shunt, non-oxidative branch; PDB: 1M0S_B 3HHE_B 1LKZ_B 1KS2_A 1O8B_A 3UW1_A 3U7J_A 3L7O_A 1XTZ_A 1UJ6_A ....
Probab=100.00 E-value=2.8e-56 Score=385.74 Aligned_cols=173 Identities=55% Similarity=0.901 Sum_probs=151.6
Q ss_pred eEEECCcHHHHHHHHhCCCcEEEcCCCCcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccC
Q 024004 91 IVGIPTSKRTEEQAKSLNIPLTTLDDHPSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGL 170 (274)
Q Consensus 91 itvVT~S~~ta~~l~~~gi~vi~l~~~~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~L 170 (274)
|++||+|.+|+.+|+++|++++.+++..++|+||||||+||+++++|||+|||++|||+++++|+++|+|+|+||++++|
T Consensus 1 I~~V~tS~~T~~~a~~~Gi~l~~~~~~~~iDl~iDGaDevd~~l~lIKGgGgallrEKiva~~a~~~I~i~DesK~v~~L 80 (173)
T PF06026_consen 1 IVGVPTSEATELLARKLGIPLVDLDEVDRIDLAIDGADEVDPDLNLIKGGGGALLREKIVASAAKRFIIIVDESKLVEKL 80 (173)
T ss_dssp EEEEESSHHHHHHHHHTT-EBE-GGGSSSEEEEEEE-SEEETTSEEE--TTS-HHHHHHHHHTEEEEEEEEEGGGBESSB
T ss_pred CEEECChHHHHHHHHHcCCcEEccccCCcceEEEECchhhcCCCCEEECCCccchhhhhHHHhhceEEEEECCCcEeeEc
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccccEEEecccHHHHHHHHHHhHhhcCCeeEEeecCCCCceEeCCCCEEEEeeCCCCCCChHHHHHHhcCCCcEEe
Q 024004 171 GGSKLAMPVEVVQFCWKFNLVRLQDLFRELGCEAKLREGENGKPYITDNFNYIIDLYFETPIKDGVSAGTEIGKLEGVVE 250 (274)
Q Consensus 171 g~~~~plPvEV~p~a~~~v~~~l~~l~~~~g~~~~lR~~~~~gp~vTdnGN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe 250 (274)
| ++||||||+||+|.+|+++|+++ +|+++.+|++.+ +|++|||||||+||+|+. +.||++++++|++||||||
T Consensus 81 g--~~plPvEV~p~a~~~v~~~l~~~---~G~~~~lR~~~~-~p~vTDnGN~IlD~~f~~-i~d~~~l~~~L~~i~GVVe 153 (173)
T PF06026_consen 81 G--KFPLPVEVVPFAWSYVLRRLKEL---LGGKPVLRMASG-GPFVTDNGNYILDVHFGP-IDDPEELERELKSIPGVVE 153 (173)
T ss_dssp T--SS-EEEEE-GGGHHHHHHHHHHT---TT-EEEE-EETT-EE-B-TTS-EEEEEESSS-BSSHHHHHHHHHTSTTEEE
T ss_pred C--CCceeEEEcHHHHHHHHHHHHHh---cCCCceEccCCC-CCEEeCCCCEEEEecCCC-CCCHHHHHHHHhCCCCEEe
Confidence 6 79999999999999999999983 299999999877 999999999999999984 9999999999999999999
Q ss_pred eecccccccEEEEEcCCCeE
Q 024004 251 HGLFLDMATAVIIAGKTGVE 270 (274)
Q Consensus 251 ~GlF~~~a~~viv~~~~gv~ 270 (274)
||||.++++.+++|+++|++
T Consensus 154 ~GlF~~~~~~viv~~~~G~~ 173 (173)
T PF06026_consen 154 TGLFLGMADKVIVGGEDGVK 173 (173)
T ss_dssp ESEE-SS-SEEEEEETTEEE
T ss_pred ECcCcCcCCEEEEEcCCCcC
Confidence 99999999999999999975
No 9
>PF00455 DeoRC: DeoR C terminal sensor domain; InterPro: IPR014036 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after Escherichia coli deoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerization domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].
Probab=99.91 E-value=8.8e-24 Score=180.62 Aligned_cols=120 Identities=22% Similarity=0.271 Sum_probs=105.7
Q ss_pred hHHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhC-CCcEEEcCC-----
Q 024004 43 QDDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSL-NIPLTTLDD----- 116 (274)
Q Consensus 43 ~~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~-gi~vi~l~~----- 116 (274)
+.++|++||++|+++|+||++|+||+|||+.+++++|.++ +++||||||+.++..|.+. +++++.+++
T Consensus 2 n~~~K~~IA~~A~~~I~~~~~Ifld~GtT~~~la~~L~~~------~~ltVvTnsl~ia~~l~~~~~~~vi~~GG~~~~~ 75 (161)
T PF00455_consen 2 NAEEKRAIARKAASLIEDGDTIFLDSGTTTLELAKYLPDK------KNLTVVTNSLPIANELSENPNIEVILLGGEVNPK 75 (161)
T ss_pred CHHHHHHHHHHHHHhCCCCCEEEEECchHHHHHHHHhhcC------CceEEEECCHHHHHHHHhcCceEEEEeCCEEEcC
Confidence 3488999999999999999999999999999999999986 5899999999999999766 789988764
Q ss_pred --------------CCcccEEEEccCcccCCCCccc-CcchhHHHHHHHHHhcCcEEEEEcCCccccc
Q 024004 117 --------------HPSLDLAIDGADEVDPELNLVK-GRGGALLREKMVEAASKSFVVVADESKLVSG 169 (274)
Q Consensus 117 --------------~~~iD~afdGaD~Vd~~~~~ik-g~gga~l~EKila~~S~~~IvLaD~sK~~~~ 169 (274)
..++|++|.||++||.+.|+.. ....+.++ +.++++|+++|+|+|+|||+++
T Consensus 76 ~~~~~G~~a~~~l~~~~~d~afi~~~gi~~~~G~~~~~~~~a~vk-~~~~~~s~~~ill~D~sKf~~~ 142 (161)
T PF00455_consen 76 SLSFVGPIALEALRQFRFDKAFIGADGISEEGGLTTSDEEEAEVK-RAMIENSKQVILLADSSKFGRN 142 (161)
T ss_pred CCcEECchHHHHHHhhccceEEecccEecCCCccccchHHHHHHH-HHHHHhcCeEEEEeChhhcCCe
Confidence 1489999999999999988854 44678888 4666789999999999999865
No 10
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=99.88 E-value=6e-22 Score=180.60 Aligned_cols=120 Identities=17% Similarity=0.208 Sum_probs=104.1
Q ss_pred hHHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHH-hCCCcEEEcCC-----
Q 024004 43 QDDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAK-SLNIPLTTLDD----- 116 (274)
Q Consensus 43 ~~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~-~~gi~vi~l~~----- 116 (274)
..++|++||++|+++|+|||+|+||+|||+.+++++|+++ +++||||||+.++..+. ..+++++.+++
T Consensus 74 ~~~~K~~IA~~Aa~~I~~g~tIflD~GtT~~~la~~L~~~------~~ltVvTNsl~ia~~l~~~~~~~villGG~~~~~ 147 (252)
T PRK10906 74 QTEEKERIARKVASQIPNGATLFIDIGTTPEAVAHALLNH------SNLRIVTNNLNVANTLMAKEDFRIILAGGELRSR 147 (252)
T ss_pred cHHHHHHHHHHHHhhCCCCCEEEEcCcHHHHHHHHHhcCC------CCcEEEECcHHHHHHHhhCCCCEEEEECCEEecC
Confidence 4478999999999999999999999999999999999864 47999999999999885 56788888764
Q ss_pred --------------CCcccEEEEccCcccCCCCccc-CcchhHHHHHHHHHhcCcEEEEEcCCccccc
Q 024004 117 --------------HPSLDLAIDGADEVDPELNLVK-GRGGALLREKMVEAASKSFVVVADESKLVSG 169 (274)
Q Consensus 117 --------------~~~iD~afdGaD~Vd~~~~~ik-g~gga~l~EKila~~S~~~IvLaD~sK~~~~ 169 (274)
.+++|+||.||++||.+.|+.. +...+.++ |.|+++|+++|+|+|+|||+.+
T Consensus 148 ~~~~~G~~a~~~l~~~~~d~afi~~~Gi~~~~G~t~~~~~ea~~k-~~~~~~a~~~illaD~sKf~~~ 214 (252)
T PRK10906 148 DGGIIGEATLDFISQFRLDFGILGISGIDSDGSLLEFDYHEVRTK-RAIIENSRHVMLVVDHSKFGRN 214 (252)
T ss_pred CCccCCHHHHHHHHhccCCEEEEcCCEECCCCCcCCCCHHHHHHH-HHHHHhcCcEEEEEccchhCCc
Confidence 1489999999999999988854 44678888 4566789999999999999865
No 11
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=99.87 E-value=4.4e-22 Score=181.25 Aligned_cols=120 Identities=18% Similarity=0.108 Sum_probs=103.9
Q ss_pred hHHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHh-CCCcEEEcCC-----
Q 024004 43 QDDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKS-LNIPLTTLDD----- 116 (274)
Q Consensus 43 ~~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~-~gi~vi~l~~----- 116 (274)
..++|++||++|+++|+|||+|+||+|||+.+++++|.+. .++||||||+.++..|.+ .+++++.+++
T Consensus 75 ~~~~K~~IA~~Aa~lI~~g~tIflD~GtT~~~la~~L~~~------~~ltvvTnsl~i~~~l~~~~~~~villGG~~~~~ 148 (252)
T PRK10681 75 LVEEKRRAAQLAATLVEPNQTLFFDCGTTTPWIIEAIDNE------LPFTAVCYSLNTFLALQEKPHCRAILCGGEFHAS 148 (252)
T ss_pred CHHHHHHHHHHHHhhcCCCCEEEEECCccHHHHHHhcCCC------CCeEEEECCHHHHHHHhhCCCCEEEEECcEEecC
Confidence 3478999999999999999999999999999999999864 379999999999998864 5788888763
Q ss_pred --------------CCcccEEEEccCcccCCCCcc-cCcchhHHHHHHHHHhcCcEEEEEcCCccccc
Q 024004 117 --------------HPSLDLAIDGADEVDPELNLV-KGRGGALLREKMVEAASKSFVVVADESKLVSG 169 (274)
Q Consensus 117 --------------~~~iD~afdGaD~Vd~~~~~i-kg~gga~l~EKila~~S~~~IvLaD~sK~~~~ 169 (274)
.+++|++|.||++||++.|+. .....+.++ |.|+++|++.|+|+|+|||+..
T Consensus 149 ~~~~~G~~~~~~l~~~~~D~afig~~gi~~~~G~~~~~~~ea~vk-~~~~~~a~~~illaD~sKf~~~ 215 (252)
T PRK10681 149 NAIFKPLDFQQTLDNICPDIAFYSAAGVHVSKGATCFNLEELPVK-HWAMAMAQKHVLVVDHSKFGKV 215 (252)
T ss_pred cceeeCHHHHHHHHhhCCCEEEEeCceecCCCCcCCCCHHHHHHH-HHHHHhhCcEEEEEcccccCce
Confidence 148999999999999998884 455678888 5667789999999999999865
No 12
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=99.87 E-value=1.1e-21 Score=180.44 Aligned_cols=120 Identities=18% Similarity=0.284 Sum_probs=104.2
Q ss_pred hHHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHH-hCCCcEEEcCC-----
Q 024004 43 QDDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAK-SLNIPLTTLDD----- 116 (274)
Q Consensus 43 ~~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~-~~gi~vi~l~~----- 116 (274)
..++|++||++|+++|+|||+|+||+|||+.+++++|+++ .++||||||+.++..+. ..+++++.+++
T Consensus 89 ~~~~K~~IA~~Aa~~I~dgd~Ifld~GtT~~~la~~L~~~------~~ltVvTnsl~ia~~l~~~~~~~v~llGG~~~~~ 162 (269)
T PRK09802 89 NTAMKRSVAKAAVELIQPGHRVILDSGTTTFEIARLMRKH------TDVIAMTNGMNVANALLEAEGVELLMTGGHLRRQ 162 (269)
T ss_pred CHHHHHHHHHHHHhhCCCCCEEEECCchHHHHHHHhcCcC------CCeEEEeCCHHHHHHHHhCCCCEEEEECCEEecC
Confidence 4478999999999999999999999999999999999764 47999999999999886 45789888763
Q ss_pred --------------CCcccEEEEccCcccCCCCccc-CcchhHHHHHHHHHhcCcEEEEEcCCccccc
Q 024004 117 --------------HPSLDLAIDGADEVDPELNLVK-GRGGALLREKMVEAASKSFVVVADESKLVSG 169 (274)
Q Consensus 117 --------------~~~iD~afdGaD~Vd~~~~~ik-g~gga~l~EKila~~S~~~IvLaD~sK~~~~ 169 (274)
.+++|+||.||++||.+.|+.. ....+.++ +.|+++|++.|+|+|+|||+..
T Consensus 163 ~~~~~G~~a~~~l~~~~~d~afig~~gi~~~~G~t~~~~~ea~~k-r~~i~~s~~~ill~D~sKf~~~ 229 (269)
T PRK09802 163 SQSFYGDQAEQSLQNYHFDMLFLGVDAIDLERGVSTHNEDEARLN-RRMCEVAERIIVVTDSSKFNRS 229 (269)
T ss_pred CCceECHHHHHHHHhccCCEEEEcCceecCCCCcCCCCHHHHHHH-HHHHHHcCcEEEEEeccccCCc
Confidence 2589999999999999988854 55678888 5667789999999999999865
No 13
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=99.87 E-value=1.9e-21 Score=177.61 Aligned_cols=119 Identities=21% Similarity=0.235 Sum_probs=102.7
Q ss_pred HHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHh-CC-CcEEEcCC-----
Q 024004 44 DDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKS-LN-IPLTTLDD----- 116 (274)
Q Consensus 44 ~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~-~g-i~vi~l~~----- 116 (274)
.++|++||++|+++|+|||+|+||+|||+++++++|++. .++||||||+.++..+.+ .+ ++++.+++
T Consensus 75 ~~~K~~IA~~Aa~~I~~g~tIfld~GtT~~~la~~L~~~------~~ltVvTnsl~ia~~l~~~~~~~~v~l~GG~~~~~ 148 (256)
T PRK10434 75 THKKELIAEAAVSLIHDGDSIILDAGSTVLQMVPLLSRF------NNITVMTNSLHIVNALSELDNEQTILMPGGTFRKK 148 (256)
T ss_pred HHHHHHHHHHHHhhCCCCCEEEEcCcHHHHHHHHHhccC------CCeEEEECCHHHHHHHhhCCCCCEEEEECCEEeCC
Confidence 478999999999999999999999999999999999874 379999999999998864 44 68888763
Q ss_pred --------------CCcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCccccc
Q 024004 117 --------------HPSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSG 169 (274)
Q Consensus 117 --------------~~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~ 169 (274)
..++|+||.||++||.+.|+......+.++ |.++++|+++|+|+|++||+..
T Consensus 149 ~~~~~G~~a~~~l~~~~~D~afi~~~gi~~~~G~t~~~~~~~~k-~~~~~~a~~~illaD~sKf~~~ 214 (256)
T PRK10434 149 SASFHGQLAENAFEHFTFDKLFIGTDGIDLNAGVTTFNEVYTVS-KAMCNAAREIILMADSSKFGRK 214 (256)
T ss_pred CCeEECHHHHHHHHhCcCCEEEEcCceecCCCCcCCCCHHHHHH-HHHHHHcCcEEEEECCcccCCc
Confidence 258999999999999998885544457777 5777899999999999999965
No 14
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=99.86 E-value=3e-21 Score=174.83 Aligned_cols=119 Identities=18% Similarity=0.222 Sum_probs=103.3
Q ss_pred hHHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHH-hCCCcEEEcCC-----
Q 024004 43 QDDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAK-SLNIPLTTLDD----- 116 (274)
Q Consensus 43 ~~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~-~~gi~vi~l~~----- 116 (274)
..++|++||++|+++|+|||+|+||+|||+.+++++|+++ ++||||||+.++..|. ..+++++.+++
T Consensus 76 ~~~~K~~IA~~Aa~lI~~gd~Ifld~GtT~~~l~~~L~~~-------~ltVvTNs~~ia~~l~~~~~~~vil~GG~~~~~ 148 (240)
T PRK10411 76 HYAHKADIAREALAWIEEGMVIALDASSTCWYLARQLPDI-------NIQVFTNSHPICQELGKRERIQLISSGGTLERK 148 (240)
T ss_pred HHHHHHHHHHHHHHhCCCCCEEEEcCcHHHHHHHHhhCCC-------CeEEEeCCHHHHHHHhcCCCCEEEEECCEEeCC
Confidence 3478999999999999999999999999999999999763 6999999999999886 56788887764
Q ss_pred --------------CCcccEEEEccCcccCCCCccc-CcchhHHHHHHHHHhcCcEEEEEcCCccccc
Q 024004 117 --------------HPSLDLAIDGADEVDPELNLVK-GRGGALLREKMVEAASKSFVVVADESKLVSG 169 (274)
Q Consensus 117 --------------~~~iD~afdGaD~Vd~~~~~ik-g~gga~l~EKila~~S~~~IvLaD~sK~~~~ 169 (274)
..++|++|.||++||.+.|+.. ....+.++ |.++++|+++|+++|+|||+..
T Consensus 149 ~~~~~G~~a~~~l~~~~~d~afis~~gi~~~~G~~~~~~~ea~~k-~~~~~~a~~~ill~D~sKf~~~ 215 (240)
T PRK10411 149 YGCYVNPSLISQLKSLEIDLFIFSCEGIDSSGALWDSNAINADYK-SMLLKRAAQSLLLIDKSKFNRS 215 (240)
T ss_pred CCceECHHHHHHHHhcCCCEEEEeceeECCCCCcccCCHHHHHHH-HHHHHHhCcEEEEEeccccCCc
Confidence 1489999999999999988854 44668877 5677899999999999999855
No 15
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=99.85 E-value=1.1e-20 Score=172.00 Aligned_cols=117 Identities=15% Similarity=0.092 Sum_probs=100.1
Q ss_pred HHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHH-hCCCcEEEcCC------
Q 024004 44 DDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAK-SLNIPLTTLDD------ 116 (274)
Q Consensus 44 ~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~-~~gi~vi~l~~------ 116 (274)
.++|++||++|+++|+|||+|+||+|||+.+++++|.+. ++||||||+.++..|. ..+++++.+++
T Consensus 77 ~~~K~~IA~~Aa~~I~~g~~Ifld~GsT~~~la~~L~~~-------~ltVvTnsl~ia~~l~~~~~~~v~l~GG~~~~~~ 149 (251)
T PRK13509 77 HDEKVRIAKAASQLCNPGESVVINCGSTAFLLGRELCGK-------PVQIITNYLPLANYLIDQEHDSVIIMGGQYNKSQ 149 (251)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEECCcHHHHHHHHHhCCC-------CeEEEeCCHHHHHHHHhCCCCEEEEECCeEcCCc
Confidence 378999999999999999999999999999999999753 6999999999999885 45788888763
Q ss_pred ------------CCcccEEEEccCcccCCCCccc-CcchhHHHHHHHHHhcCcEEEEEcCCccccc
Q 024004 117 ------------HPSLDLAIDGADEVDPELNLVK-GRGGALLREKMVEAASKSFVVVADESKLVSG 169 (274)
Q Consensus 117 ------------~~~iD~afdGaD~Vd~~~~~ik-g~gga~l~EKila~~S~~~IvLaD~sK~~~~ 169 (274)
.+++|++|.||++||.+ |+.. ....+.++ |.++++|++.|+|+|+|||+..
T Consensus 150 ~~~~G~~~~~l~~~~~d~aFig~~gi~~~-G~~~~~~~e~~~k-~~~~~~s~~~illaDssKfg~~ 213 (251)
T PRK13509 150 SITLSPQGSENSLYAGHWMFTSGKGLTAD-GLYKTDMLTAMAE-QKMLSVVGKLVVLVDSSKIGER 213 (251)
T ss_pred ceeECHHHHHHHhCcCCEEEECCCcCCCC-cCCCCCHHHHHHH-HHHHHHhCcEEEEEcccccCce
Confidence 24889999999999965 7754 43567887 5566889999999999999965
No 16
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=99.85 E-value=1.4e-20 Score=171.78 Aligned_cols=120 Identities=22% Similarity=0.235 Sum_probs=103.9
Q ss_pred hHHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHH-hCCCcEEEcCC-----
Q 024004 43 QDDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAK-SLNIPLTTLDD----- 116 (274)
Q Consensus 43 ~~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~-~~gi~vi~l~~----- 116 (274)
+.++|++||++|+++|+|||+|+||+|||+.+++++|.+. .++|+||||+.++..|. +.++.++.+++
T Consensus 74 ~~~eK~~IA~~Aa~lI~~g~~ifld~GTT~~~la~~L~~~------~~ltviTNsl~ia~~l~~~~~~~vi~~GG~~~~~ 147 (253)
T COG1349 74 NTEEKRAIAKAAATLIEDGDTIFLDAGTTTLALARALPDD------NNLTVITNSLNIAAALLEKPNIEVILLGGTVRKK 147 (253)
T ss_pred hHHHHHHHHHHHHhhCCCCCEEEECCCcHHHHHHHHhCcC------CCeEEEeCCHHHHHHHHhCCCCeEEEeCcEEEcC
Confidence 4478999999999999999999999999999999999975 45999999999988775 55788877753
Q ss_pred --------------CCcccEEEEccCcccCCCCcccCc-chhHHHHHHHHHhcCcEEEEEcCCccccc
Q 024004 117 --------------HPSLDLAIDGADEVDPELNLVKGR-GGALLREKMVEAASKSFVVVADESKLVSG 169 (274)
Q Consensus 117 --------------~~~iD~afdGaD~Vd~~~~~ikg~-gga~l~EKila~~S~~~IvLaD~sK~~~~ 169 (274)
.+++|++|.|++++|.+.|+.... ..+.++ +.|+++|++.|+|+|||||++.
T Consensus 148 ~~~~~G~~a~~~l~~~~~d~aFig~~gi~~~~g~~~~~~~ea~~k-~~~~~~a~~~~ll~D~sKf~~~ 214 (253)
T COG1349 148 SGSFVGPLAEEFLRQFNFDKAFIGADGIDLEGGLTTFNEEEAEVK-RAMIEAAREVILLADSSKFGRV 214 (253)
T ss_pred CCeEEcHHHHHHHHhCcccEEEEeccccCCCCCcCcCCHHHHHHH-HHHHHhhCcEEEEEcCCccCCc
Confidence 258999999999999998886544 567777 6777899999999999999976
No 17
>PRK08335 translation initiation factor IF-2B subunit alpha; Validated
Probab=98.12 E-value=4.7e-05 Score=70.86 Aligned_cols=134 Identities=17% Similarity=0.197 Sum_probs=91.7
Q ss_pred HHHHHHHHHHHHhcCCCCCEEE-ECcChHHHHHHHHHhchhhcCCCCCeEEECCc-----HHHHHHHHhCCCcEEEcCCC
Q 024004 44 DDLKKLAADKAVDYVKSGMALG-LGTGSTAAFVVDRIGQLLKTGELRDIVGIPTS-----KRTEEQAKSLNIPLTTLDDH 117 (274)
Q Consensus 44 ~~~K~~iA~~A~~~I~dg~vIg-LGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S-----~~ta~~l~~~gi~vi~l~~~ 117 (274)
.+.+++|++.|+++|++|++|. .+-++|+..+++...+. |....+.+.-+- ...+.+|.+.||++..+.+.
T Consensus 93 ~~~~~~I~~~a~~~I~~g~~ILTh~~S~tv~~~l~~A~~~---gk~~~V~v~EsrP~~qG~~la~eL~~~GI~vtlI~Ds 169 (275)
T PRK08335 93 EEAKREIGNIGSELIDDGDVIITHSFSSAVLEILKTAKRK---GKRFKVILTESAPDYEGLALANELEFLGIEFEVITDA 169 (275)
T ss_pred HHHHHHHHHHHHHHcCCCCEEEEECCcHHHHHHHHHHHHc---CCceEEEEecCCCchhHHHHHHHHHHCCCCEEEEecc
Confidence 3567889999999999999554 55567888888766542 221223333322 24566788889998776432
Q ss_pred ------CcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEEEec
Q 024004 118 ------PSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVEVVQ 183 (274)
Q Consensus 118 ------~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvEV~p 183 (274)
.++|+++.|||.|-.++++..--|...+- -...+...-||+++..+||...+. +. .+|+|-.+
T Consensus 170 a~~~~m~~vd~VivGAD~I~~nG~v~NKiGT~~lA-~~Ak~~~vPfyV~a~~~k~~~~~~-~~-~i~ieer~ 238 (275)
T PRK08335 170 QLGLFAKEATLALVGADNVTRDGYVVNKAGTYLLA-LACHDNGVPFYVAAETFKFHPELK-SE-EVELVERP 238 (275)
T ss_pred HHHHHHHhCCEEEECccEEecCCCEeehhhHHHHH-HHHHHcCCCEEEECccceecccCC-CC-CccccccC
Confidence 47999999999999998775433443332 233456789999999999998763 23 57766544
No 18
>TIGR00524 eIF-2B_rel eIF-2B alpha/beta/delta-related uncharacterized proteins. This model, eIF-2B_rel, describes half of a superfamily, where the other half consists of eukaryotic translation initiation factor 2B (eIF-2B) subunits alpha, beta, and delta. It is unclear whether the eIF-2B_rel set is monophyletic, or whether they are all more closely related to each other than to any eIF-2B subunit because the eIF-2B clade is highly derived. Members of this branch of the family are all uncharacterized with respect to function and are found in the Archaea, Bacteria, and Eukarya, although a number are described as putative translation intiation factor components. Proteins found by eIF-2B_rel include at least three clades, including a set of uncharacterized eukaryotic proteins, a set found in some but not all Archaea, and a set universal so far among the Archaea and closely related to several uncharacterized bacterial proteins.
Probab=98.08 E-value=5.7e-05 Score=71.16 Aligned_cols=133 Identities=18% Similarity=0.159 Sum_probs=90.4
Q ss_pred HHHHHHHHHHhcCCCCCEEEECcC---------hHHHHHHHHHhchhhcCCCCCeEEECC------cHHHHHHHHhCCCc
Q 024004 46 LKKLAADKAVDYVKSGMALGLGTG---------STAAFVVDRIGQLLKTGELRDIVGIPT------SKRTEEQAKSLNIP 110 (274)
Q Consensus 46 ~K~~iA~~A~~~I~dg~vIgLGsG---------STv~~l~~~L~~~~~~~~l~~itvVT~------S~~ta~~l~~~gi~ 110 (274)
..+.||+.|+++|++|++|--=+. +|+..+++...+. |....+.++-+ +..++.+|.+.||+
T Consensus 104 ~~~~Ia~~a~~~I~~g~~ILT~~~Sg~lat~~~~tv~~~l~~A~~~---g~~~~V~v~EsrP~~~G~~~~a~~L~~~gI~ 180 (303)
T TIGR00524 104 TNRKIGENGAKLIKDGDTVLTHCNAGALATSDYGTALGVIRSAWED---GKRIRVIACETRPRNQGSRLTAWELMQDGID 180 (303)
T ss_pred HHHHHHHHHHHHccCCCEEEEecCCccccccCcchHHHHHHHHHHc---CCceEEEECCCCCccchHHHHHHHHHHCCCC
Confidence 356789999999999997665443 5888887766542 22122332211 14567888899999
Q ss_pred EEEcCC------CC--cccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEEEe
Q 024004 111 LTTLDD------HP--SLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVEVV 182 (274)
Q Consensus 111 vi~l~~------~~--~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvEV~ 182 (274)
+..+.. .. .+|++|.|||.|-.+++++.--|...+- -+..+....+|+++...||..+.- ....+|+|-.
T Consensus 181 vtlI~Dsa~~~~m~~~~vd~VlvGAd~v~~nG~v~nk~GT~~lA-~~Ak~~~vPv~V~a~s~K~~~~~~-~g~~i~~e~~ 258 (303)
T TIGR00524 181 VTLITDSMAAYFMQKGEIDAVIVGADRIARNGDVANKIGTYQLA-VLAKEFRIPFFVAAPLSTFDTKTS-CGEDIVIEER 258 (303)
T ss_pred EEEEChhHHHHHccccCCCEEEEcccEEecCCCEeEhhhHHHHH-HHHHHhCCCEEEecccccccCCCC-CccccccccC
Confidence 887642 13 7999999999999998886444444433 233456779999999999997631 1245777765
Q ss_pred c
Q 024004 183 Q 183 (274)
Q Consensus 183 p 183 (274)
+
T Consensus 259 ~ 259 (303)
T TIGR00524 259 D 259 (303)
T ss_pred C
Confidence 4
No 19
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family. The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
Probab=98.08 E-value=5.9e-05 Score=70.90 Aligned_cols=135 Identities=18% Similarity=0.218 Sum_probs=92.9
Q ss_pred HHHHHHHHHHHHhcCCCCCEEE-ECcChHHHHHHHHHhchhhcCCCCCeEEECCc-----HHHHHHHHhCCCcEEEcCC-
Q 024004 44 DDLKKLAADKAVDYVKSGMALG-LGTGSTAAFVVDRIGQLLKTGELRDIVGIPTS-----KRTEEQAKSLNIPLTTLDD- 116 (274)
Q Consensus 44 ~~~K~~iA~~A~~~I~dg~vIg-LGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S-----~~ta~~l~~~gi~vi~l~~- 116 (274)
....+.|++.|+++|++|++|- .|.++|+..+++...+. |....+.|.-+. ..++..|.+.||++..+..
T Consensus 99 ~~a~~~I~~~a~~~i~~g~~ILT~~~S~tv~~~l~~a~~~---~~~f~V~v~EsrP~~~G~~~a~~L~~~gI~vtlI~Ds 175 (301)
T TIGR00511 99 DKAQERIGEIGAKRIRDGDVVMTHCNSEAALSVIKTAFEQ---GKDIEVIATETRPRKQGHITAKELRDYGIPVTLIVDS 175 (301)
T ss_pred HHHHHHHHHHHHHHcCCCCEEEEECCcHHHHHHHHHHHHc---CCcEEEEEecCCCcchHHHHHHHHHHCCCCEEEEehh
Confidence 4557779999999999999655 56577888888766542 221234333332 3578888899999877643
Q ss_pred -----CCcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEEEec
Q 024004 117 -----HPSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVEVVQ 183 (274)
Q Consensus 117 -----~~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvEV~p 183 (274)
..++|++|.|||.|-.+++++.--|...+- -...+....+|++++..||..... ....+++|-.+
T Consensus 176 a~~~~m~~vd~VivGad~v~~nG~v~nkiGT~~lA-~~Ak~~~vPv~V~a~~~K~~~~~~-~~~~~~ie~~~ 245 (301)
T TIGR00511 176 AVRYFMKEVDHVVVGADAITANGALINKIGTSQLA-LAAREARVPFMVAAETYKFHPKTI-TGELVEIEERD 245 (301)
T ss_pred HHHHHHHhCCEEEECccEEecCCCEEEHHhHHHHH-HHHHHhCCCEEEEcccceecCCCC-CCCcccccccC
Confidence 147999999999999998886444444433 234556789999999999997631 12345666544
No 20
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Probab=98.06 E-value=5.4e-05 Score=71.43 Aligned_cols=134 Identities=16% Similarity=0.202 Sum_probs=91.1
Q ss_pred HHHHHHHHHHHhcCCCCCEEE-ECcChHHHHHHHHHhchhhcCCCCCeEEECCc-----HHHHHHHHhCCCcEEEcCCC-
Q 024004 45 DLKKLAADKAVDYVKSGMALG-LGTGSTAAFVVDRIGQLLKTGELRDIVGIPTS-----KRTEEQAKSLNIPLTTLDDH- 117 (274)
Q Consensus 45 ~~K~~iA~~A~~~I~dg~vIg-LGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S-----~~ta~~l~~~gi~vi~l~~~- 117 (274)
...+.|++.|+++|++|++|. .|.++|+..+++...+. |....+.+.-+. ..++..|.+.||++..+...
T Consensus 105 ~~~~~I~~~a~~~i~~g~~ILT~~~S~tv~~~l~~A~~~---~k~~~V~v~EsrP~~~G~~~a~~L~~~GI~vtlI~Dsa 181 (310)
T PRK08535 105 NAVEKIGEIGAKRIRDGDVIMTHCNSSAALSVIKTAHEQ---GKDIEVIATETRPRNQGHITAKELAEYGIPVTLIVDSA 181 (310)
T ss_pred HHHHHHHHHHHHHcCCCCEEEEeCCcHHHHHHHHHHHHC---CCeEEEEEecCCchhhHHHHHHHHHHCCCCEEEEehhH
Confidence 346678999999999999665 55577888888766542 211123332222 24778888999998776431
Q ss_pred -----CcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEEEec
Q 024004 118 -----PSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVEVVQ 183 (274)
Q Consensus 118 -----~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvEV~p 183 (274)
.++|++|.|||.|-.+++++.--|...+- -+..+...-+|++++..||....- ....+|+|--+
T Consensus 182 v~~~m~~vd~VivGAd~v~~nG~v~nkiGT~~~A-~~Ak~~~vPv~V~a~~~K~~~~~~-~~~~~~ie~~~ 250 (310)
T PRK08535 182 VRYFMKDVDKVVVGADAITANGAVINKIGTSQIA-LAAHEARVPFMVAAETYKFSPKTL-LGELVEIEERD 250 (310)
T ss_pred HHHHHHhCCEEEECccEEecCCCEEeHHhHHHHH-HHHHHhCCCEEEecccceecCCCC-CCCcceecccC
Confidence 47999999999999998886443444433 234556789999999999997631 12346666543
No 21
>TIGR00512 salvage_mtnA S-methyl-5-thioribose-1-phosphate isomerase. The delineation of this family was based in part on a discussion and neighbor-joining phylogenetic study, by Kyrpides and Woese, of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. This clade is now recognized to include the methionine salvage pathway enzyme MtnA.
Probab=98.03 E-value=8.1e-05 Score=70.99 Aligned_cols=132 Identities=20% Similarity=0.197 Sum_probs=89.7
Q ss_pred HHHHHHHHHHHhcCCCCC----EEEEC--cC-------hHHHHHHHHHhchhhcCCCCCeEE-ECCcH-------HHHHH
Q 024004 45 DLKKLAADKAVDYVKSGM----ALGLG--TG-------STAAFVVDRIGQLLKTGELRDIVG-IPTSK-------RTEEQ 103 (274)
Q Consensus 45 ~~K~~iA~~A~~~I~dg~----vIgLG--sG-------STv~~l~~~L~~~~~~~~l~~itv-VT~S~-------~ta~~ 103 (274)
+..+.|++.++++|+||+ +|--= +| +|+..+++...++ | ++++| |+-|- .++.+
T Consensus 127 ~~~~~I~~~g~~~I~dg~~~~~~ILThcnsg~lat~~~gtal~~l~~A~~~---g--~~~~V~v~EsrP~~qG~rlta~~ 201 (331)
T TIGR00512 127 EDNRAIGENGAALIKKGVAAPLRVLTHCNTGSLATAGYGTALGVIRSAHEK---G--RLEHVYADETRPRLQGARLTAWE 201 (331)
T ss_pred HHHHHHHHHHHHHhcCCCCCCceEEeecCCccccccccchHHHHHHHHHHc---C--CceEEEECCCCchhhHHHHHHHH
Confidence 345679999999999999 77662 22 3787777766543 2 22333 33232 34677
Q ss_pred HHhCCCcEEEcCC-----C---CcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcc
Q 024004 104 AKSLNIPLTTLDD-----H---PSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKL 175 (274)
Q Consensus 104 l~~~gi~vi~l~~-----~---~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~ 175 (274)
|.+.||++..+.+ . .++|+++.|||.|-.+++++.--|...+- -...+....||+++..+||....- +..
T Consensus 202 L~~~GI~vtlI~Dsav~~~m~~~~vd~VivGAd~v~~nG~v~nkiGT~~lA-~~Ak~~~vPfyV~a~~~kfd~~~~-~~~ 279 (331)
T TIGR00512 202 LVQEGIPATLITDSMAAHLMKHGEVDAVIVGADRIAANGDTANKIGTYQLA-VLAKHHGVPFYVAAPTSTIDLETK-DGA 279 (331)
T ss_pred HHHCCCCEEEEcccHHHHHhcccCCCEEEEcccEEecCCCEeehhhHHHHH-HHHHHhCCCEEEeccccccccCCC-Ccc
Confidence 8889999877643 1 26999999999999998875443443333 234456788999999999987642 134
Q ss_pred cccEEEec
Q 024004 176 AMPVEVVQ 183 (274)
Q Consensus 176 plPvEV~p 183 (274)
.+|+|-.+
T Consensus 280 ~i~iE~r~ 287 (331)
T TIGR00512 280 EIPIEERP 287 (331)
T ss_pred ccccccCC
Confidence 57787765
No 22
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=98.02 E-value=9.7e-05 Score=69.46 Aligned_cols=121 Identities=21% Similarity=0.222 Sum_probs=91.9
Q ss_pred hHHHHHHHHHHHHhcCCCCCEE-EECcChHHHHHHHHHhchhhcCCCCCeE-EECCcH------HHHHHHHhCCCcEEEc
Q 024004 43 QDDLKKLAADKAVDYVKSGMAL-GLGTGSTAAFVVDRIGQLLKTGELRDIV-GIPTSK------RTEEQAKSLNIPLTTL 114 (274)
Q Consensus 43 ~~~~K~~iA~~A~~~I~dg~vI-gLGsGSTv~~l~~~L~~~~~~~~l~~it-vVT~S~------~ta~~l~~~gi~vi~l 114 (274)
.+..++.||..++++|+||++| =.+.++|+..++..-.++.+ +++ +||-|. .++..|++.||+++.+
T Consensus 102 ~~~a~~~ia~~~a~~i~dg~~IlTh~~S~~v~~~l~~A~~~~k-----~~~V~VtESRP~~eG~~~ak~L~~~gI~~~~I 176 (301)
T COG1184 102 VEKAKERIAEIGAERIHDGDVILTHSFSKTVLEVLKTAADRGK-----RFKVIVTESRPRGEGRIMAKELRQSGIPVTVI 176 (301)
T ss_pred HHHHHHHHHHHHHhhccCCCEEEEecCcHHHHHHHHHhhhcCC-----ceEEEEEcCCCcchHHHHHHHHHHcCCceEEE
Confidence 4567889999999999999965 47888999999887776522 233 445443 6788899999998776
Q ss_pred CC------CCcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCccccc
Q 024004 115 DD------HPSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSG 169 (274)
Q Consensus 115 ~~------~~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~ 169 (274)
.+ ..++|++|.|+|+|..|++++.--|-..+- -...+..+-+++++.+-||+.+
T Consensus 177 ~Dsa~~~~~~~vd~VivGad~I~~nG~lvnkiGT~~lA-~~A~e~~~Pf~v~aesyKf~p~ 236 (301)
T COG1184 177 VDSAVGAFMSRVDKVLVGADAILANGALVNKIGTSPLA-LAARELRVPFYVVAESYKFVPK 236 (301)
T ss_pred echHHHHHHHhCCEEEECccceecCCcEEeccchHHHH-HHHHHhCCCEEEEeeeeccccc
Confidence 43 247999999999999998886555555544 2334556789999999999985
No 23
>PRK05720 mtnA methylthioribose-1-phosphate isomerase; Reviewed
Probab=97.71 E-value=0.00061 Score=65.36 Aligned_cols=131 Identities=19% Similarity=0.211 Sum_probs=87.3
Q ss_pred HHHHHHHHHHhcCCCCCEEEE-C-cCh-------HHHHHHHHHhchhhcCCCCCeEEE-CCcH-------HHHHHHHhCC
Q 024004 46 LKKLAADKAVDYVKSGMALGL-G-TGS-------TAAFVVDRIGQLLKTGELRDIVGI-PTSK-------RTEEQAKSLN 108 (274)
Q Consensus 46 ~K~~iA~~A~~~I~dg~vIgL-G-sGS-------Tv~~l~~~L~~~~~~~~l~~itvV-T~S~-------~ta~~l~~~g 108 (274)
..+.|++.++++|++|++|-- + ||+ |+..+++...++ |. +++|+ +-|- .++.+|.+.|
T Consensus 132 ~~~~I~~~g~~~I~~g~~ILThc~sg~lat~~~gTal~~i~~A~~~---gk--~~~V~v~EsRP~~qG~~lta~eL~~~G 206 (344)
T PRK05720 132 INRAIGEHGLTLIRKGQGILTHCNAGWLATAGYGTALAPIYAAKEK---GI--DIHVYADETRPRLQGARLTAWELYQAG 206 (344)
T ss_pred HHHHHHHHHHHHccCCCEEEEecCCCcceecchhHHHHHHHHHHHc---CC--ceEEEEcCCCChhhhHHHHHHHHHHCC
Confidence 355789999999999997664 2 443 566676665432 22 23333 3322 3577888899
Q ss_pred CcEEEcCC-----C---CcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEE
Q 024004 109 IPLTTLDD-----H---PSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVE 180 (274)
Q Consensus 109 i~vi~l~~-----~---~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvE 180 (274)
|++..+.+ . ..+|++|.|||.|-.+++++.--|-..+- -...+...-+|+++..+||..+.. ...-+|+|
T Consensus 207 I~vtlI~Dsa~~~~M~~~~vd~VivGAd~I~~nG~v~NkiGT~~lA-l~Ak~~~vPfyV~a~~~kfd~~~~-~g~~i~iE 284 (344)
T PRK05720 207 IDVTVITDNMAAHLMQTGKIDAVIVGADRIAANGDVANKIGTYQLA-IAAKYHGVPFYVAAPSSTIDLTLA-DGKEIPIE 284 (344)
T ss_pred CCEEEEcccHHHHHhcccCCCEEEEcccEEecCCCEeehhhHHHHH-HHHHHhCCCEEEeccccccCcCCC-CCcccccc
Confidence 99877643 1 25999999999999998775443443332 234566789999999999987642 12357777
Q ss_pred Eec
Q 024004 181 VVQ 183 (274)
Q Consensus 181 V~p 183 (274)
--+
T Consensus 285 ~r~ 287 (344)
T PRK05720 285 ERD 287 (344)
T ss_pred cCC
Confidence 664
No 24
>PF01008 IF-2B: Initiation factor 2 subunit family; InterPro: IPR000649 Initiation factor 2 binds to Met-tRNA, GTP and the small ribosomal subunit. The eukaryotic translation initiation factor EIF-2B is a complex made up of five different subunits, alpha, beta, gamma, delta and epsilon, and catalyses the exchange of EIF-2-bound GDP for GTP. This family includes initiation factor 2B alpha, beta and delta subunits from eukaryotes; related proteins from archaebacteria and IF-2 from prokaryotes and also contains a subfamily of proteins in eukaryotes, archaeae (e.g. Pyrococcus furiosus), or eubacteria such as Bacillus subtilis and Thermotoga maritima. Many of these proteins were initially annotated as putative translation initiation factors despite the fact that there is no evidence for the requirement of an IF2 recycling factor in prokaryotic translation initiation. Recently, one of these proteins from B. subtilis has been functionally characterised as a 5-methylthioribose-1-phosphate isomerase (MTNA) []. This enzyme participates in the methionine salvage pathway catalysing the isomerisation of 5-methylthioribose-1-phosphate to 5-methylthioribulose-1-phosphate []. The methionine salvage pathway leads to the synthesis of methionine from methylthioadenosine, the end product of the spermidine and spermine anabolism in many species.; GO: 0044237 cellular metabolic process; PDB: 1VB5_A 1T5O_D 3A11_E 3VM6_C 1W2W_A 1T9K_A 3ECS_B 2YRF_A 2YVK_B 2A0U_A ....
Probab=97.54 E-value=0.0004 Score=63.87 Aligned_cols=123 Identities=20% Similarity=0.254 Sum_probs=76.7
Q ss_pred HHHHHHHHHHHHhcCCCCCEE-EECcChHHHHHHHHHhchhhcCCCCCeEEECCc-----HHHHHHHHhCCCcEEEcCCC
Q 024004 44 DDLKKLAADKAVDYVKSGMAL-GLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTS-----KRTEEQAKSLNIPLTTLDDH 117 (274)
Q Consensus 44 ~~~K~~iA~~A~~~I~dg~vI-gLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S-----~~ta~~l~~~gi~vi~l~~~ 117 (274)
....+.|+..|.++|++|++| =.|-++|+..++....+. |....+.|+-+. ..++..|.+.|+++..+..-
T Consensus 91 ~~~~~~I~~~~~~~I~~~~~ILT~~~S~~v~~~l~~a~~~---~~~~~V~v~es~P~~eG~~~a~~L~~~gi~v~~i~d~ 167 (282)
T PF01008_consen 91 EQAREKIADHASELINDGDTILTHGYSSTVERFLLSAKKK---GKKFRVIVLESRPYNEGRLMAKELAEAGIPVTLIPDS 167 (282)
T ss_dssp HHHHHHHHHHHHCCC-TTEEEEEES--SHHHHHHHHHHHT---TEEEEEEEE--TTTTHHHTHHHHHHHTT-EEEEE-GG
T ss_pred HHHHHHHHHHHHHhccCCeEEEEeCCchHHHHHHHHHHHc---CCeEEEEEccCCcchhhhhHHHHhhhcceeEEEEech
Confidence 345677999999999999955 578888988887775432 211234333322 25677888889988776432
Q ss_pred ------Cc-ccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccC
Q 024004 118 ------PS-LDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGL 170 (274)
Q Consensus 118 ------~~-iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~L 170 (274)
.+ +|+++.|||.|-.|++++.--|...+- -...+...-+|++++..||....
T Consensus 168 ~~~~~m~~~vd~VliGad~v~~nG~v~nk~Gt~~~a-~~Ak~~~vPv~v~~~~~K~~~~~ 226 (282)
T PF01008_consen 168 AVGYVMPRDVDKVLIGADAVLANGGVVNKVGTLQLA-LAAKEFNVPVYVLAESYKFSPRY 226 (282)
T ss_dssp GHHHHHHCTESEEEEE-SEEETTS-EEEETTHHHHH-HHHHHTT-EEEEE--GGGBETTC
T ss_pred HHHHHHHHhCCeeEEeeeEEecCCCEeehhhHHHHH-HHHHhhCCCEEEEcccccccccc
Confidence 47 999999999999998875433433332 13334567899999999998764
No 25
>COG2057 AtoA Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]
Probab=97.53 E-value=0.00029 Score=63.58 Aligned_cols=116 Identities=25% Similarity=0.384 Sum_probs=74.5
Q ss_pred HHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchh----hcCCCCCeEEECCcHHH---HHHHHhC-CCcEEEcC-
Q 024004 45 DLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLL----KTGELRDIVGIPTSKRT---EEQAKSL-NIPLTTLD- 115 (274)
Q Consensus 45 ~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~----~~~~l~~itvVT~S~~t---a~~l~~~-gi~vi~l~- 115 (274)
..|.++|++|++.++||++|.||.| --...+.++++.. ..+ ..+-.+..+..- -..+... +.++....
T Consensus 6 ~~~e~ia~r~A~el~dG~~VnlGIG-lPtlvan~~~~~~~~~~~se--ng~Lg~g~~p~~~~~d~~linaG~~~vt~~pg 82 (225)
T COG2057 6 TEREMIAKRAARELKDGDYVNLGIG-LPTLVANYAPEGMNVLLQSE--NGLLGVGPAPLPGEEDADLINAGKQPVTALPG 82 (225)
T ss_pred hhHHHHHHHHHHhccCCCEEEecCC-chHHhHhhcccccceEEecC--ceeEEecCCCCCCCCCcchhhCCCceeEecCC
Confidence 5689999999999999999999999 5566777776421 111 011122211110 0012222 23333321
Q ss_pred -------------CCCcccEEEEccCcccCCCCc---------ccCcchhHHHHHHHHHhcCcEEEEEcCCccc
Q 024004 116 -------------DHPSLDLAIDGADEVDPELNL---------VKGRGGALLREKMVEAASKSFVVVADESKLV 167 (274)
Q Consensus 116 -------------~~~~iD~afdGaD~Vd~~~~~---------ikg~gga~l~EKila~~S~~~IvLaD~sK~~ 167 (274)
.-.++|++|.|+-+||...++ ++|.|||+- ++..|+++|++.+|+|-.
T Consensus 83 ~~~f~sa~sf~~irGGhidv~vLGa~QVd~~Gnlanw~Ipgk~vpGmGGAmd----l~~gakkvii~m~H~~k~ 152 (225)
T COG2057 83 ASVFDSADSFAMIRGGHIDVAVLGAAQVDEYGNLANWMIPGKMVPGMGGAMD----LVTGAKKVIVVMEHTKKS 152 (225)
T ss_pred ceEEchHHHHHHHhCCceEEEEecceeecccCceeeeeECCccccCCccchh----hhcCCcEEEEEeeeeccc
Confidence 124899999999999976533 467778773 456889999999999864
No 26
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=97.49 E-value=0.0017 Score=62.69 Aligned_cols=130 Identities=16% Similarity=0.101 Sum_probs=86.0
Q ss_pred HHHHHHHHHHHhcCCCCCEEEEC--cC--------hHHHHHHHHHhchhhcCCCCCeEEEC-CcH-------HHHHHHHh
Q 024004 45 DLKKLAADKAVDYVKSGMALGLG--TG--------STAAFVVDRIGQLLKTGELRDIVGIP-TSK-------RTEEQAKS 106 (274)
Q Consensus 45 ~~K~~iA~~A~~~I~dg~vIgLG--sG--------STv~~l~~~L~~~~~~~~l~~itvVT-~S~-------~ta~~l~~ 106 (274)
+..++|++.++++|+||++|--= || .|+..+++...++ | ++++|+. -|- .++.+|.+
T Consensus 151 ~~~~~I~~~g~~~I~dg~~ILThcnsg~Lat~~g~gtal~~i~~a~~~---g--k~f~V~v~EsRP~~qG~rlta~eL~~ 225 (363)
T PRK05772 151 DAEIQMGLYGLEKLNDGDTVLTQCNAGGLATGTGLGTALAPVKLAKAL---G--MSVSVIAPETRPWLQGSRLTVYELME 225 (363)
T ss_pred HHHHHHHHHHHhhcCCCCEEEEecCCcchhhccccccHHHHHHHHHHC---C--CeEEEEECCCCccchhHHHHHHHHHH
Confidence 34667999999999999966542 22 2556666655432 2 2344443 222 34668888
Q ss_pred CCCcEEEcCC-----C---CcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCccccc
Q 024004 107 LNIPLTTLDD-----H---PSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMP 178 (274)
Q Consensus 107 ~gi~vi~l~~-----~---~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plP 178 (274)
.||++..+.+ . ..+|++|.|||.|-.++++..--|...+- -+..++..-||+++..+||..+.. .-.+|
T Consensus 226 ~GIpvtlI~Dsa~~~~m~~~~Vd~VivGAD~I~~NG~v~NKiGTy~lA-~~Ak~~~vPfyV~ap~~k~d~~~~--~~~i~ 302 (363)
T PRK05772 226 EGIKVTLITDTAVGLVMYKDMVNNVMVGADRILRDGHVFNKIGTFKEA-VIAHELGIPFYALAPTSTFDLKSD--VNDVK 302 (363)
T ss_pred CCCCEEEEehhHHHHHHhhcCCCEEEECccEEecCCCEeehhhhHHHH-HHHHHhCCCEEEEccccccCcccc--ccccc
Confidence 9999876542 1 25999999999999888775433443333 233456778999999999987752 13567
Q ss_pred EEEe
Q 024004 179 VEVV 182 (274)
Q Consensus 179 vEV~ 182 (274)
+|-.
T Consensus 303 ieer 306 (363)
T PRK05772 303 IEER 306 (363)
T ss_pred cccC
Confidence 7655
No 27
>KOG1466 consensus Translation initiation factor 2B, alpha subunit (eIF-2Balpha/GCN3) [Translation, ribosomal structure and biogenesis]
Probab=97.46 E-value=0.0012 Score=60.98 Aligned_cols=135 Identities=21% Similarity=0.252 Sum_probs=89.4
Q ss_pred HHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECC-------cHHHHHHHHhCCCcEEEc-CC-
Q 024004 46 LKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPT-------SKRTEEQAKSLNIPLTTL-DD- 116 (274)
Q Consensus 46 ~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~-------S~~ta~~l~~~gi~vi~l-~~- 116 (274)
.++.||..|-.+|.||++|-.-+=|-+. .+.|....+.+ ....|.-+ ....+.+|++.|||+..+ +.
T Consensus 116 sR~~IA~l~~~Fi~dg~~ILtHg~SRvV--l~~L~~Aa~~~--~~F~V~vTEsrPd~sG~lm~~~L~~~~IPvtlvlDSa 191 (313)
T KOG1466|consen 116 SRQKIAMLAQDFITDGCTILTHGYSRVV--LEVLLTAAQNK--KRFRVYVTESRPDGSGKLMAKELKKLGIPVTLVLDSA 191 (313)
T ss_pred HHHHHHHHhhhHhhCCCEEEEcchhHHH--HHHHHHHHhcC--ceEEEEEecCCCCCchhHHHHHHHhcCCCeEEEehhh
Confidence 3567999999999999999877666542 23333222222 23444444 456778889999998664 32
Q ss_pred ----CCcccEEEEccCcccCCCCcccCcchhHHHHHHHH-HhcCcEEEEEcCCcccccCCCCcccccEEEecccH
Q 024004 117 ----HPSLDLAIDGADEVDPELNLVKGRGGALLREKMVE-AASKSFVVVADESKLVSGLGGSKLAMPVEVVQFCW 186 (274)
Q Consensus 117 ----~~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila-~~S~~~IvLaD~sK~~~~Lg~~~~plPvEV~p~a~ 186 (274)
..++|+.|-||++|=.++|+|.--|...+- ++| ++=+-+|++|.+-||+.-+.=+..-+|-+--|+-+
T Consensus 192 VgyvMe~vD~VlVGAEGVvEsGGIIN~iGTyq~~--v~Ak~~~kPfYV~AES~KFvRlfPLnQ~Dlp~~~~p~~f 264 (313)
T KOG1466|consen 192 VGYVMERVDLVLVGAEGVVESGGIINKIGTYQVA--VCAKSMNKPFYVVAESHKFVRLFPLNQKDLPPALPPFKF 264 (313)
T ss_pred HHHHHhhccEEEEccceeeecCceeeecccchhh--hhHHhcCCCeEEEeeccceeeeccCcccccccccCCccc
Confidence 258999999999999898887655543322 233 33467999999999986532124556666555444
No 28
>PRK06036 translation initiation factor IF-2B subunit alpha; Provisional
Probab=97.39 E-value=0.0031 Score=60.44 Aligned_cols=128 Identities=21% Similarity=0.220 Sum_probs=83.2
Q ss_pred HHHHHHHHHHhcCCCCCEEEEC--cCh-------HHHHHHHHHhchhhcCCCCCeEEECC-cH-------HHHHHHHhCC
Q 024004 46 LKKLAADKAVDYVKSGMALGLG--TGS-------TAAFVVDRIGQLLKTGELRDIVGIPT-SK-------RTEEQAKSLN 108 (274)
Q Consensus 46 ~K~~iA~~A~~~I~dg~vIgLG--sGS-------Tv~~l~~~L~~~~~~~~l~~itvVT~-S~-------~ta~~l~~~g 108 (274)
..++|++.++++|++|++|--= ||+ |+..+++...+. | +++.|+.+ |- .++.+|.+.|
T Consensus 133 ~~~~I~~~g~~~I~~g~~ILThc~sg~lat~~~gTal~~l~~A~~~---g--k~~~V~v~EtRP~~qG~rlta~eL~~~G 207 (339)
T PRK06036 133 RNKLIGKHGAKLLEDGDTVLTHCNAGRLACVDWGTALGVIRSAVEQ---G--KEIKVIACETRPLNQGSRLTTWELMQDN 207 (339)
T ss_pred HHHHHHHHHHHHccCCCEEEEecCCccccccccchHHHHHHHHHHc---C--CceEEEEcCCCchhhHHHHHHHHHHHcC
Confidence 3566888899999999977663 343 666777766532 2 23444433 22 2567888899
Q ss_pred CcEEEcCCC--------CcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEE
Q 024004 109 IPLTTLDDH--------PSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVE 180 (274)
Q Consensus 109 i~vi~l~~~--------~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvE 180 (274)
|++..+.+. ..+|++|.|||.|-.+ |++ +.-|...---+..+...-||++|..+||..... .. .+|+|
T Consensus 208 I~vtlI~Dsa~~~~M~~~~Vd~VivGAd~I~an-Gv~-NKiGT~~lA~~Ak~~~vPfyV~ap~s~~d~~~~-~g-~i~iE 283 (339)
T PRK06036 208 IPVTLITDSMAGIVMRQGMVDKVIVGADRITRD-AVF-NKIGTYTHSVLAKEHEIPFYVAAPLSTFDFEGW-EG-SVKIE 283 (339)
T ss_pred CCEEEEehhHHHHHhccCCCCEEEECccchhhc-Cee-hhhhHHHHHHHHHHhCCCEEEEeecCccCCCcC-CC-Ccccc
Confidence 998776431 2499999999999888 653 333322221334456778999999999876531 12 46776
Q ss_pred Ee
Q 024004 181 VV 182 (274)
Q Consensus 181 V~ 182 (274)
--
T Consensus 284 ~r 285 (339)
T PRK06036 284 ER 285 (339)
T ss_pred cC
Confidence 64
No 29
>PRK06372 translation initiation factor IF-2B subunit delta; Provisional
Probab=97.34 E-value=0.0023 Score=59.03 Aligned_cols=116 Identities=15% Similarity=0.138 Sum_probs=78.3
Q ss_pred HHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCc-----HHHHHHHHhCCCcEEEcCC-----
Q 024004 47 KKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTS-----KRTEEQAKSLNIPLTTLDD----- 116 (274)
Q Consensus 47 K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S-----~~ta~~l~~~gi~vi~l~~----- 116 (274)
-+.|++.|+++|.+.-++=+|+++|+..+...-. + ...+.++-+- ..++..|.+.|+++..+..
T Consensus 74 ~~~~~~~A~~~i~~dvILT~s~S~~v~~~l~~~~-~-----~~~V~v~ESrP~~eG~~~a~~L~~~GI~vtli~Dsa~~~ 147 (253)
T PRK06372 74 EKMAIEHAKPLFNDSVIGTISSSQVLKAFISSSE-K-----IKSVYILESRPMLEGIDMAKLLVKSGIDVVLLTDASMCE 147 (253)
T ss_pred HHHHHHHHHhhcCCCEEEEeCCcHHHHHHHHhcC-C-----CCEEEEecCCCchHHHHHHHHHHHCCCCEEEEehhHHHH
Confidence 3557888999995544666787888877764311 1 1134333322 3567788889999876543
Q ss_pred -CCcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCccccc
Q 024004 117 -HPSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSG 169 (274)
Q Consensus 117 -~~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~ 169 (274)
..++|++|.|||.|-.+++++.--|...+- -...+...-+|+++..-||...
T Consensus 148 ~m~~vd~VlvGAd~V~~nG~v~nkvGT~~~A-l~A~~~~vPv~V~~~s~Kf~~~ 200 (253)
T PRK06372 148 AVLNVDAVIVGSDSVLYDGGLIHKNGTFPLA-LCARYLKKPFYSLTISMKIERN 200 (253)
T ss_pred HHHhCCEEEECccEEecCCCEeehhhHHHHH-HHHHHcCCCEEEEeeccccCCC
Confidence 247999999999999998885444444433 2445667789999999999754
No 30
>PRK06371 translation initiation factor IF-2B subunit alpha; Provisional
Probab=97.32 E-value=0.0045 Score=59.11 Aligned_cols=129 Identities=19% Similarity=0.207 Sum_probs=83.4
Q ss_pred HHHHHHHHHhcCCCCCEEEEC--cCh-------HHHHHHHHHhchhhcCCCCCeEEECCc-H-------HHHHHHHhCCC
Q 024004 47 KKLAADKAVDYVKSGMALGLG--TGS-------TAAFVVDRIGQLLKTGELRDIVGIPTS-K-------RTEEQAKSLNI 109 (274)
Q Consensus 47 K~~iA~~A~~~I~dg~vIgLG--sGS-------Tv~~l~~~L~~~~~~~~l~~itvVT~S-~-------~ta~~l~~~gi 109 (274)
-++|++.|+++|++|++|--= +|+ |+..+++...+. | ++++|+... - -++.+|.+.||
T Consensus 123 ~~~I~~~g~~~I~~g~~ILThcnsg~la~~~~gTal~~l~~A~~~---g--k~f~V~v~EsRP~~qG~rlta~eL~~~GI 197 (329)
T PRK06371 123 SKKIGEYGNELIKNGARILTHCNAGALAVVDWGTALAPIRIAHRN---G--KNIFVFVDETRPRLQGARLTAWELAQEGI 197 (329)
T ss_pred HHHHHHHHHHHcCCCCEEEEeCCCCcceeccchhHHHHHHHHHHc---C--CeeEEEECCCCCcchHHHHHHHHHHHCCC
Confidence 356899999999999976652 343 556676666532 2 234444322 2 25778888999
Q ss_pred cEEEcCC-----C---CcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEEE
Q 024004 110 PLTTLDD-----H---PSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVEV 181 (274)
Q Consensus 110 ~vi~l~~-----~---~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvEV 181 (274)
++..+.. . ..+|++|.|||.|-.+++++.--|-..+- -+..+...-||+++..++|..... ..--+|+|-
T Consensus 198 ~vtlI~Dsa~~~~M~~~~Vd~VivGAd~I~aNG~v~NKiGT~~lA-l~Ak~~~VPfyV~a~~~t~d~~~~-~g~~i~iEe 275 (329)
T PRK06371 198 DHAIIADNAAGYFMRKKEIDLVIVGADRIASNGDFANKIGTYEKA-VLAKVNGIPFYVAAPGSTFDFSIK-SGDEIPIEE 275 (329)
T ss_pred CEEEEcccHHHHHhhhcCCCEEEECccEEecCCCEeehhhHHHHH-HHHHHcCCCEEEeccccccCCCCC-CcCcccccc
Confidence 9886543 1 25999999999999888775433443333 233455678999999888765432 122466665
Q ss_pred e
Q 024004 182 V 182 (274)
Q Consensus 182 ~ 182 (274)
-
T Consensus 276 r 276 (329)
T PRK06371 276 R 276 (329)
T ss_pred C
Confidence 4
No 31
>PRK08334 translation initiation factor IF-2B subunit beta; Validated
Probab=97.11 E-value=0.0088 Score=57.72 Aligned_cols=132 Identities=18% Similarity=0.166 Sum_probs=87.2
Q ss_pred HHHHHHHHHHHhcCCCCCEEEEC-c-------ChHHHHHHHHHhchhhcCCCCCeE-EECCcH-------HHHHHHHhCC
Q 024004 45 DLKKLAADKAVDYVKSGMALGLG-T-------GSTAAFVVDRIGQLLKTGELRDIV-GIPTSK-------RTEEQAKSLN 108 (274)
Q Consensus 45 ~~K~~iA~~A~~~I~dg~vIgLG-s-------GSTv~~l~~~L~~~~~~~~l~~it-vVT~S~-------~ta~~l~~~g 108 (274)
+..++|++.++++|+||+++=-+ + -.|+..+++...+. | +.+. +|+-|- -++.+|.+.|
T Consensus 145 ~~~~~Ig~~g~~li~dg~ILTHcnaG~LAt~~~gTal~vi~~A~~~---g--k~~~V~v~EtRP~~qG~rlta~eL~~~G 219 (356)
T PRK08334 145 EANLRMGHYGAEVLPEGNVLTHCNAGSLATVHLGTVGAVLRVMHKD---G--TLKLLWVDETRPVLQGARLSAWEYHYDG 219 (356)
T ss_pred HHHHHHHHHHHhhcCCCCEEEecCcchhhhcccchHHHHHHHHHHc---C--CeEEEEECCCCchhhHHHHHHHHHHHCC
Confidence 34677999999999999944444 1 24677777776543 3 2344 344232 2356778899
Q ss_pred CcEEEcCC-----C---CcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEE
Q 024004 109 IPLTTLDD-----H---PSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVE 180 (274)
Q Consensus 109 i~vi~l~~-----~---~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvE 180 (274)
|++..+.+ . ..+|++|.|||.|-.+++++.--|-..+- -...+...-||+++..+|+..... +...+|+|
T Consensus 220 I~vtlI~Dsav~~~M~~~~Vd~VivGAd~I~~nG~v~NKiGTy~lA-~~Ak~~~vPfyV~Ap~~t~d~~~~-~~~~i~iE 297 (356)
T PRK08334 220 IPLKLISDNMAGFVMQQGKVDAIIVGADRIVANGDFANKIGTYTLA-VLAKEHGIPFFTVAPLSTIDMSLK-SGKEIPIE 297 (356)
T ss_pred CCEEEEehhHHHHHhhhcCCCEEEECccEEecCCCEeehhhHHHHH-HHHHHhCCCEEEEcccCccCCCCC-CCcccccc
Confidence 99877542 1 26999999999999998775433433332 233456778999999999986652 23357777
Q ss_pred Eec
Q 024004 181 VVQ 183 (274)
Q Consensus 181 V~p 183 (274)
--+
T Consensus 298 ~r~ 300 (356)
T PRK08334 298 ERS 300 (356)
T ss_pred cCC
Confidence 643
No 32
>cd00458 SugarP_isomerase SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium, the last step of the metabolic pathway of N-acetyl-D-glucosamine-6-phosphate. 6PGL converts 6-phosphoglucono-1,5-lactone to 6-phosphogluconate, the second step of the oxidative phase of the pentose phosphate pathway.
Probab=96.17 E-value=0.013 Score=50.42 Aligned_cols=89 Identities=40% Similarity=0.624 Sum_probs=60.5
Q ss_pred CCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcH-------------HHHHHH-HhCCCc---EEEcC------
Q 024004 59 KSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSK-------------RTEEQA-KSLNIP---LTTLD------ 115 (274)
Q Consensus 59 ~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~-------------~ta~~l-~~~gi~---vi~l~------ 115 (274)
++..+|+|.+|||...+.+.|.+....+...++.++..+. .+...+ ...+++ +..++
T Consensus 19 ~~~~~i~lsgGsTp~~~y~~L~~~~~~~~w~~v~~f~~DEr~v~~~~~~Sn~~~~~~~ll~~~~i~~~~v~~~~~~~~~~ 98 (169)
T cd00458 19 KDDMVIGLGTGSTPAYFYKLLGEKLKRGEISDIVGFPTDERYVPLDSDQSNFRQAKLLAFEHDIIPASNVHYVDTSLPIE 98 (169)
T ss_pred CCCEEEEECCCccHHHHHHHHHhhhhhCCccceEEEECccccCCCCCchHHHHHHHHHhhccCCCCHHHeecCCCCCCcH
Confidence 3456999999999999999997653333345788888887 444434 333332 22211
Q ss_pred ------------CCCcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccC
Q 024004 116 ------------DHPSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGL 170 (274)
Q Consensus 116 ------------~~~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~L 170 (274)
....+|++++|.+ .+|++++++++.++-.+.|
T Consensus 99 ~~a~~y~~~~~~~~~~~Dl~lLG~G-----------------------~~a~~i~~~~~G~~Ka~~l 142 (169)
T cd00458 99 KACEKYEREILDQVDAIDLAVDGAG-----------------------YRAGTVIVLVDGRKKVDYL 142 (169)
T ss_pred HHHHHHHHHHHhhCCCCCEEEECcC-----------------------ccccEEEEEecChhHHHHH
Confidence 1235799999887 5789999999988766544
No 33
>PRK09920 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional
Probab=95.93 E-value=0.032 Score=50.40 Aligned_cols=47 Identities=23% Similarity=0.388 Sum_probs=35.6
Q ss_pred HHHHHHHHHhcCCCCCEEEECcCh---HHHHHHHHHhchhhcCCCCCeEEECCc
Q 024004 47 KKLAADKAVDYVKSGMALGLGTGS---TAAFVVDRIGQLLKTGELRDIVGIPTS 97 (274)
Q Consensus 47 K~~iA~~A~~~I~dg~vIgLGsGS---Tv~~l~~~L~~~~~~~~l~~itvVT~S 97 (274)
|..-+++|+++|+|||+|++|+-. +-..++++|.++ + -+++|++.++
T Consensus 4 K~~s~~eAv~~I~DG~ti~~gGf~~~~~P~ali~al~r~---~-~~dLtli~~~ 53 (219)
T PRK09920 4 KLMTLQDATGFFRDGMTIMVGGFMGIGTPSRLVEALLES---G-VRDLTLIAND 53 (219)
T ss_pred ccCcHHHHHhcCCCCCEEEECcccCcCCHHHHHHHHHhc---C-CCceEEEEeC
Confidence 455567888999999999998753 667788888654 2 2689999754
No 34
>TIGR02428 pcaJ_scoB_fam 3-oxoacid CoA-transferase, B subunit. Various members of this family are characterized as the B subunits of succinyl-CoA:3-ketoacid-CoA transferase (EC 2.8.3.5), beta-ketoadipate:succinyl-CoA transferase (EC 2.8.3.6), acetyl-CoA:acetoacetate CoA transferase (EC 2.8.3.8), and butyrate-acetoacetate CoA-transferase (EC 2.8.3.9). This represents a very distinct clade with strong sequence conservation within the larger family defined by Pfam model pfam01144. The A subunit represents a different clade in pfam01144.
Probab=95.92 E-value=0.02 Score=51.20 Aligned_cols=108 Identities=20% Similarity=0.254 Sum_probs=68.4
Q ss_pred HHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHH-----------HHHHhCC-------
Q 024004 47 KKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTE-----------EQAKSLN------- 108 (274)
Q Consensus 47 K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta-----------~~l~~~g------- 108 (274)
++.||+.|+++|+||++|.+|.| .-..++.+|.+. +++++.+-+=..- ..+.+.|
T Consensus 3 ~~~Ia~~aA~~i~dg~~v~lGiG-iP~~va~~l~~~------~~l~l~~E~G~~g~~p~p~~~~~~~~l~~~g~~~~~~~ 75 (207)
T TIGR02428 3 RDQIAARAAQELKDGDYVNLGIG-IPTLVANYLPEG------IEVFLQSENGILGMGPAPEPGEEDPDLINAGKQPVTLL 75 (207)
T ss_pred HHHHHHHHHHhcCCCCEEEEeec-HHHHHHHHHhcC------CeEEEEEeCceecCccCCCCCCcCHHHHhCCCCceeec
Confidence 67899999999999999999999 666777777653 3666655432110 0222221
Q ss_pred --CcEEE------cCCCCcccEEEEccCcccCCCCc---------ccCcchhHHHHHHHHHhcCcEEEEEcCCc
Q 024004 109 --IPLTT------LDDHPSLDLAIDGADEVDPELNL---------VKGRGGALLREKMVEAASKSFVVVADESK 165 (274)
Q Consensus 109 --i~vi~------l~~~~~iD~afdGaD~Vd~~~~~---------ikg~gga~l~EKila~~S~~~IvLaD~sK 165 (274)
-.++. +-....+|++|.|+-+||...++ +.|.||+.- ++..|++.|+...|++
T Consensus 76 ~g~~~~~~~~~f~~~~~G~~dv~~lga~qvD~~GnvN~~~~~~~~~~G~GG~~d----~~~~a~~~i~~~~~t~ 145 (207)
T TIGR02428 76 PGASYFDSADSFAMIRGGHVDVAVLGALQVSENGDLANWMIPGKLVPGMGGAMD----LVAGAKRVIVAMEHTT 145 (207)
T ss_pred cCcEEecChhheeeEcCCceeEEEechHHhCCCCcccccccCCccccccCchhh----hhcCCCEEEEEEeeEC
Confidence 11221 11225789999999999975432 233345442 3456788888876644
No 35
>TIGR02429 pcaI_scoA_fam 3-oxoacid CoA-transferase, A subunit. Various members of this family are characterized as the A subunits of succinyl-CoA:3-ketoacid-CoA transferase (EC 2.8.3.5), beta-ketoadipate:succinyl-CoA transferase (EC 2.8.3.6), acetyl-CoA:acetoacetate CoA transferase (EC 2.8.3.8), and butyrate-acetoacetate CoA-transferase (EC 2.8.3.9). This represents a very distinct clade with strong sequence conservation within the larger family defined by Pfam model pfam01144. The B subunit represents a different clade in pfam01144, described by TIGR02428. The two are found in general as tandem genes and occasionally as a fusion.
Probab=95.75 E-value=0.04 Score=49.90 Aligned_cols=49 Identities=18% Similarity=0.158 Sum_probs=34.1
Q ss_pred CcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCccccc
Q 024004 118 PSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSG 169 (274)
Q Consensus 118 ~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~ 169 (274)
.++|++|.=+..-|.++|+.-.++...+ +..++.+|+++|+-+++ +++.
T Consensus 150 ~~~DvAlIha~~AD~~GN~~~~~~~~~~-~~~~A~AAk~vIv~vE~--IV~~ 198 (222)
T TIGR02429 150 LPADFALIKAHKADRWGNLTYRKAARNF-GPIMAMAAKTTIAQVSQ--VVEL 198 (222)
T ss_pred CCCcEEEEEecccCCCCcEEEECccccC-CHHHHhhcCcEEEEEEE--EecC
Confidence 4789999999999999999544332222 23578889987666644 6544
No 36
>PF04198 Sugar-bind: Putative sugar-binding domain; InterPro: IPR007324 This probable domain is found in bacterial transcriptional regulators such as DeoR and SorC. One of these proteins, Q8U7I7 from SWISSPROT, has an N-terminal helix-turn-helix IPR000792 from INTERPRO that binds to DNA. This domain is probably the ligand regulator binding region. SorC is regulated by sorbose and other members of this family are likely to be regulated by other sugar substrates.; GO: 0030246 carbohydrate binding; PDB: 3KV1_A 3EFB_C 2W48_A 3BXH_A 3BXE_A 2OKG_A 3BXF_A 3BXG_A 2R5F_A 2O0M_A ....
Probab=95.73 E-value=0.013 Score=53.76 Aligned_cols=48 Identities=25% Similarity=0.485 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHhc----CCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEEC
Q 024004 44 DDLKKLAADKAVDY----VKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIP 95 (274)
Q Consensus 44 ~~~K~~iA~~A~~~----I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT 95 (274)
++.++.+++.|++| +++|++||++.|+|+..++++|... ..+++++|+
T Consensus 32 ~~~~~~l~~~aA~~L~~~l~~~~~iGv~wG~Tl~~~~~~l~~~----~~~~~~vV~ 83 (255)
T PF04198_consen 32 EDILESLGEAAAEYLSELLKDGDVIGVGWGRTLYAVANHLPPK----SLPNVTVVP 83 (255)
T ss_dssp HHHHHHHHHHHHHHHHHH--TTEEEEE-TSHHHHHHHHTS--S----SSSCEEEEE
T ss_pred HHHHHHHHHHHHHHHHHhCCCCCEEEEcchHHHHHHHHhcCcc----CCCCcEEEE
Confidence 56778888888755 5899999999999999999999763 235788886
No 37
>KOG1465 consensus Translation initiation factor 2B, beta subunit (eIF-2Bbeta/GCD7) [Translation, ribosomal structure and biogenesis]
Probab=95.36 E-value=0.097 Score=49.59 Aligned_cols=134 Identities=19% Similarity=0.234 Sum_probs=91.6
Q ss_pred HHHHHHHHHhcCCCCCEE-EECcChHHHHHHHHHhchhhcCCCCCeE-----EECCcH--HHHHHHHhCCCcEEEcCC--
Q 024004 47 KKLAADKAVDYVKSGMAL-GLGTGSTAAFVVDRIGQLLKTGELRDIV-----GIPTSK--RTEEQAKSLNIPLTTLDD-- 116 (274)
Q Consensus 47 K~~iA~~A~~~I~dg~vI-gLGsGSTv~~l~~~L~~~~~~~~l~~it-----vVT~S~--~ta~~l~~~gi~vi~l~~-- 116 (274)
.+.||..|.++|.++++| -+|++.|+..|.++-.++ | +..+ +.|+.. ..|..+.+.|++.+.+..
T Consensus 149 ~E~Ia~Qa~ehihsnEviLT~g~SrTV~~FL~~A~kk---~--Rkf~viVaE~~p~~qgH~~Ak~la~~giettVI~daa 223 (353)
T KOG1465|consen 149 RENIAVQAIEHIHSNEVILTLGSSRTVENFLKHAAKK---G--RKFRVIVAEGAPNNQGHELAKPLAQAGIETTVIPDAA 223 (353)
T ss_pred hHhHHHHHHHHhccCceEEecCccHHHHHHHHHHHhc---c--CceEEEEeecCCcccchHhhHHHHHcCCeeEEeccHH
Confidence 456999999999999955 578889999988876543 2 1233 234433 445566788998665543
Q ss_pred ----CCcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCC-----CcccccEEEecccH
Q 024004 117 ----HPSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGG-----SKLAMPVEVVQFCW 186 (274)
Q Consensus 117 ----~~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~-----~~~plPvEV~p~a~ 186 (274)
..+++++|+|+-.+=.++|+....|+-.+- -...+.|--+|++|.--|+..-... -.|.-|=|++||.-
T Consensus 224 VfA~MsrVnKVIigt~avl~NGgl~~~~G~~~vA-laAk~h~vPv~VlAp~yKLsPlyp~~~ds~~~f~s~~~il~~~e 301 (353)
T KOG1465|consen 224 VFAMMSRVNKVIIGTHAVLANGGLRAPSGVHTVA-LAAKHHSVPVIVLAPMYKLSPLYPTNPDSFHEFRSPSEILPFSE 301 (353)
T ss_pred HHHHhhhcceEEEEeeeEecCCCeeccchHHHHH-HHHHhcCCcEEEecchhhcCCCCCCCHHHHHhcCCcccccCccc
Confidence 258999999999999999976655554443 2445677789999999998754311 03344556666544
No 38
>COG2390 DeoR Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]
Probab=95.32 E-value=0.034 Score=53.01 Aligned_cols=51 Identities=27% Similarity=0.388 Sum_probs=38.4
Q ss_pred CChHHHHHHHHHHHH----hcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEEC
Q 024004 41 LTQDDLKKLAADKAV----DYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIP 95 (274)
Q Consensus 41 ~~~~~~K~~iA~~A~----~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT 95 (274)
.+.+..++.+++.|+ +.|++||+||+|.|+|+..+++++...- .+++++|+
T Consensus 91 ~~~~~~~~~lg~aaA~~l~~~l~~gdvigV~wGrTv~a~~~~l~~~~----~~~~~vV~ 145 (321)
T COG2390 91 DADDSILRRLGRAAAQYLESLLKPGDVIGVGWGRTLSAVVDNLPPAP----LRDVKVVQ 145 (321)
T ss_pred CCchHHHHHHHHHHHHHHHHhCCCCCEEEEeccHHHHHHHHhcCcCc----cCCeEEEE
Confidence 344455666777776 5578999999999999999999997541 24677764
No 39
>COG1788 AtoD Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]
Probab=95.20 E-value=0.096 Score=47.40 Aligned_cols=117 Identities=18% Similarity=0.186 Sum_probs=76.5
Q ss_pred HHHHHHHHHHhcCCCCCEEEECcC---hHHHHHHHHHhchhhcCCCCCeEEECCcH---H--HHHHHHhCCCc-EEE---
Q 024004 46 LKKLAADKAVDYVKSGMALGLGTG---STAAFVVDRIGQLLKTGELRDIVGIPTSK---R--TEEQAKSLNIP-LTT--- 113 (274)
Q Consensus 46 ~K~~iA~~A~~~I~dg~vIgLGsG---STv~~l~~~L~~~~~~~~l~~itvVT~S~---~--ta~~l~~~gi~-vi~--- 113 (274)
.|...+.+|++.++|||+|.+|+= -+-..++.+|.+. +.+++|+|+|+- . .-.++....++ ++.
T Consensus 3 ~k~~s~~ea~~~~~dG~ti~~gGFg~~g~P~alI~ali~~----GvkdLt~I~n~~g~~d~glg~li~~~~vkk~i~S~i 78 (220)
T COG1788 3 KKLSSAEEAVANVKDGDTIMIGGFGTCGIPEALIHALIRQ----GVKDLTVISNNAGFPDLGLGKLIGNGQVKKMIASYI 78 (220)
T ss_pred chhhhHHHHHhhCCCCCEEEEccccccCChHHHHHHHHHc----CCcceEEEecCCCCCcccHHHHhhcCcEEEEEEecc
Confidence 467778889999999999998764 3456777777643 336999999993 2 22222221121 110
Q ss_pred -------------------c-------------------------C--------------------CCCcccEEEEccCc
Q 024004 114 -------------------L-------------------------D--------------------DHPSLDLAIDGADE 129 (274)
Q Consensus 114 -------------------l-------------------------~--------------------~~~~iD~afdGaD~ 129 (274)
. + .-.+.|+||.-+.-
T Consensus 79 g~n~~~~r~~~~geleve~~pqgtLaerirAgg~Glp~~~t~tg~Gt~v~~gk~~~~~~G~~yvle~~lraDvAiI~a~k 158 (220)
T COG1788 79 GSNPEFGRQMLAGELEVELVPQGTLAERIRAGGAGLPGFPTRTGVGTLVAEGKVTRPFDGEPYVLEPALRADVALIHAHK 158 (220)
T ss_pred CCCHHHHHHhhcceEEEEECCchHHHHHHHhhhcCCCcceeccccCceeecCcEEEeeCCeEEEEecccCcceEEEEeee
Confidence 0 0 01378999999999
Q ss_pred ccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCccccc
Q 024004 130 VDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSG 169 (274)
Q Consensus 130 Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~ 169 (274)
-|...|+.--+-.-.+. ..++-+|+++|+-+++ +++.
T Consensus 159 aD~~GNl~y~~t~~nfn-~~~A~AAk~~IvevEe--IV~~ 195 (220)
T COG1788 159 ADSHGNLTYRGTARNFN-PLMAMAAKRTIVEVEE--IVPL 195 (220)
T ss_pred cCCcCCEEEEcccccCC-HHHHhhcCeEEEEEEe--eecc
Confidence 99999984433332233 5677789999988765 5543
No 40
>TIGR01584 citF citrate lyase, alpha subunit. This is a model of the alpha subunit of the holoenzyme citrate lyase (EC 4.1.3.6) composed of alpha (EC 2.8.3.10), beta (EC 4.1.3.34), and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The alpha subunit catalyzes the reaction Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The seed contains an experimentally characterized member from Lactococcus lactis subsp. lactis. The model covers both Gram positive and Gram negative bacteria. It is quite robust with queries scoring either quite well or quite poorly against the model. There are currently no hits in between the noise cutoff and trusted cutoff.
Probab=94.72 E-value=0.52 Score=47.36 Aligned_cols=102 Identities=19% Similarity=0.216 Sum_probs=69.0
Q ss_pred CCCCCEEEE----CcC-hHHHHHHHHHhchhhcCCCCCeEEECCcHHHHH-HH---HhCCC-cEEEc-------------
Q 024004 58 VKSGMALGL----GTG-STAAFVVDRIGQLLKTGELRDIVGIPTSKRTEE-QA---KSLNI-PLTTL------------- 114 (274)
Q Consensus 58 I~dg~vIgL----GsG-STv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~-~l---~~~gi-~vi~l------------- 114 (274)
++|||+|.. =.| -.+..+.+++.+. +++|+|+-++|+.-++ .+ .+.|. .=+..
T Consensus 40 l~dgmtisfhhh~r~gd~v~n~v~~~~~~~----g~k~l~~~~ssl~~~h~~lv~~i~~g~vt~i~~sg~~g~~~~~is~ 115 (492)
T TIGR01584 40 LKDGMTISFHHHFREGDYVVNMVMRIIADM----GFKDLTLAPSSLTSVHDPLVEHIKKGVVTGITSSGLRGTLGDEISK 115 (492)
T ss_pred CcCCcEEEeeccccCccHHHHHHHHHHHHc----CcCCcEEecccCcchhHHHHHHHhcCeEEEEEeCCcCchHHHHHhc
Confidence 799999976 234 5556666666654 5689999999975433 22 23342 11110
Q ss_pred --------------------CCCCcccEEEEccCcccCCCCcc--c--CcchhHHHHHHHHHhcCcEEEEEcC
Q 024004 115 --------------------DDHPSLDLAIDGADEVDPELNLV--K--GRGGALLREKMVEAASKSFVVVADE 163 (274)
Q Consensus 115 --------------------~~~~~iD~afdGaD~Vd~~~~~i--k--g~gga~l~EKila~~S~~~IvLaD~ 163 (274)
.+..++|+||.++.--|..+++- . +-++.+-..+..+++|+++|+.+|.
T Consensus 116 g~l~~p~~~~shggr~r~i~~g~l~iDVAfI~Vsp~D~~Gn~sg~~G~s~~gslgya~~dA~~A~kVIaevn~ 188 (492)
T TIGR01584 116 GILKKPVIIRSHGGRARAIETGELHIDVAFLGVPCCDEMGNANGMTGKSPCGSLGYAIVDAQYADKVVAITDS 188 (492)
T ss_pred CCCCCCeEEecCCcHHHHHhcCCCCCCEEEEeCCCcccCCCCcccCCCcccCccchhHHHHHhCCEEEEEECC
Confidence 01247999999999999887764 2 2445666667888899999999986
No 41
>TIGR03458 YgfH_subfam succinate CoA transferases. A closely related clade not included in this family are the Ach1p proteins of fungi which are acetyl-CoA hydrolases. This name has been applied to many of the proteins detected by this model, possibly erroneously.
Probab=94.60 E-value=0.27 Score=49.45 Aligned_cols=112 Identities=15% Similarity=0.171 Sum_probs=70.6
Q ss_pred HHHHHhcCCCCCEEEECcC---hHHHHHHHHHhchhhc----CCCCCeEEECCcHH---HHHHHHhCC-Cc---------
Q 024004 51 ADKAVDYVKSGMALGLGTG---STAAFVVDRIGQLLKT----GELRDIVGIPTSKR---TEEQAKSLN-IP--------- 110 (274)
Q Consensus 51 A~~A~~~I~dg~vIgLGsG---STv~~l~~~L~~~~~~----~~l~~itvVT~S~~---ta~~l~~~g-i~--------- 110 (274)
+++|+++|+|||+|++|.. .+-..+.++|.++.++ |.-+++++++.... ....+...| ++
T Consensus 5 aeEAv~lIkDGdtI~iGgftg~~~P~aLl~ALa~r~~~~~~~g~p~~vtll~~~~~g~~~~~~l~~~g~v~~~is~~~sp 84 (485)
T TIGR03458 5 ADEAAALIKDGMTVGMSGFTPAGYPKAVPAALAKRAKAAHAAGEPFKITLLTGASTGPELDGVLAEADAIARRLPYQSDP 84 (485)
T ss_pred HHHHHHhCCCCCEEEECCCCCCCCHHHHHHHHHHHHHhhhccCCCccEEEEEecccCCcccccccccCCEEEEecccCCH
Confidence 6788999999999999974 5778888988876432 11125565552211 111111111 22
Q ss_pred ------------EEEcC----------CC-CcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCC
Q 024004 111 ------------LTTLD----------DH-PSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADES 164 (274)
Q Consensus 111 ------------vi~l~----------~~-~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~s 164 (274)
.+... .. .++|+++..+.-.|.++++.-|...... +.++++|+++|+-++..
T Consensus 85 ~~Rkai~~G~i~y~P~~ls~ip~~lrag~~g~~DValI~VSp~D~~Gn~slg~s~~~~--~~aa~aAk~VIvEVN~~ 159 (485)
T TIGR03458 85 TLRKKINAGEVMYVDMHLSHVAQQLRYGFLGKVDVAVIEAAAITEDGRIIPTSSVGNN--PTFLELADKVIVEVNTW 159 (485)
T ss_pred HHHHHHHcCCCEEEeccHHHHHHHHHhcCCCCCCEEEEEEEeCCCCceEEEecccchH--HHHHHhCCEEEEEECCC
Confidence 22110 11 2689999999999998888666543333 46778899998888764
No 42
>PF04223 CitF: Citrate lyase, alpha subunit (CitF); InterPro: IPR006472 These sequences, from both Gram-positive and Gram-negative bacteria, represent the alpha subunit of the holoenzyme citrate lyase composed of alpha (2.8.3.10 from EC), beta, and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The alpha subunit catalyzes the reaction Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The protein from Lactococcus lactis subsp. lactis (Streptococcus lactis) has been experimentally characterised [].; GO: 0008814 citrate CoA-transferase activity, 0006084 acetyl-CoA metabolic process, 0005737 cytoplasm, 0009346 citrate lyase complex; PDB: 2HJ0_B 1XR4_B.
Probab=92.93 E-value=0.59 Score=46.22 Aligned_cols=106 Identities=20% Similarity=0.247 Sum_probs=54.8
Q ss_pred cCCCCCEEEEC----cC-hHHHHHHHHHhchhhcCCCCCeEEECCcHHHHH----HHHhCCC-cEEEc------------
Q 024004 57 YVKSGMALGLG----TG-STAAFVVDRIGQLLKTGELRDIVGIPTSKRTEE----QAKSLNI-PLTTL------------ 114 (274)
Q Consensus 57 ~I~dg~vIgLG----sG-STv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~----~l~~~gi-~vi~l------------ 114 (274)
=++|||+|..= -| -.+..+.+.|.++ +++++|+-++|+--.+ ...+.|. .=+..
T Consensus 16 glkDGMTISFHHH~RnGD~V~nmVm~~i~~m----GiKdLtiaaSSl~~~h~~lv~~I~~GvVt~I~tsg~rG~lg~aiS 91 (466)
T PF04223_consen 16 GLKDGMTISFHHHLRNGDYVLNMVMDEIAEM----GIKDLTIAASSLFPVHDPLVEHIKSGVVTRIETSGMRGPLGEAIS 91 (466)
T ss_dssp T--TT-EEEE--TTGGGB-HHHHHHHHHHHT----T--SEEEEES---GGGGGHHHHHHTTSEEEEEESEEHHHHHHHHH
T ss_pred CCcCCcEEEeehhccCccHHHHHHHHHHHHc----CCCCcEEecccchhhHHHHHHHHhcCeeeEEEeCCcCchHHHHHh
Confidence 37999999873 23 4455566666654 5679999999985433 1123342 21110
Q ss_pred ---------------------CCCCcccEEEEccCcccCCCCcc--cCc--chhHHHHHHHHHhcCcEEEEEcCCcccc
Q 024004 115 ---------------------DDHPSLDLAIDGADEVDPELNLV--KGR--GGALLREKMVEAASKSFVVVADESKLVS 168 (274)
Q Consensus 115 ---------------------~~~~~iD~afdGaD~Vd~~~~~i--kg~--gga~l~EKila~~S~~~IvLaD~sK~~~ 168 (274)
.+..+||+||.||..-|.-.|+- .|. -|.+-.-+.=++.|+++|+|.|. +++
T Consensus 92 ~G~l~~Pvi~rSHGGR~raIe~Ge~~IDVAFi~AP~~D~~GN~nG~~G~saCGsLGYa~~DA~yA~~VV~iTD~--Lv~ 168 (466)
T PF04223_consen 92 EGKLKKPVIIRSHGGRARAIESGELHIDVAFIAAPSCDEYGNANGVGGKSACGSLGYAMVDAQYADKVVAITDN--LVP 168 (466)
T ss_dssp CT--SS-EEE-BHHHHHHHHHCTSS--SEEEEEESEEETTS-EESSSSSS--S--CCHHHHHHH-SEEEEEESS--EE-
T ss_pred CCCCCCCEEEeCCCCchhheecCCcceEEEEEcCCccccccCcCCCcCCccccccccchhhHHhcCcEEEEecC--CCC
Confidence 12248999999999999876662 111 13333334447889999999987 553
No 43
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=92.51 E-value=0.18 Score=47.79 Aligned_cols=49 Identities=12% Similarity=0.180 Sum_probs=36.4
Q ss_pred HHHHHHHHHHH----hcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECC
Q 024004 45 DLKKLAADKAV----DYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPT 96 (274)
Q Consensus 45 ~~K~~iA~~A~----~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~ 96 (274)
+..+.+|+.|+ +++++|++||++.|+|+..+++++.... ..+++++|+-
T Consensus 96 ~~~~~vg~~aA~~L~~~l~~~~~IGvswG~Tl~~~~~~l~~~~---~~~~~~vV~l 148 (318)
T PRK15418 96 DIGGRLGIGAAHMLMSLLQPQQLLAVGFGEATMNTLQHLSGFI---SSQQIRLVTL 148 (318)
T ss_pred cHHHHHHHHHHHHHHHhcCCCCEEEEcchHHHHHHHHhccccC---CCCCCEEEEc
Confidence 34566777776 4568999999999999999999986311 1257888875
No 44
>PF02550 AcetylCoA_hydro: Acetyl-CoA hydrolase/transferase N-terminal domain; InterPro: IPR003702 This family contains several enzymes which take part in pathways involving acetyl-CoA. Acetyl-CoA hydrolase 3.1.2.1 from EC from yeast catalyses the formation of acetate from acetyl-CoA, CoA transferase (CAT1) 2.8.3 from EC produces succinyl-CoA, and acetate-CoA transferase 2.8.3.8 from EC utilises acyl-CoA and acetate to form acetyl-CoA.; GO: 0003824 catalytic activity, 0006084 acetyl-CoA metabolic process; PDB: 2NVV_C 2G39_A 3D3U_A 3S8D_B 3QLI_B 3QLK_B 3GK7_B 3QDQ_A 3EH7_A 2OAS_A ....
Probab=92.29 E-value=1.1 Score=39.32 Aligned_cols=122 Identities=15% Similarity=0.156 Sum_probs=64.5
Q ss_pred HHHHHHHHHhcCCCCCEEEECc--C-hHHHHHHHHHhchhhc-C---CCCCeEEECCc----HHHHHHHH----------
Q 024004 47 KKLAADKAVDYVKSGMALGLGT--G-STAAFVVDRIGQLLKT-G---ELRDIVGIPTS----KRTEEQAK---------- 105 (274)
Q Consensus 47 K~~iA~~A~~~I~dg~vIgLGs--G-STv~~l~~~L~~~~~~-~---~l~~itvVT~S----~~ta~~l~---------- 105 (274)
|..=|++|+++|++||.|+.|. + ++...+.+.|.+|..+ + ....+++.+.. -+....+.
T Consensus 8 Kl~sa~eA~~~Ik~g~~I~~~~~~~~~~p~~l~~aL~~r~~e~~~~~~~~~~~l~~~~~l~~~P~~~~~~~~~~~~~~~~ 87 (198)
T PF02550_consen 8 KLVSAEEAASLIKSGDWIAFGGFTFAGEPKALPEALAQRAEELENVKVYSFISLFHGASLSADPEDPYLAPESAFHFRHN 87 (198)
T ss_dssp HBE-HHHHHTTS-TT-EEEE-SCTGGGS-HHHHHHHHHHHHGHCSEECTCSEEEEEECSSBTTHHHCCHSGCCTCCEEEE
T ss_pred hcCCHHHHHHhCCCCCEEEeCCcccccCHHHHHHHHHHHHHHHhccccceeeccccceeecccccccccchhhhhhcccC
Confidence 4445889999999999999997 4 3455566666644321 0 01123322211 11222221
Q ss_pred ------------hCC-CcEEEc----------CCCCcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEc
Q 024004 106 ------------SLN-IPLTTL----------DDHPSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVAD 162 (274)
Q Consensus 106 ------------~~g-i~vi~l----------~~~~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD 162 (274)
+.| +..+.. .+...+|+++..+...|.++.+.-|-+... +|.+++.|+.+|+-+.
T Consensus 88 s~f~~~~~R~~~~~G~~~y~p~~ls~~p~~~~~~~~~~Dvaii~vSp~De~Gy~slG~s~~~--~~~~ie~A~~vI~eVN 165 (198)
T PF02550_consen 88 SFFVGPNERKAINQGRVDYVPIHLSEIPRLFRRGFIPIDVAIIQVSPMDEHGYFSLGTSVDY--TKAAIEQAKKVIVEVN 165 (198)
T ss_dssp ESS--HHHHHHHHTTSSEES--BGGGHHHHHHTTSSH-SEEEEEECEE-TTSEEECTTBHBT--HHHHHHHTSEEEEEEE
T ss_pred cccCCHHHHHHHHCCCeEEECccHHHhHHHHHcCCCCCCEEEEEecCcCCCCCEeecHHHHh--HHHHHhcCCeEEEEcC
Confidence 122 111110 112348999999999999887776644333 3577888999999886
Q ss_pred CCcccccCC
Q 024004 163 ESKLVSGLG 171 (274)
Q Consensus 163 ~sK~~~~Lg 171 (274)
. ++-.+.|
T Consensus 166 ~-~~P~~~G 173 (198)
T PF02550_consen 166 P-NMPRTFG 173 (198)
T ss_dssp T-TSTS-EE
T ss_pred C-CCCCCCC
Confidence 4 3434454
No 45
>PF04223 CitF: Citrate lyase, alpha subunit (CitF); InterPro: IPR006472 These sequences, from both Gram-positive and Gram-negative bacteria, represent the alpha subunit of the holoenzyme citrate lyase composed of alpha (2.8.3.10 from EC), beta, and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The alpha subunit catalyzes the reaction Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The protein from Lactococcus lactis subsp. lactis (Streptococcus lactis) has been experimentally characterised [].; GO: 0008814 citrate CoA-transferase activity, 0006084 acetyl-CoA metabolic process, 0005737 cytoplasm, 0009346 citrate lyase complex; PDB: 2HJ0_B 1XR4_B.
Probab=92.06 E-value=0.54 Score=46.49 Aligned_cols=120 Identities=25% Similarity=0.359 Sum_probs=62.8
Q ss_pred ccCCChHHHHHHHHHHHHh------cCCCCCEEEECcChHHHHHHHHHhchhhcCCCCC---eEEECCcHHHHHHHHhCC
Q 024004 38 VPALTQDDLKKLAADKAVD------YVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRD---IVGIPTSKRTEEQAKSLN 108 (274)
Q Consensus 38 ~~~~~~~~~K~~iA~~A~~------~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~---itvVT~S~~ta~~l~~~g 108 (274)
.+.++.+.....||+.|++ |++||-..=-|+|-+...++++|.+..++.+.+. +=.+|. ....++ +.|
T Consensus 200 atr~T~~P~~L~IA~~aa~vI~asg~~kdGFSfQtGaGGaSLAv~~~l~~~M~~~~Ik~sFa~GGIT~--~~v~ml-eeG 276 (466)
T PF04223_consen 200 ATRITKDPRELLIAEYAAKVIEASGYFKDGFSFQTGAGGASLAVARFLREKMREKGIKGSFALGGITG--YMVDML-EEG 276 (466)
T ss_dssp -------HHHHHHHHHHHHHHHCTTT-STTEEEE--SSHHHHHHHHHHHHHHHHTT--EEEEECEE-H--HHHHHH-HTT
T ss_pred CccccCChHHHHHHHHHHHHHHhCcceecCceEEcCCchHHHHHHHHHHHHHHHcCcEEEEECCcccH--HHHHHH-Hcc
Confidence 4456666667778887775 4689999999999999999999998876543321 112322 122233 345
Q ss_pred C-c-EEEc---C-----------------------------CCCcccEEEEccCcccCCCCc--ccCcc-------hhHH
Q 024004 109 I-P-LTTL---D-----------------------------DHPSLDLAIDGADEVDPELNL--VKGRG-------GALL 145 (274)
Q Consensus 109 i-~-vi~l---~-----------------------------~~~~iD~afdGaD~Vd~~~~~--ikg~g-------ga~l 145 (274)
+ + +.+. + .+.++|+++.||-|||.+||+ +.|.. |-+-
T Consensus 277 L~~~l~DvQ~FDl~Av~S~~~np~H~eisas~YAnP~nkg~~vn~LD~viLgAlEvD~dFNVNV~TgSdG~i~Ga~GGH~ 356 (466)
T PF04223_consen 277 LFRKLLDVQCFDLDAVESIRENPNHQEISASEYANPHNKGAVVNQLDVVILGALEVDTDFNVNVLTGSDGVIRGASGGHP 356 (466)
T ss_dssp SECEEEECEESSHHHHHHHHHTTTEEE--HHHHC-TTSS--GGGG-SEEEE--SEEETT--EE-SB-TTS-B-CE-CTHH
T ss_pred cchhheecccCCHHHHHHHHhCCCcEEEcHHHhcCCCCCCcccccccEEEEeeeeeccccceeEEECCCceEecCCCCCc
Confidence 3 2 3321 0 124789999999999988865 44433 2232
Q ss_pred HHHHHHHhcCcEEEEEcC
Q 024004 146 REKMVEAASKSFVVVADE 163 (274)
Q Consensus 146 ~EKila~~S~~~IvLaD~ 163 (274)
- -+.-|+-.|+++.-
T Consensus 357 D---tAagAkltIiv~PL 371 (466)
T PF04223_consen 357 D---TAAGAKLTIIVAPL 371 (466)
T ss_dssp H---HHHHSSEEEEE--S
T ss_pred c---hhhhcCeEEEEchh
Confidence 2 24467888887754
No 46
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=91.24 E-value=1.4 Score=44.40 Aligned_cols=118 Identities=16% Similarity=0.195 Sum_probs=73.9
Q ss_pred HHHHHHHHhcCCCCCEE-EECcChHHHHHHHHHhchhhcCCCCCeEEECCcH-----HHHHHHHhCCCcEEE--cCCC--
Q 024004 48 KLAADKAVDYVKSGMAL-GLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSK-----RTEEQAKSLNIPLTT--LDDH-- 117 (274)
Q Consensus 48 ~~iA~~A~~~I~dg~vI-gLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~-----~ta~~l~~~gi~vi~--l~~~-- 117 (274)
++|.+.|.+-|+||++| --|+.+++..++.+-.+. +.-..+.||-+-. .....|...|+++.. +...
T Consensus 347 qaI~q~a~~KI~dgdviltyg~s~vV~~ill~A~~~---~k~frVvVVDSRP~~EG~~~lr~Lv~~GinctYv~I~a~sy 423 (556)
T KOG1467|consen 347 QAISQHAVTKIQDGDVLLTYGSSSVVNMILLEAKEL---GKKFRVVVVDSRPNLEGRKLLRRLVDRGINCTYVLINAASY 423 (556)
T ss_pred HHHHHHHHHHhhcCCEEEEecchHHHHHHHHHHHHh---CcceEEEEEeCCCCcchHHHHHHHHHcCCCeEEEEehhHHH
Confidence 34666777889999965 568888887777764332 1112455554433 334455677987643 2221
Q ss_pred --CcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcC-cEEEEEcCCcccccC
Q 024004 118 --PSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASK-SFVVVADESKLVSGL 170 (274)
Q Consensus 118 --~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~-~~IvLaD~sK~~~~L 170 (274)
..+++.|.||..+-.++.+..--|.+.+- +++++.. -+++.|.+-||.++.
T Consensus 424 im~evtkvfLGahailsNG~vysR~GTa~va--lvAna~nVPVlVCCE~yKF~eRv 477 (556)
T KOG1467|consen 424 IMLEVTKVFLGAHAILSNGAVYSRVGTACVA--LVANAFNVPVLVCCEAYKFHERV 477 (556)
T ss_pred HHHhcceeeechhhhhcCcchhhhcchHHHH--HHhcccCCCEEEEechhhhhhhh
Confidence 46899999999997775554333444443 4544332 467788888998873
No 47
>COG3051 CitF Citrate lyase, alpha subunit [Energy production and conversion]
Probab=89.59 E-value=0.91 Score=44.36 Aligned_cols=102 Identities=18% Similarity=0.232 Sum_probs=65.0
Q ss_pred CCCCCEEEE-----CcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHH--HH--HhCCC--cEEEc------------
Q 024004 58 VKSGMALGL-----GTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEE--QA--KSLNI--PLTTL------------ 114 (274)
Q Consensus 58 I~dg~vIgL-----GsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~--~l--~~~gi--~vi~l------------ 114 (274)
++|||+|.. |+-.++..+.+.|++. +++|+|.-++|+.... +. .+.|+ +++.-
T Consensus 62 lkdGMTiSFHH~fR~GD~vvN~Vm~~Ia~m----GfKnLtlA~SSl~~~h~pliehIknGVVt~I~sSGlRg~lg~~IS~ 137 (513)
T COG3051 62 LKDGMTISFHHAFRGGDLVVNMVMDVIAKM----GFKNLTLASSSLSDCHAPLVEHIKNGVVTRIYSSGLRGPLGEEISR 137 (513)
T ss_pred ccCCeEEEeeehhcCCceeHHHHHHHHHHh----CccceeeccchhhhhhHHHHHHHhcCEeeeEeeccccchHHHHHhh
Confidence 899999975 5557777777777654 4679999999986543 11 23442 12210
Q ss_pred --------------------CCCCcccEEEEccCcccCCCCc--c--cCcchhHHHHHHHHHhcCcEEEEEcC
Q 024004 115 --------------------DDHPSLDLAIDGADEVDPELNL--V--KGRGGALLREKMVEAASKSFVVVADE 163 (274)
Q Consensus 115 --------------------~~~~~iD~afdGaD~Vd~~~~~--i--kg~gga~l~EKila~~S~~~IvLaD~ 163 (274)
.+..+||+||.|+..-|.=.|+ . |..-|.+-.-++=++.|+++++|.|+
T Consensus 138 Gll~~PV~i~SHGGRv~~i~sGel~IDvAFlgvP~cDe~GNaNG~~GKa~cGSlGYA~vDA~yAd~VV~lTe~ 210 (513)
T COG3051 138 GLLAEPVQIHSHGGRVHLVQSGELHIDVAFLGVPSCDEFGNANGFTGKACCGSLGYAMVDAQYADQVVMLTEE 210 (513)
T ss_pred hHhhCCeEEeccCceEEEeecCceeEEEEEecCCChhhhcCcCCCcCccccccccceeechhhcceEEEehhh
Confidence 0124899999997666543222 2 32234444444557889999999976
No 48
>COG0427 ACH1 Acetyl-CoA hydrolase [Energy production and conversion]
Probab=89.07 E-value=0.7 Score=46.43 Aligned_cols=112 Identities=16% Similarity=0.251 Sum_probs=70.7
Q ss_pred HHHHHHhcCCCCCEEEEC-cC-hHHHHHHHHHhchhhcC--CCC--CeEE-ECCcHH--HHHHHHhCCC-----c--EEE
Q 024004 50 AADKAVDYVKSGMALGLG-TG-STAAFVVDRIGQLLKTG--ELR--DIVG-IPTSKR--TEEQAKSLNI-----P--LTT 113 (274)
Q Consensus 50 iA~~A~~~I~dg~vIgLG-sG-STv~~l~~~L~~~~~~~--~l~--~itv-VT~S~~--ta~~l~~~gi-----~--vi~ 113 (274)
-+.+|+.+|++||.||++ +| .+...+-++|++|++.. .++ .++. .+-|.. ....+.+.|. + +..
T Consensus 18 t~~Eaa~~i~~g~~lg~sft~ag~pkalp~aLA~r~~~~~~~~~~l~i~~~~gas~~~~~~~~~~~a~~~~~r~p~q~~~ 97 (501)
T COG0427 18 TPEEAASLIKDGDHLGMSFTGAGEPKALPEALARRAEANHGELKDLRVLLFTGASIGADEDLKLAEAGEVIRRAPYQVYS 97 (501)
T ss_pred CHHHHHHhhcCCCEEeecccCCCCchhhHHHHHHHHHhcccccCceEEEEEeccccCcchhhhhhcccchhhhCccccCH
Confidence 588899999999999999 54 67788888898875532 121 2332 233332 3333333321 1 000
Q ss_pred ------------------------c--CCCCcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcC
Q 024004 114 ------------------------L--DDHPSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADE 163 (274)
Q Consensus 114 ------------------------l--~~~~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~ 163 (274)
+ +....+|++++-+..+|.++.++.|-+--..+ ..+..|+++|+-+..
T Consensus 98 ~~Rk~iN~g~~~f~d~~ls~~~~~~~~~~~~~iDia~ie~s~i~~~G~~i~g~svg~~~--~~~~~A~kVIveVN~ 171 (501)
T COG0427 98 PVRKAINEGGVDFVDQHLSEVPQLLRKGFLGDIDIALIEASAIDEHGYIIPGTSVGNSK--SWAEGAEKVIVEVNK 171 (501)
T ss_pred HHHHHHhccCcchhhhhHhhhhHhhcccccCCCcEEEEEeccccCCceEeeccccCCcH--HHHhhccEEEEEhhc
Confidence 0 01235899999999999998887665533433 366788999887643
No 49
>TIGR01584 citF citrate lyase, alpha subunit. This is a model of the alpha subunit of the holoenzyme citrate lyase (EC 4.1.3.6) composed of alpha (EC 2.8.3.10), beta (EC 4.1.3.34), and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The alpha subunit catalyzes the reaction Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The seed contains an experimentally characterized member from Lactococcus lactis subsp. lactis. The model covers both Gram positive and Gram negative bacteria. It is quite robust with queries scoring either quite well or quite poorly against the model. There are currently no hits in between the noise cutoff and trusted cutoff.
Probab=88.79 E-value=1.7 Score=43.82 Aligned_cols=43 Identities=30% Similarity=0.364 Sum_probs=37.3
Q ss_pred ChHHHHHHHHHHHHhcC------CCCCEEEECcChHHHHHHHHHhchhh
Q 024004 42 TQDDLKKLAADKAVDYV------KSGMALGLGTGSTAAFVVDRIGQLLK 84 (274)
Q Consensus 42 ~~~~~K~~iA~~A~~~I------~dg~vIgLGsGSTv~~l~~~L~~~~~ 84 (274)
+..+..++||+.++++| +||.++=+|.|.....++++|.++.+
T Consensus 227 t~~p~e~~IA~~vA~lI~~s~~~~DG~tlQ~GiGgip~AV~~~L~~~mk 275 (492)
T TIGR01584 227 TKDPKELLIAKMANDVIVNSGYFKDGFSFQTGTGGAALAVTRFLKEKMI 275 (492)
T ss_pred CCCHHHHHHHHHHHHHHhhcCCCCCCCEEEccCCHHHHHHHHHHHHHHH
Confidence 44566788999999998 89999999999999999999987643
No 50
>COG0182 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=88.27 E-value=6.1 Score=38.01 Aligned_cols=129 Identities=22% Similarity=0.275 Sum_probs=84.1
Q ss_pred HHHHHHHHHhcCCCCCEEE----------ECcChHHHHHHHHHhchhhcCCCCCeEEECC--------cHHHHHHHHhCC
Q 024004 47 KKLAADKAVDYVKSGMALG----------LGTGSTAAFVVDRIGQLLKTGELRDIVGIPT--------SKRTEEQAKSLN 108 (274)
Q Consensus 47 K~~iA~~A~~~I~dg~vIg----------LGsGSTv~~l~~~L~~~~~~~~l~~itvVT~--------S~~ta~~l~~~g 108 (274)
-++|++..++++++|+.|- .|=| |+.-.++...+ +| +++.|+.. |--|+-+|.+.|
T Consensus 136 n~~iG~~G~~ll~~~~~VLThCNaGaLAt~~~G-TAlgviR~a~~---~g--k~i~v~a~ETRP~lQGARLTawEL~~~G 209 (346)
T COG0182 136 NRAIGENGAELLPDGDTVLTHCNAGALATVGYG-TALGVIRSAHE---EG--KDIRVFADETRPYLQGARLTAWELVQDG 209 (346)
T ss_pred HHHHHHHHHHhhccCCeEEeeecCCceeecCcc-chHHHHHHHHH---CC--CeeEEEeCCCccccccceeeHHHHhhcC
Confidence 4568888999999998764 2223 34455555433 22 45777765 446788899999
Q ss_pred CcEEEcCC--------CCcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCCCCcccccEE
Q 024004 109 IPLTTLDD--------HPSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVSGLGGSKLAMPVE 180 (274)
Q Consensus 109 i~vi~l~~--------~~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg~~~~plPvE 180 (274)
|++..+.+ ...+|.++-|||-|-.++..-.-- |....--+..+.--.||+.+..|-|...+. +.-.+|||
T Consensus 210 IpvtLItD~aag~~M~~g~Id~viVGADRI~~nGdvaNKI-GTY~lAvlAk~~gIPFyVaAP~sTiD~~~~-~G~~I~IE 287 (346)
T COG0182 210 IPVTLITDNAAGHLMQQGMIDAVIVGADRIAANGDVANKI-GTYQLAVLAKHHGIPFYVAAPLSTIDFELK-SGEDIPIE 287 (346)
T ss_pred CceEEEeccHHHHHHHhCCCcEEEEccceeecCCcchhhh-hHHHHHHHHHHcCCCeEEEcccCccccccC-CCCcccee
Confidence 99877643 246999999999998775442111 222111122345568999999999987763 23469998
Q ss_pred Eec
Q 024004 181 VVQ 183 (274)
Q Consensus 181 V~p 183 (274)
--+
T Consensus 288 ER~ 290 (346)
T COG0182 288 ERD 290 (346)
T ss_pred ecC
Confidence 765
No 51
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=88.15 E-value=1 Score=34.19 Aligned_cols=67 Identities=16% Similarity=0.177 Sum_probs=50.2
Q ss_pred ccEEEecccHHHHHHHHHHhHhhcCCeeEEeecCCCCceEeCCCCEEEEeeCCCCCCChHHHHHHhcCCCcEEeeecccc
Q 024004 177 MPVEVVQFCWKFNLVRLQDLFRELGCEAKLREGENGKPYITDNFNYIIDLYFETPIKDGVSAGTEIGKLEGVVEHGLFLD 256 (274)
Q Consensus 177 lPvEV~p~a~~~v~~~l~~l~~~~g~~~~lR~~~~~gp~vTdnGN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe~GlF~~ 256 (274)
+-|.+.|..+..|.+.|..+ .|++.- ..+++|++|+=+--++ ..+..+.-..|+.+|||+...|-..
T Consensus 8 ~vV~~~p~~~~~v~~~l~~~---~gvEVh---------~~~~~GKiVVtiE~~~-~~~~~~~~~~i~~l~GVlsa~lvYh 74 (79)
T PF03927_consen 8 LVVHARPERLEEVAEALAAI---PGVEVH---------AVDEDGKIVVTIEAES-SEEEVDLIDAINALPGVLSASLVYH 74 (79)
T ss_dssp EEEEE-CCCHHHHHHHHCCS---TTEEEE---------EEETTTEEEEEEEESS-HHHHHHHHHHHCCSTTEEEEEESSE
T ss_pred EEEEECchhHHHHHHHHHcC---CCcEEE---------eeCCCCeEEEEEEeCC-hHHHHHHHHHHHcCCCceEEEEEEE
Confidence 56888999999999999887 366543 5667788888555433 4566777888999999999887653
No 52
>PF01037 AsnC_trans_reg: AsnC family; InterPro: IPR019887 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One such family is the AsnC/Lrp subfamily []. The Lrp family of transcriptional regulators appears to be widely distributed among bacteria and archaea, as an important regulatory system of the amino acid metabolism and related processes []. Members of the Lrp family are small DNA-binding proteins with molecular masses of around 15 kDa. Target promoters often contain a number of binding sites that typically lack obvious inverted repeat elements, and to which binding is usually co-operative. LrpA from Pyrococcus furiosus is the first Lrp-like protein to date of which a three-dimensional structure has been solved. In the crystal structure LrpA forms an octamer consisting of four dimers. The structure revealed that the N-terminal part of the protein consists of a helix-turn-helix (HTH) domain, a fold generally involved in DNA binding. The C terminus of Lrp-like proteins has a beta-fold, where the two alpha-helices are located at one side of the four-stranded antiparallel beta-sheet. LrpA forms a homodimer mainly through interactions between the beta-strands of this C-terminal domain, and an octamer through further interactions between the second alpha-helix and fourth beta-strand of the motif. Hence, the C-terminal domain of Lrp-like proteins appears to be involved in ligand-response and activation [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2DJW_F 2GQQ_A 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2CG4_B 2DBB_B 1I1G_A ....
Probab=84.76 E-value=1.7 Score=31.13 Aligned_cols=61 Identities=15% Similarity=0.156 Sum_probs=44.8
Q ss_pred EEEeccc--HHHHHHHHHHhHhhcCCeeEEeecCCCCceEeCCCCEEEEeeCCCCCCChHHHHHH-hcCCCcEEee
Q 024004 179 VEVVQFC--WKFNLVRLQDLFRELGCEAKLREGENGKPYITDNFNYIIDLYFETPIKDGVSAGTE-IGKLEGVVEH 251 (274)
Q Consensus 179 vEV~p~a--~~~v~~~l~~l~~~~g~~~~lR~~~~~gp~vTdnGN~IlD~~f~~~i~d~~~l~~~-l~~ipGVVe~ 251 (274)
|++.|.. +..+.+.|.++ +.++. -..+|-..++++-+.+.+ ..+.+++-.+ |..+|||..+
T Consensus 3 V~~~~~~~~~~~~~~~l~~~-------p~V~~----~~~vtG~~d~~~~v~~~d-~~~l~~~i~~~l~~~~gV~~~ 66 (74)
T PF01037_consen 3 VKVEPGHDAYDEFAEALAEI-------PEVVE----CYSVTGEYDLILKVRARD-MEELEEFIREKLRSIPGVRRT 66 (74)
T ss_dssp EEESTTGTHHHHHHHHHHTS-------TTEEE----EEEESSSSSEEEEEEESS-HHHHHHHHHHTHHTSTTEEEE
T ss_pred EEEcCCCchHHHHHHHHHcC-------CCEEE----EEEEeCCCCEEEEEEECC-HHHHHHHHHHHhhcCCCEEEE
Confidence 6777877 88888888765 33332 247788889999999865 6666666555 9999999775
No 53
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=79.02 E-value=6.2 Score=30.71 Aligned_cols=69 Identities=16% Similarity=0.141 Sum_probs=51.2
Q ss_pred cccEEEecccHHHHHHHHHHhHhhcCCeeEEeecCCCCceE-eCCCCEEEEeeCCCCCCChHHHHHHhcCCCcEEeeecc
Q 024004 176 AMPVEVVQFCWKFNLVRLQDLFRELGCEAKLREGENGKPYI-TDNFNYIIDLYFETPIKDGVSAGTEIGKLEGVVEHGLF 254 (274)
Q Consensus 176 plPvEV~p~a~~~v~~~l~~l~~~~g~~~~lR~~~~~gp~v-TdnGN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe~GlF 254 (274)
.+-|.+.|.....|.+.|..+ .|++.- .. +++|.+|+=+--.. ..+.-+.-..|+.+|||+...|-
T Consensus 9 SlVV~~~Pe~~~~V~~~l~~i---pg~Evh---------~~d~~~GKiVVtiE~~~-~~~~~~~i~~I~~l~GVlsa~lV 75 (87)
T PRK10553 9 SLVVQAKSERISDISTQLNAF---PGCEVA---------VSDAPSGQLIVVVEAED-SETLLQTIESVRNVEGVLAVSLV 75 (87)
T ss_pred EEEEEeChHHHHHHHHHHHcC---CCcEEE---------eecCCCCeEEEEEEeCC-hHHHHHHHHHHHcCCCceEEEEE
Confidence 366888999999999999887 366653 33 35788887555433 55666777888999999998876
Q ss_pred ccc
Q 024004 255 LDM 257 (274)
Q Consensus 255 ~~~ 257 (274)
...
T Consensus 76 Yh~ 78 (87)
T PRK10553 76 YHQ 78 (87)
T ss_pred EEE
Confidence 543
No 54
>PRK00443 nagB glucosamine-6-phosphate deaminase; Provisional
Probab=78.29 E-value=3.6 Score=37.14 Aligned_cols=53 Identities=23% Similarity=0.334 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHhcCC-------CCCEEEECcChHHHHHHHHHhchhhcCC--CCCeEEECCc
Q 024004 45 DLKKLAADKAVDYVK-------SGMALGLGTGSTAAFVVDRIGQLLKTGE--LRDIVGIPTS 97 (274)
Q Consensus 45 ~~K~~iA~~A~~~I~-------dg~vIgLGsGSTv~~l~~~L~~~~~~~~--l~~itvVT~S 97 (274)
+.=+.+|+...+.++ ++++|||.+|+|...+.+.|.+...+.. .++++++...
T Consensus 11 ~l~~~aa~~l~~~l~~~~~~~~~~~~iglsgG~T~~~~~~~L~~~~~~~~~~~~~v~v~~~D 72 (261)
T PRK00443 11 EVGKWAARHIANRINAFLPTKERPFVLGLATGSSPLETYKALIELHKAGKVDFSRVTTFNLD 72 (261)
T ss_pred HHHHHHHHHHHHHHHHHhhccCCceEEEecCCCCHHHHHHHHHHHhhhcCCchHHeEEEeCc
Confidence 333444444445555 6789999999999999999984322111 2467666653
No 55
>PF01144 CoA_trans: Coenzyme A transferase; InterPro: IPR004165 Coenzyme A (CoA) transferases belong to an evolutionary conserved [, ] family of enzymes catalyzing the reversible transfer of CoA from one carboxylic acid to another. They have been identified in many prokaryotes and in mammalian tissues. The bacterial enzymes are heterodimer of two subunits (A and B) of about 25 Kd each while eukaryotic SCOT consist of a single chain which is colinear with the two bacterial subunits.; GO: 0008410 CoA-transferase activity, 0008152 metabolic process; PDB: 3DLX_C 1K6D_A 3OXO_H 1M3E_D 3K6M_C 2NRC_A 1OOY_B 1O9L_C 1OOZ_A 1OPE_B ....
Probab=77.49 E-value=4.5 Score=35.66 Aligned_cols=31 Identities=16% Similarity=0.422 Sum_probs=19.4
Q ss_pred HHHHHhcCCCCCEEEEC----cChHHHHHHHHHhch
Q 024004 51 ADKAVDYVKSGMALGLG----TGSTAAFVVDRIGQL 82 (274)
Q Consensus 51 A~~A~~~I~dg~vIgLG----sGSTv~~l~~~L~~~ 82 (274)
++++.++|+|||+|++| +| +-..++.+|.++
T Consensus 5 ~eAva~~I~dG~~v~~GG~~~~~-~P~al~~~l~r~ 39 (217)
T PF01144_consen 5 AEAVARLIRDGDTVAVGGFGSSG-IPMALVRELARQ 39 (217)
T ss_dssp HHHHTCT--TTEEEEE-SBTTBT-HHHHHHHHHHHH
T ss_pred HHHHhccCCCCCEEEECCCcccC-cHHHHHHHHHhc
Confidence 34444599999999999 66 445677777654
No 56
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=77.03 E-value=5.1 Score=33.59 Aligned_cols=81 Identities=14% Similarity=0.150 Sum_probs=53.5
Q ss_pred EEEEEcCCcccccCCCCcccccEEEe-cccHHHHHHHHHHhHhhcCCeeEEeecCCCCceEeCCCCEEEEeeCCCCCCCh
Q 024004 157 FVVVADESKLVSGLGGSKLAMPVEVV-QFCWKFNLVRLQDLFRELGCEAKLREGENGKPYITDNFNYIIDLYFETPIKDG 235 (274)
Q Consensus 157 ~IvLaD~sK~~~~Lg~~~~plPvEV~-p~a~~~v~~~l~~l~~~~g~~~~lR~~~~~gp~vTdnGN~IlD~~f~~~i~d~ 235 (274)
+.++.|..|++... ..-+-+.+. |..+..+.+.|.++ |.++.. ..+|..-|+++.+.+.+ ..+.
T Consensus 56 ~~~~v~~~~lg~~~---~a~v~v~v~~~~~~~~~~~~l~~~-------p~V~~~----~~~tG~~dl~~~v~~~d-~~~l 120 (153)
T PRK11179 56 TRVDVNPKQLGYDV---CCFIGIILKSAKDYPSALAKLESL-------DEVVEA----YYTTGHYSIFIKVMCRS-IDAL 120 (153)
T ss_pred EEEEECHHHcCCCE---EEEEEEEEcccccHHHHHHHHhCC-------CCEEEE----EEcccCCCEEEEEEECC-HHHH
Confidence 44678888877544 222345554 55677777777654 334432 45666779999999875 6677
Q ss_pred HHH-HHHhcCCCcEEeee
Q 024004 236 VSA-GTEIGKLEGVVEHG 252 (274)
Q Consensus 236 ~~l-~~~l~~ipGVVe~G 252 (274)
.++ .+.|..+|||..+-
T Consensus 121 ~~~~~~~l~~~~gV~~~~ 138 (153)
T PRK11179 121 QHVLINKIQTIDEIQSTE 138 (153)
T ss_pred HHHHHHHhhcCCCeeeEE
Confidence 765 46788999999643
No 57
>COG0373 HemA Glutamyl-tRNA reductase [Coenzyme metabolism]
Probab=76.74 E-value=38 Score=33.60 Aligned_cols=85 Identities=16% Similarity=0.239 Sum_probs=62.6
Q ss_pred HHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHH-HhCCCcEEEcCCC----Cc
Q 024004 45 DLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQA-KSLNIPLTTLDDH----PS 119 (274)
Q Consensus 45 ~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l-~~~gi~vi~l~~~----~~ 119 (274)
..--.+|++-..-+++-.++.||.|-+....+++|.+. +..+++++-=+..-|..+ .+.|..++.+++. ..
T Consensus 163 saAv~lA~~~~~~L~~~~vlvIGAGem~~lva~~L~~~----g~~~i~IaNRT~erA~~La~~~~~~~~~l~el~~~l~~ 238 (414)
T COG0373 163 SAAVELAKRIFGSLKDKKVLVIGAGEMGELVAKHLAEK----GVKKITIANRTLERAEELAKKLGAEAVALEELLEALAE 238 (414)
T ss_pred HHHHHHHHHHhcccccCeEEEEcccHHHHHHHHHHHhC----CCCEEEEEcCCHHHHHHHHHHhCCeeecHHHHHHhhhh
Confidence 33344455555556667799999999999999999864 235788888888888855 6778777777653 57
Q ss_pred ccEEEEccCcccCC
Q 024004 120 LDLAIDGADEVDPE 133 (274)
Q Consensus 120 iD~afdGaD~Vd~~ 133 (274)
.|+.|-+...-++-
T Consensus 239 ~DvVissTsa~~~i 252 (414)
T COG0373 239 ADVVISSTSAPHPI 252 (414)
T ss_pred CCEEEEecCCCccc
Confidence 89999988775543
No 58
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=73.22 E-value=12 Score=35.15 Aligned_cols=70 Identities=23% Similarity=0.374 Sum_probs=48.8
Q ss_pred ccccccccccccCCChHHHHHHHHHHHHhc--CCCCCE---EEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHH
Q 024004 28 PRAISIKAQAVPALTQDDLKKLAADKAVDY--VKSGMA---LGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEE 102 (274)
Q Consensus 28 ~~~~~~~~~~~~~~~~~~~K~~iA~~A~~~--I~dg~v---IgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~ 102 (274)
.+.|+-+.=..+.++.+++-.+.-+..++. +++||+ ||.|-|+++.++|++-.. +++.||.|..-..
T Consensus 38 ~~~Yscayf~~~~~tL~eAQ~~k~~~~~~kl~L~~G~~lLDiGCGWG~l~~~aA~~y~v--------~V~GvTlS~~Q~~ 109 (283)
T COG2230 38 SMTYSCAYFEDPDMTLEEAQRAKLDLILEKLGLKPGMTLLDIGCGWGGLAIYAAEEYGV--------TVVGVTLSEEQLA 109 (283)
T ss_pred CCceeeEEeCCCCCChHHHHHHHHHHHHHhcCCCCCCEEEEeCCChhHHHHHHHHHcCC--------EEEEeeCCHHHHH
Confidence 455666666667777666655555555543 689996 577788999999987632 6999999987655
Q ss_pred HHH
Q 024004 103 QAK 105 (274)
Q Consensus 103 ~l~ 105 (274)
.++
T Consensus 110 ~~~ 112 (283)
T COG2230 110 YAE 112 (283)
T ss_pred HHH
Confidence 543
No 59
>TIGR01110 mdcA malonate decarboxylase, alpha subunit. This model describes malonate decarboxylase alpha subunit, from both the water-soluble form as found in Klebsiella pneumoniae and the form couple to sodium ion pumping in Malonomonas rubra. Malonate decarboxylase Na+ pump is the paradigm of the family of Na+ transport decarboxylases. Essentially, it couples the energy derived from decarboxylation of a carboxylic acid substrate to move Na+ ion across the bilayer. Functional malonate decarboylase is a multi subunit protein. The alpha subunit enzymatically performs the transfer of malonate (substrate) to an acyl carrier protein subunit for subsequent decarboxylation, hence the name: acetyl-S-acyl carrier protein:malonate carrier protein-SH transferase.
Probab=72.96 E-value=30 Score=35.46 Aligned_cols=111 Identities=14% Similarity=0.155 Sum_probs=66.2
Q ss_pred HHHHHHhcCCCCCEEEECcCh--HHHHHHHHHhchhhcCCCCCeEEECC--cHHHHHHHHhCCC--cEEE----------
Q 024004 50 AADKAVDYVKSGMALGLGTGS--TAAFVVDRIGQLLKTGELRDIVGIPT--SKRTEEQAKSLNI--PLTT---------- 113 (274)
Q Consensus 50 iA~~A~~~I~dg~vIgLGsGS--Tv~~l~~~L~~~~~~~~l~~itvVT~--S~~ta~~l~~~gi--~vi~---------- 113 (274)
+.......|+|||.|.|.+=+ -..++++.|.+- ...+.++++.|-. +......+-..|+ ++..
T Consensus 30 ~~~~l~~~i~~Gdrv~leg~~q~~a~~l~~~l~~~-~~~~~~dLh~v~~~~~~~~~~~l~~~G~a~kl~fs~~g~~~~R~ 108 (543)
T TIGR01110 30 GVELLEAVIAPGDRVVLEGNNQKQADFLSRCLASC-DPEKINDLHMVQSSVPLPEHLDLFEKGIARKLDFSFAGPQSLRI 108 (543)
T ss_pred HHHHHHHhCCCCCEEEECCccccchHHHHhhHHhh-CccccCCcEEEEecCCchhHHHHHhcCceeeEEEeecCcchHHH
Confidence 344445889999999998653 344555544432 2233457777666 4444445555564 2221
Q ss_pred -------------cCC----------CCcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcC----cEEEEEcC
Q 024004 114 -------------LDD----------HPSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASK----SFVVVADE 163 (274)
Q Consensus 114 -------------l~~----------~~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~----~~IvLaD~ 163 (274)
+.. ...+|+++.-+...|.++++..|-... .+..++++|+ .+|+-+++
T Consensus 109 ~~av~~G~id~iPih~~lse~pRlf~~L~pDVALI~aSpAD~~GN~slG~s~~--~~~aaaeAAk~~agiVIVEVNe 183 (543)
T TIGR01110 109 AQLLEDGKLEIGAIHTYLELYSRYFVDLTPNVSLIAAYEADRDGNLYTGPNTE--DTPAIVEATAFRDGIVIAQVNE 183 (543)
T ss_pred HHHHHcCCeeEeehhchHhhhhhhhhccCCcEEEEECCcCCCCCeEEecCccc--chHHHHHhhhhcCCEEEEEECc
Confidence 101 135899999999999998886543222 2345566666 67776655
No 60
>TIGR01110 mdcA malonate decarboxylase, alpha subunit. This model describes malonate decarboxylase alpha subunit, from both the water-soluble form as found in Klebsiella pneumoniae and the form couple to sodium ion pumping in Malonomonas rubra. Malonate decarboxylase Na+ pump is the paradigm of the family of Na+ transport decarboxylases. Essentially, it couples the energy derived from decarboxylation of a carboxylic acid substrate to move Na+ ion across the bilayer. Functional malonate decarboylase is a multi subunit protein. The alpha subunit enzymatically performs the transfer of malonate (substrate) to an acyl carrier protein subunit for subsequent decarboxylation, hence the name: acetyl-S-acyl carrier protein:malonate carrier protein-SH transferase.
Probab=72.55 E-value=32 Score=35.28 Aligned_cols=43 Identities=19% Similarity=0.138 Sum_probs=36.8
Q ss_pred CCChHHHHHHHHHHHHhcCCCCC---EEEECcChHHHHHHHHHhch
Q 024004 40 ALTQDDLKKLAADKAVDYVKSGM---ALGLGTGSTAAFVVDRIGQL 82 (274)
Q Consensus 40 ~~~~~~~K~~iA~~A~~~I~dg~---vIgLGsGSTv~~l~~~L~~~ 82 (274)
.....+..+.||+.++++|.||. +|=+|-|.....+...|+++
T Consensus 218 ~a~ise~~~~ia~~v~~~I~dg~~v~tLq~GIG~~p~AI~~~L~~~ 263 (543)
T TIGR01110 218 PANITDVQVLMAMMAIKGIYAEYQVQRLNHGIGFNTAAIELLLPTY 263 (543)
T ss_pred cccCCHHHHHHHHHHHhhCcCCCcCceeeeccCcCHHHHHHHhccc
Confidence 33445777889999999999999 99999999998888888865
No 61
>PF02254 TrkA_N: TrkA-N domain; InterPro: IPR003148 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus. The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the N-terminal subdomain of RCK.; GO: 0006813 potassium ion transport; PDB: 3L4B_E 1LSS_C 3LLV_A 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A 2AEJ_A 3RBZ_A ....
Probab=72.17 E-value=13 Score=28.76 Aligned_cols=47 Identities=13% Similarity=0.152 Sum_probs=38.4
Q ss_pred EEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEc
Q 024004 63 ALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTL 114 (274)
Q Consensus 63 vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l 114 (274)
+|-+|.|.....+++.|.+. . .++++|..+.+....+.+.|++++.-
T Consensus 1 vvI~G~g~~~~~i~~~L~~~----~-~~vvvid~d~~~~~~~~~~~~~~i~g 47 (116)
T PF02254_consen 1 VVIIGYGRIGREIAEQLKEG----G-IDVVVIDRDPERVEELREEGVEVIYG 47 (116)
T ss_dssp EEEES-SHHHHHHHHHHHHT----T-SEEEEEESSHHHHHHHHHTTSEEEES
T ss_pred eEEEcCCHHHHHHHHHHHhC----C-CEEEEEECCcHHHHHHHhcccccccc
Confidence 57899999999999999764 1 36999999999999998889887753
No 62
>cd01399 GlcN6P_deaminase GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or deamination. It is the last step of the metabolic pathway of N-acetyl-D-glucosamine-6-phosphate (GlcNAc6P). GlcN6P deaminase is a hexameric enzyme that is allosterically activated by GlcNAc6P.
Probab=71.99 E-value=5.2 Score=35.20 Aligned_cols=35 Identities=31% Similarity=0.414 Sum_probs=28.5
Q ss_pred HHHHHHHHhcCCC--CCEEEECcChHHHHHHHHHhch
Q 024004 48 KLAADKAVDYVKS--GMALGLGTGSTAAFVVDRIGQL 82 (274)
Q Consensus 48 ~~iA~~A~~~I~d--g~vIgLGsGSTv~~l~~~L~~~ 82 (274)
+.+|+...+.|++ +.+|||..|+|...+.+.|...
T Consensus 5 ~~~a~~l~~~i~~~~~~~i~lsgG~T~~~~~~~l~~~ 41 (232)
T cd01399 5 EAAAELIAELIREKPPAVLGLATGSTPLGVYEELIEL 41 (232)
T ss_pred HHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHH
Confidence 4456666677777 7899999999999999999753
No 63
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=68.82 E-value=0.97 Score=39.60 Aligned_cols=53 Identities=21% Similarity=0.368 Sum_probs=39.0
Q ss_pred CcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEcC----CCCcccEEEEcc
Q 024004 67 GTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTLD----DHPSLDLAIDGA 127 (274)
Q Consensus 67 GsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l~----~~~~iD~afdGa 127 (274)
|||+|+ +++.|++. .++.+|....--.+.+++.|+.+..+. ..+.+|+.+|.-
T Consensus 10 GsG~TT--va~~lAe~------~gl~~vsaG~iFR~~A~e~gmsl~ef~~~AE~~p~iD~~iD~r 66 (179)
T COG1102 10 GSGKTT--VARELAEH------LGLKLVSAGTIFREMARERGMSLEEFSRYAEEDPEIDKEIDRR 66 (179)
T ss_pred CCChhH--HHHHHHHH------hCCceeeccHHHHHHHHHcCCCHHHHHHHHhcCchhhHHHHHH
Confidence 788776 45677765 368889888777778889999876654 347788887754
No 64
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=66.48 E-value=15 Score=31.08 Aligned_cols=84 Identities=12% Similarity=0.213 Sum_probs=53.1
Q ss_pred cEEEEEcCCcccccCCCCcccccEEEe---cccHHHHHHHHHHhHhhcCCeeEEeecCCCCceEeCCCCEEEEeeCCCCC
Q 024004 156 SFVVVADESKLVSGLGGSKLAMPVEVV---QFCWKFNLVRLQDLFRELGCEAKLREGENGKPYITDNFNYIIDLYFETPI 232 (274)
Q Consensus 156 ~~IvLaD~sK~~~~Lg~~~~plPvEV~---p~a~~~v~~~l~~l~~~~g~~~~lR~~~~~gp~vTdnGN~IlD~~f~~~i 232 (274)
.+..+.|..|++..+ ..-+=|++. |..+..+.+.|.++ ++++. -..+|-..++++-+.+.+ .
T Consensus 60 ~~~~~v~p~~lg~~~---~a~v~i~~~~~~~~~~~~~~~~l~~~-------p~V~~----~~~vtG~~d~~l~v~~~~-~ 124 (164)
T PRK11169 60 GYTALLNPHYLDASL---LVFVEITLNRGAPDVFEQFNAAVQKL-------EEIQE----CHLVSGDFDYLLKTRVPD-M 124 (164)
T ss_pred EEEEEECHHHhCCCE---EEEEEEEEcCCChHHHHHHHHHHhcC-------cceee----eeeecCCCCEEEEEEECC-H
Confidence 467778888876544 222334443 33345555555543 33432 246787889999999876 6
Q ss_pred CChHHHH-HHhcCCCcEEeeecc
Q 024004 233 KDGVSAG-TEIGKLEGVVEHGLF 254 (274)
Q Consensus 233 ~d~~~l~-~~l~~ipGVVe~GlF 254 (274)
.+.+++- +.|..+|||..+--+
T Consensus 125 ~~l~~~l~~~l~~~~gV~~~~t~ 147 (164)
T PRK11169 125 SAYRKLLGETLLRLPGVNDTRTY 147 (164)
T ss_pred HHHHHHHHHHhhcCCCeeeEEEE
Confidence 6676754 678899999875533
No 65
>PF01488 Shikimate_DH: Shikimate / quinate 5-dehydrogenase; InterPro: IPR006151 This entry represents a domain found in shikimate and quinate dehydrogenases, as well as glutamyl-tRNA reductases. Shikimate 5-dehydrogenase (1.1.1.25 from EC) catalyses the conversion of shikimate to 5-dehydroshikimate [, ]. This reaction is part of the shikimate pathway which is involved in the biosynthesis of aromatic amino acids []. Quinate 5-dehydrogenase catalyses the conversion of quinate to 5-dehydroquinate. This reaction is part of the quinate pathway where quinic acid is exploited as a source of carbon in prokaryotes and microbial eukaryotes. Both the shikimate and quinate pathways share two common pathway metabolites, 3-dehydroquinate and dehydroshikimate. Glutamyl-tRNA reductase (1.2.1.70 from EC) catalyzes the first step of tetrapyrrole biosynthesis in plants, archaea and most bacteria. The dimeric enzyme has an unusual V-shaped architecture where each monomer consists of three domains linked by a long 'spinal' alpha-helix. The central catalytic domain specifically recognises the glutamate moiety of the substrate []. ; PDB: 2EV9_B 2CY0_B 1WXD_A 2D5C_A 1NVT_B 2EGG_A 3PWZ_A 3DOO_A 3DON_A 3FBT_C ....
Probab=66.24 E-value=16 Score=29.87 Aligned_cols=75 Identities=23% Similarity=0.321 Sum_probs=53.2
Q ss_pred HHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHH-HhC---CCcEEEcCCC----Cccc
Q 024004 50 AADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQA-KSL---NIPLTTLDDH----PSLD 121 (274)
Q Consensus 50 iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l-~~~---gi~vi~l~~~----~~iD 121 (274)
.|++-..-++...++-||+|-+...++.+|.+. +.++++++.=+.+-+..+ +.. +++.+.+++. ...|
T Consensus 2 la~~~~~~l~~~~vlviGaGg~ar~v~~~L~~~----g~~~i~i~nRt~~ra~~l~~~~~~~~~~~~~~~~~~~~~~~~D 77 (135)
T PF01488_consen 2 LAKKKFGDLKGKRVLVIGAGGAARAVAAALAAL----GAKEITIVNRTPERAEALAEEFGGVNIEAIPLEDLEEALQEAD 77 (135)
T ss_dssp HHCTHHSTGTTSEEEEESSSHHHHHHHHHHHHT----TSSEEEEEESSHHHHHHHHHHHTGCSEEEEEGGGHCHHHHTES
T ss_pred hhHHhcCCcCCCEEEEECCHHHHHHHHHHHHHc----CCCEEEEEECCHHHHHHHHHHcCccccceeeHHHHHHHHhhCC
Confidence 355556667888899999999999999999764 234699998888776655 333 3556666554 3678
Q ss_pred EEEEccC
Q 024004 122 LAIDGAD 128 (274)
Q Consensus 122 ~afdGaD 128 (274)
+.|....
T Consensus 78 ivI~aT~ 84 (135)
T PF01488_consen 78 IVINATP 84 (135)
T ss_dssp EEEE-SS
T ss_pred eEEEecC
Confidence 7777554
No 66
>COG3051 CitF Citrate lyase, alpha subunit [Energy production and conversion]
Probab=61.87 E-value=19 Score=35.57 Aligned_cols=98 Identities=21% Similarity=0.372 Sum_probs=62.3
Q ss_pred CCChHHHHHHHHHHHHhcC------CCCCEEEECcChHHHHHHHHHhchhhcCCCC---CeEEECCcHHHHHHHHhCCC-
Q 024004 40 ALTQDDLKKLAADKAVDYV------KSGMALGLGTGSTAAFVVDRIGQLLKTGELR---DIVGIPTSKRTEEQAKSLNI- 109 (274)
Q Consensus 40 ~~~~~~~K~~iA~~A~~~I------~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~---~itvVT~S~~ta~~l~~~gi- 109 (274)
+|+.......||+.|++.| ++|-..--|+|-....+.+.|.++..+...+ .+-.||+..-- |.+.|+
T Consensus 247 R~t~nPreLlIA~~aa~VI~~SgYFkdGFs~QTGtGGAsLaVtrfl~ekM~~~nI~AsfaLGGIT~~mVd---LhE~gLi 323 (513)
T COG3051 247 RMTTNPRELLIARSAADVIVNSGYFKDGFSMQTGTGGASLAVTRFLEEKMRRRNIKASFALGGITATMVD---LHEEGLI 323 (513)
T ss_pred ecCCChHHHHHHHHHhhhhhcCCcccCceeeecCCCchhHHHHHHHHHHHHhhccceeeecccchHHHHH---HHHHHHH
Confidence 4544445567899988754 7899999999999999999998775543221 23345554422 111121
Q ss_pred ----cEEEc-------------------C----------CCCcccEEEEccCcccCCCCc--ccCc
Q 024004 110 ----PLTTL-------------------D----------DHPSLDLAIDGADEVDPELNL--VKGR 140 (274)
Q Consensus 110 ----~vi~l-------------------~----------~~~~iD~afdGaD~Vd~~~~~--ikg~ 140 (274)
.+-++ + .+.++|+++.+|=|||-+||+ +.|.
T Consensus 324 ~kllDvQsFD~~aa~Sla~np~h~EIsAn~YAnp~skGa~vdrLdvviLSALEiDt~FNVNVmTgS 389 (513)
T COG3051 324 DKLLDVQSFDSDAAQSLARNPNHIEISANQYANPGSKGASVDRLDVVILSALEIDTQFNVNVMTGS 389 (513)
T ss_pred HHHhcccccCcHHHHHHhcCCccEEechhhhcCCCCCCceeceeeEEEEEeeeeccccceEEEecC
Confidence 11111 1 135899999999999988765 4443
No 67
>cd00423 Pterin_binding Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS. Cobalamin-dependent methyltransferases catalyze the transfer of a methyl group via a methyl- cob(III)amide intermediate. These include MeTr, a functional heterodimer, and the folate binding domain of MetH.
Probab=59.00 E-value=32 Score=31.37 Aligned_cols=60 Identities=18% Similarity=0.122 Sum_probs=40.7
Q ss_pred HHHHHHHHhcCCCC-CEEEECcChH---------------HHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcE
Q 024004 48 KLAADKAVDYVKSG-MALGLGTGST---------------AAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPL 111 (274)
Q Consensus 48 ~~iA~~A~~~I~dg-~vIgLGsGST---------------v~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~v 111 (274)
..+.++|.+++++| ++|=||.+|| +..+++.|.+.. . ..+.+=|.+..++..+-+.|.++
T Consensus 24 ~~~~~~a~~~~~~GAdiIDvG~~st~p~~~~~~~~~E~~rl~~~v~~l~~~~---~-~piSIDT~~~~v~~aaL~~g~~i 99 (258)
T cd00423 24 DKALEHARRMVEEGADIIDIGGESTRPGAEPVSVEEELERVIPVLRALAGEP---D-VPISVDTFNAEVAEAALKAGADI 99 (258)
T ss_pred HHHHHHHHHHHHCCCCEEEECCCcCCCCCCcCCHHHHHHHHHHHHHHHHhcC---C-CeEEEeCCcHHHHHHHHHhCCCE
Confidence 44667788999998 6999999999 444445443211 1 24777788888877776666443
No 68
>PF08679 DsrD: Dissimilatory sulfite reductase D (DsrD); InterPro: IPR014793 The structure of the dissimilatory sulphite reductase D (DsrD) protein has shown it to contain a winged-helix motif similar to those found in DNA binding proteins []. The structure suggests a possible role for DsrD in transcription or translation of genes, which catalyse dissimilatory sulphite reduction. ; PDB: 1WQ2_B 1UCR_B.
Probab=55.63 E-value=1.4 Score=32.75 Aligned_cols=28 Identities=29% Similarity=0.342 Sum_probs=21.4
Q ss_pred HHHHHHHHH-hcCCCCCEEEECcChHHHH
Q 024004 47 KKLAADKAV-DYVKSGMALGLGTGSTAAF 74 (274)
Q Consensus 47 K~~iA~~A~-~~I~dg~vIgLGsGSTv~~ 74 (274)
|.+-+++++ ++|.+|-..+--||||+.|
T Consensus 33 k~R~vKKi~~~LV~Eg~l~yWSSGSTTmY 61 (67)
T PF08679_consen 33 KPREVKKIVNELVNEGKLEYWSSGSTTMY 61 (67)
T ss_dssp -HHHHHHHHHHHHHTTSEEEEEETTEEEE
T ss_pred CHHHHHHHHHHHHhhCeEEEEcCCCcEEe
Confidence 444445544 9999999999999999864
No 69
>smart00798 AICARFT_IMPCHas AICARFT/IMPCHase bienzyme. This is a family of bifunctional enzymes catalysing the last two steps in de novo purine biosynthesis. The bifunctional enzyme is found in both prokaryotes and eukaryotes. The second last step is catalysed by 5-aminoimidazole-4-carboxamide ribonucleotide formyltransferase (AICARFT), this enzyme catalyses the formylation of AICAR with 10-formyl-tetrahydrofolate to yield FAICAR and tetrahydrofolate. The last step is catalysed by IMP (Inosine monophosphate) cyclohydrolase (IMPCHase), cyclizing FAICAR (5-formylaminoimidazole-4-carboxamide ribonucleotide) to IMP.
Probab=52.82 E-value=20 Score=34.25 Aligned_cols=46 Identities=26% Similarity=0.295 Sum_probs=31.6
Q ss_pred cccccCCChHHHHHHHHHHHHhcCC--------CCCEEEECcChHHHHHHHHHh
Q 024004 35 AQAVPALTQDDLKKLAADKAVDYVK--------SGMALGLGTGSTAAFVVDRIG 80 (274)
Q Consensus 35 ~~~~~~~~~~~~K~~iA~~A~~~I~--------dg~vIgLGsGSTv~~l~~~L~ 80 (274)
+|-+++...+-.-...|.+++++++ +|++||||+|-|..--+-+|+
T Consensus 254 vt~~~pt~~e~~dL~FAwkv~k~vKSNAIv~ak~~~tvGiGaGQ~sRVda~~iA 307 (311)
T smart00798 254 VTKRQPTEEELKDLLFAWKVVKHVKSNAIVYAKDGQTVGIGAGQMSRVDSARIA 307 (311)
T ss_pred cCCCCCCHHHHHHhHHHHHHHhhcccceEEEEeCCeEEEecCCCccHHHHHHHH
Confidence 3335555444445567888999885 789999999988765555443
No 70
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=51.85 E-value=26 Score=25.53 Aligned_cols=71 Identities=14% Similarity=0.099 Sum_probs=40.7
Q ss_pred cccccEEEecccHHHHHHHHHHhHhhcCCeeEEeecCCCCceEe--CCCCEEEEeeC--CCCCCChHHHHHHhcCCCcEE
Q 024004 174 KLAMPVEVVQFCWKFNLVRLQDLFRELGCEAKLREGENGKPYIT--DNFNYIIDLYF--ETPIKDGVSAGTEIGKLEGVV 249 (274)
Q Consensus 174 ~~plPvEV~p~a~~~v~~~l~~l~~~~g~~~~lR~~~~~gp~vT--dnGN~IlD~~f--~~~i~d~~~l~~~l~~ipGVV 249 (274)
.||+.++|.-....-++..|-+.+...|+.. +.-. ..+ ++|...+++.+ .+ ......+-+.|+++|||.
T Consensus 4 ~f~~~l~i~~~dr~GlL~dI~~~i~~~~~nI--~~i~----~~~~~~~~~~~~~l~v~V~d-~~~L~~ii~~L~~i~~V~ 76 (80)
T PF13291_consen 4 SFPVRLRIEAEDRPGLLADITSVISENGVNI--RSIN----ARTNKDDGTARITLTVEVKD-LEHLNQIIRKLRQIPGVI 76 (80)
T ss_dssp -EEEEEEEEEE--TTHHHHHHHHHHCSSSEE--EEEE----EEE--ETTEEEEEEEEEESS-HHHHHHHHHHHCTSTTEE
T ss_pred EEEEEEEEEEEcCCCHHHHHHHHHHHCCCCe--EEEE----eEEeccCCEEEEEEEEEECC-HHHHHHHHHHHHCCCCee
Confidence 5778888876555555566666555556543 2211 122 36666666554 22 344566777889999998
Q ss_pred ee
Q 024004 250 EH 251 (274)
Q Consensus 250 e~ 251 (274)
+.
T Consensus 77 ~V 78 (80)
T PF13291_consen 77 SV 78 (80)
T ss_dssp EE
T ss_pred EE
Confidence 63
No 71
>PLN02891 IMP cyclohydrolase
Probab=49.80 E-value=53 Score=33.75 Aligned_cols=46 Identities=22% Similarity=0.148 Sum_probs=33.4
Q ss_pred cccccCCChHHHHHHHHHHHHhcCC--------CCCEEEECcChHHHHHHHHHh
Q 024004 35 AQAVPALTQDDLKKLAADKAVDYVK--------SGMALGLGTGSTAAFVVDRIG 80 (274)
Q Consensus 35 ~~~~~~~~~~~~K~~iA~~A~~~I~--------dg~vIgLGsGSTv~~l~~~L~ 80 (274)
+|-+++...+-+-...|.+++++++ +|++||||+|-|..--+-+|+
T Consensus 423 VT~~~Pt~~e~~DL~FAwkvvK~vKSNAIV~akd~~tvGIGaGQ~sRVda~~iA 476 (547)
T PLN02891 423 VSEKVPTESELEDAKFAWLCVKHVKSNAIVVAKNNRMLGMGSGQPNRVESLRIA 476 (547)
T ss_pred cCCCCcCHHHHHHHHHHHHHHhhccCceEEEEeCCeEEEecCCCccHHHHHHHH
Confidence 3445555555555667888999885 788999999988776666665
No 72
>COG4670 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]
Probab=49.50 E-value=22 Score=36.02 Aligned_cols=50 Identities=20% Similarity=0.313 Sum_probs=37.4
Q ss_pred HHHHHHHHHhcCCCCCEEEECcCh---HHHHHHHHHhchhhc-CCCCCeEEECC
Q 024004 47 KKLAADKAVDYVKSGMALGLGTGS---TAAFVVDRIGQLLKT-GELRDIVGIPT 96 (274)
Q Consensus 47 K~~iA~~A~~~I~dg~vIgLGsGS---Tv~~l~~~L~~~~~~-~~l~~itvVT~ 96 (274)
|..-|..|+.+|+||++|++.+-+ .-.++++.|.++..+ |-=+++|++..
T Consensus 4 K~isa~ea~~~I~DG~~vavsgf~~a~~Pe~ll~al~~r~~~tghPr~Lt~i~~ 57 (527)
T COG4670 4 KVISAQEAAALIKDGATVAVSGFNGAGCPEELLKALGERYLETGHPRDLTFISP 57 (527)
T ss_pred ccccHHHHHhhCCCCCEEEeccccccCCHHHHHHHHHHHHHhhCCCCceEEEcc
Confidence 666788999999999999997654 346788888877543 43357888754
No 73
>KOG2836 consensus Protein tyrosine phosphatase IVA1 [Signal transduction mechanisms]
Probab=47.70 E-value=70 Score=27.44 Aligned_cols=60 Identities=15% Similarity=0.127 Sum_probs=40.1
Q ss_pred ccccEEEe-----------cc--cHHHHHHHHHHhHhhcCCeeEEeecCCC--CceEeCCCCEEEEeeCCCCCCChHHH
Q 024004 175 LAMPVEVV-----------QF--CWKFNLVRLQDLFRELGCEAKLREGENG--KPYITDNFNYIIDLYFETPIKDGVSA 238 (274)
Q Consensus 175 ~plPvEV~-----------p~--a~~~v~~~l~~l~~~~g~~~~lR~~~~~--gp~vTdnGN~IlD~~f~~~i~d~~~l 238 (274)
.|-|+||- |. .+....++|++ +|.....|....- .--+-..|=.++||.|++.-+.|.++
T Consensus 6 rPAPveIsy~~MrFLIThnPtnaTln~fieELkK----ygvttvVRVCe~TYdt~~lek~GI~Vldw~f~dg~ppp~qv 80 (173)
T KOG2836|consen 6 RPAPVEISYKNMRFLITHNPTNATLNKFIEELKK----YGVTTVVRVCEPTYDTTPLEKEGITVLDWPFDDGAPPPNQV 80 (173)
T ss_pred CCCCeeeeccceEEEEecCCCchhHHHHHHHHHh----cCCeEEEEecccccCCchhhhcCceEeecccccCCCCchHH
Confidence 57788875 32 23445566655 5999999987532 33456679999999998765555443
No 74
>TIGR00355 purH phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase. Involved in purine ribonucleotide biosynthesis. The IMP cyclohydrolase activity is in the N-terminal region.
Probab=46.04 E-value=29 Score=35.35 Aligned_cols=46 Identities=24% Similarity=0.286 Sum_probs=33.3
Q ss_pred cccccCCChHHHHHHHHHHHHhcCC--------CCCEEEECcChHHHHHHHHHh
Q 024004 35 AQAVPALTQDDLKKLAADKAVDYVK--------SGMALGLGTGSTAAFVVDRIG 80 (274)
Q Consensus 35 ~~~~~~~~~~~~K~~iA~~A~~~I~--------dg~vIgLGsGSTv~~l~~~L~ 80 (274)
+|-+++...+-+-...|.+++++++ +|++||+|+|-|..--+-+|+
T Consensus 386 Vt~~~pt~~e~~dL~FAwkv~k~vKSNAIv~akd~~tvGiGaGQ~sRV~s~riA 439 (511)
T TIGR00355 386 VTKRQPTEQELIDLLFAWKVAKHVKSNAIVYAKNNMTVGVGAGQMSRVGSAKIA 439 (511)
T ss_pred eCCCCCCHHHHHHHHHHHHHHhhccCceEEEEeCCeEEEecCCCccHHHHHHHH
Confidence 4445555554555667888999885 789999999988776666665
No 75
>PRK07106 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional
Probab=45.43 E-value=31 Score=33.91 Aligned_cols=43 Identities=19% Similarity=0.351 Sum_probs=30.6
Q ss_pred ccCCChHHHHHHHHHHHHhcCC--------CCCEEEECcChHHHHHHHHHh
Q 024004 38 VPALTQDDLKKLAADKAVDYVK--------SGMALGLGTGSTAAFVVDRIG 80 (274)
Q Consensus 38 ~~~~~~~~~K~~iA~~A~~~I~--------dg~vIgLGsGSTv~~l~~~L~ 80 (274)
+++.+.+-.-...|.+++++++ +|++||||+|-+..-=+-+|+
T Consensus 206 ~~pt~~e~~DL~fAw~vvK~vkSNaIv~akdg~tvGIGaGQ~SRVd~~rlA 256 (390)
T PRK07106 206 KELPDEAKRDLIIALITLKYTQSNSVCYAKDGQAIGIGAGQQSRIHCTRLA 256 (390)
T ss_pred CCcCHHHHHHHHHHHHHHHhcccceEEEEeCCeEEEeCCCCcchHHHHHHH
Confidence 4444444445567888888884 789999999988766655565
No 76
>PRK13940 glutamyl-tRNA reductase; Provisional
Probab=43.90 E-value=1.4e+02 Score=29.46 Aligned_cols=68 Identities=15% Similarity=0.243 Sum_probs=46.9
Q ss_pred CCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHH-HhCC-CcEEEcCC----CCcccEEEEccCc
Q 024004 58 VKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQA-KSLN-IPLTTLDD----HPSLDLAIDGADE 129 (274)
Q Consensus 58 I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l-~~~g-i~vi~l~~----~~~iD~afdGaD~ 129 (274)
+.+-.++-+|+|-+...++++|.+. | ..+++++.-+..-+..+ .+.+ .+++.++. ....|+.|-....
T Consensus 179 l~~kkvlviGaG~~a~~va~~L~~~---g-~~~I~V~nRt~~ra~~La~~~~~~~~~~~~~l~~~l~~aDiVI~aT~a 252 (414)
T PRK13940 179 ISSKNVLIIGAGQTGELLFRHVTAL---A-PKQIMLANRTIEKAQKITSAFRNASAHYLSELPQLIKKADIIIAAVNV 252 (414)
T ss_pred ccCCEEEEEcCcHHHHHHHHHHHHc---C-CCEEEEECCCHHHHHHHHHHhcCCeEecHHHHHHHhccCCEEEECcCC
Confidence 4555699999999999999999753 2 24688888887776655 4444 55554433 2456887776644
No 77
>PRK04148 hypothetical protein; Provisional
Probab=43.58 E-value=94 Score=26.02 Aligned_cols=42 Identities=24% Similarity=0.372 Sum_probs=27.4
Q ss_pred EEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEE
Q 024004 63 ALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLT 112 (274)
Q Consensus 63 vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi 112 (274)
.||+|+|..+ ++.|.+. | .+++++-.|......+++.+.+++
T Consensus 22 eIG~GfG~~v---A~~L~~~---G--~~ViaIDi~~~aV~~a~~~~~~~v 63 (134)
T PRK04148 22 ELGIGFYFKV---AKKLKES---G--FDVIVIDINEKAVEKAKKLGLNAF 63 (134)
T ss_pred EEEecCCHHH---HHHHHHC---C--CEEEEEECCHHHHHHHHHhCCeEE
Confidence 5677766533 3444432 2 379999999988777777776554
No 78
>KOG2828 consensus Acetyl-CoA hydrolase [Energy production and conversion]
Probab=43.15 E-value=49 Score=32.76 Aligned_cols=115 Identities=21% Similarity=0.145 Sum_probs=72.3
Q ss_pred HHHHHHHHHhcCCCCCEEEECcC-hHHHHHHHHHhchhhcCCCCCeEEECCcHHHH--------HHHH------------
Q 024004 47 KKLAADKAVDYVKSGMALGLGTG-STAAFVVDRIGQLLKTGELRDIVGIPTSKRTE--------EQAK------------ 105 (274)
Q Consensus 47 K~~iA~~A~~~I~dg~vIgLGsG-STv~~l~~~L~~~~~~~~l~~itvVT~S~~ta--------~~l~------------ 105 (274)
|.-=..+|..+|+.++.+|+|+= +|-..+++.+.++..++.|..++++--|..-. ...+
T Consensus 25 k~V~~~ea~~~vks~~f~~vg~~aa~PnaLl~a~~~~~~s~nLn~~~~~h~~~~g~e~~~pe~~~~iq~ns~fvg~~irK 104 (454)
T KOG2828|consen 25 KLVPLFEAGAYVKSSGFTGVGGPAATPNALLEAVEKNNLSGNLNFILFVHASLGGEENAWPEYDMIIQRNSHFVGKPIRK 104 (454)
T ss_pred cccChhhcccccccCCceeecccccCcHHHHHHHHHhccccccceeEEeeeccCCccccChhhhhhhhcCccccCcchHH
Confidence 44445678899999999999976 77788999998887788887677776554321 1111
Q ss_pred --hCCC-cEE--Ec--------CCCCcccEEEEccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcC
Q 024004 106 --SLNI-PLT--TL--------DDHPSLDLAIDGADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADE 163 (274)
Q Consensus 106 --~~gi-~vi--~l--------~~~~~iD~afdGaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~ 163 (274)
..|. .-. .| .+...+|.+|+-+.-.|.++.+.-|-.---.+ ..+.+|++.|..+..
T Consensus 105 ~Vn~Gradf~pifLsevP~l~t~G~~~~d~alI~vSppde~Gfc~lG~sVdts~--aa~t~skkIIa~VNt 173 (454)
T KOG2828|consen 105 AVNLGRADFFPIFLSEVPQLLTYGTYTLDFALIEVSPPDEDGFCVLGTSVDTSP--AAATNSKKIIAEVNT 173 (454)
T ss_pred HhhcCccccchhHHHhchHHHhcceeeceeEEEEecCCccCCceeccCCccchH--HHHhccchheehhcc
Confidence 1110 000 01 12357999999999999886665443211222 234567777766653
No 79
>PF01808 AICARFT_IMPCHas: AICARFT/IMPCHase bienzyme; InterPro: IPR002695 This is a family of bifunctional enzymes catalysing the last two steps in de novo purine biosynthesis. The bifunctional enzyme is found in both prokaryotes and eukaryotes. The second last step is catalysed by 5-aminoimidazole-4-carboxamide ribonucleotide formyltransferase 2.1.2.3 from EC (AICARFT), this enzyme catalyses the formylation of AICAR with 10-formyl-tetrahydrofolate to yield FAICAR and tetrahydrofolate []. The last step is catalysed by IMP (Inosine monophosphate) cyclohydrolase 3.5.4.10 from EC (IMPCHase), cyclizing FAICAR (5-formylaminoimidazole-4-carboxamide ribonucleotide) to IMP [].; GO: 0003937 IMP cyclohydrolase activity, 0004643 phosphoribosylaminoimidazolecarboxamide formyltransferase activity, 0006164 purine nucleotide biosynthetic process; PDB: 1ZCZ_A 1PL0_D 1PKX_C 1P4R_B 1G8M_B 2IU3_B 2B1I_A 2B1G_D 1OZ0_B 1M9N_B ....
Probab=40.54 E-value=26 Score=33.53 Aligned_cols=45 Identities=27% Similarity=0.301 Sum_probs=28.9
Q ss_pred cccccCCChHHHHHHHHHHHHhcCC--------CCCEEEECcChHHHHHHHHH
Q 024004 35 AQAVPALTQDDLKKLAADKAVDYVK--------SGMALGLGTGSTAAFVVDRI 79 (274)
Q Consensus 35 ~~~~~~~~~~~~K~~iA~~A~~~I~--------dg~vIgLGsGSTv~~l~~~L 79 (274)
+|-+++...+-.-...|.+++++++ +|++||||+|-|..--+-+|
T Consensus 258 VT~~~Pt~~e~~dL~FAwkv~k~vKSNAIv~ak~~~tvGIGaGQ~sRVda~~i 310 (315)
T PF01808_consen 258 VTKRQPTEEELEDLLFAWKVVKHVKSNAIVLAKDGQTVGIGAGQMSRVDAARI 310 (315)
T ss_dssp ESSS---HHHHHHHHHHHHHHHCSSSSEEEEEETTEEEEEEESSSSHHHHHHH
T ss_pred ecCCCCCHHHHHHHHHHHHHHhhcccceEEEEeCCeEEEeCCCCcchHHHHHH
Confidence 4444555443444567889999985 78899999997765544444
No 80
>PF07021 MetW: Methionine biosynthesis protein MetW; InterPro: IPR010743 This family consists of several bacterial and one archaeal methionine biosynthesis MetW proteins. Biosynthesis of methionine from homoserine in Pseudomonas putida takes place in three steps. The first step is the acylation of homoserine to yield an acyl-L-homoserine. This reaction is catalysed by the products of the metXW genes and is equivalent to the first step in enterobacteria, Gram-positive bacteria and fungi, except that in these microorganisms the reaction is catalysed by a single polypeptide (the product of the metA gene in Escherichia coli and the met5 gene product in Neurospora crassa). In P. putida, as in Gram-positive bacteria and certain fungi, the second and third steps are a direct sulphydrylation that converts the O-acyl-L-homoserine into homocysteine and further methylation to yield methionine. The latter reaction can be mediated by either of the two methionine synthetases present in the cells [].
Probab=39.71 E-value=1.3e+02 Score=26.96 Aligned_cols=137 Identities=20% Similarity=0.317 Sum_probs=74.6
Q ss_pred HhcCCCCC-EEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEcCC---C-----CcccEEEE
Q 024004 55 VDYVKSGM-ALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTLDD---H-----PSLDLAID 125 (274)
Q Consensus 55 ~~~I~dg~-vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l~~---~-----~~iD~afd 125 (274)
+++|++|. |+=||.|.-. +.++|.+. + . -....|-.+.+-...|.+.|++|+..+- + ..+|.+|.
T Consensus 8 ~~~I~pgsrVLDLGCGdG~--LL~~L~~~-k--~-v~g~GvEid~~~v~~cv~rGv~Viq~Dld~gL~~f~d~sFD~VIl 81 (193)
T PF07021_consen 8 AEWIEPGSRVLDLGCGDGE--LLAYLKDE-K--Q-VDGYGVEIDPDNVAACVARGVSVIQGDLDEGLADFPDQSFDYVIL 81 (193)
T ss_pred HHHcCCCCEEEecCCCchH--HHHHHHHh-c--C-CeEEEEecCHHHHHHHHHcCCCEEECCHHHhHhhCCCCCccEEeh
Confidence 47999997 7777777433 44666543 1 1 2467888888888889999999986431 1 24555554
Q ss_pred ccCcccCCCCcccCcchhHHHHHHHHHhcCcEEEEEcCCcccc-c----CCCCcccccEEEecccHH-------HHHHHH
Q 024004 126 GADEVDPELNLVKGRGGALLREKMVEAASKSFVVVADESKLVS-G----LGGSKLAMPVEVVQFCWK-------FNLVRL 193 (274)
Q Consensus 126 GaD~Vd~~~~~ikg~gga~l~EKila~~S~~~IvLaD~sK~~~-~----Lg~~~~plPvEV~p~a~~-------~v~~~l 193 (274)
+- -+..+.. ....++| |...+++.|+-..---+-+ + +.| ..|+- +.+|+.|- .+.+..
T Consensus 82 sq-----tLQ~~~~-P~~vL~E--mlRVgr~~IVsFPNFg~W~~R~~l~~~G-rmPvt-~~lPy~WYdTPNih~~Ti~DF 151 (193)
T PF07021_consen 82 SQ-----TLQAVRR-PDEVLEE--MLRVGRRAIVSFPNFGHWRNRLQLLLRG-RMPVT-KALPYEWYDTPNIHLCTIKDF 151 (193)
T ss_pred Hh-----HHHhHhH-HHHHHHH--HHHhcCeEEEEecChHHHHHHHHHHhcC-CCCCC-CCCCCcccCCCCcccccHHHH
Confidence 32 1111111 2344554 3466777776553321111 1 122 22332 35566664 244555
Q ss_pred HHhHhhcCCeeEEe
Q 024004 194 QDLFRELGCEAKLR 207 (274)
Q Consensus 194 ~~l~~~~g~~~~lR 207 (274)
+++..+.|.+..-|
T Consensus 152 e~lc~~~~i~I~~~ 165 (193)
T PF07021_consen 152 EDLCRELGIRIEER 165 (193)
T ss_pred HHHHHHCCCEEEEE
Confidence 55555556665544
No 81
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=39.45 E-value=51 Score=31.50 Aligned_cols=57 Identities=16% Similarity=0.209 Sum_probs=42.4
Q ss_pred hcCCCC--CEEEECcChHHHHHHHHHhch-----hhcCCCCCeEEECCcHHHHHHHHhCCCcEE
Q 024004 56 DYVKSG--MALGLGTGSTAAFVVDRIGQL-----LKTGELRDIVGIPTSKRTEEQAKSLNIPLT 112 (274)
Q Consensus 56 ~~I~dg--~vIgLGsGSTv~~l~~~L~~~-----~~~~~l~~itvVT~S~~ta~~l~~~gi~vi 112 (274)
+.+..| |.|.+-|++|+..|.+.+.+. +......++++++=+..|+..|.+.|+++.
T Consensus 195 ~~l~~~~~d~v~FtS~stv~~f~~~l~~~~~~~~~~~~~~~~~~i~aIGp~Ta~al~~~G~~~~ 258 (381)
T PRK07239 195 DAIASRGLDAVTFTSAPAVAALLERAREMGLLDQLLAALRTDVLAACVGPVTAAPLVRAGVPTS 258 (381)
T ss_pred HHHHcCCccEEEEcCHHHHHHHHHHHHHcCChHHHHHhhccCCEEEEECHHHHHHHHHcCCCcc
Confidence 444444 899999999999999988642 100112367889999999999999998764
No 82
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=38.98 E-value=66 Score=28.49 Aligned_cols=48 Identities=10% Similarity=-0.153 Sum_probs=35.8
Q ss_pred CEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCC
Q 024004 62 MALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNI 109 (274)
Q Consensus 62 ~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi 109 (274)
++|-+-|++|+..|.+.++.......+.++++|.-|..|+..+.+.+.
T Consensus 172 d~i~f~S~~~~~~f~~~~~~~~~~~~l~~~~~v~Ig~~ta~al~~~~~ 219 (240)
T PRK09189 172 DAVLLYSRVAARRFFALMRLSIAPPADEKTRFLCLSARVAAALPASLR 219 (240)
T ss_pred CEEEEeCHHHHHHHHHHHhhhcCcccccccCeEEeCHHHHHHHhhccc
Confidence 899999999999999988632111122467789999999998876653
No 83
>cd05213 NAD_bind_Glutamyl_tRNA_reduct NADP-binding domain of glutamyl-tRNA reductase. Glutamyl-tRNA reductase catalyzes the conversion of glutamyl-tRNA to glutamate-1-semialdehyde, initiating the synthesis of tetrapyrrole. Whereas tRNAs are generally associated with peptide bond formation in protein translation, here the tRNA activates glutamate in the initiation of tetrapyrrole biosynthesis in archaea, plants and many bacteria. In the first step, activated glutamate is reduced to glutamate-1-semi-aldehyde via the NADPH dependent glutamyl-tRNA reductase. Glutamyl-tRNA reductase forms a V-shaped dimer. Each monomer has 3 domains: an N-terminal catalytic domain, a classic nucleotide binding domain, and a C-terminal dimerization domain. Although the representative structure 1GPJ lacks a bound NADPH, a theoretical binding pocket has been described. (PMID 11172694). Amino acid dehydrogenase (DH)-like NAD(P)-binding domains are members of the Rossmann fold superfamily and include glutamate,
Probab=38.40 E-value=2.9e+02 Score=25.71 Aligned_cols=66 Identities=21% Similarity=0.285 Sum_probs=43.6
Q ss_pred CCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHH-HHHhCCCcEEEcCC----CCcccEEEEccC
Q 024004 59 KSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEE-QAKSLNIPLTTLDD----HPSLDLAIDGAD 128 (274)
Q Consensus 59 ~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~-~l~~~gi~vi~l~~----~~~iD~afdGaD 128 (274)
..-.++.+|+|.....+++.|... | ..+++++..+..-+. .+.+.|..++..+. ....|+.|....
T Consensus 177 ~~~~V~ViGaG~iG~~~a~~L~~~---g-~~~V~v~~r~~~ra~~la~~~g~~~~~~~~~~~~l~~aDvVi~at~ 247 (311)
T cd05213 177 KGKKVLVIGAGEMGELAAKHLAAK---G-VAEITIANRTYERAEELAKELGGNAVPLDELLELLNEADVVISATG 247 (311)
T ss_pred cCCEEEEECcHHHHHHHHHHHHHc---C-CCEEEEEeCCHHHHHHHHHHcCCeEEeHHHHHHHHhcCCEEEECCC
Confidence 444588899999999999998652 2 246888888877554 44666765554322 234677776554
No 84
>COG0138 PurH AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]
Probab=38.02 E-value=48 Score=33.69 Aligned_cols=45 Identities=29% Similarity=0.303 Sum_probs=31.3
Q ss_pred ccccCCChHHHHHHHHHHHHhcCC--------CCCEEEECcChHHHHHHHHHh
Q 024004 36 QAVPALTQDDLKKLAADKAVDYVK--------SGMALGLGTGSTAAFVVDRIG 80 (274)
Q Consensus 36 ~~~~~~~~~~~K~~iA~~A~~~I~--------dg~vIgLGsGSTv~~l~~~L~ 80 (274)
|-+++..++-.-...|.+++++++ +|++||||.|-+..-=.-+|+
T Consensus 391 Tkr~pt~~e~~dl~Fawkv~k~vKSNaIv~akd~~TvGiGaGQ~sRV~sariA 443 (515)
T COG0138 391 TKRQPTEQELEDLLFAWKVVKHVKSNAIVYAKDGQTVGIGAGQMSRVDSARIA 443 (515)
T ss_pred cCCCCCHHHHHHHHHHHHHHhHhccceEEEEcCCeEEEecCCccchHHHHHHH
Confidence 335544454445568899999985 789999999977655445554
No 85
>PRK11613 folP dihydropteroate synthase; Provisional
Probab=38.01 E-value=1.1e+02 Score=28.82 Aligned_cols=60 Identities=20% Similarity=0.140 Sum_probs=37.4
Q ss_pred HHHHHHHhcCCCC-CEEEECcChH---------------HHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEE
Q 024004 49 LAADKAVDYVKSG-MALGLGTGST---------------AAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLT 112 (274)
Q Consensus 49 ~iA~~A~~~I~dg-~vIgLGsGST---------------v~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi 112 (274)
.+.++|.+++++| ++|=||+-|| +.-+++.|.+.. . ..+.+=|....++..+-+.|..++
T Consensus 39 ~a~~~a~~~~~~GAdIIDIGgeSTrPg~~~v~~eeE~~Rv~pvI~~l~~~~---~-~~ISIDT~~~~va~~AL~~GadiI 114 (282)
T PRK11613 39 DAVKHANLMINAGATIIDVGGESTRPGAAEVSVEEELDRVIPVVEAIAQRF---E-VWISVDTSKPEVIRESAKAGAHII 114 (282)
T ss_pred HHHHHHHHHHHCCCcEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHhcC---C-CeEEEECCCHHHHHHHHHcCCCEE
Confidence 3667799999997 6999996555 333344443211 1 136666777777777766666554
No 86
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=37.66 E-value=54 Score=28.46 Aligned_cols=55 Identities=18% Similarity=0.081 Sum_probs=41.9
Q ss_pred CCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEE
Q 024004 59 KSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTT 113 (274)
Q Consensus 59 ~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~ 113 (274)
.+-+.|-+-|++++..+.+.+.+.-....+.+..+++-+..|+..+++.|+....
T Consensus 176 ~~~d~ivftS~~~v~~~~~~~~~~~~~~~~~~~~~~aiG~~Ta~~l~~~G~~~~~ 230 (249)
T PRK05928 176 GEVDAVIFTSPSTVRAFFSLAPELGRREWLLSCKAVVIGERTAEALRELGIKVII 230 (249)
T ss_pred CCCCEEEECCHHHHHHHHHHhcccchhHHHhCCeEEEeCHHHHHHHHHcCCCcce
Confidence 4679999999999999999886421000123678999999999999999976443
No 87
>cd00739 DHPS DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS.
Probab=36.53 E-value=1.2e+02 Score=27.85 Aligned_cols=60 Identities=17% Similarity=0.108 Sum_probs=39.5
Q ss_pred HHHHHHHHhcCCCC-CEEEECcChH---------------HHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcE
Q 024004 48 KLAADKAVDYVKSG-MALGLGTGST---------------AAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPL 111 (274)
Q Consensus 48 ~~iA~~A~~~I~dg-~vIgLGsGST---------------v~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~v 111 (274)
..+.++|.+++++| ++|=||+-|| +..+++.|.+.. . ..+.+=|.+.+++..+-+.|..+
T Consensus 24 ~~~~~~a~~~~~~GAdiIDIG~~st~p~~~~i~~~~E~~rl~~~v~~i~~~~---~-~plSIDT~~~~v~e~al~~G~~i 99 (257)
T cd00739 24 DKAVAHAEKMIAEGADIIDIGGESTRPGADPVSVEEELERVIPVLEALRGEL---D-VLISVDTFRAEVARAALEAGADI 99 (257)
T ss_pred HHHHHHHHHHHHCCCCEEEECCCcCCCCCCCCCHHHHHHHHHHHHHHHHhcC---C-CcEEEeCCCHHHHHHHHHhCCCE
Confidence 34566788999998 6999997666 455556554321 1 23666677777777776666544
No 88
>PF02353 CMAS: Mycolic acid cyclopropane synthetase; InterPro: IPR003333 This entry represents mycolic acid cyclopropane synthases and related enzymes, including CmaA1, CmaA2 (cyclopropane mycolic acid synthase A1 and A2) and MmaA1-4 (methoxymycolic acid synthase A1-4). All are thought to be S-adenosyl-L-methionine (SAM) utilising methyltransferases []. Mycolic acid cyclopropane synthase or cyclopropane-fatty-acyl-phospholipid synthase (CFA synthase) 2.1.1.79 from EC catalyses the reaction: S-adenosyl-L-methionine + phospholipid olefinic fatty acid -> S-adenosyl-L-homocysteine + phospholipid cyclopropane fatty acid. The major mycolic acid produced by Mycobacterium tuberculosis contains two cis-cyclopropanes in the meromycolate chain. Cyclopropanation may contribute to the structural integrity of the cell wall complex [].; GO: 0008610 lipid biosynthetic process; PDB: 3HA5_A 2FK8_A 3HA7_A 3HA3_A 2FK7_A 1KPG_D 1KP9_B 1KPH_D 3VC2_E 3VC1_D ....
Probab=35.99 E-value=1.4e+02 Score=27.68 Aligned_cols=62 Identities=24% Similarity=0.385 Sum_probs=33.5
Q ss_pred CCChHHHHHHHHHHHHhc--CCCCC-E--EEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHH----HhCCC
Q 024004 40 ALTQDDLKKLAADKAVDY--VKSGM-A--LGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQA----KSLNI 109 (274)
Q Consensus 40 ~~~~~~~K~~iA~~A~~~--I~dg~-v--IgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l----~~~gi 109 (274)
..+.+++-.+-....++. +++|+ + ||-|-|+++.++++.-+ -+++.||.|..-...+ ++.|+
T Consensus 40 ~~~Le~AQ~~k~~~~~~~~~l~~G~~vLDiGcGwG~~~~~~a~~~g--------~~v~gitlS~~Q~~~a~~~~~~~gl 110 (273)
T PF02353_consen 40 DDTLEEAQERKLDLLCEKLGLKPGDRVLDIGCGWGGLAIYAAERYG--------CHVTGITLSEEQAEYARERIREAGL 110 (273)
T ss_dssp T--HHHHHHHHHHHHHTTTT--TT-EEEEES-TTSHHHHHHHHHH----------EEEEEES-HHHHHHHHHHHHCSTS
T ss_pred hhhHHHHHHHHHHHHHHHhCCCCCCEEEEeCCCccHHHHHHHHHcC--------cEEEEEECCHHHHHHHHHHHHhcCC
Confidence 344444433333334433 78999 3 46666788888888653 2599999999876655 34564
No 89
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=35.73 E-value=2.2e+02 Score=25.31 Aligned_cols=78 Identities=21% Similarity=0.313 Sum_probs=42.5
Q ss_pred CChHHHHHHHHHHHHhcCCCCC---EEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHH----HhCCCc-EE
Q 024004 41 LTQDDLKKLAADKAVDYVKSGM---ALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQA----KSLNIP-LT 112 (274)
Q Consensus 41 ~~~~~~K~~iA~~A~~~I~dg~---vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l----~~~gi~-vi 112 (274)
|+.++. +++...+++. ++|+ -||-||||-+.+++ .+... ..++.|--+....... ++.|++ +.
T Consensus 17 ~TK~EI-Ral~ls~L~~-~~g~~l~DIGaGtGsi~iE~a-~~~p~------~~v~AIe~~~~a~~~~~~N~~~fg~~n~~ 87 (187)
T COG2242 17 MTKEEI-RALTLSKLRP-RPGDRLWDIGAGTGSITIEWA-LAGPS------GRVIAIERDEEALELIERNAARFGVDNLE 87 (187)
T ss_pred CcHHHH-HHHHHHhhCC-CCCCEEEEeCCCccHHHHHHH-HhCCC------ceEEEEecCHHHHHHHHHHHHHhCCCcEE
Confidence 555333 4455555554 4554 46778888887777 44432 2577777766555443 344553 22
Q ss_pred Ec--------CCCCcccEEEEcc
Q 024004 113 TL--------DDHPSLDLAIDGA 127 (274)
Q Consensus 113 ~l--------~~~~~iD~afdGa 127 (274)
.. ....++|.+|+|-
T Consensus 88 vv~g~Ap~~L~~~~~~daiFIGG 110 (187)
T COG2242 88 VVEGDAPEALPDLPSPDAIFIGG 110 (187)
T ss_pred EEeccchHhhcCCCCCCEEEECC
Confidence 22 1223566666654
No 90
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=34.36 E-value=48 Score=28.78 Aligned_cols=52 Identities=12% Similarity=0.076 Sum_probs=41.2
Q ss_pred CCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEE
Q 024004 59 KSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLT 112 (274)
Q Consensus 59 ~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi 112 (274)
.+-++|-+-|++++..+.+.+.+.. ..+.++.+++-|..|+..+++.|++.+
T Consensus 167 ~~~~~v~ftS~~~~~~~~~~~~~~~--~~~~~~~~~~ig~~ta~~l~~~g~~~~ 218 (231)
T PF02602_consen 167 GEIDAVVFTSPSAVRAFLELLKKNG--ALLKRVPIVAIGPRTAKALRELGFKVD 218 (231)
T ss_dssp TTTSEEEESSHHHHHHHHHHSSGHH--HHHTTSEEEESSHHHHHHHHHTT-SCS
T ss_pred CCCCEEEECCHHHHHHHHHHhHhhh--hhhhCCEEEEECHHHHHHHHHcCCCce
Confidence 3459999999999999999887520 011478999999999999999998763
No 91
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=34.27 E-value=45 Score=30.63 Aligned_cols=54 Identities=13% Similarity=0.209 Sum_probs=40.9
Q ss_pred CCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEE
Q 024004 59 KSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTT 113 (274)
Q Consensus 59 ~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~ 113 (274)
..-++|.+-||||+..|.+.+.+... ..+.++.++.-|..++..+.+.|++.+.
T Consensus 189 ~~~d~i~ftS~sav~~f~~~l~~~~~-~~l~~~~~v~is~rtA~~a~~~G~~~v~ 242 (266)
T PRK08811 189 APRSVLALSSAEALTLILQQLPDALR-RALQQRPVVASSDRLLDAAHAAGFIHVM 242 (266)
T ss_pred CCCCEEEEChHHHHHHHHHHhhhhHH-HHHhCCCEEEeCHHHHHHHHHcCCCcee
Confidence 35689999999999999988764311 1123567788999999999999986553
No 92
>TIGR00284 dihydropteroate synthase-related protein. This protein has been found so far only in the Archaea, and in particular in those archaea that lack a bacterial-type dihydropteroate synthase. The central region of this protein shows considerable homology to the amino-terminal half of dihydropteroate synthases, while the carboxyl-terminal region shows homology to the small, uncharacterized protein slr0651 of Synechocystis PCC6803.
Probab=34.24 E-value=1.2e+02 Score=30.85 Aligned_cols=62 Identities=16% Similarity=0.067 Sum_probs=44.9
Q ss_pred HHHHHHHHhcCCCC-CEEEECcChH------HHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEE
Q 024004 48 KLAADKAVDYVKSG-MALGLGTGST------AAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTT 113 (274)
Q Consensus 48 ~~iA~~A~~~I~dg-~vIgLGsGST------v~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~ 113 (274)
..+.++|.+++++| |+|=||++|| +..+++.|.+.. . ..+.+=|.+..++..+-+.|..++.
T Consensus 165 ~~i~~~A~~~~~~GADIIDIG~~st~p~~~~v~~~V~~l~~~~---~-~pISIDT~~~~v~eaAL~aGAdiIN 233 (499)
T TIGR00284 165 DGIEGLAARMERDGADMVALGTGSFDDDPDVVKEKVKTALDAL---D-SPVIADTPTLDELYEALKAGASGVI 233 (499)
T ss_pred HHHHHHHHHHHHCCCCEEEECCCcCCCcHHHHHHHHHHHHhhC---C-CcEEEeCCCHHHHHHHHHcCCCEEE
Confidence 55788899999997 7999999998 556666665421 1 2477777788888777777876553
No 93
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=34.22 E-value=1.4e+02 Score=20.85 Aligned_cols=61 Identities=13% Similarity=0.030 Sum_probs=35.0
Q ss_pred cccHHHHHHHHHHhHhhcCCeeEEeecCCCCceEeCCCCEEEEeeC--CCCCC-ChHHHHHHhcCCCcEEeeec
Q 024004 183 QFCWKFNLVRLQDLFRELGCEAKLREGENGKPYITDNFNYIIDLYF--ETPIK-DGVSAGTEIGKLEGVVEHGL 253 (274)
Q Consensus 183 p~a~~~v~~~l~~l~~~~g~~~~lR~~~~~gp~vTdnGN~IlD~~f--~~~i~-d~~~l~~~l~~ipGVVe~Gl 253 (274)
|..+..+.+.|.+. |..... ... -.+++|..-+.+.+ .+ .. ...++.+.|+++|||.+.-+
T Consensus 11 ~g~l~~I~~~la~~----~inI~~-i~~----~~~~~~~~~i~~~v~v~~-~~~~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 11 PGVLSKVLNTIAQV----RGNVLT-INQ----NIPIHGRANVTISIDTST-MNGDIDELLEELREIDGVEKVEL 74 (76)
T ss_pred CchHHHHHHHHHHc----CCCEEE-EEe----CCCCCCeEEEEEEEEcCc-hHHHHHHHHHHHhcCCCeEEEEE
Confidence 55666777777654 665431 111 01123433333333 33 44 67889999999999988543
No 94
>cd08177 MAR Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes. Maleylacetate reductases (MAR) play an important role in the degradation of aromatic compounds in aerobic microbes. In fungi and yeasts, the enzymes are involved in the catabolism of compounds such as phenol, tyrosine, benzoate, 4-hydroxybenzoate and resorcinol. In bacteria, the enzymes contribute to the degradation of resorcinol, 2,4-dihydroxybenzoate ([beta]-resorcylate) and 2,6-dihydroxybenzoate ([gamma]-resorcylate) via hydroxyquinol and maleylacetate. Maleylacetate reductases catalyze NADH- or NADPH-dependent reduction, at the carbon-carbon double bond, of maleylacetate or 2-chloromaleylacetate to 3-oxoadipate. In the case of 2-chloromaleylacetate, Maleylacetate reductases initially catalyses the NAD(P)H-dependent dechlorination to maleylacetate, which is then reduced to 3-oxoadipate. This enzyme is a homodimer. It is inhibited by thiol-blocking reagents such as p-
Probab=33.97 E-value=1.4e+02 Score=28.11 Aligned_cols=41 Identities=22% Similarity=0.270 Sum_probs=25.7
Q ss_pred CCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHH
Q 024004 59 KSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAK 105 (274)
Q Consensus 59 ~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~ 105 (274)
+...+|+||+||.. =+++.+.-.. + ..+..|||.. +..+..
T Consensus 77 ~~d~IIaiGGGs~i-D~aK~ia~~~---~-~p~i~IPTta-tgse~t 117 (337)
T cd08177 77 GADGIVAIGGGSTI-DLAKAIALRT---G-LPIIAIPTTL-SGSEMT 117 (337)
T ss_pred CCCEEEEeCCcHHH-HHHHHHHHHh---c-CCEEEEcCCc-hhhhhc
Confidence 34459999999754 4445554321 1 3588888886 666554
No 95
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=33.50 E-value=75 Score=28.55 Aligned_cols=51 Identities=20% Similarity=0.121 Sum_probs=39.8
Q ss_pred CCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEE
Q 024004 61 GMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTT 113 (274)
Q Consensus 61 g~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~ 113 (274)
-+.|-+-|++++..|.+.+++.. ..+.++.++.-|..|+..+++.|++.+.
T Consensus 183 ~d~v~ftS~~~~~~~~~~~~~~~--~~~~~~~~~~ig~~ta~a~~~~G~~~~~ 233 (255)
T PRK05752 183 LNGLVVSSGQGFEHLQQLAGADW--PELARLPLFVPSPRVAEQARAAGAQTVV 233 (255)
T ss_pred CCEEEECCHHHHHHHHHHhChhH--HHhcCceEEEeCHHHHHHHHHcCCCcee
Confidence 48899999999999998875421 1124677888999999999999986553
No 96
>PF08241 Methyltransf_11: Methyltransferase domain; InterPro: IPR013216 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Arsenite methyltransferase (2.1.1.137 from EC) which converts arsenical compounds to their methylated forms [] Biotin synthesis protein bioC, which is involved in the early stages of biotin biosyntheis [] Arginine N-methyltransferase 1, an arginine-methylating enzyme which acts on residues present in a glycine and argine-rich domain and can methylate histones [] Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Sterol 24-C-methyltransferase (2.1.1.41 from EC), shown to participate in ergosterol biosynthesis [] 3-demethylubiquinone-9 3-methyltransferase (2.1.1.64 from EC) involved in ubiquinone biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ]. ; GO: 0008168 methyltransferase activity, 0008152 metabolic process; PDB: 3CGG_B 3CCF_B 3BKW_B 2PXX_A 3I9F_A 2YQZ_B 2YR0_A 3BUS_A 3EGE_A 3G5L_B ....
Probab=33.45 E-value=43 Score=23.97 Aligned_cols=35 Identities=40% Similarity=0.578 Sum_probs=25.2
Q ss_pred EEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHh
Q 024004 64 LGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKS 106 (274)
Q Consensus 64 IgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~ 106 (274)
||.|+|.++..++++ +. .+++++..|......+++
T Consensus 3 iG~G~G~~~~~l~~~-~~-------~~v~~~D~~~~~~~~~~~ 37 (95)
T PF08241_consen 3 IGCGTGRFAAALAKR-GG-------ASVTGIDISEEMLEQARK 37 (95)
T ss_dssp ET-TTSHHHHHHHHT-TT-------CEEEEEES-HHHHHHHHH
T ss_pred ecCcCCHHHHHHHhc-cC-------CEEEEEeCCHHHHHHHHh
Confidence 678899998888776 22 379999999987776654
No 97
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=32.70 E-value=89 Score=26.70 Aligned_cols=52 Identities=17% Similarity=0.197 Sum_probs=40.8
Q ss_pred CEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEc
Q 024004 62 MALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTL 114 (274)
Q Consensus 62 ~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l 114 (274)
+.|-+-|.+++..|.+.+.+.- ...+.++++++-|..|+..|++.|++....
T Consensus 175 ~~iiftS~~~v~~f~~~~~~~~-~~~~~~~~~~aig~~t~~~l~~~g~~~~~~ 226 (239)
T cd06578 175 DAVLFTSPSTVRNLLELLGKEG-RALLKNVKIAAIGPRTAEALRELGLKVVIV 226 (239)
T ss_pred cEEEEeCHHHHHHHHHHHhhhh-hhhhcCCeEEEECHHHHHHHHHcCCCceee
Confidence 4899999999999999887421 112357889999999999999999875543
No 98
>PF05991 NYN_YacP: YacP-like NYN domain; InterPro: IPR010298 This family consists of several hypothetical bacterial proteins as well as some uncharacterised sequences from Arabidopsis thaliana. The function of this family is unknown.
Probab=32.21 E-value=1.1e+02 Score=26.17 Aligned_cols=53 Identities=15% Similarity=0.187 Sum_probs=40.0
Q ss_pred CEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEcC
Q 024004 62 MALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTLD 115 (274)
Q Consensus 62 ~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l~ 115 (274)
.+|+=..|.|+=.+|+.+.......+ .+++|||++......+...|...++..
T Consensus 69 ~Vvft~~~~tAD~~Ie~~v~~~~~~~-~~v~VVTSD~~iq~~~~~~GA~~iss~ 121 (166)
T PF05991_consen 69 EVVFTKEGETADDYIERLVRELKNRP-RQVTVVTSDREIQRAARGRGAKRISSE 121 (166)
T ss_pred EEEECCCCCCHHHHHHHHHHHhccCC-CeEEEEeCCHHHHHHHhhCCCEEEcHH
Confidence 37777888888778887766554312 479999999999888888887776543
No 99
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=31.60 E-value=1.2e+02 Score=26.04 Aligned_cols=72 Identities=21% Similarity=0.199 Sum_probs=42.2
Q ss_pred hHHHHHHHHHHHHhcCCCCCEEEE----CcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEcCCCC
Q 024004 43 QDDLKKLAADKAVDYVKSGMALGL----GTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTLDDHP 118 (274)
Q Consensus 43 ~~~~K~~iA~~A~~~I~dg~vIgL----GsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l~~~~ 118 (274)
.+++..+.|+.-++.++.|++|.| |+|-|+ |++-|...+- .+-.|.+.++.+.+.-...++++ .
T Consensus 7 ~~~~t~~lg~~l~~~l~~g~Vv~L~GdLGAGKTt--f~rgi~~~Lg----~~~~V~SPTFtlv~~Y~~~~~~l------y 74 (149)
T COG0802 7 DEEATLALGERLAEALKAGDVVLLSGDLGAGKTT--LVRGIAKGLG----VDGNVKSPTFTLVEEYEEGRLPL------Y 74 (149)
T ss_pred CHHHHHHHHHHHHhhCCCCCEEEEEcCCcCChHH--HHHHHHHHcC----CCCcccCCCeeeehhhcCCCCcE------E
Confidence 346667788888899999999985 899776 3344443211 12334555554433322223444 3
Q ss_pred cccEEEEc
Q 024004 119 SLDLAIDG 126 (274)
Q Consensus 119 ~iD~afdG 126 (274)
|+|+|=.+
T Consensus 75 H~DlYRl~ 82 (149)
T COG0802 75 HFDLYRLS 82 (149)
T ss_pred EEeeeccC
Confidence 66666655
No 100
>PRK10669 putative cation:proton antiport protein; Provisional
Probab=31.39 E-value=1.5e+02 Score=30.08 Aligned_cols=50 Identities=20% Similarity=0.229 Sum_probs=42.1
Q ss_pred CCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEc
Q 024004 60 SGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTL 114 (274)
Q Consensus 60 dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l 114 (274)
++.+|-+|.|..-..++++|.++ | .++++|.++.+....+++.|.+++.-
T Consensus 417 ~~hiiI~G~G~~G~~la~~L~~~---g--~~vvvId~d~~~~~~~~~~g~~~i~G 466 (558)
T PRK10669 417 CNHALLVGYGRVGSLLGEKLLAA---G--IPLVVIETSRTRVDELRERGIRAVLG 466 (558)
T ss_pred CCCEEEECCChHHHHHHHHHHHC---C--CCEEEEECCHHHHHHHHHCCCeEEEc
Confidence 57899999999999999998753 1 47999999999888888889887753
No 101
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=30.76 E-value=79 Score=28.47 Aligned_cols=44 Identities=18% Similarity=0.226 Sum_probs=29.6
Q ss_pred ECcChHHH--HHHHHHhchhhcCCCCCeEEECCcHHH---HHHHHh-CCCcEEEcC
Q 024004 66 LGTGSTAA--FVVDRIGQLLKTGELRDIVGIPTSKRT---EEQAKS-LNIPLTTLD 115 (274)
Q Consensus 66 LGsGSTv~--~l~~~L~~~~~~~~l~~itvVT~S~~t---a~~l~~-~gi~vi~l~ 115 (274)
.|||-|+. .+++.|.++ -++-||++...+ +..+.+ .|.+++-..
T Consensus 22 ~GSGKTaLie~~~~~L~~~------~~~aVI~~Di~t~~Da~~l~~~~g~~i~~v~ 71 (202)
T COG0378 22 PGSGKTALIEKTLRALKDE------YKIAVITGDIYTKEDADRLRKLPGEPIIGVE 71 (202)
T ss_pred CCcCHHHHHHHHHHHHHhh------CCeEEEeceeechhhHHHHHhCCCCeeEEec
Confidence 36887763 334555443 369999999988 456667 788877653
No 102
>TIGR03458 YgfH_subfam succinate CoA transferases. A closely related clade not included in this family are the Ach1p proteins of fungi which are acetyl-CoA hydrolases. This name has been applied to many of the proteins detected by this model, possibly erroneously.
Probab=29.97 E-value=84 Score=31.81 Aligned_cols=40 Identities=25% Similarity=0.517 Sum_probs=34.3
Q ss_pred hHHHHHHHHHHHHhcCC----CC------CEEEECcChHHHHHHHHHhch
Q 024004 43 QDDLKKLAADKAVDYVK----SG------MALGLGTGSTAAFVVDRIGQL 82 (274)
Q Consensus 43 ~~~~K~~iA~~A~~~I~----dg------~vIgLGsGSTv~~l~~~L~~~ 82 (274)
..+.-++||+..+++|+ || .+|=+|-|+.-..++..|.++
T Consensus 221 ~~~~~~~Ia~~va~~i~~~~~dG~~~~~~~tlQ~GiG~ipnAv~~~L~~~ 270 (485)
T TIGR03458 221 PDEVSQKIAGHLIDFLDHEVKAGRLPKNLLPLQSGVGNIANAVLAGLGDS 270 (485)
T ss_pred cCHHHHHHHHHHHHHHHHHHhcCCCCCCCCceeecCChHHHHHHHHHhcC
Confidence 34566779999999976 88 999999999999999999754
No 103
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=29.90 E-value=1.6e+02 Score=23.39 Aligned_cols=67 Identities=19% Similarity=0.176 Sum_probs=44.1
Q ss_pred ccEEEecccHHHHHHHHHHhHhhcCCeeEEeecCCCCceEeCC-CCEEEEeeCCCCCCChHHHHHHhcCCCcEEeeeccc
Q 024004 177 MPVEVVQFCWKFNLVRLQDLFRELGCEAKLREGENGKPYITDN-FNYIIDLYFETPIKDGVSAGTEIGKLEGVVEHGLFL 255 (274)
Q Consensus 177 lPvEV~p~a~~~v~~~l~~l~~~~g~~~~lR~~~~~gp~vTdn-GN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe~GlF~ 255 (274)
+-|-..|.-+..+...|-.+ .|++ -+..|+ |.+|+=+.-.+ ....-+--+.++.+|||+...|..
T Consensus 11 lVv~~~pe~l~av~~~L~~i---p~~E----------V~~~d~~GKlVVVie~~~-~~~l~~tie~i~nl~gVlav~lVy 76 (94)
T COG3062 11 LVVQAKPERLSAVKTALLAI---PGCE----------VYGEDAEGKLVVVIEAED-SETLLETIESIRNLPGVLAVSLVY 76 (94)
T ss_pred EeeecCHHHHHHHHHHHhcC---CCcE----------eeccCCCceEEEEEEcCc-hHHHHHHHHHHhcCCceeEEEEEE
Confidence 55666687777777777665 2444 345566 88888444332 344555556678999999988766
Q ss_pred cc
Q 024004 256 DM 257 (274)
Q Consensus 256 ~~ 257 (274)
..
T Consensus 77 hq 78 (94)
T COG3062 77 HQ 78 (94)
T ss_pred EE
Confidence 43
No 104
>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase. Members of this small clade are methyltransferases of the pfam08241 family and are observed within operons for the biosynthesis of pseudaminic acid, a component of exopolysaccharide and flagellin glycosyl modifications. Notable among these genomes is Pseudomonas fluorescens PfO-1. Possibly one of the two hydroxyl groups of pseudaminic acid, at positions 4 and 8 is converted to a methoxy group by this enzyme
Probab=29.41 E-value=2.4e+02 Score=24.71 Aligned_cols=96 Identities=19% Similarity=0.238 Sum_probs=49.1
Q ss_pred HHhcCCCC-CEE--EECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhC--CCcEEEcC--C---CCcccEE
Q 024004 54 AVDYVKSG-MAL--GLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSL--NIPLTTLD--D---HPSLDLA 123 (274)
Q Consensus 54 A~~~I~dg-~vI--gLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~--gi~vi~l~--~---~~~iD~a 123 (274)
++..+..+ .++ |-|+|.....+.+.++. .+++.|--|......+++. ++++...+ . ...+|++
T Consensus 37 ~l~~~~~~~~VLDiGCG~G~~~~~L~~~~~~-------~~v~giDiS~~~l~~A~~~~~~~~~~~~d~~~~~~~~sfD~V 109 (204)
T TIGR03587 37 ALNRLPKIASILELGANIGMNLAALKRLLPF-------KHIYGVEINEYAVEKAKAYLPNINIIQGSLFDPFKDNFFDLV 109 (204)
T ss_pred HHHhcCCCCcEEEEecCCCHHHHHHHHhCCC-------CeEEEEECCHHHHHHHHhhCCCCcEEEeeccCCCCCCCEEEE
Confidence 34445544 454 55555555555554332 3699999998887777552 34444321 1 1245666
Q ss_pred EEccCcccCCCCcccC-cchhHHHHHHHHHhcCcEEEEEcC
Q 024004 124 IDGADEVDPELNLVKG-RGGALLREKMVEAASKSFVVVADE 163 (274)
Q Consensus 124 fdGaD~Vd~~~~~ikg-~gga~l~EKila~~S~~~IvLaD~ 163 (274)
|...--.. +.. .-...++ -+.+.+++++++++.
T Consensus 110 ~~~~vL~h-----l~p~~~~~~l~--el~r~~~~~v~i~e~ 143 (204)
T TIGR03587 110 LTKGVLIH-----INPDNLPTAYR--ELYRCSNRYILIAEY 143 (204)
T ss_pred EECChhhh-----CCHHHHHHHHH--HHHhhcCcEEEEEEe
Confidence 63221111 111 1123333 244567788888876
No 105
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=28.52 E-value=1e+02 Score=27.73 Aligned_cols=56 Identities=16% Similarity=0.021 Sum_probs=44.2
Q ss_pred CCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEc
Q 024004 58 VKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTL 114 (274)
Q Consensus 58 I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l 114 (274)
-..-|.|-+-|++++..|.+.+...... .+.+.++++-+..|+..+.+.|++....
T Consensus 173 ~~~~d~v~ftS~~~v~~~~~~~~~~~~~-~~~~~~v~~IG~~Ta~~l~~~G~~~~~~ 228 (248)
T COG1587 173 LGEVDAVVFTSSSAVRALLALAPESGIE-FLERKRVASIGPRTAETLKELGITVDIA 228 (248)
T ss_pred hCCCCEEEEeCHHHHHHHHHHccccchh-HhhCceEEEecHHHHHHHHHcCCcceec
Confidence 3566899999999999999998764211 1235889999999999999999886443
No 106
>TIGR00460 fmt methionyl-tRNA formyltransferase. The top-scoring characterized proteins other than methionyl-tRNA formyltransferase (fmt) itself are formyltetrahydrofolate dehydrogenases. The mitochondrial methionyl-tRNA formyltransferases are so divergent that, in a multiple alignment of bacterial fmt, mitochondrial fmt, and formyltetrahydrofolate dehydrogenases, the mitochondrial fmt appears the most different. However, because both bacterial and mitochondrial fmt are included in the seed alignment, all credible fmt sequences score higher than any non-fmt sequence. This enzyme modifies Met on initiator tRNA to f-Met.
Probab=28.13 E-value=2.1e+02 Score=26.85 Aligned_cols=59 Identities=12% Similarity=0.124 Sum_probs=40.5
Q ss_pred EEEECcChHHHHHHHHHhchhhcCCCCCeEEECCc------------HHHHHHHHhCCCcEEEcCCC-----------Cc
Q 024004 63 ALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTS------------KRTEEQAKSLNIPLTTLDDH-----------PS 119 (274)
Q Consensus 63 vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S------------~~ta~~l~~~gi~vi~l~~~-----------~~ 119 (274)
++++|++.......+.|.+. + ..-+-|||.. ..+...|.++||++...... ..
T Consensus 3 Ivf~Gs~~~a~~~L~~L~~~---~-~~i~~Vvt~pd~~~~r~~~~~~~~v~~~A~~~~Ipv~~~~~~~~~~~~~~l~~~~ 78 (313)
T TIGR00460 3 IVFFGTPTFSLPVLEELRED---N-FEVVGVVTQPDKPAGRGKKLTPPPVKVLAEEKGIPVFQPEKQRQLEELPLVRELK 78 (313)
T ss_pred EEEECCCHHHHHHHHHHHhC---C-CcEEEEEcCCCCccCCCCCCCCChHHHHHHHcCCCEEecCCCCcHHHHHHHHhhC
Confidence 78999999888888888642 1 2234577653 24677888899998765432 26
Q ss_pred ccEEEE
Q 024004 120 LDLAID 125 (274)
Q Consensus 120 iD~afd 125 (274)
+|+.|-
T Consensus 79 ~Dliv~ 84 (313)
T TIGR00460 79 PDVIVV 84 (313)
T ss_pred CCEEEE
Confidence 777764
No 107
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=27.37 E-value=1.1e+02 Score=28.59 Aligned_cols=123 Identities=16% Similarity=0.237 Sum_probs=64.8
Q ss_pred CChHHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHH------H----HHHHHhCCCc
Q 024004 41 LTQDDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKR------T----EEQAKSLNIP 110 (274)
Q Consensus 41 ~~~~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~------t----a~~l~~~gi~ 110 (274)
+-..++|+++.+.+.+.+...--|..|.|++...=+-+|.+..++-+...+-++|.... . ...++..++|
T Consensus 53 ~Ls~eEr~~v~~~~v~~~~grvpviaG~g~~~t~eai~lak~a~~~Gad~il~v~PyY~k~~~~gl~~hf~~ia~a~~lP 132 (299)
T COG0329 53 TLTLEERKEVLEAVVEAVGGRVPVIAGVGSNSTAEAIELAKHAEKLGADGILVVPPYYNKPSQEGLYAHFKAIAEAVDLP 132 (299)
T ss_pred hcCHHHHHHHHHHHHHHHCCCCcEEEecCCCcHHHHHHHHHHHHhcCCCEEEEeCCCCcCCChHHHHHHHHHHHHhcCCC
Confidence 33447788899999998877655777777664444445555444444557888887651 1 1123345788
Q ss_pred EEEcCC--CCcccEEEEccCcc--cCCCCcccCcch-hHHHHHHHHHhcC-cEEEEEcC
Q 024004 111 LTTLDD--HPSLDLAIDGADEV--DPELNLVKGRGG-ALLREKMVEAASK-SFVVVADE 163 (274)
Q Consensus 111 vi~l~~--~~~iD~afdGaD~V--d~~~~~ikg~gg-a~l~EKila~~S~-~~IvLaD~ 163 (274)
++..+- ....|+..+-.-.+ .++.--+|...| ....++++...-+ .+.++.-.
T Consensus 133 vilYN~P~~tg~~l~~e~i~~la~~~nivgiKd~~gd~~~~~~~~~~~~~~~f~v~~G~ 191 (299)
T COG0329 133 VILYNIPSRTGVDLSPETIARLAEHPNIVGVKDSSGDLDRLEEIIAALGDRDFIVLSGD 191 (299)
T ss_pred EEEEeCccccCCCCCHHHHHHHhcCCCEEEEEeCCcCHHHHHHHHHhcCccCeeEEeCc
Confidence 776541 22233333322222 233333665544 2222344444444 34554433
No 108
>TIGR00090 iojap_ybeB iojap-like ribosome-associated protein. This model describes a widely distributed family of bacterial proteins related to iojap from plants. It includes YbeB from E. coli. The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. More recent work in bacteria suggests that the bacterial iojap-related protein physically associates with ribosomes. The function remains unknown.
Probab=27.07 E-value=1.1e+02 Score=24.06 Aligned_cols=51 Identities=10% Similarity=0.068 Sum_probs=32.0
Q ss_pred HHHHHHHHhHhhcCCeeEEeecCCC-CceEeCCCCEEEEeeCCCCCCChHHHH
Q 024004 188 FNLVRLQDLFRELGCEAKLREGENG-KPYITDNFNYIIDLYFETPIKDGVSAG 239 (274)
Q Consensus 188 ~v~~~l~~l~~~~g~~~~lR~~~~~-gp~vTdnGN~IlD~~f~~~i~d~~~l~ 239 (274)
.+.+.+.+.+...|..+..+.+.+. +.++-|-|+.++-+.-++ ..+.+.|+
T Consensus 45 aia~~v~~~~k~~~~~~~~~EG~~~~~WillD~g~ivVHif~~e-~R~~Y~LE 96 (99)
T TIGR00090 45 AIADNVEEELKEAGLKPLGVEGLEEGDWVLVDLGDVVVHIFQPE-AREFYDLE 96 (99)
T ss_pred HHHHHHHHHHHHcCCCcccccCCCCCCEEEEECCCEEEEeCChH-HhhhcCHh
Confidence 3445555555556776544443333 899999999999876554 55555544
No 109
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=25.99 E-value=2.1e+02 Score=22.56 Aligned_cols=50 Identities=10% Similarity=0.098 Sum_probs=33.2
Q ss_pred EEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEcC
Q 024004 64 LGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTLD 115 (274)
Q Consensus 64 IgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l~ 115 (274)
+.-++|-|+..+++.+.+..++.++ ++.+...|..-.... ..+..++.++
T Consensus 5 l~C~~GaSSs~la~km~~~a~~~gi-~~~i~a~~~~e~~~~-~~~~Dvill~ 54 (99)
T cd05565 5 VLCAGGGTSGLLANALNKGAKERGV-PLEAAAGAYGSHYDM-IPDYDLVILA 54 (99)
T ss_pred EECCCCCCHHHHHHHHHHHHHHCCC-cEEEEEeeHHHHHHh-ccCCCEEEEc
Confidence 5568899999999999887766655 577776666543321 2245666654
No 110
>PF01269 Fibrillarin: Fibrillarin; InterPro: IPR000692 Fibrillarin is a component of a nucleolar small nuclear ribonucleoprotein (SnRNP), functioning in vivo in ribosomal RNA processing [, ]. It is associated with U3, U8 and U13 small nuclear RNAs in mammals [] and is similar to the yeast NOP1 protein []. Fibrillarin has a well conserved sequence of around 320 amino acids, and contains 3 domains, an N-terminal Gly/Arg-rich region; a central domain resembling other RNA-binding proteins and containing an RNP-2-like consensus sequence; and a C-terminal alpha-helical domain. An evolutionarily related pre-rRNA processing protein, which lacks the Gly/Arg-rich domain, has been found in various archaebacteria.; GO: 0003723 RNA binding, 0008168 methyltransferase activity, 0006364 rRNA processing, 0008033 tRNA processing; PDB: 3PLA_E 3ID6_C 3ID5_B 1NT2_A 3NVK_J 2NNW_B 3NVM_B 3NMU_J 1PRY_A 1G8A_A ....
Probab=25.72 E-value=1.4e+02 Score=27.34 Aligned_cols=78 Identities=27% Similarity=0.313 Sum_probs=43.3
Q ss_pred HHHHHHHH-HHh--cCCCCC-EEEECc--ChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHH----Hh-CC-CcEEE
Q 024004 46 LKKLAADK-AVD--YVKSGM-ALGLGT--GSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQA----KS-LN-IPLTT 113 (274)
Q Consensus 46 ~K~~iA~~-A~~--~I~dg~-vIgLGs--GSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l----~~-~g-i~vi~ 113 (274)
.|.++|.. -++ .|++|+ +++||+ |||+..+.+-.... | -+-.|-.|......| ++ .| +|++.
T Consensus 56 SKLaAai~~Gl~~~~ik~gskVLYLGAasGTTVSHvSDIvg~~---G---~VYaVEfs~r~~rdL~~la~~R~NIiPIl~ 129 (229)
T PF01269_consen 56 SKLAAAILKGLENIPIKPGSKVLYLGAASGTTVSHVSDIVGPD---G---VVYAVEFSPRSMRDLLNLAKKRPNIIPILE 129 (229)
T ss_dssp -HHHHHHHTT-S--S--TT-EEEEETTTTSHHHHHHHHHHTTT---S---EEEEEESSHHHHHHHHHHHHHSTTEEEEES
T ss_pred hHHHHHHHcCccccCCCCCCEEEEecccCCCccchhhhccCCC---C---cEEEEEecchhHHHHHHHhccCCceeeeec
Confidence 35555443 222 456774 888985 79999998877632 2 488999999776544 22 23 23332
Q ss_pred cC--------CCCcccEEEEccCc
Q 024004 114 LD--------DHPSLDLAIDGADE 129 (274)
Q Consensus 114 l~--------~~~~iD~afdGaD~ 129 (274)
-. -+..+|+.|-...+
T Consensus 130 DAr~P~~Y~~lv~~VDvI~~DVaQ 153 (229)
T PF01269_consen 130 DARHPEKYRMLVEMVDVIFQDVAQ 153 (229)
T ss_dssp -TTSGGGGTTTS--EEEEEEE-SS
T ss_pred cCCChHHhhcccccccEEEecCCC
Confidence 11 12467888876654
No 111
>PF05729 NACHT: NACHT domain
Probab=25.42 E-value=1.3e+02 Score=23.94 Aligned_cols=77 Identities=19% Similarity=0.201 Sum_probs=40.1
Q ss_pred cEEEEccCcccCCCCc-ccCcchhHHHHHHHHH--hcCcEEEEEcCCcccccCCC-CcccccEEEecccHHHHHHHHHHh
Q 024004 121 DLAIDGADEVDPELNL-VKGRGGALLREKMVEA--ASKSFVVVADESKLVSGLGG-SKLAMPVEVVQFCWKFNLVRLQDL 196 (274)
Q Consensus 121 D~afdGaD~Vd~~~~~-ikg~gga~l~EKila~--~S~~~IvLaD~sK~~~~Lg~-~~~plPvEV~p~a~~~v~~~l~~l 196 (274)
=+.+||.|++..+... -+..--..+. ..+.. ..+-.++++-.+.-...+.. ..-.-.+++.|+.-+.+.+-+++.
T Consensus 84 llilDglDE~~~~~~~~~~~~~~~~l~-~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 162 (166)
T PF05729_consen 84 LLILDGLDELEEQDQSQERQRLLDLLS-QLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLRKY 162 (166)
T ss_pred EEEEechHhcccchhhhHHHHHHHHHH-HHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHHHH
Confidence 3899999999764332 0111112222 23333 22333444433332222211 012256899999999998888876
Q ss_pred Hh
Q 024004 197 FR 198 (274)
Q Consensus 197 ~~ 198 (274)
|.
T Consensus 163 f~ 164 (166)
T PF05729_consen 163 FS 164 (166)
T ss_pred hh
Confidence 53
No 112
>PF14903 WG_beta_rep: WG containing repeat
Probab=25.06 E-value=57 Score=19.68 Aligned_cols=16 Identities=25% Similarity=0.432 Sum_probs=14.1
Q ss_pred eEeCCCCEEEEeeCCC
Q 024004 215 YITDNFNYIIDLYFET 230 (274)
Q Consensus 215 ~vTdnGN~IlD~~f~~ 230 (274)
++..+||.|++..|+.
T Consensus 3 ~id~~G~~vi~~~yd~ 18 (35)
T PF14903_consen 3 YIDKNGKIVIPPKYDE 18 (35)
T ss_pred EEeCCCCEEEEccccC
Confidence 6888999999999875
No 113
>PRK04998 hypothetical protein; Provisional
Probab=24.79 E-value=3.2e+02 Score=20.85 Aligned_cols=70 Identities=13% Similarity=0.200 Sum_probs=40.6
Q ss_pred ccc--ccEEEecccHHHHHHHHHHhHhhcC---CeeEEeecCCCCceEeCCCCEEEEeeCCCCCCChHHHHHHhcCCCcE
Q 024004 174 KLA--MPVEVVQFCWKFNLVRLQDLFRELG---CEAKLREGENGKPYITDNFNYIIDLYFETPIKDGVSAGTEIGKLEGV 248 (274)
Q Consensus 174 ~~p--lPvEV~p~a~~~v~~~l~~l~~~~g---~~~~lR~~~~~gp~vTdnGN~IlD~~f~~~i~d~~~l~~~l~~ipGV 248 (274)
.|| -|+-|+-.+-....+.+.+++.... ..+..|.+++ |-|+| +-+.+...+ -....++-++|+.+|||
T Consensus 11 efPc~~~~Kvig~~~~~~~~~v~~v~~~~~~~~~~~~~r~S~~-GkY~S----vtv~v~v~s-~eq~~~iY~~L~~~~~V 84 (88)
T PRK04998 11 EFPCSFTYKVMGLARPELVDQVVEVVQRHAPGDYTPTVKPSSK-GNYHS----VSITITATS-IEQVETLYEELAKIEGV 84 (88)
T ss_pred cCCCCceEEEEEeCcHhHHHHHHHHHHHhCCCCCCceEccCCC-CEEEE----EEEEEEECC-HHHHHHHHHHHhcCCCE
Confidence 455 6777765555566666666664431 1234454332 44444 224455443 34567788999999999
Q ss_pred E
Q 024004 249 V 249 (274)
Q Consensus 249 V 249 (274)
.
T Consensus 85 ~ 85 (88)
T PRK04998 85 R 85 (88)
T ss_pred E
Confidence 5
No 114
>PF04560 RNA_pol_Rpb2_7: RNA polymerase Rpb2, domain 7; InterPro: IPR007641 RNA polymerases catalyse the DNA-dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA polymerase. This domain comprised of the structural domains anchor and clamp. The clamp region (C-terminal) contains a zinc-binding motif. The clamp region is named due to its interaction with the clamp domain found in Rpb1. The domain also contains a region termed switch 4. The switches within the polymerase are thought to signal different stages of transcription [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C 3AOH_H 1IW7_M 2O5J_C 2CW0_M 2O5I_M ....
Probab=24.69 E-value=1.2e+02 Score=23.13 Aligned_cols=59 Identities=12% Similarity=0.319 Sum_probs=37.8
Q ss_pred hhHHHHHHHHHhcCcEEEEEcCC-cccccCCCCcccccEEE-ecccHHHHHHHHHHhHhhcCCeeEE
Q 024004 142 GALLREKMVEAASKSFVVVADES-KLVSGLGGSKLAMPVEV-VQFCWKFNLVRLQDLFRELGCEAKL 206 (274)
Q Consensus 142 ga~l~EKila~~S~~~IvLaD~s-K~~~~Lg~~~~plPvEV-~p~a~~~v~~~l~~l~~~~g~~~~l 206 (274)
...++|++.. .|+.+.+-+... ..-....+ ..+-+..+ +|++++....+|..+ |.++++
T Consensus 19 s~~L~erl~~-~SD~~~~~vc~~cg~~~~~~~-~~~~~~~~~ipy~~klL~~EL~sm----~I~~~~ 79 (81)
T PF04560_consen 19 SFLLKERLFD-KSDKYEIDVCSRCGSIASICK-GKPEVKKIEIPYSFKLLIQELRSM----GIKIRI 79 (81)
T ss_dssp HHHHHHHHTT-TTTEEEEEEECCCHHHHHTTT-TSSSEEEEEEEHHHHHHHHHHHCT----TEEEEE
T ss_pred HHHHHHHhcC-CCcCcchhhhccCCCceeEEC-CCCeEEeeeCCHHHHHHHHHHHHC----cCceEE
Confidence 5678887664 688666555443 32222222 23455666 799999999999886 766654
No 115
>cd04901 ACT_3PGDH C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. The C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In Escherichia coli, the SerA 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. In the homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active site is postulated to involve the tethering of the regulatory domains together to create a rigid quaternary structure with a solvent-
Probab=24.63 E-value=1.2e+02 Score=20.82 Aligned_cols=30 Identities=3% Similarity=-0.030 Sum_probs=22.9
Q ss_pred CCEEEEeeCCCCCCChHHHHHHhcCCCcEEee
Q 024004 220 FNYIIDLYFETPIKDGVSAGTEIGKLEGVVEH 251 (274)
Q Consensus 220 GN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe~ 251 (274)
|..++.+.++. ..++++-++|+++|||.+.
T Consensus 37 ~~a~~~~~~~~--~~l~~li~~l~~~~~V~~v 66 (69)
T cd04901 37 EIGYVVIDIDS--EVSEELLEALRAIPGTIRV 66 (69)
T ss_pred CEEEEEEEcCC--CCCHHHHHHHHcCCCeEEE
Confidence 55555566654 3789999999999999874
No 116
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=24.61 E-value=70 Score=30.00 Aligned_cols=37 Identities=22% Similarity=0.245 Sum_probs=30.8
Q ss_pred EEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHh
Q 024004 63 ALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKS 106 (274)
Q Consensus 63 vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~ 106 (274)
+||.|.|+|..++.++... ..+++|-=..++...+++
T Consensus 82 iiGgGdG~tlRevlkh~~v-------e~i~~VEID~~Vi~~ar~ 118 (282)
T COG0421 82 IIGGGDGGTLREVLKHLPV-------ERITMVEIDPAVIELARK 118 (282)
T ss_pred EECCCccHHHHHHHhcCCc-------ceEEEEEcCHHHHHHHHH
Confidence 7888888999999998753 369999999999888865
No 117
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=24.46 E-value=1.8e+02 Score=25.89 Aligned_cols=53 Identities=19% Similarity=0.165 Sum_probs=35.1
Q ss_pred CCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHH----HHHhCCC-cEEE
Q 024004 59 KSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEE----QAKSLNI-PLTT 113 (274)
Q Consensus 59 ~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~----~l~~~gi-~vi~ 113 (274)
.+=|.||+|+|-+...+++.+.++++.|+. +.+=...++++. .+++.|. +++-
T Consensus 101 ~~~daiFIGGg~~i~~ile~~~~~l~~ggr--lV~naitlE~~~~a~~~~~~~g~~ei~~ 158 (187)
T COG2242 101 PSPDAIFIGGGGNIEEILEAAWERLKPGGR--LVANAITLETLAKALEALEQLGGREIVQ 158 (187)
T ss_pred CCCCEEEECCCCCHHHHHHHHHHHcCcCCe--EEEEeecHHHHHHHHHHHHHcCCceEEE
Confidence 357899999999999999999988876542 322222333332 3456777 5443
No 118
>COG0371 GldA Glycerol dehydrogenase and related enzymes [Energy production and conversion]
Probab=24.29 E-value=1.7e+02 Score=28.62 Aligned_cols=50 Identities=20% Similarity=0.230 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHH
Q 024004 45 DLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRT 100 (274)
Q Consensus 45 ~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~t 100 (274)
++-+++++++-+ .+..-+||+|+|++. =.+++++.++. ..+..|||+-.+
T Consensus 71 ~ev~~~~~~~~~-~~~d~vIGVGGGk~i-D~aK~~A~~~~----~pfIsvPT~AS~ 120 (360)
T COG0371 71 EEVERLAAEAGE-DGADVVIGVGGGKTI-DTAKAAAYRLG----LPFISVPTIAST 120 (360)
T ss_pred HHHHHHHHHhcc-cCCCEEEEecCcHHH-HHHHHHHHHcC----CCEEEecCcccc
Confidence 333445554433 444569999999754 44566654432 368899998655
No 119
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=24.29 E-value=1.6e+02 Score=29.23 Aligned_cols=50 Identities=20% Similarity=0.388 Sum_probs=35.1
Q ss_pred CcccEEEEccC-cccCCCCc--ccCcchhHHHHHHHHHhcCcEEEEEcCCcccccCC
Q 024004 118 PSLDLAIDGAD-EVDPELNL--VKGRGGALLREKMVEAASKSFVVVADESKLVSGLG 171 (274)
Q Consensus 118 ~~iD~afdGaD-~Vd~~~~~--ikg~gga~l~EKila~~S~~~IvLaD~sK~~~~Lg 171 (274)
...|+.|-||+ +|-..+.+ +.+.|.. +++...-+..|+|+.-+|+++++.
T Consensus 180 ~~advgit~an~aiAetGtlv~~~~~gn~----R~~~~lP~~hI~vvg~~kivp~~~ 232 (432)
T TIGR00273 180 LSADIGISGCNFAIAETGSIFLVENEGNG----RLSTTLPKTHIAVMGIEKIVPTFD 232 (432)
T ss_pred hcCCEEEeccchHhhcCceEEEecCCCCc----hhhccCCCeEEEEEEHHHccCCHH
Confidence 46799999999 77666555 3333331 334455788999999999998873
No 120
>PRK03562 glutathione-regulated potassium-efflux system protein KefC; Provisional
Probab=24.21 E-value=3.3e+02 Score=28.18 Aligned_cols=49 Identities=8% Similarity=0.007 Sum_probs=41.4
Q ss_pred CCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEE
Q 024004 60 SGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTT 113 (274)
Q Consensus 60 dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~ 113 (274)
.+.+|-+|.|..-..+++.|.++ + .++++|.++.+....+++.|.+++.
T Consensus 400 ~~~vII~G~Gr~G~~va~~L~~~----g-~~vvvID~d~~~v~~~~~~g~~v~~ 448 (621)
T PRK03562 400 QPRVIIAGFGRFGQIVGRLLLSS----G-VKMTVLDHDPDHIETLRKFGMKVFY 448 (621)
T ss_pred cCcEEEEecChHHHHHHHHHHhC----C-CCEEEEECCHHHHHHHHhcCCeEEE
Confidence 47899999999999999998753 1 3699999999988888888988765
No 121
>TIGR02469 CbiT precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit. This model recognizes the CbiT methylase which is responsible, in part (along with CbiE), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiE subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.
Probab=24.19 E-value=3.1e+02 Score=20.61 Aligned_cols=41 Identities=15% Similarity=0.216 Sum_probs=25.0
Q ss_pred CCCCC-EE--EECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHH
Q 024004 58 VKSGM-AL--GLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAK 105 (274)
Q Consensus 58 I~dg~-vI--gLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~ 105 (274)
+.+++ ++ |-|+|..+.+++++.+. ..++.+-.|......++
T Consensus 17 ~~~~~~vldlG~G~G~~~~~l~~~~~~-------~~v~~vD~s~~~~~~a~ 60 (124)
T TIGR02469 17 LRPGDVLWDIGAGSGSITIEAARLVPN-------GRVYAIERNPEALRLIE 60 (124)
T ss_pred CCCCCEEEEeCCCCCHHHHHHHHHCCC-------ceEEEEcCCHHHHHHHH
Confidence 44555 43 55556666666665432 25888988887766553
No 122
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=24.06 E-value=1.1e+02 Score=22.06 Aligned_cols=46 Identities=22% Similarity=0.370 Sum_probs=33.0
Q ss_pred EEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHH------------HHHHHHhCCCcEEE
Q 024004 63 ALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKR------------TEEQAKSLNIPLTT 113 (274)
Q Consensus 63 vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~------------ta~~l~~~gi~vi~ 113 (274)
++-+|+|-+..+++..|.+. | .++|++..+.. ....+++.|+++..
T Consensus 2 vvViGgG~ig~E~A~~l~~~---g--~~vtli~~~~~~~~~~~~~~~~~~~~~l~~~gV~v~~ 59 (80)
T PF00070_consen 2 VVVIGGGFIGIELAEALAEL---G--KEVTLIERSDRLLPGFDPDAAKILEEYLRKRGVEVHT 59 (80)
T ss_dssp EEEESSSHHHHHHHHHHHHT---T--SEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEEEE
T ss_pred EEEECcCHHHHHHHHHHHHh---C--cEEEEEeccchhhhhcCHHHHHHHHHHHHHCCCEEEe
Confidence 67899999999999999764 1 36888876542 22355667877664
No 123
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=23.82 E-value=55 Score=23.14 Aligned_cols=27 Identities=30% Similarity=0.199 Sum_probs=23.7
Q ss_pred CCCCCEEEECcChHHHHHHHHHhchhh
Q 024004 58 VKSGMALGLGTGSTAAFVVDRIGQLLK 84 (274)
Q Consensus 58 I~dg~vIgLGsGSTv~~l~~~L~~~~~ 84 (274)
.+||...-+-.|+|+..+|+.|...+.
T Consensus 5 lpdG~~~~~~~g~T~~d~A~~I~~~l~ 31 (60)
T PF02824_consen 5 LPDGSIKELPEGSTVLDVAYSIHSSLA 31 (60)
T ss_dssp ETTSCEEEEETTBBHHHHHHHHSHHHH
T ss_pred CCCCCeeeCCCCCCHHHHHHHHCHHHH
Confidence 379999999999999999999986654
No 124
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=23.55 E-value=5.1e+02 Score=22.75 Aligned_cols=36 Identities=17% Similarity=0.139 Sum_probs=27.6
Q ss_pred CCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHH
Q 024004 59 KSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKR 99 (274)
Q Consensus 59 ~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ 99 (274)
+..-++-+|+|.....-++.|.+. | .++|||+....
T Consensus 8 ~gk~vlVvGgG~va~rk~~~Ll~~---g--a~VtVvsp~~~ 43 (205)
T TIGR01470 8 EGRAVLVVGGGDVALRKARLLLKA---G--AQLRVIAEELE 43 (205)
T ss_pred CCCeEEEECcCHHHHHHHHHHHHC---C--CEEEEEcCCCC
Confidence 455799999999998888888653 3 36999987653
No 125
>PRK00045 hemA glutamyl-tRNA reductase; Reviewed
Probab=23.19 E-value=3.3e+02 Score=26.63 Aligned_cols=65 Identities=20% Similarity=0.311 Sum_probs=43.4
Q ss_pred CCCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHH-HHHhCCCcEEEcCC----CCcccEEEEcc
Q 024004 59 KSGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEE-QAKSLNIPLTTLDD----HPSLDLAIDGA 127 (274)
Q Consensus 59 ~dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~-~l~~~gi~vi~l~~----~~~iD~afdGa 127 (274)
+...++.+|+|.....+++.|... | ..+++++..+..-+. ++...|..++.+.. ....|+.|...
T Consensus 181 ~~~~vlViGaG~iG~~~a~~L~~~---G-~~~V~v~~r~~~ra~~la~~~g~~~~~~~~~~~~l~~aDvVI~aT 250 (423)
T PRK00045 181 SGKKVLVIGAGEMGELVAKHLAEK---G-VRKITVANRTLERAEELAEEFGGEAIPLDELPEALAEADIVISST 250 (423)
T ss_pred cCCEEEEECchHHHHHHHHHHHHC---C-CCeEEEEeCCHHHHHHHHHHcCCcEeeHHHHHHHhccCCEEEECC
Confidence 444588899999999999988643 2 236888887776655 44566655544322 23568777754
No 126
>PF08553 VID27: VID27 cytoplasmic protein; InterPro: IPR013863 This entry represents fungal and plant proteins and contains many hypothetical proteins. Vid27p is a cytoplasmic protein of unknown function, possibly regulates import of fructose-1,6-bisphosphatase into Vacuolar Import and Degradation (Vid) vesicles and is not essential for proteasome-dependent degradation of fructose-1,6-bisphosphatase (FBPase) [, ].
Probab=23.07 E-value=1.2e+02 Score=32.84 Aligned_cols=112 Identities=16% Similarity=0.258 Sum_probs=67.1
Q ss_pred hcCcEEEEEcCC--------c--ccccCCCCcccccEEEe--cccHHHHHHHHHHhHhhcCCeeEEeec-----CCC--C
Q 024004 153 ASKSFVVVADES--------K--LVSGLGGSKLAMPVEVV--QFCWKFNLVRLQDLFRELGCEAKLREG-----ENG--K 213 (274)
Q Consensus 153 ~S~~~IvLaD~s--------K--~~~~Lg~~~~plPvEV~--p~a~~~v~~~l~~l~~~~g~~~~lR~~-----~~~--g 213 (274)
-++.+++|.|.. | |.+++|....|.|--.. |.-..+. ... .|.......+ .++ .
T Consensus 636 Tc~tyLlLi~t~~~~g~~~g~~GF~~~~~~~~kp~Pr~L~L~pe~~~~~---~~~----~~~~~~Ft~a~Fnt~~~~~E~ 708 (794)
T PF08553_consen 636 TCKTYLLLIDTLIKDGKNSGKLGFEKSFGKDKKPQPRRLQLKPEHVAYM---QHE----TGKPISFTPAKFNTGIGKQET 708 (794)
T ss_pred eecceEEEEEEeeecCCccCccccccccCccCCCCCeEEecCHHHHHHH---Hhc----cCCCceeeceEEecCCCCccc
Confidence 457778887731 2 44566534567776554 5322222 111 1222222222 222 6
Q ss_pred ceEeCCCCEEEEeeCCCCCCChHHHHHHhcCCCc-EEeeecccccccEEEEEcCCCeEEe
Q 024004 214 PYITDNFNYIIDLYFETPIKDGVSAGTEIGKLEG-VVEHGLFLDMATAVIIAGKTGVEVK 272 (274)
Q Consensus 214 p~vTdnGN~IlD~~f~~~i~d~~~l~~~l~~ipG-VVe~GlF~~~a~~viv~~~~gv~~~ 272 (274)
-+||--|+|+|=|.|.. +..-..-.+.++.... ||+-.+-.+--..|||+.++.|...
T Consensus 709 ~IvtstG~f~v~Wnf~k-V~~g~~~~Y~ikry~~~V~~dnF~fg~d~~vival~~dV~m~ 767 (794)
T PF08553_consen 709 SIVTSTGPFVVTWNFKK-VKRGKKDPYQIKRYDENVVADNFKFGSDKNVIVALPNDVNMV 767 (794)
T ss_pred eEEEeccCEEEEEEHHH-HhCCCCCceEEEEcCCceEEccceeCCCCcEEEEccchhhhh
Confidence 89999999999999976 4433344455665555 8887766777778999998876543
No 127
>PRK00907 hypothetical protein; Provisional
Probab=23.06 E-value=2e+02 Score=22.54 Aligned_cols=66 Identities=12% Similarity=0.102 Sum_probs=43.4
Q ss_pred ccc--ccEEEecccHHHHHHHHHHhHhhcC-----CeeEEeecCCCCceEeCCCCEE---EEeeCCCCCCChHHHHHHhc
Q 024004 174 KLA--MPVEVVQFCWKFNLVRLQDLFRELG-----CEAKLREGENGKPYITDNFNYI---IDLYFETPIKDGVSAGTEIG 243 (274)
Q Consensus 174 ~~p--lPvEV~p~a~~~v~~~l~~l~~~~g-----~~~~lR~~~~~gp~vTdnGN~I---lD~~f~~~i~d~~~l~~~l~ 243 (274)
.|| -|+-|.-.+-......+.+.+..+. ..+..|.+ .+|||+ +.++... .+..+++.++|.
T Consensus 13 EFPc~fpiKVmG~a~~~l~~~V~~vv~~h~p~~~~~~i~~r~S--------s~GkY~Svtv~i~ats-~eQld~iY~~L~ 83 (92)
T PRK00907 13 QFPGTFELSAMGTAERGLETELPRLLAATGVELLQERISWKHS--------SSGKYVSVRIGFRAES-REQYDAAHQALR 83 (92)
T ss_pred ecCCCCeEEEEEcCchhHHHHHHHHHHHhCCCCCcCcEEeccC--------CCCEEEEEEEEEEECC-HHHHHHHHHHHh
Confidence 466 8999988777777777777655432 22333443 344444 3445443 567788999999
Q ss_pred CCCcE
Q 024004 244 KLEGV 248 (274)
Q Consensus 244 ~ipGV 248 (274)
..|+|
T Consensus 84 ~~~~V 88 (92)
T PRK00907 84 DHPEV 88 (92)
T ss_pred hCCCE
Confidence 99998
No 128
>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=22.98 E-value=1.4e+02 Score=27.04 Aligned_cols=54 Identities=13% Similarity=0.265 Sum_probs=31.5
Q ss_pred hHHHHHHHHHHHHhcCCCCCEEEECcChHH-HHHHHHHhchhhcCCCCCeEEECCc
Q 024004 43 QDDLKKLAADKAVDYVKSGMALGLGTGSTA-AFVVDRIGQLLKTGELRDIVGIPTS 97 (274)
Q Consensus 43 ~~~~K~~iA~~A~~~I~dg~vIgLGsGSTv-~~l~~~L~~~~~~~~l~~itvVT~S 97 (274)
..++|+++.+.+++.+.+...|..|.|++. ...++ +.+..++-+...+-+++..
T Consensus 48 s~~Er~~l~~~~~~~~~~~~~vi~gv~~~~~~~~i~-~a~~a~~~Gad~v~v~pP~ 102 (281)
T cd00408 48 TDEERKEVIEAVVEAVAGRVPVIAGVGANSTREAIE-LARHAEEAGADGVLVVPPY 102 (281)
T ss_pred CHHHHHHHHHHHHHHhCCCCeEEEecCCccHHHHHH-HHHHHHHcCCCEEEECCCc
Confidence 347888899999999886676666666433 23333 3323333233456666643
No 129
>cd00403 Ribosomal_L1 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds its own mRNA. Like several other large ribosomal subunit proteins, L1 displays RNA chaperone activity. L1 is one of the largest ribosomal proteins. It is composed of two domains that cycle between open and closed conformations via a hinge motion. The RNA-binding site of L1 is highly conserved, with both mRNA and rRNA binding the same binding site.
Probab=22.45 E-value=1.6e+02 Score=25.60 Aligned_cols=75 Identities=15% Similarity=0.006 Sum_probs=42.9
Q ss_pred cCcEEEEEcC-------CcccccCCCCcccccEEEecccHHHHHHHHHHhHhhcCCeeEEeecCCCCceEeCCCCEEEEe
Q 024004 154 SKSFVVVADE-------SKLVSGLGGSKLAMPVEVVQFCWKFNLVRLQDLFRELGCEAKLREGENGKPYITDNFNYIIDL 226 (274)
Q Consensus 154 S~~~IvLaD~-------sK~~~~Lg~~~~plPvEV~p~a~~~v~~~l~~l~~~~g~~~~lR~~~~~gp~vTdnGN~IlD~ 226 (274)
.+.-++|||. +++++.||. +..+|..+..-.-..+.+.++++. + ...+| .+.|+ .+-+
T Consensus 94 ~~~D~fla~~~~~~~~~~~lgk~~~~-k~k~P~~~~~t~~~~l~~~i~~~~---~-~~~~~---------~~~~~-~~~v 158 (208)
T cd00403 94 KDFDLFLADPRIMMLLPKLLGKVLGP-RGKMPNPKTGTVTEDLAKAIEEAK---S-SVEFR---------LDKGG-CIHV 158 (208)
T ss_pred hcCCEEEECHHHHHHHHHHhcccccc-CCCCCcCCCCCCcccHHHHHHHHH---h-CeEEE---------ECCCC-EEEE
Confidence 4567889997 466777753 455666665433344556666542 2 23333 33344 5567
Q ss_pred eCCCCCCChHHHHHHhc
Q 024004 227 YFETPIKDGVSAGTEIG 243 (274)
Q Consensus 227 ~f~~~i~d~~~l~~~l~ 243 (274)
..+.--.++++|.+.+.
T Consensus 159 ~VG~~~m~~~~l~eNi~ 175 (208)
T cd00403 159 PVGKVSMSPEQLVENIE 175 (208)
T ss_pred EEeCCCCCHHHHHHHHH
Confidence 76653356777776665
No 130
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=22.12 E-value=91 Score=28.71 Aligned_cols=44 Identities=18% Similarity=0.184 Sum_probs=25.2
Q ss_pred CCEEEECcChHH-HHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCc
Q 024004 61 GMALGLGTGSTA-AFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIP 110 (274)
Q Consensus 61 g~vIgLGsGSTv-~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~ 110 (274)
+..|++-+|+-. ..|...+.. ..+ -+.+.|+. .+...|.+.|++
T Consensus 129 ~~~i~lttG~k~l~~f~~~~~~----~~~-~~RvLP~~-~~l~~~~~~G~~ 173 (256)
T TIGR00715 129 GKRVFLTAGASWLSHFSLSQDE----AVV-FVRVLPYP-QALAQALKLGFP 173 (256)
T ss_pred CCcEEEecCcchHHHHhhccCC----ceE-EEEECCCc-hhhHHHHHcCCC
Confidence 569999999744 444432221 111 25555554 444478888885
No 131
>TIGR01496 DHPS dihydropteroate synthase. This model represents dihydropteroate synthase, the enzyme that catalyzes the second to last step in folic acid biosynthesis. The gene is usually designated folP (folic acid biosynthsis) or sul (sulfanilamide resistance). This model represents one branch of the family of pterin-binding enzymes (pfam00809) and of a cluster of dihydropteroate synthase and related enzymes (COG0294). Other members of pfam00809 and COG0294 are represented by TIGR00284.
Probab=21.99 E-value=3.1e+02 Score=25.07 Aligned_cols=60 Identities=15% Similarity=0.096 Sum_probs=37.7
Q ss_pred HHHHHHHhcCCCC-CEEEECcChH---------------HHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEE
Q 024004 49 LAADKAVDYVKSG-MALGLGTGST---------------AAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLT 112 (274)
Q Consensus 49 ~iA~~A~~~I~dg-~vIgLGsGST---------------v~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi 112 (274)
.+.++|.+++++| ++|=||+-|| +..+++.+.+.. . ..+.+=|.+..+...+-+.|.+++
T Consensus 24 ~~~~~a~~~~~~GA~iIDIG~~st~p~~~~i~~~~E~~rl~~~v~~~~~~~---~-~plsiDT~~~~vi~~al~~G~~iI 99 (257)
T TIGR01496 24 KAVAHAERMLEEGADIIDVGGESTRPGADRVSPEEELNRVVPVIKALRDQP---D-VPISVDTYRAEVARAALEAGADII 99 (257)
T ss_pred HHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHhcC---C-CeEEEeCCCHHHHHHHHHcCCCEE
Confidence 3566788899988 5999986555 444444443211 1 246666777777776666665543
No 132
>PRK04457 spermidine synthase; Provisional
Probab=21.86 E-value=93 Score=28.45 Aligned_cols=37 Identities=22% Similarity=0.372 Sum_probs=27.0
Q ss_pred EEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHh
Q 024004 63 ALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKS 106 (274)
Q Consensus 63 vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~ 106 (274)
.||.|+|+.+.++++..++ ..+++|--+..+...+++
T Consensus 72 ~IG~G~G~l~~~l~~~~p~-------~~v~~VEidp~vi~~A~~ 108 (262)
T PRK04457 72 QIGLGGGSLAKFIYTYLPD-------TRQTAVEINPQVIAVARN 108 (262)
T ss_pred EECCCHhHHHHHHHHhCCC-------CeEEEEECCHHHHHHHHH
Confidence 4677777777777765543 269999999998887754
No 133
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=21.86 E-value=1.8e+02 Score=19.42 Aligned_cols=32 Identities=13% Similarity=0.003 Sum_probs=23.3
Q ss_pred CCCEEEEeeCCCCCCChHHHHHHhcCCCcEEeee
Q 024004 219 NFNYIIDLYFETPIKDGVSAGTEIGKLEGVVEHG 252 (274)
Q Consensus 219 nGN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe~G 252 (274)
+|..++-+.+.. . .+.++-++|+.++||.+.-
T Consensus 38 ~~~~~~~~~v~~-~-~~~~l~~~l~~~~~V~~v~ 69 (71)
T cd04879 38 GGIAYMVLDVDS-P-VPEEVLEELKALPGIIRVR 69 (71)
T ss_pred CCEEEEEEEcCC-C-CCHHHHHHHHcCCCeEEEE
Confidence 355555556654 3 6889999999999998753
No 134
>COG2921 Uncharacterized conserved protein [Function unknown]
Probab=21.83 E-value=1.5e+02 Score=23.37 Aligned_cols=76 Identities=17% Similarity=0.128 Sum_probs=40.7
Q ss_pred CCcccccCCCCcccccEEEecccHHHHHHHHHHhHhhc--C-CeeEE--eecCCCCceEeCCCCEE---EEeeCCCCCCC
Q 024004 163 ESKLVSGLGGSKLAMPVEVVQFCWKFNLVRLQDLFREL--G-CEAKL--REGENGKPYITDNFNYI---IDLYFETPIKD 234 (274)
Q Consensus 163 ~sK~~~~Lg~~~~plPvEV~p~a~~~v~~~l~~l~~~~--g-~~~~l--R~~~~~gp~vTdnGN~I---lD~~f~~~i~d 234 (274)
.+|..+-| ...+.-|+-|.--+-+....++-++...+ | ..+.+ |.++ -|||. |+++-.+ ++.
T Consensus 3 ~~k~~~l~-eFPc~F~~KVmG~a~~~l~~~vv~vvqr~ap~~~~~~~~~k~SS--------kGnY~svsI~i~A~~-~EQ 72 (90)
T COG2921 3 KTKLKELL-EFPCTFTYKVMGAAGPELEDQVVEVVQRHAPGDYTPRVSWKPSS--------KGNYLSVSITIRATN-IEQ 72 (90)
T ss_pred ccccchhe-ECCccceeeehcccchhHHHHHHHHHHHHCCcccCceeeeccCC--------CCceEEEEEEEEECC-HHH
Confidence 34555444 11223456666555555444444332221 2 23333 5443 34443 5566554 677
Q ss_pred hHHHHHHhcCCCcE
Q 024004 235 GVSAGTEIGKLEGV 248 (274)
Q Consensus 235 ~~~l~~~l~~ipGV 248 (274)
.+.+.++|..+++|
T Consensus 73 ~e~ly~eL~~~~~V 86 (90)
T COG2921 73 VEALYRELRKHEIV 86 (90)
T ss_pred HHHHHHHHhhCCce
Confidence 88899999999987
No 135
>PF08407 Chitin_synth_1N: Chitin synthase N-terminal; InterPro: IPR013616 This is the N-terminal domain of Chitin synthase (IPR004834 from INTERPRO). ; GO: 0004100 chitin synthase activity
Probab=21.70 E-value=49 Score=25.34 Aligned_cols=40 Identities=15% Similarity=0.140 Sum_probs=23.0
Q ss_pred CCCEEEEeeCCCCCCChHHHHHHhcCCCcEEeeecccccccEEEEEcCC
Q 024004 219 NFNYIIDLYFETPIKDGVSAGTEIGKLEGVVEHGLFLDMATAVIIAGKT 267 (274)
Q Consensus 219 nGN~IlD~~f~~~i~d~~~l~~~l~~ipGVVe~GlF~~~a~~viv~~~~ 267 (274)
|||+|+||..+. .|...+..-.+--| |..|-..++..+|+
T Consensus 13 ~Gnlv~D~PVP~------~ll~~~~~~~~~~E---ft~mRYTAvTcdP~ 52 (79)
T PF08407_consen 13 NGNLVLDCPVPS------ALLNSLPRGRDERE---FTHMRYTAVTCDPD 52 (79)
T ss_pred cCcEEEECcCCH------HHHhhCCCCCCCcc---hheEEeeeEEeCHH
Confidence 999999998744 34444433112222 65565556666554
No 136
>PRK00881 purH bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional
Probab=21.28 E-value=4.2e+02 Score=27.21 Aligned_cols=28 Identities=36% Similarity=0.461 Sum_probs=20.8
Q ss_pred HHHHHHHHHHhcC--------CCCCEEEECcChHHH
Q 024004 46 LKKLAADKAVDYV--------KSGMALGLGTGSTAA 73 (274)
Q Consensus 46 ~K~~iA~~A~~~I--------~dg~vIgLGsGSTv~ 73 (274)
+-...|.++++++ ++|++||+|+|-|..
T Consensus 399 ~Dl~faw~v~K~vkSNaIVvvkd~~~vgIgaGQ~sR 434 (513)
T PRK00881 399 KDLLFAWKVVKHVKSNAIVYAKDGQTVGIGAGQMSR 434 (513)
T ss_pred HHHHHHHHHHHhcCCCcEEEEeCCeEEEECCCCcch
Confidence 3445677788776 578899999997665
No 137
>cd04877 ACT_TyrR N-terminal ACT domain of the TyrR protein. ACT_TyrR: N-terminal ACT domain of the TyrR protein. The TyrR protein of Escherichia coli controls the expression of a group of transcription units (TyrR regulon) whose gene products are involved in the biosynthesis or transport of the aromatic amino acids. Binding to specific DNA sequences known as TyrR boxes, the TyrR protein can either activate or repress transcription at different sigma70 promoters. Its regulatory activity occurs in response to intracellular levels of tyrosine, phenylalanine and tryptophan. The TyrR protein consists of an N-terminal region important for transcription activation with an ATP-independent aromatic amino acid binding site (contained within the ACT domain) and is involved in dimerization; a central region with an ATP binding site, an ATP-dependent aromatic amino acid binding site and is involved in hexamerization; and a helix turn helix DNA binding C-terminal region. In solution, in the absence
Probab=21.26 E-value=3.1e+02 Score=19.51 Aligned_cols=20 Identities=20% Similarity=0.290 Sum_probs=15.9
Q ss_pred CCChHHHHHHhcCCCcEEee
Q 024004 232 IKDGVSAGTEIGKLEGVVEH 251 (274)
Q Consensus 232 i~d~~~l~~~l~~ipGVVe~ 251 (274)
..+...+-++|+++|||.+.
T Consensus 48 ~~~L~~li~~L~~i~gV~~V 67 (74)
T cd04877 48 FEKLQTLMPEIRRIDGVEDV 67 (74)
T ss_pred HHHHHHHHHHHhCCCCceEE
Confidence 34667788899999999874
No 138
>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=21.16 E-value=4.7e+02 Score=21.44 Aligned_cols=9 Identities=11% Similarity=0.301 Sum_probs=4.0
Q ss_pred CCCEEEECc
Q 024004 60 SGMALGLGT 68 (274)
Q Consensus 60 dg~vIgLGs 68 (274)
+.++|+|.+
T Consensus 53 ~adii~iSs 61 (132)
T TIGR00640 53 DVHVVGVSS 61 (132)
T ss_pred CCCEEEEcC
Confidence 344444443
No 139
>TIGR03169 Nterm_to_SelD pyridine nucleotide-disulfide oxidoreductase family protein. Members of this protein family include N-terminal sequence regions of (probable) bifunctional proteins whose C-terminal sequences are SelD, or selenide,water dikinase, the selenium donor protein necessary for selenium incorporation into protein (as selenocysteine), tRNA (as 2-selenouridine), or both. However, some members of this family occur in species that do not show selenium incorporation, and the function of this protein family is unknown.
Probab=21.07 E-value=3.2e+02 Score=25.39 Aligned_cols=53 Identities=11% Similarity=0.048 Sum_probs=35.3
Q ss_pred CCEEEECcChHHHHHHHHHhchhhcCCC-CCeEEECCcH-----------HHHHHHHhCCCcEEE
Q 024004 61 GMALGLGTGSTAAFVVDRIGQLLKTGEL-RDIVGIPTSK-----------RTEEQAKSLNIPLTT 113 (274)
Q Consensus 61 g~vIgLGsGSTv~~l~~~L~~~~~~~~l-~~itvVT~S~-----------~ta~~l~~~gi~vi~ 113 (274)
..++-+|+|-+..+++..|.+..++.+. .++++++.+. .....+++.|++++.
T Consensus 146 ~~vvVvG~G~~g~E~A~~l~~~~~~~g~~~~V~li~~~~~l~~~~~~~~~~~~~~l~~~gV~v~~ 210 (364)
T TIGR03169 146 KRLAVVGGGAAGVEIALALRRRLPKRGLRGQVTLIAGASLLPGFPAKVRRLVLRLLARRGIEVHE 210 (364)
T ss_pred ceEEEECCCHHHHHHHHHHHHHHHhcCCCceEEEEeCCcccccCCHHHHHHHHHHHHHCCCEEEe
Confidence 4688899999999999999765432222 3688885431 223355677887764
No 140
>TIGR01012 Sa_S2_E_A ribosomal protein Sa(cytosolic)/S2(archaeal). TIGR01011 describes the related protein of organelles and bacteria.
Probab=20.73 E-value=6e+02 Score=22.58 Aligned_cols=86 Identities=16% Similarity=0.171 Sum_probs=53.6
Q ss_pred hHHHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhh---------c----------CCCCCeEEECCcH---HH
Q 024004 43 QDDLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLK---------T----------GELRDIVGIPTSK---RT 100 (274)
Q Consensus 43 ~~~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~---------~----------~~l~~itvVT~S~---~t 100 (274)
+..++...|...+..+..|.++++|+-.-...+++..+++.. . -.++++.+|++-. +.
T Consensus 44 kT~~~L~~A~~~i~~i~~~~ILfVgtk~~~~~~V~~~A~~~g~~~v~~RWlgGtLTN~~~~~~~~Pdlliv~dp~~~~~A 123 (196)
T TIGR01012 44 KTDERLRVAAKFLVRIEPEDILVVSARIYGQKPVLKFAKVTGARAIAGRFTPGTFTNPMQKAFREPEVVVVTDPRADHQA 123 (196)
T ss_pred HHHHHHHHHHHHHHHhhCCeEEEEecCHHHHHHHHHHHHHhCCceECCeeCCCCCCCccccccCCCCEEEEECCccccHH
Confidence 334455556666655669999999999887777776665431 0 1234566666543 34
Q ss_pred HHHHHhCCCcEEEcCCC----CcccEEEEccC
Q 024004 101 EEQAKSLNIPLTTLDDH----PSLDLAIDGAD 128 (274)
Q Consensus 101 a~~l~~~gi~vi~l~~~----~~iD~afdGaD 128 (274)
..+|.+.|||++.+-.. ..+|+.|=+-|
T Consensus 124 v~EA~~l~IP~Iai~DTn~dp~~vdypIP~Nd 155 (196)
T TIGR01012 124 LKEASEVGIPIVALCDTDNPLRYVDLVIPTNN 155 (196)
T ss_pred HHHHHHcCCCEEEEeeCCCCCccCCEEECCCC
Confidence 45788899998876321 24666665443
No 141
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=20.69 E-value=3.7e+02 Score=20.73 Aligned_cols=37 Identities=11% Similarity=0.118 Sum_probs=24.4
Q ss_pred EEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHH
Q 024004 63 ALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRT 100 (274)
Q Consensus 63 vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~t 100 (274)
.+.-|+|-++..+++.+.+.+++.++ ++.+...+..-
T Consensus 7 Ll~C~~G~sSS~l~~k~~~~~~~~gi-~~~v~a~~~~~ 43 (95)
T TIGR00853 7 LLLCAAGMSTSLLVNKMNKAAEEYGV-PVKIAAGSYGA 43 (95)
T ss_pred EEECCCchhHHHHHHHHHHHHHHCCC-cEEEEEecHHH
Confidence 46678887777788888776665554 46666666543
No 142
>PRK03659 glutathione-regulated potassium-efflux system protein KefB; Provisional
Probab=20.58 E-value=2.9e+02 Score=28.47 Aligned_cols=49 Identities=6% Similarity=-0.014 Sum_probs=41.4
Q ss_pred CCCEEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEE
Q 024004 60 SGMALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTT 113 (274)
Q Consensus 60 dg~vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~ 113 (274)
++.+|-+|.|..-..+++.|.+. + .++++|-++.+..+.+++.|.+++.
T Consensus 400 ~~~vII~G~Gr~G~~va~~L~~~----g-~~vvvID~d~~~v~~~~~~g~~v~~ 448 (601)
T PRK03659 400 KPQVIIVGFGRFGQVIGRLLMAN----K-MRITVLERDISAVNLMRKYGYKVYY 448 (601)
T ss_pred cCCEEEecCchHHHHHHHHHHhC----C-CCEEEEECCHHHHHHHHhCCCeEEE
Confidence 56799999999999999988653 1 3799999999998888888988765
No 143
>PRK04020 rps2P 30S ribosomal protein S2; Provisional
Probab=20.45 E-value=6.2e+02 Score=22.64 Aligned_cols=84 Identities=19% Similarity=0.272 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHhcCCCCCEEEECcChHHHHHHHHHhchhh---------cCC----------CCCeEEECCcH---HHHH
Q 024004 45 DLKKLAADKAVDYVKSGMALGLGTGSTAAFVVDRIGQLLK---------TGE----------LRDIVGIPTSK---RTEE 102 (274)
Q Consensus 45 ~~K~~iA~~A~~~I~dg~vIgLGsGSTv~~l~~~L~~~~~---------~~~----------l~~itvVT~S~---~ta~ 102 (274)
-.+-..|...+..++.|+++++|+-.-...+++..+.+.. .|. ++++.+|++-. +...
T Consensus 52 ~~~L~~A~~~i~~~~~~~ILfVgTk~~~~~~v~k~A~~~g~~~v~~RWlgG~LTN~~~~~~~~Pdliiv~dp~~~~~AI~ 131 (204)
T PRK04020 52 DERIRIAAKFLSRYEPEKILVVSSRQYGQKPVQKFAEVVGAKAITGRFIPGTLTNPSLKGYIEPDVVVVTDPRGDAQAVK 131 (204)
T ss_pred HHHHHHHHHHHHHhcCCeEEEEeCCHHHHHHHHHHHHHhCCeeecCccCCCcCcCcchhccCCCCEEEEECCcccHHHHH
Confidence 4455556666655689999999999866555555544321 111 24555665543 3344
Q ss_pred HHHhCCCcEEEcCC----CCcccEEEEccC
Q 024004 103 QAKSLNIPLTTLDD----HPSLDLAIDGAD 128 (274)
Q Consensus 103 ~l~~~gi~vi~l~~----~~~iD~afdGaD 128 (274)
+|.+.|||++.+-+ ...+|+.|=+-|
T Consensus 132 EA~kl~IP~IaivDTn~dp~~VdypIP~Nd 161 (204)
T PRK04020 132 EAIEVGIPVVALCDTDNLTSNVDLVIPTNN 161 (204)
T ss_pred HHHHhCCCEEEEEeCCCCcccCceeECCCC
Confidence 77889999887632 134677665554
No 144
>cd01425 RPS2 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of ribosomal protein S1 to the 30s ribosomal subunit. In humans, most likely in all vertebrates, and perhaps in all metazoans, the protein also functions as the 67 kDa laminin receptor (LAMR1 or 67LR), which is formed from a 37 kDa precursor, and is overexpressed in many tumors. 67LR is a cell surface receptor which interacts with a variety of ligands, laminin-1 and others. It is assumed that the ligand interactions are mediated via the conserved C-terminus, which becomes extracellular as the protein undergoes conformational changes which are not well understood. Specifically, a conserved palindromic motif, LMWWML, may participate in the interactions. 67LR plays essential roles in the adhesion of cells to the basement membrane an
Probab=20.41 E-value=5.7e+02 Score=22.18 Aligned_cols=24 Identities=29% Similarity=0.331 Sum_probs=17.9
Q ss_pred CCCCEEEECcChHHHHHHHHHhch
Q 024004 59 KSGMALGLGTGSTAAFVVDRIGQL 82 (274)
Q Consensus 59 ~dg~vIgLGsGSTv~~l~~~L~~~ 82 (274)
+.|.++++|+-.-...+++..+.+
T Consensus 55 ~~g~iLfV~t~~~~~~~v~~~a~~ 78 (193)
T cd01425 55 KGGKILFVGTKPQAQRAVKKFAER 78 (193)
T ss_pred CCCEEEEEECCHHHHHHHHHHHHH
Confidence 468899999988777777766543
No 145
>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=20.18 E-value=1.8e+02 Score=26.42 Aligned_cols=54 Identities=15% Similarity=0.212 Sum_probs=32.0
Q ss_pred hHHHHHHHHHHHHhcCCCCCEEEECcChH-HHHHHHHHhchhhcCCCCCeEEECCc
Q 024004 43 QDDLKKLAADKAVDYVKSGMALGLGTGST-AAFVVDRIGQLLKTGELRDIVGIPTS 97 (274)
Q Consensus 43 ~~~~K~~iA~~A~~~I~dg~vIgLGsGST-v~~l~~~L~~~~~~~~l~~itvVT~S 97 (274)
..++++.+.+.+++.+.+...|..|.|++ +...++ +.+..++-+...+.+.+..
T Consensus 51 t~~Er~~l~~~~~~~~~~~~~vi~gv~~~~~~~~~~-~a~~a~~~G~d~v~~~~P~ 105 (284)
T cd00950 51 SDEEHEAVIEAVVEAVNGRVPVIAGTGSNNTAEAIE-LTKRAEKAGADAALVVTPY 105 (284)
T ss_pred CHHHHHHHHHHHHHHhCCCCcEEeccCCccHHHHHH-HHHHHHHcCCCEEEEcccc
Confidence 34777778888888887666677777753 344444 3333333333346565543
No 146
>PF02558 ApbA: Ketopantoate reductase PanE/ApbA; InterPro: IPR013332 ApbA, the ketopantoate reductase enzyme 1.1.1.169 from EC of Salmonella typhimurium is required for the synthesis of thiamine via the alternative pyrimidine biosynthetic pathway []. Precursors to the pyrimidine moiety of thiamine are synthesized de novo by the purine biosynthetic pathway or the alternative pyrimidine biosynthetic (APB) pathway. The ApbA protein catalyzes the NADPH-specific reduction of ketopantoic acid to pantoic acid. This activity had previously been associated with the pantothenate biosynthetic gene panE []. ApbA and PanE are allelic [].; GO: 0008677 2-dehydropantoate 2-reductase activity, 0055114 oxidation-reduction process; PDB: 3EGO_B 3HWR_B 2QYT_A 1YJQ_A 1KS9_A 2OFP_A 1YON_A 3G17_E 3GHY_B 3I83_B ....
Probab=20.15 E-value=2.9e+02 Score=22.12 Aligned_cols=47 Identities=26% Similarity=0.387 Sum_probs=36.4
Q ss_pred EEEECcChHHHHHHHHHhchhhcCCCCCeEEECCcHHHHHHHHhCCCcEEEcC
Q 024004 63 ALGLGTGSTAAFVVDRIGQLLKTGELRDIVGIPTSKRTEEQAKSLNIPLTTLD 115 (274)
Q Consensus 63 vIgLGsGSTv~~l~~~L~~~~~~~~l~~itvVT~S~~ta~~l~~~gi~vi~l~ 115 (274)
+.-+|+|..-.+++-+|.+. | .++++++.+. ....+.+.|+.+....
T Consensus 1 I~I~G~GaiG~~~a~~L~~~---g--~~V~l~~r~~-~~~~~~~~g~~~~~~~ 47 (151)
T PF02558_consen 1 ILIIGAGAIGSLYAARLAQA---G--HDVTLVSRSP-RLEAIKEQGLTITGPD 47 (151)
T ss_dssp EEEESTSHHHHHHHHHHHHT---T--CEEEEEESHH-HHHHHHHHCEEEEETT
T ss_pred CEEECcCHHHHHHHHHHHHC---C--CceEEEEccc-cHHhhhheeEEEEecc
Confidence 35689999999999988652 1 4799999999 6666778888777655
Done!