Query 031877
Match_columns 151
No_of_seqs 30 out of 32
Neff 2.4
Searched_HMMs 46136
Date Fri Mar 29 06:36:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031877.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031877hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00139 rpl18 ribosomal prote 99.9 1.4E-21 3E-26 145.6 10.4 96 12-125 13-108 (109)
2 cd00432 Ribosomal_L18_L5e Ribo 99.9 3.3E-21 7.1E-26 138.1 10.6 96 11-124 8-103 (103)
3 TIGR00060 L18_bact ribosomal p 99.8 7E-21 1.5E-25 143.5 10.2 93 11-125 21-113 (114)
4 PF00861 Ribosomal_L18p: Ribos 99.8 3.1E-20 6.8E-25 137.9 11.4 98 13-126 22-119 (119)
5 PRK05593 rplR 50S ribosomal pr 99.8 3.2E-20 6.9E-25 139.5 10.1 95 13-126 23-117 (117)
6 PTZ00032 60S ribosomal protein 99.8 3.6E-18 7.8E-23 141.1 11.0 105 11-125 102-210 (211)
7 COG0256 RplR Ribosomal protein 99.6 3.2E-15 6.9E-20 115.1 10.4 97 14-126 29-125 (125)
8 PRK08569 rpl18p 50S ribosomal 99.6 6.5E-15 1.4E-19 119.9 10.3 98 14-129 32-133 (193)
9 KOG3333 Mitochondrial/chloropl 98.2 6E-06 1.3E-10 67.9 8.0 101 15-134 61-162 (188)
10 PTZ00069 60S ribosomal protein 96.9 0.0039 8.5E-08 54.7 7.5 65 14-89 48-112 (300)
11 PF00411 Ribosomal_S11: Riboso 96.0 0.11 2.4E-06 38.4 9.6 92 16-130 2-93 (110)
12 CHL00041 rps11 ribosomal prote 95.7 0.12 2.6E-06 38.9 8.8 92 16-130 15-106 (116)
13 TIGR03632 bact_S11 30S ribosom 95.4 0.18 4E-06 37.3 8.8 91 17-130 3-93 (108)
14 PTZ00090 40S ribosomal protein 94.9 0.29 6.2E-06 42.0 9.6 95 13-131 117-213 (233)
15 PRK05309 30S ribosomal protein 94.4 0.57 1.2E-05 36.0 9.3 96 12-130 15-110 (128)
16 TIGR03628 arch_S11P archaeal r 92.5 1.7 3.7E-05 33.2 9.1 94 19-131 7-105 (114)
17 PRK09607 rps11p 30S ribosomal 92.3 1.8 3.8E-05 34.0 9.2 99 15-133 10-114 (132)
18 PTZ00129 40S ribosomal protein 89.1 5.1 0.00011 32.2 9.2 102 15-135 29-135 (149)
19 COG0100 RpsK Ribosomal protein 77.5 11 0.00023 29.9 6.4 79 37-134 37-115 (129)
20 cd07039 TPP_PYR_POX Pyrimidine 75.2 6.3 0.00014 30.1 4.6 42 78-129 2-44 (164)
21 COG0858 RbfA Ribosome-binding 74.9 4.6 9.9E-05 30.6 3.7 46 73-122 71-116 (118)
22 COG2179 Predicted hydrolase of 72.6 4.6 9.9E-05 33.5 3.4 63 77-139 14-78 (175)
23 PF14871 GHL6: Hypothetical gl 72.2 10 0.00022 28.9 5.0 48 80-128 3-62 (132)
24 PF02776 TPP_enzyme_N: Thiamin 72.0 11 0.00023 28.4 5.1 43 78-130 3-46 (172)
25 COG1654 BirA Biotin operon rep 68.4 3.3 7.2E-05 29.7 1.6 23 108-130 32-54 (79)
26 TIGR03457 sulphoacet_xsc sulfo 65.1 11 0.00024 33.8 4.5 43 78-130 4-46 (579)
27 PRK12474 hypothetical protein; 64.7 11 0.00023 33.4 4.3 44 77-130 6-50 (518)
28 PRK07710 acetolactate synthase 62.7 13 0.00028 33.3 4.5 43 77-129 17-59 (571)
29 PF00933 Glyco_hydro_3: Glycos 61.9 16 0.00035 30.2 4.7 81 46-126 55-151 (299)
30 PRK06725 acetolactate synthase 61.4 14 0.0003 33.4 4.5 44 77-130 16-59 (570)
31 PRK07449 2-succinyl-5-enolpyru 61.0 19 0.0004 32.1 5.1 44 76-129 9-53 (568)
32 PRK08322 acetolactate synthase 60.2 14 0.00031 32.5 4.3 42 78-129 3-44 (547)
33 PRK06466 acetolactate synthase 60.0 13 0.00029 33.3 4.1 42 78-129 6-48 (574)
34 TIGR03394 indol_phenyl_DC indo 59.9 16 0.00035 32.7 4.6 42 78-129 2-44 (535)
35 PF00070 Pyr_redox: Pyridine n 59.2 32 0.0007 22.5 4.9 59 77-136 9-67 (80)
36 PRK07092 benzoylformate decarb 59.1 11 0.00024 33.3 3.4 49 70-129 6-54 (530)
37 PRK08978 acetolactate synthase 59.1 17 0.00037 32.3 4.5 42 78-129 3-44 (548)
38 PRK07524 hypothetical protein; 58.6 17 0.00036 32.2 4.4 43 77-129 3-45 (535)
39 TIGR00433 bioB biotin syntheta 58.4 20 0.00044 28.8 4.5 49 78-126 121-174 (296)
40 TIGR02418 acolac_catab acetola 58.4 15 0.00033 32.5 4.1 42 79-130 2-43 (539)
41 PRK06457 pyruvate dehydrogenas 58.3 18 0.00039 32.3 4.6 43 77-129 3-45 (549)
42 PRK08979 acetolactate synthase 57.8 18 0.00039 32.5 4.5 43 77-129 5-48 (572)
43 PRK07586 hypothetical protein; 57.2 18 0.00039 31.7 4.4 43 78-130 3-46 (514)
44 PRK08617 acetolactate synthase 56.6 19 0.0004 32.0 4.4 43 77-129 6-48 (552)
45 TIGR00173 menD 2-succinyl-5-en 56.1 18 0.00039 31.3 4.2 42 79-130 3-45 (432)
46 smart00729 Elp3 Elongator prot 54.1 29 0.00062 24.6 4.3 48 77-125 97-152 (216)
47 PF13727 CoA_binding_3: CoA-bi 53.8 20 0.00044 25.4 3.5 42 80-127 131-172 (175)
48 PRK08273 thiamine pyrophosphat 53.1 25 0.00054 31.9 4.7 58 77-144 4-71 (597)
49 PRK09124 pyruvate dehydrogenas 52.6 22 0.00048 31.8 4.2 58 77-144 4-70 (574)
50 PRK06048 acetolactate synthase 52.3 21 0.00045 31.9 4.0 44 76-129 8-51 (561)
51 PF02961 BAF: Barrier to autoi 52.1 7.7 0.00017 29.1 1.1 28 70-97 19-46 (89)
52 PRK07979 acetolactate synthase 51.9 26 0.00057 31.4 4.6 42 78-129 6-48 (574)
53 cd07038 TPP_PYR_PDC_IPDC_like 51.7 24 0.00052 26.8 3.8 40 80-129 1-41 (162)
54 PRK06882 acetolactate synthase 51.4 26 0.00056 31.3 4.5 43 77-129 5-48 (574)
55 smart00642 Aamy Alpha-amylase 51.4 35 0.00076 26.4 4.7 51 76-127 19-87 (166)
56 PRK06256 biotin synthase; Vali 50.7 27 0.00058 29.0 4.2 49 78-127 150-204 (336)
57 PF11798 IMS_HHH: IMS family H 50.1 8.6 0.00019 23.0 0.9 14 78-91 19-32 (32)
58 PRK08266 hypothetical protein; 49.9 31 0.00067 30.5 4.7 44 77-130 5-50 (542)
59 KOG0875 60S ribosomal protein 49.8 19 0.00041 31.7 3.3 69 14-93 48-117 (264)
60 PRK05858 hypothetical protein; 49.2 30 0.00066 30.8 4.5 43 77-129 6-48 (542)
61 PF00128 Alpha-amylase: Alpha 49.0 36 0.00079 25.9 4.4 48 79-127 7-69 (316)
62 TIGR01504 glyox_carbo_lig glyo 49.0 27 0.00059 31.7 4.3 44 77-130 4-48 (588)
63 TIGR02666 moaA molybdenum cofa 48.9 31 0.00068 28.6 4.3 44 82-125 104-154 (334)
64 PLN02470 acetolactate synthase 48.7 28 0.00061 31.4 4.3 44 76-129 13-57 (585)
65 PRK07525 sulfoacetaldehyde ace 48.3 29 0.00062 31.4 4.3 44 77-130 7-50 (588)
66 PRK08155 acetolactate synthase 48.0 30 0.00065 30.9 4.3 43 77-129 14-57 (564)
67 PRK07282 acetolactate synthase 47.3 30 0.00065 31.1 4.2 44 77-130 11-55 (566)
68 PRK08611 pyruvate oxidase; Pro 46.8 35 0.00076 30.8 4.6 43 77-129 5-49 (576)
69 PRK06965 acetolactate synthase 46.5 38 0.00081 30.7 4.8 48 72-129 17-65 (587)
70 TIGR02867 spore_II_P stage II 45.9 22 0.00048 29.1 2.9 55 69-123 26-81 (196)
71 PRK11269 glyoxylate carboligas 45.8 34 0.00073 30.9 4.3 44 77-130 5-49 (591)
72 TIGR03254 oxalate_oxc oxalyl-C 45.5 31 0.00068 30.7 4.1 44 77-130 4-47 (554)
73 PTZ00445 p36-lilke protein; Pr 45.5 51 0.0011 28.1 5.1 57 73-129 25-97 (219)
74 COG0028 IlvB Thiamine pyrophos 45.4 34 0.00073 31.6 4.3 42 78-129 4-45 (550)
75 PF07454 SpoIIP: Stage II spor 45.2 30 0.00065 29.6 3.7 52 72-123 106-158 (268)
76 PRK06276 acetolactate synthase 44.8 38 0.00081 30.6 4.5 42 78-129 3-44 (586)
77 PRK06546 pyruvate dehydrogenas 44.8 35 0.00075 30.9 4.3 58 77-144 4-70 (578)
78 cd07037 TPP_PYR_MenD Pyrimidin 44.1 39 0.00084 26.3 3.9 39 81-129 2-41 (162)
79 PF05336 DUF718: Domain of unk 44.1 19 0.00042 26.2 2.1 31 95-125 6-38 (106)
80 smart00052 EAL Putative diguan 43.6 38 0.00082 25.2 3.7 48 78-127 101-150 (241)
81 COG2896 MoaA Molybdenum cofact 43.5 35 0.00075 30.3 4.0 46 80-125 101-152 (322)
82 TIGR03393 indolpyr_decarb indo 43.4 37 0.00081 30.2 4.2 42 78-129 3-45 (539)
83 PLN02573 pyruvate decarboxylas 43.3 38 0.00082 30.8 4.3 43 77-129 17-60 (578)
84 PLN02389 biotin synthase 43.0 43 0.00093 29.6 4.5 48 79-126 177-229 (379)
85 KOG0210 P-type ATPase [Inorgan 43.0 31 0.00067 35.0 3.9 68 52-134 617-687 (1051)
86 PRK07064 hypothetical protein; 42.0 41 0.00089 29.7 4.2 43 77-129 4-47 (544)
87 KOG0407 40S ribosomal protein 41.9 91 0.002 25.1 5.7 62 72-133 59-121 (139)
88 PRK06154 hypothetical protein; 41.3 46 0.00099 30.1 4.5 40 77-129 21-60 (565)
89 PRK08527 acetolactate synthase 40.8 45 0.00098 29.9 4.3 42 78-129 5-47 (563)
90 cd07034 TPP_PYR_PFOR_IOR-alpha 40.6 75 0.0016 23.2 4.8 42 79-130 2-48 (160)
91 TIGR00118 acolac_lg acetolacta 40.0 46 0.001 29.6 4.3 42 78-129 3-45 (558)
92 PRK09259 putative oxalyl-CoA d 38.8 52 0.0011 29.5 4.4 44 77-130 11-54 (569)
93 TIGR02109 PQQ_syn_pqqE coenzym 38.3 51 0.0011 27.5 4.0 50 78-127 93-149 (358)
94 cd07035 TPP_PYR_POX_like Pyrim 38.1 47 0.001 24.0 3.4 42 80-131 1-42 (155)
95 PRK08199 thiamine pyrophosphat 37.7 50 0.0011 29.5 4.1 44 76-129 8-52 (557)
96 PRK13818 ribosome-binding fact 37.3 44 0.00094 25.3 3.2 46 73-122 69-114 (121)
97 cd05014 SIS_Kpsf KpsF-like pro 37.2 1.2E+02 0.0026 21.0 5.2 60 75-134 11-85 (128)
98 TIGR00082 rbfA ribosome-bindin 37.0 43 0.00093 24.9 3.1 45 73-121 69-113 (114)
99 COG1618 Predicted nucleotide k 36.9 27 0.00058 29.2 2.1 34 109-143 19-53 (179)
100 PF02844 GARS_N: Phosphoribosy 36.8 22 0.00048 26.5 1.5 44 80-132 52-95 (100)
101 PRK09107 acetolactate synthase 36.0 65 0.0014 29.4 4.6 43 77-129 12-55 (595)
102 PRK06456 acetolactate synthase 35.9 65 0.0014 28.8 4.5 60 78-147 4-77 (572)
103 PF02254 TrkA_N: TrkA-N domain 35.5 1.3E+02 0.0027 20.5 5.0 39 76-127 7-45 (116)
104 PRK05301 pyrroloquinoline quin 35.4 52 0.0011 27.8 3.7 50 78-127 102-158 (378)
105 PLN02980 2-oxoglutarate decarb 34.7 60 0.0013 33.8 4.6 60 60-129 283-345 (1655)
106 PRK13361 molybdenum cofactor b 34.5 79 0.0017 26.5 4.6 43 82-124 106-154 (329)
107 PF01261 AP_endonuc_2: Xylose 34.4 38 0.00083 24.4 2.4 45 84-129 2-46 (213)
108 TIGR02720 pyruv_oxi_spxB pyruv 33.3 68 0.0015 29.0 4.2 41 79-129 2-44 (575)
109 PRK07094 biotin synthase; Prov 33.0 79 0.0017 26.0 4.3 46 80-126 129-181 (323)
110 PRK10669 putative cation:proto 32.9 88 0.0019 28.1 4.9 28 75-102 425-452 (558)
111 TIGR03699 mena_SCO4550 menaqui 32.5 44 0.00095 28.0 2.8 47 80-127 143-198 (340)
112 PRK11118 putative monooxygenas 31.7 66 0.0014 24.7 3.4 37 68-104 55-94 (100)
113 COG0768 FtsI Cell division pro 31.5 42 0.00092 30.8 2.7 26 23-51 265-290 (599)
114 PRK13816 ribosome-binding fact 31.2 68 0.0015 24.6 3.4 45 73-121 76-120 (131)
115 PLN02361 alpha-amylase 30.0 1.3E+02 0.0028 27.0 5.4 51 77-128 30-94 (401)
116 PRK05337 beta-hexosaminidase; 29.6 60 0.0013 28.2 3.2 58 69-126 87-162 (337)
117 PRK07789 acetolactate synthase 29.5 89 0.0019 28.5 4.4 43 77-129 32-75 (612)
118 PRK08327 acetolactate synthase 29.5 76 0.0017 28.6 3.9 46 74-129 5-56 (569)
119 PRK00394 transcription factor; 29.3 1.9E+02 0.004 23.2 5.7 42 9-57 32-73 (179)
120 PF03719 Ribosomal_S5_C: Ribos 29.3 68 0.0015 22.4 2.9 40 79-122 24-63 (74)
121 TIGR03821 AblA_like_1 lysine-2 29.0 1.1E+02 0.0023 26.3 4.6 46 76-127 189-237 (321)
122 PF03266 NTPase_1: NTPase; In 28.7 40 0.00087 26.1 1.8 35 110-144 14-48 (168)
123 PRK13815 ribosome-binding fact 28.7 73 0.0016 24.1 3.2 46 73-122 68-113 (122)
124 cd02992 PDI_a_QSOX PDIa family 28.6 63 0.0014 22.9 2.7 41 81-122 69-111 (114)
125 TIGR01668 YqeG_hyp_ppase HAD s 28.5 1.3E+02 0.0027 22.8 4.4 47 84-130 18-66 (170)
126 PRK00521 rbfA ribosome-binding 27.9 85 0.0018 23.2 3.4 46 73-122 71-116 (120)
127 PRK07418 acetolactate synthase 27.5 1.1E+02 0.0024 28.0 4.6 44 76-129 19-66 (616)
128 CHL00099 ilvB acetohydroxyacid 27.3 1.1E+02 0.0024 27.8 4.6 43 77-129 11-57 (585)
129 TIGR01515 branching_enzym alph 27.3 1.4E+02 0.0031 27.7 5.4 52 76-127 156-223 (613)
130 PRK10550 tRNA-dihydrouridine s 27.1 1.2E+02 0.0027 25.9 4.6 52 80-134 151-205 (312)
131 TIGR02625 YiiL_rotase L-rhamno 26.8 30 0.00066 25.6 0.8 19 107-125 18-37 (102)
132 smart00822 PKS_KR This enzymat 25.9 1.9E+02 0.0042 19.5 4.6 20 76-95 10-29 (180)
133 PLN02801 beta-amylase 25.9 1E+02 0.0022 29.5 4.2 44 84-127 44-91 (517)
134 COG4747 ACT domain-containing 25.7 73 0.0016 25.9 2.8 31 91-128 3-33 (142)
135 TIGR02402 trehalose_TreZ malto 25.7 1.4E+02 0.0031 27.4 5.0 50 78-128 113-178 (542)
136 KOG2900 Biotin synthase [Coenz 25.5 71 0.0015 29.1 3.0 67 79-146 178-251 (380)
137 COG1472 BglX Beta-glucosidase- 25.4 67 0.0015 28.6 2.8 60 68-127 91-164 (397)
138 TIGR00756 PPR pentatricopeptid 25.4 53 0.0011 17.1 1.4 18 110-127 17-34 (35)
139 cd06597 GH31_transferase_CtsY 25.2 1.5E+02 0.0033 25.4 4.8 53 74-127 22-102 (340)
140 PF08973 TM1506: Domain of unk 25.2 1E+02 0.0023 24.1 3.5 63 70-144 46-109 (134)
141 PRK13238 tnaA tryptophanase/L- 25.2 2.1E+02 0.0045 25.6 5.9 65 80-145 326-412 (460)
142 PF07485 DUF1529: Domain of Un 24.9 54 0.0012 25.3 1.9 21 110-130 68-88 (123)
143 PRK00164 moaA molybdenum cofac 24.7 1.4E+02 0.0029 24.8 4.3 43 81-124 109-158 (331)
144 COG1893 ApbA Ketopantoate redu 24.3 1.5E+02 0.0032 25.3 4.5 43 75-131 8-50 (307)
145 PRK13817 ribosome-binding fact 24.2 1E+02 0.0022 23.2 3.2 46 73-122 67-112 (119)
146 PF00875 DNA_photolyase: DNA p 24.1 1.1E+02 0.0024 22.7 3.4 48 79-130 77-124 (165)
147 PRK03562 glutathione-regulated 24.1 1.5E+02 0.0032 27.7 4.8 26 76-101 409-434 (621)
148 PRK10795 penicillin-binding pr 24.1 68 0.0015 29.8 2.7 22 24-48 270-291 (634)
149 cd02809 alpha_hydroxyacid_oxid 24.0 1.6E+02 0.0035 24.5 4.7 43 81-127 133-176 (299)
150 TIGR00736 nifR3_rel_arch TIM-b 23.9 1.4E+02 0.003 25.0 4.3 42 81-130 152-198 (231)
151 PF13200 DUF4015: Putative gly 23.5 1.7E+02 0.0036 25.8 4.8 48 81-128 17-79 (316)
152 PLN02161 beta-amylase 23.2 1.2E+02 0.0026 29.1 4.1 45 84-128 124-172 (531)
153 PRK11024 colicin uptake protei 23.2 1.9E+02 0.0042 21.6 4.6 42 79-125 91-132 (141)
154 cd04518 TBP_archaea archaeal T 23.1 2.9E+02 0.0062 22.1 5.8 41 10-57 34-74 (174)
155 TIGR02801 tolR TolR protein. T 22.8 2.1E+02 0.0045 20.7 4.6 29 92-125 94-122 (129)
156 PRK08508 biotin synthase; Prov 22.5 1.1E+02 0.0025 25.2 3.5 49 79-127 101-154 (279)
157 PF01373 Glyco_hydro_14: Glyco 22.3 1.3E+02 0.0027 27.8 4.0 45 84-128 23-71 (402)
158 PF11871 DUF3391: Domain of un 21.7 77 0.0017 22.4 2.1 19 84-102 42-60 (128)
159 PF01008 IF-2B: Initiation fac 21.7 1.3E+02 0.0029 24.3 3.7 44 78-135 146-190 (282)
160 PF13812 PPR_3: Pentatricopept 21.3 71 0.0015 17.0 1.5 15 111-125 19-33 (34)
161 PLN02803 beta-amylase 21.2 1.4E+02 0.0031 28.8 4.2 45 84-128 114-162 (548)
162 PRK15108 biotin synthase; Prov 21.0 1.6E+02 0.0036 25.3 4.3 48 80-127 136-188 (345)
163 PF08579 RPM2: Mitochondrial r 21.0 59 0.0013 25.6 1.4 19 108-126 40-58 (120)
164 PRK05402 glycogen branching en 20.8 2.2E+02 0.0048 27.1 5.4 53 76-128 265-333 (726)
165 cd01948 EAL EAL domain. This d 20.6 1.7E+02 0.0036 21.8 3.8 48 78-127 100-149 (240)
166 PRK09441 cytoplasmic alpha-amy 20.5 2.1E+02 0.0047 25.4 5.0 50 77-127 23-98 (479)
167 TIGR02263 benz_CoA_red_C benzo 20.5 90 0.0019 27.2 2.6 46 80-129 311-357 (380)
168 PF14789 THDPS_M: Tetrahydrodi 20.4 57 0.0012 21.3 1.1 17 117-133 22-40 (41)
169 cd04740 DHOD_1B_like Dihydroor 20.2 2.2E+02 0.0047 23.2 4.7 42 81-126 106-157 (296)
170 cd00652 TBP_TLF TATA box bindi 20.2 3.8E+02 0.0082 21.2 5.9 42 9-57 33-74 (174)
171 PRK06443 chorismate mutase; Va 20.0 54 0.0012 27.3 1.1 41 107-147 91-131 (177)
No 1
>CHL00139 rpl18 ribosomal protein L18; Validated
Probab=99.86 E-value=1.4e-21 Score=145.61 Aligned_cols=96 Identities=23% Similarity=0.232 Sum_probs=89.6
Q ss_pred cCceeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCc
Q 031877 12 YPRYLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGI 91 (151)
Q Consensus 12 ~~~yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi 91 (151)
..++-|.+|.||++|+|||+|. +++.++|+|||.|++++..+. +..|.+||..||++||+|+++.||
T Consensus 13 ~~rpRL~V~rSnkhiyaQvidd---~~g~tlasaST~ek~~~~~~~----------~~~n~~aA~~vG~lla~ra~~~gi 79 (109)
T CHL00139 13 AERPRLSVFRSNKHIYAQIIDD---TNGKTLVACSTLEPDVKSSLS----------STSTCDASKLVGQKLAKKSLKKGI 79 (109)
T ss_pred CCCCEEEEEEeCCeEEEEEEEC---CCCCEEEEEecCchhhhcccc----------CCCCHHHHHHHHHHHHHHHHHCCC
Confidence 4466799999999999999998 899999999999999998876 569999999999999999999999
Q ss_pred ceeEeechhhccccccccchhhHHHHHHHHcCee
Q 031877 92 DNVMINLAEELSRPANQRIMVLPLFDSVRRAGVV 125 (151)
Q Consensus 92 ~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVk 125 (151)
+.|.+|.. +.+||++|.++.+++|++|++
T Consensus 80 ~~vvfDrg-----g~~yhGrV~a~a~~are~GL~ 108 (109)
T CHL00139 80 TKVVFDRG-----GKLYHGRIKALAEAAREAGLQ 108 (109)
T ss_pred CEEEEcCC-----CCccchHHHHHHHHHHHhCCC
Confidence 99999965 888999999999999999986
No 2
>cd00432 Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified.
Probab=99.86 E-value=3.3e-21 Score=138.14 Aligned_cols=96 Identities=21% Similarity=0.168 Sum_probs=90.7
Q ss_pred ccCceeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcC
Q 031877 11 KYPRYLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIG 90 (151)
Q Consensus 11 ~~~~yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~G 90 (151)
..++|-|.++.||++|+|||+|. .++.++++|||.|++++.++. ..+|..||..||+.||+|+++.|
T Consensus 8 ~~~~~RL~v~~Sn~~i~aqvi~~---~~~~vl~sast~e~~~~~~~~----------~~~n~~aA~~vG~~la~r~~~~g 74 (103)
T cd00432 8 TQERPRLVVRKSNKHIYAQIIDD---SGDKTLVSASTLELAIKGVLG----------SGNNVEAAYLVGRLLAKRALEKG 74 (103)
T ss_pred cCCCCEEEEEEeCCEEEEEEEEe---CcCeEEEEEecCchhhccccc----------CCCcHHHHHHHHHHHHHHHHHCC
Confidence 44689999999999999999999 899999999999999998886 66999999999999999999999
Q ss_pred cceeEeechhhccccccccchhhHHHHHHHHcCe
Q 031877 91 IDNVMINLAEELSRPANQRIMVLPLFDSVRRAGV 124 (151)
Q Consensus 91 i~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GV 124 (151)
+..|.+|.. +.+||++|+++++++|+.||
T Consensus 75 i~~vv~D~~-----~~~~~grv~a~~~~~r~~Gl 103 (103)
T cd00432 75 IKKVVFDRG-----GYRYHGRVKALAKGAREGGL 103 (103)
T ss_pred CCEEEEeCC-----CcccccHHHHHHHHHHHcCC
Confidence 999999987 88889999999999999996
No 3
>TIGR00060 L18_bact ribosomal protein L18, bacterial type. The archaeal and eukaryotic type rpL18 is not detectable under this model.
Probab=99.85 E-value=7e-21 Score=143.48 Aligned_cols=93 Identities=27% Similarity=0.293 Sum_probs=86.9
Q ss_pred ccCceeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcC
Q 031877 11 KYPRYLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIG 90 (151)
Q Consensus 11 ~~~~yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~G 90 (151)
.|.+.-|.+|.||++|+|||+|. .+++++|+|||.|++|+ ..+|.+||..||+.||+|+++.|
T Consensus 21 ~~~rpRL~V~rSnk~iyaQiIdd---~~~~tlasaST~ek~~~--------------~~~n~~aA~~vG~~la~ra~~~g 83 (114)
T TIGR00060 21 EANRPRLVVFRSNRHIYAQVIDD---SKSEVLASASTLEKKLK--------------YTGNKDAAKKVGKLVAERLKEKG 83 (114)
T ss_pred CCCCcEEEEEEeCCeEEEEEEEC---CCCEEEEEEecchhhhc--------------CCCCHHHHHHHHHHHHHHHHHCC
Confidence 45677999999999999999999 99999999999999975 23899999999999999999999
Q ss_pred cceeEeechhhccccccccchhhHHHHHHHHcCee
Q 031877 91 IDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVV 125 (151)
Q Consensus 91 i~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVk 125 (151)
|+.|.+|.. +++||++|+|+.|++|++|++
T Consensus 84 i~~vvfDrg-----g~~YhGrv~A~a~~aRe~Gl~ 113 (114)
T TIGR00060 84 IKDVVFDRG-----GYKYHGRVAALAEAAREAGLN 113 (114)
T ss_pred CCEEEEeCC-----CCcchHHHHHHHHHHHHhCCC
Confidence 999999965 999999999999999999986
No 4
>PF00861 Ribosomal_L18p: Ribosomal L18p/L5e family; InterPro: IPR005484 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes L18 from bacteria and L5 from eukaryotes. The ribosomal 5S RNA is the only known rRNA species to bind a ribosomal protein before its assembly into the ribosomal subunits []. In eukaryotes, the 5S rRNA molecule binds one protein species, a 34kDa protein which has been implicated in the intracellular transport of 5 S rRNA, while in bacteria it binds two or three different protein species []. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_M 4A1C_M 4A1A_M 4A17_M 3IZR_Q 3O58_E 1S1I_E 3IZS_Q 3O5H_E 1KQS_M ....
Probab=99.84 E-value=3.1e-20 Score=137.87 Aligned_cols=98 Identities=22% Similarity=0.213 Sum_probs=89.5
Q ss_pred CceeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCcc
Q 031877 13 PRYLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGID 92 (151)
Q Consensus 13 ~~yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi~ 92 (151)
.+|-|.+|.||++|+|||+|. .++.++++|||.|++|+...- .++..|..||..||++||+|+++.||.
T Consensus 22 ~~~RL~V~~Snk~i~aQii~~---~~~~~l~~aSt~~~~l~~~~~--------~~~~~n~~aa~~vG~lla~ra~~~gi~ 90 (119)
T PF00861_consen 22 ERPRLVVFRSNKHIYAQIIDD---SKGGTLASASTLSKELKKYGW--------KGSTKNVEAAYLVGELLAKRALEKGIA 90 (119)
T ss_dssp SSEEEEEEEESSEEEEEEEEC---TTTEEEEEEEEETTTGGGTT---------SSTTSSHHHHHHHHHHHHHHHHHTTSS
T ss_pred CCCEEEEEeccCeEEEEEEee---CCCCeEEEEEecchhhhhhhh--------ccCCCCEehHHHHHHHHHHHHHHcCCc
Confidence 578999999999999999999 999999999999999998532 135689999999999999999999999
Q ss_pred eeEeechhhccccccccchhhHHHHHHHHcCeee
Q 031877 93 NVMINLAEELSRPANQRIMVLPLFDSVRRAGVVV 126 (151)
Q Consensus 93 ~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv 126 (151)
.|.+|.. +.+||++|+++.+++|+.|+++
T Consensus 91 ~v~fdr~-----~~~y~grv~a~~~~~re~Gl~f 119 (119)
T PF00861_consen 91 KVVFDRG-----GYKYHGRVKALADGAREGGLEF 119 (119)
T ss_dssp EEEECTS-----TSSSSSHHHHHHHHHHHTTCB-
T ss_pred EEEEcCC-----CCcccHHHHHHHHHHHHcCCCC
Confidence 9999986 9999999999999999999974
No 5
>PRK05593 rplR 50S ribosomal protein L18; Reviewed
Probab=99.83 E-value=3.2e-20 Score=139.53 Aligned_cols=95 Identities=25% Similarity=0.241 Sum_probs=87.5
Q ss_pred CceeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCcc
Q 031877 13 PRYLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGID 92 (151)
Q Consensus 13 ~~yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi~ 92 (151)
.++-|.+|.||++|+|||+|. .++.++++|||.|++++..+. ..|.+||..||++||.|+++.||+
T Consensus 23 ~rpRL~V~~SnkhiyAQvidd---~~~~tl~saST~e~~~k~~~~-----------~~n~~aa~~vG~~la~ra~~~gi~ 88 (117)
T PRK05593 23 ERPRLSVFRSNRHIYAQVIDD---VKGKTLASASTLEKDVRAGLK-----------GGNKEAAKKVGKLIAERAKAKGIK 88 (117)
T ss_pred CCCEEEEEEeCCeEEEEEEEC---CCCEEEEEEecCcHhHhcccc-----------CCCHHHHHHHHHHHHHHHHHCCCC
Confidence 366899999999999999999 999999999999999965553 389999999999999999999999
Q ss_pred eeEeechhhccccccccchhhHHHHHHHHcCeee
Q 031877 93 NVMINLAEELSRPANQRIMVLPLFDSVRRAGVVV 126 (151)
Q Consensus 93 ~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv 126 (151)
.|.+|.. +.+||++|+++.+.+|++|++.
T Consensus 89 ~vvfDrg-----~~~yhGrV~a~a~~are~Gl~f 117 (117)
T PRK05593 89 QVVFDRG-----GYKYHGRVKALADAAREAGLKF 117 (117)
T ss_pred EEEEcCC-----CCcccHHHHHHHHHHHHhCCCC
Confidence 9999965 9999999999999999999863
No 6
>PTZ00032 60S ribosomal protein L18; Provisional
Probab=99.76 E-value=3.6e-18 Score=141.15 Aligned_cols=105 Identities=15% Similarity=0.130 Sum_probs=94.3
Q ss_pred ccCceeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhcc----ccCCCCCCCCcccchhHHHHHHHHHHHHH
Q 031877 11 KYPRYLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYH----SKLNPFPKRHRFWDSNTVVVVGQKLGSQL 86 (151)
Q Consensus 11 ~~~~yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e----~~l~~~~rs~~~~DakaAa~VGe~La~RL 86 (151)
--+++-|.+|-|+++|.||++|. .+++++|+|||.|++++..+. ...|+.-+. ..|.+||..||+.+|+|+
T Consensus 102 gkrrPRLsV~RSnkHIYAQIIDD---~~~~TLasaSTlek~l~~~~~~~~~~~~n~~~~~--g~nieaA~~VGk~IAerA 176 (211)
T PTZ00032 102 GKRRPRLTLKNTNNQMYATIVDD---YTRHVLCFSCTNFKYLSHIFGTYPTKTTNRVRNN--GGTIKAAYELGKLIGRKA 176 (211)
T ss_pred CCCcceEEEEecCCeEEEEEEEC---CCCCEEEEecCCCHHHHhhhcccccccccccccC--CCcHHHHHHHHHHHHHHH
Confidence 34688999999999999999999 999999999999999988764 345655444 489999999999999999
Q ss_pred HhcCcceeEeechhhccccccccchhhHHHHHHHHcCee
Q 031877 87 REIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVV 125 (151)
Q Consensus 87 k~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVk 125 (151)
+..||+.|.+|-. +++|||+|+||-|+.|++|++
T Consensus 177 l~kGI~kVvFDRg-----Gy~YHGRVkALAdaARe~GLk 210 (211)
T PTZ00032 177 LSKGISKVRFDRA-----HYKYAGKVEALAEGARAVGLQ 210 (211)
T ss_pred HHCCCCEEEEeCC-----CCeehhHHHHHHHHHHHcCCC
Confidence 9999999999965 999999999999999999986
No 7
>COG0256 RplR Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=99.62 E-value=3.2e-15 Score=115.06 Aligned_cols=97 Identities=24% Similarity=0.233 Sum_probs=86.1
Q ss_pred ceeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCcce
Q 031877 14 RYLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGIDN 93 (151)
Q Consensus 14 ~yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi~~ 93 (151)
+.-|=.|.|+++|.|||+|. ..+..+++||+.|++|+. +- + .....|..||..||+.+|+|+++.||++
T Consensus 29 rpRL~V~rSnkhi~aQiId~---~~~~tla~aSt~~~~l~~-~g-----~--~~~~~N~~aA~~vG~lia~ra~~kgi~~ 97 (125)
T COG0256 29 RPRLVVRRSNRHIYAQIIDD---VKGGTLASASTLSKELRK-YG-----K--KGGGGNTEAAYLVGKLIAERALAKGIEE 97 (125)
T ss_pred CcEEEEEEeCCcEEEEEEEc---CCCceEEEEEcchHHHHh-hc-----c--cCCCCCHHHHHHHHHHHHHHHHHcCCcE
Confidence 55688899999999999999 999999999999999976 22 1 1123699999999999999999999999
Q ss_pred eEeechhhccccccccchhhHHHHHHHHcCeee
Q 031877 94 VMINLAEELSRPANQRIMVLPLFDSVRRAGVVV 126 (151)
Q Consensus 94 V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv 126 (151)
|-||.. +++||++|.|+.++.|++|+++
T Consensus 98 vVfdr~-----g~~yhgRV~Ala~~AreaGL~f 125 (125)
T COG0256 98 VVFDRG-----GYKYHGRVAALADGAREAGLEF 125 (125)
T ss_pred EEEcCC-----CCCcchHHHHHHHHHHHcCcCC
Confidence 999998 9999999999999999999864
No 8
>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed
Probab=99.60 E-value=6.5e-15 Score=119.91 Aligned_cols=98 Identities=14% Similarity=0.177 Sum_probs=88.7
Q ss_pred ceeeEEEEeeceeEEEee--cCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCc
Q 031877 14 RYLLQLILSCRKITAQVS--DTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGI 91 (151)
Q Consensus 14 ~yvLrL~lS~k~ITAqVv--~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi 91 (151)
++-|-++.||++|.|||+ |. ..+.++|+|||.|.+++.... ...|..||..||+.||.|++..||
T Consensus 32 kpRLvV~rSNkhIyaQiI~~dd---~gd~tLaSAsS~el~~~g~~~----------~~~N~~AAy~vG~llA~ral~kGi 98 (193)
T PRK08569 32 KPRLVVRKTNKHVIAQIVKYDP---KGDRTLASAHSRELAKYGWKG----------DTGNTPAAYLTGLLAGKKALKAGV 98 (193)
T ss_pred CCEEEEEEeCCeEEEEEEEccC---CCCEEEEEEecCchhhccccC----------CCCCHHHHHHHHHHHHHHHHHCCC
Confidence 467889999999999999 78 899999999999999866554 458999999999999999999999
Q ss_pred ceeEeechhhcccccccc--chhhHHHHHHHHcCeeeecc
Q 031877 92 DNVMINLAEELSRPANQR--IMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 92 ~~V~id~~eE~sr~~kyr--~kV~al~dSlR~~GVkv~g~ 129 (151)
+.|-+|.. +.+|| ++|.|+.+..|++|+++=--
T Consensus 99 ~~vvfDrG-----g~~yh~gGRV~A~akgArd~GL~fPh~ 133 (193)
T PRK08569 99 EEAVLDIG-----LHRPTKGSRVFAALKGAIDAGLEIPHG 133 (193)
T ss_pred CEEEEecC-----CccccCCccHHHHHHHHHHcCCcCCCC
Confidence 99999997 88888 99999999999999997543
No 9
>KOG3333 consensus Mitochondrial/chloroplast ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=98.22 E-value=6e-06 Score=67.90 Aligned_cols=101 Identities=17% Similarity=0.215 Sum_probs=84.8
Q ss_pred eeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCccee
Q 031877 15 YLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGIDNV 94 (151)
Q Consensus 15 yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi~~V 94 (151)
|-|+++-+-.++.+-|.|- +.|. |.+||+.|-++++++- ++.|.-|+.-||.+||.|-.+-||...
T Consensus 61 h~lev~~~~~hveg~v~H~---~~gv-vvSAST~EwaIk~qLY----------st~dtsA~~niGRVLAqRCLqsGI~fm 126 (188)
T KOG3333|consen 61 HRLEVIRTQHHVEGLVEHQ---NGGV-VVSASTREWAIKKQLY----------STRDTSACENIGRVLAQRCLQSGINFM 126 (188)
T ss_pred eEEEEeecccceeeeeeEe---cCCE-EEEecccchHHHHHHh----------hccchHHHHHHHHHHHHHHHHhCccee
Confidence 6789999999999999999 6665 5579999999999999 889999999999999999999999998
Q ss_pred Eeechhhc-cccccccchhhHHHHHHHHcCeeeeccccccc
Q 031877 95 MINLAEEL-SRPANQRIMVLPLFDSVRRAGVVVDGLEKLAE 134 (151)
Q Consensus 95 ~id~~eE~-sr~~kyr~kV~al~dSlR~~GVkv~g~~~l~~ 134 (151)
..+...|- -.... .-|+..|.+.||.+--...+.+
T Consensus 127 ~~~~t~ea~~~s~~-----q~l~~a~~e~Gv~lkEP~ri~~ 162 (188)
T KOG3333|consen 127 VYQPTPEAAASSSM-----QRLQSAMTEGGVVLKEPQRIYE 162 (188)
T ss_pred ccCCChhhccchHH-----HHHHHHHHhCCeeecCcccccc
Confidence 88876554 33332 3389999999999876655543
No 10
>PTZ00069 60S ribosomal protein L5; Provisional
Probab=96.90 E-value=0.0039 Score=54.69 Aligned_cols=65 Identities=17% Similarity=0.179 Sum_probs=51.6
Q ss_pred ceeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhc
Q 031877 14 RYLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREI 89 (151)
Q Consensus 14 ~yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~ 89 (151)
.|-|=.-+||+.|.||++.. .-.-..|+|+|.|.|-. +||=.+...|-.||-..|=.||.|+...
T Consensus 48 K~RlVVR~TN~~ii~Qiv~~-~~~GD~vl~sA~S~eL~----------kyG~k~gl~N~~AAY~TGlL~arR~L~k 112 (300)
T PTZ00069 48 KYRLVVRITNKDIICQIVYA-TIVGDKVLAAAYSHELP----------RFGIPVGLTNYAAAYATGLLLARRLLKK 112 (300)
T ss_pred CceEEEEEECCcEEEEEEEe-ecCCCEEEEEeehhhHh----------hcCcCCCCccHHHHHHHHHHHHHHHHHh
Confidence 34455668999999999987 44566899999987732 3555567789999999999999999888
No 11
>PF00411 Ribosomal_S11: Ribosomal protein S11; InterPro: IPR001971 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S11 [] plays an essential role in selecting the correct tRNA in protein biosynthesis. It is located on the large lobe of the small ribosomal subunit. On the basis of sequence similarities, S11 belongs to a family of bacterial, archaeal and eukaryotic ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2YKR_K 3U5C_O 3O2Z_H 3IZB_K 3U5G_O 3O30_H 1S1H_K 3BBN_K 2XZN_K 2XZM_K ....
Probab=96.04 E-value=0.11 Score=38.36 Aligned_cols=92 Identities=12% Similarity=0.259 Sum_probs=69.8
Q ss_pred eeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCcceeE
Q 031877 16 LLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGIDNVM 95 (151)
Q Consensus 16 vLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi~~V~ 95 (151)
++-+..|-+-+-..|+|. +|.++..+|+----|+..-+ ...-||..+++.++..+++.|+..|+
T Consensus 2 iihI~~s~NNt~vtlTd~----~G~~~~~~S~G~~gfK~~rk------------~t~~Aa~~~a~~~~~~~~~~gi~~v~ 65 (110)
T PF00411_consen 2 IIHIKSSFNNTIVTLTDL----KGNVLFWSSAGSLGFKGARK------------STPYAAQQAAEKIAKKAKELGIKTVR 65 (110)
T ss_dssp EEEEEEESSEEEEEEEET----TSEEEEEEETTTSSTTTTCG------------SSHHHHHHHHHHHHHHHHCTTEEEEE
T ss_pred EEEEEecCCCEEEEEECC----CCCEEEEEeccccccccccc------------cCHHHHHHHHHHHHHHHHHcCCeEEE
Confidence 355667777778889998 68888888886556666555 56788999999999999999999999
Q ss_pred eechhhccccccccchhhHHHHHHHHcCeeeeccc
Q 031877 96 INLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 96 id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~ 130 (151)
+-++ -+-..| .+++..|+..|+++.-.+
T Consensus 66 v~ik----G~g~gr---~~~lk~l~~~gl~I~~I~ 93 (110)
T PF00411_consen 66 VKIK----GFGPGR---EAALKALKKSGLKIVSIT 93 (110)
T ss_dssp EEEE----SSSTTH---HHHHHHHHHTTSEEEEEE
T ss_pred EEEc----CCCccH---HHHHHHHHhcCCEEEEEE
Confidence 9987 332222 267788899998865433
No 12
>CHL00041 rps11 ribosomal protein S11
Probab=95.71 E-value=0.12 Score=38.88 Aligned_cols=92 Identities=12% Similarity=0.224 Sum_probs=71.9
Q ss_pred eeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCcceeE
Q 031877 16 LLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGIDNVM 95 (151)
Q Consensus 16 vLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi~~V~ 95 (151)
++-.+.|-+-+-..++|. .|.+++.+|+----|+...+ .-.-||-.++|.++..+++.|+..|+
T Consensus 15 i~hI~~t~NNTiiTlTd~----~G~~l~~~S~G~~gfKg~rK------------~T~~Aa~~~a~~~~~~~~~~gi~~v~ 78 (116)
T CHL00041 15 VIHIQASFNNTIVTVTDV----RGRVISWSSAGACGFKGARK------------GTPFAAQTAAENAIRTVIDQGMKRAE 78 (116)
T ss_pred EEEEEcccCCEEEEEEcC----CCCEEEEEecCceeeCCCcc------------CCHHHHHHHHHHHHHHHHHcCCcEEE
Confidence 666777777778888998 57889988887656766655 33678999999999999999999999
Q ss_pred eechhhccccccccchhhHHHHHHHHcCeeeeccc
Q 031877 96 INLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 96 id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~ 130 (151)
|-++ =+=..| .+++.+|++.|+++.-..
T Consensus 79 I~ik----G~G~Gr---~~~ir~l~~~glkI~~I~ 106 (116)
T CHL00041 79 VMIK----GPGLGR---DTALRAIRRSGLKLSSIR 106 (116)
T ss_pred EEEE----CCCCcH---HHHHHHHHHCCCEEEEEE
Confidence 9987 222333 677899999999886544
No 13
>TIGR03632 bact_S11 30S ribosomal protein S11. This model describes the bacterial 30S ribosomal protein S11. Cutoffs are set such that the model excludes archaeal and eukaryotic ribosomal proteins, but many chloroplast and mitochondrial equivalents of S11 are detected.
Probab=95.43 E-value=0.18 Score=37.34 Aligned_cols=91 Identities=11% Similarity=0.200 Sum_probs=67.7
Q ss_pred eEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCcceeEe
Q 031877 17 LQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGIDNVMI 96 (151)
Q Consensus 17 LrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi~~V~i 96 (151)
+-.+.|.+-+-..++|. +|.+++.+|+---.|+..-+ .-.-||..++|.++..+++.|+..|+|
T Consensus 3 ~hI~~s~NNT~itlTd~----~g~~~~~~S~G~~gfkg~rk------------~t~~Aa~~~a~~~~~~~~~~gi~~v~v 66 (108)
T TIGR03632 3 AHIHATFNNTIVTITDP----QGNVLSWASAGAVGFKGSKK------------STPYAAQLAAEDAAKKAKEFGMKTVDV 66 (108)
T ss_pred EEEEccCCCEEEEEEcC----CCCEEEEEecCceeeCCCcc------------CCHHHHHHHHHHHHHHHHHcCCcEEEE
Confidence 44556667777788898 56678888876555666644 346678899999999999999999999
Q ss_pred echhhccccccccchhhHHHHHHHHcCeeeeccc
Q 031877 97 NLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 97 d~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~ 130 (151)
-++ ++-+ ++ .+++.+|++.|+++.-.+
T Consensus 67 ~~k-----G~G~-gr-~~~ir~l~~~glkI~~I~ 93 (108)
T TIGR03632 67 YVK-----GPGA-GR-ESAIRALQAAGLEVTSIK 93 (108)
T ss_pred EEE-----CCCC-cH-HHHHHHHHHCCCEEEEEE
Confidence 996 3332 22 678899999999876443
No 14
>PTZ00090 40S ribosomal protein S11; Provisional
Probab=94.92 E-value=0.29 Score=42.05 Aligned_cols=95 Identities=20% Similarity=0.275 Sum_probs=78.9
Q ss_pred CceeeEEEEeeceeEEEeecCCCCCCce--EEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcC
Q 031877 13 PRYLLQLILSCRKITAQVSDTASAGSST--IVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIG 90 (151)
Q Consensus 13 ~~yvLrL~lS~k~ITAqVv~~~~~~tst--IVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~G 90 (151)
.++.|-+..|-.-+-++|+|. .|. +++-+|+----|+..-. .-+-||-.++|..+...++.|
T Consensus 117 ~~f~~vI~aSfNNTIVTlTD~----~GNv~tl~WSSAG~~GFKGsKK------------sTpfAAQ~aae~aakka~~~G 180 (233)
T PTZ00090 117 DRFMLVITTSKNNVHAQVVNK----SKNYKTVFGSFAGNVGFRKKLQ------------QSERCAYRIGENIAKKCRRLG 180 (233)
T ss_pred CcEEEEEEeccCcEEEEEEeC----CCCEEEEEEEcccccCcccCcc------------CCHHHHHHHHHHHHHHHHHcC
Confidence 356677777888899999998 555 58888888777887776 668899999999999999999
Q ss_pred cceeEeechhhccccccccchhhHHHHHHHHcCeeeecccc
Q 031877 91 IDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLEK 131 (151)
Q Consensus 91 i~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~~ 131 (151)
+..|+|-++ .|- ..-+.+.+|+..|++|.-...
T Consensus 181 Ik~V~V~vK----GpG----gREtALRaL~~~GLkIt~I~D 213 (233)
T PTZ00090 181 IFAVDIKFR----RIM----RVETVLQAFYANGLQVTQIIH 213 (233)
T ss_pred CeEEEEEEe----CCC----hHHHHHHHHHHCCCEEEEEEE
Confidence 999999998 552 378999999999999976543
No 15
>PRK05309 30S ribosomal protein S11; Validated
Probab=94.42 E-value=0.57 Score=35.96 Aligned_cols=96 Identities=13% Similarity=0.201 Sum_probs=72.4
Q ss_pred cCceeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCc
Q 031877 12 YPRYLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGI 91 (151)
Q Consensus 12 ~~~yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi 91 (151)
|..-++-.+.|..-+-..++|. +|.+++.+|+----|+..-+ .-.-||-.++|.++..+++.|+
T Consensus 15 ~~~gi~hI~~t~NNTiitlTd~----~G~~~~~~S~G~~gfKg~rK------------~T~~Aa~~aa~~~~~~~~~~gi 78 (128)
T PRK05309 15 IPSGVAHIHATFNNTIVTITDR----QGNVISWASAGGLGFKGSRK------------STPYAAQVAAEDAAKKAKEHGM 78 (128)
T ss_pred cceeEEEEEccCCCEEEEEEcC----CCCEEEEEecCccEeCCCcc------------CCHHHHHHHHHHHHHHHHHcCC
Confidence 4456777888888888889997 57788888776445665544 3456888899999999999999
Q ss_pred ceeEeechhhccccccccchhhHHHHHHHHcCeeeeccc
Q 031877 92 DNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 92 ~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~ 130 (151)
..|+|-++ ++-+ ++ .+++.+|++.|+++.-.+
T Consensus 79 ~~v~v~ik-----G~G~-Gr-~~air~L~~~glkI~~I~ 110 (128)
T PRK05309 79 KTVEVFVK-----GPGS-GR-ESAIRALQAAGLEVTSIK 110 (128)
T ss_pred cEEEEEEE-----CCCC-cH-HHHHHHHHHCCCEEEEEE
Confidence 99999986 3322 22 678888999999876433
No 16
>TIGR03628 arch_S11P archaeal ribosomal protein S11P. This model describes exclusively the archaeal ribosomal protein S11P. It excludes homologous ribosomal proteins S14 from eukaryotes and S11 from bacteria.
Probab=92.50 E-value=1.7 Score=33.25 Aligned_cols=94 Identities=14% Similarity=0.185 Sum_probs=67.2
Q ss_pred EEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCcceeEeec
Q 031877 19 LILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGIDNVMINL 98 (151)
Q Consensus 19 L~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi~~V~id~ 98 (151)
.+.|-+-.-..|+|. .-..+++-+|+-..-|+..-+ .-+=||-...|..+.++++.|+..|+|-+
T Consensus 7 I~as~NNTiitvTD~---~G~~~~~~~S~G~~g~kg~kk------------~TpyAAq~aa~~~~~~~~~~Gi~~v~v~i 71 (114)
T TIGR03628 7 IYSSFNNTIITITDI---TGAETIARSSGGMVVKADRDE------------SSPYAAMQAAGRAAEKAKERGITGLHIKV 71 (114)
T ss_pred EEccCCCeEEEEEcC---CCCEEEEEecCcceEeCCCcc------------CCHHHHHHHHHHHHHHHHHcCCcEEEEEE
Confidence 344555555678887 333668888887777777666 45668889999999999999999999998
Q ss_pred hhhccccccccch-----hhHHHHHHHHcCeeeecccc
Q 031877 99 AEELSRPANQRIM-----VLPLFDSVRRAGVVVDGLEK 131 (151)
Q Consensus 99 ~eE~sr~~kyr~k-----V~al~dSlR~~GVkv~g~~~ 131 (151)
+ -.=.+..| =.+.+.+|++.|+++.-.+.
T Consensus 72 k----G~gg~~~~~~G~Gr~~air~l~~~glkI~~I~D 105 (114)
T TIGR03628 72 R----APGGNGQKSPGPGAQAAIRALARAGLRIGRIED 105 (114)
T ss_pred E----ecCCCCCCCCCCcHHHHHHHHHHCCCEEEEEEE
Confidence 7 21111112 25678999999999875544
No 17
>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed
Probab=92.33 E-value=1.8 Score=34.03 Aligned_cols=99 Identities=15% Similarity=0.201 Sum_probs=72.3
Q ss_pred eeeEEEEeeceeEEEeecCCCCCCc-eEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCcce
Q 031877 15 YLLQLILSCRKITAQVSDTASAGSS-TIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGIDN 93 (151)
Q Consensus 15 yvLrL~lS~k~ITAqVv~~~~~~ts-tIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi~~ 93 (151)
=++-.+.|-+-.-..|+|. .| .+++-+|+-..-|...-+ .-+=||-...|..+.++++.||..
T Consensus 10 gi~hI~as~NNTivtvTD~----~G~~~~~~~S~G~~g~kg~kK------------~TpyAAq~aae~~~~~~~~~Gi~~ 73 (132)
T PRK09607 10 GIAHIYASFNNTIITITDL----TGAETIAKSSGGMVVKADRDE------------SSPYAAMQAAEKAAEDAKEKGITG 73 (132)
T ss_pred eEEEEEcccCCeEEEEEcC----CCCEEEEEecCcceeeCCCcc------------CCHHHHHHHHHHHHHHHHHcCCcE
Confidence 3566667777777789998 45 478888887776766655 445688999999999999999999
Q ss_pred eEeechhhccccccccch-----hhHHHHHHHHcCeeeecccccc
Q 031877 94 VMINLAEELSRPANQRIM-----VLPLFDSVRRAGVVVDGLEKLA 133 (151)
Q Consensus 94 V~id~~eE~sr~~kyr~k-----V~al~dSlR~~GVkv~g~~~l~ 133 (151)
|+|-++ -.=-+..| =...+.+|++.|+++.-.+..-
T Consensus 74 v~v~vk----G~Ggn~~~~~G~Gr~~airal~~~glkI~~I~DvT 114 (132)
T PRK09607 74 VHIKVR----APGGNGQKSPGPGAQAAIRALARAGLRIGRIEDVT 114 (132)
T ss_pred EEEEEE----ecCCCCCcCCCCcHHHHHHHHHHCCCEEEEEEEcC
Confidence 999997 21111111 2467899999999987655443
No 18
>PTZ00129 40S ribosomal protein S14; Provisional
Probab=89.11 E-value=5.1 Score=32.25 Aligned_cols=102 Identities=15% Similarity=0.245 Sum_probs=70.2
Q ss_pred eeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhc-cccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCcce
Q 031877 15 YLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHY-HSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGIDN 93 (151)
Q Consensus 15 yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~-e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi~~ 93 (151)
=++-.+-|-+-.--.|+|. +|.+++-+||--.-|+..- + .-+=||-...|.++..+++.||..
T Consensus 29 Gi~hI~as~NNTiItiTD~----~G~~~~w~SsG~~gfKg~r~K------------sTpyAAq~aa~~~a~k~~~~Gi~~ 92 (149)
T PTZ00129 29 GVAHIFASFNDTFIHVTDL----SGRETLVRVTGGMKVKADRDE------------SSPYAAMMAAQDVAARCKELGINA 92 (149)
T ss_pred EEEEEEcccCCeEEEEEcc----cCCEEEEEecCcceecccccC------------CCHHHHHHHHHHHHHHHHHcCCeE
Confidence 3555566666666678887 5777777777666666554 3 234588889999999999999999
Q ss_pred eEeechh--hc-c-ccccccchhhHHHHHHHHcCeeeecccccccc
Q 031877 94 VMINLAE--EL-S-RPANQRIMVLPLFDSVRRAGVVVDGLEKLAED 135 (151)
Q Consensus 94 V~id~~e--E~-s-r~~kyr~kV~al~dSlR~~GVkv~g~~~l~~~ 135 (151)
|+|-+.- +. + -|=.- =.+.|..|.+.|+++.-.+..-.|
T Consensus 93 v~V~vr~~gg~~~kg~GpG---r~~airaL~~~glkI~~I~DvTPi 135 (149)
T PTZ00129 93 LHIKLRATGGVRTKTPGPG---AQAALRALARAGLKIGRIEDVTPI 135 (149)
T ss_pred EEEEEEecCCCCCCCCCCC---HHHHHHHHHHCCCEEEEEEecCCC
Confidence 9999820 00 0 11111 246789999999999876654444
No 19
>COG0100 RpsK Ribosomal protein S11 [Translation, ribosomal structure and biogenesis]
Probab=77.48 E-value=11 Score=29.86 Aligned_cols=79 Identities=16% Similarity=0.265 Sum_probs=61.7
Q ss_pred CCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHH
Q 031877 37 GSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLF 116 (151)
Q Consensus 37 ~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~ 116 (151)
.+|.+++.|||--.-|+..=+ .-+-||-.-.+.++.-.++.||.+|+|-++ -|-.-| -+.+
T Consensus 37 ~~Gn~i~wassG~~gfk~~rk------------~tpyAA~~aa~~aa~~a~e~Gi~~v~v~vk----gpG~Gr---eaAi 97 (129)
T COG0100 37 LTGNVIIWASSGGMGFKGSRK------------STPYAAQLAAEDAAKKAKEHGIKSVEVKVK----GPGPGR---EAAI 97 (129)
T ss_pred CCCCEEEEEecCCceEcCCCC------------CCHHHHHHHHHHHHHHHHHhCccEEEEEEE----CCCCcH---HHHH
Confidence 478888899987776766544 667888899999999999999999999998 444433 3678
Q ss_pred HHHHHcCeeeeccccccc
Q 031877 117 DSVRRAGVVVDGLEKLAE 134 (151)
Q Consensus 117 dSlR~~GVkv~g~~~l~~ 134 (151)
.+|.++|+++.-.+..--
T Consensus 98 raL~~ag~~i~~I~DvTP 115 (129)
T COG0100 98 RALAAAGLKITRIEDVTP 115 (129)
T ss_pred HHHHHccceEEEEEEcCC
Confidence 899999999876554433
No 20
>cd07039 TPP_PYR_POX Pyrimidine (PYR) binding domain of POX. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate oxidase (POX) subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Most TPP-dependent enzymes have the PYR and PP domains on the same subunit although these domains can be alternatively arranged in the primary structure. TPP-dependent enzymes are multisubunit proteins, the smallest catalytic unit being a dimer-of-active sites. Lactobacillus plantarum POX is a homotetramer (dimer-of-homodimers), having two active sites per homodimer lying between PYR and PP domains of differ
Probab=75.22 E-value=6.3 Score=30.12 Aligned_cols=42 Identities=19% Similarity=0.196 Sum_probs=35.2
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
+++.|+.+|++.||+.|--..- ..+.++++++.+ .|++++..
T Consensus 2 ~~~~l~~~L~~~Gv~~vFgipG----------~~~~~l~~al~~~~~i~~v~~ 44 (164)
T cd07039 2 VADVIVETLENWGVKRVYGIPG----------DSINGLMDALRREGKIEFIQV 44 (164)
T ss_pred HHHHHHHHHHHCCCCEEEEcCC----------CchHHHHHHHhhcCCCeEEEe
Confidence 5789999999999999887776 567899999976 78887654
No 21
>COG0858 RbfA Ribosome-binding factor A [Translation, ribosomal structure and biogenesis]
Probab=74.89 E-value=4.6 Score=30.64 Aligned_cols=46 Identities=13% Similarity=0.195 Sum_probs=42.5
Q ss_pred hHHHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc
Q 031877 73 NTVVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA 122 (151)
Q Consensus 73 kaAa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~ 122 (151)
+|+-.+...||.+++..=+|++++-.+ ..+.|.-++++|++.++..
T Consensus 71 ~A~g~ir~~l~~~~~lr~~PeL~F~~D----~s~~~~~ki~~Ll~~l~~~ 116 (118)
T COG0858 71 KAKGFIRSELGKRLRLRKTPELHFVYD----DSIENGNKIDALLNDLKKA 116 (118)
T ss_pred HhHHHHHHHHHHhCCeEeCCeEEEEeC----cccchHHHHHHHHHHhhhc
Confidence 688899999999999999999999999 8888999999999998764
No 22
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=72.58 E-value=4.6 Score=33.49 Aligned_cols=63 Identities=22% Similarity=0.288 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhc-ccc-ccccchhhHHHHHHHHcCeeeecccccccccccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEEL-SRP-ANQRIMVLPLFDSVRRAGVVVDGLEKLAEDRVGR 139 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~-sr~-~kyr~kV~al~dSlR~~GVkv~g~~~l~~~~~~~ 139 (151)
.|=++=...|+..||..|-.|+++=| .-. -.---.+.+.|+.+|++|++|.-+.+-.+-||++
T Consensus 14 tv~~i~~~~L~~~Gikgvi~DlDNTLv~wd~~~~tpe~~~W~~e~k~~gi~v~vvSNn~e~RV~~ 78 (175)
T COG2179 14 TVFDITPDILKAHGIKGVILDLDNTLVPWDNPDATPELRAWLAELKEAGIKVVVVSNNKESRVAR 78 (175)
T ss_pred hHhhCCHHHHHHcCCcEEEEeccCceecccCCCCCHHHHHHHHHHHhcCCEEEEEeCCCHHHHHh
Confidence 45666778999999999999999877 222 2233478999999999999999999999999984
No 23
>PF14871 GHL6: Hypothetical glycosyl hydrolase 6
Probab=72.21 E-value=10 Score=28.92 Aligned_cols=48 Identities=13% Similarity=0.227 Sum_probs=39.0
Q ss_pred HHHHHHHHhcCcceeEeech---------hhc---cccccccchhhHHHHHHHHcCeeeec
Q 031877 80 QKLGSQLREIGIDNVMINLA---------EEL---SRPANQRIMVLPLFDSVRRAGVVVDG 128 (151)
Q Consensus 80 e~La~RLk~~Gi~~V~id~~---------eE~---sr~~kyr~kV~al~dSlR~~GVkv~g 128 (151)
+.++.-||..|++.|.++++ -++ ....+ +.-+..++++.++.||+|..
T Consensus 3 ~~~~~~lk~~~v~si~i~a~~h~g~ayYPt~~~~~hp~L~-~Dllge~v~a~h~~Girv~a 62 (132)
T PF14871_consen 3 EQFVDTLKEAHVNSITIFAKCHGGYAYYPTKVGPRHPGLK-RDLLGEQVEACHERGIRVPA 62 (132)
T ss_pred HHHHHHHHHhCCCEEEEEcccccEEEEccCCCCcCCCCCC-cCHHHHHHHHHHHCCCEEEE
Confidence 45677899999999999876 122 55566 78899999999999999975
No 24
>PF02776 TPP_enzyme_N: Thiamine pyrophosphate enzyme, N-terminal TPP binding domain; InterPro: IPR012001 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This represents the N-terminal TPP binding domain of TPP enzymes.; GO: 0030976 thiamine pyrophosphate binding; PDB: 3HWX_1 3FLM_B 3HWW_A 2JLC_A 2JLA_A 2VBG_A 2VBF_B 2Q29_A 2Q27_B 2Q28_B ....
Probab=71.98 E-value=11 Score=28.41 Aligned_cols=43 Identities=21% Similarity=0.318 Sum_probs=33.6
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc-Ceeeeccc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA-GVVVDGLE 130 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~-GVkv~g~~ 130 (151)
++|.|+..|+..||+.|---.. .-+.+|+++|.+. |++++..-
T Consensus 3 ~~~~l~~~L~~~Gv~~vfgvpG----------~~~~~l~~al~~~~~i~~i~~~ 46 (172)
T PF02776_consen 3 GAEALAEALKANGVTHVFGVPG----------SGNLPLLDALEKSPGIRFIPVR 46 (172)
T ss_dssp HHHHHHHHHHHTT-SEEEEE------------GGGHHHHHHHHHTTTSEEEE-S
T ss_pred HHHHHHHHHHHCCCeEEEEEeC----------hhHhHHHHHhhhhcceeeeccc
Confidence 5799999999999999887766 4567899999999 78887654
No 25
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=68.39 E-value=3.3 Score=29.75 Aligned_cols=23 Identities=22% Similarity=0.411 Sum_probs=20.0
Q ss_pred ccchhhHHHHHHHHcCeeeeccc
Q 031877 108 QRIMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 108 yr~kV~al~dSlR~~GVkv~g~~ 130 (151)
.|+.||.-|++||+.|+.|+-.-
T Consensus 32 SRtaVwK~Iq~Lr~~G~~I~s~~ 54 (79)
T COG1654 32 SRTAVWKHIQQLREEGVDIESVR 54 (79)
T ss_pred cHHHHHHHHHHHHHhCCceEecC
Confidence 47899999999999999987544
No 26
>TIGR03457 sulphoacet_xsc sulfoacetaldehyde acetyltransferase. Members of this protein family are sulfoacetaldehyde acetyltransferase, an enzyme of taurine utilization. Taurine, or 2-aminoethanesulfonate, can be used by bacteria as a source of carbon, nitrogen, and sulfur.
Probab=65.09 E-value=11 Score=33.79 Aligned_cols=43 Identities=12% Similarity=0.086 Sum_probs=37.1
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeeccc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~ 130 (151)
+|+.|+.+|+..||+.|--..- +.+.+++|++.+.||+.+..-
T Consensus 4 ~~~~l~~~L~~~GV~~vFGipG----------~~~~~l~dal~~~~i~~i~~r 46 (579)
T TIGR03457 4 PSEAFVEVLVANGVTHAFGIMG----------SAFMDAMDLFPPAGIRFIPVV 46 (579)
T ss_pred HHHHHHHHHHHCCCCEEEEccC----------cchHHHHHHHhhcCCeEEEec
Confidence 6899999999999999887766 568899999998999888653
No 27
>PRK12474 hypothetical protein; Provisional
Probab=64.66 E-value=11 Score=33.38 Aligned_cols=44 Identities=9% Similarity=0.018 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeeccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGLE 130 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~~ 130 (151)
.+|+.|..+|++.||+.|.-..- +.+.+++|++.+ .||+.++.-
T Consensus 6 ~~~~~l~~~L~~~GV~~vFGvpG----------~~~~~l~dal~~~~~i~~i~~r 50 (518)
T PRK12474 6 NGADSVVDTLLNCGVEVCFANPG----------TSEMHFVAALDRVPRMRPVLCL 50 (518)
T ss_pred cHHHHHHHHHHHCCCCEEEECCC----------cchHHHHHHhhccCCceEEEec
Confidence 36899999999999999887765 568999999965 488887753
No 28
>PRK07710 acetolactate synthase catalytic subunit; Reviewed
Probab=62.75 E-value=13 Score=33.34 Aligned_cols=43 Identities=23% Similarity=0.230 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~ 129 (151)
.+++.|..+|+..||+.|-...- +.+.+++|++.+.|++.+..
T Consensus 17 ~~~~~i~~~L~~~Gv~~vFg~pG----------~~~~~l~~al~~~~i~~i~~ 59 (571)
T PRK07710 17 TGAQMLIEALEKEGVEVIFGYPG----------GAVLPLYDALYDCGIPHILT 59 (571)
T ss_pred hHHHHHHHHHHHcCCCEEEeCCC----------cchHHHHHHHHhcCCcEEEe
Confidence 46999999999999999988776 67899999998889988754
No 29
>PF00933 Glyco_hydro_3: Glycosyl hydrolase family 3 N terminal domain; InterPro: IPR001764 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 3 GH3 from CAZY comprises enzymes with a number of known activities; beta-glucosidase (3.2.1.21 from EC); beta-xylosidase (3.2.1.37 from EC); N-acetyl beta-glucosaminidase (3.2.1.52 from EC); glucan beta-1,3-glucosidase (3.2.1.58 from EC); cellodextrinase (3.2.1.74 from EC); exo-1,3-1,4-glucanase (3.2.1 from EC). These enzymes are two-domain globular proteins that are N-glycosylated at three sites []. This domain is often N-terminal to the glycoside hydrolase family 3, C-terminal domain IPR002772 from INTERPRO.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1Y65_A 2OXN_A 3GS6_A 1TR9_A 3GSM_A 3UT0_B 3RRX_A 3USZ_A 2X42_A 2X40_A ....
Probab=61.91 E-value=16 Score=30.25 Aligned_cols=81 Identities=19% Similarity=0.365 Sum_probs=49.3
Q ss_pred ccchhhhhhhccccCCCCCCC---CcccchhHHHHHHHHHHHHHHhcCcce---eEeechhhcccccccc----------
Q 031877 46 SSSKQDFYSHYHSKLNPFPKR---HRFWDSNTVVVVGQKLGSQLREIGIDN---VMINLAEELSRPANQR---------- 109 (151)
Q Consensus 46 SS~Eq~~r~~~e~~l~~~~rs---~~~~DakaAa~VGe~La~RLk~~Gi~~---V~id~~eE~sr~~kyr---------- 109 (151)
.-+|.-....+......||-. -.+||...|..+|...|.-|+..||+- =-+|+..+-.-|..+|
T Consensus 55 ~D~egG~~~~~~~~~t~~P~~~~l~at~d~~~a~~~g~~~a~el~~~Gin~~~aPv~Dv~~~p~~~~~~rsfgeDp~~v~ 134 (299)
T PF00933_consen 55 IDQEGGIVQRLGGGFTAFPSPMALAATWDPELAYEVGRIIARELRALGINVNFAPVVDVNRNPRWGRGERSFGEDPDLVA 134 (299)
T ss_dssp EEETTSTTTSTTTTS---S-HHHHHHHTCHHHHHHHHHHHHHHHHHTT-SEEEEEB----SSTTSTTGGGSS-SSHHHHH
T ss_pred EcCCCceEecCCCcCccCcchhhhhhhccchHHHHHHHHHHHHHHHhhhccccccceeeeeeccccccccccchhHHHHH
Confidence 455555555544333445532 146999999999999999999999865 1233443332333333
Q ss_pred chhhHHHHHHHHcCeee
Q 031877 110 IMVLPLFDSVRRAGVVV 126 (151)
Q Consensus 110 ~kV~al~dSlR~~GVkv 126 (151)
.+..++++.+++.||--
T Consensus 135 ~~~~a~v~G~q~~gv~~ 151 (299)
T PF00933_consen 135 EMARAFVRGLQGAGVAA 151 (299)
T ss_dssp HHHHHHHHHHHCTTSEE
T ss_pred HHHHHHhcccccccccc
Confidence 37889999999998753
No 30
>PRK06725 acetolactate synthase 3 catalytic subunit; Validated
Probab=61.43 E-value=14 Score=33.43 Aligned_cols=44 Identities=16% Similarity=0.224 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeeccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~ 130 (151)
.+++.|..+|+..||+.|--..- +-+.+++|++.+.||+.+..-
T Consensus 16 ~~a~~l~~~L~~~GV~~vFGipG----------~~~~~l~dal~~~~i~~i~~r 59 (570)
T PRK06725 16 TGAGHVIQCLKKLGVTTVFGYPG----------GAILPVYDALYESGLKHILTR 59 (570)
T ss_pred cHHHHHHHHHHHcCCCEEEEcCC----------cchHHHHHHHHhcCCcEEEec
Confidence 46899999999999999887766 568899999988899888753
No 31
>PRK07449 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase; Validated
Probab=61.02 E-value=19 Score=32.08 Aligned_cols=44 Identities=14% Similarity=0.165 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 76 VVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 76 a~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
-.+++.|..+|++.||+.|...+- +.+.++++++.+ .||+++..
T Consensus 9 ~~~a~~l~~~L~~~GV~~vFgvpG----------~~~~~l~~~l~~~~~i~~v~~ 53 (568)
T PRK07449 9 TLWAAVILEELTRLGVRHVVIAPG----------SRSTPLTLAAAEHPRLRLHTH 53 (568)
T ss_pred HHHHHHHHHHHHHcCCCEEEECCC----------CccHHHHHHHHhCCCcEEEee
Confidence 678999999999999999988876 678999999955 58888764
No 32
>PRK08322 acetolactate synthase; Reviewed
Probab=60.25 E-value=14 Score=32.54 Aligned_cols=42 Identities=12% Similarity=0.102 Sum_probs=36.4
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~ 129 (151)
+++.|..+|+..||+.|-...- +.+.+++|++++.||+++..
T Consensus 3 ~~~~l~~~L~~~Gv~~vFg~pG----------~~~~~l~dal~~~~i~~i~~ 44 (547)
T PRK08322 3 AADLFVKCLENEGVEYIFGIPG----------EENLDLLEALRDSSIKLILT 44 (547)
T ss_pred HHHHHHHHHHHcCCCEEEeCCC----------cchHHHHHHHHhcCCcEEEe
Confidence 6899999999999999988765 67899999998888888754
No 33
>PRK06466 acetolactate synthase 3 catalytic subunit; Validated
Probab=59.99 E-value=13 Score=33.28 Aligned_cols=42 Identities=19% Similarity=0.165 Sum_probs=35.9
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
.|+.|+.+|+..||+.|--..- +.+.+|+|+|.+ .|++++..
T Consensus 6 ~a~~l~~~L~~~Gv~~vFgipG----------~~~~~l~~al~~~~~i~~i~~ 48 (574)
T PRK06466 6 GAEMLVRALRDEGVEYIYGYPG----------GAVLHIYDALFKQDKVEHILV 48 (574)
T ss_pred HHHHHHHHHHHcCCCEEEECCC----------cchhHHHHHhhccCCceEEEe
Confidence 5899999999999999887766 678999999954 68988875
No 34
>TIGR03394 indol_phenyl_DC indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family. A family of closely related, thiamine pyrophosphate-dependent enzymes includes indolepyruvate decarboxylase (EC 4.1.1.74), phenylpyruvate decarboxylase (EC 4.1.1.43), pyruvate decarboxylase (EC 4.1.1.1), branched-chain alpha-ketoacid decarboxylase, etc.. Members of this group of homologs may overlap in specificity. This model represents a clade that includes a Azospirillum brasilense member active as both phenylpyruvate decarboxylase and indolepyruvate decarboxylase.
Probab=59.94 E-value=16 Score=32.75 Aligned_cols=42 Identities=19% Similarity=0.364 Sum_probs=35.8
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcC-eeeecc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAG-VVVDGL 129 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~G-Vkv~g~ 129 (151)
+++.|..+|+..||+.|.--.- +.+.+++|++.+.| |+.+..
T Consensus 2 ~~~~l~~~L~~~Gv~~vFGvpG----------~~~~~l~~al~~~~~i~~v~~ 44 (535)
T TIGR03394 2 LAEALLRALKDRGAQEMFGIPG----------DFALPFFKVIEETGILPLHTL 44 (535)
T ss_pred HHHHHHHHHHHcCCCEEEECCC----------cccHHHHHHHhhCCCCeEEcc
Confidence 6899999999999999887665 56889999998887 887764
No 35
>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=59.22 E-value=32 Score=22.54 Aligned_cols=59 Identities=25% Similarity=0.329 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeeccccccccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLEKLAEDR 136 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~~l~~~~ 136 (151)
-+|=-+|.-|...|.+-.-++..+++. |.-....-..+.+.+++.||++.--.++.++.
T Consensus 9 ~ig~E~A~~l~~~g~~vtli~~~~~~~-~~~~~~~~~~~~~~l~~~gV~v~~~~~v~~i~ 67 (80)
T PF00070_consen 9 FIGIELAEALAELGKEVTLIERSDRLL-PGFDPDAAKILEEYLRKRGVEVHTNTKVKEIE 67 (80)
T ss_dssp HHHHHHHHHHHHTTSEEEEEESSSSSS-TTSSHHHHHHHHHHHHHTTEEEEESEEEEEEE
T ss_pred HHHHHHHHHHHHhCcEEEEEeccchhh-hhcCHHHHHHHHHHHHHCCCEEEeCCEEEEEE
Confidence 356667888888998777788887777 66666777888899999999998776666654
No 36
>PRK07092 benzoylformate decarboxylase; Reviewed
Probab=59.14 E-value=11 Score=33.30 Aligned_cols=49 Identities=18% Similarity=0.099 Sum_probs=38.8
Q ss_pred cchhHHHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecc
Q 031877 70 WDSNTVVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 70 ~DakaAa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~ 129 (151)
.-+++.-.+++.|+.+|+..||+.|-...- +.+.+|+|++.+ |++++..
T Consensus 6 ~~~~~~~~~a~~l~~~L~~~GV~~vFgiPG----------~~~~~l~dal~~-~i~~i~~ 54 (530)
T PRK07092 6 APAAAMTTVRDATIDLLRRFGITTVFGNPG----------STELPFLRDFPD-DFRYVLG 54 (530)
T ss_pred cCccccCcHHHHHHHHHHHcCCCEEEeCCC----------CcchHHHHHHhh-cCCEEEE
Confidence 344555567999999999999999988765 568999999965 6777654
No 37
>PRK08978 acetolactate synthase 2 catalytic subunit; Reviewed
Probab=59.08 E-value=17 Score=32.26 Aligned_cols=42 Identities=24% Similarity=0.247 Sum_probs=36.4
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~ 129 (151)
+++.|+.+|+..||+.|-...- +.+.+|+|++.+.||+.+..
T Consensus 3 ~~~~l~~~L~~~Gv~~vFg~pG----------~~~~~l~~al~~~~i~~v~~ 44 (548)
T PRK08978 3 GAQWVVHALRAQGVDTVFGYPG----------GAIMPVYDALYDGGVEHLLC 44 (548)
T ss_pred HHHHHHHHHHHcCCCEEEeCCC----------cchHHHHHHHHhcCCeEEEe
Confidence 5899999999999999988776 66889999998788888764
No 38
>PRK07524 hypothetical protein; Provisional
Probab=58.61 E-value=17 Score=32.21 Aligned_cols=43 Identities=16% Similarity=0.252 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~ 129 (151)
.+++.|+.+|++.||+.|.-..- +.+.+++|+|.+.+++.+..
T Consensus 3 ~~a~~l~~~L~~~Gv~~vFg~pG----------~~~~~~~dal~~~~i~~i~~ 45 (535)
T PRK07524 3 TCGEALVRLLEAYGVETVFGIPG----------VHTVELYRGLAGSGIRHVTP 45 (535)
T ss_pred cHHHHHHHHHHHcCCCEEEeCCC----------cchHHHHHHHhhcCCcEEEe
Confidence 46899999999999999988765 67899999998888887654
No 39
>TIGR00433 bioB biotin synthetase. Catalyzes the last step of the biotin biosynthesis pathway.
Probab=58.40 E-value=20 Score=28.76 Aligned_cols=49 Identities=20% Similarity=0.333 Sum_probs=34.0
Q ss_pred HHHHHHHHHHhcCcceeEeech--hhc-c--ccccccchhhHHHHHHHHcCeee
Q 031877 78 VGQKLGSQLREIGIDNVMINLA--EEL-S--RPANQRIMVLPLFDSVRRAGVVV 126 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~--eE~-s--r~~kyr~kV~al~dSlR~~GVkv 126 (151)
+-+-...+||+.|++.|.++++ .|+ + ++-+.-...+..++.++++|+++
T Consensus 121 ~~~e~l~~Lk~aG~~~v~i~~E~~~~~~~~i~~~~s~~~~~~ai~~l~~~Gi~v 174 (296)
T TIGR00433 121 LDPEQAKRLKDAGLDYYNHNLDTSQEFYSNIISTHTYDDRVDTLENAKKAGLKV 174 (296)
T ss_pred CCHHHHHHHHHcCCCEEEEcccCCHHHHhhccCCCCHHHHHHHHHHHHHcCCEE
Confidence 3466778999999999777655 333 1 12233356667888999999995
No 40
>TIGR02418 acolac_catab acetolactate synthase, catabolic. Acetolactate synthase (EC 2.2.1.6) combines two molecules of pyruvate to yield 2-acetolactate with the release of CO2. This reaction may be involved in either valine biosynthesis (biosynthetic) or conversion of pyruvate to acetoin and possibly to 2,3-butanediol (catabolic). The biosynthetic type, described by TIGR00118, is also capable of forming acetohydroxybutyrate from pyruvate and 2-oxobutyrate for isoleucine biosynthesis. The family described here, part of the same larger family of thiamine pyrophosphate-dependent enzymes (pfam00205, pfam02776) is the catabolic form, generally found associated with in species with acetolactate decarboxylase and usually found in the same operon. The model may not encompass all catabolic acetolactate synthases, but rather one particular clade in the larger TPP-dependent enzyme family.
Probab=58.38 E-value=15 Score=32.47 Aligned_cols=42 Identities=17% Similarity=0.201 Sum_probs=36.1
Q ss_pred HHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeeccc
Q 031877 79 GQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 79 Ge~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~ 130 (151)
++.|..+|++.||+.|-...- +.+.+|+|++.+.||+.+..-
T Consensus 2 ~~~l~~~L~~~Gv~~vFg~pG----------~~~~~l~dal~~~~i~~i~~~ 43 (539)
T TIGR02418 2 ADLVVDQLENQGVRYVFGIPG----------AKIDRVFDALEDKGIELIVVR 43 (539)
T ss_pred HHHHHHHHHHcCCCEEEECCC----------CchHHHHHHHhhCCCCEEEeC
Confidence 688999999999999988776 458999999988888887653
No 41
>PRK06457 pyruvate dehydrogenase; Provisional
Probab=58.32 E-value=18 Score=32.26 Aligned_cols=43 Identities=21% Similarity=0.233 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~ 129 (151)
.+++.|..+|+..||+.|-...- +.+.+|+|++.+.||+.+..
T Consensus 3 ~~a~~l~~~L~~~GV~~vFg~pG----------~~~~~l~dal~~~~i~~v~~ 45 (549)
T PRK06457 3 SVAEVIIRVLEDNGIQRIYGIPG----------DSIDPLVDAIRKSKVKYVQV 45 (549)
T ss_pred cHHHHHHHHHHHcCCCEEEEcCC----------cchHHHHHHHHhcCCeEEEe
Confidence 36899999999999999988776 67899999999888887754
No 42
>PRK08979 acetolactate synthase 3 catalytic subunit; Validated
Probab=57.78 E-value=18 Score=32.54 Aligned_cols=43 Identities=14% Similarity=0.175 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
..|+.|+.+|++.||+.|--..- +-+.+++|+|.+ .|++++..
T Consensus 5 ~~~~~l~~~L~~~Gv~~vFgvpG----------~~~~~l~~al~~~~~i~~v~~ 48 (572)
T PRK08979 5 SGASMIVRSLIDEGVKHIFGYPG----------GSVLDIYDALHEKSGIEHILV 48 (572)
T ss_pred cHHHHHHHHHHHcCCCEEEEcCC----------cchHHHHHHHhhcCCCeEEEe
Confidence 35899999999999999988776 568999999965 58888765
No 43
>PRK07586 hypothetical protein; Validated
Probab=57.24 E-value=18 Score=31.74 Aligned_cols=43 Identities=16% Similarity=0.108 Sum_probs=36.0
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeeccc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGLE 130 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~~ 130 (151)
+++.|..+|+..||+.|--..- +.+.+++|++.+ .||+.+..-
T Consensus 3 ~~~~l~~~L~~~Gv~~vFG~pG----------~~~~~l~dal~~~~~i~~i~~r 46 (514)
T PRK07586 3 GAESLVRTLVDGGVDVCFANPG----------TSEMHFVAALDRVPGMRCVLGL 46 (514)
T ss_pred HHHHHHHHHHHCCCCEEEECCC----------CchHHHHHHHhccCCCeEEEec
Confidence 6899999999999999887765 568899999976 488887653
No 44
>PRK08617 acetolactate synthase; Reviewed
Probab=56.62 E-value=19 Score=32.02 Aligned_cols=43 Identities=14% Similarity=0.074 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~ 129 (151)
..++.|+.+|+..||+.|-...- +.+.+++|++.+.|++.+..
T Consensus 6 ~~~~~l~~~L~~~GV~~vFg~pG----------~~~~~l~~al~~~~i~~i~~ 48 (552)
T PRK08617 6 YGADLVVDSLINQGVKYVFGIPG----------AKIDRVFDALEDSGPELIVT 48 (552)
T ss_pred cHHHHHHHHHHHcCCCEEEeCCC----------ccHHHHHHHHhhCCCCEEEe
Confidence 46899999999999999988776 67899999998888888764
No 45
>TIGR00173 menD 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase. 2-oxoglutarate decarboxylase/SHCHC synthase (menD) is a thiamine pyrophosphate enzyme involved in menaquinone biosynthesis.
Probab=56.10 E-value=18 Score=31.30 Aligned_cols=42 Identities=19% Similarity=0.169 Sum_probs=35.4
Q ss_pred HHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeeccc
Q 031877 79 GQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGLE 130 (151)
Q Consensus 79 Ge~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~~ 130 (151)
++.|..+|+..||+.|---.- +.+.|++|++.+ .||++++.-
T Consensus 3 ~~~l~~~L~~~GV~~vFg~pG----------~~~~~l~dal~~~~~i~~v~~~ 45 (432)
T TIGR00173 3 ASVLVEELVRLGVRHVVISPG----------SRSTPLALAAAEHPRLRVHVHI 45 (432)
T ss_pred HHHHHHHHHHcCCCEEEECCC----------cccHHHHHHHHhCCCcEEEEec
Confidence 688999999999999887776 678999999954 689988764
No 46
>smart00729 Elp3 Elongator protein 3, MiaB family, Radical SAM. This superfamily contains MoaA, NifB, PqqE, coproporphyrinogen III oxidase, biotin synthase and MiaB families, and includes a representative in the eukaryotic elongator subunit, Elp-3. Some members of the family are methyltransferases.
Probab=54.13 E-value=29 Score=24.64 Aligned_cols=48 Identities=25% Similarity=0.440 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHhcCcceeEeech---hh----ccccccccchhhHHHHHHHHcC-ee
Q 031877 77 VVGQKLGSQLREIGIDNVMINLA---EE----LSRPANQRIMVLPLFDSVRRAG-VV 125 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~---eE----~sr~~kyr~kV~al~dSlR~~G-Vk 125 (151)
.+-+....+|+..|++.|.++++ +| +.++..+ .++...++-+++.| ++
T Consensus 97 ~~~~~~~~~l~~~~~~~i~isl~~~~~~~~~~~~~~~~~-~~~~~~i~~~~~~g~~~ 152 (216)
T smart00729 97 TLTEELLEALKEAGVNRVSLGVQSGSDEVLKAINRGHTV-EDVLEAVEKLREAGPIK 152 (216)
T ss_pred cCCHHHHHHHHHcCCCeEEEecccCCHHHHHHhcCCCCH-HHHHHHHHHHHHhCCcc
Confidence 34577888999999988877776 44 3455444 77888888899999 44
No 47
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=53.82 E-value=20 Score=25.37 Aligned_cols=42 Identities=26% Similarity=0.392 Sum_probs=30.0
Q ss_pred HHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeee
Q 031877 80 QKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 80 e~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~ 127 (151)
+-|...+++.+|+.|-|.+. ...+.++..+++.+++.||++.
T Consensus 131 ~~l~~~~~~~~id~v~ial~------~~~~~~i~~ii~~~~~~~v~v~ 172 (175)
T PF13727_consen 131 DDLPELVREHDIDEVIIALP------WSEEEQIKRIIEELENHGVRVR 172 (175)
T ss_dssp GGHHHHHHHHT--EEEE--T------TS-HHHHHHHHHHHHTTT-EEE
T ss_pred HHHHHHHHhCCCCEEEEEcC------ccCHHHHHHHHHHHHhCCCEEE
Confidence 66888899999999988876 3446789999999999999874
No 48
>PRK08273 thiamine pyrophosphate protein; Provisional
Probab=53.08 E-value=25 Score=31.89 Aligned_cols=58 Identities=19% Similarity=0.228 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH--cCeeeecccc--------cccccccceeccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR--AGVVVDGLEK--------LAEDRVGRRLGFC 144 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~--~GVkv~g~~~--------l~~~~~~~~~~~~ 144 (151)
.+++.|..+|++.||+.|--..- +-+.+|+|+|.+ .||+.+..-. -+--|+.+++|.|
T Consensus 4 ~~a~~l~~~L~~~GV~~vFGvpG----------~~~~~l~dal~~~~~~i~~i~~rhE~~A~~~Adgyar~tg~~gv~ 71 (597)
T PRK08273 4 TVADFILERLREWGVRRVFGYPG----------DGINGLLGALGRADDKPEFVQARHEEMAAFMAVAHAKFTGEVGVC 71 (597)
T ss_pred cHHHHHHHHHHHCCCCEEEEeCC----------CchHHHHHHHHhccCCCeEEEeccHHHHHHHHHHHHHHhCCCEEE
Confidence 36899999999999999988776 567899999965 3788876532 1223555566655
No 49
>PRK09124 pyruvate dehydrogenase; Provisional
Probab=52.55 E-value=22 Score=31.82 Aligned_cols=58 Identities=21% Similarity=0.229 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc-Ceeeecc-cc-------cccccccceeccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA-GVVVDGL-EK-------LAEDRVGRRLGFC 144 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~-GVkv~g~-~~-------l~~~~~~~~~~~~ 144 (151)
.+++.|..+|+..||+.|-...- +.+.+|+|++++. ||+.+.. .. .+--|...+.|-|
T Consensus 4 ~~a~~l~~~L~~~GV~~vFg~pG----------~~~~~l~dal~~~~~i~~i~~rhE~~A~~~Adgyar~tg~~gv~ 70 (574)
T PRK09124 4 TVADYIAKTLEQAGVKRIWGVTG----------DSLNGLSDSLRRMGTIEWMHTRHEEVAAFAAGAEAQLTGELAVC 70 (574)
T ss_pred cHHHHHHHHHHHcCCCEEEECCC----------CchHHHHHHHhccCCCcEEEeCcHHHHHHHHHHHHHhhCCcEEE
Confidence 57999999999999999887766 5788999999765 8888766 11 2233555566666
No 50
>PRK06048 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=52.33 E-value=21 Score=31.94 Aligned_cols=44 Identities=9% Similarity=0.141 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecc
Q 031877 76 VVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 76 a~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~ 129 (151)
-.+++.|..+|+..||+.|-...- +.+.+++|+|.+.+|+.+..
T Consensus 8 ~~~~~~l~~~L~~~Gv~~vFgipG----------~~~~~l~~al~~~~i~~v~~ 51 (561)
T PRK06048 8 MTGARAIIKCLEKEGVEVIFGYPG----------GAIIPVYDELYDSDLRHILV 51 (561)
T ss_pred ccHHHHHHHHHHHcCCCEEEECCC----------cchHHHHHHHhhCCCeEEEe
Confidence 357999999999999999888665 56889999998888888765
No 51
>PF02961 BAF: Barrier to autointegration factor; InterPro: IPR004122 Barrier-to-autointegration factor (BAF) is an essential protein that is highly conserved in metazoan evolution, and which may act as a DNA-bridging protein []. BAF binds directly to double-stranded DNA, to transcription activators, and to inner nuclear membrane proteins, including lamin A filament proteins that anchor nuclear-pore complexes in place, and nuclear LEM-domain proteins that bind to laminins filaments and chromatin. New findings suggest that BAF has structural roles in nuclear assembly and chromatin organisation, represses gene expression and might interlink chromatin structure, nuclear architecture and gene regulation in metazoans []. BAF can be exploited by retroviruses to act as a host component of pre-integration complexes, which promote the integration of the retroviral DNA into the host chromosome by preventing autointegration of retroviral DNA []. BAF might contribute to the assembly or activity of retroviral pre-integration complexes through direct binding to the retroviral proteins p55 Gag and matrix, as well as to DNA.; GO: 0003677 DNA binding; PDB: 2ODG_A 2BZF_A 2EZX_B 2EZY_B 1QCK_B 1CI4_B 2EZZ_B.
Probab=52.13 E-value=7.7 Score=29.13 Aligned_cols=28 Identities=25% Similarity=0.401 Sum_probs=18.5
Q ss_pred cchhHHHHHHHHHHHHHHhcCcceeEee
Q 031877 70 WDSNTVVVVGQKLGSQLREIGIDNVMIN 97 (151)
Q Consensus 70 ~DakaAa~VGe~La~RLk~~Gi~~V~id 97 (151)
-++..-+-||++||.||.+.|.+.-++=
T Consensus 19 K~V~~laGIG~~lg~~L~~~GfdKAy~v 46 (89)
T PF02961_consen 19 KPVTELAGIGPVLGKRLEEKGFDKAYVV 46 (89)
T ss_dssp -BGGGSTT--HHHHHHHHHTT--BHHHH
T ss_pred CCccccCCcCHHHHHHHHHCCCcHHHHH
Confidence 3566778899999999999999874443
No 52
>PRK07979 acetolactate synthase 3 catalytic subunit; Validated
Probab=51.91 E-value=26 Score=31.44 Aligned_cols=42 Identities=17% Similarity=0.191 Sum_probs=36.0
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
.++.|..+|++.||+.|.-..- +-+.+++|++.+ .||+++..
T Consensus 6 ~a~~l~~~L~~~Gv~~vFgvpG----------~~~~~l~d~l~~~~~i~~i~~ 48 (574)
T PRK07979 6 GAEMVVRSLIDQGVKQVFGYPG----------GAVLDIYDALHTVGGIDHVLV 48 (574)
T ss_pred HHHHHHHHHHHcCCCEEEEccC----------cchHHHHHHHHhcCCceEEEe
Confidence 5899999999999999887665 568899999987 68988875
No 53
>cd07038 TPP_PYR_PDC_IPDC_like Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC) subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Most TPP-dependent enzymes have the PYR and PP domains on the same subunit although these domains can be alternatively arranged in the primary structure. TPP-dependent enzymes are multisubunit proteins, the smallest catalytic unit being a dimer-of-active sites, for many
Probab=51.70 E-value=24 Score=26.82 Aligned_cols=40 Identities=25% Similarity=0.379 Sum_probs=31.6
Q ss_pred HHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc-Ceeeecc
Q 031877 80 QKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA-GVVVDGL 129 (151)
Q Consensus 80 e~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~-GVkv~g~ 129 (151)
|.|+..|+..||+.|--.+- ..+.+|++++.+. |++.+..
T Consensus 1 ~~l~~~L~~~Gi~~vFg~pG----------~~~~~l~~al~~~~~i~~i~~ 41 (162)
T cd07038 1 EYLLERLKQLGVKHVFGVPG----------DYNLPLLDAIEENPGLRWVGN 41 (162)
T ss_pred CHHHHHHHHcCCCEEEEeCC----------ccHHHHHHHHhhcCCceEEee
Confidence 35788999999999887766 4567899999655 8887754
No 54
>PRK06882 acetolactate synthase 3 catalytic subunit; Validated
Probab=51.39 E-value=26 Score=31.29 Aligned_cols=43 Identities=19% Similarity=0.244 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
..++.|+.+|+..||+.|--..- +.+.+++|++.+ .||+++..
T Consensus 5 ~~a~~l~~~L~~~GV~~vFg~pG----------~~~~~l~~al~~~~~i~~v~~ 48 (574)
T PRK06882 5 SGAEMVVQSLRDEGVEYVFGYPG----------GSVLDIYDAIHTLGGIEHVLV 48 (574)
T ss_pred cHHHHHHHHHHHcCCCEEEeCCC----------cchHHHHHHHhhcCCCeEEEe
Confidence 35899999999999999988765 678999999977 58888765
No 55
>smart00642 Aamy Alpha-amylase domain.
Probab=51.38 E-value=35 Score=26.39 Aligned_cols=51 Identities=18% Similarity=0.183 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHhcCcceeEeechhhccc----c-----c-------cc--cchhhHHHHHHHHcCeeee
Q 031877 76 VVVGQKLGSQLREIGIDNVMINLAEELSR----P-----A-------NQ--RIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 76 a~VGe~La~RLk~~Gi~~V~id~~eE~sr----~-----~-------ky--r~kV~al~dSlR~~GVkv~ 127 (151)
.-+-++|. .|++.|++.|.+.+--|-.. . . +| ......|++.++++||+|+
T Consensus 19 ~gi~~~l~-yl~~lG~~~I~l~Pi~~~~~~~~~~~gY~~~d~~~i~~~~Gt~~d~~~lv~~~h~~Gi~vi 87 (166)
T smart00642 19 QGIIEKLD-YLKDLGVTAIWLSPIFESPQGYPSYHGYDISDYKQIDPRFGTMEDFKELVDAAHARGIKVI 87 (166)
T ss_pred HHHHHHHH-HHHHCCCCEEEECcceeCCCCCCCCCCcCccccCCCCcccCCHHHHHHHHHHHHHCCCEEE
Confidence 34667787 99999999998876543321 0 1 11 1458899999999999986
No 56
>PRK06256 biotin synthase; Validated
Probab=50.72 E-value=27 Score=29.02 Aligned_cols=49 Identities=18% Similarity=0.236 Sum_probs=34.3
Q ss_pred HHHHHHHHHHhcCcceeEeech--h----hccccccccchhhHHHHHHHHcCeeee
Q 031877 78 VGQKLGSQLREIGIDNVMINLA--E----ELSRPANQRIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~--e----E~sr~~kyr~kV~al~dSlR~~GVkv~ 127 (151)
+-+-...+|++.|++.|+++++ + .+.++. .-..++..++.++++|+++.
T Consensus 150 l~~e~l~~LkeaG~~~v~~~lEts~~~~~~i~~~~-t~~~~i~~i~~a~~~Gi~v~ 204 (336)
T PRK06256 150 LTEEQAERLKEAGVDRYNHNLETSRSYFPNVVTTH-TYEDRIDTCEMVKAAGIEPC 204 (336)
T ss_pred CCHHHHHHHHHhCCCEEecCCccCHHHHhhcCCCC-CHHHHHHHHHHHHHcCCeec
Confidence 4566778999999999887544 3 333333 33456678888999998764
No 57
>PF11798 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 This helix-hairpin-helix motif is found in proteins belonging to the type-Y family of DNA polymerases []. This type of polymerases are thought to be involved in UV protection and mutation [, ]. ; PDB: 3PZP_B 2OH2_B 2W7O_B 3IN5_B 1T94_A 2W7P_B 2W8K_A 2AGQ_A 1RYR_A 3RAX_A ....
Probab=50.05 E-value=8.6 Score=22.99 Aligned_cols=14 Identities=36% Similarity=0.812 Sum_probs=11.3
Q ss_pred HHHHHHHHHHhcCc
Q 031877 78 VGQKLGSQLREIGI 91 (151)
Q Consensus 78 VGe~La~RLk~~Gi 91 (151)
||++++.+|+..||
T Consensus 19 IG~kt~~kL~~~GI 32 (32)
T PF11798_consen 19 IGKKTAKKLNKLGI 32 (32)
T ss_dssp S-HHHHHHHHCTT-
T ss_pred ccHHHHHHHHHccC
Confidence 79999999999886
No 58
>PRK08266 hypothetical protein; Provisional
Probab=49.87 E-value=31 Score=30.51 Aligned_cols=44 Identities=23% Similarity=0.221 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc--Ceeeeccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA--GVVVDGLE 130 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~--GVkv~g~~ 130 (151)
.+++.|+.+|+..||+.|-...- +.+.+++|+|.+. +|+.+..-
T Consensus 5 ~~~~~l~~~L~~~Gv~~vFg~pG----------~~~~~l~~al~~~~~~i~~v~~~ 50 (542)
T PRK08266 5 TGGEAIVAGLVAHGVDTVFGLPG----------AQLYWLFDALYKAGDRIRVIHTR 50 (542)
T ss_pred cHHHHHHHHHHHcCCCEEEECCC----------cchHHHHHHHHhcCCCCeEEeec
Confidence 46899999999999999988766 6789999999775 78877653
No 59
>KOG0875 consensus 60S ribosomal protein L5 [Translation, ribosomal structure and biogenesis]
Probab=49.76 E-value=19 Score=31.69 Aligned_cols=69 Identities=17% Similarity=0.257 Sum_probs=52.7
Q ss_pred ceeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhccccCCCCCCCCcccchhHHHHHHHHHHHHH-HhcCcc
Q 031877 14 RYLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYHSKLNPFPKRHRFWDSNTVVVVGQKLGSQL-REIGID 92 (151)
Q Consensus 14 ~yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e~~l~~~~rs~~~~DakaAa~VGe~La~RL-k~~Gi~ 92 (151)
-|=|.+.++|+.|.+|.+-+ .-+-.-|+++|-|.|+.=..... .-.|-.||-+-|=+||.|+ +..|++
T Consensus 48 kyR~ivr~~n~~iicqi~~~-~i~gd~v~~~a~s~elpkyg~~~----------GLtNyaAay~TglLLarR~l~~~gmD 116 (264)
T KOG0875|consen 48 KYRMIVRVINKDIICQIAYA-TIEGDVIVRAAYAHELPKYGVKV----------GLTNYAAAYCTGLLLACRLLKRFGMD 116 (264)
T ss_pred ceEEEEEEechhhHHHHHhh-eecceEEEEeecccccccccccc----------ccchhHHHHhhHHHHHHHHHHHhCcc
Confidence 57788889999999998765 33456788889888876433332 5568899999999999995 556776
Q ss_pred e
Q 031877 93 N 93 (151)
Q Consensus 93 ~ 93 (151)
.
T Consensus 117 ~ 117 (264)
T KOG0875|consen 117 K 117 (264)
T ss_pred c
Confidence 5
No 60
>PRK05858 hypothetical protein; Provisional
Probab=49.23 E-value=30 Score=30.81 Aligned_cols=43 Identities=21% Similarity=0.425 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~ 129 (151)
..|+.|..+|+..||+.|--..- +.+.+++|++.+.|++.+..
T Consensus 6 ~~~~~l~~~L~~~GV~~vFg~pG----------~~~~~l~dal~~~~i~~i~~ 48 (542)
T PRK05858 6 HAGRLAARRLKAHGVDTMFTLSG----------GHLFPLYDGAREEGIRLIDV 48 (542)
T ss_pred cHHHHHHHHHHHcCCCEEEeCCC----------cchHHHHHHHHhcCCCEEee
Confidence 47899999999999999888766 57899999998888887764
No 61
>PF00128 Alpha-amylase: Alpha amylase, catalytic domain; InterPro: IPR006047 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Enzymes containing this domain, such as alpha-amylase, belong to family 13 (GH13 from CAZY) of the glycosyl hydrolases. The maltogenic alpha-amylase is an enzyme which catalyses hydrolysis of (1-4)-alpha-D-glucosidic linkages in polysaccharides so as to remove successive alpha-maltose residues from the non-reducing ends of the chains in the conversion of starch to maltose. Other enzymes include neopullulanase, which hydrolyses pullulan to panose, and cyclomaltodextrinase, which hydrolyses cyclodextrins. This entry represents the catalytic domain found in several protein members of this family. It has a structure consisting of an 8 stranded alpha/beta barrel that contains the active site, interrupted by a ~70 amino acid calcium-binding domain protruding between beta strand 3 and alpha helix 3, and a carboxyl-terminal Greek key beta-barrel domain []. More information about this protein can be found at Protein of the Month: alpha-Amylase [].; GO: 0003824 catalytic activity, 0043169 cation binding, 0005975 carbohydrate metabolic process; PDB: 3FAX_A 3FAW_A 2DH3_B 2DH2_A 1CIU_A 1A47_A 3BMW_A 3BMV_A 2FH8_A 2FH6_A ....
Probab=49.03 E-value=36 Score=25.87 Aligned_cols=48 Identities=19% Similarity=0.215 Sum_probs=33.1
Q ss_pred HHHHHHHHHhcCcceeEeechhhcc-ccccc--------------cchhhHHHHHHHHcCeeee
Q 031877 79 GQKLGSQLREIGIDNVMINLAEELS-RPANQ--------------RIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 79 Ge~La~RLk~~Gi~~V~id~~eE~s-r~~ky--------------r~kV~al~dSlR~~GVkv~ 127 (151)
-++|- .|++.||+.|.+-.==|-. ..-.| ...++.|++.+.+.||+|+
T Consensus 7 ~~kLd-yl~~lGv~~I~l~Pi~~~~~~~~gY~~~d~~~vd~~~Gt~~d~~~Lv~~~h~~gi~Vi 69 (316)
T PF00128_consen 7 IDKLD-YLKDLGVNAIWLSPIFESPNGYHGYDPSDYYAVDPRFGTMEDFKELVDAAHKRGIKVI 69 (316)
T ss_dssp HHTHH-HHHHHTESEEEESS-EESSSSTTTTSESEEEEESTTTBHHHHHHHHHHHHHHTTCEEE
T ss_pred HHhhH-HHHHcCCCceecccccccccccccccceeeeccccccchhhhhhhhhhccccccceEE
Confidence 35564 8999999998887654421 11111 1357899999999999997
No 62
>TIGR01504 glyox_carbo_lig glyoxylate carboligase. Glyoxylate carboligase, also called tartronate-semialdehyde synthase, releases CO2 while synthesizing a single molecule of tartronate semialdehyde from two molecules of glyoxylate. It is a thiamine pyrophosphate-dependent enzyme, closely related in sequence to the large subunit of acetolactate synthase. In the D-glycerate pathway, part of allantoin degradation in the Enterobacteriaceae, tartronate semialdehyde is converted to D-glycerate and then 3-phosphoglycerate, a product of glycolysis and entry point in the general metabolism.
Probab=48.98 E-value=27 Score=31.71 Aligned_cols=44 Identities=11% Similarity=0.083 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeeccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGLE 130 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~~ 130 (151)
..++.|+.+|+..||+.|--..- +.+.+++|+|.+ .||+++..-
T Consensus 4 ~~a~~l~~~L~~~GV~~vFGvpG----------~~~~~l~dal~~~~~i~~V~~r 48 (588)
T TIGR01504 4 RAVDAAVYVLEKEGITTAFGVPG----------AAINPFYSALKAHGGIRHILAR 48 (588)
T ss_pred cHHHHHHHHHHHcCCCEEEECCC----------CCcHHHHHHHhhcCCCcEEeeC
Confidence 46899999999999999887765 668899999965 489888763
No 63
>TIGR02666 moaA molybdenum cofactor biosynthesis protein A, bacterial. The model for this family describes molybdenum cofactor biosynthesis protein A, or MoaA, as found in bacteria. It does not include the family of probable functional equivalent proteins from the archaea. MoaA works together with MoaC to synthesize precursor Z from guanine.
Probab=48.91 E-value=31 Score=28.58 Aligned_cols=44 Identities=27% Similarity=0.359 Sum_probs=31.3
Q ss_pred HHHHHHhcCcceeEeech---hhc----cccccccchhhHHHHHHHHcCee
Q 031877 82 LGSQLREIGIDNVMINLA---EEL----SRPANQRIMVLPLFDSVRRAGVV 125 (151)
Q Consensus 82 La~RLk~~Gi~~V~id~~---eE~----sr~~kyr~kV~al~dSlR~~GVk 125 (151)
.+.+|++.|++.|.|.++ +|. .++-..-.+|+.-++.++++|+.
T Consensus 104 ~~~~L~~~gl~~v~ISld~~~~~~~~~i~~~~~~~~~vl~~i~~l~~~G~~ 154 (334)
T TIGR02666 104 HAKDLKEAGLKRVNVSLDSLDPERFAKITRRGGRLEQVLAGIDAALAAGLE 154 (334)
T ss_pred HHHHHHHcCCCeEEEecccCCHHHhheeCCCCCCHHHHHHHHHHHHHcCCC
Confidence 577899999998776664 333 22223446788899999999976
No 64
>PLN02470 acetolactate synthase
Probab=48.66 E-value=28 Score=31.37 Aligned_cols=44 Identities=14% Similarity=0.058 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc-Ceeeecc
Q 031877 76 VVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA-GVVVDGL 129 (151)
Q Consensus 76 a~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~-GVkv~g~ 129 (151)
..+++.|+.+|+..||+.|--..- +.+.+|+|+|.+. ||+.+..
T Consensus 13 ~~~a~~l~~~L~~~GV~~vFg~pG----------~~~~~l~dal~~~~~i~~i~~ 57 (585)
T PLN02470 13 RKGADILVEALEREGVDTVFAYPG----------GASMEIHQALTRSNCIRNVLC 57 (585)
T ss_pred ccHHHHHHHHHHHcCCCEEEEcCC----------cccHHHHHHHhccCCceEEEe
Confidence 356899999999999999987766 6688999999654 8988865
No 65
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=48.29 E-value=29 Score=31.36 Aligned_cols=44 Identities=14% Similarity=0.127 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeeccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~ 130 (151)
.+++.|..+|+..||+.|-...- +.+.+++|++.+.||+.+..-
T Consensus 7 ~~~~~l~~~L~~~GV~~vFGvpG----------~~~~~l~dal~~~~i~~i~~r 50 (588)
T PRK07525 7 TPSEAFVETLQAHGITHAFGIIG----------SAFMDASDLFPPAGIRFIDVA 50 (588)
T ss_pred cHHHHHHHHHHHcCCCEEEEeCC----------CchHHHHHHHhccCCCEEEec
Confidence 46899999999999999988776 678999999988888887653
No 66
>PRK08155 acetolactate synthase catalytic subunit; Validated
Probab=47.99 E-value=30 Score=30.90 Aligned_cols=43 Identities=19% Similarity=0.125 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc-Ceeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA-GVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~-GVkv~g~ 129 (151)
.+++.|..+|+..||+.|-...- +.+.+|+|+|.+. ||+.+..
T Consensus 14 ~~~~~l~~~L~~~GV~~vFgvpG----------~~~~~l~dal~~~~~i~~i~~ 57 (564)
T PRK08155 14 TGAELIVRLLERQGIRIVTGIPG----------GAILPLYDALSQSTQIRHILA 57 (564)
T ss_pred cHHHHHHHHHHHcCCCEEEeCCC----------cccHHHHHHHhccCCceEEEe
Confidence 46999999999999999888766 6789999999654 8887764
No 67
>PRK07282 acetolactate synthase catalytic subunit; Reviewed
Probab=47.30 E-value=30 Score=31.15 Aligned_cols=44 Identities=23% Similarity=0.317 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeeccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGLE 130 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~~ 130 (151)
.+++.|..+|+..||+.|--..- +-+.+++|+|.+ .||++++.-
T Consensus 11 ~~~~~i~~~L~~~Gv~~vFgipG----------~~~~~l~dal~~~~~i~~i~~r 55 (566)
T PRK07282 11 SGSDLVLETLRDLGVDTIFGYPG----------GAVLPLYDAIYNFEGIRHILAR 55 (566)
T ss_pred cHHHHHHHHHHHcCCCEEEecCC----------cchHHHHHHHhhcCCceEEEec
Confidence 46899999999999999887765 567899999955 589888753
No 68
>PRK08611 pyruvate oxidase; Provisional
Probab=46.77 E-value=35 Score=30.82 Aligned_cols=43 Identities=21% Similarity=0.240 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH--cCeeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR--AGVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~--~GVkv~g~ 129 (151)
.+|+.|+.+|+..||+.|-...- +.+.+|+|++.+ .|++++..
T Consensus 5 ~~~~~l~~~L~~~GV~~vFgipG----------~~~~~l~dal~~~~~~i~~i~~ 49 (576)
T PRK08611 5 KAGEALVKLLQDWGIDHVYGIPG----------DSIDAVVDALRKEQDKIKFIQV 49 (576)
T ss_pred cHHHHHHHHHHHcCCCEEEecCC----------cchHHHHHHHHhcCCCCeEEEe
Confidence 46899999999999999887665 568899999975 57887754
No 69
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=46.52 E-value=38 Score=30.69 Aligned_cols=48 Identities=13% Similarity=0.063 Sum_probs=38.9
Q ss_pred hhHHHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 72 SNTVVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 72 akaAa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
.++....++.|+.+|+..||+.|--..- +-+.+++|+|.+ .||+.+..
T Consensus 17 ~~~~~~~a~~l~~~L~~~GV~~vFgvpG----------~~~~~l~dal~~~~~i~~i~~ 65 (587)
T PRK06965 17 PAADSIGAEILMKALAAEGVEFIWGYPG----------GAVLYIYDELYKQDKIQHVLV 65 (587)
T ss_pred CchhccHHHHHHHHHHHcCCCEEEecCC----------cchHHHHHHHhhcCCCeEEEe
Confidence 3445567999999999999999988766 667999999966 58888765
No 70
>TIGR02867 spore_II_P stage II sporulation protein P. Stage II sporulation protein P is a protein of the endospore formation program in a number of lineages in the Firmicutes (low-GC Gram-positive bacteria). It is expressed in the mother cell compartment, under control of Sigma-E. SpoIIP, along with SpoIIM and SpoIID, is one of three major proteins involved in engulfment of the forespore by the mother cell. This protein family is named for the single member in Bacillus subtilis, although most sporulating bacteria have two members.
Probab=45.88 E-value=22 Score=29.12 Aligned_cols=55 Identities=15% Similarity=0.180 Sum_probs=35.0
Q ss_pred ccchhHHHHHHHHHHHHHHhcCcceeEeec-hhhccccccccchhhHHHHHHHHcC
Q 031877 69 FWDSNTVVVVGQKLGSQLREIGIDNVMINL-AEELSRPANQRIMVLPLFDSVRRAG 123 (151)
Q Consensus 69 ~~DakaAa~VGe~La~RLk~~Gi~~V~id~-~eE~sr~~kyr~kV~al~dSlR~~G 123 (151)
+........||+.|+..|.+.||+.+|-.- +...++..-|..--..+-..|++++
T Consensus 26 ~~~~~~V~~VG~~L~~~Le~~Gi~vihd~t~~~~~~y~~sY~~Sr~tv~~~l~~~p 81 (196)
T TIGR02867 26 THSEGNITKVGDRLAKELEEKGIGVIHDKTVHDGLNYEQSYDRSRETVKKALKENK 81 (196)
T ss_pred cCCCCcHHHHHHHHHHHHHHCCCeEEEeCCccCCccHHHHHHHHHHHHHHHHHHCC
Confidence 344567889999999999999999887664 2111233334333344445555554
No 71
>PRK11269 glyoxylate carboligase; Provisional
Probab=45.83 E-value=34 Score=30.95 Aligned_cols=44 Identities=11% Similarity=0.113 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeeccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGLE 130 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~~ 130 (151)
.+++.|..+|+..||+.|--..- +.+.+++|++.+ .|++++..-
T Consensus 5 ~~~~~l~~~L~~~Gv~~vFg~pG----------~~~~~l~dal~~~~~i~~v~~r 49 (591)
T PRK11269 5 RAVDAAVLVLEKEGVTTAFGVPG----------AAINPFYSAMRKHGGIRHILAR 49 (591)
T ss_pred cHHHHHHHHHHHcCCCEEEeCCC----------cccHHHHHHHhhcCCCcEEeeC
Confidence 46899999999999999988776 678899999965 488888763
No 72
>TIGR03254 oxalate_oxc oxalyl-CoA decarboxylase. In a number of bacteria, including Oxalobacter formigenes from the human gut, a two-gene operon of oxc (oxalyl-CoA decarboxylase) and frc (formyl-CoA transferase) encodes a system for degrading and therefore detoxifying oxalate. Members of this family are the thiamine pyrophosphate (TPP)-containing enzyme oxalyl-CoA decarboxylase.
Probab=45.54 E-value=31 Score=30.72 Aligned_cols=44 Identities=18% Similarity=0.089 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeeccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~ 130 (151)
.+|+.|..+|+..||+.|--..- +.+.++++.+++.||+.+..-
T Consensus 4 ~~~~~l~~~L~~~GV~~vFGvpG----------~~~~~l~~~~~~~~i~~i~~r 47 (554)
T TIGR03254 4 DGFHLVIDALKLNGINTIYGVVG----------IPVTDLARLAQAKGMRYIGFR 47 (554)
T ss_pred cHHHHHHHHHHHcCCCEEEeCCC----------cchhHHHHHHhhcCCcEEEeC
Confidence 47899999999999999887654 357889999998899887653
No 73
>PTZ00445 p36-lilke protein; Provisional
Probab=45.52 E-value=51 Score=28.13 Aligned_cols=57 Identities=12% Similarity=0.044 Sum_probs=42.2
Q ss_pred hHHHHHHHHHHHHHHhcCcceeEeechhhc----cccccc------------cchhhHHHHHHHHcCeeeecc
Q 031877 73 NTVVVVGQKLGSQLREIGIDNVMINLAEEL----SRPANQ------------RIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 73 kaAa~VGe~La~RLk~~Gi~~V~id~~eE~----sr~~ky------------r~kV~al~dSlR~~GVkv~g~ 129 (151)
+.......++...|++.||..|-+|++.=+ +.|... +--++.++..|++.||+|.-+
T Consensus 25 ~~~~~~~~~~v~~L~~~GIk~Va~D~DnTlI~~HsgG~~~~~~~~~~~~~~~tpefk~~~~~l~~~~I~v~VV 97 (219)
T PTZ00445 25 LNPHESADKFVDLLNECGIKVIASDFDLTMITKHSGGYIDPDNDDIRVLTSVTPDFKILGKRLKNSNIKISVV 97 (219)
T ss_pred CCHHHHHHHHHHHHHHcCCeEEEecchhhhhhhhcccccCCCcchhhhhccCCHHHHHHHHHHHHCCCeEEEE
Confidence 344445567888899999999999998775 333222 224788999999999998754
No 74
>COG0028 IlvB Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=45.41 E-value=34 Score=31.62 Aligned_cols=42 Identities=24% Similarity=0.283 Sum_probs=37.0
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~ 129 (151)
.++.|...|+..||+.|.--.- +.+.+++|+|++.||+.+.+
T Consensus 4 ga~~lv~~L~~~GV~~VFGiPG----------~~i~~~~dal~~~~i~~I~~ 45 (550)
T COG0028 4 GAEALVEALEANGVDTVFGIPG----------GSILPLYDALYDSGIRHILV 45 (550)
T ss_pred HHHHHHHHHHHcCCcEEEeCCC----------ccHHHHHHHHHhCCCcEEEe
Confidence 4799999999999999987766 78999999999999988764
No 75
>PF07454 SpoIIP: Stage II sporulation protein P (SpoIIP); InterPro: IPR010897 This family contains the bacterial stage II sporulation protein P (SpoIIP) (approximately 350 residues long). It has been shown that a block in polar cytokinesis in Bacillus subtilis is mediated partly by transcription of spoIID, spoIIM and spoIIP. This inhibition of polar division is involved in the locking in of asymmetry after the formation of a polar septum during sporulation []. SpoIIP is one of the three genes (spoIID, spoIIM and spoIIP, [, , ]), under the control of sigma E, that have been shown to be essential for the engulfment of the forespore by the mother cell. Their products are involved in degradation of the septal peptidoglycan and mutations in spoIID, spoIIM or spoIIP block sporulation at morphological stage II, prior to the stage of engulfment. These three genes are absolutely conserved (sometimes even duplicated) in all endospore formers [].
Probab=45.17 E-value=30 Score=29.64 Aligned_cols=52 Identities=17% Similarity=0.211 Sum_probs=37.5
Q ss_pred hhHHHHHHHHHHHHHHhcCcceeEeechhhc-cccccccchhhHHHHHHHHcC
Q 031877 72 SNTVVVVGQKLGSQLREIGIDNVMINLAEEL-SRPANQRIMVLPLFDSVRRAG 123 (151)
Q Consensus 72 akaAa~VGe~La~RLk~~Gi~~V~id~~eE~-sr~~kyr~kV~al~dSlR~~G 123 (151)
......||+.|+..|...||..+|..-.-.. ....-|..--.-+-..|++++
T Consensus 106 ~~nV~~VG~~L~~~Le~~Gi~v~h~~t~~d~~~y~~sY~~Sr~tv~~~l~~~p 158 (268)
T PF07454_consen 106 EVNVVKVGDRLAQELEKYGIGVIHDKTIHDYPSYNQSYKRSRETVKKALKENP 158 (268)
T ss_pred cchHHHHHHHHHHHHHHCCCcEEEeCCCCCcchhHHHHHHHHHHHHHHHHHCC
Confidence 3457899999999999999999887665333 455555555555666666653
No 76
>PRK06276 acetolactate synthase catalytic subunit; Reviewed
Probab=44.77 E-value=38 Score=30.61 Aligned_cols=42 Identities=12% Similarity=0.146 Sum_probs=35.6
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~ 129 (151)
.++.|+.+|+..||+.|--..- +-+.++++++.+.|++.+..
T Consensus 3 ~~~~l~~~L~~~Gv~~vFg~pG----------~~~~~l~~al~~~~i~~i~~ 44 (586)
T PRK06276 3 GAEAIIKALEAEGVKIIFGYPG----------GALLPFYDALYDSDLIHILT 44 (586)
T ss_pred HHHHHHHHHHHcCCCEEEECCC----------cchHHHHHHHHhCCCcEEEe
Confidence 5899999999999999988765 56889999998778877664
No 77
>PRK06546 pyruvate dehydrogenase; Provisional
Probab=44.75 E-value=35 Score=30.91 Aligned_cols=58 Identities=26% Similarity=0.414 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc-Ceeeecccc--------cccccccceeccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA-GVVVDGLEK--------LAEDRVGRRLGFC 144 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~-GVkv~g~~~--------l~~~~~~~~~~~~ 144 (151)
.+++.|..+|++.||+.|--..- +...+++|+|.+. ||+.+..-. .+--|+.+++|.|
T Consensus 4 t~~~~l~~~L~~~GV~~vFg~pG----------~~~~~l~dal~~~~~i~~i~~rhE~~A~~mAdgyar~tgk~~v~ 70 (578)
T PRK06546 4 TVAEQLVEQLVAAGVKRIYGIVG----------DSLNPIVDAVRRTGGIEWVHVRHEEAAAFAAAAEAQLTGKLAVC 70 (578)
T ss_pred cHHHHHHHHHHHcCCCEEEECCC----------CchHHHHHHHhccCCCeEEEeCcHHHHHHHHHhHHHhhCCceEE
Confidence 57999999999999999988776 5678999999876 888876621 2234555666766
No 78
>cd07037 TPP_PYR_MenD Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1-carboxylate synthase (MenD) and related proteins. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1-carboxylate (SEPHCHC) synthase (MenD) subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Most TPP-dependent enzymes have the PYR and PP domains on the same subunit although these domains can be alternatively arranged in the primary structure. TPP-dependent enzymes are multisubunit proteins, the smallest catalytic unit being a dim
Probab=44.13 E-value=39 Score=26.26 Aligned_cols=39 Identities=18% Similarity=0.230 Sum_probs=31.7
Q ss_pred HHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 81 KLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 81 ~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
.|+.+|++.||+.|--..- +.+.+++|++.+ .|++++..
T Consensus 2 ~l~~~L~~~Gv~~vFg~pG----------~~~~~l~~al~~~~~i~~v~~ 41 (162)
T cd07037 2 ALVEELKRLGVRDVVISPG----------SRSAPLALAAAEHPEFRLHVR 41 (162)
T ss_pred hHHHHHHHCCCCEEEECCC----------cchHHHHHHHHhCCCceEEec
Confidence 4788999999999887665 568999999965 58888754
No 79
>PF05336 DUF718: Domain of unknown function (DUF718); InterPro: IPR008000 Mutarotases are enzymes which interconvert the alpha and beta stereoisomers of monosaccharides, enhancing the rate of their metabolism. Proteins in this entry are homologues of the rhamnose mutarotase YiiL (P32156 from SWISSPROT) from Escherichia coli, and are often encoded in rhamnose utilisation operons. YiiL is an enzyme which interconverts the alpha and beta stereoisomers of the pyranose form of L-rhamnose []. It is not required for growth on rhamnose, but allows cells to utilise this carbon source more efficiently [].The structure of YiiL is distinct from other mutarotases, forming an asymmetric dimmer stabilised by an intermolecular beta-sheet, hydrophobic interactions and a salt bridge [].; GO: 0016857 racemase and epimerase activity, acting on carbohydrates and derivatives, 0019299 rhamnose metabolic process, 0005737 cytoplasm; PDB: 2QLX_A 2QLW_B 1X8D_B.
Probab=44.09 E-value=19 Score=26.23 Aligned_cols=31 Identities=23% Similarity=0.409 Sum_probs=18.2
Q ss_pred Eeechhhc-cccccccchhhH-HHHHHHHcCee
Q 031877 95 MINLAEEL-SRPANQRIMVLP-LFDSVRRAGVV 125 (151)
Q Consensus 95 ~id~~eE~-sr~~kyr~kV~a-l~dSlR~~GVk 125 (151)
.++++.|. ..=.+.|..||| |.++||++||.
T Consensus 6 ~~~L~p~~~~eY~~~H~~vWPEv~~~l~~~Gi~ 38 (106)
T PF05336_consen 6 TLKLKPGLIEEYKRRHAEVWPEVLAALREAGIR 38 (106)
T ss_dssp EEEB-TTGHHHHHHCCCT--HHHHHHHHHCTEE
T ss_pred EEEecHHHHHHHHHHHhccCHHHHHHHHHCCCe
Confidence 34455444 334456777886 77889999886
No 80
>smart00052 EAL Putative diguanylate phosphodiesterase. Putative diguanylate phosphodiesterase, present in a variety of bacteria.
Probab=43.63 E-value=38 Score=25.23 Aligned_cols=48 Identities=15% Similarity=0.261 Sum_probs=35.7
Q ss_pred HHHHHHHHHHhcCcc--eeEeechhhccccccccchhhHHHHHHHHcCeeee
Q 031877 78 VGQKLGSQLREIGID--NVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 78 VGe~La~RLk~~Gi~--~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~ 127 (151)
.-+.|...|+..+++ .+.+++.|. -...+...+.+.++.|++.|+++.
T Consensus 101 ~~~~l~~~l~~~~~~~~~lvlei~e~--~~~~~~~~~~~~i~~l~~~G~~ia 150 (241)
T smart00052 101 LVPRVLELLEETGLPPQRLELEITES--VLLDDDESAVATLQRLRELGVRIA 150 (241)
T ss_pred HHHHHHHHHHHcCCCHHHEEEEEeCh--hhhcChHHHHHHHHHHHHCCCEEE
Confidence 446677788888886 599999873 334455566799999999998874
No 81
>COG2896 MoaA Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]
Probab=43.53 E-value=35 Score=30.29 Aligned_cols=46 Identities=28% Similarity=0.370 Sum_probs=32.5
Q ss_pred HHHHHHHHhcCcceeEeech---hhccc---cccccchhhHHHHHHHHcCee
Q 031877 80 QKLGSQLREIGIDNVMINLA---EELSR---PANQRIMVLPLFDSVRRAGVV 125 (151)
Q Consensus 80 e~La~RLk~~Gi~~V~id~~---eE~sr---~~kyr~kV~al~dSlR~~GVk 125 (151)
++.|..||+.|++.|+|.++ +|.=+ +...-.+|++=|++..++|..
T Consensus 101 ~~~a~~Lk~AGl~rVNVSLDsld~e~f~~IT~~~~~~~Vl~GI~~A~~~Gl~ 152 (322)
T COG2896 101 ARRAADLKEAGLDRVNVSLDSLDPEKFRKITGRDRLDRVLEGIDAAVEAGLT 152 (322)
T ss_pred HHHHHHHHHcCCcEEEeecccCCHHHHHHHhCCCcHHHHHHHHHHHHHcCCC
Confidence 47899999999999888765 33311 122256778888888888864
No 82
>TIGR03393 indolpyr_decarb indolepyruvate decarboxylase, Erwinia family. A family of closely related, thiamine pyrophosphate-dependent enzymes includes indolepyruvate decarboxylase (EC 4.1.1.74), phenylpyruvate decarboxylase (EC 4.1.1.43), pyruvate decarboxylase (EC 4.1.1.1), branched-chain alpha-ketoacid decarboxylase, etc.. Members of this group of homologs may overlap in specificity. Within the larger family, this model represents a clade of bacterial indolepyruvate decarboxylases, part of a pathway for biosynthesis of the plant hormone indole-3-acetic acid. Typically, these species interact with plants, as pathogens or as beneficial, root-associated bacteria.
Probab=43.40 E-value=37 Score=30.21 Aligned_cols=42 Identities=29% Similarity=0.336 Sum_probs=34.9
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
+++.|..+|+..||+.|--..- +.+.+++|++.+ .||+.+..
T Consensus 3 ~~~~l~~~L~~~Gv~~vFG~pG----------~~~~~l~dal~~~~~i~~v~~ 45 (539)
T TIGR03393 3 VGDYLLDRLTDIGIDHLFGVPG----------DYNLQFLDHVIDSPDICWVGC 45 (539)
T ss_pred HHHHHHHHHHHcCCCEEEECCC----------CchHHHHHHHhhCCCCcEecc
Confidence 6899999999999999988776 567899999954 58877654
No 83
>PLN02573 pyruvate decarboxylase
Probab=43.31 E-value=38 Score=30.81 Aligned_cols=43 Identities=28% Similarity=0.432 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
.+++.|+.+|+..||+.|--..- +.+.+++|+|.+ .||+.+..
T Consensus 17 ~~a~~l~~~L~~~Gv~~vFGvpG----------~~~~~l~dal~~~~~i~~i~~ 60 (578)
T PLN02573 17 TLGRHLARRLVEIGVTDVFSVPG----------DFNLTLLDHLIAEPGLNLIGC 60 (578)
T ss_pred cHHHHHHHHHHHcCCCEEEECCC----------CchHHHHHHHhhcCCceEEEe
Confidence 57899999999999999877665 568899999954 58888765
No 84
>PLN02389 biotin synthase
Probab=43.04 E-value=43 Score=29.62 Aligned_cols=48 Identities=27% Similarity=0.335 Sum_probs=34.4
Q ss_pred HHHHHHHHHhcCcceeEeech--hhccc---cccccchhhHHHHHHHHcCeee
Q 031877 79 GQKLGSQLREIGIDNVMINLA--EELSR---PANQRIMVLPLFDSVRRAGVVV 126 (151)
Q Consensus 79 Ge~La~RLk~~Gi~~V~id~~--eE~sr---~~kyr~kV~al~dSlR~~GVkv 126 (151)
-+....+||+.|++.++++++ +|.-+ +-+.-...+..++-+++.|+++
T Consensus 177 ~~E~l~~LkeAGld~~~~~LeTs~~~y~~i~~~~s~e~rl~ti~~a~~~Gi~v 229 (379)
T PLN02389 177 EKEQAAQLKEAGLTAYNHNLDTSREYYPNVITTRSYDDRLETLEAVREAGISV 229 (379)
T ss_pred CHHHHHHHHHcCCCEEEeeecCChHHhCCcCCCCCHHHHHHHHHHHHHcCCeE
Confidence 356678999999999999988 55411 1222334457888889999987
No 85
>KOG0210 consensus P-type ATPase [Inorganic ion transport and metabolism]
Probab=42.95 E-value=31 Score=35.04 Aligned_cols=68 Identities=28% Similarity=0.312 Sum_probs=50.8
Q ss_pred hhhhcc-ccCCCCCCCCcccchhHHHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeec--
Q 031877 52 FYSHYH-SKLNPFPKRHRFWDSNTVVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDG-- 128 (151)
Q Consensus 52 ~r~~~e-~~l~~~~rs~~~~DakaAa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g-- 128 (151)
|-..|. |+|+--. +|.+.|..|-..|.+-|...|++.|.=.+. .-|++-+.-|||+|||+--
T Consensus 617 Fe~~y~~A~lSi~d-----R~~~ma~vv~~~LE~dlelL~LTGVEDkLQ----------~dVk~tLElLRNAgikiWMLT 681 (1051)
T KOG0210|consen 617 FEEAYNAAKLSISD-----RDQKMANVVERYLERDLELLGLTGVEDKLQ----------DDVKPTLELLRNAGIKIWMLT 681 (1051)
T ss_pred HHHHHHhhhCccch-----HHHHHHHHHHHHHHhhhHHhcccChHHHHh----------hhhHhHHHHHhhcCcEEEEEc
Confidence 444554 5555433 568889999889999999999999864444 5688999999999999853
Q ss_pred cccccc
Q 031877 129 LEKLAE 134 (151)
Q Consensus 129 ~~~l~~ 134 (151)
-|||+-
T Consensus 682 GDKlET 687 (1051)
T KOG0210|consen 682 GDKLET 687 (1051)
T ss_pred Ccchhh
Confidence 366653
No 86
>PRK07064 hypothetical protein; Provisional
Probab=42.02 E-value=41 Score=29.70 Aligned_cols=43 Identities=19% Similarity=0.383 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
.+++.|..+|++.||+.|---.- +.+.+++|++.+ .||+.+..
T Consensus 4 ~~~~~l~~~L~~~Gv~~vFgvpG----------~~~~~l~~al~~~~~i~~i~~ 47 (544)
T PRK07064 4 TVGELIAAFLEQCGVKTAFGVIS----------IHNMPILDAIGRRGKIRFVPA 47 (544)
T ss_pred cHHHHHHHHHHHcCCCEEEeCCC----------CcchHHHHHHhccCCccEEee
Confidence 47999999999999999866544 567899999965 47888765
No 87
>KOG0407 consensus 40S ribosomal protein S14 [Translation, ribosomal structure and biogenesis]
Probab=41.89 E-value=91 Score=25.08 Aligned_cols=62 Identities=15% Similarity=0.304 Sum_probs=42.1
Q ss_pred hhHHHHHHHHHHHHHHhcCcceeEeechhhc-cccccccchhhHHHHHHHHcCeeeecccccc
Q 031877 72 SNTVVVVGQKLGSQLREIGIDNVMINLAEEL-SRPANQRIMVLPLFDSVRRAGVVVDGLEKLA 133 (151)
Q Consensus 72 akaAa~VGe~La~RLk~~Gi~~V~id~~eE~-sr~~kyr~kV~al~dSlR~~GVkv~g~~~l~ 133 (151)
.-||-.-.+-.|.+.|+.||+++||.+.--= .|+-.-.----+-+..|-+.|.++.-.|..-
T Consensus 59 pyaamlaaqdva~kck~~gi~alh~klratgg~ktktpgpgaqsalralar~gmrigriedvt 121 (139)
T KOG0407|consen 59 PYAAMLAAQDVAAKCKELGITALHIKLRATGGTKTKTPGPGAQSALRALARSGMRIGRIEDVT 121 (139)
T ss_pred hHHHHHHHHHHHHHHHhcCeeEEEEEEEecCCcccCCCCccHHHHHHHHHHhcceeeeecccc
Confidence 4566666778889999999999999886221 1222222223456788889999987766543
No 88
>PRK06154 hypothetical protein; Provisional
Probab=41.35 E-value=46 Score=30.15 Aligned_cols=40 Identities=25% Similarity=0.251 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~ 129 (151)
.+++.|..+|++.||+.|--.. ..+++|+|.+.||+++..
T Consensus 21 ~~a~~l~~~L~~~GV~~vFGip-------------~~~l~dal~~~~i~~i~~ 60 (565)
T PRK06154 21 KVAEAVAEILKEEGVELLFGFP-------------VNELFDAAAAAGIRPVIA 60 (565)
T ss_pred cHHHHHHHHHHHcCCCEEEeCc-------------CHHHHHHHHhcCCeEEee
Confidence 4689999999999999987544 238999998889998864
No 89
>PRK08527 acetolactate synthase 3 catalytic subunit; Validated
Probab=40.80 E-value=45 Score=29.88 Aligned_cols=42 Identities=17% Similarity=0.094 Sum_probs=35.2
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
.++.|..+|+..||+.|--..- +-+.+++|++.+ .|++++..
T Consensus 5 ~~~~l~~~L~~~Gv~~vFgipG----------~~~~~l~~~l~~~~~i~~v~~ 47 (563)
T PRK08527 5 GSQMVCEALKEEGVKVVFGYPG----------GAILNIYDEIYKQNYFKHILT 47 (563)
T ss_pred HHHHHHHHHHHcCCCEEEECCC----------cchHHHHHHHhccCCCeEEEe
Confidence 5899999999999999887665 578899999965 48888765
No 90
>cd07034 TPP_PYR_PFOR_IOR-alpha_like Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain, of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit (IOR-alpha), and related proteins, subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. A polar interaction between the conserved glutamate of the PYR domain and the N1' of the TPP aminopyrimidine ring is shared by most TPP-dependent enzymes, and participates in the activation of TPP. The PYR and PP domains have a common fold, but do not share strong sequence conservation. Th
Probab=40.63 E-value=75 Score=23.21 Aligned_cols=42 Identities=17% Similarity=0.148 Sum_probs=33.7
Q ss_pred HHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-----cCeeeeccc
Q 031877 79 GQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-----AGVVVDGLE 130 (151)
Q Consensus 79 Ge~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-----~GVkv~g~~ 130 (151)
+|.|++.|+..||+.|.--+- +-+.++++++.+ .+++++...
T Consensus 2 ~e~i~~~L~~~gv~~vfg~PG----------~~~~~~~~~l~~~~~~~~~i~~i~~~ 48 (160)
T cd07034 2 NEAVARGALAAGVDVVAAYPI----------TPSTEIAETLAKAVLGELGGVVVQAE 48 (160)
T ss_pred hHHHHHHHHHhCCCEEEEeCC----------CCHHHHHHHHHHHhccCCCcEEEEeC
Confidence 688999999999998877665 567899999963 678887665
No 91
>TIGR00118 acolac_lg acetolactate synthase, large subunit, biosynthetic type. Several isozymes of this enzyme are found in E. coli K12, one of which contains a frameshift in the large subunit gene and is not expressed.
Probab=40.05 E-value=46 Score=29.62 Aligned_cols=42 Identities=17% Similarity=0.282 Sum_probs=35.2
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHH-HcCeeeecc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVR-RAGVVVDGL 129 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR-~~GVkv~g~ 129 (151)
+++.|..+|+..||+.|-...- +.+.+++|++. +.|++.+..
T Consensus 3 ~~~~l~~~L~~~Gv~~vFgvpG----------~~~~~l~~~l~~~~~i~~i~~ 45 (558)
T TIGR00118 3 GAEAIIESLKDEGVKTVFGYPG----------GAILPIYDALYNDSGIEHILV 45 (558)
T ss_pred HHHHHHHHHHHcCCCEEEeCCC----------cchHHHHHHhhccCCceEEEe
Confidence 5899999999999999887665 57889999997 578887765
No 92
>PRK09259 putative oxalyl-CoA decarboxylase; Validated
Probab=38.85 E-value=52 Score=29.55 Aligned_cols=44 Identities=18% Similarity=0.119 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeeccc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~ 130 (151)
..|+.|..+|+..||+.|--..- +.+.++++.+++.||+.+..-
T Consensus 11 ~~~~~l~~~L~~~GV~~vFGvpG----------~~~~~l~~~~~~~~i~~i~~r 54 (569)
T PRK09259 11 DGFHLVIDALKLNGIDTIYGVVG----------IPITDLARLAQAEGIRYIGFR 54 (569)
T ss_pred cHHHHHHHHHHHcCCCEEEeCCC----------cchHHHHHHHhhCCCCEEeeC
Confidence 46899999999999999887655 357889999988899887653
No 93
>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E. This model describes coenzyme PQQ biosynthesis protein E, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases.
Probab=38.34 E-value=51 Score=27.47 Aligned_cols=50 Identities=20% Similarity=0.265 Sum_probs=34.0
Q ss_pred HHHHHHHHHHhcCcceeEeech---hhc---ccccc-ccchhhHHHHHHHHcCeeee
Q 031877 78 VGQKLGSQLREIGIDNVMINLA---EEL---SRPAN-QRIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~---eE~---sr~~k-yr~kV~al~dSlR~~GVkv~ 127 (151)
+-+.++.+|+..|++.|+|.++ +|. -++.+ .-.++...++-+++.|+++.
T Consensus 93 l~~e~~~~L~~~g~~~v~iSldg~~~e~~d~~rg~~g~f~~v~~~i~~l~~~g~~v~ 149 (358)
T TIGR02109 93 LTEARLDALADAGLDHVQLSFQGVDEALADRIAGYKNAFEQKLAMARAVKAAGLPLT 149 (358)
T ss_pred CCHHHHHHHHhCCCCEEEEeCcCCCHHHHHHhcCCccHHHHHHHHHHHHHhCCCceE
Confidence 3466778899999988877774 444 12222 33467777888899998764
No 94
>cd07035 TPP_PYR_POX_like Pyrimidine (PYR) binding domain of POX and related proteins. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate oxidase (POX) and related protiens subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. A polar interaction between the conserved glutamate of the PYR domain and the N1' of the TPP aminopyrimidine ring is shared by most TPP-dependent enzymes, and participates in the activation of TPP. For glyoxylate carboligase, which belongs to this subfamily, but lacks this conserved glutamate, the rate of the initial TPP activation step is reduced but the ensuing steps of the enzymic reaction proceed efficiently. The PYR and PP domains have a common fold, but do not share strong sequence conservatio
Probab=38.11 E-value=47 Score=24.05 Aligned_cols=42 Identities=26% Similarity=0.373 Sum_probs=33.5
Q ss_pred HHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecccc
Q 031877 80 QKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLEK 131 (151)
Q Consensus 80 e~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~~ 131 (151)
+.|+..|++.||+.|-.-.. .-+.++++++.+.|++++....
T Consensus 1 ~~i~~~L~~~Gv~~vfg~pg----------~~~~~l~~~~~~~~~~~i~~~~ 42 (155)
T cd07035 1 DALVEALKAEGVDHVFGVPG----------GAILPLLDALARSGIRYILVRH 42 (155)
T ss_pred CHHHHHHHHcCCCEEEECCC----------CchHHHHHHhccCCCEEEEeCC
Confidence 35789999999999887766 4478899999888888877653
No 95
>PRK08199 thiamine pyrophosphate protein; Validated
Probab=37.73 E-value=50 Score=29.50 Aligned_cols=44 Identities=23% Similarity=0.215 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc-Ceeeecc
Q 031877 76 VVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA-GVVVDGL 129 (151)
Q Consensus 76 a~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~-GVkv~g~ 129 (151)
...++.|..+|+..||+.|--..- +.+.++++++.+. ||+++..
T Consensus 8 ~~~~~~l~~~L~~~GV~~vFg~pG----------~~~~~l~~al~~~~~i~~v~~ 52 (557)
T PRK08199 8 RTGGQILVDALRANGVERVFCVPG----------ESYLAVLDALHDETDIRVIVC 52 (557)
T ss_pred CcHHHHHHHHHHHcCCCEEEeCCC----------cchhHHHHHhhccCCCcEEEe
Confidence 357899999999999999887765 6788999999776 4888765
No 96
>PRK13818 ribosome-binding factor A; Provisional
Probab=37.25 E-value=44 Score=25.29 Aligned_cols=46 Identities=11% Similarity=0.160 Sum_probs=41.8
Q ss_pred hHHHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc
Q 031877 73 NTVVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA 122 (151)
Q Consensus 73 kaAa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~ 122 (151)
+|+..+-..||.||+..-+|.+++-.+ ..+.|-.+|-.||+.+++.
T Consensus 69 ~a~g~iR~~la~~l~lR~~P~L~F~~D----~s~e~~~~I~~Ll~~i~~~ 114 (121)
T PRK13818 69 KAKGMMRHLLGQTLTVYKVPELIFKRD----NSVAYGSKIDRLIAEVKKQ 114 (121)
T ss_pred HhHHHHHHHHHhhCCCeECCEEEEEeC----CChHHHHHHHHHHHHHHhh
Confidence 788899999999999999999999999 7888999999999998763
No 97
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=37.16 E-value=1.2e+02 Score=20.98 Aligned_cols=60 Identities=15% Similarity=0.238 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHHHhcCcceeEeechhhcccccc---------------ccchhhHHHHHHHHcCeeeeccccccc
Q 031877 75 VVVVGQKLGSQLREIGIDNVMINLAEELSRPAN---------------QRIMVLPLFDSVRRAGVVVDGLEKLAE 134 (151)
Q Consensus 75 Aa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~k---------------yr~kV~al~dSlR~~GVkv~g~~~l~~ 134 (151)
...+++-+..+|...|++.+.++..+.+..... +-..+...+...|++|+++++.-.-++
T Consensus 11 S~~~a~~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~d~vi~iS~sG~t~~~~~~~~~a~~~g~~vi~iT~~~~ 85 (128)
T cd05014 11 SGHIARKIAATLSSTGTPAFFLHPTEALHGDLGMVTPGDVVIAISNSGETDELLNLLPHLKRRGAPIIAITGNPN 85 (128)
T ss_pred hHHHHHHHHHHhhcCCCceEEcccchhhccccCcCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCC
Confidence 345777888888888988877765544422111 223467788889999999988765443
No 98
>TIGR00082 rbfA ribosome-binding factor A. Associates with free 30S ribosomal subunits (but not with 30S subunits that are part of 70S ribosomes or polysomes). Essential for efficient processing of 16S rRNA. May interact with the 5'terminal helix region of 16S rRNA. Mutants lacking rbfA have a cold-sensitive phenotype.
Probab=37.03 E-value=43 Score=24.89 Aligned_cols=45 Identities=11% Similarity=0.180 Sum_probs=39.8
Q ss_pred hHHHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH
Q 031877 73 NTVVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR 121 (151)
Q Consensus 73 kaAa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~ 121 (151)
+++.-+-..||.||+..-+|.+++-.+ ..+.|-.+|-.||+.+..
T Consensus 69 ~~~g~iR~~l~k~l~lR~~P~L~F~~D----~s~e~~~~i~~ll~~i~~ 113 (114)
T TIGR00082 69 KAKGFIRSLLGQAMRLRKTPELHFVKD----NSLDKGMRIENLINSLKK 113 (114)
T ss_pred HHHHHHHHHHHhhCCceECCEEEEEec----CcHHHHHHHHHHHHHhhh
Confidence 678889999999999999999999999 778888899999988753
No 99
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=36.91 E-value=27 Score=29.22 Aligned_cols=34 Identities=35% Similarity=0.635 Sum_probs=24.1
Q ss_pred cchhhHHHHHHHHcCeeeeccccccccc-ccceecc
Q 031877 109 RIMVLPLFDSVRRAGVVVDGLEKLAEDR-VGRRLGF 143 (151)
Q Consensus 109 r~kV~al~dSlR~~GVkv~g~~~l~~~~-~~~~~~~ 143 (151)
-+.++-+.+.|++.|.+|.|.-- +|+| -|+|.||
T Consensus 19 tTl~~ki~e~L~~~g~kvgGf~t-~EVR~gGkR~GF 53 (179)
T COG1618 19 TTLVLKIAEKLREKGYKVGGFIT-PEVREGGKRIGF 53 (179)
T ss_pred HHHHHHHHHHHHhcCceeeeEEe-eeeecCCeEeee
Confidence 35677888888999888888643 3444 3577776
No 100
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=36.78 E-value=22 Score=26.51 Aligned_cols=44 Identities=34% Similarity=0.380 Sum_probs=31.7
Q ss_pred HHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeeccccc
Q 031877 80 QKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLEKL 132 (151)
Q Consensus 80 e~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~~l 132 (151)
+.|....++.+|+=|-|-.+.-| +.-|.|.|+++||+++|..|-
T Consensus 52 ~~l~~~a~~~~idlvvvGPE~pL---------~~Gl~D~l~~~gi~vfGP~k~ 95 (100)
T PF02844_consen 52 EELADFAKENKIDLVVVGPEAPL---------VAGLADALRAAGIPVFGPSKE 95 (100)
T ss_dssp HHHHHHHHHTTESEEEESSHHHH---------HTTHHHHHHHTT-CEES--HH
T ss_pred HHHHHHHHHcCCCEEEECChHHH---------HHHHHHHHHHCCCcEECcCHH
Confidence 34666778888988888888444 335789999999999998764
No 101
>PRK09107 acetolactate synthase 3 catalytic subunit; Validated
Probab=35.99 E-value=65 Score=29.38 Aligned_cols=43 Identities=14% Similarity=0.243 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
.+++.|..+|+..||+.|--..- +.+.+++|+|.+ .|++.+..
T Consensus 12 t~a~~l~~~L~~~GV~~vFGvpG----------~~~~~l~dal~~~~~i~~I~~ 55 (595)
T PRK09107 12 TGAEMVVQALKDQGVEHIFGYPG----------GAVLPIYDEIFQQDDIQHILV 55 (595)
T ss_pred hHHHHHHHHHHHCCCCEEEEccC----------cchHHHHHHHhhcCCCeEEEE
Confidence 57999999999999999877665 678999999965 58888765
No 102
>PRK06456 acetolactate synthase catalytic subunit; Reviewed
Probab=35.94 E-value=65 Score=28.81 Aligned_cols=60 Identities=13% Similarity=0.184 Sum_probs=43.3
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH----cCeeeecccc--------cccccccceeccc-
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR----AGVVVDGLEK--------LAEDRVGRRLGFC- 144 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~----~GVkv~g~~~--------l~~~~~~~~~~~~- 144 (151)
.++.|..+|+..||+.|--..- +.+.+++|+|.+ .|++.+..-. .+--|+-.+.|.|
T Consensus 4 ~~~~l~~~L~~~GV~~vFg~pG----------~~~~~l~dal~~~~~~~~i~~i~~rhE~~A~~~Adgyar~tg~~gv~~ 73 (572)
T PRK06456 4 GARILVDSLKREGVKVIFGIPG----------LSNMQIYDAFVEDLANGELRHVLMRHEQAAAHAADGYARASGVPGVCT 73 (572)
T ss_pred HHHHHHHHHHHcCCCEEEeCCC----------cchHHHHHHHHhhccCCCCeEEEeCcHHHHHHHHHHHHHhhCCCEEEE
Confidence 5899999999999999988765 678899999964 3788876522 2233455566655
Q ss_pred -ccC
Q 031877 145 -HNG 147 (151)
Q Consensus 145 -~~~ 147 (151)
|.|
T Consensus 74 ~t~G 77 (572)
T PRK06456 74 ATSG 77 (572)
T ss_pred eCCC
Confidence 544
No 103
>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=35.47 E-value=1.3e+02 Score=20.49 Aligned_cols=39 Identities=36% Similarity=0.509 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeee
Q 031877 76 VVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 76 a~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~ 127 (151)
..+|..|++.|+..+.+-+-+|.++|. ++.+++.|+.++
T Consensus 7 g~~~~~i~~~L~~~~~~vvvid~d~~~-------------~~~~~~~~~~~i 45 (116)
T PF02254_consen 7 GRIGREIAEQLKEGGIDVVVIDRDPER-------------VEELREEGVEVI 45 (116)
T ss_dssp SHHHHHHHHHHHHTTSEEEEEESSHHH-------------HHHHHHTTSEEE
T ss_pred CHHHHHHHHHHHhCCCEEEEEECCcHH-------------HHHHHhcccccc
Confidence 368999999999988788888888443 455556665544
No 104
>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional
Probab=35.43 E-value=52 Score=27.81 Aligned_cols=50 Identities=16% Similarity=0.244 Sum_probs=34.7
Q ss_pred HHHHHHHHHHhcCcceeEeech---hhc---ccccc-ccchhhHHHHHHHHcCeeee
Q 031877 78 VGQKLGSQLREIGIDNVMINLA---EEL---SRPAN-QRIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~---eE~---sr~~k-yr~kV~al~dSlR~~GVkv~ 127 (151)
+.+....+|+..|++.|+|.++ +|. -++.. .-.++..-++-+++.|+++.
T Consensus 102 l~~~~~~~L~~~g~~~v~iSldg~~~e~~d~irg~~g~f~~~~~~i~~l~~~g~~v~ 158 (378)
T PRK05301 102 LTEARLAALKDAGLDHIQLSFQDSDPELNDRLAGTKGAFAKKLAVARLVKAHGYPLT 158 (378)
T ss_pred CCHHHHHHHHHcCCCEEEEEecCCCHHHHHHHcCCCchHHHHHHHHHHHHHCCCceE
Confidence 4556678899999988766664 555 23433 44567777888999998764
No 105
>PLN02980 2-oxoglutarate decarboxylase/ hydro-lyase/ magnesium ion binding / thiamin pyrophosphate binding
Probab=34.72 E-value=60 Score=33.82 Aligned_cols=60 Identities=10% Similarity=0.018 Sum_probs=49.0
Q ss_pred CCCCCCCCcccchhHH--HHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc-Ceeeecc
Q 031877 60 LNPFPKRHRFWDSNTV--VVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA-GVVVDGL 129 (151)
Q Consensus 60 l~~~~rs~~~~DakaA--a~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~-GVkv~g~ 129 (151)
|.+-|+..+|++..+. ..-++.|...|+..||+.|-.-.- ..+.||++++.+. |++++..
T Consensus 283 ~~~~~~~~~~~~~~~~~~~~~a~~lv~~L~~~GV~~vFg~PG----------~~~~pL~dAl~~~~~i~~i~~ 345 (1655)
T PLN02980 283 LDHEGEVSNFLKDYANINAVWASLIIEECTRLGLTYFCVAPG----------SRSSPLAIAASNHPLTTCIAC 345 (1655)
T ss_pred cccccchhhHhHhCCCHHHHHHHHHHHHHHHcCCCEEEEeCC----------CCCHHHHHHHHhCCCCeEEec
Confidence 5667777788776666 889999999999999999887765 6789999999654 6887754
No 106
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=34.50 E-value=79 Score=26.53 Aligned_cols=43 Identities=23% Similarity=0.399 Sum_probs=30.1
Q ss_pred HHHHHHhcCcceeEeech---hhc-c--ccccccchhhHHHHHHHHcCe
Q 031877 82 LGSQLREIGIDNVMINLA---EEL-S--RPANQRIMVLPLFDSVRRAGV 124 (151)
Q Consensus 82 La~RLk~~Gi~~V~id~~---eE~-s--r~~kyr~kV~al~dSlR~~GV 124 (151)
++.+|++.|++.|.|.++ +|. . ++...-.+|+.-++.+++.|+
T Consensus 106 ~~~~L~~aGl~~v~ISlDs~~~e~~~~i~~~g~~~~vl~~i~~~~~~Gi 154 (329)
T PRK13361 106 FAAELADAGLKRLNISLDTLRPELFAALTRNGRLERVIAGIDAAKAAGF 154 (329)
T ss_pred HHHHHHHcCCCeEEEEeccCCHHHhhhhcCCCCHHHHHHHHHHHHHcCC
Confidence 678999999998777763 233 1 112233478888888899987
No 107
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=34.38 E-value=38 Score=24.42 Aligned_cols=45 Identities=16% Similarity=0.164 Sum_probs=32.5
Q ss_pred HHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecc
Q 031877 84 SQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGL 129 (151)
Q Consensus 84 ~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~ 129 (151)
..+++.|.+.|.+....-...... ......+-+-+++.||++.+.
T Consensus 2 ~~~~~~G~~~vE~~~~~~~~~~~~-~~~~~~~~~~~~~~gl~i~~~ 46 (213)
T PF01261_consen 2 EAAAEAGFDGVELRFDDGQPWDEK-DDEAEELRRLLEDYGLKIASL 46 (213)
T ss_dssp HHHHHTTHSEEEEEHHHHSHHTHH-HHHHHHHHHHHHHTTCEEEEE
T ss_pred hHHHHcCCCEEEEecCCCcccccc-hHHHHHHHHHHHHcCCeEEEE
Confidence 357889999999998833311111 457888999999999997653
No 108
>TIGR02720 pyruv_oxi_spxB pyruvate oxidase. Members of this family are examples of pyruvate oxidase (EC 1.2.3.3), an enzyme with FAD and TPP as cofactors that catalyzes the reaction pyruvate + phosphate + O2 + H2O = acetyl phosphate + CO2 + H2O2. It should not be confused with pyruvate dehydrogenase [cytochrome] (EC 1.2.2.2) as in E. coli PoxB, although the E. coli enzyme is closely homologous and has pyruvate oxidase as an alternate name.
Probab=33.25 E-value=68 Score=29.01 Aligned_cols=41 Identities=10% Similarity=0.023 Sum_probs=33.9
Q ss_pred HHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc--Ceeeecc
Q 031877 79 GQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA--GVVVDGL 129 (151)
Q Consensus 79 Ge~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~--GVkv~g~ 129 (151)
|+.|..+|+..||+.|--..- +.+.+++|+|.+. |++++..
T Consensus 2 ~~~l~~~L~~~GV~~vFgvpG----------~~~~~l~dal~~~~~~i~~v~~ 44 (575)
T TIGR02720 2 SAAVLKVLEAWGVDHIYGIPG----------GSFNSTMDALSAERDRIHYIQV 44 (575)
T ss_pred HHHHHHHHHHcCCCEEEECCC----------cchHHHHHHHHhcCCCCcEEEe
Confidence 688999999999999887766 5678999999764 6887754
No 109
>PRK07094 biotin synthase; Provisional
Probab=33.00 E-value=79 Score=26.02 Aligned_cols=46 Identities=15% Similarity=0.150 Sum_probs=33.4
Q ss_pred HHHHHHHHhcCcceeEeech---hh----ccccccccchhhHHHHHHHHcCeee
Q 031877 80 QKLGSQLREIGIDNVMINLA---EE----LSRPANQRIMVLPLFDSVRRAGVVV 126 (151)
Q Consensus 80 e~La~RLk~~Gi~~V~id~~---eE----~sr~~kyr~kV~al~dSlR~~GVkv 126 (151)
+.+..+|++.|++.|.+.++ +| +.++ +....+...++.++++|+.+
T Consensus 129 ~e~l~~Lk~aG~~~v~~glEs~~~~~~~~i~~~-~s~~~~~~~i~~l~~~Gi~v 181 (323)
T PRK07094 129 YEEYKAWKEAGADRYLLRHETADKELYAKLHPG-MSFENRIACLKDLKELGYEV 181 (323)
T ss_pred HHHHHHHHHcCCCEEEeccccCCHHHHHHhCCC-CCHHHHHHHHHHHHHcCCee
Confidence 45667899999999887664 33 3443 34456778889999999875
No 110
>PRK10669 putative cation:proton antiport protein; Provisional
Probab=32.91 E-value=88 Score=28.12 Aligned_cols=28 Identities=32% Similarity=0.355 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHhcCcceeEeechhhc
Q 031877 75 VVVVGQKLGSQLREIGIDNVMINLAEEL 102 (151)
Q Consensus 75 Aa~VGe~La~RLk~~Gi~~V~id~~eE~ 102 (151)
.-++|..++.+|++.|++-|-||.++|.
T Consensus 425 ~G~~G~~la~~L~~~g~~vvvId~d~~~ 452 (558)
T PRK10669 425 YGRVGSLLGEKLLAAGIPLVVIETSRTR 452 (558)
T ss_pred CChHHHHHHHHHHHCCCCEEEEECCHHH
Confidence 4578999999999999999999998664
No 111
>TIGR03699 mena_SCO4550 menaquinone biosynthesis protein, SCO4550 family. members of this protein family are involved in menaquinone biosynthesis by an alternate pathway via futalosine.
Probab=32.47 E-value=44 Score=27.96 Aligned_cols=47 Identities=15% Similarity=0.347 Sum_probs=33.3
Q ss_pred HHHHHHHHhcCcceeEee----chhhccccc-----cccchhhHHHHHHHHcCeeee
Q 031877 80 QKLGSQLREIGIDNVMIN----LAEELSRPA-----NQRIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 80 e~La~RLk~~Gi~~V~id----~~eE~sr~~-----kyr~kV~al~dSlR~~GVkv~ 127 (151)
+-...+||+.|++.++-. +++|+.+.+ .++ ..+..++.+++.|+++.
T Consensus 143 ~e~l~~Lk~aG~~~~~~~g~E~~~~~~~~~~~~~~~s~~-~~l~~i~~a~~~Gi~v~ 198 (340)
T TIGR03699 143 REVLERLKEAGLDSIPGGGAEILSDRVRKIISPKKISSE-EWLEVMETAHKLGLPTT 198 (340)
T ss_pred HHHHHHHHHcCCCcCCCCcccccCHHHHHhhCCCCCCHH-HHHHHHHHHHHcCCCcc
Confidence 667789999999988744 555663322 222 34788899999998853
No 112
>PRK11118 putative monooxygenase; Provisional
Probab=31.71 E-value=66 Score=24.70 Aligned_cols=37 Identities=22% Similarity=0.347 Sum_probs=30.7
Q ss_pred cccchhHHHHHHHHHHHHHHhcCcceeE---eechhhccc
Q 031877 68 RFWDSNTVVVVGQKLGSQLREIGIDNVM---INLAEELSR 104 (151)
Q Consensus 68 ~~~DakaAa~VGe~La~RLk~~Gi~~V~---id~~eE~sr 104 (151)
-|-|-++|-.--+.-.-||+..||++|. +|+++.|+.
T Consensus 55 lF~~e~~a~aYl~mH~aRL~~~Gv~~v~~kiFdin~~Ls~ 94 (100)
T PRK11118 55 LFEDEASAEAYLEMHTARLKNFGVEEVRAKIFDVNEPLSQ 94 (100)
T ss_pred EECCHHHHHHHHHHHHHHHHhcCCCeeEEEEEeccCchHh
Confidence 3788899999999999999999999865 678877753
No 113
>COG0768 FtsI Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]
Probab=31.52 E-value=42 Score=30.79 Aligned_cols=26 Identities=35% Similarity=0.350 Sum_probs=22.5
Q ss_pred eceeEEEeecCCCCCCceEEEeeccchhh
Q 031877 23 CRKITAQVSDTASAGSSTIVALASSSKQD 51 (151)
Q Consensus 23 ~k~ITAqVv~~~~~~tstIVA~ASS~Eq~ 51 (151)
-+...|-|.|+ .||.|+||||+..=+
T Consensus 265 ~~~g~~vv~dp---ktGeILAmas~P~yd 290 (599)
T COG0768 265 AKGGAAVVLDP---KTGEILAMASSPSYD 290 (599)
T ss_pred CcceEEEEEeC---CCCcEEEEecCCCCC
Confidence 57789999999 999999999986544
No 114
>PRK13816 ribosome-binding factor A; Provisional
Probab=31.20 E-value=68 Score=24.57 Aligned_cols=45 Identities=4% Similarity=0.079 Sum_probs=40.8
Q ss_pred hHHHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH
Q 031877 73 NTVVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR 121 (151)
Q Consensus 73 kaAa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~ 121 (151)
+++..+-..||.||+..-+|.+++-.+ ..+.|-.+|-.||+.+.+
T Consensus 76 ~a~g~iR~~L~krl~lR~~PeL~F~~D----~s~e~~~~I~~Ll~~i~~ 120 (131)
T PRK13816 76 KASGFLRTELSRRIKTRITPRLRFHYD----KTNAYGNYMFGLIEKAVQ 120 (131)
T ss_pred HHHHHHHHHHHhhcCCeECCEEEEEEC----CChhHHHHHHHHHHHHHh
Confidence 688899999999999999999999999 888889999999999864
No 115
>PLN02361 alpha-amylase
Probab=30.04 E-value=1.3e+02 Score=27.02 Aligned_cols=51 Identities=12% Similarity=0.153 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhcccccccc--------------chhhHHHHHHHHcCeeeec
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQR--------------IMVLPLFDSVRRAGVVVDG 128 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr--------------~kV~al~dSlR~~GVkv~g 128 (151)
.|-++|- .|+..|+++|.+.+--|=..+..|. .-.+.|++.++++||+|+-
T Consensus 30 ~i~~kl~-~l~~lG~t~iwl~P~~~~~~~~GY~~~d~y~~~~~~Gt~~el~~li~~~h~~gi~vi~ 94 (401)
T PLN02361 30 NLEGKVP-DLAKSGFTSAWLPPPSQSLAPEGYLPQNLYSLNSAYGSEHLLKSLLRKMKQYNVRAMA 94 (401)
T ss_pred HHHHHHH-HHHHcCCCEEEeCCCCcCCCCCCCCcccccccCcccCCHHHHHHHHHHHHHcCCEEEE
Confidence 4556665 6999999999887653321222222 2489999999999999864
No 116
>PRK05337 beta-hexosaminidase; Provisional
Probab=29.59 E-value=60 Score=28.20 Aligned_cols=58 Identities=21% Similarity=0.383 Sum_probs=39.1
Q ss_pred ccc------hhHHHHHHHHHHHHHHhcCcce-----eEeech-----hhc--cccccccchhhHHHHHHHHcCeee
Q 031877 69 FWD------SNTVVVVGQKLGSQLREIGIDN-----VMINLA-----EEL--SRPANQRIMVLPLFDSVRRAGVVV 126 (151)
Q Consensus 69 ~~D------akaAa~VGe~La~RLk~~Gi~~-----V~id~~-----eE~--sr~~kyr~kV~al~dSlR~~GVkv 126 (151)
+|| ...|..+|.++|..|+..||+- +.++.. .|- .-|.---.+..+.+..++..||--
T Consensus 87 t~d~~~~~~~~la~~~g~~~a~Elra~Gin~~~aPvlDv~~~~~~ig~RsfgeDp~lv~~~a~a~i~Glq~~gv~~ 162 (337)
T PRK05337 87 LWDRDPLEALKLAEEAGWLMAAELRACGIDLSFAPVLDLDGISAVIGDRAFHRDPQVVAALASAFIDGMHAAGMAA 162 (337)
T ss_pred hcCCCchhHHHHHHHHHHHHHHHHHHhCCCccccCccCCCCCCCeeeccCCCCCHHHHHHHHHHHHHHHHHCCCEE
Confidence 588 7788899999999999999854 333311 010 112223346788999999998754
No 117
>PRK07789 acetolactate synthase 1 catalytic subunit; Validated
Probab=29.51 E-value=89 Score=28.50 Aligned_cols=43 Identities=23% Similarity=0.235 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~ 129 (151)
.+++.|..+|+..||+.|--..- +.+.+++|+|.+ .||+.+..
T Consensus 32 ~~a~~l~~~L~~~GV~~vFgipG----------~~~~~l~dal~~~~~i~~v~~ 75 (612)
T PRK07789 32 TGAQAVVRSLEELGVDVVFGIPG----------GAILPVYDPLFDSTKVRHVLV 75 (612)
T ss_pred cHHHHHHHHHHHCCCCEEEEcCC----------cchHHHHHHHhccCCceEEEe
Confidence 46899999999999999887665 578899999955 48888765
No 118
>PRK08327 acetolactate synthase catalytic subunit; Validated
Probab=29.48 E-value=76 Score=28.65 Aligned_cols=46 Identities=22% Similarity=0.237 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc------Ceeeecc
Q 031877 74 TVVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA------GVVVDGL 129 (151)
Q Consensus 74 aAa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~------GVkv~g~ 129 (151)
....+++.|+.+|+..||+.|--..- +.+.+++|++.+. +|+.+..
T Consensus 5 ~~~~~a~~l~~~L~~~GV~~iFgvpG----------~~~~~l~dal~~~~~~g~~~i~~V~~ 56 (569)
T PRK08327 5 TMYTAAELFLELLKELGVDYIFINSG----------TDYPPIIEAKARARAAGRPLPEFVIC 56 (569)
T ss_pred ccccHHHHHHHHHHHCCCCEEEEcCC----------CCcHHHHHHHHhhhhcCCCCCcEEec
Confidence 33457999999999999999877665 6789999999643 3676654
No 119
>PRK00394 transcription factor; Reviewed
Probab=29.31 E-value=1.9e+02 Score=23.24 Aligned_cols=42 Identities=19% Similarity=0.337 Sum_probs=29.9
Q ss_pred CcccCceeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhcc
Q 031877 9 SQKYPRYLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYH 57 (151)
Q Consensus 9 ~~~~~~yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e 57 (151)
..+|+-=++|| ..-+.|+.|-.. |.|+++...+|.+.+...+
T Consensus 32 Pe~fpgli~Rl--~~Pk~t~lIf~s-----GKiv~tGa~S~~~a~~a~~ 73 (179)
T PRK00394 32 PEQFPGLVYRL--EDPKIAALIFRS-----GKVVCTGAKSVEDLHEAVK 73 (179)
T ss_pred cccCceEEEEe--cCCceEEEEEcC-----CcEEEEccCCHHHHHHHHH
Confidence 33444445555 677899998855 9999998777777776665
No 120
>PF03719 Ribosomal_S5_C: Ribosomal protein S5, C-terminal domain; InterPro: IPR005324 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This is a family of proteins related to the 30S ribosomal protein S5P from Sulfolobus acidocaldarius (O05641 from SWISSPROT). Ribosomal protein S5 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S5 is known to be important in the assembly and function of the 30S ribosomal subunit. Mutations in S5 have been shown to increase translational error frequencies.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2XZN_E 2XZM_E 2WDK_E 3KNJ_E 3HUY_E 2B9M_E 2Y18_E 1XMQ_E 1IBM_E 3TVF_H ....
Probab=29.31 E-value=68 Score=22.40 Aligned_cols=40 Identities=20% Similarity=0.269 Sum_probs=30.6
Q ss_pred HHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc
Q 031877 79 GQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA 122 (151)
Q Consensus 79 Ge~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~ 122 (151)
|..+-.=|...||.+|..-.. -.-...-.|+|+|++|++.
T Consensus 24 ~~~vr~il~laGI~Dv~~K~~----Gs~n~~n~v~A~~~aL~~~ 63 (74)
T PF03719_consen 24 GGAVRAILELAGIKDVYAKSR----GSRNPINVVKATFKALKNQ 63 (74)
T ss_dssp SHHHHHHHHHTTESSEEEEEE----SBSSHHHHHHHHHHHHHTS
T ss_pred chhHHHHHHhcccccEEeecc----CCCChhhHHHHHHHHHHhc
Confidence 444555577899999998887 4556677899999999863
No 121
>TIGR03821 AblA_like_1 lysine-2,3-aminomutase-related protein. Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in E. coli, Buchnera, Yersinia, etc.
Probab=29.01 E-value=1.1e+02 Score=26.27 Aligned_cols=46 Identities=24% Similarity=0.264 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHhcCccee---EeechhhccccccccchhhHHHHHHHHcCeeee
Q 031877 76 VVVGQKLGSQLREIGIDNV---MINLAEELSRPANQRIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 76 a~VGe~La~RLk~~Gi~~V---~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~ 127 (151)
.+|-+.|+..|+..|++.+ |+|=.+|+ +..+..-++.|+++||.|.
T Consensus 189 ~rit~el~~~L~~~~~~~~~~~h~dh~~Ei------~d~~~~ai~~L~~~Gi~v~ 237 (321)
T TIGR03821 189 DRITSGLCDLLANSRLQTVLVVHINHANEI------DAEVADALAKLRNAGITLL 237 (321)
T ss_pred HHhhHHHHHHHHhcCCcEEEEeeCCChHhC------cHHHHHHHHHHHHcCCEEE
Confidence 3788899999999997664 55544555 3447778888999998874
No 122
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=28.73 E-value=40 Score=26.12 Aligned_cols=35 Identities=23% Similarity=0.499 Sum_probs=27.2
Q ss_pred chhhHHHHHHHHcCeeeecccccccccccceeccc
Q 031877 110 IMVLPLFDSVRRAGVVVDGLEKLAEDRVGRRLGFC 144 (151)
Q Consensus 110 ~kV~al~dSlR~~GVkv~g~~~l~~~~~~~~~~~~ 144 (151)
|-+..+++.++..|+++.|---.+--.-|+|.||.
T Consensus 14 Tll~k~i~~l~~~~~~v~Gf~t~evr~~g~r~GF~ 48 (168)
T PF03266_consen 14 TLLKKVIEELKKKGLPVGGFYTEEVRENGRRIGFD 48 (168)
T ss_dssp HHHHHHHHHHHHTCGGEEEEEEEEEETTSSEEEEE
T ss_pred HHHHHHHHHhhccCCccceEEeecccCCCceEEEE
Confidence 34677889999999999998765555678888874
No 123
>PRK13815 ribosome-binding factor A; Provisional
Probab=28.67 E-value=73 Score=24.11 Aligned_cols=46 Identities=11% Similarity=0.134 Sum_probs=41.4
Q ss_pred hHHHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc
Q 031877 73 NTVVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA 122 (151)
Q Consensus 73 kaAa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~ 122 (151)
+|+..+-..||.||+..-+|++++-.+ ..+.|-.+|-.+|+.++..
T Consensus 68 ~a~g~iR~~l~~~l~lR~~PeL~F~~D----~s~e~~~~I~~lL~~i~~~ 113 (122)
T PRK13815 68 SARGFIRKELGKVLRMRYAPELIFKYD----ESQEYGNRIDSLLKEIGTE 113 (122)
T ss_pred HHHHHHHHHHHHhCCCeECCEEEEEEC----CChHHHHHHHHHHHHHHhc
Confidence 688889999999999999999999999 7888899999999998764
No 124
>cd02992 PDI_a_QSOX PDIa family, Quiescin-sulfhydryl oxidase (QSOX) subfamily; QSOX is a eukaryotic protein containing an N-terminal redox active TRX domain, similar to that of PDI, and a small C-terminal flavin adenine dinucleotide (FAD)-binding domain homologous to the yeast ERV1p protein. QSOX oxidizes thiol groups to disulfides like PDI, however, unlike PDI, this oxidation is accompanied by the reduction of oxygen to hydrogen peroxide. QSOX is localized in high concentrations in cells with heavy secretory load and prefers peptides and proteins as substrates, not monothiols like glutathione. Inside the cell, QSOX is found in the endoplasmic reticulum and Golgi. The flow of reducing equivalents in a QSOX-catalyzed reaction goes from the dithiol substrate - dithiol of the QSOX TRX domain - dithiols of the QSOX ERV1p domain - FAD - oxygen.
Probab=28.58 E-value=63 Score=22.92 Aligned_cols=41 Identities=12% Similarity=-0.045 Sum_probs=31.6
Q ss_pred HHHHHHHhcCcceeEeechhhc--cccccccchhhHHHHHHHHc
Q 031877 81 KLGSQLREIGIDNVMINLAEEL--SRPANQRIMVLPLFDSVRRA 122 (151)
Q Consensus 81 ~La~RLk~~Gi~~V~id~~eE~--sr~~kyr~kV~al~dSlR~~ 122 (151)
.++.++...++|.+.+--+.+. ..+.+|++-|. +++++|++
T Consensus 69 ~~~~~~~i~~~Pt~~lf~~~~~~~~~~~~~~~~~~-~~~~~~~~ 111 (114)
T cd02992 69 ALCRDFGVTGYPTLRYFPPFSKEATDGLKQEGPER-DVNELREA 111 (114)
T ss_pred HHHHhCCCCCCCEEEEECCCCccCCCCCcccCCcc-CHHHHHHH
Confidence 4566778888998766555444 77899999988 88999876
No 125
>TIGR01668 YqeG_hyp_ppase HAD superfamily (subfamily IIIA) phosphatase, TIGR01668. This family consists of sequences from fungi, plants, cyanobacteria, gram-positive bacteria and Deinococcus. There is presently no characterization of any sequence in this family.
Probab=28.46 E-value=1.3e+02 Score=22.83 Aligned_cols=47 Identities=15% Similarity=0.238 Sum_probs=33.3
Q ss_pred HHHHhcCcceeEeechhhcc--ccccccchhhHHHHHHHHcCeeeeccc
Q 031877 84 SQLREIGIDNVMINLAEELS--RPANQRIMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 84 ~RLk~~Gi~~V~id~~eE~s--r~~kyr~kV~al~dSlR~~GVkv~g~~ 130 (151)
+.|++.|+..|=+|+..=+- +...-..-+.++++.|++.|+++.-+-
T Consensus 18 ~~~~~~~v~~vv~D~Dgtl~~~~~~~~~pgv~e~L~~Lk~~g~~l~I~S 66 (170)
T TIGR01668 18 DLLKKVGIKGVVLDKDNTLVYPDHNEAYPALRDWIEELKAAGRKLLIVS 66 (170)
T ss_pred HHHHHCCCCEEEEecCCccccCCCCCcChhHHHHHHHHHHcCCEEEEEe
Confidence 34778899998888875552 232334557889999999999875543
No 126
>PRK00521 rbfA ribosome-binding factor A; Validated
Probab=27.89 E-value=85 Score=23.21 Aligned_cols=46 Identities=11% Similarity=0.127 Sum_probs=41.3
Q ss_pred hHHHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc
Q 031877 73 NTVVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA 122 (151)
Q Consensus 73 kaAa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~ 122 (151)
+++..+-..||.+|...=+|.+++-.+ ..+.|-.+|-.+|+.+...
T Consensus 71 ~~~~~iR~~la~~l~lr~~P~L~F~~D----~s~e~~~~i~~lL~~i~~~ 116 (120)
T PRK00521 71 KAAGFLRSELGKRLRLRYVPELRFVYD----ESLEYGNRIDELLRKAKKE 116 (120)
T ss_pred HhHHHHHHHHHhhCCCccCCEEEEEEC----CCHHHHHHHHHHHHHHHhh
Confidence 678899999999999888999999999 8888899999999998764
No 127
>PRK07418 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=27.46 E-value=1.1e+02 Score=27.98 Aligned_cols=44 Identities=14% Similarity=0.175 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH----cCeeeecc
Q 031877 76 VVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR----AGVVVDGL 129 (151)
Q Consensus 76 a~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~----~GVkv~g~ 129 (151)
-..|+.|+.+|+..||+.|.-..- +.+.+++|+|.+ .+|+.+..
T Consensus 19 ~~~~~~l~~~L~~~GV~~vFgipG----------~~~~~l~dal~~~~~~~~i~~i~~ 66 (616)
T PRK07418 19 ATGAYALMDSLKRHGVKHIFGYPG----------GAILPIYDELYKAEAEGWLKHILV 66 (616)
T ss_pred ccHHHHHHHHHHHcCCCEEEeCcC----------cchHHHHHHHHhcccCCCceEEEe
Confidence 356999999999999999887665 668899999965 37887765
No 128
>CHL00099 ilvB acetohydroxyacid synthase large subunit
Probab=27.33 E-value=1.1e+02 Score=27.76 Aligned_cols=43 Identities=14% Similarity=0.102 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH---c-Ceeeecc
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR---A-GVVVDGL 129 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~---~-GVkv~g~ 129 (151)
..++.|..+|+..||+.|--..- +.+.+++|+|.+ . +|+.+..
T Consensus 11 ~~~~~l~~~L~~~GV~~vFgipG----------~~~~~l~d~l~~~~~~~~i~~i~~ 57 (585)
T CHL00099 11 TGAFALIDSLVRHGVKHIFGYPG----------GAILPIYDELYAWEKKGLIKHILV 57 (585)
T ss_pred cHHHHHHHHHHHcCCCEEEeCCC----------cchHHHHHHHHhcCcCCCceEEEe
Confidence 46899999999999999988766 578899999964 2 4777654
No 129
>TIGR01515 branching_enzym alpha-1,4-glucan:alpha-1,4-glucan 6-glycosyltransferase. A sequence from Arabidopsis thaliana, GP|9294564, scores just above trusted, but appears either to contain corrupt sequence or, more likely, to be a pseudogene as some of the conserved catalytic residues common to the alpha amylase family are not conserved here.
Probab=27.33 E-value=1.4e+02 Score=27.70 Aligned_cols=52 Identities=15% Similarity=0.219 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHhcCcceeEeechhhc--cccccccc--------------hhhHHHHHHHHcCeeee
Q 031877 76 VVVGQKLGSQLREIGIDNVMINLAEEL--SRPANQRI--------------MVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 76 a~VGe~La~RLk~~Gi~~V~id~~eE~--sr~~kyr~--------------kV~al~dSlR~~GVkv~ 127 (151)
.-+-++|--.|++.||+.|++-+--|- ...-.|.+ -.+.|++.+.++||+|+
T Consensus 156 ~~i~~~l~dyl~~LGvt~i~L~Pi~e~~~~~~wGY~~~~y~~~~~~~Gt~~dlk~lV~~~H~~Gi~Vi 223 (613)
T TIGR01515 156 RELADQLIPYVKELGFTHIELLPVAEHPFDGSWGYQVTGYYAPTSRFGTPDDFMYFVDACHQAGIGVI 223 (613)
T ss_pred HHHHHHHHHHHHHcCCCEEEECCcccCCCCCCCCCCcccCcccccccCCHHHHHHHHHHHHHCCCEEE
Confidence 344577778999999999998664332 11122322 48999999999999986
No 130
>PRK10550 tRNA-dihydrouridine synthase C; Provisional
Probab=27.12 E-value=1.2e+02 Score=25.91 Aligned_cols=52 Identities=8% Similarity=0.164 Sum_probs=38.8
Q ss_pred HHHHHHHHhcCcceeEeechhhccccccccchh--hHHHHHHHHc-Ceeeeccccccc
Q 031877 80 QKLGSQLREIGIDNVMINLAEELSRPANQRIMV--LPLFDSVRRA-GVVVDGLEKLAE 134 (151)
Q Consensus 80 e~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV--~al~dSlR~~-GVkv~g~~~l~~ 134 (151)
..++.+|.+.|++.|++... .+.+.|.+.. |..+..++++ +|+|+|.-.+.+
T Consensus 151 ~~~a~~l~~~Gvd~i~Vh~R---t~~~~y~g~~~~~~~i~~ik~~~~iPVi~nGdI~t 205 (312)
T PRK10550 151 FEIADAVQQAGATELVVHGR---TKEDGYRAEHINWQAIGEIRQRLTIPVIANGEIWD 205 (312)
T ss_pred HHHHHHHHhcCCCEEEECCC---CCccCCCCCcccHHHHHHHHhhcCCcEEEeCCcCC
Confidence 47888899999999999875 2456677753 7788888774 688888655543
No 131
>TIGR02625 YiiL_rotase L-rhamnose 1-epimerase. Members of this protein family are rhamnose mutarotase from Escherichia coli, previously designated YiiL as an uncharacterized protein, and close homologs also associated with rhamnose dissimilation operons in other bacterial genomes. Mutarotase is a term for an epimerase that changes optical activity. This enzyme was shown experimentally to interconvert alpha and beta stereoisomers of the pyranose form of L-rhamnose. The crystal structure of this small (104 amino acid) protein shows a locally asymmetric dimer with active site residues of His, Tyr, and Trp.
Probab=26.83 E-value=30 Score=25.64 Aligned_cols=19 Identities=16% Similarity=0.330 Sum_probs=16.0
Q ss_pred cccchhhH-HHHHHHHcCee
Q 031877 107 NQRIMVLP-LFDSVRRAGVV 125 (151)
Q Consensus 107 kyr~kV~a-l~dSlR~~GVk 125 (151)
+.|..||| |.++||++||.
T Consensus 18 ~~H~~vWPEv~~~L~~~Gi~ 37 (102)
T TIGR02625 18 KRHNEIWPELKEVLKSHGAH 37 (102)
T ss_pred HHHHccCHHHHHHHHHCCCe
Confidence 46779997 78999999986
No 132
>smart00822 PKS_KR This enzymatic domain is part of bacterial polyketide synthases and catalyses the first step in the reductive modification of the beta-carbonyl centres in the growing polyketide chain. It uses NADPH to reduce the keto group to a hydroxy group.
Probab=25.85 E-value=1.9e+02 Score=19.51 Aligned_cols=20 Identities=25% Similarity=0.297 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHhcCcceeE
Q 031877 76 VVVGQKLGSQLREIGIDNVM 95 (151)
Q Consensus 76 a~VGe~La~RLk~~Gi~~V~ 95 (151)
.-+|.-|+..|...|...|.
T Consensus 10 ~~iG~~~~~~l~~~g~~~v~ 29 (180)
T smart00822 10 GGLGLELARWLAERGARHLV 29 (180)
T ss_pred ChHHHHHHHHHHHhhCCeEE
Confidence 45777777777777765443
No 133
>PLN02801 beta-amylase
Probab=25.85 E-value=1e+02 Score=29.52 Aligned_cols=44 Identities=27% Similarity=0.445 Sum_probs=33.8
Q ss_pred HHHHhcCcceeEeechh---hcccccccc-chhhHHHHHHHHcCeeee
Q 031877 84 SQLREIGIDNVMINLAE---ELSRPANQR-IMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 84 ~RLk~~Gi~~V~id~~e---E~sr~~kyr-~kV~al~dSlR~~GVkv~ 127 (151)
.+||..||+.|++|+== |-.-|.+|- .--++||+-+|++|.||.
T Consensus 44 ~~LK~~GVdGVmvDVWWGiVE~~~P~~YdWsgY~~l~~mvr~~GLKlq 91 (517)
T PLN02801 44 KRLKEAGVDGVMVDVWWGIVESKGPKQYDWSAYRSLFELVQSFGLKIQ 91 (517)
T ss_pred HHHHHcCCCEEEEeeeeeeeccCCCCccCcHHHHHHHHHHHHcCCeEE
Confidence 47999999999999742 223466664 345789999999999994
No 134
>COG4747 ACT domain-containing protein [General function prediction only]
Probab=25.72 E-value=73 Score=25.87 Aligned_cols=31 Identities=13% Similarity=0.314 Sum_probs=24.2
Q ss_pred cceeEeechhhccccccccchhhHHHHHHHHcCeeeec
Q 031877 91 IDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDG 128 (151)
Q Consensus 91 i~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g 128 (151)
+.+|++.++ +-.+++|.+.+.|.++||.+..
T Consensus 3 vKQISvFlE-------Nk~GRL~~~~~~L~eagINiRA 33 (142)
T COG4747 3 VKQISVFLE-------NKPGRLASVANKLKEAGINIRA 33 (142)
T ss_pred eeEEEEEec-------CCcchHHHHHHHHHHcCCceEE
Confidence 345677776 3458999999999999998754
No 135
>TIGR02402 trehalose_TreZ malto-oligosyltrehalose trehalohydrolase. Members of this family are the trehalose biosynthetic enzyme malto-oligosyltrehalose trehalohydrolase, formally known as 4-alpha-D-{(1-4)-alpha-D-glucano}trehalose trehalohydrolase (EC 3.2.1.141). It is the TreZ protein of the TreYZ pathway for trehalose biosynthesis, and alternative to the OtsAB system.
Probab=25.72 E-value=1.4e+02 Score=27.41 Aligned_cols=50 Identities=20% Similarity=0.169 Sum_probs=36.5
Q ss_pred HHHHHHHHHHhcCcceeEeechhhcc--ccccccc--------------hhhHHHHHHHHcCeeeec
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELS--RPANQRI--------------MVLPLFDSVRRAGVVVDG 128 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~s--r~~kyr~--------------kV~al~dSlR~~GVkv~g 128 (151)
|-++| ..|++.||+.|++-+=-|.. ..-.|.+ ..+.|++.+.++||+|+-
T Consensus 113 i~~~l-~yl~~LGv~~i~L~Pi~~~~~~~~~GY~~~~~~~~~~~~G~~~e~k~lV~~aH~~Gi~Vil 178 (542)
T TIGR02402 113 AIEKL-PYLADLGITAIELMPVAQFPGTRGWGYDGVLPYAPHNAYGGPDDLKALVDAAHGLGLGVIL 178 (542)
T ss_pred HHHhh-HHHHHcCCCEEEeCccccCCCCCCCCCCccCccccccccCCHHHHHHHHHHHHHCCCEEEE
Confidence 33667 79999999999887765542 2222332 389999999999999863
No 136
>KOG2900 consensus Biotin synthase [Coenzyme transport and metabolism]
Probab=25.54 E-value=71 Score=29.12 Aligned_cols=67 Identities=27% Similarity=0.448 Sum_probs=41.8
Q ss_pred HHHHHHHHHhcCccee--Eeechhhc-cccccccc--hhhHHHHHHHHcCeeee--cccccccccccceeccccc
Q 031877 79 GQKLGSQLREIGIDNV--MINLAEEL-SRPANQRI--MVLPLFDSVRRAGVVVD--GLEKLAEDRVGRRLGFCHN 146 (151)
Q Consensus 79 Ge~La~RLk~~Gi~~V--~id~~eE~-sr~~kyr~--kV~al~dSlR~~GVkv~--g~~~l~~~~~~~~~~~~~~ 146 (151)
-+--|..||+.|+++- .+|-..|- ++-+.-|+ -=+.-++-||++||+|- |.--|+|-. -.|+||-|.
T Consensus 178 ~~qQAkeLKdAGLTAYNHNlDTSREyYskvItTRtYDdRL~Ti~nvr~aGikvCsGGIlGLGE~e-~DriGliht 251 (380)
T KOG2900|consen 178 DQQQAKELKDAGLTAYNHNLDTSREYYSKVITTRTYDDRLQTIKNVREAGIKVCSGGILGLGESE-DDRIGLIHT 251 (380)
T ss_pred cHHHHHHHHhccceecccCccchhhhhcccceecchHHHHHHHHHHHHhcceecccccccccccc-cceeeeeee
Confidence 3445678999999884 45555565 55554443 23567889999999984 333344432 235677764
No 137
>COG1472 BglX Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]
Probab=25.45 E-value=67 Score=28.64 Aligned_cols=60 Identities=22% Similarity=0.472 Sum_probs=41.0
Q ss_pred cccchhHHHHHHHHHHHHHHhcCcce---eEeechhh-c-c---------ccccccchhhHHHHHHHHcCeeee
Q 031877 68 RFWDSNTVVVVGQKLGSQLREIGIDN---VMINLAEE-L-S---------RPANQRIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 68 ~~~DakaAa~VGe~La~RLk~~Gi~~---V~id~~eE-~-s---------r~~kyr~kV~al~dSlR~~GVkv~ 127 (151)
.+||.+.|-.+|+++|.-|+..||+- =.+|+..+ . . -|.---.+..+.++-|+..||--.
T Consensus 91 a~~~~~la~~~g~~~A~Elra~Gin~~fAPvlDv~~~p~~~ri~ersfgeDP~lv~~l~~a~i~Glq~~gv~at 164 (397)
T COG1472 91 ATWDPELARKVGRVIAKELRALGINLDFAPVLDVARDPRWGRIGERSFGEDPELVALLAAAFIKGLQGAGVAAT 164 (397)
T ss_pred hcCCHHHHHHHHHHHHHHHHHcCCCccccceeecccCCCcCccccccCCCCHHHHHHHHHHHHHHHhhCCceee
Confidence 35999999999999999999999854 12333322 1 1 122223567788888988887543
No 138
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=25.42 E-value=53 Score=17.09 Aligned_cols=18 Identities=28% Similarity=0.381 Sum_probs=13.5
Q ss_pred chhhHHHHHHHHcCeeee
Q 031877 110 IMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 110 ~kV~al~dSlR~~GVkv~ 127 (151)
.+.+.+|+.+++.|++.+
T Consensus 17 ~~a~~~~~~M~~~g~~p~ 34 (35)
T TIGR00756 17 EEALELFKEMLERGIEPD 34 (35)
T ss_pred HHHHHHHHHHHHcCCCCC
Confidence 457788888888887653
No 139
>cd06597 GH31_transferase_CtsY CtsY (cyclic tetrasaccharide-synthesizing enzyme Y) is a bacterial 3-alpha-isomaltosyltransferase, first identified in Arthrobacter globiformis, that produces cyclic tetrasaccharides together with a closely related enzyme CtsZ. CtsY and CtsZ both have a glycosyl hydrolase family 31 (GH31) catalytic domain. All GH31 enzymes cleave a terminal carbohydrate moiety from a substrate that varies considerably in size, depending on the enzyme, and may be either a starch or a glycoprotein.
Probab=25.21 E-value=1.5e+02 Score=25.45 Aligned_cols=53 Identities=23% Similarity=0.177 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHhcCcce--eEeec----------------hhhccccccccc----------hhhHHHHHHHHcCee
Q 031877 74 TVVVVGQKLGSQLREIGIDN--VMINL----------------AEELSRPANQRI----------MVLPLFDSVRRAGVV 125 (151)
Q Consensus 74 aAa~VGe~La~RLk~~Gi~~--V~id~----------------~eE~sr~~kyr~----------kV~al~dSlR~~GVk 125 (151)
..+.| +-++.++++.|||- |++|. ++.-.+++.+.. ....+++.|++.|++
T Consensus 22 ~~~ev-~~v~~~~~~~~iP~d~i~lD~W~~~~~~~~w~d~~y~~~~~~~~~~~~~~~f~~~~~FPdp~~mi~~Lh~~G~k 100 (340)
T cd06597 22 TQAEV-MRQMDAHEEHGIPVTVVVIEQWSDEATFYVFNDAQYTPKDGGAPLSYDDFSFPVEGRWPNPKGMIDELHEQGVK 100 (340)
T ss_pred CHHHH-HHHHHHHHHcCCCeeEEEEecccCcceeeeeccchhcccccCCcceecccccCccccCCCHHHHHHHHHHCCCE
Confidence 44455 56788999999854 77761 111133444442 368999999999999
Q ss_pred ee
Q 031877 126 VD 127 (151)
Q Consensus 126 v~ 127 (151)
+.
T Consensus 101 v~ 102 (340)
T cd06597 101 VL 102 (340)
T ss_pred EE
Confidence 95
No 140
>PF08973 TM1506: Domain of unknown function (DUF1893); InterPro: IPR015067 This family consist of hypothetical bacterial proteins. ; PDB: 1VK9_A.
Probab=25.21 E-value=1e+02 Score=24.11 Aligned_cols=63 Identities=22% Similarity=0.229 Sum_probs=40.9
Q ss_pred cchh-HHHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecccccccccccceeccc
Q 031877 70 WDSN-TVVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLEKLAEDRVGRRLGFC 144 (151)
Q Consensus 70 ~Dak-aAa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~~l~~~~~~~~~~~~ 144 (151)
-|+. |..+||+--|.-+-..||..||.++= | .+-++=|+++||++.=.++.+-|.---.-|.|
T Consensus 46 ~ga~vaDKvvGKAAA~lmv~ggv~~vyA~vi---S---------~~Al~~L~~~gI~v~y~~~Vp~I~NR~~tg~C 109 (134)
T PF08973_consen 46 KGAVVADKVVGKAAAALMVLGGVKEVYADVI---S---------EPALDLLEEAGIKVSYDELVPYIINRDGTGMC 109 (134)
T ss_dssp TT-EEEEEEE-HHHHHHHHHH--SEEEEEEE---E---------HHHHHHHHHTT--EEEEEEESS-B-SSSSSB-
T ss_pred hcccHHHHHHhHHHHHHHHHhcHHHHHHHHH---h---------HHHHHHHHHcCCceeHhhhhhhhccCCCCCCC
Confidence 4444 44567998888899999999999875 2 34578899999999998888888743345666
No 141
>PRK13238 tnaA tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional
Probab=25.20 E-value=2.1e+02 Score=25.58 Aligned_cols=65 Identities=17% Similarity=0.109 Sum_probs=38.9
Q ss_pred HHHHHHHHhcCcce--------eEeechhhc-cc-cccccchhhHHHHHHHHcCeeeecccc--------cc----cccc
Q 031877 80 QKLGSQLREIGIDN--------VMINLAEEL-SR-PANQRIMVLPLFDSVRRAGVVVDGLEK--------LA----EDRV 137 (151)
Q Consensus 80 e~La~RLk~~Gi~~--------V~id~~eE~-sr-~~kyr~kV~al~dSlR~~GVkv~g~~~--------l~----~~~~ 137 (151)
+.|+..|++.|++- |.+|+.+-+ .- +..|-. .--...-++++||-+....- .+ ...-
T Consensus 326 ~~l~~~L~~~G~~~~~p~Gg~~v~~d~~~~~~~~~~~~~~~-~~~a~~L~~e~GV~~~~~~~f~~~~~~~~~~~~~~~~~ 404 (460)
T PRK13238 326 EYLGEGLEEAGVPIQTPAGGHAVFVDAGKFLPHIPAEQFPA-QALACELYLEAGIRGVEIGSLLLGRDPKTGEQLPAPAE 404 (460)
T ss_pred HHHHHHHHHCCCCeEccCCceEEEEEchhcCCCCCCCCCch-HHHHHHHHHHcCeeeecccceecccCCCCccccCCccc
Confidence 67888899999865 778986432 11 122222 22334556899999865332 11 1235
Q ss_pred cceecccc
Q 031877 138 GRRLGFCH 145 (151)
Q Consensus 138 ~~~~~~~~ 145 (151)
+=||+||-
T Consensus 405 ~~Rla~~r 412 (460)
T PRK13238 405 LLRLAIPR 412 (460)
T ss_pred eEEEeccc
Confidence 66899983
No 142
>PF07485 DUF1529: Domain of Unknown Function (DUF1259); InterPro: IPR011094 This family is the lppY/lpqO homologue family. They are related to 'probable conserved lipoproteins' LppY and LpqO from Mycobacterium bovis.
Probab=24.88 E-value=54 Score=25.26 Aligned_cols=21 Identities=29% Similarity=0.502 Sum_probs=17.6
Q ss_pred chhhHHHHHHHHcCeeeeccc
Q 031877 110 IMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 110 ~kV~al~dSlR~~GVkv~g~~ 130 (151)
..|-|++++||++||.|...-
T Consensus 68 ~EV~pvi~aL~~~GI~vtAlH 88 (123)
T PF07485_consen 68 DEVNPVISALRKNGIEVTALH 88 (123)
T ss_pred HHHHHHHHHHHHCCceEEEEe
Confidence 357899999999999997653
No 143
>PRK00164 moaA molybdenum cofactor biosynthesis protein A; Reviewed
Probab=24.67 E-value=1.4e+02 Score=24.75 Aligned_cols=43 Identities=26% Similarity=0.383 Sum_probs=29.6
Q ss_pred HHHHHHHhcCcceeEeech---hhc----cccccccchhhHHHHHHHHcCe
Q 031877 81 KLGSQLREIGIDNVMINLA---EEL----SRPANQRIMVLPLFDSVRRAGV 124 (151)
Q Consensus 81 ~La~RLk~~Gi~~V~id~~---eE~----sr~~kyr~kV~al~dSlR~~GV 124 (151)
..+.+|++.|++.|.|.++ +|. .++ ..-.+|+.-++.+++.|+
T Consensus 109 ~~~~~L~~agl~~i~ISlds~~~e~~~~i~~~-~~~~~vl~~i~~~~~~g~ 158 (331)
T PRK00164 109 RRAAALKDAGLDRVNVSLDSLDPERFKAITGR-DRLDQVLAGIDAALAAGL 158 (331)
T ss_pred HHHHHHHHcCCCEEEEEeccCCHHHhccCCCC-CCHHHHHHHHHHHHHCCC
Confidence 3567899999998777663 333 222 334577888888888887
No 144
>COG1893 ApbA Ketopantoate reductase [Coenzyme metabolism]
Probab=24.27 E-value=1.5e+02 Score=25.27 Aligned_cols=43 Identities=16% Similarity=0.404 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeecccc
Q 031877 75 VVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLEK 131 (151)
Q Consensus 75 Aa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~~ 131 (151)
|-.||-.+|-+|...| ..|.+.... +=.+++++.|+.+.+.+.
T Consensus 8 aGAvG~l~g~~L~~~g-~~V~~~~R~-------------~~~~~l~~~GL~i~~~~~ 50 (307)
T COG1893 8 AGAIGSLLGARLAKAG-HDVTLLVRS-------------RRLEALKKKGLRIEDEGG 50 (307)
T ss_pred CcHHHHHHHHHHHhCC-CeEEEEecH-------------HHHHHHHhCCeEEecCCC
Confidence 4568999999999999 899988871 126788999999988766
No 145
>PRK13817 ribosome-binding factor A; Provisional
Probab=24.23 E-value=1e+02 Score=23.19 Aligned_cols=46 Identities=4% Similarity=-0.036 Sum_probs=40.5
Q ss_pred hHHHHHHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc
Q 031877 73 NTVVVVGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA 122 (151)
Q Consensus 73 kaAa~VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~ 122 (151)
+|+--+-..||.||+..-+|++++-.+ ..+.|-.+|-.||+.+...
T Consensus 67 ~a~g~iR~~l~~~l~lR~~PeL~F~~D----~s~e~~~~I~~Ll~~l~~~ 112 (119)
T PRK13817 67 KATGYLRHLLAQATVLRYVPKLEFVYD----ESIERAHRISLLIERALKK 112 (119)
T ss_pred HhHHHHHHHHHHhCCCeECCEEEEEEc----CchHHHHHHHHHHHHHHhc
Confidence 577788899999999999999999999 8888889999999988643
No 146
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=24.13 E-value=1.1e+02 Score=22.67 Aligned_cols=48 Identities=17% Similarity=0.212 Sum_probs=32.8
Q ss_pred HHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCeeeeccc
Q 031877 79 GQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVVVDGLE 130 (151)
Q Consensus 79 Ge~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~g~~ 130 (151)
-+.|..=+++.|++.|+++-. .+...+.....|-+.+.+.||++.-.+
T Consensus 77 ~~~l~~l~~~~~~~~V~~~~~----~~~~~~~rd~~v~~~l~~~~i~~~~~~ 124 (165)
T PF00875_consen 77 EEVLPELAKEYGATAVYFNEE----YTPYERRRDERVRKALKKHGIKVHTFD 124 (165)
T ss_dssp HHHHHHHHHHHTESEEEEE-------SHHHHHHHHHHHHHHHHTTSEEEEE-
T ss_pred HHHHHHHHHhcCcCeeEeccc----cCHHHHHHHHHHHHHHHhcceEEEEEC
Confidence 345555567788999998866 555566677788888899999986544
No 147
>PRK03562 glutathione-regulated potassium-efflux system protein KefC; Provisional
Probab=24.06 E-value=1.5e+02 Score=27.68 Aligned_cols=26 Identities=19% Similarity=0.302 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHhcCcceeEeechhh
Q 031877 76 VVVGQKLGSQLREIGIDNVMINLAEE 101 (151)
Q Consensus 76 a~VGe~La~RLk~~Gi~~V~id~~eE 101 (151)
-++|+.++..|+..|++-+=+|.++|
T Consensus 409 Gr~G~~va~~L~~~g~~vvvID~d~~ 434 (621)
T PRK03562 409 GRFGQIVGRLLLSSGVKMTVLDHDPD 434 (621)
T ss_pred ChHHHHHHHHHHhCCCCEEEEECCHH
Confidence 46899999999999999988998854
No 148
>PRK10795 penicillin-binding protein 2; Provisional
Probab=24.06 E-value=68 Score=29.84 Aligned_cols=22 Identities=27% Similarity=0.407 Sum_probs=19.5
Q ss_pred ceeEEEeecCCCCCCceEEEeeccc
Q 031877 24 RKITAQVSDTASAGSSTIVALASSS 48 (151)
Q Consensus 24 k~ITAqVv~~~~~~tstIVA~ASS~ 48 (151)
+...+-|+|+ .||.|+||||..
T Consensus 270 ~~ga~Vvmdp---~TGeILAmas~P 291 (634)
T PRK10795 270 SRAAVVVTDP---RTGGILALVSTP 291 (634)
T ss_pred CceEEEEEEC---CCCcEEEEEecC
Confidence 5678999999 999999999964
No 149
>cd02809 alpha_hydroxyacid_oxid_FMN Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate dehydrogenase (MDH), and long chain hydroxyacid oxidase (LCHAO). In green plants, glycolate oxidase is one of the key enzymes in photorespiration where it oxidizes glycolate to glyoxylate. LMO catalyzes the oxidation of L-lactate to acetate and carbon dioxide. MDH oxidizes (S)-mandelate to phenylglyoxalate. It is an enzyme in the mandelate pathway that occurs in several strains of Pseudomonas which converts (R)-mandelate to benzoate.
Probab=24.02 E-value=1.6e+02 Score=24.48 Aligned_cols=43 Identities=12% Similarity=0.108 Sum_probs=29.7
Q ss_pred HHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHc-Ceeee
Q 031877 81 KLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRA-GVVVD 127 (151)
Q Consensus 81 ~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~-GVkv~ 127 (151)
.+..++.+.|++.|.++++ =|..-....|..+..+++. +++|+
T Consensus 133 ~~i~~~~~~g~~~i~l~~~----~p~~~~~~~~~~i~~l~~~~~~pvi 176 (299)
T cd02809 133 DLLRRAEAAGYKALVLTVD----TPVLGRRLTWDDLAWLRSQWKGPLI 176 (299)
T ss_pred HHHHHHHHcCCCEEEEecC----CCCCCCCCCHHHHHHHHHhcCCCEE
Confidence 3457778889999888776 3432223688888888876 66654
No 150
>TIGR00736 nifR3_rel_arch TIM-barrel protein, putative. Members of this family show a distant relationship by PSI-BLAST to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. At least two closely related but well-separable families among the bacteria, the nifR3/yhdG family and the yjbN family, share a more distant relationship to this family of shorter, exclusively archaeal proteins.
Probab=23.87 E-value=1.4e+02 Score=24.96 Aligned_cols=42 Identities=12% Similarity=0.123 Sum_probs=32.0
Q ss_pred HHHHHHHhcCcceeEeechhhccccccccc---hhhHHHHHHHHc--Ceeeeccc
Q 031877 81 KLGSQLREIGIDNVMINLAEELSRPANQRI---MVLPLFDSVRRA--GVVVDGLE 130 (151)
Q Consensus 81 ~La~RLk~~Gi~~V~id~~eE~sr~~kyr~---kV~al~dSlR~~--GVkv~g~~ 130 (151)
.++.+|.+.|++.|+||.. |.+ -=|..+..++++ .|+|+|.-
T Consensus 152 ~~a~~l~~aGad~i~Vd~~--------~~g~~~a~~~~I~~i~~~~~~ipIIgNG 198 (231)
T TIGR00736 152 IDALNLVDDGFDGIHVDAM--------YPGKPYADMDLLKILSEEFNDKIIIGNN 198 (231)
T ss_pred HHHHHHHHcCCCEEEEeeC--------CCCCchhhHHHHHHHHHhcCCCcEEEEC
Confidence 7888999999999999742 222 358888888887 48888853
No 151
>PF13200 DUF4015: Putative glycosyl hydrolase domain
Probab=23.54 E-value=1.7e+02 Score=25.81 Aligned_cols=48 Identities=13% Similarity=0.173 Sum_probs=34.1
Q ss_pred HHHHHHHhcCcceeEeechhhc---------------cccccccchhhHHHHHHHHcCeeeec
Q 031877 81 KLGSQLREIGIDNVMINLAEEL---------------SRPANQRIMVLPLFDSVRRAGVVVDG 128 (151)
Q Consensus 81 ~La~RLk~~Gi~~V~id~~eE~---------------sr~~kyr~kV~al~dSlR~~GVkv~g 128 (151)
.+-.-++.-|+++|-||+|.+- .-...+=.-+.+++..|+++||-+++
T Consensus 17 ~~~~~i~~t~lNavVIDvKdd~G~i~y~s~~~~~~~~ga~~~~i~D~~~l~~~l~e~gIY~IA 79 (316)
T PF13200_consen 17 KLLDLIKRTELNAVVIDVKDDDGNITYDSQVPLAREIGAVKPYIKDLKALVKKLKEHGIYPIA 79 (316)
T ss_pred HHHHHHHhcCCceEEEEEecCCceEEecCCCchhhhcccccccccCHHHHHHHHHHCCCEEEE
Confidence 4445678889999999988542 11112225678899999999998876
No 152
>PLN02161 beta-amylase
Probab=23.21 E-value=1.2e+02 Score=29.14 Aligned_cols=45 Identities=18% Similarity=0.269 Sum_probs=34.2
Q ss_pred HHHHhcCcceeEeechh---hcccccccc-chhhHHHHHHHHcCeeeec
Q 031877 84 SQLREIGIDNVMINLAE---ELSRPANQR-IMVLPLFDSVRRAGVVVDG 128 (151)
Q Consensus 84 ~RLk~~Gi~~V~id~~e---E~sr~~kyr-~kV~al~dSlR~~GVkv~g 128 (151)
..||..||+.|++|+== |=.-|.+|- .--+.||+-+|++|.||.-
T Consensus 124 ~~LK~~GVdGVmvDVWWGiVE~~~p~~YdWsgY~~l~~mvr~~GLKlq~ 172 (531)
T PLN02161 124 KALKLAGVHGIAVEVWWGIVERFSPLEFKWSLYEELFRLISEAGLKLHV 172 (531)
T ss_pred HHHHHcCCCEEEEEeeeeeeecCCCCcCCcHHHHHHHHHHHHcCCeEEE
Confidence 57899999999999742 223566654 3457899999999999864
No 153
>PRK11024 colicin uptake protein TolR; Provisional
Probab=23.18 E-value=1.9e+02 Score=21.58 Aligned_cols=42 Identities=14% Similarity=0.135 Sum_probs=28.5
Q ss_pred HHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHHcCee
Q 031877 79 GQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRRAGVV 125 (151)
Q Consensus 79 Ge~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVk 125 (151)
.+.|...++...=..|.+..+ +...|. .|-.++|.+|++|+.
T Consensus 91 ~~~l~~~~~~~~~~~V~i~aD----~~~~~~-~vv~vmd~~k~aG~~ 132 (141)
T PRK11024 91 VAEAKSRFKANPKTVFLIGGA----KDVPYD-EIIKALNLLHSAGVK 132 (141)
T ss_pred HHHHHHHHhhCCCceEEEEcC----CCCCHH-HHHHHHHHHHHcCCC
Confidence 344555444444345888888 444443 788999999999985
No 154
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=23.11 E-value=2.9e+02 Score=22.12 Aligned_cols=41 Identities=20% Similarity=0.327 Sum_probs=27.9
Q ss_pred cccCceeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhcc
Q 031877 10 QKYPRYLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYH 57 (151)
Q Consensus 10 ~~~~~yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e 57 (151)
.+|+-=++|| ..-+.|+.|-.. |.|+++...+|.+.+...+
T Consensus 34 ~~fpgli~Rl--~~Pk~t~lIF~S-----GKiv~tGaks~~~a~~a~~ 74 (174)
T cd04518 34 DQFPGLVYRL--EDPKIAALIFRS-----GKMVCTGAKSVEDLHRAVK 74 (174)
T ss_pred CcCcEEEEEc--cCCcEEEEEECC-----CeEEEEccCCHHHHHHHHH
Confidence 3344445555 466788888755 9999998777776666555
No 155
>TIGR02801 tolR TolR protein. The model describes the inner membrane protein TolR, part of the TolR/TolQ complex that transduces energy from the proton-motive force, through TolA, to an outer membrane complex made up of TolB and Pal (peptidoglycan-associated lipoprotein). The complex is required to maintain outer membrane integrity, and defects may cause a defect in the import of some organic compounds in addition to the resulting morphologic. While several gene pairs homologous to talR and tolQ may be found in a single genome, but the scope of this model is set to favor finding only bone fide TolR, supported by operon structure as well as by score.
Probab=22.82 E-value=2.1e+02 Score=20.69 Aligned_cols=29 Identities=17% Similarity=0.268 Sum_probs=22.6
Q ss_pred ceeEeechhhccccccccchhhHHHHHHHHcCee
Q 031877 92 DNVMINLAEELSRPANQRIMVLPLFDSVRRAGVV 125 (151)
Q Consensus 92 ~~V~id~~eE~sr~~kyr~kV~al~dSlR~~GVk 125 (151)
..|.+..++ ...| +.|-.++|.+|++|+.
T Consensus 94 ~~v~i~aD~----~~~~-~~vv~vmd~~~~~G~~ 122 (129)
T TIGR02801 94 TPVLIRADK----TVPY-GEVIKVMALLKQAGIE 122 (129)
T ss_pred ceEEEEcCC----CCCH-HHHHHHHHHHHHcCCC
Confidence 458899884 4444 4688999999999985
No 156
>PRK08508 biotin synthase; Provisional
Probab=22.54 E-value=1.1e+02 Score=25.25 Aligned_cols=49 Identities=16% Similarity=0.135 Sum_probs=30.9
Q ss_pred HHHHHHHHHhcCcceeEeech--hhccccc---cccchhhHHHHHHHHcCeeee
Q 031877 79 GQKLGSQLREIGIDNVMINLA--EELSRPA---NQRIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 79 Ge~La~RLk~~Gi~~V~id~~--eE~sr~~---kyr~kV~al~dSlR~~GVkv~ 127 (151)
-+-...+||+.|++.++++++ +|+-+.. +--..++..+.-.++.|+++.
T Consensus 101 ~~e~l~~Lk~aGld~~~~~lEt~~~~~~~i~~~~~~~~~l~~i~~a~~~Gi~v~ 154 (279)
T PRK08508 101 SVEQLKELKKAGIFSYNHNLETSKEFFPKICTTHTWEERFQTCENAKEAGLGLC 154 (279)
T ss_pred CHHHHHHHHHcCCCEEcccccchHHHhcCCCCCCCHHHHHHHHHHHHHcCCeec
Confidence 366778999999999887654 2321111 111235556667889998863
No 157
>PF01373 Glyco_hydro_14: Glycosyl hydrolase family 14; InterPro: IPR001554 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 14 GH14 from CAZY comprises enzymes with only one known activity; beta-amylase (3.2.1.2 from EC). A Glu residue has been proposed as a catalytic residue, but it is not known if it is the nucleophile or the proton donor. Beta-amylase [, ] is an enzyme that hydrolyses 1,4-alpha-glucosidic linkages in starch-type polysaccharide substrates so as to remove successive maltose units from the non-reducing ends of the chains. Beta-amylase is present in certain bacteria as well as in plants. Three highly conserved sequence regions are found in all known beta-amylases. The first of these regions is located in the N-terminal section of the enzymes and contains an aspartate which is known [] to be involved in the catalytic mechanism. The second, located in a more central location, is centred around a glutamate which is also involved [] in the catalytic mechanism. The 3D structure of a complex of soybean beta-amylase with an inhibitor (alpha-cyclodextrin) has been determined to 3.0A resolution by X-ray diffraction []. The enzyme folds into large and small domains: the large domain has a (beta alpha)8 super-secondary structural core, while the smaller is formed from two long loops extending from the beta-3 and beta-4 strands of the (beta alpha)8 fold []. The interface of the two domains, together with shorter loops from the (beta alpha)8 core, form a deep cleft, in which the inhibitor binds []. Two maltose molecules also bind in the cleft, one sharing a binding site with alpha-cyclodextrin, and the other sitting more deeply in the cleft [].; GO: 0016161 beta-amylase activity, 0000272 polysaccharide catabolic process; PDB: 1FA2_A 2DQX_A 1WDP_A 1UKP_C 1BYC_A 1BYA_A 1Q6C_A 1V3I_A 1BTC_A 1BYB_A ....
Probab=22.30 E-value=1.3e+02 Score=27.84 Aligned_cols=45 Identities=29% Similarity=0.382 Sum_probs=32.3
Q ss_pred HHHHhcCcceeEeechh---hcccccccc-chhhHHHHHHHHcCeeeec
Q 031877 84 SQLREIGIDNVMINLAE---ELSRPANQR-IMVLPLFDSVRRAGVVVDG 128 (151)
Q Consensus 84 ~RLk~~Gi~~V~id~~e---E~sr~~kyr-~kV~al~dSlR~~GVkv~g 128 (151)
.+||..||+.|++|+== |-..|.+|- .--++|++-+|++|.||.-
T Consensus 23 ~~LK~~GV~GVmvdvWWGiVE~~~p~~ydWs~Y~~l~~~vr~~GLk~~~ 71 (402)
T PF01373_consen 23 RALKSAGVDGVMVDVWWGIVEGEGPQQYDWSGYRELFEMVRDAGLKLQV 71 (402)
T ss_dssp HHHHHTTEEEEEEEEEHHHHTGSSTTB---HHHHHHHHHHHHTT-EEEE
T ss_pred HHHHHcCCcEEEEEeEeeeeccCCCCccCcHHHHHHHHHHHHcCCeEEE
Confidence 47999999999999732 223466664 3357899999999999864
No 158
>PF11871 DUF3391: Domain of unknown function (DUF3391); InterPro: IPR021812 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is typically between 122 to 139 amino acids in length. This domain is found associated with PF01966 from PFAM.
Probab=21.74 E-value=77 Score=22.42 Aligned_cols=19 Identities=32% Similarity=0.562 Sum_probs=16.5
Q ss_pred HHHHhcCcceeEeechhhc
Q 031877 84 SQLREIGIDNVMINLAEEL 102 (151)
Q Consensus 84 ~RLk~~Gi~~V~id~~eE~ 102 (151)
.+|+..||..|.||..+..
T Consensus 42 ~~L~~~gi~~V~Id~~k~~ 60 (128)
T PF11871_consen 42 EKLRRLGIQEVYIDPDKSR 60 (128)
T ss_pred HHHHHCCCcEEEEECCCCc
Confidence 5699999999999998664
No 159
>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=21.67 E-value=1.3e+02 Score=24.28 Aligned_cols=44 Identities=20% Similarity=0.267 Sum_probs=31.5
Q ss_pred HHHHHHHHHHhcCcceeEeechhhccccccccchhhHHHHHHHH-cCeeeecccccccc
Q 031877 78 VGQKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLFDSVRR-AGVVVDGLEKLAED 135 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~dSlR~-~GVkv~g~~~l~~~ 135 (151)
=|..++..|...||+-..+... ++..-+++ .-..+.|+|-+-+.
T Consensus 146 eG~~~a~~L~~~gi~v~~i~d~--------------~~~~~m~~~vd~VliGad~v~~n 190 (282)
T PF01008_consen 146 EGRLMAKELAEAGIPVTLIPDS--------------AVGYVMPRDVDKVLIGADAVLAN 190 (282)
T ss_dssp HHHTHHHHHHHTT-EEEEE-GG--------------GHHHHHHCTESEEEEE-SEEETT
T ss_pred hhhhHHHHhhhcceeEEEEech--------------HHHHHHHHhCCeeEEeeeEEecC
Confidence 3788999999999987666555 67777888 88889998876543
No 160
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=21.32 E-value=71 Score=17.00 Aligned_cols=15 Identities=40% Similarity=0.709 Sum_probs=9.3
Q ss_pred hhhHHHHHHHHcCee
Q 031877 111 MVLPLFDSVRRAGVV 125 (151)
Q Consensus 111 kV~al~dSlR~~GVk 125 (151)
.++.+|+-+++.||+
T Consensus 19 ~a~~~~~~M~~~gv~ 33 (34)
T PF13812_consen 19 AALQLFDEMKEQGVK 33 (34)
T ss_pred HHHHHHHHHHHhCCC
Confidence 356666666666653
No 161
>PLN02803 beta-amylase
Probab=21.19 E-value=1.4e+02 Score=28.76 Aligned_cols=45 Identities=22% Similarity=0.283 Sum_probs=34.1
Q ss_pred HHHHhcCcceeEeechh---hcccccccc-chhhHHHHHHHHcCeeeec
Q 031877 84 SQLREIGIDNVMINLAE---ELSRPANQR-IMVLPLFDSVRRAGVVVDG 128 (151)
Q Consensus 84 ~RLk~~Gi~~V~id~~e---E~sr~~kyr-~kV~al~dSlR~~GVkv~g 128 (151)
..||..||+.|++|+== |=.-|.+|- .--+.||+-+|++|.||.-
T Consensus 114 ~~LK~~GVdGVmvDVWWGiVE~~~p~~YdWsgY~~l~~mvr~~GLKlq~ 162 (548)
T PLN02803 114 MALRSAGVEGVMVDAWWGLVEKDGPMKYNWEGYAELVQMVQKHGLKLQV 162 (548)
T ss_pred HHHHHcCCCEEEEEeeeeeeccCCCCcCCcHHHHHHHHHHHHcCCeEEE
Confidence 47899999999999742 223466664 3457899999999999864
No 162
>PRK15108 biotin synthase; Provisional
Probab=21.00 E-value=1.6e+02 Score=25.33 Aligned_cols=48 Identities=25% Similarity=0.275 Sum_probs=29.7
Q ss_pred HHHHHHHHhcCcceeEeechh--hccccc---cccchhhHHHHHHHHcCeeee
Q 031877 80 QKLGSQLREIGIDNVMINLAE--ELSRPA---NQRIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 80 e~La~RLk~~Gi~~V~id~~e--E~sr~~---kyr~kV~al~dSlR~~GVkv~ 127 (151)
+--..+||+.|++.++++++- +.=..+ +.-..++..++.+++.|+++-
T Consensus 136 ~e~l~~LkeAGld~~n~~leT~p~~f~~I~~~~~~~~rl~~i~~a~~~G~~v~ 188 (345)
T PRK15108 136 ESQAQRLANAGLDYYNHNLDTSPEFYGNIITTRTYQERLDTLEKVRDAGIKVC 188 (345)
T ss_pred HHHHHHHHHcCCCEEeeccccChHhcCCCCCCCCHHHHHHHHHHHHHcCCcee
Confidence 555678999999998887764 110111 111235566666677798764
No 163
>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends. Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].
Probab=20.99 E-value=59 Score=25.62 Aligned_cols=19 Identities=26% Similarity=0.686 Sum_probs=16.3
Q ss_pred ccchhhHHHHHHHHcCeee
Q 031877 108 QRIMVLPLFDSVRRAGVVV 126 (151)
Q Consensus 108 yr~kV~al~dSlR~~GVkv 126 (151)
..-+|-|++.||+|+||.+
T Consensus 40 d~N~I~~lYqslkRN~i~l 58 (120)
T PF08579_consen 40 DYNIINPLYQSLKRNGITL 58 (120)
T ss_pred chHHHHHHHHHHHhcCCCC
Confidence 3458999999999999965
No 164
>PRK05402 glycogen branching enzyme; Provisional
Probab=20.75 E-value=2.2e+02 Score=27.08 Aligned_cols=53 Identities=17% Similarity=0.115 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHhcCcceeEeechhhc--cccccccc--------------hhhHHHHHHHHcCeeeec
Q 031877 76 VVVGQKLGSQLREIGIDNVMINLAEEL--SRPANQRI--------------MVLPLFDSVRRAGVVVDG 128 (151)
Q Consensus 76 a~VGe~La~RLk~~Gi~~V~id~~eE~--sr~~kyr~--------------kV~al~dSlR~~GVkv~g 128 (151)
.-+.++|--.||+.|++.|++.+=-|- ...-.|.+ -.+.|++.+.++||+|+-
T Consensus 265 ~~i~~~l~~ylk~LGv~~i~L~Pi~e~~~~~~~GY~~~~y~ai~~~~Gt~~dfk~lV~~~H~~Gi~Vil 333 (726)
T PRK05402 265 RELADQLIPYVKEMGFTHVELLPIAEHPFDGSWGYQPTGYYAPTSRFGTPDDFRYFVDACHQAGIGVIL 333 (726)
T ss_pred HHHHHHHHHHHHHcCCCEEEECCcccCCCCCCCCCCcccCCCcCcccCCHHHHHHHHHHHHHCCCEEEE
Confidence 345577777899999999998875442 11112222 389999999999999863
No 165
>cd01948 EAL EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.
Probab=20.59 E-value=1.7e+02 Score=21.75 Aligned_cols=48 Identities=19% Similarity=0.266 Sum_probs=36.0
Q ss_pred HHHHHHHHHHhcCcce--eEeechhhccccccccchhhHHHHHHHHcCeeee
Q 031877 78 VGQKLGSQLREIGIDN--VMINLAEELSRPANQRIMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 78 VGe~La~RLk~~Gi~~--V~id~~eE~sr~~kyr~kV~al~dSlR~~GVkv~ 127 (151)
..+.+...|+..+++. +.+.+.|+. ..++...+.+.+..+++.|+++.
T Consensus 100 ~~~~~~~~l~~~~~~~~~l~iei~e~~--~~~~~~~~~~~~~~l~~~G~~l~ 149 (240)
T cd01948 100 FLDRLLELLAETGLPPRRLVLEITESA--LIDDLEEALATLRRLRALGVRIA 149 (240)
T ss_pred HHHHHHHHHHHcCCCHHHEEEEEecch--hhCCHHHHHHHHHHHHHCCCeEE
Confidence 4566777888889874 888887654 22334468999999999999875
No 166
>PRK09441 cytoplasmic alpha-amylase; Reviewed
Probab=20.55 E-value=2.1e+02 Score=25.36 Aligned_cols=50 Identities=22% Similarity=0.216 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHhcCcceeEeechhhc-c-------cccccc------------------chhhHHHHHHHHcCeeee
Q 031877 77 VVGQKLGSQLREIGIDNVMINLAEEL-S-------RPANQR------------------IMVLPLFDSVRRAGVVVD 127 (151)
Q Consensus 77 ~VGe~La~RLk~~Gi~~V~id~~eE~-s-------r~~kyr------------------~kV~al~dSlR~~GVkv~ 127 (151)
-|=++| --|+..|+++|.+.+-=|- + -+..|. .-.+.|++++.++||+|+
T Consensus 23 ~I~~kl-dyl~~LGvtaIwl~P~~~~~~~~~~hgY~~~D~~~~~~~~~~~~id~~fGt~~dl~~Li~~~H~~Gi~vi 98 (479)
T PRK09441 23 RLAERA-PELAEAGITAVWLPPAYKGTSGGYDVGYGVYDLFDLGEFDQKGTVRTKYGTKEELLNAIDALHENGIKVY 98 (479)
T ss_pred HHHHHH-HHHHHcCCCEEEeCCCccCCCCCCCCCCCeecccccccccccCCcCcCcCCHHHHHHHHHHHHHCCCEEE
Confidence 466777 5899999999988875432 1 012221 138999999999999975
No 167
>TIGR02263 benz_CoA_red_C benzoyl-CoA reductase, subunit C. This model describes C subunit of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA. This enzyme acts under anaerobic conditions.
Probab=20.54 E-value=90 Score=27.16 Aligned_cols=46 Identities=13% Similarity=0.250 Sum_probs=24.2
Q ss_pred HHHHHHHHhcCcceeEeechhhccccccccchhhHHH-HHHHHcCeeeecc
Q 031877 80 QKLGSQLREIGIDNVMINLAEELSRPANQRIMVLPLF-DSVRRAGVVVDGL 129 (151)
Q Consensus 80 e~La~RLk~~Gi~~V~id~~eE~sr~~kyr~kV~al~-dSlR~~GVkv~g~ 129 (151)
+.|-...++-+++.|=.... +.=+....-.+.+ +.|++.||++.-.
T Consensus 311 ~~i~~lvke~~aDGVI~~~~----~~C~~~~~e~~~lk~~l~e~GIP~L~i 357 (380)
T TIGR02263 311 KYLLDQVRKNAAEGVIFAAP----SFCDPALLERPMLAARCKEHGIPQIAF 357 (380)
T ss_pred HHHHHHHHHhCCCEEEEhHh----hcCChhhhhHHHHHHHHHHCCCCEEEE
Confidence 44445555556666544444 4444444444443 6667777765444
No 168
>PF14789 THDPS_M: Tetrahydrodipicolinate N-succinyltransferase middle; PDB: 3R5A_F 3R5B_A 3R5C_B 3R5D_D 3FSY_C 3FSX_A 2RIJ_A.
Probab=20.37 E-value=57 Score=21.27 Aligned_cols=17 Identities=24% Similarity=0.403 Sum_probs=10.8
Q ss_pred HHHHHcC--eeeecccccc
Q 031877 117 DSVRRAG--VVVDGLEKLA 133 (151)
Q Consensus 117 dSlR~~G--Vkv~g~~~l~ 133 (151)
-++|..| +.|.++||.+
T Consensus 22 ~~lr~~g~~~~V~~VDKFP 40 (41)
T PF14789_consen 22 LRLRARGRPLTVYSVDKFP 40 (41)
T ss_dssp HHHHHTT----EEEEESS-
T ss_pred HHHHhCCCCcEEEEEcCCC
Confidence 3567777 8888888875
No 169
>cd04740 DHOD_1B_like Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively.
Probab=20.25 E-value=2.2e+02 Score=23.21 Aligned_cols=42 Identities=24% Similarity=0.437 Sum_probs=28.2
Q ss_pred HHHHHHHhcCcceeEeechhhccccccc---------cchhhHHHHHHHHc-Ceee
Q 031877 81 KLGSQLREIGIDNVMINLAEELSRPANQ---------RIMVLPLFDSVRRA-GVVV 126 (151)
Q Consensus 81 ~La~RLk~~Gi~~V~id~~eE~sr~~ky---------r~kV~al~dSlR~~-GVkv 126 (151)
..+.++++.|.+.|.+++. -|.-. -..+..++..+|++ ++.|
T Consensus 106 ~~a~~~~~~G~d~iElN~~----cP~~~~~g~~~~~~~~~~~eiv~~vr~~~~~Pv 157 (296)
T cd04740 106 EVAEKLADAGADAIELNIS----CPNVKGGGMAFGTDPEAVAEIVKAVKKATDVPV 157 (296)
T ss_pred HHHHHHHHcCCCEEEEECC----CCCCCCCcccccCCHHHHHHHHHHHHhccCCCE
Confidence 4667888889999999865 33221 13566788888876 5443
No 170
>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many
Probab=20.17 E-value=3.8e+02 Score=21.25 Aligned_cols=42 Identities=19% Similarity=0.298 Sum_probs=29.4
Q ss_pred CcccCceeeEEEEeeceeEEEeecCCCCCCceEEEeeccchhhhhhhcc
Q 031877 9 SQKYPRYLLQLILSCRKITAQVSDTASAGSSTIVALASSSKQDFYSHYH 57 (151)
Q Consensus 9 ~~~~~~yvLrL~lS~k~ITAqVv~~~~~~tstIVA~ASS~Eq~~r~~~e 57 (151)
..+|+-=++|+ ...++|+-|-.. |.|+++...+|.+++..++
T Consensus 33 Pe~fpgli~R~--~~P~~t~lIf~s-----GKivitGaks~~~~~~a~~ 74 (174)
T cd00652 33 PKRFPGVIMRL--REPKTTALIFSS-----GKMVITGAKSEEDAKLAAR 74 (174)
T ss_pred CCccceEEEEc--CCCcEEEEEECC-----CEEEEEecCCHHHHHHHHH
Confidence 34455555565 467888888755 9999998777777666665
No 171
>PRK06443 chorismate mutase; Validated
Probab=20.02 E-value=54 Score=27.27 Aligned_cols=41 Identities=15% Similarity=0.009 Sum_probs=37.7
Q ss_pred cccchhhHHHHHHHHcCeeeecccccccccccceecccccC
Q 031877 107 NQRIMVLPLFDSVRRAGVVVDGLEKLAEDRVGRRLGFCHNG 147 (151)
Q Consensus 107 kyr~kV~al~dSlR~~GVkv~g~~~l~~~~~~~~~~~~~~~ 147 (151)
.|.+|..+|--=+...|+.|.+.+.-.++.-|-.+.+||--
T Consensus 91 ~y~~~~~sl~~~~~~~g~~v~i~~~~~~~~~~~~~~~~~~~ 131 (177)
T PRK06443 91 DYDSLILSLGLILSRPGIEIYIEDNPDSIEEGCSKAGGHVV 131 (177)
T ss_pred chHHHHHHHHHHHhcCCcEEEeccCchHHHHhhhhcCCeEe
Confidence 59999999999999999999999988899999999999953
Done!