Query 048377
Match_columns 118
No_of_seqs 183 out of 1042
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 08:56:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048377.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048377hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03156 GDSL esterase/lipase; 100.0 1.4E-32 3.1E-37 210.0 12.0 117 1-118 203-319 (351)
2 cd01837 SGNH_plant_lipase_like 100.0 3.3E-31 7.2E-36 199.1 11.8 117 1-118 172-288 (315)
3 PRK15381 pathogenicity island 99.9 1.7E-27 3.7E-32 184.6 9.5 107 1-116 269-375 (408)
4 cd01847 Triacylglycerol_lipase 99.9 1.8E-26 3.8E-31 171.0 9.3 106 1-118 149-254 (281)
5 cd01846 fatty_acyltransferase_ 99.9 3.6E-24 7.9E-29 157.2 9.3 106 1-118 139-244 (270)
6 COG3240 Phospholipase/lecithin 99.7 2.9E-16 6.3E-21 119.5 8.2 96 1-108 202-297 (370)
7 PF00657 Lipase_GDSL: GDSL-lik 98.7 2.9E-08 6.3E-13 70.0 4.3 81 2-83 122-210 (234)
8 cd01836 FeeA_FeeB_like SGNH_hy 89.7 0.94 2E-05 31.0 4.9 58 6-76 105-162 (191)
9 cd01833 XynB_like SGNH_hydrola 86.0 2.2 4.9E-05 28.1 4.9 36 40-77 96-131 (157)
10 PLN02757 sirohydrochlorine fer 83.5 4.2 9E-05 27.9 5.3 52 48-99 90-150 (154)
11 cd00229 SGNH_hydrolase SGNH_hy 80.6 8.2 0.00018 24.8 5.9 57 5-78 104-160 (187)
12 cd01834 SGNH_hydrolase_like_2 78.9 11 0.00024 25.3 6.3 62 6-82 103-164 (191)
13 cd01838 Isoamyl_acetate_hydrol 77.6 7.1 0.00015 26.4 5.0 62 7-77 107-168 (199)
14 cd01841 NnaC_like NnaC (CMP-Ne 75.4 6.3 0.00014 26.4 4.2 54 6-77 89-142 (174)
15 KOG4079 Putative mitochondrial 75.3 1.4 3.1E-05 29.9 0.9 16 4-19 42-57 (169)
16 TIGR02744 TrbI_Ftype type-F co 75.2 8.5 0.00019 25.1 4.5 27 36-62 57-83 (112)
17 PRK13717 conjugal transfer pro 73.3 8.2 0.00018 25.8 4.1 27 36-62 70-96 (128)
18 cd01832 SGNH_hydrolase_like_1 70.9 14 0.0003 24.8 5.1 51 6-76 105-156 (185)
19 cd01839 SGNH_arylesterase_like 69.9 9.8 0.00021 26.4 4.2 57 6-76 124-180 (208)
20 cd01829 SGNH_hydrolase_peri2 S 69.6 20 0.00043 24.5 5.7 48 6-77 108-155 (200)
21 PF13472 Lipase_GDSL_2: GDSL-l 66.9 20 0.00043 23.2 5.1 53 9-77 103-155 (179)
22 KOG0907 Thioredoxin [Posttrans 64.7 9.3 0.0002 24.4 3.0 29 50-79 39-67 (106)
23 cd01823 SEST_like SEST_like. A 64.0 27 0.00059 25.0 5.7 37 37-77 181-217 (259)
24 cd01820 PAF_acetylesterase_lik 63.4 25 0.00055 24.5 5.4 49 8-76 129-177 (214)
25 COG4531 ZnuA ABC-type Zn2+ tra 62.0 25 0.00055 26.8 5.2 48 37-90 180-231 (318)
26 cd04501 SGNH_hydrolase_like_4 60.5 21 0.00045 24.0 4.4 58 4-78 94-151 (183)
27 PF09677 TrbI_Ftype: Type-F co 55.6 23 0.0005 23.0 3.6 26 36-61 56-81 (111)
28 cd01823 SEST_like SEST_like. A 54.4 30 0.00065 24.8 4.5 35 40-74 123-157 (259)
29 cd01835 SGNH_hydrolase_like_3 54.0 26 0.00056 23.8 4.0 49 9-77 113-161 (193)
30 PLN00123 isocitrate dehydrogen 53.9 23 0.00049 27.8 3.9 38 49-86 204-241 (360)
31 COG3581 Uncharacterized protei 53.8 17 0.00036 29.0 3.2 46 2-72 328-373 (420)
32 cd04506 SGNH_hydrolase_YpmR_li 53.0 45 0.00097 22.9 5.1 31 42-72 100-130 (204)
33 COG1182 AcpD Acyl carrier prot 52.0 21 0.00045 25.8 3.2 26 48-73 20-45 (202)
34 PRK03437 3-isopropylmalate deh 51.6 19 0.00042 28.0 3.2 38 49-86 196-233 (344)
35 TIGR02089 TTC tartrate dehydro 51.3 21 0.00045 27.9 3.4 38 49-86 199-236 (352)
36 cd02957 Phd_like Phosducin (Ph 51.0 36 0.00079 21.3 4.1 25 50-74 42-66 (113)
37 PF02633 Creatininase: Creatin 50.9 42 0.00091 24.2 4.8 50 2-78 95-144 (237)
38 PRK00772 3-isopropylmalate deh 50.9 29 0.00063 27.2 4.1 39 48-86 199-237 (358)
39 PRK08997 isocitrate dehydrogen 50.8 29 0.00064 26.9 4.1 38 49-86 183-220 (334)
40 PF01903 CbiX: CbiX; InterPro 50.6 15 0.00032 22.7 2.2 24 50-73 71-94 (105)
41 TIGR00175 mito_nad_idh isocitr 50.5 25 0.00053 27.2 3.7 39 48-86 180-218 (333)
42 PF12872 OST-HTH: OST-HTH/LOTU 50.2 17 0.00037 21.0 2.2 27 65-91 23-51 (74)
43 TIGR00169 leuB 3-isopropylmala 48.5 34 0.00074 26.7 4.2 38 49-86 197-234 (349)
44 PLN00118 isocitrate dehydrogen 47.4 30 0.00065 27.3 3.7 39 48-86 219-257 (372)
45 cd02989 Phd_like_TxnDC9 Phosdu 47.1 28 0.00061 22.1 3.1 26 50-75 40-65 (113)
46 PRK08194 tartrate dehydrogenas 46.3 24 0.00052 27.6 3.0 38 49-86 196-233 (352)
47 KOG3035 Isoamyl acetate-hydrol 46.0 89 0.0019 23.1 5.7 67 8-82 116-182 (245)
48 PRK14025 multifunctional 3-iso 44.9 40 0.00087 26.1 4.0 39 48-86 179-217 (330)
49 cd03416 CbiX_SirB_N Sirohydroc 43.3 25 0.00055 21.6 2.3 22 49-70 77-98 (101)
50 PF00308 Bac_DnaA: Bacterial d 40.8 51 0.0011 23.5 3.9 33 49-81 50-82 (219)
51 PF02384 N6_Mtase: N-6 DNA Met 39.0 21 0.00045 26.6 1.7 55 42-100 6-60 (311)
52 PF12905 Glyco_hydro_101: Endo 37.7 32 0.00069 27.6 2.5 25 49-73 159-183 (425)
53 cd01828 sialate_O-acetylestera 37.6 70 0.0015 21.1 4.0 31 43-73 67-97 (169)
54 PF08331 DUF1730: Domain of un 37.5 70 0.0015 19.0 3.6 25 46-70 52-77 (78)
55 cd02987 Phd_like_Phd Phosducin 37.5 46 0.00099 23.0 3.1 26 49-74 100-125 (175)
56 PRK13384 delta-aminolevulinic 37.3 49 0.0011 25.6 3.5 52 2-71 70-121 (322)
57 cd01401 PncB_like Nicotinate p 37.3 64 0.0014 25.5 4.2 23 52-74 236-259 (377)
58 PLN02329 3-isopropylmalate deh 37.2 26 0.00055 28.0 2.0 38 49-86 245-282 (409)
59 PF00180 Iso_dh: Isocitrate/is 37.0 35 0.00077 26.4 2.7 38 49-86 195-233 (348)
60 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 36.8 38 0.00081 18.8 2.1 32 45-87 18-49 (50)
61 cd02988 Phd_like_VIAF Phosduci 35.5 49 0.0011 23.3 3.0 26 49-74 119-144 (192)
62 cd04824 eu_ALAD_PBGS_cysteine_ 35.4 54 0.0012 25.3 3.4 54 1-71 59-114 (320)
63 cd00384 ALAD_PBGS Porphobilino 34.6 62 0.0013 25.0 3.6 53 1-71 59-111 (314)
64 TIGR02088 LEU3_arch isopropylm 33.7 73 0.0016 24.6 3.9 37 49-86 176-212 (322)
65 PRK09222 isocitrate dehydrogen 33.6 65 0.0014 26.4 3.7 38 49-86 185-222 (482)
66 cd08448 PBP2_LTTR_aromatics_li 33.5 69 0.0015 20.6 3.4 41 47-87 12-54 (197)
67 PF14606 Lipase_GDSL_3: GDSL-l 33.5 38 0.00083 23.8 2.2 32 43-74 73-104 (178)
68 cd04823 ALAD_PBGS_aspartate_ri 33.3 61 0.0013 25.1 3.4 54 1-71 62-116 (320)
69 PF11965 DUF3479: Domain of un 33.1 77 0.0017 22.0 3.6 30 45-74 11-41 (164)
70 cd04502 SGNH_hydrolase_like_7 33.0 74 0.0016 21.1 3.6 29 43-71 69-97 (171)
71 cd08445 PBP2_BenM_CatM_CatR Th 32.5 75 0.0016 20.9 3.5 41 47-87 13-55 (203)
72 cd01844 SGNH_hydrolase_like_6 31.9 64 0.0014 21.6 3.1 27 45-71 75-101 (177)
73 cd01820 PAF_acetylesterase_lik 31.3 85 0.0018 21.8 3.8 30 43-72 108-137 (214)
74 PRK13555 azoreductase; Provisi 30.9 70 0.0015 22.8 3.3 29 46-74 18-47 (208)
75 TIGR02193 heptsyl_trn_I lipopo 30.7 81 0.0018 23.4 3.7 29 52-81 18-46 (319)
76 COG2153 ElaA Predicted acyltra 30.3 1E+02 0.0022 21.3 3.8 41 47-91 95-135 (155)
77 cd08467 PBP2_SyrM The C-termin 30.1 89 0.0019 20.5 3.6 42 47-88 12-55 (200)
78 KOG2263 Methionine synthase II 30.1 70 0.0015 26.6 3.4 40 50-90 42-88 (765)
79 PTZ00062 glutaredoxin; Provisi 29.9 67 0.0015 23.0 3.0 24 49-72 34-57 (204)
80 cd05466 PBP2_LTTR_substrate Th 29.0 1.3E+02 0.0028 18.8 4.2 43 46-88 11-55 (197)
81 TIGR02924 ICDH_alpha isocitrat 29.0 66 0.0014 26.3 3.1 38 49-86 181-218 (473)
82 cd08485 PBP2_ClcR The C-termin 28.2 99 0.0021 20.3 3.6 40 48-87 14-55 (198)
83 cd02986 DLP Dim1 family, Dim1- 28.1 84 0.0018 20.5 3.0 27 48-74 30-57 (114)
84 cd01145 TroA_c Periplasmic bin 28.1 1.8E+02 0.0039 20.3 5.0 47 37-89 137-187 (203)
85 cd02973 TRX_GRX_like Thioredox 28.0 1.1E+02 0.0023 16.8 3.2 23 51-73 18-40 (67)
86 PRK09283 delta-aminolevulinic 27.9 90 0.002 24.2 3.5 53 1-71 67-119 (323)
87 cd08416 PBP2_MdcR The C-termin 27.9 99 0.0021 20.0 3.5 41 47-87 12-54 (199)
88 PHA02105 hypothetical protein 27.4 79 0.0017 18.3 2.4 36 54-90 29-67 (68)
89 cd08465 PBP2_ToxR The C-termin 27.4 99 0.0021 20.3 3.4 41 47-87 12-54 (200)
90 cd08437 PBP2_MleR The substrat 27.2 1E+02 0.0023 19.9 3.5 41 47-87 12-54 (198)
91 PRK09545 znuA high-affinity zi 27.1 1.7E+02 0.0036 22.1 4.9 48 37-90 174-225 (311)
92 cd08438 PBP2_CidR The C-termin 27.0 86 0.0019 20.1 3.0 40 48-87 13-54 (197)
93 cd02954 DIM1 Dim1 family; Dim1 26.8 98 0.0021 20.0 3.1 26 49-74 31-57 (114)
94 cd01840 SGNH_hydrolase_yrhL_li 26.7 65 0.0014 21.2 2.4 27 44-76 95-121 (150)
95 COG0473 LeuB Isocitrate/isopro 26.6 50 0.0011 25.8 2.0 36 51-86 194-229 (348)
96 COG1209 RfbA dTDP-glucose pyro 26.4 99 0.0021 23.5 3.4 35 49-91 114-148 (286)
97 cd08434 PBP2_GltC_like The sub 26.3 93 0.002 19.8 3.1 41 48-88 13-55 (195)
98 cd08421 PBP2_LTTR_like_1 The C 26.2 95 0.0021 20.0 3.1 41 48-88 13-55 (198)
99 cd08431 PBP2_HupR The C-termin 26.2 1E+02 0.0022 19.9 3.3 40 48-87 13-54 (195)
100 cd01831 Endoglucanase_E_like E 26.2 1.3E+02 0.0027 20.0 3.8 28 43-70 76-103 (169)
101 cd01824 Phospholipase_B_like P 25.8 1.3E+02 0.0028 22.5 4.1 33 43-75 144-176 (288)
102 cd01019 ZnuA Zinc binding prot 25.6 1.6E+02 0.0034 21.9 4.5 48 37-90 150-201 (286)
103 COG1402 Uncharacterized protei 25.6 43 0.00094 24.9 1.4 15 2-16 99-113 (250)
104 cd08436 PBP2_LTTR_like_3 The C 25.5 1.3E+02 0.0028 19.2 3.7 41 47-87 12-54 (194)
105 cd03414 CbiX_SirB_C Sirohydroc 25.3 1.5E+02 0.0033 18.5 3.8 20 50-70 78-97 (117)
106 PF04690 YABBY: YABBY protein; 25.3 67 0.0015 22.5 2.3 25 41-65 124-148 (170)
107 KOG2187 tRNA uracil-5-methyltr 25.3 35 0.00077 28.1 1.0 13 88-100 385-397 (534)
108 cd08444 PBP2_Cbl The C-termina 25.0 1.3E+02 0.0029 19.6 3.7 42 47-88 12-55 (198)
109 cd01137 PsaA Metal binding pro 25.0 1.7E+02 0.0038 21.7 4.6 49 36-90 145-199 (287)
110 cd01830 XynE_like SGNH_hydrola 24.9 1.5E+02 0.0033 20.3 4.1 15 4-19 117-131 (204)
111 cd01825 SGNH_hydrolase_peri1 S 24.9 1.3E+02 0.0029 19.9 3.7 32 43-74 76-107 (189)
112 cd01827 sialate_O-acetylestera 24.8 1.4E+02 0.003 20.0 3.8 30 43-72 88-117 (188)
113 cd08411 PBP2_OxyR The C-termin 24.7 1.2E+02 0.0025 19.7 3.4 40 48-87 14-55 (200)
114 cd08451 PBP2_BudR The C-termin 24.6 87 0.0019 20.2 2.7 39 49-87 15-55 (199)
115 cd08450 PBP2_HcaR The C-termin 24.6 1.3E+02 0.0028 19.3 3.6 40 48-87 13-54 (196)
116 cd08449 PBP2_XapR The C-termin 24.3 1.2E+02 0.0025 19.5 3.3 40 48-87 13-54 (197)
117 cd08435 PBP2_GbpR The C-termin 24.3 1.4E+02 0.0031 19.1 3.8 41 47-87 12-54 (201)
118 PRK05321 nicotinate phosphorib 24.1 1.5E+02 0.0033 23.6 4.3 24 52-75 239-263 (400)
119 cd08452 PBP2_AlsR The C-termin 24.0 1.3E+02 0.0028 19.6 3.5 40 48-87 13-54 (197)
120 cd08475 PBP2_CrgA_like_6 The C 24.0 1.1E+02 0.0023 19.7 3.1 39 48-87 14-52 (199)
121 PF03466 LysR_substrate: LysR 23.9 1.2E+02 0.0025 19.9 3.2 42 47-88 18-61 (209)
122 TIGR01514 NAPRTase nicotinate 23.6 1.2E+02 0.0027 24.1 3.7 23 51-73 238-261 (394)
123 cd08440 PBP2_LTTR_like_4 TThe 23.6 1.7E+02 0.0037 18.5 4.0 41 47-87 12-54 (197)
124 PF06183 DinI: DinI-like famil 23.5 1.4E+02 0.003 17.3 3.1 21 49-69 9-29 (65)
125 PF05902 4_1_CTD: 4.1 protein 23.2 1E+02 0.0022 20.2 2.6 26 45-70 82-107 (114)
126 PF01297 TroA: Periplasmic sol 23.2 1.7E+02 0.0036 21.1 4.1 48 37-90 121-172 (256)
127 cd08414 PBP2_LTTR_aromatics_li 23.1 1.3E+02 0.0028 19.2 3.3 40 48-87 13-54 (197)
128 PRK05458 guanosine 5'-monophos 23.1 1.7E+02 0.0036 22.6 4.3 38 36-73 99-150 (326)
129 PF03421 YopJ: YopJ Serine/Thr 23.0 1.4E+02 0.0031 20.8 3.6 33 49-81 32-64 (177)
130 cd08446 PBP2_Chlorocatechol Th 23.0 1.4E+02 0.003 19.3 3.5 39 49-87 15-55 (198)
131 cd08456 PBP2_LysR The C-termin 22.5 1.8E+02 0.0038 18.6 3.9 40 48-87 13-54 (196)
132 PRK10916 ADP-heptose:LPS hepto 22.3 1.1E+02 0.0025 23.0 3.2 27 53-80 20-46 (348)
133 cd08419 PBP2_CbbR_RubisCO_like 22.3 1.2E+02 0.0027 19.3 3.1 40 48-87 12-53 (197)
134 PF08965 DUF1870: Domain of un 22.0 2.1E+02 0.0046 18.9 4.0 45 35-79 47-91 (118)
135 COG1031 Uncharacterized Fe-S o 22.0 84 0.0018 25.9 2.5 60 2-73 227-286 (560)
136 cd08460 PBP2_DntR_like_1 The C 21.9 1.8E+02 0.0038 18.9 3.9 41 48-88 13-54 (200)
137 cd08427 PBP2_LTTR_like_2 The C 21.5 2.1E+02 0.0046 18.2 4.2 42 47-88 12-55 (195)
138 cd08461 PBP2_DntR_like_3 The C 21.3 1.8E+02 0.004 18.7 3.8 41 47-87 12-54 (198)
139 TIGR00127 nadp_idh_euk isocitr 21.3 2.1E+02 0.0046 22.9 4.6 40 46-85 218-264 (409)
140 cd08439 PBP2_LrhA_like The C-t 21.3 1.8E+02 0.004 18.6 3.8 41 48-88 13-55 (185)
141 TIGR02841 spore_YyaC putative 21.2 1.3E+02 0.0027 20.5 2.9 24 48-71 47-70 (140)
142 PRK13556 azoreductase; Provisi 21.1 1.3E+02 0.0029 21.0 3.2 21 53-73 26-46 (208)
143 cd01018 ZntC Metal binding pro 21.1 2.1E+02 0.0045 20.9 4.3 49 36-90 140-192 (266)
144 cd08469 PBP2_PnbR The C-termin 21.1 2.4E+02 0.0052 18.7 4.5 41 48-88 13-55 (221)
145 COG1488 PncB Nicotinic acid ph 21.0 1.6E+02 0.0034 23.5 3.8 26 51-76 221-246 (405)
146 cd08442 PBP2_YofA_SoxR_like Th 20.8 1.7E+02 0.0037 18.6 3.6 41 48-88 13-55 (193)
147 cd08587 PI-PLCXDc_like Catalyt 20.8 3E+02 0.0066 20.3 5.2 38 37-74 240-277 (288)
148 PRK11274 glcF glycolate oxidas 20.6 2.8E+02 0.0061 21.5 5.2 35 63-98 300-345 (407)
149 PF02608 Bmp: Basic membrane p 20.6 85 0.0019 23.5 2.2 25 49-73 71-95 (306)
150 cd03026 AhpF_NTD_C TRX-GRX-lik 20.5 1.5E+02 0.0033 17.9 3.0 23 52-74 32-54 (89)
151 cd08447 PBP2_LTTR_aromatics_li 20.5 1.8E+02 0.0039 18.7 3.6 43 46-88 11-55 (198)
152 PF00490 ALAD: Delta-aminolevu 20.5 1.1E+02 0.0023 23.8 2.7 53 2-71 66-119 (324)
153 PF06866 DUF1256: Protein of u 20.4 1.3E+02 0.0028 21.0 2.9 24 48-71 71-94 (163)
154 cd08463 PBP2_DntR_like_4 The C 20.3 1.9E+02 0.0041 19.1 3.8 40 48-87 13-55 (203)
155 PHA03256 BDLF3; Provisional 20.2 1.1E+02 0.0024 18.4 2.1 37 37-73 20-57 (77)
156 cd01821 Rhamnogalacturan_acety 20.0 1.1E+02 0.0024 20.8 2.6 34 40-80 128-161 (198)
No 1
>PLN03156 GDSL esterase/lipase; Provisional
Probab=100.00 E-value=1.4e-32 Score=210.01 Aligned_cols=117 Identities=42% Similarity=0.793 Sum_probs=105.3
Q ss_pred ChhhcCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHHHH
Q 048377 1 ELYGVGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQ 80 (118)
Q Consensus 1 ~Ly~~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~ 80 (118)
+||++|||||+|+|+||+||+|..+.....+..+|.+.+|.+++.||++|++++++|++++||++|+++|+|.++.++++
T Consensus 203 ~Ly~~GAR~~~V~~lpplGc~P~~~~~~~~~~~~C~~~~n~~~~~~N~~L~~~l~~L~~~~pg~~i~~~D~y~~~~~ii~ 282 (351)
T PLN03156 203 KLYRLGARKISLGGLPPMGCLPLERTTNLMGGSECVEEYNDVALEFNGKLEKLVTKLNKELPGIKLVFSNPYDIFMQIIR 282 (351)
T ss_pred HHHHcCCCEEEecCCCccccCHHHHhhcCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEehHHHHHHHHh
Confidence 58999999999999999999998765432234689999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCccCCcceecccccCCccccCCCCCCCCCCCC
Q 048377 81 NPPQYGFEVADKGCCGTGNLEVSILCNRLEDAATCPDA 118 (118)
Q Consensus 81 nP~~yGf~~~~~aCCg~g~~~~~~~C~~~~~~~~C~~~ 118 (118)
||++|||++++++|||.|.++....|++.... +|+||
T Consensus 283 nP~~yGf~~~~~aCCg~g~~~~~~~C~~~~~~-~C~~p 319 (351)
T PLN03156 283 NPSAYGFEVTSVACCATGMFEMGYLCNRNNPF-TCSDA 319 (351)
T ss_pred CccccCcccCCccccCCCCCCCccccCCCCCC-ccCCc
Confidence 99999999999999998888877889976533 79886
No 2
>cd01837 SGNH_plant_lipase_like SGNH_plant_lipase_like, a plant specific subfamily of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=99.97 E-value=3.3e-31 Score=199.13 Aligned_cols=117 Identities=49% Similarity=0.928 Sum_probs=104.1
Q ss_pred ChhhcCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHHHH
Q 048377 1 ELYGVGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQ 80 (118)
Q Consensus 1 ~Ly~~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~ 80 (118)
+||++|||||+|+|+||+||+|.++.....+..+|.+.+|+++..||.+|+++|++|++++|+++|+++|+|.++.++++
T Consensus 172 ~L~~~GAr~~~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~~~~~i~~~D~y~~~~~i~~ 251 (315)
T cd01837 172 RLYDLGARKFVVPGLGPLGCLPSQRTLFGGDGGGCLEELNELARLFNAKLKKLLAELRRELPGAKFVYADIYNALLDLIQ 251 (315)
T ss_pred HHHhCCCcEEEecCCCCcCccHHHHhhcCCCCCCcCHHHHHHHHHHHHHHHHHHHHHHhcCCCcEEEEEehhHHHHHHHh
Confidence 58999999999999999999999886543234689999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCccCCcceecccccCCccccCCCCCCCCCCCC
Q 048377 81 NPPQYGFEVADKGCCGTGNLEVSILCNRLEDAATCPDA 118 (118)
Q Consensus 81 nP~~yGf~~~~~aCCg~g~~~~~~~C~~~~~~~~C~~~ 118 (118)
||++|||++++++||+.|..+....|+..... +|+||
T Consensus 252 np~~yGf~~~~~aCc~~g~~~~~~~c~~~~~~-~C~~p 288 (315)
T cd01837 252 NPAKYGFENTLKACCGTGGPEGGLLCNPCGST-VCPDP 288 (315)
T ss_pred ChhhcCCcCCCcCccCCCCCCcccccCCCCCC-cCCCc
Confidence 99999999999999998876666778765222 79876
No 3
>PRK15381 pathogenicity island 2 effector protein SseJ; Provisional
Probab=99.95 E-value=1.7e-27 Score=184.62 Aligned_cols=107 Identities=15% Similarity=0.377 Sum_probs=95.3
Q ss_pred ChhhcCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHHHH
Q 048377 1 ELYGVGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQ 80 (118)
Q Consensus 1 ~Ly~~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~ 80 (118)
+||++|||||+|+|+||+||+|..+... ..+.+|.++..||++|+.+|++|++++||++|+++|+|+++.++++
T Consensus 269 ~Ly~lGARk~vV~nlpPlGC~P~~~~~~------~~~~~N~~a~~fN~~L~~~L~~L~~~~pg~~ivy~D~y~~~~~ii~ 342 (408)
T PRK15381 269 KIISGGVNNVLVMGIPDLSLTPYGKHSD------EKRKLKDESIAHNALLKTNVEELKEKYPQHKICYYETADAFKVIME 342 (408)
T ss_pred HHHHcCCcEEEEeCCCCCCCcchhhccC------chHHHHHHHHHHHHHHHHHHHHHHHhCCCCEEEEEEhHHHHHHHHh
Confidence 4899999999999999999999876321 2488999999999999999999999999999999999999999999
Q ss_pred CCCCCCCccCCcceecccccCCccccCCCCCCCCCC
Q 048377 81 NPPQYGFEVADKGCCGTGNLEVSILCNRLEDAATCP 116 (118)
Q Consensus 81 nP~~yGf~~~~~aCCg~g~~~~~~~C~~~~~~~~C~ 116 (118)
||++|||++++. ||+.|.++....|.+... +|+
T Consensus 343 nP~~yGF~~~~~-cCg~G~~~~~~~C~p~~~--~C~ 375 (408)
T PRK15381 343 AASNIGYDTENP-YTHHGYVHVPGAKDPQLD--ICP 375 (408)
T ss_pred CHHhcCCCcccc-ccCCCccCCccccCcccC--CCC
Confidence 999999999887 999997766677876655 674
No 4
>cd01847 Triacylglycerol_lipase_like Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases. Members of this subfamily might hydrolyze triacylglycerol into diacylglycerol and fatty acid anions.
Probab=99.94 E-value=1.8e-26 Score=171.05 Aligned_cols=106 Identities=25% Similarity=0.394 Sum_probs=90.2
Q ss_pred ChhhcCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHHHH
Q 048377 1 ELYGVGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQ 80 (118)
Q Consensus 1 ~Ly~~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~ 80 (118)
+||++|||+|+|+++||+||+|.++... ..|.+.+|.++..||.+|+++|++|+.+ +|+++|+|.++.+|++
T Consensus 149 ~L~~~GAr~ilv~~lpplgc~P~~~~~~----~~~~~~~n~~~~~~N~~L~~~l~~l~~~----~i~~~D~~~~~~~i~~ 220 (281)
T cd01847 149 NLLDAGARYILVPNLPDVSYTPEAAGTP----AAAAALASALSQTYNQTLQSGLNQLGAN----NIIYVDTATLLKEVVA 220 (281)
T ss_pred HHHHCCCCEEEEeCCCCcccCcchhhcc----chhHHHHHHHHHHHHHHHHHHHHhccCC----eEEEEEHHHHHHHHHh
Confidence 5899999999999999999999887543 3588899999999999999999999764 8999999999999999
Q ss_pred CCCCCCCccCCcceecccccCCccccCCCCCCCCCCCC
Q 048377 81 NPPQYGFEVADKGCCGTGNLEVSILCNRLEDAATCPDA 118 (118)
Q Consensus 81 nP~~yGf~~~~~aCCg~g~~~~~~~C~~~~~~~~C~~~ 118 (118)
||++|||++++++||+.+... .|+..... +|+||
T Consensus 221 nP~~yGf~~~~~~CC~~~~~~---~~~~~~~~-~c~~~ 254 (281)
T cd01847 221 NPAAYGFTNTTTPACTSTSAA---GSGAATLV-TAAAQ 254 (281)
T ss_pred ChHhcCccCCCccccCCCCcc---cccccccc-CCCCc
Confidence 999999999999999976432 25433222 67765
No 5
>cd01846 fatty_acyltransferase_like Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases. Might catalyze fatty acid transfer between phosphatidylcholine and sterols.
Probab=99.91 E-value=3.6e-24 Score=157.15 Aligned_cols=106 Identities=26% Similarity=0.491 Sum_probs=92.0
Q ss_pred ChhhcCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHHHH
Q 048377 1 ELYGVGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQ 80 (118)
Q Consensus 1 ~Ly~~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~ 80 (118)
+||++|+|+|+|+++||+||+|.++..... . .+.++.+++.||++|++++++|++++|+++|+++|+|.++.++++
T Consensus 139 ~l~~~g~~~i~v~~~p~~~~~P~~~~~~~~--~--~~~~~~~~~~~N~~L~~~l~~l~~~~~~~~i~~~D~~~~~~~~~~ 214 (270)
T cd01846 139 RLYAAGARNFLVLNLPDLGLTPAFQAQGDA--V--AARATALTAAYNAKLAEKLAELKAQHPGVNILLFDTNALFNDILD 214 (270)
T ss_pred HHHHCCCCEEEEeCCCCCCCCcccccCCcc--c--HHHHHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEEhHHHHHHHHh
Confidence 478999999999999999999998765431 1 268999999999999999999999999999999999999999999
Q ss_pred CCCCCCCccCCcceecccccCCccccCCCCCCCCCCCC
Q 048377 81 NPPQYGFEVADKGCCGTGNLEVSILCNRLEDAATCPDA 118 (118)
Q Consensus 81 nP~~yGf~~~~~aCCg~g~~~~~~~C~~~~~~~~C~~~ 118 (118)
||++|||+++..+||+.+. |..... +|+||
T Consensus 215 ~p~~yGf~~~~~~C~~~~~------~~~~~~--~c~~~ 244 (270)
T cd01846 215 NPAAYGFTNVTDPCLDYVY------SYSPRE--ACANP 244 (270)
T ss_pred CHHhcCCCcCcchhcCCCc------cccccC--CCCCc
Confidence 9999999999999998642 544433 67665
No 6
>COG3240 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]
Probab=99.66 E-value=2.9e-16 Score=119.49 Aligned_cols=96 Identities=25% Similarity=0.467 Sum_probs=82.2
Q ss_pred ChhhcCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHHHH
Q 048377 1 ELYGVGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQ 80 (118)
Q Consensus 1 ~Ly~~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~ 80 (118)
+|.+.|||+|+|+++|+++.+|....... -.+.+.+++..||..|.+.|++++ .+|+.+|++.++++|+.
T Consensus 202 ~L~~AGA~~i~v~~lpDl~l~P~~~~~~~-----~~~~a~~~t~~~Na~L~~~L~~~g-----~nIi~iD~~~llk~im~ 271 (370)
T COG3240 202 RLIAAGARNILVMTLPDLSLTPAGKAYGT-----EAIQASQATIAFNASLTSQLEQLG-----GNIIRIDTYTLLKEIMT 271 (370)
T ss_pred HHHHhhccEEEEeeccccccccccccccc-----hHHHHHHHHHHHHHHHHHHHHHhc-----CcEEEeEhHHHHHHHHh
Confidence 47899999999999999999998765432 233788999999999999999985 89999999999999999
Q ss_pred CCCCCCCccCCcceecccccCCccccCC
Q 048377 81 NPPQYGFEVADKGCCGTGNLEVSILCNR 108 (118)
Q Consensus 81 nP~~yGf~~~~~aCCg~g~~~~~~~C~~ 108 (118)
||++|||+|++..||.....++ .|+.
T Consensus 272 nPa~fGlant~~~~c~~~~~~~--~~~a 297 (370)
T COG3240 272 NPAEFGLANTTAPACDATVSNP--ACSA 297 (370)
T ss_pred CHHhcCcccCCCcccCcccCCc--cccc
Confidence 9999999999999998654333 4554
No 7
>PF00657 Lipase_GDSL: GDSL-like Lipase/Acylhydrolase; InterPro: IPR001087 A variety of lipolytic enzymes with serine as part of the active site have been identified []. Members of this entry include; Aeromonas hydrophila lipase, Vibrio mimicus arylesterase, Vibrio parahaemolyticus thermolabile haemolysin, rabbit phospholipase (AdRab-B), and Brassica napus anter-specific proline-rich protein.; GO: 0016788 hydrolase activity, acting on ester bonds, 0006629 lipid metabolic process; PDB: 2WAO_A 2WAB_A 1V2G_A 1U8U_A 1JRL_A 1IVN_A 1J00_A 1DEO_A 1K7C_A 1PP4_A ....
Probab=98.66 E-value=2.9e-08 Score=69.96 Aligned_cols=81 Identities=40% Similarity=0.715 Sum_probs=69.2
Q ss_pred hhhcCCc-----EEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCC-CcEEEEEeccHHH
Q 048377 2 LYGVGAR-----RIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFP-DSRFVYFDIYNPL 75 (118)
Q Consensus 2 Ly~~GAr-----~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p-~~~i~~~D~~~~~ 75 (118)
|++.|+| +++++++||+++.|....... ....|.+.+++.+..||..|++++.+|++.++ +.++.++|++..+
T Consensus 122 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~n~~l~~~~~~l~~~~~~~~~v~~~D~~~~~ 200 (234)
T PF00657_consen 122 LRSNGARLIIVANIVVINLPPIGCLPAWSSNNK-DSASCIERLNAIVAAFNSALREVAAQLRKDYPKGANVPYFDIYSIF 200 (234)
T ss_dssp HHHTTTEEEEEEEEEEEHHC-GGGSTTHHHTHT-TTCTTHHHHHHHHHHHHHHHHHHHHHHHHCHHHHCTEEEEEHHHHH
T ss_pred HhccCCccccccccccccccccccccccccccc-cccccchhhHHHHHHHHHHHHHHhhhcccccccCCceEEEEHHHHH
Confidence 5678999 999999999999887665432 24579999999999999999999999987776 8999999999999
Q ss_pred HHH--HHCCC
Q 048377 76 NSL--IQNPP 83 (118)
Q Consensus 76 ~~i--~~nP~ 83 (118)
.++ +.+|.
T Consensus 201 ~~~~~~~~~~ 210 (234)
T PF00657_consen 201 SDMYGIQNPE 210 (234)
T ss_dssp HHHHHHHHGG
T ss_pred HHhhhccCcc
Confidence 998 77775
No 8
>cd01836 FeeA_FeeB_like SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it turn are loaded onto the acyl carrier protein FeeL. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=89.66 E-value=0.94 Score=31.04 Aligned_cols=58 Identities=22% Similarity=0.369 Sum_probs=36.7
Q ss_pred CCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHH
Q 048377 6 GARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLN 76 (118)
Q Consensus 6 GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~ 76 (118)
...+|++.++||++..|..... .....++....+|+.+++..++ ++ .+.++|++..+.
T Consensus 105 ~~~~iiv~~~p~~~~~~~~~~~-------~~~~~~~~~~~~n~~~~~~a~~----~~--~~~~id~~~~~~ 162 (191)
T cd01836 105 PGARVVVTAVPPLGRFPALPQP-------LRWLLGRRARLLNRALERLASE----AP--RVTLLPATGPLF 162 (191)
T ss_pred CCCEEEEECCCCcccCCCCcHH-------HHHHHHHHHHHHHHHHHHHHhc----CC--CeEEEecCCccc
Confidence 5678999999998876532111 1234455667777777665554 33 466778888764
No 9
>cd01833 XynB_like SGNH_hydrolase subfamily, similar to Ruminococcus flavefaciens XynB. Most likely a secreted hydrolase with xylanase activity. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=86.03 E-value=2.2 Score=28.15 Aligned_cols=36 Identities=25% Similarity=0.341 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHH
Q 048377 40 NQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNS 77 (118)
Q Consensus 40 n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~ 77 (118)
+.....||+.+++.+++.+.. +..+.++|++..+.+
T Consensus 96 ~~~~~~~n~~l~~~~~~~~~~--~~~v~~vd~~~~~~~ 131 (157)
T cd01833 96 NARIAEYNAAIPGVVADLRTA--GSPVVLVDMSTGYTT 131 (157)
T ss_pred hHHHHHHHHHHHHHHHHHhcC--CCCEEEEecCCCCCC
Confidence 567889999999999887653 677999999998753
No 10
>PLN02757 sirohydrochlorine ferrochelatase
Probab=83.52 E-value=4.2 Score=27.85 Aligned_cols=52 Identities=15% Similarity=0.284 Sum_probs=31.4
Q ss_pred HHHHHHHHhhhccCCCcEEEEEec---cHHHHHHHHCC------CCCCCccCCcceecccc
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDI---YNPLNSLIQNP------PQYGFEVADKGCCGTGN 99 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~---~~~~~~i~~nP------~~yGf~~~~~aCCg~g~ 99 (118)
..+.+.++++++++|+.+|.+... +..+.+++..= ..-+...+.+.|-|.|+
T Consensus 90 ~DIp~~v~~~~~~~p~~~i~~~~pLG~~p~l~~ll~~Ri~eal~~~~~~~~~~~~~~~~~~ 150 (154)
T PLN02757 90 EDIPALTAEAAKEHPGVKYLVTAPIGLHELMVDVVNDRIKYCLSHVAGDADECDVCAGTGK 150 (154)
T ss_pred hHHHHHHHHHHHHCCCcEEEECCCCCCCHHHHHHHHHHHHHHhhcccCCCCccceeecccc
Confidence 446778888999999999987754 34555554331 11122334556666553
No 11
>cd00229 SGNH_hydrolase SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the typical Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid.
Probab=80.58 E-value=8.2 Score=24.78 Aligned_cols=57 Identities=16% Similarity=0.159 Sum_probs=39.5
Q ss_pred cCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHH
Q 048377 5 VGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSL 78 (118)
Q Consensus 5 ~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i 78 (118)
....+|++++.|+....|. ..+.....+|..+++..++.... ..+.++|++..+...
T Consensus 104 ~~~~~vv~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~d~~~~~~~~ 160 (187)
T cd00229 104 APGAKVILITPPPPPPREG--------------LLGRALPRYNEAIKAVAAENPAP---SGVDLVDLAALLGDE 160 (187)
T ss_pred CCCCcEEEEeCCCCCCCch--------------hhHHHHHHHHHHHHHHHHHcCCC---cceEEEEhhhhhCCC
Confidence 3567788888888777654 12345667888887776665432 568899999887653
No 12
>cd01834 SGNH_hydrolase_like_2 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=78.85 E-value=11 Score=25.25 Aligned_cols=62 Identities=15% Similarity=0.192 Sum_probs=40.4
Q ss_pred CCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCC
Q 048377 6 GARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNP 82 (118)
Q Consensus 6 GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP 82 (118)
...+|++++.+|....+.. . .-....+.....||+.|++..++ ..+.++|++..+.+....+
T Consensus 103 ~~~~ii~~~p~~~~~~~~~---~-----~~~~~~~~~~~~~n~~l~~~a~~-------~~~~~iD~~~~~~~~~~~~ 164 (191)
T cd01834 103 SAPRIVLVSPIAYEANEDP---L-----PDGAEYNANLAAYADAVRELAAE-------NGVAFVDLFTPMKEAFQKA 164 (191)
T ss_pred CCCcEEEECCcccCCCCCC---C-----CChHHHHHHHHHHHHHHHHHHHH-------cCCeEEecHHHHHHHHHhC
Confidence 4456777776665432210 0 01356677888999998876554 2488999999998876653
No 13
>cd01838 Isoamyl_acetate_hydrolase_like Isoamyl-acetate hydrolyzing esterase-like proteins. SGNH_hydrolase subfamily similar to the Saccharomyces cerevisiae IAH1. IAH1 may be the major esterase that hydrolyses isoamyl acetate in sake mash. The SGNH-family of hydrolases is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases
Probab=77.65 E-value=7.1 Score=26.42 Aligned_cols=62 Identities=13% Similarity=0.286 Sum_probs=36.5
Q ss_pred CcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHH
Q 048377 7 ARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNS 77 (118)
Q Consensus 7 Ar~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~ 77 (118)
..++++++.||.+-......... ...-....++....||+.+++..++. .+.++|++..+..
T Consensus 107 ~~~ii~~t~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~-------~~~~iD~~~~~~~ 168 (199)
T cd01838 107 KTKVILITPPPVDEEAWEKSLED--GGSQPGRTNELLKQYAEACVEVAEEL-------GVPVIDLWTAMQE 168 (199)
T ss_pred CCeEEEeCCCCCCHHHHhhhhcc--ccCCccccHHHHHHHHHHHHHHHHHh-------CCcEEEHHHHHHh
Confidence 34688888888764322111000 00112345677788988887765543 3778899988765
No 14
>cd01841 NnaC_like NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles two of the three components of typical Ser-His-Asp(Glu) triad from other serine hydrolases. E. coli NnaC appears to be involved in polysaccharide synthesis.
Probab=75.42 E-value=6.3 Score=26.40 Aligned_cols=54 Identities=19% Similarity=0.214 Sum_probs=35.7
Q ss_pred CCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHH
Q 048377 6 GARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNS 77 (118)
Q Consensus 6 GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~ 77 (118)
...+++++++||..-.+. .....++....||+.+++..++. .+.++|++..+.+
T Consensus 89 p~~~vi~~~~~p~~~~~~-----------~~~~~~~~~~~~n~~l~~~a~~~-------~~~~id~~~~~~~ 142 (174)
T cd01841 89 PNTKIYLLSVLPVLEEDE-----------IKTRSNTRIQRLNDAIKELAPEL-------GVTFIDLNDVLVD 142 (174)
T ss_pred CCCEEEEEeeCCcCcccc-----------cccCCHHHHHHHHHHHHHHHHHC-------CCEEEEcHHHHcC
Confidence 356788888887643221 01223556789999988765543 2789999998754
No 15
>KOG4079 consensus Putative mitochondrial ribosomal protein mRpS25 [Translation, ribosomal structure and biogenesis]
Probab=75.29 E-value=1.4 Score=29.89 Aligned_cols=16 Identities=31% Similarity=0.472 Sum_probs=14.2
Q ss_pred hcCCcEEEEeCCCccC
Q 048377 4 GVGARRIGVLSLPPIG 19 (118)
Q Consensus 4 ~~GAr~f~v~~lpplg 19 (118)
..|||.||++|+|.+.
T Consensus 42 ~~GARdFVfwNipQiQ 57 (169)
T KOG4079|consen 42 QSGARDFVFWNIPQIQ 57 (169)
T ss_pred ccCccceEEecchhhc
Confidence 5799999999999875
No 16
>TIGR02744 TrbI_Ftype type-F conjugative transfer system protein TrbI. This protein is an essential component of the F-type conjugative transfer sytem for plasmid DNA transfer and has been shown to be localized to the periplasm.
Probab=75.24 E-value=8.5 Score=25.14 Aligned_cols=27 Identities=7% Similarity=0.102 Sum_probs=23.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhhccCC
Q 048377 36 SDFANQAAQIYNSKLQSVVDSLSKEFP 62 (118)
Q Consensus 36 ~~~~n~~~~~~N~~L~~~l~~l~~~~p 62 (118)
.++.+.+...||..|...|.+++++|-
T Consensus 57 e~q~~~~~~rF~~~L~~~L~~yq~~H~ 83 (112)
T TIGR02744 57 EAQQKALLGRFNALLEAELQAWQAQHH 83 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 567789999999999999999998873
No 17
>PRK13717 conjugal transfer protein TrbI; Provisional
Probab=73.27 E-value=8.2 Score=25.78 Aligned_cols=27 Identities=7% Similarity=0.211 Sum_probs=23.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhhccCC
Q 048377 36 SDFANQAAQIYNSKLQSVVDSLSKEFP 62 (118)
Q Consensus 36 ~~~~n~~~~~~N~~L~~~l~~l~~~~p 62 (118)
.+..+.++..||..|...|.+++++|.
T Consensus 70 e~q~e~lt~rF~~aL~~~L~~yq~~H~ 96 (128)
T PRK13717 70 EAQSKALSARFNTALEASLQAWQQKHH 96 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 567788999999999999999998773
No 18
>cd01832 SGNH_hydrolase_like_1 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid. Myxobacterial members of this subfamily have been reported to be involved in adventurous gliding motility.
Probab=70.88 E-value=14 Score=24.85 Aligned_cols=51 Identities=22% Similarity=0.326 Sum_probs=32.6
Q ss_pred CCcEEEEeCCCcc-CchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHH
Q 048377 6 GARRIGVLSLPPI-GCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLN 76 (118)
Q Consensus 6 GAr~f~v~~lppl-gc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~ 76 (118)
++ +++++++||. +-.|. ....+.....+|+.|++..++. .+.++|++..+.
T Consensus 105 ~~-~vil~~~~~~~~~~~~------------~~~~~~~~~~~n~~l~~~a~~~-------~v~~vd~~~~~~ 156 (185)
T cd01832 105 GA-RVVVFTIPDPAVLEPF------------RRRVRARLAAYNAVIRAVAARY-------GAVHVDLWEHPE 156 (185)
T ss_pred CC-EEEEecCCCccccchh------------HHHHHHHHHHHHHHHHHHHHHc-------CCEEEecccCcc
Confidence 44 5888888887 32221 1223456788888888766542 477888887653
No 19
>cd01839 SGNH_arylesterase_like SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=69.90 E-value=9.8 Score=26.40 Aligned_cols=57 Identities=18% Similarity=0.169 Sum_probs=35.2
Q ss_pred CCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHH
Q 048377 6 GARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLN 76 (118)
Q Consensus 6 GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~ 76 (118)
+..++++++.||+...+... .......+.....||+.+++..++. ++.++|.+.++.
T Consensus 124 ~~~~iil~~pp~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~a~~~-------~~~~iD~~~~~~ 180 (208)
T cd01839 124 PAPKILIVAPPPIRTPKGSL-------AGKFAGAEEKSKGLADAYRALAEEL-------GCHFFDAGSVGS 180 (208)
T ss_pred CCCCEEEEeCCccCccccch-------hhhhccHHHHHHHHHHHHHHHHHHh-------CCCEEcHHHHhc
Confidence 56778999888872211100 0122345677788888888766653 366889877653
No 20
>cd01829 SGNH_hydrolase_peri2 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=69.64 E-value=20 Score=24.46 Aligned_cols=48 Identities=15% Similarity=0.171 Sum_probs=30.0
Q ss_pred CCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHH
Q 048377 6 GARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNS 77 (118)
Q Consensus 6 GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~ 77 (118)
|+ ++++++.||+.- ...+.....+|..+++..++ . .+.++|++..+.+
T Consensus 108 ~~-~vili~~pp~~~----------------~~~~~~~~~~~~~~~~~a~~----~---~~~~id~~~~~~~ 155 (200)
T cd01829 108 GV-PVIWVGLPAMRS----------------PKLSADMVYLNSLYREEVAK----A---GGEFVDVWDGFVD 155 (200)
T ss_pred CC-cEEEEcCCCCCC----------------hhHhHHHHHHHHHHHHHHHH----c---CCEEEEhhHhhcC
Confidence 44 477888887641 12234556788777765543 2 3689999987643
No 21
>PF13472 Lipase_GDSL_2: GDSL-like Lipase/Acylhydrolase family; PDB: 1ES9_A 1WAB_A 3DT9_A 1BWQ_A 1FXW_A 3DT6_A 1BWR_A 3DT8_A 1BWP_A 2WAA_A ....
Probab=66.87 E-value=20 Score=23.21 Aligned_cols=53 Identities=19% Similarity=0.461 Sum_probs=33.7
Q ss_pred EEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHH
Q 048377 9 RIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNS 77 (118)
Q Consensus 9 ~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~ 77 (118)
+++++.+||..-.+.... ..........+|+.+++..++. .+.++|++..+.+
T Consensus 103 ~vi~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~a~~~-------~~~~id~~~~~~~ 155 (179)
T PF13472_consen 103 PVILVSPPPRGPDPRDPK---------QDYLNRRIDRYNQAIRELAKKY-------GVPFIDLFDAFDD 155 (179)
T ss_dssp EEEEEE-SCSSSSTTTTH---------TTCHHHHHHHHHHHHHHHHHHC-------TEEEEEHHHHHBT
T ss_pred cEEEecCCCccccccccc---------chhhhhhHHHHHHHHHHHHHHc-------CCEEEECHHHHcc
Confidence 888888887664432211 1334566778888887755432 5889999998654
No 22
>KOG0907 consensus Thioredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=64.70 E-value=9.3 Score=24.43 Aligned_cols=29 Identities=21% Similarity=0.517 Sum_probs=23.4
Q ss_pred HHHHHHhhhccCCCcEEEEEeccHHHHHHH
Q 048377 50 LQSVVDSLSKEFPDSRFVYFDIYNPLNSLI 79 (118)
Q Consensus 50 L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~ 79 (118)
+...+.+|..+||++.|+.+|+.. ..++.
T Consensus 39 i~P~~~~La~~y~~v~Flkvdvde-~~~~~ 67 (106)
T KOG0907|consen 39 IAPKFEKLAEKYPDVVFLKVDVDE-LEEVA 67 (106)
T ss_pred hhhHHHHHHHHCCCCEEEEEeccc-CHhHH
Confidence 445788899999999999999998 54444
No 23
>cd01823 SEST_like SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles two of the three components of typical Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxylic acid.
Probab=64.04 E-value=27 Score=24.98 Aligned_cols=37 Identities=16% Similarity=0.222 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHH
Q 048377 37 DFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNS 77 (118)
Q Consensus 37 ~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~ 77 (118)
...++.+..+|..+++..++.. ..++.++|++..|..
T Consensus 181 ~~~~~~~~~ln~~i~~~a~~~~----~~~v~fvD~~~~f~~ 217 (259)
T cd01823 181 PELNQLVDKLNALIRRAAADAG----DYKVRFVDTDAPFAG 217 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHhC----CceEEEEECCCCcCC
Confidence 4567778888888877665543 366889999987653
No 24
>cd01820 PAF_acetylesterase_like PAF_acetylhydrolase (PAF-AH)_like subfamily of SGNH-hydrolases. Platelet-activating factor (PAF) and PAF-AH are key players in inflammation and in atherosclerosis. PAF-AH is a calcium independent phospholipase A2 which exhibits strong substrate specificity towards PAF, hydrolyzing an acetyl ester at the sn-2 position. PAF-AH also degrades a family of oxidized PAF-like phospholipids with short sn-2 residues. In addition, PAF and PAF-AH are associated with neural migration and mammalian reproduction.
Probab=63.40 E-value=25 Score=24.55 Aligned_cols=49 Identities=22% Similarity=0.278 Sum_probs=29.8
Q ss_pred cEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHH
Q 048377 8 RRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLN 76 (118)
Q Consensus 8 r~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~ 76 (118)
.++++++++|.+..| ..+.+....+|+.+++..++ . ..+.++|++..+.
T Consensus 129 ~~Iil~~~~p~~~~~--------------~~~~~~~~~~n~~l~~~~~~----~--~~v~~vd~~~~~~ 177 (214)
T cd01820 129 AKILLLGLLPRGQNP--------------NPLRERNAQVNRLLAVRYDG----L--PNVTFLDIDKGFV 177 (214)
T ss_pred CeEEEEeccCCCCCc--------------hhHHHHHHHHHHHHHHHhcC----C--CCEEEEeCchhhc
Confidence 367888887765421 12334456777777654432 2 3578899998764
No 25
>COG4531 ZnuA ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]
Probab=61.99 E-value=25 Score=26.78 Aligned_cols=48 Identities=17% Similarity=0.383 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhccCC----CcEEEEEeccHHHHHHHHCCCCCCCccC
Q 048377 37 DFANQAAQIYNSKLQSVVDSLSKEFP----DSRFVYFDIYNPLNSLIQNPPQYGFEVA 90 (118)
Q Consensus 37 ~~~n~~~~~~N~~L~~~l~~l~~~~p----~~~i~~~D~~~~~~~i~~nP~~yGf~~~ 90 (118)
..+..-.+.||.+|...-.++..++. ---|++-|.|.+|.+ .||.+.+
T Consensus 180 a~y~aNlk~f~~~La~~d~~i~~~L~pvk~Kpf~VFHDAY~YFE~------~ygl~~~ 231 (318)
T COG4531 180 AKYDANLKDFEAQLAALDKKVGEELAPVKGKPFFVFHDAYGYFEN------AYGLKPL 231 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCeEEEechHHHHHH------hhCcccc
Confidence 44555577899988887666665542 245788999999998 5888765
No 26
>cd04501 SGNH_hydrolase_like_4 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid.
Probab=60.53 E-value=21 Score=24.04 Aligned_cols=58 Identities=17% Similarity=0.221 Sum_probs=35.5
Q ss_pred hcCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHH
Q 048377 4 GVGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSL 78 (118)
Q Consensus 4 ~~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i 78 (118)
+.|++ ++++..+|....+... .....+.....||..+++..++ ..+.++|.+..+.+.
T Consensus 94 ~~~~~-~il~~~~p~~~~~~~~---------~~~~~~~~~~~~n~~~~~~a~~-------~~v~~vd~~~~~~~~ 151 (183)
T cd04501 94 ANGIK-VILASPLPVDDYPWKP---------QWLRPANKLKSLNRWLKDYARE-------NGLLFLDFYSPLLDE 151 (183)
T ss_pred HCCCc-EEEEeCCCcCccccch---------hhcchHHHHHHHHHHHHHHHHH-------cCCCEEechhhhhcc
Confidence 34554 5666677665433211 1123356677888888776554 248899999987764
No 27
>PF09677 TrbI_Ftype: Type-F conjugative transfer system protein (TrbI_Ftype); InterPro: IPR014115 This entry represents TrbI, an essential component of the F-type conjugative transfer system for plasmid DNA transfer that has been shown to be localized to the periplasm [, ].
Probab=55.58 E-value=23 Score=22.98 Aligned_cols=26 Identities=12% Similarity=0.188 Sum_probs=23.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhhccC
Q 048377 36 SDFANQAAQIYNSKLQSVVDSLSKEF 61 (118)
Q Consensus 36 ~~~~n~~~~~~N~~L~~~l~~l~~~~ 61 (118)
.+.....+..||+.|...|.++++++
T Consensus 56 ~~q~~a~t~~F~~aL~~~L~~~~~~h 81 (111)
T PF09677_consen 56 PEQVEALTQRFMQALEASLAEYQAEH 81 (111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 56778899999999999999998765
No 28
>cd01823 SEST_like SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles two of the three components of typical Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxylic acid.
Probab=54.39 E-value=30 Score=24.77 Aligned_cols=35 Identities=20% Similarity=0.336 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHH
Q 048377 40 NQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNP 74 (118)
Q Consensus 40 n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~ 74 (118)
......|-+.|..+++++++..|+++|++...+.+
T Consensus 123 ~~~~~~~~~~l~~~l~~i~~~~p~a~I~~~gyp~~ 157 (259)
T cd01823 123 DAALDEVGARLKAVLDRIRERAPNARVVVVGYPRL 157 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHhhCCCcEEEEeccccc
Confidence 34466788899999999999999999988875444
No 29
>cd01835 SGNH_hydrolase_like_3 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=54.02 E-value=26 Score=23.82 Aligned_cols=49 Identities=14% Similarity=0.268 Sum_probs=30.7
Q ss_pred EEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHH
Q 048377 9 RIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNS 77 (118)
Q Consensus 9 ~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~ 77 (118)
++++++++|..-.. ....+.....+|+.+++..++. .+.++|+++.+.+
T Consensus 113 ~vi~~~~~p~~~~~-------------~~~~~~~~~~~n~~~~~~a~~~-------~~~~vd~~~~~~~ 161 (193)
T cd01835 113 PVLVVGPTPVDEAK-------------MPYSNRRIARLETAFAEVCLRR-------DVPFLDTFTPLLN 161 (193)
T ss_pred cEEEEeCCCccccc-------------cchhhHHHHHHHHHHHHHHHHc-------CCCeEeCccchhc
Confidence 47777777654211 0123556778888887765543 3678899887664
No 30
>PLN00123 isocitrate dehydrogenase (NAD+)
Probab=53.95 E-value=23 Score=27.83 Aligned_cols=38 Identities=16% Similarity=0.321 Sum_probs=32.2
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
..++...+..++||+..+-..=+-++...++.+|.+|.
T Consensus 204 lf~~~~~eva~eyPdV~~~~~~VDa~~~~Lv~~P~~fD 241 (360)
T PLN00123 204 LFLESCREVAKKYPGIKYNEIIVDNCCMQLVSKPEQFD 241 (360)
T ss_pred HHHHHHHHHHhhCCCceEeeeeHHHHHHHHhhCcccCc
Confidence 44556667777899999999989999999999999985
No 31
>COG3581 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.83 E-value=17 Score=28.98 Aligned_cols=46 Identities=22% Similarity=0.521 Sum_probs=30.0
Q ss_pred hhhcCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEecc
Q 048377 2 LYGVGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIY 72 (118)
Q Consensus 2 Ly~~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~ 72 (118)
+.+.|+.++ ..+.|.||.|.-... +.++..|++++|+++++-+|.-
T Consensus 328 ~i~~g~~nv--IclqPFGCmPnhI~~-----------------------kgm~k~lk~~~p~ani~aVd~d 373 (420)
T COG3581 328 LIESGVDNV--ICLQPFGCMPNHIVS-----------------------KGMIKGLKRDKPKANIAAVDYD 373 (420)
T ss_pred HHHcCCCce--EEecCccCCcHHHHH-----------------------HHHHHHHHhcCCCCceEEeecC
Confidence 455666665 456799999944321 3356677777788877777754
No 32
>cd04506 SGNH_hydrolase_YpmR_like Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid. This subfamily contains sequences similar to Bacillus YpmR.
Probab=53.03 E-value=45 Score=22.85 Aligned_cols=31 Identities=23% Similarity=0.512 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHhhhccCCCcEEEEEecc
Q 048377 42 AAQIYNSKLQSVVDSLSKEFPDSRFVYFDIY 72 (118)
Q Consensus 42 ~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~ 72 (118)
....|=+.|.+++..++++.|+++|+++..+
T Consensus 100 ~~~~~~~~l~~~i~~ir~~~p~~~Ivv~~~~ 130 (204)
T cd04506 100 AEETYQNNLKKIFKEIRKLNPDAPIFLVGLY 130 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCeEEEEecC
Confidence 4567888999999999999999999887653
No 33
>COG1182 AcpD Acyl carrier protein phosphodiesterase [Lipid metabolism]
Probab=52.02 E-value=21 Score=25.77 Aligned_cols=26 Identities=8% Similarity=0.267 Sum_probs=21.5
Q ss_pred HHHHHHHHhhhccCCCcEEEEEeccH
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDIYN 73 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~~~ 73 (118)
......++++++++|+.+|++.|.+.
T Consensus 20 ~l~~~Fi~~yk~~~P~dev~~~DL~~ 45 (202)
T COG1182 20 KLADEFIETYKEKHPNDEVIERDLAA 45 (202)
T ss_pred HHHHHHHHHHHHhCCCCeEEEeeccc
Confidence 34455688899999999999999886
No 34
>PRK03437 3-isopropylmalate dehydrogenase; Provisional
Probab=51.55 E-value=19 Score=27.99 Aligned_cols=38 Identities=21% Similarity=0.434 Sum_probs=31.3
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
..++...+..++||++++-..-+-+....++.+|.+|.
T Consensus 196 lf~~~~~eva~~ypdV~~~~~~vDa~~~~Lv~~P~~fD 233 (344)
T PRK03437 196 LWQRTVDEVAAEYPDVTVDYQHVDAATIFMVTDPSRFD 233 (344)
T ss_pred HHHHHHHHHHhhCCCceEeehhHHHHHHHHhcCcccCc
Confidence 34555667788899999888888888899999999986
No 35
>TIGR02089 TTC tartrate dehydrogenase. Tartrate dehydrogenase catalyzes the oxidation of both meso- and (+)-tartrate as well as a D-malate. These enzymes are closely related to the 3-isopropylmalate and isohomocitrate dehydrogenases found in TIGR00169 and TIGR02088, respectively.
Probab=51.34 E-value=21 Score=27.91 Aligned_cols=38 Identities=16% Similarity=0.363 Sum_probs=31.3
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
..++...+..++||++.+-+.=+-+....++.+|.+|.
T Consensus 199 lf~~~~~eva~~yp~v~~~~~~vD~~~~~lv~~P~~fD 236 (352)
T TIGR02089 199 FWDEVFAEVAAEYPDVEWDSYHIDALAARFVLKPETFD 236 (352)
T ss_pred HHHHHHHHHHhhCCCceEeeehHHHHHHHHhcChhhCc
Confidence 34455667778899999888888889999999999886
No 36
>cd02957 Phd_like Phosducin (Phd)-like family; composed of Phd and Phd-like proteins (PhLP), characterized as cytosolic regulators of G protein functions. Phd and PhLPs specifically bind G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane and impeding G protein-mediated signal transduction by inhibiting the formation of a functional G protein trimer (G protein alphabetagamma). Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-te
Probab=51.04 E-value=36 Score=21.30 Aligned_cols=25 Identities=24% Similarity=0.593 Sum_probs=19.1
Q ss_pred HHHHHHhhhccCCCcEEEEEeccHH
Q 048377 50 LQSVVDSLSKEFPDSRFVYFDIYNP 74 (118)
Q Consensus 50 L~~~l~~l~~~~p~~~i~~~D~~~~ 74 (118)
+...++++.+++++.+|+.+|....
T Consensus 42 l~~~l~~la~~~~~v~f~~vd~~~~ 66 (113)
T cd02957 42 LDSHLEELAAKYPETKFVKINAEKA 66 (113)
T ss_pred HHHHHHHHHHHCCCcEEEEEEchhh
Confidence 4455566666788899999999876
No 37
>PF02633 Creatininase: Creatinine amidohydrolase; InterPro: IPR003785 This family includes the enzymes creatininase and 2-amino-5-formylamino-6-ribosylaminopyrimidin-4(3H)-one 5'-monophosphate deformylase, also known as formamide hydrolase. Creatinase or creatinine amidohydrolase (3.5.2.10 from EC) catalyses the hydrolysis of creatinine to creatine, which can then be metabolised to urea and sarcosine by creatinase (3.5.3.3 from EC). Creatininase is a member of the urease-related amidohydrolase superfamily []. Formamide hydrolase catalyzes the hydrolysis of the formamide of 2-amino-5-formylamino-6-ribosylamino-4(3H)-pyrimidinone 5'-monophosphate (FAPy) to form 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (APy) (3.5.1.102 from EC). ; PDB: 3A6K_F 3A6F_A 3A6D_B 1J2U_B 3A6J_C 1J2T_A 3A6G_C 3A6H_F 1Q3K_E 3A6L_C ....
Probab=50.92 E-value=42 Score=24.18 Aligned_cols=50 Identities=22% Similarity=0.347 Sum_probs=32.1
Q ss_pred hhhcCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHH
Q 048377 2 LYGVGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSL 78 (118)
Q Consensus 2 Ly~~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i 78 (118)
|...|.|+|+|+|=.- + |. ..|+.++.+|+.++++..+..+|.+.+..+.
T Consensus 95 l~~~Gf~~ivivngHg----------------G-----N~------~~l~~~~~~l~~~~~~~~v~~~~~~~~~~~~ 144 (237)
T PF02633_consen 95 LARHGFRRIVIVNGHG----------------G-----NI------AALEAAARELRQEYPGVKVFVINWWQLAEDE 144 (237)
T ss_dssp HHHHT--EEEEEESST----------------T-----HH------HHHHHHHHHHHHHGCC-EEEEEEGGGCSHCH
T ss_pred HHHcCCCEEEEEECCH----------------h-----HH------HHHHHHHHHHHhhCCCcEEEEeechhccchh
Confidence 6678999999987431 1 11 2345556666666789999999999886654
No 38
>PRK00772 3-isopropylmalate dehydrogenase; Provisional
Probab=50.85 E-value=29 Score=27.15 Aligned_cols=39 Identities=28% Similarity=0.499 Sum_probs=32.7
Q ss_pred HHHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
...++...++.++||+..+-..=+-+....++.+|.+|.
T Consensus 199 glf~~~~~eva~eyp~i~~~~~~vDa~~~~lv~~P~~fD 237 (358)
T PRK00772 199 RLWREVVTEVAKEYPDVELSHMYVDNAAMQLVRNPKQFD 237 (358)
T ss_pred hHHHHHHHHHHhHCCCceEEEEeHHHHHHHHhhCcccCe
Confidence 455566777888899999988888899999999999985
No 39
>PRK08997 isocitrate dehydrogenase; Provisional
Probab=50.82 E-value=29 Score=26.87 Aligned_cols=38 Identities=21% Similarity=0.358 Sum_probs=30.0
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
..++...+..++||++.+-..=+-+....++.+|.+|.
T Consensus 183 lf~~~~~eva~~yP~V~~~~~~vDa~~~~lv~~P~~fd 220 (334)
T PRK08997 183 LFLKVAREVALRYPDIEFEEMIVDATCMQLVMNPEQFD 220 (334)
T ss_pred HHHHHHHHHHhhCCCeEEEeeeHHHHHHHHhhCcccCc
Confidence 34455566777899998877777788889999999985
No 40
>PF01903 CbiX: CbiX; InterPro: IPR002762 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents the CbiX protein, which functions as a cobalt-chelatase in the anaerobic biosynthesis of cobalamin. It catalyses the insertion of cobalt into sirohydrochlorin. The structure of CbiX from Archaeoglobus fulgidus consists of a central mixed beta-sheet flanked by four alpha-helices, although it is about half the size of other Class II tetrapyrrole chelatases []. The CbiX proteins found in archaea appear to be shorter than those found in eubacteria [].; GO: 0016829 lyase activity, 0046872 metal ion binding, 0009236 cobalamin biosynthetic process; PDB: 2XWQ_C 2DJ5_A 1TJN_A 2XWS_A 3LYH_B 2JH3_D.
Probab=50.64 E-value=15 Score=22.72 Aligned_cols=24 Identities=4% Similarity=0.041 Sum_probs=17.0
Q ss_pred HHHHHHhhhccCCCcEEEEEeccH
Q 048377 50 LQSVVDSLSKEFPDSRFVYFDIYN 73 (118)
Q Consensus 50 L~~~l~~l~~~~p~~~i~~~D~~~ 73 (118)
+.+.+++++.++|+.+|.+.....
T Consensus 71 Ip~~l~~~~~~~~~~~v~~~~pLG 94 (105)
T PF01903_consen 71 IPEALAEARERHPGIEVRVAPPLG 94 (105)
T ss_dssp HHHHHCHHHHCSTTEEEEE---GG
T ss_pred HHHHHHHHHhhCCceEEEECCCCC
Confidence 566788888899999998876543
No 41
>TIGR00175 mito_nad_idh isocitrate dehydrogenase, NAD-dependent, mitochondrial type. The NADP-dependent IDH of Thermus aquaticus thermophilus strain HB8 resembles these NAD-dependent IDH, except for the residues involved in cofactor specificity, much more closely than it resembles other prokaryotic NADP-dependent IDH, including that of Thermus aquaticus strain YT1.
Probab=50.53 E-value=25 Score=27.25 Aligned_cols=39 Identities=26% Similarity=0.456 Sum_probs=31.8
Q ss_pred HHHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
...++...+..++||+..+-+.=+-+....++.+|..|.
T Consensus 180 glf~~~~~eva~~yp~v~~~~~~vDa~~~~lv~~P~~fd 218 (333)
T TIGR00175 180 GLFLNVCREVAKEYPDITFESMIVDNTCMQLVSRPSQFD 218 (333)
T ss_pred HHHHHHHHHHHHHCCCCeeeeeeHHHHHHHHhcCccccc
Confidence 344556667777899999988888899999999999874
No 42
>PF12872 OST-HTH: OST-HTH/LOTUS domain; PDB: 2KPM_A 3S93_B 3RCO_A 2KZV_A.
Probab=50.25 E-value=17 Score=20.95 Aligned_cols=27 Identities=15% Similarity=0.246 Sum_probs=20.2
Q ss_pred EEEEEeccHHHHHHH--HCCCCCCCccCC
Q 048377 65 RFVYFDIYNPLNSLI--QNPPQYGFEVAD 91 (118)
Q Consensus 65 ~i~~~D~~~~~~~i~--~nP~~yGf~~~~ 91 (118)
.+...++-..+.... =+|..|||+...
T Consensus 23 ~v~ls~l~~~~~~~~~~f~~~~yG~~~l~ 51 (74)
T PF12872_consen 23 WVSLSQLGQEYKKKYPDFDPRDYGFSSLS 51 (74)
T ss_dssp SEEHHHHHHHHHHHHTT--TCCTTSSSHH
T ss_pred eEEHHHHHHHHHHHCCCCCccccCCCcHH
Confidence 677888888888887 458999997643
No 43
>TIGR00169 leuB 3-isopropylmalate dehydrogenase. This model will not find all isopropylmalate dehydrogenases; the enzyme from Sulfolobus sp. strain 7 is more similar to mitochondrial NAD-dependent isocitrate dehydrogenases than to other known isopropylmalate dehydrogenases and was omitted to improve the specificity of the model. It scores below the cutoff and below some enzymes known not to be isopropylmalate dehydrogenase.
Probab=48.53 E-value=34 Score=26.68 Aligned_cols=38 Identities=26% Similarity=0.460 Sum_probs=31.5
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
..++...+..++||++.+-..-+-+....++.+|.+|.
T Consensus 197 lf~~~~~eva~~yP~I~~~~~~vDa~~~~Lv~~P~~fD 234 (349)
T TIGR00169 197 LWRKTVEEIAKEYPDVELEHQYIDNAAMQLVKSPTQFD 234 (349)
T ss_pred HHHHHHHHHHhhCCCceEEeeeHHHHHHHHHhCccCce
Confidence 45556667778899999888888889999999999884
No 44
>PLN00118 isocitrate dehydrogenase (NAD+)
Probab=47.38 E-value=30 Score=27.28 Aligned_cols=39 Identities=15% Similarity=0.284 Sum_probs=31.7
Q ss_pred HHHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
...++...+..++||++.+-..-+-+....++.+|.+|.
T Consensus 219 glf~e~~~eva~eyPdI~~~~~~VDa~a~~Lv~~P~~fD 257 (372)
T PLN00118 219 GLFLKCCREVAEKYPEIVYEEVIIDNCCMMLVKNPALFD 257 (372)
T ss_pred HHHHHHHHHHHhhCCCceEEeeeHHHHHHHhccCcccCc
Confidence 345556677778899998888888888899999999884
No 45
>cd02989 Phd_like_TxnDC9 Phosducin (Phd)-like family, Thioredoxin (TRX) domain containing protein 9 (TxnDC9) subfamily; composed of predominantly uncharacterized eukaryotic proteins, containing a TRX-like domain without the redox active CXXC motif. The gene name for the human protein is TxnDC9. The two characterized members are described as Phd-like proteins, PLP1 of Saccharomyces cerevisiae and PhLP3 of Dictyostelium discoideum. Gene disruption experiments show that both PLP1 and PhLP3 are non-essential proteins. Unlike Phd and most Phd-like proteins, members of this group do not contain the Phd N-terminal helical domain which is implicated in binding to the G protein betagamma subunit.
Probab=47.09 E-value=28 Score=22.08 Aligned_cols=26 Identities=12% Similarity=0.310 Sum_probs=19.3
Q ss_pred HHHHHHhhhccCCCcEEEEEeccHHH
Q 048377 50 LQSVVDSLSKEFPDSRFVYFDIYNPL 75 (118)
Q Consensus 50 L~~~l~~l~~~~p~~~i~~~D~~~~~ 75 (118)
+...+.+|.+++|+.+|+.+|+...-
T Consensus 40 ~~p~l~~la~~~~~i~f~~Vd~~~~~ 65 (113)
T cd02989 40 MDKHLEILAKKHLETKFIKVNAEKAP 65 (113)
T ss_pred HHHHHHHHHHHcCCCEEEEEEcccCH
Confidence 34455666667789999999998854
No 46
>PRK08194 tartrate dehydrogenase; Provisional
Probab=46.32 E-value=24 Score=27.57 Aligned_cols=38 Identities=13% Similarity=0.250 Sum_probs=31.2
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
..++...+..++||++.+-..-+-.....++.+|.+|.
T Consensus 196 lf~~~~~eva~~yp~V~~~~~~vDa~~~~Lv~~P~~fD 233 (352)
T PRK08194 196 FWDEVFQEVGKDYPEIETDSQHIDALAAFFVTRPEEFD 233 (352)
T ss_pred HHHHHHHHHHhhCCCceeeehhHHHHHHHHhhChhhCc
Confidence 34455667778899999888888889999999999986
No 47
>KOG3035 consensus Isoamyl acetate-hydrolyzing esterase [Lipid transport and metabolism]
Probab=46.03 E-value=89 Score=23.10 Aligned_cols=67 Identities=10% Similarity=0.158 Sum_probs=43.8
Q ss_pred cEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCC
Q 048377 8 RRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNP 82 (118)
Q Consensus 8 r~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP 82 (118)
.++++++-||+...-........ .-.-.++.|+.+..|++.+.+...++ .+-.+|.++.+++.-+-+
T Consensus 116 ~riIlitPpp~de~~~~~~~~e~-~~~~~~RtNe~~~~Ya~ac~~la~e~-------~l~~vdlws~~Q~~~dw~ 182 (245)
T KOG3035|consen 116 TRIILITPPPVDEEAWEKQEQEP-YVLGPERTNETVGTYAKACANLAQEI-------GLYVVDLWSKMQESDDWQ 182 (245)
T ss_pred ceEEEecCCCcCHHHHHHHhccc-hhccchhhhhHHHHHHHHHHHHHHHh-------CCeeeeHHhhhhhcccHH
Confidence 45788888888776444433211 11224568999999999988877665 356778877777643333
No 48
>PRK14025 multifunctional 3-isopropylmalate dehydrogenase/D-malate dehydrogenase; Provisional
Probab=44.87 E-value=40 Score=26.11 Aligned_cols=39 Identities=15% Similarity=0.283 Sum_probs=31.2
Q ss_pred HHHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
...++...+..++||+..+-..=+-+....++.+|.+|.
T Consensus 179 glf~e~~~eva~~yp~i~~~~~~vDa~~~~lv~~P~~fD 217 (330)
T PRK14025 179 GLFKKTFYEVAKEYPDIKAEDYYVDAMNMYIITRPQTFD 217 (330)
T ss_pred HHHHHHHHHHHhhCCCeEEEeeeHHHHHHHHhcCcccCc
Confidence 445556667777899988888878888899999999985
No 49
>cd03416 CbiX_SirB_N Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase, responsible for the chelation of Co2+ into sirohydrochlorin, an important step in the vitamin B12 biosynthetic pathway. CbiX often contains a C-terminal histidine-rich region that may be important for metal delivery and/or storage, and may also contain an iron-sulfur center. Both are found in a wide range of bacteria. This subgroup also contains single domain proteins from archaea and bacteria which may represent the ancestral form of class II chelatases before domain duplication occurred.
Probab=43.30 E-value=25 Score=21.57 Aligned_cols=22 Identities=14% Similarity=0.314 Sum_probs=15.4
Q ss_pred HHHHHHHhhhccCCCcEEEEEe
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFD 70 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D 70 (118)
.+...+++++.++|+.+|.+.+
T Consensus 77 dip~~~~~~~~~~~~~~i~~~~ 98 (101)
T cd03416 77 DIPAALAAARARHPGVRIRYAP 98 (101)
T ss_pred cHHHHHHHHHHHCCCeEEEecC
Confidence 4555666677778888887764
No 50
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=40.84 E-value=51 Score=23.52 Aligned_cols=33 Identities=21% Similarity=0.406 Sum_probs=22.9
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHHHHHHHHC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQN 81 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~n 81 (118)
.|..+..++.+++|+.+++|++...++.++++.
T Consensus 50 LL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~~~ 82 (219)
T PF00308_consen 50 LLQAIANEAQKQHPGKRVVYLSAEEFIREFADA 82 (219)
T ss_dssp HHHHHHHHHHHHCTTS-EEEEEHHHHHHHHHHH
T ss_pred HHHHHHHHHHhccccccceeecHHHHHHHHHHH
Confidence 355555666667789999999988877766543
No 51
>PF02384 N6_Mtase: N-6 DNA Methylase; InterPro: IPR003356 This domain is fpound in N-6 adenine-specific DNA methylase (2.1.1.72 from EC) from Type I and Type IC restriction systems. These enzymes are responsible for the methylation of specific DNA sequences in order to prevent the host from digesting its own genome via its restriction enzymes. These methylases have the same sequence specificity as their corresponding restriction enzymes. The type I restriction and modification system is composed of three polypeptides R, M and S. The M and S subunits together form a methyltransferase that methylates two adenine residues in complementary strands of a bipartite DNA recognition sequence. In the presence of the R subunit, the complex can also act as an endonuclease, binding to the same target sequence but cutting the DNA some distance from this site. Whether the DNA is cut or modified depends on the methylation state of the target sequence. When the target site is unmodified, the DNA is cut. When the target site is hemimethylated, the complex acts as a maintenance methyltransferase, modifying the DNA so that both strands become methylated.; GO: 0003677 DNA binding, 0008170 N-methyltransferase activity, 0006306 DNA methylation; PDB: 2F8L_A 2Y7C_C 2Y7H_C 2AR0_B 3KHK_A 3LKD_A 2OKC_B.
Probab=39.03 E-value=21 Score=26.60 Aligned_cols=55 Identities=16% Similarity=0.277 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCCCccCCcceeccccc
Q 048377 42 AAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYGFEVADKGCCGTGNL 100 (118)
Q Consensus 42 ~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yGf~~~~~aCCg~g~~ 100 (118)
+...|-..|.....+-+ +--|.-+.--.+-.++.+++ +|. .-..+.++|||+|.+
T Consensus 6 ~g~~yE~~l~~~~~~~~-k~~G~~~TP~~i~~l~~~~~-~~~--~~~~VlDPacGsG~f 60 (311)
T PF02384_consen 6 LGDLYEYFLKKFAKESR-KKLGQFYTPREIVDLMVKLL-NPK--KGDSVLDPACGSGGF 60 (311)
T ss_dssp HHHHHHHHHHHHHHCTT-TSCGGC---HHHHHHHHHHH-TT---TTEEEEETT-TTSHH
T ss_pred HHHHHHHHHHHHHHHhc-cccceeehHHHHHHHHHhhh-hcc--ccceeechhhhHHHH
Confidence 34455555555433333 23366677777778888888 332 223578999999854
No 52
>PF12905 Glyco_hydro_101: Endo-alpha-N-acetylgalactosaminidase; PDB: 3ECQ_B 2ZXQ_A.
Probab=37.67 E-value=32 Score=27.58 Aligned_cols=25 Identities=24% Similarity=0.522 Sum_probs=16.9
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccH
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYN 73 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~ 73 (118)
.+.+.+.+|+...|...++|+|+|.
T Consensus 159 ~~~~R~~~L~~~~~~ld~iYvDV~~ 183 (425)
T PF12905_consen 159 ARFKRFDQLKETVPNLDFIYVDVWY 183 (425)
T ss_dssp HHHHHHHHHHHHTTT--EEEEESTT
T ss_pred hHHHHHHHHhccccCCCeEEEEecc
Confidence 4445556777777899999999873
No 53
>cd01828 sialate_O-acetylesterase_like2 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=37.62 E-value=70 Score=21.10 Aligned_cols=31 Identities=19% Similarity=0.396 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHhhhccCCCcEEEEEeccH
Q 048377 43 AQIYNSKLQSVVDSLSKEFPDSRFVYFDIYN 73 (118)
Q Consensus 43 ~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~ 73 (118)
...|-..+.+++..+++++|+++|++.....
T Consensus 67 ~~~~~~~l~~li~~~~~~~~~~~vi~~~~~p 97 (169)
T cd01828 67 DEDIVANYRTILEKLRKHFPNIKIVVQSILP 97 (169)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCeEEEEecCC
Confidence 4677788888899999888999999986643
No 54
>PF08331 DUF1730: Domain of unknown function (DUF1730); InterPro: IPR013542 This domain of unknown function occurs in iron-sulphur cluster-binding proteins together with the 4Fe-4S binding domain (IPR001450 from INTERPRO).
Probab=37.51 E-value=70 Score=19.01 Aligned_cols=25 Identities=20% Similarity=0.469 Sum_probs=15.2
Q ss_pred HHHHHHHHHHhhhccCCCcEE-EEEe
Q 048377 46 YNSKLQSVVDSLSKEFPDSRF-VYFD 70 (118)
Q Consensus 46 ~N~~L~~~l~~l~~~~p~~~i-~~~D 70 (118)
.-.+|+++.+.|+++.|+.++ +++|
T Consensus 52 lk~~L~~l~~~i~~~~~~~~~r~~VD 77 (78)
T PF08331_consen 52 LKKKLEQLAEWIRELGPDFEYRIFVD 77 (78)
T ss_pred HHHHHHHHHHHHHHHCCCCCeEEeec
Confidence 345666666677777787643 3444
No 55
>cd02987 Phd_like_Phd Phosducin (Phd)-like family, Phd subfamily; Phd is a cytosolic regulator of G protein functions. It specifically binds G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane. This impedes the formation of a functional G protein trimer (G protein alphabetagamma), thereby inhibiting G protein-mediated signal transduction. Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=37.50 E-value=46 Score=23.03 Aligned_cols=26 Identities=23% Similarity=0.367 Sum_probs=20.3
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHH
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNP 74 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~ 74 (118)
.|...+.+|.+++|+++|+.+|+-..
T Consensus 100 ~m~~~l~~LA~~~~~vkF~kVd~d~~ 125 (175)
T cd02987 100 ALNSSLLCLAAEYPAVKFCKIRASAT 125 (175)
T ss_pred HHHHHHHHHHHHCCCeEEEEEeccch
Confidence 44555667777889999999999874
No 56
>PRK13384 delta-aminolevulinic acid dehydratase; Provisional
Probab=37.32 E-value=49 Score=25.56 Aligned_cols=52 Identities=23% Similarity=0.296 Sum_probs=32.4
Q ss_pred hhhcCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEec
Q 048377 2 LYGVGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDI 71 (118)
Q Consensus 2 Ly~~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~ 71 (118)
+.++|.+.|+++++|+. .-+.-. +..|. |..+...+..+++++|+.- ++.|+
T Consensus 70 ~~~~Gi~~v~lFgv~~~-Kd~~gs-----------~A~~~-----~g~v~~air~iK~~~pdl~-vi~DV 121 (322)
T PRK13384 70 LYALGIRYVMPFGISHH-KDAKGS-----------DTWDD-----NGLLARMVRTIKAAVPEMM-VIPDI 121 (322)
T ss_pred HHHcCCCEEEEeCCCCC-CCCCcc-----------cccCC-----CChHHHHHHHHHHHCCCeE-EEeee
Confidence 67899999999999642 222110 11111 3456677888888899865 44554
No 57
>cd01401 PncB_like Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction in the NAD salvage synthesis. This salvage pathway serves to recycle NAD degradation products. This subgroup is present in bacteria, archea and funghi.
Probab=37.30 E-value=64 Score=25.47 Aligned_cols=23 Identities=9% Similarity=0.317 Sum_probs=16.8
Q ss_pred HHHHhhhccCCCc-EEEEEeccHH
Q 048377 52 SVVDSLSKEFPDS-RFVYFDIYNP 74 (118)
Q Consensus 52 ~~l~~l~~~~p~~-~i~~~D~~~~ 74 (118)
.++..+.+.+|+. .|.+.|+|+.
T Consensus 236 ~A~~~w~~~y~~~l~i~L~DTy~t 259 (377)
T cd01401 236 AALERWVREYGGDLGIALTDTFGT 259 (377)
T ss_pred HHHHHHHHHcCCCCeEEEEecCCC
Confidence 3566677777766 7888888875
No 58
>PLN02329 3-isopropylmalate dehydrogenase
Probab=37.20 E-value=26 Score=28.02 Aligned_cols=38 Identities=26% Similarity=0.460 Sum_probs=30.5
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
..++...+..++||++.+-..-+-.....++.+|.+|.
T Consensus 245 lf~~~~~evA~eyPdV~~~~~~VDa~a~~LV~~P~~FD 282 (409)
T PLN02329 245 LWRKRVTALASEYPDVELSHMYVDNAAMQLIRDPKQFD 282 (409)
T ss_pred HHHHHHHHHHhhCCCcccchhHHHHHHHHHhcCchhCC
Confidence 34455667777899988888778888899999999986
No 59
>PF00180 Iso_dh: Isocitrate/isopropylmalate dehydrogenase; InterPro: IPR024084 Isocitrate dehydrogenase (IDH) [, ] is an important enzyme of carbohydrate metabolism which catalyses the oxidative decarboxylation of isocitrate into alpha-ketoglutarate. IDH is either dependent on NAD+ (1.1.1.41 from EC) or on NADP+ (1.1.1.42 from EC). In eukaryotes there are at least three isozymes of IDH: two are located in the mitochondrial matrix (one NAD+-dependent, the other NADP+-dependent), while the third one (also NADP+-dependent) is cytoplasmic. In Escherichia coli the activity of a NADP+-dependent form of the enzyme is controlled by the phosphorylation of a serine residue; the phosphorylated form of IDH is completely inactivated. 3-isopropylmalate dehydrogenase (1.1.1.85 from EC) (IMDH) [, ] catalyses the third step in the biosynthesis of leucine in bacteria and fungi, the oxidative decarboxylation of 3-isopropylmalate into 2-oxo-4-methylvalerate. Tartrate dehydrogenase (1.1.1.93 from EC) [] catalyses the reduction of tartrate to oxaloglycolate. These enzymes are evolutionary related. To this family also belongs the enzyme tartrate dehydrogenase, which shows strong homology to prokaryotic isopropylmalate dehydrogenases and, to a lesser extent, isocitrate dehydrogenase []. This entry represents a structural domain found in all types of isocitrate dehydrogenase, and in isopropylmalate dehydrogenase and tartrate dehydrogenase. The crystal structure of Escherichia coli isopropylmalate dehydrogenase has been described []. ; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0055114 oxidation-reduction process; PDB: 1WAL_A 1CNZ_B 2D4V_C 1CM7_A 4AOY_D 3FMX_X 3FLK_C 1A05_A 1X0L_B 4F7I_D ....
Probab=37.03 E-value=35 Score=26.42 Aligned_cols=38 Identities=24% Similarity=0.440 Sum_probs=31.8
Q ss_pred HHHHHHHhhhc-cCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 49 KLQSVVDSLSK-EFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 49 ~L~~~l~~l~~-~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
..++...++.+ +||+..+-..-+-+....++.+|..|.
T Consensus 195 lf~~~~~eva~~~yp~I~~~~~~vD~~~~~Lv~~P~~fd 233 (348)
T PF00180_consen 195 LFREVFQEVAKQEYPDIEVEHMLVDAAAMQLVKNPEQFD 233 (348)
T ss_dssp HHHHHHHHHHHHTHTTSEEEEEEHHHHHHHHHHSGGGES
T ss_pred HHHHHHHHHHHhhcceeEeeeeechhhhheeecCCccee
Confidence 44555666666 899999999999999999999999886
No 60
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=36.77 E-value=38 Score=18.82 Aligned_cols=32 Identities=13% Similarity=0.338 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCCC
Q 048377 45 IYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 45 ~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yGf 87 (118)
+-+..+.++-..+.+ ....+...++||-.||-
T Consensus 18 qlG~s~~~isr~i~R-----------Sr~~Ir~yl~dP~~ygt 49 (50)
T PF11427_consen 18 QLGMSLREISRRIGR-----------SRTCIRRYLKDPVNYGT 49 (50)
T ss_dssp HTT--HHHHHHHHT-------------HHHHHHHHHSCCCTT-
T ss_pred HhchhHHHHHHHhCc-----------cHHHHHHHhcChhhccC
Confidence 344556666666554 35788999999999983
No 61
>cd02988 Phd_like_VIAF Phosducin (Phd)-like family, Viral inhibitor of apoptosis (IAP)-associated factor (VIAF) subfamily; VIAF is a Phd-like protein that functions in caspase activation during apoptosis. It was identified as an IAP binding protein through a screen of a human B-cell library using a prototype IAP. VIAF lacks a consensus IAP binding motif and while it does not function as an IAP antagonist, it still plays a regulatory role in the complete activation of caspases. VIAF itself is a substrate for IAP-mediated ubiquitination, suggesting that it may be a target of IAPs in the prevention of cell death. The similarity of VIAF to Phd points to a potential role distinct from apoptosis regulation. Phd functions as a cytosolic regulator of G protein by specifically binding to G protein betagamma (Gbg)-subunits. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=35.46 E-value=49 Score=23.34 Aligned_cols=26 Identities=27% Similarity=0.452 Sum_probs=20.2
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHH
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNP 74 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~ 74 (118)
.|...+.+|+++|++++|+-+|+-..
T Consensus 119 ~m~~~l~~LA~k~~~vkFvkI~ad~~ 144 (192)
T cd02988 119 LLNQHLSELARKFPDTKFVKIISTQC 144 (192)
T ss_pred HHHHHHHHHHHHCCCCEEEEEEhHHh
Confidence 44556677777889999999999753
No 62
>cd04824 eu_ALAD_PBGS_cysteine_rich Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll. This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. The eukaryotic PBGSs represented by this model, which contain a cysteine-rich zinc binding motif (DXCXCX(Y/F)X3G(H/Q)CG), require zinc for their activity, they
Probab=35.38 E-value=54 Score=25.34 Aligned_cols=54 Identities=15% Similarity=0.201 Sum_probs=32.3
Q ss_pred ChhhcCCcEEEEeCCCccC-chhh-hhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEec
Q 048377 1 ELYGVGARRIGVLSLPPIG-CVPV-QRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDI 71 (118)
Q Consensus 1 ~Ly~~GAr~f~v~~lpplg-c~P~-~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~ 71 (118)
++.++|.+.|+++++|+-. ..+. .... . .=|..+++.+..+++++|+.- ++.|+
T Consensus 59 ~~~~~Gi~~v~LFgv~~~~~Kd~~~gs~a-----------~-----~~~g~v~~air~iK~~~pdl~-vi~Dv 114 (320)
T cd04824 59 PLVAKGLRSVILFGVPLKPGKDDRSGSAA-----------D-----DEDGPVIQAIKLIREEFPELL-IACDV 114 (320)
T ss_pred HHHHCCCCEEEEeCCCccccCCcCccccc-----------c-----CCCChHHHHHHHHHHhCCCcE-EEEee
Confidence 3678999999999996432 3332 1100 0 112345667777888888754 44554
No 63
>cd00384 ALAD_PBGS Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll. This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. They either contain a cysteine-rich zinc binding site (consensus DXCXCX(Y/F)X3G(H/Q)CG) or an aspartate-rich magnesium binding site (consensus DXALDX(Y/F)X3G(H/Q)DG). The cyste
Probab=34.60 E-value=62 Score=24.95 Aligned_cols=53 Identities=17% Similarity=0.323 Sum_probs=32.0
Q ss_pred ChhhcCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEec
Q 048377 1 ELYGVGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDI 71 (118)
Q Consensus 1 ~Ly~~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~ 71 (118)
++.++|.+.|+++++|.. ..+.-. +..|. |..+...+..+++++|+.- ++.|+
T Consensus 59 ~~~~~Gi~~v~LFgv~~~-Kd~~gs-----------~A~~~-----~g~v~~air~iK~~~p~l~-vi~Dv 111 (314)
T cd00384 59 ELADLGIRAVILFGIPEH-KDEIGS-----------EAYDP-----DGIVQRAIRAIKEAVPELV-VITDV 111 (314)
T ss_pred HHHHCCCCEEEEECCCCC-CCCCcc-----------cccCC-----CChHHHHHHHHHHhCCCcE-EEEee
Confidence 367899999999999642 222110 11111 2345667778888888754 44454
No 64
>TIGR02088 LEU3_arch isopropylmalate/isohomocitrate dehydrogenases. This family is closely related to both the LeuB genes found in TIGR00169 and the mitochondrial eukaryotic isocitrate dehydratases found in TIGR00175. All of these are included within the broader subfamily model, pfam00180.
Probab=33.69 E-value=73 Score=24.57 Aligned_cols=37 Identities=11% Similarity=0.303 Sum_probs=29.8
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
..++...+..++|| +.+-+.=+-.....++.+|.+|.
T Consensus 176 lf~~~~~eva~~yp-v~~~~~~vDa~~~~lv~~P~~fd 212 (322)
T TIGR02088 176 LFREVCREIAKRYG-VEYRDMYVDSAAMNLVKDPWRFD 212 (322)
T ss_pred HHHHHHHHHHHhCC-eeeeeeeHHHHHHHHhhCCcCce
Confidence 45566677788899 88877777788899999999984
No 65
>PRK09222 isocitrate dehydrogenase; Validated
Probab=33.56 E-value=65 Score=26.37 Aligned_cols=38 Identities=24% Similarity=0.399 Sum_probs=30.8
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
..++...+..++||+..+-..=+-.....++.+|.+|.
T Consensus 185 lf~~v~~eva~eyPdI~~~~~~VDa~a~~Lv~~P~~FD 222 (482)
T PRK09222 185 LFHKVFDEIAKEYPDIEAEHYIVDIGAARLATNPENFD 222 (482)
T ss_pred HHHHHHHHHHhhCCCceEeeeeHHHHHHHHhcCcccce
Confidence 34555667777899998888888888899999999985
No 66
>cd08448 PBP2_LTTR_aromatics_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type regulator similar to CbnR which is involved in the regulation of chlorocatechol breakdown. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Ve
Probab=33.48 E-value=69 Score=20.58 Aligned_cols=41 Identities=15% Similarity=0.389 Sum_probs=28.3
Q ss_pred HHHHHHHHHhhhccCCCcEEEEEe--ccHHHHHHHHCCCCCCC
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYFD--IYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~D--~~~~~~~i~~nP~~yGf 87 (118)
...|...+.++.+++|++++-+.. ......++.+.--..||
T Consensus 12 ~~~l~~~l~~~~~~~P~i~i~i~~~~~~~~~~~l~~~~~Di~i 54 (197)
T cd08448 12 YRGLPRILRAFRAEYPGIEVALHEMSSAEQIEALLRGELDLGF 54 (197)
T ss_pred HHHHHHHHHHHHHHCCCCeEEEEeCCHHHHHHHHHcCCcceEE
Confidence 356677889999999998887763 45566666555444554
No 67
>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B.
Probab=33.46 E-value=38 Score=23.85 Aligned_cols=32 Identities=13% Similarity=0.325 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHhhhccCCCcEEEEEeccHH
Q 048377 43 AQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNP 74 (118)
Q Consensus 43 ~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~ 74 (118)
...|-..+...+..++++||+.-|+++.....
T Consensus 73 ~~~~~~~~~~fv~~iR~~hP~tPIllv~~~~~ 104 (178)
T PF14606_consen 73 PEEFRERLDGFVKTIREAHPDTPILLVSPIPY 104 (178)
T ss_dssp TTTHHHHHHHHHHHHHTT-SSS-EEEEE----
T ss_pred HHHHHHHHHHHHHHHHHhCCCCCEEEEecCCc
Confidence 45678889999999999999999999985543
No 68
>cd04823 ALAD_PBGS_aspartate_rich Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll. This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. All of PBGS_aspartate_rich contain an aspartate rich metal binding site with the general sequence DXALDX(Y/F)X3G(H/Q)DG. They also contain an allosteric magnesiu
Probab=33.30 E-value=61 Score=25.06 Aligned_cols=54 Identities=13% Similarity=0.258 Sum_probs=31.8
Q ss_pred ChhhcCCcEEEEeCCCc-cCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEec
Q 048377 1 ELYGVGARRIGVLSLPP-IGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDI 71 (118)
Q Consensus 1 ~Ly~~GAr~f~v~~lpp-lgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~ 71 (118)
++.++|.+.|++++++| -..-+.-. +..|. |..+...+..+++++|+.- ++.|+
T Consensus 62 ~~~~~Gi~~v~lFgv~~~~~KD~~gs-----------~A~~~-----~g~v~~air~iK~~~p~l~-vi~DV 116 (320)
T cd04823 62 EAVDLGIPAVALFPVTPPELKSEDGS-----------EAYNP-----DNLVCRAIRAIKEAFPELG-IITDV 116 (320)
T ss_pred HHHHcCCCEEEEecCCCcccCCcccc-----------cccCC-----CChHHHHHHHHHHhCCCcE-EEEee
Confidence 36789999999999853 22222111 11111 2345667778888888754 44454
No 69
>PF11965 DUF3479: Domain of unknown function (DUF3479); InterPro: IPR022571 This functionally uncharacterised domain, found N-terminal to PF02514 from PFAM, occurs in magnesium chelatase subunit H, which is involved in chlorophyll biosynthesis. It is found in bacteria, green plants and archaea. It is around 160 amino acids in length.; GO: 0016851 magnesium chelatase activity
Probab=33.10 E-value=77 Score=22.03 Aligned_cols=30 Identities=23% Similarity=0.342 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHhhhcc-CCCcEEEEEeccHH
Q 048377 45 IYNSKLQSVVDSLSKE-FPDSRFVYFDIYNP 74 (118)
Q Consensus 45 ~~N~~L~~~l~~l~~~-~p~~~i~~~D~~~~ 74 (118)
.||..|..+.+.|+++ .||..+.++....+
T Consensus 11 ~~~~al~~aa~~l~~~~~p~l~l~~~~~~el 41 (164)
T PF11965_consen 11 HYNSALYRAAARLNRDHCPGLELSVFAAAEL 41 (164)
T ss_pred hhhHHHHHHHHHHhhccCCCeEEEEEeHHHh
Confidence 4566666666666665 66666666655443
No 70
>cd04502 SGNH_hydrolase_like_7 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid.
Probab=32.96 E-value=74 Score=21.07 Aligned_cols=29 Identities=14% Similarity=0.353 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHhhhccCCCcEEEEEec
Q 048377 43 AQIYNSKLQSVVDSLSKEFPDSRFVYFDI 71 (118)
Q Consensus 43 ~~~~N~~L~~~l~~l~~~~p~~~i~~~D~ 71 (118)
.+.|-+.++++++.+++..|++++++...
T Consensus 69 ~~~~~~~~~~lv~~i~~~~~~~~iil~~~ 97 (171)
T cd04502 69 PEEVLRDFRELVNRIRAKLPDTPIAIISI 97 (171)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCcEEEEEe
Confidence 56677888889999998889998888763
No 71
>cd08445 PBP2_BenM_CatM_CatR The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold. This CD includes the C-terminal of LysR-type transcription regulators, BenM, CatM, and CatR, which are involved in the benzoate catabolism. The BenM and CatM are paralogs with overlapping functions. BenM responds synergistically to two effectors, benzoate and cis,cis-muconate, to activate expression of the benABCDE operon which is involved in benzoate catabolism, while CatM responses only to muconate. BenM and CatM share high protein sequence identity and bind to the operator-promoter regions that have similar DNA sequences. In Pseudomonas species, phenolic compounds are converted by different enzymes to central intermediates, such as protocatechuate and catechols. Generally, unsubstituted compounds, such as benzoate, are metabolized by an ortho-cleavage pathway. The catBCA operon encodes three enzymes
Probab=32.48 E-value=75 Score=20.85 Aligned_cols=41 Identities=15% Similarity=0.313 Sum_probs=29.1
Q ss_pred HHHHHHHHHhhhccCCCcEEEEEe--ccHHHHHHHHCCCCCCC
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYFD--IYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~D--~~~~~~~i~~nP~~yGf 87 (118)
...|...+.++.+++|+.++-+.. .......+.+.--..||
T Consensus 13 ~~~l~~~l~~~~~~~P~i~l~i~~~~~~~~~~~l~~~~~Dl~i 55 (203)
T cd08445 13 YGLLPELIRRFRQAAPDVEIELIEMTTVQQIEALKEGRIDVGF 55 (203)
T ss_pred HhHHHHHHHHHHHHCCCeEEEEEeCChHHHHHHHHcCCCcEEE
Confidence 356777888999999998887764 45566666665555555
No 72
>cd01844 SGNH_hydrolase_like_6 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=31.92 E-value=64 Score=21.64 Aligned_cols=27 Identities=19% Similarity=0.404 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHhhhccCCCcEEEEEec
Q 048377 45 IYNSKLQSVVDSLSKEFPDSRFVYFDI 71 (118)
Q Consensus 45 ~~N~~L~~~l~~l~~~~p~~~i~~~D~ 71 (118)
.|-+.+..+++++++++|++.|++...
T Consensus 75 ~~~~~~~~~i~~i~~~~p~~~iil~~~ 101 (177)
T cd01844 75 MVRERLGPLVKGLRETHPDTPILLVSP 101 (177)
T ss_pred HHHHHHHHHHHHHHHHCcCCCEEEEec
Confidence 678899999999999999999888763
No 73
>cd01820 PAF_acetylesterase_like PAF_acetylhydrolase (PAF-AH)_like subfamily of SGNH-hydrolases. Platelet-activating factor (PAF) and PAF-AH are key players in inflammation and in atherosclerosis. PAF-AH is a calcium independent phospholipase A2 which exhibits strong substrate specificity towards PAF, hydrolyzing an acetyl ester at the sn-2 position. PAF-AH also degrades a family of oxidized PAF-like phospholipids with short sn-2 residues. In addition, PAF and PAF-AH are associated with neural migration and mammalian reproduction.
Probab=31.29 E-value=85 Score=21.83 Aligned_cols=30 Identities=10% Similarity=0.440 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHhhhccCCCcEEEEEecc
Q 048377 43 AQIYNSKLQSVVDSLSKEFPDSRFVYFDIY 72 (118)
Q Consensus 43 ~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~ 72 (118)
...|=..++.+++++++++|+++|++.-+.
T Consensus 108 ~~~~~~~l~~ii~~l~~~~P~~~Iil~~~~ 137 (214)
T cd01820 108 AEEIAEGILAIVEEIREKLPNAKILLLGLL 137 (214)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCeEEEEecc
Confidence 334556788889999999999999988653
No 74
>PRK13555 azoreductase; Provisional
Probab=30.90 E-value=70 Score=22.81 Aligned_cols=29 Identities=17% Similarity=0.425 Sum_probs=21.3
Q ss_pred HHHHH-HHHHHhhhccCCCcEEEEEeccHH
Q 048377 46 YNSKL-QSVVDSLSKEFPDSRFVYFDIYNP 74 (118)
Q Consensus 46 ~N~~L-~~~l~~l~~~~p~~~i~~~D~~~~ 74 (118)
|+.+| +..++.+++++|+..|.+.|.|..
T Consensus 18 ~s~~la~~f~~~~~~~~p~~~V~~~DL~~~ 47 (208)
T PRK13555 18 VSSKMYETFVSTYKEANPNTEITELDLFAL 47 (208)
T ss_pred HHHHHHHHHHHHHHHhCCCCeEEEEECCCC
Confidence 34444 445677888889999999999874
No 75
>TIGR02193 heptsyl_trn_I lipopolysaccharide heptosyltransferase I. This family consists of examples of ADP-heptose:LPS heptosyltransferase I, an enzyme of LPS inner core region biosynthesis. LPS, composed of lipid A, a core region, and O antigen, is found in the outer membrane of Gram-negative bacteria.
Probab=30.72 E-value=81 Score=23.35 Aligned_cols=29 Identities=7% Similarity=0.354 Sum_probs=19.4
Q ss_pred HHHHhhhccCCCcEEEEEeccHHHHHHHHC
Q 048377 52 SVVDSLSKEFPDSRFVYFDIYNPLNSLIQN 81 (118)
Q Consensus 52 ~~l~~l~~~~p~~~i~~~D~~~~~~~i~~n 81 (118)
.++..|++.||+++|.++ +...+.+++++
T Consensus 18 p~l~~Lr~~~P~a~I~~l-~~~~~~~~~~~ 46 (319)
T TIGR02193 18 PALTDIKRALPDVEIDWV-VEEGFADIVRL 46 (319)
T ss_pred HHHHHHHHhCCCCEEEEE-EChhHhhhhhc
Confidence 356677777788777777 55666666653
No 76
>COG2153 ElaA Predicted acyltransferase [General function prediction only]
Probab=30.29 E-value=1e+02 Score=21.28 Aligned_cols=41 Identities=20% Similarity=0.479 Sum_probs=30.7
Q ss_pred HHHHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCCCccCC
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYGFEVAD 91 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yGf~~~~ 91 (118)
++.+.++|+.....+|+. =++++.-+.+.++.+. |||..++
T Consensus 95 ~~Lm~~AL~~~~~~~p~~-~v~l~AQahLq~fYa~---~GFv~~~ 135 (155)
T COG2153 95 QQLMEKALETAGREWPDK-PVYLGAQAHLQDFYAS---FGFVRVG 135 (155)
T ss_pred HHHHHHHHHHHHhhCCCC-CeEEehHHHHHHHHHH---hCcEEcC
Confidence 456677788888888854 4577888888888765 9998654
No 77
>cd08467 PBP2_SyrM The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold. Rhizobium is a nitrogen fixing bacteria present in the roots of leguminous plants, which fixes atmospheric nitrogen to the soil. Most Rhizobium species possess multiple nodulation (nod) genes for the development of nodules. For example, Rhizobium meliloti possesses three copies of nodD genes. NodD1 and NodD2 activate nod operons when Rhizobium is exposed to inducers synthesized by the host plant, while NodD3 acts independent of plant inducers and requires the symbiotic regulator SyrM for nod gene expression. SyrM activates the expression of the regulatory nodulation gene nodD3. In turn, NodD3 activates expression of syrM. In addition, SyrM is involved in exopolysaccharide synthesis. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are
Probab=30.13 E-value=89 Score=20.54 Aligned_cols=42 Identities=14% Similarity=0.060 Sum_probs=29.8
Q ss_pred HHHHHHHHHhhhccCCCcEEEEEec--cHHHHHHHHCCCCCCCc
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYFDI--YNPLNSLIQNPPQYGFE 88 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~D~--~~~~~~i~~nP~~yGf~ 88 (118)
...+...+.++++++|+.++.+... ..+...+.+.-...||.
T Consensus 12 ~~~l~~~l~~~~~~~P~i~l~~~~~~~~~~~~~l~~g~~D~~i~ 55 (200)
T cd08467 12 VALLPRLAPRLRERAPGLDLRLCPIGDDLAERGLEQGTIDLAVG 55 (200)
T ss_pred HHHHHHHHHHHHhhCCCCEEEEecCCcccHHHHhhCCCcCEEEe
Confidence 3456777888999999988887744 45677776655566663
No 78
>KOG2263 consensus Methionine synthase II (cobalamin-independent) [Amino acid transport and metabolism]
Probab=30.11 E-value=70 Score=26.60 Aligned_cols=40 Identities=18% Similarity=0.407 Sum_probs=29.6
Q ss_pred HHHHHHhhhccCCCcEEEEEeccHHHHHHHHC-------CCCCCCccC
Q 048377 50 LQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQN-------PPQYGFEVA 90 (118)
Q Consensus 50 L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~n-------P~~yGf~~~ 90 (118)
|+...-++. +..|++|+--+.|+.+.+|++. |.+||++..
T Consensus 42 LR~~~WK~~-k~aGv~~IPSN~FS~YDQvlD~t~~~~~vP~RYg~~sg 88 (765)
T KOG2263|consen 42 LRSSIWKLM-KAAGVKIIPSNTFSHYDQVLDTTAMLGAVPPRYGRTSG 88 (765)
T ss_pred HHHHHHHHH-HhcCCeeecCCchhHHHHHHhHHHHhcCCCcccccccC
Confidence 344333333 3469999999999999999987 889988753
No 79
>PTZ00062 glutaredoxin; Provisional
Probab=29.93 E-value=67 Score=23.01 Aligned_cols=24 Identities=25% Similarity=0.552 Sum_probs=18.8
Q ss_pred HHHHHHHhhhccCCCcEEEEEecc
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIY 72 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~ 72 (118)
++...+.+|.+++|+++|+.+|.-
T Consensus 34 ~m~~vl~~l~~~~~~~~F~~V~~d 57 (204)
T PTZ00062 34 QLMDVCNALVEDFPSLEFYVVNLA 57 (204)
T ss_pred HHHHHHHHHHHHCCCcEEEEEccc
Confidence 455666777778899999999965
No 80
>cd05466 PBP2_LTTR_substrate The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily. This model and hierarchy represent the the substrate-binding domain of the LysR-type transcriptional regulators that form the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA bin
Probab=29.05 E-value=1.3e+02 Score=18.81 Aligned_cols=43 Identities=9% Similarity=0.208 Sum_probs=27.7
Q ss_pred HHHHHHHHHHhhhccCCCcEEEEEec--cHHHHHHHHCCCCCCCc
Q 048377 46 YNSKLQSVVDSLSKEFPDSRFVYFDI--YNPLNSLIQNPPQYGFE 88 (118)
Q Consensus 46 ~N~~L~~~l~~l~~~~p~~~i~~~D~--~~~~~~i~~nP~~yGf~ 88 (118)
....+...+.++.+++|++++.+... ..+...+.+.-...|+.
T Consensus 11 ~~~~l~~~i~~~~~~~p~i~i~~~~~~~~~~~~~l~~g~~D~~i~ 55 (197)
T cd05466 11 AAYLLPPLLAAFRQRYPGVELSLVEGGSSELLEALLEGELDLAIV 55 (197)
T ss_pred HHHHhHHHHHHHHHHCCCCEEEEEECChHHHHHHHHcCCceEEEE
Confidence 34456677788888899887776644 34566665554455553
No 81
>TIGR02924 ICDH_alpha isocitrate dehydrogenase. This family of mainly alphaproteobacterial enzymes is a member of the isocitrate/isopropylmalate dehydrogenase superfamily described by pfam00180. Every member of the seed of this model appears to have a TCA cycle lacking only a determined isocitrate dehydrogenase. The precise identity of the cofactor (NADH -- 1.1.1.41 vs. NADPH -- 1.1.1.42) is unclear.
Probab=29.01 E-value=66 Score=26.27 Aligned_cols=38 Identities=18% Similarity=0.395 Sum_probs=30.1
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
..++...+..++||+..+-..=+-.....++.+|.+|.
T Consensus 181 lf~e~~~eva~eyPdI~~e~~~VDa~a~~Lv~~P~~FD 218 (473)
T TIGR02924 181 IFHKIFDKIAAEYPDIESEHYIVDIGMARLATNPENFD 218 (473)
T ss_pred hHHHHHHHHHhhCCCcEEeeHHHHHHHHHHhhCcccce
Confidence 44556667777899988887777788899999999884
No 82
>cd08485 PBP2_ClcR The C-terminal substrate binding domain of LysR-type transcriptional regulator ClcR involved in the chlorocatechol catabolism, contains type 2 periplasmic binding fold. In soil bacterium Pseudomonas putida, the ortho-pathways of catechol and 3-chlorocatechol are central catabolic pathways that convert aromatic and chloroaromaric compounds to tricarboxylic acid (TCA) cycle intermediates. The 3-chlorocatechol-degradative pathway is encoded by clcABD operon, which requires the divergently transcribed clcR and an intermediate of the pathway, 2-chloromuconate, as an inducer for activation. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding th
Probab=28.23 E-value=99 Score=20.31 Aligned_cols=40 Identities=15% Similarity=0.192 Sum_probs=26.6
Q ss_pred HHHHHHHHhhhccCCCcEEEEEe--ccHHHHHHHHCCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFD--IYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D--~~~~~~~i~~nP~~yGf 87 (118)
..|...+.++++++|+.++-+.. ...+...+.+.=-..||
T Consensus 14 ~~l~~~l~~~~~~~P~i~l~~~~~~~~~~~~~l~~~~~D~~i 55 (198)
T cd08485 14 HTLPLLLRQLLSVAPSATVSLTQMSKNRQIEALDAGTIDIGF 55 (198)
T ss_pred HHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHcCCccEEE
Confidence 45667788888899998888764 44555555555444444
No 83
>cd02986 DLP Dim1 family, Dim1-like protein (DLP) subfamily; DLP is a novel protein which shares 38% sequence identity to Dim1. Like Dim1, it is also implicated in pre-mRNA splicing and cell cycle progression. DLP is located in the nucleus and has been shown to interact with the U5 small nuclear ribonucleoprotein particle (snRNP)-specific 102kD protein (or Prp6). Dim1 protein, also known as U5 snRNP-specific 15kD protein is a component of U5 snRNP, which pre-assembles with U4/U6 snRNPs to form a [U4/U6:U5] tri-snRNP complex required for pre-mRNA splicing. Dim1 adopts a thioredoxin fold but does not contain the redox active CXXC motif.
Probab=28.13 E-value=84 Score=20.49 Aligned_cols=27 Identities=11% Similarity=0.277 Sum_probs=20.0
Q ss_pred HHHHHHHHhhhccCCC-cEEEEEeccHH
Q 048377 48 SKLQSVVDSLSKEFPD-SRFVYFDIYNP 74 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~-~~i~~~D~~~~ 74 (118)
..+...+.+|+.++++ +.|..+|+-..
T Consensus 30 k~mdp~l~ela~~~~~~~~f~kVDVDev 57 (114)
T cd02986 30 LQLDDILSKTSHDLSKMASIYLVDVDKV 57 (114)
T ss_pred HHHHHHHHHHHHHccCceEEEEEecccc
Confidence 3445566777777888 99999998754
No 84
>cd01145 TroA_c Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind their ligands in the cleft between these domains.
Probab=28.07 E-value=1.8e+02 Score=20.29 Aligned_cols=47 Identities=19% Similarity=0.371 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcc---CCCcEEE-EEeccHHHHHHHHCCCCCCCcc
Q 048377 37 DFANQAAQIYNSKLQSVVDSLSKE---FPDSRFV-YFDIYNPLNSLIQNPPQYGFEV 89 (118)
Q Consensus 37 ~~~n~~~~~~N~~L~~~l~~l~~~---~p~~~i~-~~D~~~~~~~i~~nP~~yGf~~ 89 (118)
+.+.+-.+.|.++|.++-++++++ .++.+|+ +-|.|.+|.+ .||++.
T Consensus 137 ~~y~~N~~~~~~~l~~l~~~~~~~l~~~~~~~~v~~H~af~Y~~~------~yGl~~ 187 (203)
T cd01145 137 EEYKENLRVFLAKLNKLLREWERQFEGLKGIQVVAYHPSYQYLAD------WLGIEV 187 (203)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccCCCeEEEecccHHHHHH------HcCCce
Confidence 344455667777777765555543 3454443 4577777766 488874
No 85
>cd02973 TRX_GRX_like Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All members contain a redox-active CXXC motif and may function as PDOs. The archaeal proteins Mj0307 and Mt807 show structures more similar to GRX, but activities more similar to TRX. Some members of the family are similar to PfPDO in that they contain a second CXXC motif located in a second TRX-fold subdomain at the N-terminus; the superimposable N- and C-terminal TRX subdomains form a compact structure. PfPDO is postulated to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI). The C-terminal CXXC motif of PfPDO is required for its oxidase, reductase and isomerase activities. Also included in the family is the C-terminal TRX-fold subdomain of the N-terminal domain (NTD) of bacteri
Probab=28.01 E-value=1.1e+02 Score=16.82 Aligned_cols=23 Identities=9% Similarity=0.082 Sum_probs=15.2
Q ss_pred HHHHHhhhccCCCcEEEEEeccH
Q 048377 51 QSVVDSLSKEFPDSRFVYFDIYN 73 (118)
Q Consensus 51 ~~~l~~l~~~~p~~~i~~~D~~~ 73 (118)
+..++++....++..+..+|...
T Consensus 18 ~~~l~~l~~~~~~i~~~~id~~~ 40 (67)
T cd02973 18 VQAANRIAALNPNISAEMIDAAE 40 (67)
T ss_pred HHHHHHHHHhCCceEEEEEEccc
Confidence 34455555556778888888754
No 86
>PRK09283 delta-aminolevulinic acid dehydratase; Validated
Probab=27.88 E-value=90 Score=24.19 Aligned_cols=53 Identities=19% Similarity=0.347 Sum_probs=32.3
Q ss_pred ChhhcCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEec
Q 048377 1 ELYGVGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDI 71 (118)
Q Consensus 1 ~Ly~~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~ 71 (118)
++.++|.+.|+++++|.. ..+.-. +..|. |..+...+..+++++|+.- ++.|+
T Consensus 67 ~~~~~Gi~av~LFgv~~~-Kd~~gs-----------~A~~~-----~g~v~rair~iK~~~p~l~-vi~DV 119 (323)
T PRK09283 67 EAVELGIPAVALFGVPEL-KDEDGS-----------EAYNP-----DGLVQRAIRAIKKAFPELG-VITDV 119 (323)
T ss_pred HHHHCCCCEEEEeCcCCC-CCcccc-----------cccCC-----CCHHHHHHHHHHHhCCCcE-EEEee
Confidence 367899999999998422 222111 11111 3345667788888888865 45565
No 87
>cd08416 PBP2_MdcR The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold. This family includes the C-terminal substrate binding domain of LysR-type transcriptional regulator (LTTR) MdcR that controls the expression of the malonate decarboxylase (mdc) genes. Like other members of the LTTRs, MdcR is a positive regulatory protein for its target promoter and composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins (PBP2). The PBP2 are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these dom
Probab=27.86 E-value=99 Score=19.96 Aligned_cols=41 Identities=10% Similarity=-0.009 Sum_probs=27.5
Q ss_pred HHHHHHHHHhhhccCCCcEEEEEec--cHHHHHHHHCCCCCCC
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYFDI--YNPLNSLIQNPPQYGF 87 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~D~--~~~~~~i~~nP~~yGf 87 (118)
+..|...+.++++++|++++.+... ..+...+.+.-...|+
T Consensus 12 ~~~l~~~l~~~~~~~P~i~l~i~~~~~~~~~~~l~~~~~Dl~i 54 (199)
T cd08416 12 VNTVPRIIMGLKLRRPELDIELTLGSNKDLLKKLKDGELDAIL 54 (199)
T ss_pred HhhhHHHHHHHHHhCCCeEEEEEEcCcHHHHHHHhCCCCCEEE
Confidence 4567888899999999988887643 3345556554334444
No 88
>PHA02105 hypothetical protein
Probab=27.42 E-value=79 Score=18.27 Aligned_cols=36 Identities=28% Similarity=0.557 Sum_probs=22.3
Q ss_pred HHhhhcc--CCCcEEEEEeccHHHHHHH-HCCCCCCCccC
Q 048377 54 VDSLSKE--FPDSRFVYFDIYNPLNSLI-QNPPQYGFEVA 90 (118)
Q Consensus 54 l~~l~~~--~p~~~i~~~D~~~~~~~i~-~nP~~yGf~~~ 90 (118)
+.+|++- .|..+++|...-. ++.|+ --|+.-||+.+
T Consensus 29 ~~ql~svfsipqi~yvyls~~e-~~si~p~ip~~sgfshv 67 (68)
T PHA02105 29 FDQLKTVFSIPQIKYVYLSYEE-FNSIMPFIPRRSGFSHV 67 (68)
T ss_pred HHHHHHhccccceEEEEEeHHH-hcccccccccccccccc
Confidence 3444442 4788888886544 34443 34888898765
No 89
>cd08465 PBP2_ToxR The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold. In soil bacterium Burkholderia glumae, ToxR regulates the toxABCDE and toxFGHI operons in the presence of toxoflavin as a coinducer. Additionally, the expression of both operons requires a transcriptional activator, ToxJ, whose expression is regulated by the TofI or TofR quorum-sensing system. The biosynthesis of toxoflavin is suggested to be synthesized in a pathway common to the synthesis of riboflavin. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After
Probab=27.40 E-value=99 Score=20.35 Aligned_cols=41 Identities=12% Similarity=0.103 Sum_probs=29.5
Q ss_pred HHHHHHHHHhhhccCCCcEEEEE--eccHHHHHHHHCCCCCCC
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYF--DIYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~--D~~~~~~~i~~nP~~yGf 87 (118)
...|...+..+++++|++++.+. +...+...+.+.=-..|+
T Consensus 12 ~~~l~~~l~~f~~~~P~i~l~i~~~~~~~~~~~L~~g~~Dl~i 54 (200)
T cd08465 12 RLVLPALMRQLRAEAPGIDLAVSQASREAMLAQVADGEIDLAL 54 (200)
T ss_pred HHhhhHHHHHHHHHCCCcEEEEecCChHhHHHHHHCCCccEEE
Confidence 35677888999999999988765 345666666665555555
No 90
>cd08437 PBP2_MleR The substrate binding domain of LysR-type transcriptional regulator MleR which required for malolactic fermentation, contains type 2 periplasmic binidning fold. MleR, a transcription activator of malolactic fermentation system, is found in gram-positive bacteria and belongs to the lysR family of bacterial transcriptional regulators. The mleR gene is required for the expression and induction of malolactic fermentation. This substrate binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase dom
Probab=27.17 E-value=1e+02 Score=19.92 Aligned_cols=41 Identities=15% Similarity=0.081 Sum_probs=28.2
Q ss_pred HHHHHHHHHhhhccCCCcEEEEEec--cHHHHHHHHCCCCCCC
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYFDI--YNPLNSLIQNPPQYGF 87 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~D~--~~~~~~i~~nP~~yGf 87 (118)
+..|...+.++.+++|++++-+... ..+...+.+.-...||
T Consensus 12 ~~~l~~~l~~~~~~~P~v~i~~~~~~~~~~~~~l~~g~~Dl~i 54 (198)
T cd08437 12 NYYFPKLAKDLIKTGLMIQIDTYEGGSAELLEQLLQGDLDIAL 54 (198)
T ss_pred HHHhHHHHHHHHHhCCceEEEEEEcCHHHHHHHHHcCCCCEEE
Confidence 4567788899999999988887653 4455555554445554
No 91
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=27.12 E-value=1.7e+02 Score=22.15 Aligned_cols=48 Identities=15% Similarity=0.357 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhccC---CCc-EEEEEeccHHHHHHHHCCCCCCCccC
Q 048377 37 DFANQAAQIYNSKLQSVVDSLSKEF---PDS-RFVYFDIYNPLNSLIQNPPQYGFEVA 90 (118)
Q Consensus 37 ~~~n~~~~~~N~~L~~~l~~l~~~~---p~~-~i~~~D~~~~~~~i~~nP~~yGf~~~ 90 (118)
+.+.+-++.|.++|..+-+++++++ ++. -+++-|.|.+|.+ +|||+..
T Consensus 174 ~~y~~N~~~~~~~L~~l~~~~~~~l~~~~~~~~i~~H~af~Yf~~------~ygl~~~ 225 (311)
T PRK09545 174 AKLDANLKDFEAQLAQTDKQIGNQLAPVKGKGYFVFHDAYGYFEK------HYGLTPL 225 (311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcEEEECchHHHHHH------hCCCcee
Confidence 4455567788888887776666543 322 3456677777665 5888753
No 92
>cd08438 PBP2_CidR The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold. This CD includes the substrate binding domain of CidR which positively up-regulates the expression of cidABC operon in the presence of acetic acid produced by the metabolism of excess glucose. The CidR affects the control of murein hydrolase activity by enhancing cidABC expression in the presence of acetic acid. Thus, up-regulation of cidABC expression results in increased murein hydrolase activity. This substrate binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate
Probab=27.02 E-value=86 Score=20.12 Aligned_cols=40 Identities=5% Similarity=0.203 Sum_probs=27.6
Q ss_pred HHHHHHHHhhhccCCCcEEEEEe--ccHHHHHHHHCCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFD--IYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D--~~~~~~~i~~nP~~yGf 87 (118)
..|...+.++.+++|+.+|.+.. ...+...+.++--..||
T Consensus 13 ~~l~~~l~~~~~~~p~v~i~i~~~~~~~~~~~L~~~~~Dl~i 54 (197)
T cd08438 13 LLFAPLLAAFRQRYPNIELELVEYGGKKVEQAVLNGELDVGI 54 (197)
T ss_pred hhcHHHHHHHHHHCcCeEEEEEEcCcHHHHHHHHcCCCCEEE
Confidence 35667788888899998888764 44556666665545555
No 93
>cd02954 DIM1 Dim1 family; Dim1 is also referred to as U5 small nuclear ribonucleoprotein particle (snRNP)-specific 15kD protein. It is a component of U5 snRNP, which pre-assembles with U4/U6 snRNPs to form a [U4/U6:U5] tri-snRNP complex required for pre-mRNA splicing. Dim1 interacts with multiple splicing-associated proteins, suggesting that it functions at multiple control points in the splicing of pre-mRNA as part of a large spliceosomal complex involving many protein-protein interactions. U5 snRNP contains seven core proteins (common to all snRNPs) and nine U5-specific proteins, one of which is Dim1. Dim1 adopts a thioredoxin fold but does not contain the redox active CXXC motif. It is essential for G2/M phase transition, as a consequence to its role in pre-mRNA splicing.
Probab=26.76 E-value=98 Score=20.05 Aligned_cols=26 Identities=12% Similarity=0.322 Sum_probs=19.2
Q ss_pred HHHHHHHhhhccCCC-cEEEEEeccHH
Q 048377 49 KLQSVVDSLSKEFPD-SRFVYFDIYNP 74 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~-~~i~~~D~~~~ 74 (118)
.+...+++|..++++ ++|+.+|+-..
T Consensus 31 ~m~P~le~la~~~~~~v~f~kVDvD~~ 57 (114)
T cd02954 31 QMDEVLAKIAEDVSNFAVIYLVDIDEV 57 (114)
T ss_pred HHHHHHHHHHHHccCceEEEEEECCCC
Confidence 445566777777777 58999999874
No 94
>cd01840 SGNH_hydrolase_yrhL_like yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases. Most members of this sub-family appear to co-occur with N-terminal acyltransferase domains. Might be involved in lipid metabolism.
Probab=26.66 E-value=65 Score=21.17 Aligned_cols=27 Identities=19% Similarity=0.261 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHhhhccCCCcEEEEEeccHHHH
Q 048377 44 QIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLN 76 (118)
Q Consensus 44 ~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~ 76 (118)
..+|..+ .++.+++|+ +.++|++..+.
T Consensus 95 ~~~n~~~----~~~a~~~~~--v~~id~~~~~~ 121 (150)
T cd01840 95 PDVNAYL----LDAAKKYKN--VTIIDWYKAAK 121 (150)
T ss_pred HHHHHHH----HHHHHHCCC--cEEecHHHHhc
Confidence 4556555 445555664 66778777654
No 95
>COG0473 LeuB Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]
Probab=26.58 E-value=50 Score=25.82 Aligned_cols=36 Identities=28% Similarity=0.539 Sum_probs=28.0
Q ss_pred HHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCC
Q 048377 51 QSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYG 86 (118)
Q Consensus 51 ~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yG 86 (118)
++.+.++.++||++++-..=+-+.-..++.+|++|.
T Consensus 194 rev~~eva~~yPdv~~~~~~VD~aam~lV~~P~~FD 229 (348)
T COG0473 194 REVVEEVAKEYPDVELDHMYVDAAAMQLVRNPEQFD 229 (348)
T ss_pred HHHHHHHhhcCCCcchhHHhHHHHHHHHhhCccccC
Confidence 344555668899998877777778889999999985
No 96
>COG1209 RfbA dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]
Probab=26.37 E-value=99 Score=23.55 Aligned_cols=35 Identities=17% Similarity=0.505 Sum_probs=25.7
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCCCccCC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYGFEVAD 91 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yGf~~~~ 91 (118)
.|.+.+.++.++-+|+.|+..-+ +||++||-.+..
T Consensus 114 ~l~~~~~~~~~~~~ga~i~~~~V--------~dP~rfGV~e~d 148 (286)
T COG1209 114 GLSELLEHFAEEGSGATILLYEV--------DDPSRYGVVEFD 148 (286)
T ss_pred ChHHHHHHHhccCCCcEEEEEEc--------CCcccceEEEEc
Confidence 57777777777777888877665 489999975443
No 97
>cd08434 PBP2_GltC_like The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold. GltC, a member of the LysR family of bacterial transcriptional factors, activates the expression of gltA gene of glutamate synthase operon and is essential for cell growth in the absence of glutamate. Glutamate synthase is a heterodimeric protein that encoded by gltA and gltB, whose expression is subject to nutritional regulation. GltC also negatively auto-regulates its own expression. This substrate-binding domain has strong homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity,
Probab=26.34 E-value=93 Score=19.85 Aligned_cols=41 Identities=17% Similarity=0.284 Sum_probs=27.4
Q ss_pred HHHHHHHHhhhccCCCcEEEEEec--cHHHHHHHHCCCCCCCc
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDI--YNPLNSLIQNPPQYGFE 88 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~--~~~~~~i~~nP~~yGf~ 88 (118)
..|...+.++.+++|++++.+... ..+..++.+.-...||.
T Consensus 13 ~~l~~~l~~~~~~~P~i~i~i~~~~~~~~~~~l~~~~~Dl~i~ 55 (195)
T cd08434 13 SLVPDLIRAFRKEYPNVTFELHQGSTDELLDDLKNGELDLALC 55 (195)
T ss_pred hhhHHHHHHHHHhCCCeEEEEecCcHHHHHHHHHcCCccEEEE
Confidence 356677888888999988776653 44566666665555553
No 98
>cd08421 PBP2_LTTR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=26.25 E-value=95 Score=20.03 Aligned_cols=41 Identities=15% Similarity=0.126 Sum_probs=27.3
Q ss_pred HHHHHHHHhhhccCCCcEEEEE--eccHHHHHHHHCCCCCCCc
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYF--DIYNPLNSLIQNPPQYGFE 88 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~--D~~~~~~~i~~nP~~yGf~ 88 (118)
..|...+.++++++|+.++-+. ........+.+.-...||.
T Consensus 13 ~~l~~~l~~~~~~~P~i~i~~~~~~~~~~~~~l~~~~~D~~i~ 55 (198)
T cd08421 13 EFLPEDLASFLAAHPDVRIDLEERLSADIVRAVAEGRADLGIV 55 (198)
T ss_pred hhhHHHHHHHHHHCCCceEEEEecCcHHHHHHHhcCCceEEEE
Confidence 4567788889989999888765 3445555565554555553
No 99
>cd08431 PBP2_HupR The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold. HupR, a member of the LysR family, activates hupA transcription under low-iron conditions in the presence of hemin. The expression of many iron-uptake genes, such as hupA, is regulated at the transcriptional level by iron and an iron-binding repressor protein called Fur (ferric uptake regulation). Under iron-abundant conditions with heme, the active Fur repressor protein represses transcription of the iron-uptake gene hupA, and prevents transcriptional activation via HupR. Under low-iron conditions with heme, the Fur repressor is inactive and transcription of the hupA is allowed. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, p
Probab=26.23 E-value=1e+02 Score=19.89 Aligned_cols=40 Identities=8% Similarity=0.091 Sum_probs=27.5
Q ss_pred HHHHHHHHhhhccCCCcEEEEEe--ccHHHHHHHHCCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFD--IYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D--~~~~~~~i~~nP~~yGf 87 (118)
..|...+.++.+++|++++.+.+ .......+.+.=-..||
T Consensus 13 ~~l~~~l~~~~~~~P~v~i~i~~~~~~~~~~~l~~g~~D~~i 54 (195)
T cd08431 13 QPLYPLIAEFYQLNKATRIRLSEEVLGGTWDALASGRADLVI 54 (195)
T ss_pred HHHHHHHHHHHHHCCCCceEEEEeccchHHHHHhCCCCCEEE
Confidence 34667788888899998887765 34566666665555555
No 100
>cd01831 Endoglucanase_E_like Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans.
Probab=26.18 E-value=1.3e+02 Score=20.01 Aligned_cols=28 Identities=18% Similarity=0.433 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHhhhccCCCcEEEEEe
Q 048377 43 AQIYNSKLQSVVDSLSKEFPDSRFVYFD 70 (118)
Q Consensus 43 ~~~~N~~L~~~l~~l~~~~p~~~i~~~D 70 (118)
...|=..++.+++++++++|.+.|++..
T Consensus 76 ~~~~~~~~~~li~~i~~~~p~~~i~~~~ 103 (169)
T cd01831 76 GEDFTNAYVEFIEELRKRYPDAPIVLML 103 (169)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCeEEEEe
Confidence 3455567778888888889999887764
No 101
>cd01824 Phospholipase_B_like Phospholipase-B_like. This subgroup of the SGNH-family of lipolytic enzymes may have both esterase and phospholipase-A/lysophospholipase activity. It's members may be involved in the conversion of phosphatidylcholine to fatty acids and glycerophosphocholine, perhaps in the context of dietary lipid uptake. Members may be membrane proteins. The tertiary fold of the SGNH-hydrolases is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; Its active site closely resembles two of the three components of typical Ser-His-Asp(Glu) triad from other serine hydrolases.
Probab=25.84 E-value=1.3e+02 Score=22.55 Aligned_cols=33 Identities=21% Similarity=0.320 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHhhhccCCCcEEEEEeccHHH
Q 048377 43 AQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPL 75 (118)
Q Consensus 43 ~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~ 75 (118)
.+.|=+.|+++|..|++..|.+.|+++..+.+.
T Consensus 144 ~~~~~~nL~~~L~~Lr~~~P~~~V~lv~~~~~~ 176 (288)
T cd01824 144 PQTFVKNLRKALDILRDEVPRAFVNLVGLLNVA 176 (288)
T ss_pred HHHHHHHHHHHHHHHHHhCCCcEEEEEcCCCcH
Confidence 578888999999999999999999999988874
No 102
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=25.64 E-value=1.6e+02 Score=21.88 Aligned_cols=48 Identities=19% Similarity=0.417 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhccC---CCc-EEEEEeccHHHHHHHHCCCCCCCccC
Q 048377 37 DFANQAAQIYNSKLQSVVDSLSKEF---PDS-RFVYFDIYNPLNSLIQNPPQYGFEVA 90 (118)
Q Consensus 37 ~~~n~~~~~~N~~L~~~l~~l~~~~---p~~-~i~~~D~~~~~~~i~~nP~~yGf~~~ 90 (118)
+.+.+-.+.|+++|.++-+.+++++ ++- -+++-|.|.+|.+ .|||+..
T Consensus 150 ~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af~Yl~~------~~gl~~~ 201 (286)
T cd01019 150 ATYAANLEAFNARLAELDATIKERLAPVKTKPFFVFHDAYGYFEK------RYGLTQA 201 (286)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccCCCeEEEecccHHHHHH------HcCCcee
Confidence 3444556788888888777666543 332 3556677776665 5888754
No 103
>COG1402 Uncharacterized protein, putative amidase [General function prediction only]
Probab=25.59 E-value=43 Score=24.86 Aligned_cols=15 Identities=20% Similarity=0.191 Sum_probs=12.9
Q ss_pred hhhcCCcEEEEeCCC
Q 048377 2 LYGVGARRIGVLSLP 16 (118)
Q Consensus 2 Ly~~GAr~f~v~~lp 16 (118)
|+..|.|||+++|=.
T Consensus 99 l~~~Gfrk~v~vNgH 113 (250)
T COG1402 99 LARHGFRKFVIVNGH 113 (250)
T ss_pred HHhcCccEEEEEecC
Confidence 788999999999844
No 104
>cd08436 PBP2_LTTR_like_3 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=25.48 E-value=1.3e+02 Score=19.16 Aligned_cols=41 Identities=10% Similarity=0.181 Sum_probs=28.3
Q ss_pred HHHHHHHHHhhhccCCCcEEEEEec--cHHHHHHHHCCCCCCC
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYFDI--YNPLNSLIQNPPQYGF 87 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~D~--~~~~~~i~~nP~~yGf 87 (118)
+..|...+.++.+++|++++.+... ..+...+.+.--..|+
T Consensus 12 ~~~l~~~l~~~~~~~P~v~i~i~~~~~~~~~~~l~~~~~Dl~i 54 (194)
T cd08436 12 AVDLPELLARFHRRHPGVDIRLRQAGSDDLLAAVREGRLDLAF 54 (194)
T ss_pred HHHHHHHHHHHHHHCCCcEEEEecCCHHHHHHHHHcCCccEEE
Confidence 4557778899999999998888754 4455565555444554
No 105
>cd03414 CbiX_SirB_C Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase, responsible for the chelation of Co2+ into sirohydrochlorin, an important step in the vitamin B12 biosynthetic pathway. CbiX often contains a C-terminal histidine-rich region that may be important for metal delivery and/or storage, and may also contain an iron-sulfur center. Both CbiX and SirB are found in a wide range of bacteria.
Probab=25.34 E-value=1.5e+02 Score=18.46 Aligned_cols=20 Identities=30% Similarity=0.476 Sum_probs=13.7
Q ss_pred HHHHHHhhhccCCCcEEEEEe
Q 048377 50 LQSVVDSLSKEFPDSRFVYFD 70 (118)
Q Consensus 50 L~~~l~~l~~~~p~~~i~~~D 70 (118)
+...+.+++.+ |+.+|.+..
T Consensus 78 i~~~~~~~~~~-~~~~i~~~~ 97 (117)
T cd03414 78 IEEQVAELAAE-PGIEFVLAP 97 (117)
T ss_pred HHHHHHHHHhC-CCceEEECC
Confidence 45566777777 788877754
No 106
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=25.33 E-value=67 Score=22.52 Aligned_cols=25 Identities=20% Similarity=0.389 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHhhhccCCCcE
Q 048377 41 QAAQIYNSKLQSVVDSLSKEFPDSR 65 (118)
Q Consensus 41 ~~~~~~N~~L~~~l~~l~~~~p~~~ 65 (118)
..-.+||.-+++.+.++++..|+..
T Consensus 124 R~psaYn~f~k~ei~rik~~~p~is 148 (170)
T PF04690_consen 124 RVPSAYNRFMKEEIQRIKAENPDIS 148 (170)
T ss_pred CCchhHHHHHHHHHHHHHhcCCCCC
Confidence 3457899999999999999998764
No 107
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=25.31 E-value=35 Score=28.12 Aligned_cols=13 Identities=38% Similarity=0.902 Sum_probs=10.1
Q ss_pred ccCCcceeccccc
Q 048377 88 EVADKGCCGTGNL 100 (118)
Q Consensus 88 ~~~~~aCCg~g~~ 100 (118)
+-..++|||+|.+
T Consensus 385 k~llDv~CGTG~i 397 (534)
T KOG2187|consen 385 KTLLDVCCGTGTI 397 (534)
T ss_pred cEEEEEeecCCce
Confidence 4567899999864
No 108
>cd08444 PBP2_Cbl The C-terminal substrate binding domain of LysR-type transcriptional regulator Cbl, which is required for expression of sulfate starvation-inducible (ssi) genes, contains the type 2 periplasmic binding fold. Cbl is a member of the LysR transcriptional regulators that comprise the largest family of prokaryotic transcription factor. Cbl shows high sequence similarity to CysB, the LysR-type transcriptional activator of genes involved in sulfate and thiosulfate transport, sulfate reduction, and cysteine synthesis. In Escherichia coli, the function of Cbl is required for expression of sulfate starvation-inducible (ssi) genes, coupled with the biosynthesis of cysteine from the organic sulfur sources (sulfonates). The ssi genes include the ssuEADCB and tauABCD operons encoding uptake systems for organosulfur compounds, aliphatic sulfonates, and taurine. The genes in these operons encode an ABC-type transport system required for uptake of aliphatic sulfonates and a desulfonati
Probab=24.99 E-value=1.3e+02 Score=19.59 Aligned_cols=42 Identities=19% Similarity=0.298 Sum_probs=28.2
Q ss_pred HHHHHHHHHhhhccCCCcEEEEEecc--HHHHHHHHCCCCCCCc
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYFDIY--NPLNSLIQNPPQYGFE 88 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~D~~--~~~~~i~~nP~~yGf~ 88 (118)
+..|...+.++++++|+.++.+.... .+...+.+.--..|+.
T Consensus 12 ~~~l~~~l~~~~~~~P~v~l~i~~~~~~~~~~~l~~g~~Dl~i~ 55 (198)
T cd08444 12 RYALPWVVQAFKEQFPNVHLVLHQGSPEEIASMLANGQADIGIA 55 (198)
T ss_pred hhhhhHHHHHHHHHCCCeEEEEEeCCHHHHHHHHHCCCccEEEe
Confidence 34567788889999998888776543 4555555555555553
No 109
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=24.98 E-value=1.7e+02 Score=21.71 Aligned_cols=49 Identities=16% Similarity=0.282 Sum_probs=31.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhhccCCC-----c-EEEEEeccHHHHHHHHCCCCCCCccC
Q 048377 36 SDFANQAAQIYNSKLQSVVDSLSKEFPD-----S-RFVYFDIYNPLNSLIQNPPQYGFEVA 90 (118)
Q Consensus 36 ~~~~n~~~~~~N~~L~~~l~~l~~~~p~-----~-~i~~~D~~~~~~~i~~nP~~yGf~~~ 90 (118)
.+.+.+-.+.|+++|+++-+++++++.. . -+++-|.|.+|.+ .||++..
T Consensus 145 ~~~y~~N~~~~~~~L~~l~~~~~~~l~~~~~~~~~~v~~H~af~Y~~~------~yGl~~~ 199 (287)
T cd01137 145 AETYQKNAAAYKAKLKALDEWAKAKFATIPAEKRKLVTSEGAFSYFAK------AYGLKEA 199 (287)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccCEEEEecccHHHHHH------HcCCeEe
Confidence 3445556678888888877766654422 1 3456666776665 5898754
No 110
>cd01830 XynE_like SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=24.95 E-value=1.5e+02 Score=20.33 Aligned_cols=15 Identities=13% Similarity=0.297 Sum_probs=10.1
Q ss_pred hcCCcEEEEeCCCccC
Q 048377 4 GVGARRIGVLSLPPIG 19 (118)
Q Consensus 4 ~~GAr~f~v~~lpplg 19 (118)
+.|+ ++++++++|..
T Consensus 117 ~~~~-~vil~t~~P~~ 131 (204)
T cd01830 117 ARGI-KVIGATITPFE 131 (204)
T ss_pred HCCC-eEEEecCCCCC
Confidence 4565 57778888754
No 111
>cd01825 SGNH_hydrolase_peri1 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=24.85 E-value=1.3e+02 Score=19.91 Aligned_cols=32 Identities=16% Similarity=0.356 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHhhhccCCCcEEEEEeccHH
Q 048377 43 AQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNP 74 (118)
Q Consensus 43 ~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~ 74 (118)
...|=..++.+++++++..|+++|++......
T Consensus 76 ~~~~~~~~~~li~~i~~~~~~~~iv~~~~~~~ 107 (189)
T cd01825 76 ASEYRQQLREFIKRLRQILPNASILLVGPPDS 107 (189)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCeEEEEcCCch
Confidence 34666788888888988889999999887543
No 112
>cd01827 sialate_O-acetylesterase_like1 sialate O-acetylesterase_like family of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=24.84 E-value=1.4e+02 Score=19.96 Aligned_cols=30 Identities=7% Similarity=0.108 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHhhhccCCCcEEEEEecc
Q 048377 43 AQIYNSKLQSVVDSLSKEFPDSRFVYFDIY 72 (118)
Q Consensus 43 ~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~ 72 (118)
...|-..|..+++.+++..|+.+|++.-..
T Consensus 88 ~~~~~~~l~~li~~i~~~~~~~~iil~t~~ 117 (188)
T cd01827 88 KDDFKKDYETMIDSFQALPSKPKIYICYPI 117 (188)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCeEEEEeCC
Confidence 356777888899999888899988877543
No 113
>cd08411 PBP2_OxyR The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily. OxyR senses hydrogen peroxide and is activated through the formation of an intramolecular disulfide bond. The OxyR activation induces the transcription of genes necessary for the bacterial defense against oxidative stress. The OxyR of LysR-type transcriptional regulator family is composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repre
Probab=24.73 E-value=1.2e+02 Score=19.71 Aligned_cols=40 Identities=15% Similarity=0.213 Sum_probs=27.4
Q ss_pred HHHHHHHHhhhccCCCcEEEEEe--ccHHHHHHHHCCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFD--IYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D--~~~~~~~i~~nP~~yGf 87 (118)
..|...+.++.+++|++++.+.. ...+...+.+.--..|+
T Consensus 14 ~~l~~~l~~~~~~~P~i~i~i~~~~~~~~~~~l~~~~~Dl~i 55 (200)
T cd08411 14 YLLPRLLPALRQAYPKLRLYLREDQTERLLEKLRSGELDAAL 55 (200)
T ss_pred hhhHHHHHHHHHHCCCcEEEEEeCcHHHHHHHHHcCCccEEE
Confidence 46677888999999999888875 34455555554444444
No 114
>cd08451 PBP2_BudR The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold. This CD represents the substrate binding domain of BudR regulator, which is responsible for induction of the butanediol formation pathway under fermentative growth conditions. Three enzymes are involved in the production of 1 mol of 2,3 butanediol from the condensation of 2 mol of pyruvate with acetolactate and acetoin as intermediates: acetolactate synthetase, acetolactate decarboxylase, and acetoin reductase. In Klebsiella terrigena, BudR regulates the expression of the budABC operon genes, encoding these three enzymes of the butanediol pathway. In many bacterial species, the use of this pathway can prevent intracellular acidification by diverting metabolism from acid production to the formation of neutral compounds (acetoin and butanediol). This substra
Probab=24.62 E-value=87 Score=20.19 Aligned_cols=39 Identities=13% Similarity=0.287 Sum_probs=25.4
Q ss_pred HHHHHHHhhhccCCCcEEEEEe--ccHHHHHHHHCCCCCCC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFD--IYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D--~~~~~~~i~~nP~~yGf 87 (118)
.+...++++++++|+.++-+.. ...+...+.+.--..|+
T Consensus 15 ~l~~~l~~~~~~~P~i~l~i~~~~~~~~~~~l~~g~~Dl~i 55 (199)
T cd08451 15 LVPGLIRRFREAYPDVELTLEEANTAELLEALREGRLDAAF 55 (199)
T ss_pred ccHHHHHHHHHHCCCcEEEEecCChHHHHHHHHCCCccEEE
Confidence 4566788888889988877764 33455565554444454
No 115
>cd08450 PBP2_HcaR The C-terminal substrate binding domain of LysR-type transcriptional regulator HcaR in involved in 3-phenylpropionic acid catabolism, contains the type2 periplasmic binding fold. HcaR, a member of the LysR family of transcriptional regulators, controls the expression of the hcA1, A2, B, C, and D operon, encoding for the 3-phenylpropionate dioxygenase complex and 3-phenylpropionate-2',3'-dihydrodiol dehydrogenase, that oxidizes 3-phenylpropionate to 3-(2,3-dihydroxyphenyl) propionate. Dioxygenases play an important role in protecting the cell against the toxic effects of dioxygen. The expression of hcaR is negatively auto-regulated, as for other members of the LysR family, and is strongly repressed in the presence of glucose. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, an
Probab=24.61 E-value=1.3e+02 Score=19.30 Aligned_cols=40 Identities=20% Similarity=0.247 Sum_probs=26.9
Q ss_pred HHHHHHHHhhhccCCCcEEEEEec--cHHHHHHHHCCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDI--YNPLNSLIQNPPQYGF 87 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~--~~~~~~i~~nP~~yGf 87 (118)
..|...+.++++++|++++.+... ..+...+.+.=-..|+
T Consensus 13 ~~l~~~l~~~~~~~P~i~l~i~~~~~~~~~~~l~~~~~Dl~i 54 (196)
T cd08450 13 QWLPEVLPILREEHPDLDVELSSLFSPQLAEALMRGKLDVAF 54 (196)
T ss_pred hhHHHHHHHHHhhCCCcEEEEEecChHHHHHHHhcCCccEEE
Confidence 456777889999999998888754 4455555544334444
No 116
>cd08449 PBP2_XapR The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold. In Escherichia coli, XapR is a positive regulator for the expression of xapA gene, encoding xanthosine phosphorylase, and xapB gene, encoding a polypeptide similar to the nucleotide transport protein NupG. As an operon, the expression of both xapA and xapB is fully dependent on the presence of both XapR and the inducer xanthosine. Expression of the xapR is constitutive but not auto-regulated, unlike many other LysR family proteins. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their
Probab=24.34 E-value=1.2e+02 Score=19.49 Aligned_cols=40 Identities=13% Similarity=0.395 Sum_probs=27.1
Q ss_pred HHHHHHHHhhhccCCCcEEEEEec--cHHHHHHHHCCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDI--YNPLNSLIQNPPQYGF 87 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~--~~~~~~i~~nP~~yGf 87 (118)
..|...+.++++++|+.++.+... ......+.++--..|+
T Consensus 13 ~~l~~~l~~~~~~~P~i~i~~~~~~~~~~~~~l~~~~~Dl~i 54 (197)
T cd08449 13 GGLGPALRRFKRQYPNVTVRFHELSPEAQKAALLSKRIDLGF 54 (197)
T ss_pred hhHHHHHHHHHHHCCCeEEEEEECCHHHHHHHHhCCCccEEE
Confidence 456777889999999998888754 4455665554434444
No 117
>cd08435 PBP2_GbpR The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold. Galactose-binding protein regulator (GbpR), a member of the LysR family of bacterial transcriptional regulators, regulates the expression of chromosomal virulence gene chvE. The chvE gene is involved in the uptake of specific sugars, in chemotaxis to these sugars, and in the VirA-VirG two-component signal transduction system. In the presence of an inducing sugar such as L-arabinose, D-fucose, or D-galactose, GbpR activates chvE expression, while in the absence of an inducing sugar, GbpR represses expression. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a ma
Probab=24.33 E-value=1.4e+02 Score=19.07 Aligned_cols=41 Identities=12% Similarity=0.085 Sum_probs=27.3
Q ss_pred HHHHHHHHHhhhccCCCcEEEEEe--ccHHHHHHHHCCCCCCC
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYFD--IYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~D--~~~~~~~i~~nP~~yGf 87 (118)
...+...+.++++++|++++.+.. ...+...+.+.--..||
T Consensus 12 ~~~l~~~l~~~~~~~P~v~i~i~~~~~~~~~~~l~~~~~Dl~i 54 (201)
T cd08435 12 PVLLPPAIARLLARHPRLTVRVVEGTSDELLEGLRAGELDLAI 54 (201)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEEeCCHHHHHHHHHcCCccEEE
Confidence 345677888999999998888764 34455555555444444
No 118
>PRK05321 nicotinate phosphoribosyltransferase; Provisional
Probab=24.14 E-value=1.5e+02 Score=23.56 Aligned_cols=24 Identities=8% Similarity=0.153 Sum_probs=16.7
Q ss_pred HHHHhhhccCCCc-EEEEEeccHHH
Q 048377 52 SVVDSLSKEFPDS-RFVYFDIYNPL 75 (118)
Q Consensus 52 ~~l~~l~~~~p~~-~i~~~D~~~~~ 75 (118)
.++..+.+.+|+. .+.+.|+|+..
T Consensus 239 ~Af~~~~~~y~~~l~i~L~DTy~t~ 263 (400)
T PRK05321 239 AALEDWVREYRGDLGIALTDTIGMD 263 (400)
T ss_pred HHHHHHHHHcCCCCeEEEEecCCcH
Confidence 3556677777765 68888888753
No 119
>cd08452 PBP2_AlsR The C-terminal substrate binding domain of LysR-type trnascriptional regulator AlsR, which regulates acetoin formation under stationary phase growth conditions; contains the type 2 periplasmic binding fold. AlsR is responsible for activating the expression of the acetoin operon (alsSD) in response to inducing signals such as glucose and acetate. Like many other LysR family proteins, AlsR is transcribed divergently from the alsSD operon. The alsS gene encodes acetolactate synthase, an enzyme involved in the production of acetoin in cells of stationary-phase. AlsS catalyzes the conversion of two pyruvate molecules to acetolactate and carbon dioxide. Acetolactate is then converted to acetoin at low pH by acetolactate decarboxylase which encoded by the alsD gene. Acetoin is an important physiological metabolite excreted by many microorganisms grown on glucose or other fermentable carbon sources. This substrate-binding domain shows significant homology to the type 2 perip
Probab=24.02 E-value=1.3e+02 Score=19.62 Aligned_cols=40 Identities=20% Similarity=0.360 Sum_probs=26.6
Q ss_pred HHHHHHHHhhhccCCCcEEEEE--eccHHHHHHHHCCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYF--DIYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~--D~~~~~~~i~~nP~~yGf 87 (118)
..|...+.++++++|+.++.+. +.......+.+.--..|+
T Consensus 13 ~~l~~~l~~~~~~~P~v~i~i~~~~~~~~~~~l~~~~~Dl~i 54 (197)
T cd08452 13 EFLPPIVREYRKKFPSVKVELRELSSPDQVEELLKGRIDIGF 54 (197)
T ss_pred hHHHHHHHHHHHHCCCcEEEEEecChHHHHHHHHCCCccEEE
Confidence 5567778889999998887765 445566666554333443
No 120
>cd08475 PBP2_CrgA_like_6 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type transcriptional regulator (LTTR) CrgA-like 6. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own gene a
Probab=24.01 E-value=1.1e+02 Score=19.71 Aligned_cols=39 Identities=10% Similarity=0.075 Sum_probs=24.6
Q ss_pred HHHHHHHHhhhccCCCcEEEEEeccHHHHHHHHCCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~nP~~yGf 87 (118)
..|...+.++++++|++++-+....... +.+++=-.+||
T Consensus 14 ~~l~~~l~~~~~~~P~v~i~i~~~~~~~-~~l~~~~D~~i 52 (199)
T cd08475 14 LCVAPLLLELARRHPELELELSFSDRFV-DLIEEGIDLAV 52 (199)
T ss_pred hhHHHHHHHHHHHCCCeEEEEEeccchh-hHhhcCccEEE
Confidence 4567778889999999988875433333 33333244454
No 121
>PF03466 LysR_substrate: LysR substrate binding domain; InterPro: IPR005119 The structure of this domain is known and is similar to the periplasmic binding proteins []. This domain is found in members of the LysR family of prokaryotic transcriptional regulatory proteins IPR000847 from INTERPRO which share sequence similarities over approximately 280 residues including a putative helix-turn-helix DNA-binding motif at their N terminus.; PDB: 3ONM_B 3FZJ_J 3FXR_B 3N6T_A 3FXQ_A 3FXU_A 3N6U_A 2QSX_B 3HO7_B 1IZ1_B ....
Probab=23.88 E-value=1.2e+02 Score=19.88 Aligned_cols=42 Identities=12% Similarity=0.164 Sum_probs=29.6
Q ss_pred HHHHHHHHHhhhccCCCcEEEEEecc--HHHHHHHHCCCCCCCc
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYFDIY--NPLNSLIQNPPQYGFE 88 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~D~~--~~~~~i~~nP~~yGf~ 88 (118)
...|...+.++++++|+.++.+.... .+...+.+.--..+|.
T Consensus 18 ~~~l~~~l~~~~~~~P~i~i~~~~~~~~~~~~~l~~g~~Dl~i~ 61 (209)
T PF03466_consen 18 SSLLPPLLAEFRERHPNIRIEIREGDSDELIEALRSGELDLAIT 61 (209)
T ss_dssp HHTHHHHHHHHHHHSTTEEEEEEEESHHHHHHHHHTTSSSEEEE
T ss_pred HHHHHHHHHHHHHHCCCcEEEEEeccchhhhHHHhcccccEEEE
Confidence 45567788899999999887766555 6666676665555554
No 122
>TIGR01514 NAPRTase nicotinate phosphoribosyltransferase. This model represents nicotinate phosphoribosyltransferase, the first enzyme in the salvage pathway of NAD biosynthesis from nicontinate (niacin). Members are primary proteobacterial but also include yeasts and Methanosarcina acetivorans. A related family, apparently non-overlapping in species distribution, is TIGR01513. Members of that family differ in substantially in sequence and have a long C-terminal extension missing from this family, but are proposed also to act as nicotinate phosphoribosyltransferase (see model TIGR01513).
Probab=23.62 E-value=1.2e+02 Score=24.08 Aligned_cols=23 Identities=9% Similarity=0.287 Sum_probs=17.5
Q ss_pred HHHHHhhhccCCCc-EEEEEeccH
Q 048377 51 QSVVDSLSKEFPDS-RFVYFDIYN 73 (118)
Q Consensus 51 ~~~l~~l~~~~p~~-~i~~~D~~~ 73 (118)
..++..+.+.+|+. .|.+.|+|+
T Consensus 238 ~~Af~~~~~~y~~~~~i~L~DTy~ 261 (394)
T TIGR01514 238 KVALECWINEYDGDLGIALTDTFT 261 (394)
T ss_pred HHHHHHHHHHcCCCCcEEEEecCC
Confidence 35567777788875 899999994
No 123
>cd08440 PBP2_LTTR_like_4 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse funct
Probab=23.62 E-value=1.7e+02 Score=18.53 Aligned_cols=41 Identities=15% Similarity=0.293 Sum_probs=26.0
Q ss_pred HHHHHHHHHhhhccCCCcEEEEEe--ccHHHHHHHHCCCCCCC
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYFD--IYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~D--~~~~~~~i~~nP~~yGf 87 (118)
+..+...+.++.+++|++++.+.. ...+...+.+.=-..||
T Consensus 12 ~~~l~~~l~~~~~~~p~v~i~i~~~~~~~~~~~l~~g~~D~~i 54 (197)
T cd08440 12 ATLLPPVLAAFRRRHPGIRVRLRDVSAEQVIEAVRSGEVDFGI 54 (197)
T ss_pred hhHHHHHHHHHHHhCCCcEEEEEeCChHHHHHHHHcCCccEEE
Confidence 345667788888899999888764 34455555444333343
No 124
>PF06183 DinI: DinI-like family; InterPro: IPR010391 This family of short proteins includes DNA-damage-inducible protein I (DinI) and related proteins. The SOS response, a set of cellular phenomena exhibited by eubacteria, is initiated by various causes that include DNA damage-induced replication arrest, and is positively regulated by the co- protease activity of RecA. Escherichia coli DinI, a LexA-regulated SOS gene product, shuts off the initiation of the SOS response when overexpressed in vivo. Biochemical and genetic studies indicated that DinI physically interacts with RecA to inhibit its co-protease activity []. The structure of DinI is known [].; PDB: 1GHH_A.
Probab=23.47 E-value=1.4e+02 Score=17.35 Aligned_cols=21 Identities=14% Similarity=0.295 Sum_probs=12.1
Q ss_pred HHHHHHHhhhccCCCcEEEEE
Q 048377 49 KLQSVVDSLSKEFPDSRFVYF 69 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~ 69 (118)
...++..++...||++.+.+-
T Consensus 9 L~~EL~kRl~~~yPd~~v~Vr 29 (65)
T PF06183_consen 9 LESELTKRLHRQYPDAEVRVR 29 (65)
T ss_dssp HHHHHHHHHHHH-SS-EEEEE
T ss_pred HHHHHHHHHHHHCCCceEeee
Confidence 334455677778998877653
No 125
>PF05902 4_1_CTD: 4.1 protein C-terminal domain (CTD); InterPro: IPR008379 There is a unique sequence domain at the C terminus of all known 4.1 proteins, known as the C-terminal domain (CTD). Mammalian CTDs are associated with a growing number of protein-protein interactions, although such activities have yet to be associated with invertebrate CTDs. Mammalian CTDs are generally defined by sequence alignment as encoded by exons 18-21. Comparison of known vertebrate 4.1 proteins with invertebrate 4.1 proteins indicates that mammalian 4.1 exon 19 represents a vertebrate adaptation that extends the sequence of the CTD with a Ser/Thr-rich sequence. The CTD was first described as a 22/24 kDa domain by chymotryptic digestion of erythrocyte 4.1 (4.1R). CTD is thought to represent an independent folding structure which has gained function since the divergence of vertebrates from invertebrates [].; GO: 0003779 actin binding, 0005198 structural molecule activity, 0005856 cytoskeleton
Probab=23.23 E-value=1e+02 Score=20.25 Aligned_cols=26 Identities=12% Similarity=0.149 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHhhhccCCCcEEEEEe
Q 048377 45 IYNSKLQSVVDSLSKEFPDSRFVYFD 70 (118)
Q Consensus 45 ~~N~~L~~~l~~l~~~~p~~~i~~~D 70 (118)
-|.+.|.+++.+-+.++||+.+--+=
T Consensus 82 DhDqaLa~aI~eAk~q~Pdm~Vtkvv 107 (114)
T PF05902_consen 82 DHDQALAQAIKEAKEQHPDMSVTKVV 107 (114)
T ss_pred chHHHHHHHHHHHHHhCCCceEEEEE
Confidence 36678899999999999998875543
No 126
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=23.22 E-value=1.7e+02 Score=21.09 Aligned_cols=48 Identities=23% Similarity=0.531 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcc---CCC-cEEEEEeccHHHHHHHHCCCCCCCccC
Q 048377 37 DFANQAAQIYNSKLQSVVDSLSKE---FPD-SRFVYFDIYNPLNSLIQNPPQYGFEVA 90 (118)
Q Consensus 37 ~~~n~~~~~~N~~L~~~l~~l~~~---~p~-~~i~~~D~~~~~~~i~~nP~~yGf~~~ 90 (118)
+.+.+-.+.|..+|..+-+++++. +++ .-+++-|.|.+|.+ .||++..
T Consensus 121 ~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~h~~~~Y~~~------~~gl~~~ 172 (256)
T PF01297_consen 121 DYYEKNAEKYLKELDELDAEIKEKLAKLPGRPVVVYHDAFQYFAK------RYGLKVI 172 (256)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTSSGGEEEEEESTTHHHHH------HTT-EEE
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccCCeEEEEChHHHHHHH------hcCCcee
Confidence 444555677777777776666543 343 33667788888777 4788754
No 127
>cd08414 PBP2_LTTR_aromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold. This CD includes the C-terminal substrate binding domain of LTTRs involved in degradation of aromatic compounds, such as CbnR, BenM, CatM, ClcR and TfdR, as well as that of other transcriptional regulators clustered together in phylogenetic trees, including XapR, HcaR, MprR, IlvR, BudR, AlsR, LysR, and OccR. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they ca
Probab=23.09 E-value=1.3e+02 Score=19.21 Aligned_cols=40 Identities=18% Similarity=0.353 Sum_probs=27.8
Q ss_pred HHHHHHHHhhhccCCCcEEEEEec--cHHHHHHHHCCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDI--YNPLNSLIQNPPQYGF 87 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~--~~~~~~i~~nP~~yGf 87 (118)
..+...+.+|++++|++++.+... ..+...+.++=-..|+
T Consensus 13 ~~l~~~l~~~~~~~p~i~i~i~~~~~~~~~~~l~~~~~Dl~i 54 (197)
T cd08414 13 GLLPRLLRRFRARYPDVELELREMTTAEQLEALRAGRLDVGF 54 (197)
T ss_pred HHHHHHHHHHHHHCCCcEEEEecCChHHHHHHHHcCCccEEE
Confidence 456777889999999988887753 4566666655444444
No 128
>PRK05458 guanosine 5'-monophosphate oxidoreductase; Provisional
Probab=23.09 E-value=1.7e+02 Score=22.64 Aligned_cols=38 Identities=16% Similarity=0.294 Sum_probs=30.5
Q ss_pred hHHHHHHHHH--------------HHHHHHHHHHhhhccCCCcEEEEEeccH
Q 048377 36 SDFANQAAQI--------------YNSKLQSVVDSLSKEFPDSRFVYFDIYN 73 (118)
Q Consensus 36 ~~~~n~~~~~--------------~N~~L~~~l~~l~~~~p~~~i~~~D~~~ 73 (118)
.+++.+++++ |+..+.++++++++++|+.-++..|+-+
T Consensus 99 ~~~~~~Lv~ag~~~d~i~iD~a~gh~~~~~e~I~~ir~~~p~~~vi~g~V~t 150 (326)
T PRK05458 99 YDFVDQLAAEGLTPEYITIDIAHGHSDSVINMIQHIKKHLPETFVIAGNVGT 150 (326)
T ss_pred HHHHHHHHhcCCCCCEEEEECCCCchHHHHHHHHHHHhhCCCCeEEEEecCC
Confidence 4566666666 9999999999999999998888865543
No 129
>PF03421 YopJ: YopJ Serine/Threonine acetyltransferase; InterPro: IPR005083 The infection of mammalian host cells by Yersinia sp. causes a rapid induction of the mitogen-activated protein kinase (MAPK; including the ERK, JNK and p38 pathways) and nuclear factor kappaB (NF-kappaB) signalling pathways that would typically result in cytokine production and initiation of the innate immune response. However, these pathways are rapidly inhibited promoting apoptosis. YopJ has been shown to block phosphorylation of active site residues []. It has also been shown that YopJ acetyltransferase is activated by eukaryotic host cell inositol hexakisphosphate []. Serine and threonine acetylation is yet another complication to the control of signalling pathways and may be a may be a widespread mode of biochemical regulation of endogenous processes in eukaryotic cells. It has been shown that YopJ is a serine/threonine acetyltransferase []. It acetylates the serine and threonine residues in the phosphorylation sites of MAPK kinases and nuclear factor kappaB, preventing their activation by phosphorylation and the inhibition of these signalling pathways []. This entry contains YopJ and related proteins.
Probab=23.04 E-value=1.4e+02 Score=20.80 Aligned_cols=33 Identities=18% Similarity=0.364 Sum_probs=26.4
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccHHHHHHHHC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQN 81 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~n 81 (118)
.|..+++..+.++|+.++.+++.-.-+.+-+..
T Consensus 32 ~lp~lv~~~N~r~P~LnL~~~~~~~~~~~~i~~ 64 (177)
T PF03421_consen 32 MLPALVAAENARYPGLNLHFFDSPEDFVQAIKE 64 (177)
T ss_pred HHHHHHHHHhhcCCCCceEEcCCcHHHHHHHHh
Confidence 345667778889999999999998888877744
No 130
>cd08446 PBP2_Chlorocatechol The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold. This CD includes the substrate binding domain of LysR-type regulators CbnR, ClcR and TfdR, which are involved in the regulation of chlorocatechol breakdown. The chlorocatechol-degradative pathway is often found in bacteria that can use chlorinated aromatic compounds as carbon and energy sources. CbnR is found in the 3-chlorobenzoate degradative bacterium Ralstonia eutropha NH9 and forms a tetramer. CbnR activates the expression of the cbnABCD genes, which are responsible for the degradation of chlorocatechol converted from 3-chlorobenzoate and are transcribed divergently from cbnR. In soil bacterium Pseudomonas putida, the 3-chlorocatechol-degradative pathway is encoded by clcABD operon, which requires the divergently transcribed clcR for activation. TfdR is involved in the activation of tf
Probab=22.96 E-value=1.4e+02 Score=19.28 Aligned_cols=39 Identities=13% Similarity=0.241 Sum_probs=26.0
Q ss_pred HHHHHHHhhhccCCCcEEEEEe--ccHHHHHHHHCCCCCCC
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFD--IYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D--~~~~~~~i~~nP~~yGf 87 (118)
.|...+.++.+++|++++.+.. .......+.+.--..++
T Consensus 15 ~l~~~i~~~~~~~P~v~l~i~~~~~~~~~~~l~~~~~Dl~i 55 (198)
T cd08446 15 TVPRLLRAFLTARPDVTVSLHNMTKDEQIEALRAGRIHIGF 55 (198)
T ss_pred HHHHHHHHHHHHCCCeEEEEeeCCHHHHHHHHHCCCccEEE
Confidence 5677788899899998887664 33455555555444444
No 131
>cd08456 PBP2_LysR The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold. LysR, the transcriptional activator of lysA encoding diaminopimelate decarboxylase, catalyses the decarboxylation of diaminopimelate to produce lysine. The LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational
Probab=22.53 E-value=1.8e+02 Score=18.64 Aligned_cols=40 Identities=15% Similarity=0.138 Sum_probs=26.5
Q ss_pred HHHHHHHHhhhccCCCcEEEEEecc--HHHHHHHHCCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDIY--NPLNSLIQNPPQYGF 87 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~~--~~~~~i~~nP~~yGf 87 (118)
..+...+.++.+++|+.++.+.... .+...+.+.--..|+
T Consensus 13 ~~l~~~l~~~~~~~P~i~~~i~~~~~~~~~~~l~~g~~Dl~i 54 (196)
T cd08456 13 SFLPRAIKAFLQRHPDVTISIHTRDSPTVEQWLSAQQCDLGL 54 (196)
T ss_pred hhHHHHHHHHHHHCCCcEEEEEeCCHHHHHHHHHcCCccEEE
Confidence 4567788889999999888877543 344555554444444
No 132
>PRK10916 ADP-heptose:LPS heptosyltransferase II; Provisional
Probab=22.35 E-value=1.1e+02 Score=23.02 Aligned_cols=27 Identities=11% Similarity=0.173 Sum_probs=14.6
Q ss_pred HHHhhhccCCCcEEEEEeccHHHHHHHH
Q 048377 53 VVDSLSKEFPDSRFVYFDIYNPLNSLIQ 80 (118)
Q Consensus 53 ~l~~l~~~~p~~~i~~~D~~~~~~~i~~ 80 (118)
++..|++.+|+++|.++ +.....++++
T Consensus 20 ~l~~Lk~~~P~a~I~~l-~~~~~~~l~~ 46 (348)
T PRK10916 20 LYRTLKARYPQAIIDVM-APAWCRPLLS 46 (348)
T ss_pred HHHHHHHHCCCCeEEEE-echhhHHHHh
Confidence 35556666666666655 2344444443
No 133
>cd08419 PBP2_CbbR_RubisCO_like The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold. CbbR, a LysR-type transcriptional regulator, is required to activate expression of RubisCO, one of two unique enzymes in the Calvin-Benson-Bassham (CBB) cycle pathway. All plants, cyanobacteria, and many autotrophic bacteria use the CBB cycle to fix carbon dioxide. Thus, this cycle plays an essential role in assimilating CO2 into organic carbon on earth. The key CBB cycle enzyme is ribulose 1,5-bisphosphate carboxylase/oxygenase (RubisCO), which catalyzes the actual CO2 fixation reaction. The CO2 concentration affects the expression of RubisCO genes. It has also shown that NADPH enhances the DNA-binding ability of the CbbR. RubisCO is composed of eight large (CbbL) and eight small subunits (CbbS). The topology of this substrate-binding domain is most similar to t
Probab=22.27 E-value=1.2e+02 Score=19.33 Aligned_cols=40 Identities=10% Similarity=0.092 Sum_probs=26.4
Q ss_pred HHHHHHHHhhhccCCCcEEEEEe--ccHHHHHHHHCCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFD--IYNPLNSLIQNPPQYGF 87 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D--~~~~~~~i~~nP~~yGf 87 (118)
..|...+.++.+++|+.++.+.. ...+...+.+.--..++
T Consensus 12 ~~l~~~l~~~~~~~P~i~l~i~~~~~~~~~~~l~~g~~Dl~i 53 (197)
T cd08419 12 YFAPRLLGAFCRRHPGVEVSLRVGNREQVLERLADNEDDLAI 53 (197)
T ss_pred hHhhHHHHHHHHHCCCceEEEEECCHHHHHHHHhcCCccEEE
Confidence 45777888999999998877664 33445555554444444
No 134
>PF08965 DUF1870: Domain of unknown function (DUF1870); InterPro: IPR015060 This family consist of hypothetical bacterial proteins. ; PDB: 1S4K_A.
Probab=21.98 E-value=2.1e+02 Score=18.86 Aligned_cols=45 Identities=7% Similarity=0.222 Sum_probs=29.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHHH
Q 048377 35 CSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLI 79 (118)
Q Consensus 35 c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~ 79 (118)
-.+.+.++...-.+.+...++++.......++.|++.++.|..+.
T Consensus 47 Vie~l~~m~~~R~~~i~ai~~~i~~~ign~t~ryy~~~~~f~~~y 91 (118)
T PF08965_consen 47 VIEELLEMKSQRKQRINAIIDKINNRIGNNTMRYYPDLNAFLAVY 91 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCCS-S--EEE--SSHHHHHTTS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCceeeecCCHHHHHhhc
Confidence 455667777777778888888887655557788888777776643
No 135
>COG1031 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]
Probab=21.95 E-value=84 Score=25.87 Aligned_cols=60 Identities=18% Similarity=0.218 Sum_probs=29.1
Q ss_pred hhhcCCcEEEEeCCCccCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccH
Q 048377 2 LYGVGARRIGVLSLPPIGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYN 73 (118)
Q Consensus 2 Ly~~GAr~f~v~~lpplgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~ 73 (118)
||+.|+|+|=+ |+-|-+.+....+.++-....|- ..|..+....+..-|+.+.+++|--+
T Consensus 227 LY~~GvrhFRl------GRQ~difsy~~~~~g~e~P~PnP------ealekL~~Gir~~AP~l~tLHiDNaN 286 (560)
T COG1031 227 LYRAGVRHFRL------GRQADIFSYGADDNGGEVPRPNP------EALEKLFRGIRNVAPNLKTLHIDNAN 286 (560)
T ss_pred HHHhccceeee------ccccceeeecccccCCCCCCCCH------HHHHHHHHHHHhhCCCCeeeeecCCC
Confidence 89999999954 33332222221111110122221 12233333444445888888888543
No 136
>cd08460 PBP2_DntR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=21.92 E-value=1.8e+02 Score=18.93 Aligned_cols=41 Identities=10% Similarity=0.153 Sum_probs=27.9
Q ss_pred HHHHHHHHhhhccCCCcEEEEEec-cHHHHHHHHCCCCCCCc
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDI-YNPLNSLIQNPPQYGFE 88 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~-~~~~~~i~~nP~~yGf~ 88 (118)
..|...+.++++++|++++-+... ......+.+.--..||.
T Consensus 13 ~~l~~~l~~~~~~~P~v~v~l~~~~~~~~~~l~~g~~D~~i~ 54 (200)
T cd08460 13 AFGPALLAAVAAEAPGVRLRFVPESDKDVDALREGRIDLEIG 54 (200)
T ss_pred HHHHHHHHHHHHHCCCCEEEEecCchhHHHHHHCCCccEEEe
Confidence 346778889999999998888643 25555665555555553
No 137
>cd08427 PBP2_LTTR_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=21.47 E-value=2.1e+02 Score=18.16 Aligned_cols=42 Identities=12% Similarity=0.080 Sum_probs=27.8
Q ss_pred HHHHHHHHHhhhccCCCcEEEEEe--ccHHHHHHHHCCCCCCCc
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYFD--IYNPLNSLIQNPPQYGFE 88 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~D--~~~~~~~i~~nP~~yGf~ 88 (118)
...|...+.++.+++|++++.+.. .......+.+.--..|+.
T Consensus 12 ~~~l~~~l~~~~~~~P~i~l~~~~~~~~~~~~~l~~g~~Dl~i~ 55 (195)
T cd08427 12 TGLLPRALARLRRRHPDLEVHIVPGLSAELLARVDAGELDAAIV 55 (195)
T ss_pred HHHhHHHHHHHHHHCCCceEEEEeCCcHHHHHHHHCCCCCEEEE
Confidence 345677888999999998887764 444555555554445553
No 138
>cd08461 PBP2_DntR_like_3 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=21.34 E-value=1.8e+02 Score=18.66 Aligned_cols=41 Identities=20% Similarity=0.248 Sum_probs=27.4
Q ss_pred HHHHHHHHHhhhccCCCcEEEEEec--cHHHHHHHHCCCCCCC
Q 048377 47 NSKLQSVVDSLSKEFPDSRFVYFDI--YNPLNSLIQNPPQYGF 87 (118)
Q Consensus 47 N~~L~~~l~~l~~~~p~~~i~~~D~--~~~~~~i~~nP~~yGf 87 (118)
+..+...+.++++++|++++-+... ..+...+.+.=-..|+
T Consensus 12 ~~~l~~~l~~f~~~~P~v~i~i~~~~~~~~~~~l~~~~~Di~i 54 (198)
T cd08461 12 KAILPPLLAALRQEAPGVRVAIRDLESDNLEAQLERGEVDLAL 54 (198)
T ss_pred HHHhHHHHHHHHHHCCCcEEEEeeCCcccHHHHHhcCCCcEEE
Confidence 3556777889999999998888643 3455555554334454
No 139
>TIGR00127 nadp_idh_euk isocitrate dehydrogenase, NADP-dependent, eukaryotic type. This model does not discriminate cytosolic, mitochondrial, and chloroplast proteins. However, the model starts very near the amino end of the cytosolic form; the finding of additional amino-terminal sequence may indicate a transit peptide.
Probab=21.30 E-value=2.1e+02 Score=22.93 Aligned_cols=40 Identities=5% Similarity=0.221 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhhh-ccCC------CcEEEEEeccHHHHHHHHCCCCC
Q 048377 46 YNSKLQSVVDSLS-KEFP------DSRFVYFDIYNPLNSLIQNPPQY 85 (118)
Q Consensus 46 ~N~~L~~~l~~l~-~~~p------~~~i~~~D~~~~~~~i~~nP~~y 85 (118)
+....++...+.. ++|| ++++-+.=+-+....++.+|.+|
T Consensus 218 ~dglf~~~~~eva~~eYp~~~~~~~I~~~~~lVDa~~m~lv~~P~~f 264 (409)
T TIGR00127 218 YDGRFKDIFQEVYEAQYKSKFEALGIWYEHRLIDDMVAQALKSEGGF 264 (409)
T ss_pred hhHHHHHHHHHHHHHhCcccccCCCEEEEEeeHHHHHHHHhhCCCCc
Confidence 3444556666664 5787 88887777778889999999987
No 140
>cd08439 PBP2_LrhA_like The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold. This CD represents the LrhA subfamily of LysR-like bacterial transcriptional regulators, including LrhA, HexA, PecT, and DgdR. LrhA is involved in control of the transcription of flagellar, motility, and chemotaxis genes by regulating the synthesis and concentration of FlhD(2)C(2), the master regulator for the expression of flagellar and chemotaxis genes. The LrhA protein has strong homology to HexA and PecT from plant pathogenic bacteria, in which HexA and PecT act as repressors of motility and of virulence factors, such as exoenzymes required for lytic reactions. DgdR also shares similar characteristics to those of LrhA, HexA and PecT. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a vari
Probab=21.29 E-value=1.8e+02 Score=18.61 Aligned_cols=41 Identities=7% Similarity=0.072 Sum_probs=27.5
Q ss_pred HHHHHHHHhhhccCCCcEEEEEec--cHHHHHHHHCCCCCCCc
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDI--YNPLNSLIQNPPQYGFE 88 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~--~~~~~~i~~nP~~yGf~ 88 (118)
..+...+.++++++|++++-+... ...+.++.+.--..|+.
T Consensus 13 ~~l~~~l~~~~~~~P~v~i~~~~~~~~~~~~~l~~~~~Dl~i~ 55 (185)
T cd08439 13 TILPFLLNRFASVYPRLAIEVVCKRTPRLMEMLERGEVDLALI 55 (185)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEECChHHHHHHHHCCCCcEEEE
Confidence 346677888999999988887764 34556665554445553
No 141
>TIGR02841 spore_YyaC putative sporulation protein YyaC. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, also called YyaC, is a member of that panel and is otherwise uncharacterized. The second round of PSI-BLAST shows many similarities to the germination protease GPR, which is found in exactly the same set of organisms and has a known role in the sporulation/germination process.
Probab=21.22 E-value=1.3e+02 Score=20.51 Aligned_cols=24 Identities=17% Similarity=0.371 Sum_probs=19.6
Q ss_pred HHHHHHHHhhhccCCCcEEEEEec
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDI 71 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~ 71 (118)
..|++.++++.++||+.-|+-+|+
T Consensus 47 ~NL~e~l~~I~~~~~~~~iIAIDA 70 (140)
T TIGR02841 47 KNLEEKLKIIKKKHPNPFIIAIDA 70 (140)
T ss_pred ccHHHHHHHHHHhCCCCeEEEEEC
Confidence 347778888888899998888886
No 142
>PRK13556 azoreductase; Provisional
Probab=21.13 E-value=1.3e+02 Score=21.00 Aligned_cols=21 Identities=24% Similarity=0.540 Sum_probs=16.2
Q ss_pred HHHhhhccCCCcEEEEEeccH
Q 048377 53 VVDSLSKEFPDSRFVYFDIYN 73 (118)
Q Consensus 53 ~l~~l~~~~p~~~i~~~D~~~ 73 (118)
.++.+++.+|+.++...|.|.
T Consensus 26 ~~~~~~~~~~~~~V~~~DL~~ 46 (208)
T PRK13556 26 FLASYKEAHPNDTVVELDLYK 46 (208)
T ss_pred HHHHHHHhCCCCeEEEEeCCC
Confidence 455666677899999999884
No 143
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=21.07 E-value=2.1e+02 Score=20.90 Aligned_cols=49 Identities=10% Similarity=0.264 Sum_probs=29.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhhcc---CCCcE-EEEEeccHHHHHHHHCCCCCCCccC
Q 048377 36 SDFANQAAQIYNSKLQSVVDSLSKE---FPDSR-FVYFDIYNPLNSLIQNPPQYGFEVA 90 (118)
Q Consensus 36 ~~~~n~~~~~~N~~L~~~l~~l~~~---~p~~~-i~~~D~~~~~~~i~~nP~~yGf~~~ 90 (118)
.+.+.+-.+.|.++|.++-++++++ .++.. +++-|.|.+|.+ .|||+..
T Consensus 140 ~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af~Y~~~------~ygl~~~ 192 (266)
T cd01018 140 ATYYQANLDALLAELDALDSEIRTILSKLKQRAFMVYHPAWGYFAR------DYGLTQI 192 (266)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCeEEEECchhHHHHH------HcCCEEE
Confidence 3445556677777777766655543 34433 455566666665 5899864
No 144
>cd08469 PBP2_PnbR The C-terminal substrate binding domain of LysR-type transcriptional regulator PnbR, which is involved in regulating the pnb genes encoding enzymes for 4-nitrobenzoate catabolism, contains the type 2 periplasmic binding fold. PnbR is the regulator of one or both of the two pnb genes that encoding enzymes for 4-nitrobenzoate catabolism. In Pseudomonas putida strain, pnbA encodes a 4-nitrobenzoate reductase, which is responsible for catalyzing the direct reduction of 4-nitrobenzoate to 4-hydroxylaminobenzoate, and pnbB encodes a 4-hydroxylaminobenzoate lyase, which catalyzes the conversion of 4-hydroxylaminobenzoate to 3, 4-dihydroxybenzoic acid and ammonium. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft bet
Probab=21.06 E-value=2.4e+02 Score=18.67 Aligned_cols=41 Identities=15% Similarity=0.063 Sum_probs=27.6
Q ss_pred HHHHHHHHhhhccCCCcEEEEEecc--HHHHHHHHCCCCCCCc
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDIY--NPLNSLIQNPPQYGFE 88 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~~--~~~~~i~~nP~~yGf~ 88 (118)
..|...+.++.+++|++++.+.... .+...+.+.--..||.
T Consensus 13 ~~l~~~l~~f~~~~P~v~l~i~~~~~~~~~~~l~~g~~Di~i~ 55 (221)
T cd08469 13 VLLPALVRRLETEAPGIDLRIRPVTRLDLAEQLDLGRIDLVIG 55 (221)
T ss_pred HHHHHHHHHHHHHCCCcEEEEeeCChhhHHHHHHCCCccEEEe
Confidence 4567778889999999888776443 3666666554455553
No 145
>COG1488 PncB Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]
Probab=21.00 E-value=1.6e+02 Score=23.50 Aligned_cols=26 Identities=8% Similarity=0.195 Sum_probs=15.4
Q ss_pred HHHHHhhhccCCCcEEEEEeccHHHH
Q 048377 51 QSVVDSLSKEFPDSRFVYFDIYNPLN 76 (118)
Q Consensus 51 ~~~l~~l~~~~p~~~i~~~D~~~~~~ 76 (118)
..+.+.+.+++|+-....+|++....
T Consensus 221 ~~A~~~~~~~~~~~~~~i~ltD~~~~ 246 (405)
T COG1488 221 VAAFRAWAETYPGDKLLIALTDTYLD 246 (405)
T ss_pred HHHHHHHHHHcCCCCcEEEEEeecch
Confidence 44556666677765555555555555
No 146
>cd08442 PBP2_YofA_SoxR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold. YofA is a LysR-like transcriptional regulator of cell growth in Bacillus subtillis. YofA controls cell viability and the formation of constrictions during cell division. YofaA positively regulates expression of the cell division gene ftsW, and thus is essential for cell viability during stationary-phase growth of Bacillus substilis. YofA shows significant homology to SoxR from Arthrobacter sp. TE1826. SoxR is a negative regulator for the sarcosine oxidase gene soxA. Sarcosine oxidase catalyzes the oxidative demethylation of sarcosine, which is involved in the metabolism of creatine and choline. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides
Probab=20.81 E-value=1.7e+02 Score=18.61 Aligned_cols=41 Identities=7% Similarity=0.162 Sum_probs=27.4
Q ss_pred HHHHHHHHhhhccCCCcEEEEEec--cHHHHHHHHCCCCCCCc
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDI--YNPLNSLIQNPPQYGFE 88 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~--~~~~~~i~~nP~~yGf~ 88 (118)
..|...+.++.+++|+.++.+... ..+...+.+.-...||.
T Consensus 13 ~~l~~~l~~~~~~~P~i~l~i~~~~~~~~~~~l~~g~~Dl~i~ 55 (193)
T cd08442 13 VRLPPLLAAYHARYPKVDLSLSTGTTGALIQAVLEGRLDGAFV 55 (193)
T ss_pred hhhHHHHHHHHHHCCCceEEEEeCCcHHHHHHHHCCCccEEEE
Confidence 346677888999999988877653 34555555554455553
No 147
>cd08587 PI-PLCXDc_like Catalytic domain of phosphatidylinositol-specific phospholipase C X domain containing and similar proteins. This family corresponds to the catalytic domain present in phosphatidylinositol-specific phospholipase C X domain containing proteins (PI-PLCXD) which are bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13) sequence homologs mainly found in eukaryota. The typical eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11) have a multidomain organization that consists of a PLC catalytic core domain, and various regulatory domains. The catalytic core domain is assembled from two highly conserved X- and Y-regions split by a divergent linker sequence. In contrast, eukaryotic PI-PLCXDs and their bacterial homologs contain a single TIM-barrel type catalytic domain, X domain, which is more closely related to that of bacterial PI-PLCs. Although the biological function of eukaryotic PI-PLCXDs still remains unclear, it may be
Probab=20.79 E-value=3e+02 Score=20.33 Aligned_cols=38 Identities=11% Similarity=0.017 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHH
Q 048377 37 DFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNP 74 (118)
Q Consensus 37 ~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~ 74 (118)
..+..++...|..|..-+.+........+|+..|+...
T Consensus 240 ~~l~~~a~~~n~~l~~wl~~~~~~~~~~NII~~DFv~~ 277 (288)
T cd08587 240 GLLKKLALRANPALLEWLREQLPGQDGPNIILNDFVDL 277 (288)
T ss_pred hHHHHHHHHHHHHHHHHHHhcCCCCCcceEEEEecCCc
Confidence 44667888889999888877665456799999999875
No 148
>PRK11274 glcF glycolate oxidase iron-sulfur subunit; Provisional
Probab=20.64 E-value=2.8e+02 Score=21.46 Aligned_cols=35 Identities=17% Similarity=0.545 Sum_probs=21.6
Q ss_pred CcEEEEEe---------ccHHHHHHHHCCCCCCCccC--Ccceeccc
Q 048377 63 DSRFVYFD---------IYNPLNSLIQNPPQYGFEVA--DKGCCGTG 98 (118)
Q Consensus 63 ~~~i~~~D---------~~~~~~~i~~nP~~yGf~~~--~~aCCg~g 98 (118)
+.++.+.| .+....++++.. ...+.+. .+-|||.|
T Consensus 300 ~~~v~~HdpChl~~~~~~~~~~r~ll~~~-g~~~~e~~~~~~CCG~g 345 (407)
T PRK11274 300 DRRVAFHPPCTLQHGQKLRGKVERLLTRL-GFELTLVADSHLCCGSA 345 (407)
T ss_pred CCeEEEeCcchhhcccCcHhhHHHHHHhC-CCeEEECCCCCCCcCcc
Confidence 35776644 567888888764 2233443 34599974
No 149
>PF02608 Bmp: Basic membrane protein; InterPro: IPR003760 This is a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. All of these proteins are outer membrane proteins and are thus antigenic in nature when possessed by the pathogenic members of the family []. The Bacillus subtilis degR, a positive regulator of the production of degradative enzymes, is also a member of this group [].; GO: 0005886 plasma membrane; PDB: 2HQB_A 3S99_A 2FQW_A 2FQY_A 2FQX_A.
Probab=20.56 E-value=85 Score=23.46 Aligned_cols=25 Identities=28% Similarity=0.691 Sum_probs=16.3
Q ss_pred HHHHHHHhhhccCCCcEEEEEeccH
Q 048377 49 KLQSVVDSLSKEFPDSRFVYFDIYN 73 (118)
Q Consensus 49 ~L~~~l~~l~~~~p~~~i~~~D~~~ 73 (118)
.+.+.+.++.+++|+.+|+++|.+.
T Consensus 71 ~~~~~~~~vA~~yPd~~F~~~d~~~ 95 (306)
T PF02608_consen 71 EYSDALQEVAKEYPDTKFIIIDGYI 95 (306)
T ss_dssp GGHHHHHHHHTC-TTSEEEEESS--
T ss_pred HHHHHHHHHHHHCCCCEEEEEecCc
Confidence 4455566777888888888888654
No 150
>cd03026 AhpF_NTD_C TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then reduces hydrogen peroxide and organic hydroperoxides. AhpF contains an NTD containing two contiguous TRX-fold subdomains similar to Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). It also contains a catalytic core similar to TRX reductase containing FAD and NADH binding domains with an active site disulfide. The proposed mechanism of action of AhpF is similar to a TRX/TRX reductase system. The flow of reducing equivalents goes from NADH - catalytic core of AhpF - NTD of AhpF - AhpC - peroxide substrates. The catalytic CXXC motif of the NTD of AhpF is contained in its C-terminal TRX subdomain.
Probab=20.54 E-value=1.5e+02 Score=17.86 Aligned_cols=23 Identities=9% Similarity=-0.042 Sum_probs=16.4
Q ss_pred HHHHhhhccCCCcEEEEEeccHH
Q 048377 52 SVVDSLSKEFPDSRFVYFDIYNP 74 (118)
Q Consensus 52 ~~l~~l~~~~p~~~i~~~D~~~~ 74 (118)
.++.++..++|+.++..+|....
T Consensus 32 ~~~~~l~~~~~~i~~~~vd~~~~ 54 (89)
T cd03026 32 QALNLMAVLNPNIEHEMIDGALF 54 (89)
T ss_pred HHHHHHHHHCCCceEEEEEhHhC
Confidence 34455556678899999997655
No 151
>cd08447 PBP2_LTTR_aromatics_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type regulator similar to CbnR which is involved in the regulation of chlorocatechol breakdown. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Ve
Probab=20.53 E-value=1.8e+02 Score=18.67 Aligned_cols=43 Identities=16% Similarity=0.182 Sum_probs=28.7
Q ss_pred HHHHHHHHHHhhhccCCCcEEEEE--eccHHHHHHHHCCCCCCCc
Q 048377 46 YNSKLQSVVDSLSKEFPDSRFVYF--DIYNPLNSLIQNPPQYGFE 88 (118)
Q Consensus 46 ~N~~L~~~l~~l~~~~p~~~i~~~--D~~~~~~~i~~nP~~yGf~ 88 (118)
....|...+.++.+++|++++.+. ........+.+.....|+.
T Consensus 11 ~~~~l~~~l~~~~~~~P~i~v~~~~~~~~~~~~~l~~g~~D~~i~ 55 (198)
T cd08447 11 AYSFLPRLLAAARAALPDVDLVLREMVTTDQIEALESGRIDLGLL 55 (198)
T ss_pred HHHHHHHHHHHHHHHCCCeEEEEEeCCHHHHHHHHHcCCceEEEe
Confidence 345577788899999999888765 3445566665555555553
No 152
>PF00490 ALAD: Delta-aminolevulinic acid dehydratase; InterPro: IPR001731 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents porphobilinogen (PBG) synthase (PBGS, or 5-aminoaevulinic acid dehydratase, or ALAD, 4.2.1.24 from EC), which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses a Knorr-type condensation reaction between two molecules of ALA to generate porphobilinogen, the pyrrolic building block used in later steps []. The structure of the enzyme is based on a TIM barrel topology made up of eight identical subunits, where each subunit binds to a metal ion that is essential for activity, usually zinc (in yeast, mammals and certain bacteria) or magnesium (in plants and other bacteria). A lysine has been implicated in the catalytic mechanism []. The lack of PBGS enzyme causes a rare porphyric disorder known as ALAD porphyria, which appears to involve conformational changes in the enzyme [.; GO: 0004655 porphobilinogen synthase activity, 0046872 metal ion binding, 0033014 tetrapyrrole biosynthetic process; PDB: 2C1H_A 1W1Z_A 1GZG_B 1W5O_B 1W5Q_B 2C18_A 1B4K_A 2C19_B 1W56_B 2C13_B ....
Probab=20.53 E-value=1.1e+02 Score=23.79 Aligned_cols=53 Identities=17% Similarity=0.211 Sum_probs=28.3
Q ss_pred hhhcCCcEEEEeCCCc-cCchhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhhhccCCCcEEEEEec
Q 048377 2 LYGVGARRIGVLSLPP-IGCVPVQRTLNGGIARGCSDFANQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDI 71 (118)
Q Consensus 2 Ly~~GAr~f~v~~lpp-lgc~P~~~~~~~~~~~~c~~~~n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~ 71 (118)
+.++|.+.|+++++.+ -...+.-. +.. .=|..+...+..+++.+|+. +++.|+
T Consensus 66 ~~~~GI~~v~lFgvi~~~~Kd~~gs-----------~a~-----~~~g~v~~air~iK~~~pdl-~vi~Dv 119 (324)
T PF00490_consen 66 AVDLGIRAVILFGVIDPSKKDEEGS-----------EAY-----NPDGLVQRAIRAIKKAFPDL-LVITDV 119 (324)
T ss_dssp HHHTT--EEEEEEE-SCSC-BSS-G-----------GGG-----STTSHHHHHHHHHHHHSTTS-EEEEEE
T ss_pred HHHCCCCEEEEEeeCCcccCCcchh-----------ccc-----CCCChHHHHHHHHHHhCCCc-EEEEec
Confidence 6789999999998832 11211111 000 11234566778888888985 455564
No 153
>PF06866 DUF1256: Protein of unknown function (DUF1256); InterPro: IPR009665 This family consists of several uncharacterised bacterial proteins, which seem to be specific to the orders Clostridia and Bacillales. Family members are typically around 180 residues in length. The function of this family is unknown.
Probab=20.39 E-value=1.3e+02 Score=20.95 Aligned_cols=24 Identities=17% Similarity=0.415 Sum_probs=20.2
Q ss_pred HHHHHHHHhhhccCCCcEEEEEec
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFDI 71 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D~ 71 (118)
..|++.++++.++||+.-|+-+|+
T Consensus 71 ~NL~e~l~~I~~~~~~~~IIAIDA 94 (163)
T PF06866_consen 71 LNLEETLNEIKKKHPNPFIIAIDA 94 (163)
T ss_pred hhHHHHHHHHHHHCCCCeEEEEEC
Confidence 357788889998999999998886
No 154
>cd08463 PBP2_DntR_like_4 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=20.31 E-value=1.9e+02 Score=19.14 Aligned_cols=40 Identities=15% Similarity=0.177 Sum_probs=28.0
Q ss_pred HHHHHHHHhhhccCCCcEEEEEe--c-cHHHHHHHHCCCCCCC
Q 048377 48 SKLQSVVDSLSKEFPDSRFVYFD--I-YNPLNSLIQNPPQYGF 87 (118)
Q Consensus 48 ~~L~~~l~~l~~~~p~~~i~~~D--~-~~~~~~i~~nP~~yGf 87 (118)
..+...+.++.+++|++++-+.+ . ..+...+.+.--..||
T Consensus 13 ~~~~~~l~~~~~~~P~~~v~~~~~~~~~~l~~~L~~g~lDl~i 55 (203)
T cd08463 13 LFLPELVARFRREAPGARLEIHPLGPDFDYERALASGELDLVI 55 (203)
T ss_pred HHhHHHHHHHHHHCCCCEEEEEeCCcchhHHHHHhcCCeeEEE
Confidence 46777889999999999999885 2 3555555554444555
No 155
>PHA03256 BDLF3; Provisional
Probab=20.16 E-value=1.1e+02 Score=18.44 Aligned_cols=37 Identities=5% Similarity=-0.116 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhccCCC-cEEEEEeccH
Q 048377 37 DFANQAAQIYNSKLQSVVDSLSKEFPD-SRFVYFDIYN 73 (118)
Q Consensus 37 ~~~n~~~~~~N~~L~~~l~~l~~~~p~-~~i~~~D~~~ 73 (118)
++..+....||+-|...+++......+ ...+.-+...
T Consensus 20 ~df~~~~~ff~rpLp~lVaevska~~~~~elv~S~~Q~ 57 (77)
T PHA03256 20 REFGELLSWDPTDLPRTVARVYVAVGGLFEQEVSEVQR 57 (77)
T ss_pred HHHHHHHHHcCCcHHHHHHHHHHHhccceeeeechhhh
Confidence 456788999999999999999887776 5555544443
No 156
>cd01821 Rhamnogalacturan_acetylesterase_like Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are highly branched regions in pectic polysaccharides, consisting of repeating -(1,2)-L-Rha-(1,4)-D-GalUA disaccharide units, with many rhamnose residues substituted by neutral oligosaccharides such as arabinans, galactans and arabinogalactans. Extracellular enzymes participating in the degradation of plant cell wall polymers, such as Rhamnogalacturonan acetylesterase, would typically be found in saprophytic and plant pathogenic fungi and bacteria.
Probab=20.01 E-value=1.1e+02 Score=20.76 Aligned_cols=34 Identities=9% Similarity=0.161 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHhhhccCCCcEEEEEeccHHHHHHHH
Q 048377 40 NQAAQIYNSKLQSVVDSLSKEFPDSRFVYFDIYNPLNSLIQ 80 (118)
Q Consensus 40 n~~~~~~N~~L~~~l~~l~~~~p~~~i~~~D~~~~~~~i~~ 80 (118)
+.....||+.+++..++. .+.++|.+..+.+.++
T Consensus 128 ~~~~~~~~~~~~~~a~~~-------~~~~vD~~~~~~~~~~ 161 (198)
T cd01821 128 EDTLGDYPAAMRELAAEE-------GVPLIDLNAASRALYE 161 (198)
T ss_pred cccchhHHHHHHHHHHHh-------CCCEEecHHHHHHHHH
Confidence 344567888887766654 3778999999887655
Done!